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Omenn’?, Matthias Kretzler’:2, Yuanfang Guan’:23\n1 Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, United States of America, 2 Department of Internal Medicine;University of Michigan, Ann\nArbor, Michigan, United States of America, 3 Department of Electrical Engineéring and Computer Science, University.of Michigan, Ann Arbor, Michigan, United)States of America" + }, + { + "id": 77998, + "strid": "ff5cc25a-144d-4c50-a1c6-08c5a3923fe0", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 207.012, + 840.891, + 209.163, + 47.97900000000004 + ], + "priority": 3, + "parents": [ + 78034 + ], + "children": [ + 78005 + ], + "area": 174074.527692, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 78005, + "strid": "1b6b44bf-42ac-4b3d-90be-1a32aa44661b", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 204.723, + 904.197, + 890.6780000000001, + 1097.7469999999998 + ], + "priority": 4, + "parents": [ + 77998 + ], + "children": [], + "area": 185109.922431, + "iscrowd": 0, + "segmentation": [], + "text": "Integrating large-scale functional genomic data has\nsignificantly accelerated our understanding of gene\nfunctions. However, no algorithm has been developed to\ndifferentiate functions for isoforms of the same*gene using\nhigh-throughput genomic data. This is because standard\nsupervised learning requires ‘ground-truth’ functional\nannotations, which are lacking at the\\isoform level. We\ndeveloped a generic framework,that interrogates public\nRNA-seq data at the transcript level to differentiate functions\nfor alternatively spliced isoforms. For a specific function, our\nalgorithm identifies the ‘responsible’ isoform(s) of a gene and\ngenerates classifying models at the isoform level instead of at\nthe gene level. Through cross-validation, we demonstrated\nthat our algorithm is effective in assigning functions to\ngenes, especially the ones with multiple isoforms, and robust\nto gene expression levels and removal of homologous gene\npairs.(We identified genes in the mouse whose isoforms are\npredicted to have disparate functionalities and\nexperimentally validated the ‘responsible’ isoforms using\ndata from mammary tissue. With protein structure modeling\nand experimental evidence, we further validated the\npredicted isoform functional differences for the\n\ngenes Cdkn2aand Anxa6. Our generic framework is the first\nto predict and differentiate functions for alternatively spliced\nisoforms, instead of genes, using genomic dataNt'is\nextendable to other species with alternatively_spliced\nisoforms, and shifts the current gene-centered function\nprediction to isoform-level predictions." + }, + { + "id": 77999, + "strid": "8955091c-59a8-44e2-918c-3ee4e4ed5f15", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 212.829, + 2176.678, + 553.578, + 57.8159999999998 + ], + "priority": 5, + "parents": [ + 78034 + ], + "children": [ + 78007, + 78021, + 78032, + 78027, + 78033, + 78029, + 78014, + 78006, + 78028, + 78030, + 78015, + 78031 + ], + "area": 463260.202062, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and_methods" + }, + { + "id": 78006, + "strid": "3943b8f0-7a4a-4457-8be3-a1c3df49a2e9", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", 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"priority": 8, + "parents": [ + 77999 + ], + "children": [], + "area": 619751.267485, + "iscrowd": 0, + "segmentation": [], + "text": "Partitioning data for testing models\nand generating predictions:" + }, + { + "id": 78032, + "strid": "06f48653-9f86-4050-8b04-cfd0e28cb887", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 216.154, + 2909.908, + 140.77999999999997, + 69.80400000000009 + ], + "priority": 9, + "parents": [ + 77999 + ], + "children": [], + "area": 628988.253832, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78029, + "strid": "69a8de92-bc4d-444b-af82-72d37cf2185e", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 216.515, + 3073.211, + 152.93200000000002, + 41.46900000000005 + ], + "priority": 10, + "parents": [ + 77999 + ], + "children": [], + "area": 665396.2796649999, + "iscrowd": 0, + "segmentation": [], + "text": "An iterative strategy to generate\n‘soformlevelclassfication models\nusing the training set." + }, + { + "id": 78030, + "strid": "5ba2c81a-fc09-416a-b14f-3cf5f3d80c36", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 218.652, + 3278.944, + 149.05400000000003, + 59.3130000000001 + ], + "priority": 11, + "parents": [ + 77999 + ], + "children": [], + "area": 716947.6634879999, + "iscrowd": 0, + "segmentation": [], + "text": "Predictions are madeon'én,\nindependenttest Set (used ether for\ncross-yalicatiorvor bootstrap-\nbagi)" + }, + { + "id": 78031, + "strid": "78908f1c-8f46-4d4f-b5b4-d253596ed91d", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 218.678, + 3374.143, + 94.80899999999997, + 16.146999999999935 + ], + "priority": 12, + "parents": [ + 77999 + ], + "children": [], + "area": 737850.842954, + "iscrowd": 0, + "segmentation": [], + "text": "Model validation using:" + }, + { + "id": 78033, + "strid": "d60f0401-1b8c-4849-8fe0-4dd297430661", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 218.927, + 3388.465, + 78.83899999999997, + 44.72600000000011 + ], + "priority": 13, + "parents": [ + 77999 + ], + "children": [], + "area": 741826.477055, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78021, + "strid": "94a12636-277b-47e1-b9b5-cf93470de5f0", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 393.545, + 2758.643, + 352.373, + 687.3319999999999 + ], + "priority": 14, + "parents": [ + 77999 + ], + "children": [], + "area": 1085650.159435, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78014, + "strid": "b26d00d3-9657-4d4d-9354-d149c4174c2c", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 769.529, + 2768.374, + 269.3409999999999, + 37.79500000000007 + ], + "priority": 15, + "parents": [ + 77999 + ], + "children": [], + "area": 2130344.0758459996, + "iscrowd": 0, + "segmentation": [], + "text": "MIB.assumptions:" + }, + { + "id": 78007, + "strid": "a2607539-3060-4f24-8b04-701e70343f66", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 779.265, + 2807.151, + 319.3470000000001, + 358.721 + ], + "priority": 16, + "parents": [ + 77999 + ], + "children": [], + "area": 2187514.5240149996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78015, + "strid": "befb9397-351b-460a-9a6a-8f9c17df8271", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 768.75, + 3210.878, + 336.7149999999999, + 158.58399999999983 + ], + "priority": 17, + "parents": [ + 77999 + ], + "children": [], + "area": 2468362.4625, + "iscrowd": 0, + "segmentation": [], + "text": "Ambiguity: Which\nsubset of isoforms of a\npositive gene will be\npositive?" + }, + { + "id": 78016, + "strid": "b150f970-a4c1-4388-a47a-ae773169f7aa", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1306.637, + 847.865, + 825.2229999999997, + 39.42700000000002 + ], + "priority": 18, + "parents": [ + 78034 + ], + "children": [], + "area": 1107851.780005, + "iscrowd": 0, + "segmentation": [], + "text": "Two basic formulations of the MIL algorithm are tested." + }, + { + "id": 78008, + "strid": "3a7a20af-9c13-43a7-957a-ff591299fb7f", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1348.11, + 887.467, + 829.729, + 284.00300000000004 + ], + "priority": 19, + "parents": [ + 78034 + ], + "children": [], + "area": 1196403.13737, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78020, + "strid": "1c8e464b-1e38-40a0-9ecd-8937eb4bffd7", + "image_id": 203544, + "image_name": "120444.png", + 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"priority": 27, + "parents": [ + 78034 + ], + "children": [], + "area": 2037200.9314210003, + "iscrowd": 0, + "segmentation": [], + "text": "Robustness of predictions with respect to gene\nexpression levels.and exclusion of homolog gene pairs" + }, + { + "id": 78019, + "strid": "f867c9a4-11a4-4541-98df-21cf88abc7c7", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2403.555, + 967.045, + 735.5320000000002, + 81.1160000000001 + ], + "priority": 28, + "parents": [ + 78034 + ], + "children": [], + "area": 2324345.844975, + "iscrowd": 0, + "segmentation": [], + "text": "Two factors‘are further considered to validate the\nrobustness,of our algorithm." + }, + { + "id": 78010, + "strid": "8381e3ba-a438-4e69-8115-709d92adcb7c", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2443.766, + 1087.373, + 827.3609999999999, + 522.752 + ], + "priority": 29, + "parents": [ + 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Andrews, I. Tsochantaridis and T. Hofmann, \"Support Vector\nMachines for Multiple-Instance Learning,\" Proc. Advances in Neural\nInformation Processing Systems, 2003\n\nTrapnell C, Roberts A, Goff L, Pertea G, Kim D, et al. (2012)\nDifferential gene and transcript expression analysis of RNA-seq,\nexperiments with TopHat and Cufflinks. Nat Prot 7: 562-578. doi:\n10.1038/nprot.2012.016\n\nLiontos M, Pateras IS, Evangelou K, Gorgoulis VG(2012) The tumor\nsuppressor gene ARF as a sensor of oxidative stress»Curr Mol Med 12:\n704-715. doi: 10.2174/156652412800792633" + }, + { + "id": 78002, + "strid": "27f0a4b6-4e2e-4ba1-8845-3bfb47145bf8", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3502.358, + 3095.833, + 447.36299999999983, + 52.965000000000146 + ], + "priority": 37, + "parents": [ + 78034 + ], + "children": [ + 78004 + ], + "area": 10842715.474214, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 78004, + "strid": "0bd26a09-5dda-4e5e-b6b1-260844f70bd6", + "image_id": 203544, + "image_name": "120444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3498.983, + 3157.603, + 872.0159999999996, + 257.7600000000002 + ], + "priority": 38, + "parents": [ + 78002 + ], + "children": [], + "area": 11048399.217749001, + "iscrowd": 0, + "segmentation": [], + "text": "This work is supported by NIH 1R21NS082212-01 and EU-\nFP VII Systems Biology of Rare Disease\n\nAll prediction results are stored in MySQL databases and\ndelivered through a searchable website:\n\nhttp?//euanlab.ccmb.med.umich.edu/isoPred" + }, + { + "id": 179875, + "strid": "cf5a0af0-db31-478a-9b3b-9bc453e7c81a", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 61.78, + 85.76, + 117.34, + 163.56 + ], + "priority": -1, + "parents": [], + "children": [ + 179869, + 179868, + 179867, + 179849, + 179850, + 179874, + 179873, + 179870, + 179872, + 179871 + ], + "area": 5298.2528, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179849, + "strid": "2d0b69c6-6446-4dd7-a73a-df6fa5d5664c", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 552.889, + 101.645, + 2375.053, + 179.96800000000002 + ], + "priority": 1, + "parents": [ + 179875 + ], + "children": [], + "area": 56198.402405, + "iscrowd": 0, + "segmentation": [], + "text": "Trabectome-Mediated Ab Interno Trabeculectomy for Steroid-\nInduced Glaucoma" + }, + { + "id": 179850, + "strid": "5d5a272d-934a-4606-acbf-9504cdeced2b", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 629.84, + 315.034, + 2222.053, + 111.76499999999999 + ], + "priority": 2, + "parents": [ + 179875 + ], + "children": [], + "area": 198421.01456, + "iscrowd": 0, + "segmentation": [], + "text": "Yalong Dang’, Hardik A. Parikh*?, Pritha Roy’, Igor |. Bussel*, Ralitsa T. Loewen’, Nils A. Loewen*\n1. Dept of Ophthalmology, University of Pittsburgh School of Medicine 2. Dept of Ophthalmology, Rutgers NJMS" + }, + { + "id": 179867, + "strid": "e3788571-4cac-416d-9b29-1b250928bb37", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.638, + 517.532, + 142.374, + 38.85699999999997 + ], + "priority": 3, + "parents": [ + 179875 + ], + "children": [ + 179851 + ], + "area": 62434.025416000004, + "iscrowd": 0, + "segmentation": [], + "text": "Purpose" + }, + { + "id": 179851, + "strid": "3c74de4c-3f11-40fc-bc06-57ed6afe74de", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.951, + 573.369, + 1000.152, + 79.793 + ], + "priority": 4, + "parents": [ + 179867 + ], + "children": [], + "area": 67629.446919, + "iscrowd": 0, + "segmentation": [], + "text": "To evaluate outcomes of ab-interno trabeculectomy in cases of steroid-\ninduced glaucoma." + }, + { + "id": 179874, + "strid": "ea0a3c37-2b7f-440e-abe6-14d6fd171291", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.777, + 720.417, + 384.97, + 34.24699999999996 + ], + "priority": 5, + "parents": [ + 179875 + ], + "children": [ + 179852 + ], + "area": 87009.804009, + "iscrowd": 0, + "segmentation": [], + "text": "Patients and Methods" + }, + { + "id": 179852, + "strid": "00a6a5e1-1355-48f4-b7c1-8a794105ffa5", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.518, + 773.212, + 1006.2469999999998, + 410.2550000000001 + ], + "priority": 6, + "parents": [ + 179874 + ], + "children": [], + "area": 90093.115816, + "iscrowd": 0, + "segmentation": [], + "text": "All cases diagnosed with steroid glaucoma were included. Cases that\nhad concurrent surgery other than cataract surgery and/or no follow-\nup records were excluded. The main outcomes measure was the\nchanges of IOP, numbers of medications and surgical success. Kaplan-\nMeier was used for survival analysis with success defined as |OPS21\nmmHg, at least 20% IOP reduction from baseline for any two\nconsecutive visits after 3 months and no secondary glaucoma surgery.\nSecondary outcomes included complication rate, secondary\nprocedures." + }, + { + "id": 179868, + "strid": "52ce0154-a9ea-4436-b69b-0d360ff414b0", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 121.212, + 1212.984, + 126.146, + 32.88000000000011 + ], + "priority": 7, + "parents": [ + 179875 + ], + "children": [ + 179853, + 179854 + ], + "area": 147028.216608, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 179853, + "strid": "36d7b1c2-aec3-47b9-a7ea-baa046c8bfb4", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.734, + 1267.165, + 1006.862, + 270.663 + ], + "priority": 8, + "parents": [ + 179868 + ], + "children": [], + "area": 147921.23911, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 69 cases were included in this study after applying inclusion\nand exclusion criteria. Mean IOP was reduced from a baseline of 31.6\n+10.1 mmHg to 15.8+3.5mmbHg at 12 months (p<0.01*), while number\nof glaucoma medication was reduced from 3.9+0.9 to 2.9+1.3 (p=0.12).\nSurvival rate was 86% at 12 months with 4 cases required additional\nglaucoma surgery." + }, + { + "id": 179854, + "strid": "b0067b3b-fbb4-4e8f-b51b-7129d022de47", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 185.648, + 1603.093, + 778.544, + 831.5470000000003 + ], + "priority": 9, + "parents": [ + 179868 + ], + "children": [], + "area": 297611.009264, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179869, + "strid": "057b16a0-b048-49ba-988c-5de8ec7c09ce", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1231.662, + 514.578, + 535.559, + 35.88599999999997 + ], + "priority": 10, + "parents": [ + 179875 + ], + "children": [ + 179855 + ], + "area": 633786.168636, + 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"8368.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2429.286, + 741.475, + 840.6149999999998, + 354.53599999999994 + ], + "priority": 18, + "parents": [ + 179873 + ], + "children": [], + "area": 1801254.83685, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179862, + "strid": "73b32c4b-8f64-4038-98d8-4fbb5250ba26", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2319.352, + 1134.349, + 1065.3360000000002, + 175.58300000000008 + ], + "priority": 19, + "parents": [ + 179873 + ], + "children": [], + "area": 2630954.6218479997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179863, + "strid": "f844aa5a-2a4c-42f4-80b7-2192b0614b86", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2429.02, + 1349.128, + 874.143, + 355.799 + ], + "priority": 20, + "parents": [ + 179873 + ], + "children": [], + "area": 3277058.89456, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179870, + "strid": "9b3c0447-b0e0-457c-93a0-a5a88bfca8f2", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2321.022, + 1763.365, + 191.89800000000014, + 34.58999999999992 + ], + "priority": 21, + "parents": [ + 179875 + ], + "children": [ + 179864 + ], + "area": 4092808.95903, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 179864, + "strid": "6bb82d8c-8ff7-45a0-b9bf-df96d5acae37", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2320.762, + 1836.5, + 1087.8629999999998, + 174.49399999999991 + ], + "priority": 22, + "parents": [ + 179870 + ], + "children": [], + "area": 4262079.413000001, + "iscrowd": 0, + "segmentation": [], + "text": "Trabectome reduced the IOP by a mean of 50% in 69 cases of steroid-induced\nglaucoma on 1 less medication after 1 year, suggesting trabectome with or\nwithout cataract surgery is a safe and effective surgical option for persistent\nsteroid-induced glaucoma." + }, + { + "id": 179871, + "strid": "dcf1d6df-0cdd-433a-9fd6-5cc3e95771dc", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3032.787, + 2038.765, + 196.42000000000007, + 32.7679999999998 + ], + "priority": 23, + "parents": [ + 179875 + ], + "children": [ + 179865 + ], + "area": 6183139.988055, + "iscrowd": 0, + "segmentation": [], + "text": "Disclosures" + }, + { + "id": 179865, + "strid": "2fa1f7ba-e265-4b1b-9a7d-5049c02b7278", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3034.777, + 2097.359, + 339.8649999999998, + 27.061999999999898 + ], + "priority": 24, + "parents": [ + 179871 + ], + "children": [], + "area": 6365016.853943, + "iscrowd": 0, + "segmentation": [], + "text": "NAL: trabectome trainer" + }, + { + "id": 179872, + "strid": "9cf411f2-fc00-43a8-b711-8390bf8cc222", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2325.739, + 2211.342, + 140.86000000000013, + 39.914999999999964 + ], + "priority": 25, + "parents": [ + 179875 + ], + "children": [ + 179866 + ], + "area": 5143004.331738001, + "iscrowd": 0, + "segmentation": [], + "text": "Funding" + }, + { + "id": 179866, + "strid": "1f029e7e-1017-4c24-9799-3a24f80a4530", + "image_id": 207525, + "image_name": "8368.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2325.661, + 2265.515, + 757.232, + 43.47400000000016 + ], + "priority": 26, + "parents": [ + 179872 + ], + "children": [], + "area": 5268819.880415, + "iscrowd": 0, + "segmentation": [], + "text": "NAL: Grateful recipient of KO8-EY022737 and a departmental P30.\nHAP: Grateful recipient of the Alpha Omega Alpha Carolyn L Kuckien Student Research Fellowship" + }, + { + "id": 136703, + "strid": "b7f1ec87-607c-44a4-ada8-1e655335380d", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 0, + 60.98, + 88.02, + 217.38000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 136677, + 136679, + 136675, + 136678, + 136673, + 136674, + 136676 + ], + "area": 0.0, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136673, + "strid": "fe50fb19-45a4-4675-9f9a-3b4bf3c732cc", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 106.59, + 104.64, + 1916.876, + 178.123 + ], + "priority": 1, + "parents": [ + 136703 + ], + "children": [], + "area": 11153.5776, + "iscrowd": 0, + "segmentation": [], + "text": "Challenges and Success of Rowing Across the Atlantic\nby an Individual with ALS" + }, + { + "id": 136674, + "strid": "ea18891b-3c82-47ca-bccc-4fd1ad63abf8", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 426.817, + 321.29, + 1153.804, + 129.591 + ], + "priority": 2, + "parents": [ + 136703 + ], + "children": [], + "area": 137132.03393, + "iscrowd": 0, + "segmentation": [], + "text": "H. Hayes*, A. Alderman, S. Gibson**, M. Bromberg**\n\n*University of Utah College of Health, Department of Physical Therapy, Salt Lake City, UT\n**University of Utah School of Medicine, Department of Neurology, Salt Lake City, UT" + }, + { + "id": 136675, + "strid": "2b901a9a-1eeb-40b6-bd2f-9cdcdadb53dd", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 54.155, + 519.908, + 268.89300000000003, + 41.347999999999956 + ], + "priority": 3, + "parents": [ + 136703 + ], + "children": [ + 136693, + 136692, + 136680 + ], + "area": 28155.61774, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 136680, + "strid": "966cbd10-b513-460f-a368-87ddb71e8b2f", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 40.543, + 627.867, + 3117.044, + 102.928 + ], + "priority": 4, + "parents": [ + 136675 + ], + "children": [], + "area": 25455.611781, + "iscrowd": 0, + "segmentation": [], + "text": "The TaliskerTM Whisky Atlantic Challenge is the premiere ocean rowing event, requiring 3000 miles of rowing across the Atlantic Ocean, from the Canary Islands to\nAntigua (Figure 1), with no external support. When an individual (Figure 2) with ALS desires to row across the Atlantic there are extra challenges and successes!" + }, + { + "id": 136692, + "strid": "9ad74cc7-0098-47ec-886d-1eb74d1e9044", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 28.105, + 762.372, + 1480.517, + 855.8670000000001 + ], + "priority": 5, + "parents": [ + 136675 + ], + "children": [ + 136690 + ], + "area": 21426.46506, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136690, + "strid": "537bce7b-4fac-473c-ae75-5a4228f06b85", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 43.339, + 1644.991, + 1279.933, + 29.826999999999998 + ], + "priority": 6, + "parents": [ + 136692 + ], + "children": [], + "area": 71292.264949, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Challenge starts in the Canary Islands and ends at Antigua (3000 miles across the Atlantic Ocean)." + }, + { + "id": 136693, + "strid": "4d76c1ed-b529-48c9-b103-3a4ee8daeeb0", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1544.005, + 758.609, + 865.0329999999999, + 865.7209999999999 + ], + "priority": 7, + "parents": [ + 136675 + ], + "children": [ + 136691 + ], + "area": 1171296.089045, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136691, + "strid": "d9c55c0a-bdec-4218-84d4-30dd717b1170", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1549.756, + 1644.416, + 582.2340000000002, + 32.41000000000008 + ], + "priority": 8, + "parents": [ + 136693 + ], + "children": [], + "area": 2548443.562496, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. AA photo before and after race" + }, + { + "id": 136676, + "strid": "4d906706-0ee7-4c18-986f-4608b936492c", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 58.879, + 1741.744, + 104.04600000000002, + 40.1579999999999 + ], + "priority": 9, + "parents": [ + 136703 + ], + "children": [ + 136689, + 136681, + 136694, + 136688 + ], + "area": 102552.144976, + "iscrowd": 0, + "segmentation": [], + "text": "Case" + }, + { + "id": 136688, + "strid": "841152e5-560f-4b82-b450-4700168c6c47", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 69.294, + 1856.02, + 1034.216, + 417.36900000000014 + ], + "priority": 10, + "parents": [ + 136676 + ], + "children": [], + "area": 128611.04987999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136689, + "strid": "fec07911-d8a6-4b52-915b-10091fccd1b4", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 4, + 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This helped with decreasing mental and\nphysical fatigue. The team made it in 51 days, 11 hours, 57 minutes. The team rowed 3548 miles." + }, + { + "id": 136700, + "strid": "57c964ac-2be8-493e-b544-c023f9b8a840", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 41.674, + 3905.314, + 704.64, + 694.6430000000005 + ], + "priority": 27, + "parents": [ + 136678 + ], + "children": [], + "area": 162750.055636, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136701, + "strid": "3741578c-6cd2-494c-ad95-ea9dce3bfc39", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 805.54, + 3905.062, + 1509.616, + 703.5290000000005 + ], + "priority": 28, + "parents": [ + 136678 + ], + "children": [], + "area": 3145683.6434799996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136679, + "strid": "89ff694c-6757-4576-bfd4-bd4d2bfe04b3", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2424.492, + 3937.716, + 247.55099999999993, + 41.534999999999854 + ], + "priority": 29, + "parents": [ + 136703 + ], + "children": [ + 136687 + ], + "area": 9546960.940272, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 136687, + "strid": "8882d4c8-ce0d-478b-8b9b-d237b5b08c74", + "image_id": 205802, + "image_name": "15961.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2409.495, + 4042.461, + 808.723, + 466.11100000000033 + ], + "priority": 30, + "parents": [ + 136679 + ], + "children": [], + "area": 9740289.567194998, + "iscrowd": 0, + "segmentation": [], + "text": "For many individuals with ALS purpose\nand quality of life include fulfilling\ndreams even when the dreams require\nextreme physical and psychological\ndemands. AA demonstrates that even a\ndisease characterized by progression of\nphysical decline and degeneration does\nnot have to limit goals in life." + }, + { + "id": 142975, + "strid": "79a23412-55a1-405a-bde7-449b68d58a30", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 193.07, + 145.3, + 111.34000000000003, + 64.64999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 142962, + 142958, + 142960, + 142956, + 142959, + 142957, + 142961 + ], + "area": 28053.071, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142956, + "strid": "68701155-df0d-4041-bdfe-122950b01d61", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 393.601, + 33.323, + 783.243, + 82.40899999999999 + ], + "priority": 1, + "parents": [ + 142975 + ], + "children": [], + "area": 13115.966123, + "iscrowd": 0, + "segmentation": [], + "text": "Protein-guided nucleotide viral genome\nassembly for huge metagenomic datasets" + }, + { + "id": 142957, + "strid": "232a3658-8e93-4103-9524-3d5ab291adb3", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 404.506, + 122.925, + 736.5849999999999, + 117.669 + ], + "priority": 2, + "parents": [ + 142975 + ], + "children": [], + "area": 49723.90005, + "iscrowd": 0, + "segmentation": [], + "text": "Annika Seidel’, Johannes Séding', Martin Steinegger***\n\n‘Max-Planck Institute for Biophysical Chemistry, Géttingen, Germany\n? School of Biological Sciences, Seoul National University, Seoul, Korea\n\n$ Institute of Molecular Biology and Genetics, Seoul National University, Seoul, Korea\n‘ Artificial Intelligence Institute, Seoul National University, Seoul, Korea" + }, + { + "id": 142958, + "strid": "09aa9943-7262-4094-8471-083a26477283", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 149.293, + 273.47, + 121.41399999999999, + 27.976999999999975 + ], + "priority": 3, + "parents": [ + 142975 + ], + "children": [ + 142963, + 142964 + ], + "area": 40827.15671, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 142963, + "strid": "ccd2bbf4-444d-470b-8267-56c9d5242070", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 19.9, + 322.957, + 387.275, + 212.22699999999998 + ], + "priority": 4, + "parents": [ + 142958 + ], + "children": [], + "area": 6426.8443, + "iscrowd": 0, + "segmentation": [], + "text": "Viruses are the most abundant\nentities on earth. Metagenomic\nstudies offer an unique opportunity to\ndetect them. Their genomes can be\nassembled by tying together short\nnucleotide sequence reads _ into\ncontinuous genomic stretches.\nHowever, their high mutation rates\nand large viral communities make this\nparticular challenging for assemblers." + }, + { + "id": 142964, + "strid": "39a85a85-b177-4e54-80c6-e42a95e4c149", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 18.044, + 763.144, + 387.416, + 251.793 + ], + "priority": 5, + "parents": [ + 142958 + ], + "children": [], + "area": 13770.170336000001, + "iscrowd": 0, + "segmentation": [], + "text": "With our new _ protein-guided\nnucleotide assembler (PenguiN) we\nare able to assemble long contigs and\nwhole viral genomes. On a simulated\nmetagenome, we obtain a 3 to 11\nfold increase in sensitivity compared\nto MEGAHIT at similar precision. On a\nmetatranscriptomic dataset from 82\nsludge samples, PenguiN assembles\nabout 75-90% more complete ssRNA\nphage genomes than the state-of-\nthe-art tools." + }, + { + "id": 142961, + "strid": "93116773-0ad6-4675-8208-5fe5238419d2", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 96.463, + 1048.808, + 230.10300000000004, + 34.00299999999993 + ], + "priority": 6, + "parents": [ + 142975 + ], + "children": [ + 142974 + ], + "area": 101171.16610399999, + "iscrowd": 0, + "segmentation": [], + "text": "Code availability" + }, + { + "id": 142974, + "strid": "26350bf6-47d2-4fe9-9ca3-3167ccc106ad", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 21.471, + 1103.23, + 302.3, + 94.02800000000002 + ], + "priority": 7, + "parents": [ + 142961 + ], + "children": [], + "area": 23687.45133, + "iscrowd": 0, + "segmentation": [], + "text": "PenguiN is 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ssRNA phages.\nPenguiN assembles many fold more phages compared\nto state of the art" + }, + { + "id": 142970, + "strid": "cbc2941b-a2b7-422e-87a3-649be1be3bd7", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 998.261, + 572.597, + 558.4960000000001, + 406.707 + ], + "priority": 17, + "parents": [ + 142960 + ], + "children": [], + "area": 571601.253817, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142967, + "strid": "48d08804-1e48-424e-8472-31ac417bee58", + "image_id": 206054, + "image_name": "17136.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 997.253, + 982.924, + 545.0560000000002, + 50.590999999999894 + ], + "priority": 18, + "parents": [ + 142960 + ], + "children": [], + "area": 980223.9077720001, + "iscrowd": 0, + "segmentation": [], + "text": "Protein distribution comparison of 3 core proteins\nbetween Callanan et al (left) and PenguiN (right)" + }, + { + "id": 142971, + "strid": 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Details of patients treated with gabapentin." + }, + { + "id": 28061, + "strid": "43e452ed-0247-4589-800e-a955508722fe", + "image_id": 201605, + "image_name": "117383.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1944.709, + 3607.926, + 1381.6919999999998, + 144.3159999999998 + ], + "priority": 15, + "parents": [ + 28056 + ], + "children": [], + "area": 7016366.1635340005, + "iscrowd": 0, + "segmentation": [], + "text": "SOME PATIENTS INTOLERANT OF GABAPENTIN\nnO TRIED PREGABALIN ~~" + }, + { + "id": 28069, + "strid": "72607054-cc72-4e34-8980-e43a4a01283b", + "image_id": 201605, + "image_name": "117383.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1827.118, + 3875.177, + 1606.1839999999997, + 641.404 + ], + "priority": 16, + "parents": [ + 28056 + ], + "children": [ + 28070 + ], + "area": 7080405.649886, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28070, + "strid": "b2cd52fa-c47d-4567-83b8-0dc0989b0c25", + "image_id": 201605, + "image_name": "117383.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1853.843, + 3773.622, + 911.329, + 72.1579999999999 + ], + "priority": 17, + "parents": [ + 28069 + ], + "children": [], + "area": 6995702.729346, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2. Details of patients treated with pregabalin." + }, + { + "id": 28068, + "strid": "1a7231fc-ba14-4b95-8da3-ad2c731d2da6", + "image_id": 201605, + "image_name": "117383.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2420.417, + 4658.225, + 435.6199999999999, + 82.84799999999996 + ], + "priority": 18, + "parents": [ + 28071 + ], + "children": [ + 28067 + ], + "area": 11274846.979825001, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCE" + }, + { + "id": 28067, + "strid": "ca947542-a26b-44c2-88f7-29600df70a46", + "image_id": 201605, + "image_name": "117383.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1968.762, + 4810.559, + 1341.604, + 200.4390000000003 + ], + "priority": 19, + "parents": [ + 28068 + ], + "children": [], + "area": 9470845.757958, + "iscrowd": 0, + "segmentation": [], + "text": "Rayner H, Baharani J, Smith S, Suresh V, Dasgupta I.\nUraemic Pruritus: Relief of Itching b\\G@abapentin and\nPregabalin. Nephron Clinical Practice 2013;122:75-79" + }, + { + "id": 197764, + "strid": "ad3cd84d-95a6-4015-b4ab-fdab709bf28e", + "image_id": 208248, + "image_name": "9768.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 98.77, + 98.55, + -98.77, + -98.55 + ], + "priority": -1, + "parents": [], + "children": [ + 197761, + 197747, + 197744, + 197742, + 197743, + 197748, + 197756, + 197754, + 197745, + 197746, + 197759 + ], + "area": 9733.7835, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197742, + "strid": "585c07bb-5aa6-4b7b-a129-216e349a988b", + "image_id": 208248, + "image_name": "9768.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1025.411, + 40.812, + 2157.127, + 175.026 + ], + "priority": 1, + "parents": [ + 197764 + ], + "children": [], + "area": 41849.073732, + "iscrowd": 0, + "segmentation": [], + "text": "Learning context-specific nested effects models from\ngene knockdown data" + }, + { + "id": 197743, + "strid": 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[], + "text": "Aligning fundus images via the automatic\nextraction of retinal surface vessels" + }, + { + "id": 15336, + "strid": "1501ef9b-a8fb-4043-8676-adac77adc15f", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 794.039, + 327.295, + 1722.6990000000003, + 113.35200000000003 + ], + "priority": 2, + "parents": [ + 15334 + ], + "children": [], + "area": 259884.994505, + "iscrowd": 0, + "segmentation": [], + "text": "Sven Holm and Dr Niall McLoughlin\n\nFaculty of Life Sciences, Carys Bannister Building, University of Manchester, Manchester, M13 9PL, UK" + }, + { + "id": 15337, + "strid": "96e752de-1416-41c8-ab7d-aebdde509155", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 424.577, + 578.514, + 254.322, + 35.884000000000015 + ], + "priority": 3, + "parents": [ + 15334 + ], + "children": [ + 15338 + ], + "area": 245623.738578, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 15338, + "strid": "f03d9f67-da95-4f44-909a-549f20f3ad0c", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 85.558, + 742.536, + 928.109, + 1159.9969999999998 + ], + "priority": 4, + "parents": [ + 15337 + ], + "children": [], + "area": 63529.895088, + "iscrowd": 0, + "segmentation": [], + "text": "Extraction of retinal surface vessels allows for fast reg-\nistration of human fundus images. Two unsupervised,\nautomatic blood vessel extraction algorithms were im-\nplemented. The first approach enhanced the surface\nvessels by applying Gabor filters (Oloumi et al, 2007).\nThe second approach combines multiple preprocessing\nsteps to reduce the influence of noise within the images\n(such as the central light reflex) (Marin et al, 2011). Both\napproaches resulted in similar accuracy (~94%) when\napplied to the DRIVE database of fundus images (Staal\net al, 2004).\n\nSpectroscopic fundus images were then aligned using\nthe outputs of each approach. In particular, the auto-\nmatically generated vessel masks for each fundus im-\nage were shifted. both vertically and horizontally rela-\ntive to a reference vessel mask. For each possible shift,\nthe absolute difference between the two masks was\ncomputed. The translation that generates the minimal\ndifference between the two masks was used to align the\nraw images. Thus, translations, resulting from minor\neye tremors and movements, were corrected. Spectro-\nscopic fundus images can then be used to calculate the\nrelative oxygenation of different retinal compartments." + }, + { + "id": 15349, + "strid": "788257ba-a3de-43d7-a2f0-bceb59f40584", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 298.965, + 2027.114, + 502.84599999999995, + 96.57999999999993 + ], + "priority": 5, + "parents": [ + 15334 + ], + "children": [ + 15350, + 15352 + ], + "area": 606036.13701, + "iscrowd": 0, + "segmentation": [], + "text": "VESSEL EXTRACTION:\nDRIVE DATABASE" + }, + { + "id": 15352, + "strid": "5a05d490-3ae3-485b-bcb7-2bbcd926212d", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 297.975, + 2158.977, + 507.06499999999994, + 523.0630000000001 + ], + "priority": 6, + "parents": [ + 15349 + ], + "children": [ + 15339 + ], + "area": 643321.171575, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15339, + "strid": "47aa5318-502f-4805-a14a-2800cf307229", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 85.531, + 2716.321, + 489.08, + 35.4050000000002 + ], + "priority": 7, + "parents": [ + 15352 + ], + "children": [], + "area": 232329.651451, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 15350, + "strid": "6b07de06-7c7b-4a24-8bfe-831dc8a0c704", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 85.432, + 2763.784, + 924.112, + 237.17500000000018 + ], + "priority": 8, + "parents": [ + 15349 + ], + "children": [], + "area": 236115.594688, + "iscrowd": 0, + "segmentation": [], + "text": "The DRIVE database (Staal et al, 2004) consists of 40\nRGB retinal fundus images (45° field-of-view, 768 x 584\npixels), 20 of which were grouped into a test set. Both\nvessel extraction algorithms were applied to the test set\nimages." + }, + { + "id": 15353, + "strid": "2a76a7cc-c627-4fab-9b18-fdec8420618a", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 219.018, + 3068.16, + 666.091, + 98.61400000000003 + ], + "priority": 9, + "parents": [ + 15334 + ], + "children": [ + 15380, + 15385, + 15382, + 15381, + 15384, + 15386, + 15383, + 15387, + 15358 + ], + "area": 671982.26688, + "iscrowd": 0, + "segmentation": [], + "text": "VESSEL EXETRACTION:\nNOISE REMOVAL APPROACH" + }, + { + "id": 15380, + "strid": "d1a0971d-47d1-4a2c-bbb5-5b8a455c74ad", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 365.877, + 3256.484, + 370.55, + 42.26800000000003 + ], + "priority": 10, + "parents": [ + 15353 + ], + "children": [], + "area": 1191472.596468, + "iscrowd": 0, + "segmentation": [], + "text": "Grey-scale conversion" + }, + { + "id": 15381, + "strid": "2af20c76-9ff5-4d0f-9171-b6aaae1ddc27", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 782.745, + 3343.048, + 221.61, + 32.22699999999986 + ], + "priority": 11, + "parents": [ + 15353 + ], + "children": [], + "area": 2616754.10676, + "iscrowd": 0, + "segmentation": [], + "text": "CLR removal" + }, + { + "id": 15382, + "strid": "e7f588ad-7975-4f24-aa7f-2ba34d931e66", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 362.222, + 3417.578, + 378.322, + 33.90299999999979 + ], + "priority": 12, + "parents": [ + 15353 + ], + "children": [], + "area": 1237921.938316, + "iscrowd": 0, + "segmentation": [], + "text": "Contrast enhancement" + }, + { + "id": 15383, + "strid": "e1d990f2-34d7-4127-94f7-983bdb4545f0", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 349.684, + 3531.46, + 402.618, + 41.88000000000011 + ], + "priority": 13, + "parents": [ + 15353 + ], + "children": [], + "area": 1234895.0586400002, + "iscrowd": 0, + "segmentation": [], + "text": "Background subtraction" + }, + { + "id": 15384, + "strid": "cd77b3e9-a749-4263-9658-066b0c0a20e0", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 379.322, + 3640.344, + 343.909, + 44.02399999999989 + ], + "priority": 14, + "parents": [ + 15353 + ], + "children": [], + "area": 1380862.5667680001, + "iscrowd": 0, + "segmentation": [], + "text": "Gaussian smoothing" + }, + { + "id": 15385, + "strid": "c9857b4f-a1c2-487d-a61d-d31ed68fbb52", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 373.755, + 3753.704, + 355.12199999999996, + 32.0329999999999 + ], + "priority": 15, + "parents": [ + 15353 + ], + "children": [], + "area": 1402965.63852, + "iscrowd": 0, + "segmentation": [], + "text": "H-maxima transform" + }, + { + "id": 15386, + "strid": "053485c2-bead-4642-8742-87880e4221dd", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 437.75, + 3862.731, + 226.17700000000002, + 43.465000000000146 + ], + "priority": 16, + "parents": [ + 15353 + ], + "children": [], + "area": 1690910.4952500002, + "iscrowd": 0, + "segmentation": [], + "text": "Thresholding" + }, + { + "id": 15387, + "strid": "0f4bfff6-74da-499c-901e-1d57f1d675cd", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 269.411, + 3975.416, + 562.675, + 41.903999999999996 + ], + "priority": 17, + "parents": [ + 15353 + ], + "children": [], + "area": 1071020.799976, + "iscrowd": 0, + "segmentation": [], + "text": "Post-processing for noise removal" + }, + { + "id": 15358, + "strid": "b8ed466c-ade5-4731-909b-811c74059eb6", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 86.671, + 4075.625, + 925.176, + 282.15499999999975 + ], + "priority": 18, + "parents": [ + 15353 + ], + "children": [], + "area": 353238.494375, + "iscrowd": 0, + "segmentation": [], + "text": "Each image was processed twice, once with central\nlight reflex (CLR) removal (Marin et al, 2011) and once\nwithout. The two resulting images were combined after\nthe noise removal stage. Most of the remaining pre-\nand post-processing steps were based on (Saleh and\nEswaran, 2011)." + }, + { + "id": 15341, + "strid": "3b36749f-2d9f-4618-acd8-39e1db8168f6", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1348.684, + 547.57, + 616.201, + 98.94500000000005 + ], + "priority": 19, + "parents": [ + 15334 + ], + "children": [ + 15344, + 15374, + 15379, + 15377, + 15342, + 15373, + 15375, + 15378, + 15372, + 15376 + ], + "area": 738498.8978800001, + "iscrowd": 0, + "segmentation": [], + "text": "VESSEL EXTRACTION:\nGABOR FILTER APPROACH" + }, + { + "id": 15373, + "strid": "71699f93-6902-4950-9f60-66c1d761bcdd", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1472.308, + 690.242, + 370.001, + 38.210000000000036 + ], + "priority": 20, + "parents": [ + 15341 + ], + "children": [], + "area": 1016248.818536, + "iscrowd": 0, + "segmentation": [], + "text": "Grey-scale conversion" + }, + { + "id": 15374, + "strid": "8484ef3b-701a-4d53-90d3-913c4af0f515", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1508.924, + 791.971, + 294.82500000000005, + 40.23599999999999 + ], + "priority": 21, + "parents": [ + 15341 + ], + "children": [], + "area": 1195024.049204, + "iscrowd": 0, + "segmentation": [], + "text": "Invert grey-levels" + }, + { + "id": 15375, + "strid": "0dbc207a-8e27-4d08-a0c8-c2a546c9d316", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1454.571, + 901.296, + 403.4850000000001, + 41.60400000000004 + ], + "priority": 22, + "parents": [ + 15341 + ], + "children": [], + "area": 1310999.024016, + "iscrowd": 0, + "segmentation": [], + "text": "Background subtraction" + }, + { + "id": 15376, + "strid": "b10124a8-15ca-43ea-8fb0-678502b0499b", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1235.123, + 1013.06, + 842.5279999999998, + 42.31099999999992 + ], + "priority": 23, + "parents": [ + 15341 + ], + "children": [], + "area": 1251253.7063799999, + "iscrowd": 0, + "segmentation": [], + "text": "Assign non-ROI pixel mean intensity of ROI pixels" + }, + { + "id": 15377, + "strid": "a3104609-ba99-47f8-b1b6-15fd9476b42f", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1530.99, + 1124.386, + 249.48199999999997, + 41.708000000000084 + ], + "priority": 24, + "parents": [ + 15341 + ], + "children": [], + "area": 1721423.72214, + "iscrowd": 0, + "segmentation": [], + "text": "Gabor filtering" + }, + { + "id": 15378, + "strid": "fe819d1d-9d4c-4689-8657-ce2c0bdb0445", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1226.422, + 1235.507, + 861.7599999999998, + 33.815000000000055 + ], + "priority": 25, + "parents": [ + 15341 + ], + "children": [], + "area": 1515252.9659540001, + "iscrowd": 0, + "segmentation": [], + "text": "Normalisation to unit mean and standard deviation" + }, + { + "id": 15379, + "strid": "fbfe19f0-9414-4ee9-ae18-432dd703f95c", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1248.881, + 1344.804, + 816.4959999999999, + 43.59899999999993 + ], + "priority": 26, + "parents": [ + 15341 + ], + "children": [], + "area": 1679500.1643240002, + "iscrowd": 0, + "segmentation": [], + "text": "Thresholding and combination of different scales" + }, + { + "id": 15342, + "strid": "09f5def5-2f51-4a1f-a60f-1149f01f13fc", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1191.042, + 1417.925, + 929.8240000000001, + 184.8209999999999 + ], + "priority": 27, + "parents": [ + 15341 + ], + "children": [], + "area": 1688808.22785, + "iscrowd": 0, + "segmentation": [], + "text": "Each image was filtered with differently oriented Gabor\nfilters. For each scale only the maximum response of\nthe differently oriented filters was kept. The Gabor fil-\nters were defined as in Oloumi et al (2007)." + }, + { + "id": 15344, + "strid": "b6de48fb-1b0f-41d5-97ba-361421a4cbdd", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1189.996, + 1669.982, + 931.989, + 419.05600000000004 + ], + "priority": 28, + "parents": [ + 15341 + ], + "children": [ + 15343 + ], + "area": 1987271.9000720002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15343, + "strid": "2ace2c18-af59-4d3a-b060-3fdff2e75d63", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1191.036, + 2112.788, + 903.2089999999998, + 81.70699999999988 + ], + "priority": 29, + "parents": [ + 15344 + ], + "children": [], + "area": 2516406.568368, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 2: Two examples of differently oriented Ga-\nbor filters" + }, + { + "id": 15372, + "strid": "7e121a58-4627-4e05-9d0d-fe00c7e492f3", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1191.346, + 2225.044, + 894.2739999999999, + 43.40599999999995 + ], + "priority": 30, + "parents": [ + 15341 + ], + "children": [], + "area": 2650797.2692239997, + "iscrowd": 0, + "segmentation": [], + "text": "Left: Filter oriented at 0°. Right: Filter oriented at 135°." + }, + { + "id": 15361, + "strid": "300d5fe1-199e-4ef3-ae7b-892eca423a3b", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1403.524, + 2348.402, + 502.02, + 96.57600000000002 + ], + "priority": 31, + "parents": [ + 15334 + ], + "children": [ + 15354, + 15364, + 15356, + 15362 + ], + "area": 3296038.568648, + "iscrowd": 0, + "segmentation": [], + "text": "VESSEL EXTRACTION:\nRESULTS" + }, + { + "id": 15356, + "strid": "a9f97bf4-cf91-45ca-af03-d2df6d06f70e", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1195.982, + 2490.972, + 921.06, + 468.067 + ], + "priority": 32, + "parents": [ + 15361 + ], + "children": [ + 15363 + ], + "area": 2979157.674504, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15363, + "strid": "6e1d8545-c423-4768-9c8f-c1772e16c25b", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1191.198, + 3003.699, + 666.6589999999999, + 32.39399999999978 + ], + "priority": 33, + "parents": [ + 15356 + ], + "children": [], + "area": 3578000.241402, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 3: Automatic vessel extraction" + }, + { + "id": 15354, + "strid": "aedd2bdc-4a6e-4276-aa14-35d7fce6c254", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1190.817, + 3049.62, + 920.5500000000002, + 189.89699999999993 + ], + "priority": 34, + "parents": [ + 15361 + ], + "children": [], + "area": 3631539.33954, + "iscrowd": 0, + "segmentation": [], + "text": "The automatic extraction for the fundus image shown\nin figure 1 using the noise removal (left) and Gabor fil-\nter (right) approaches. Green: True positives. Red: False\nnegatives. Blue: False positives." + }, + { + "id": 15364, + "strid": "447c03dd-cd4b-439f-94b6-e47d7d43fae8", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1225.884, + 3365.749, + 866.779, + 544.2260000000001 + ], + "priority": 35, + "parents": [ + 15361 + ], + "children": [ + 15359 + ], + "area": 4126017.847116, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15359, + "strid": "82ce308a-a327-43ea-8ac3-e6588681138b", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1190.693, + 3961.705, + 867.4489999999998, + 40.702000000000226 + ], + "priority": 36, + "parents": [ + 15364 + ], + "children": [], + "area": 4717174.411565, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 4: Accuracy of automatic vessel extraction" + }, + { + "id": 15362, + "strid": "09a0ba94-fd4b-4f57-a374-ab0594044181", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1190.267, + 4008.844, + 910.3219999999999, + 383.7659999999996 + ], + "priority": 37, + "parents": [ + 15361 + ], + "children": [], + "area": 4771594.721348001, + "iscrowd": 0, + "segmentation": [], + "text": "Both approaches were of similar accuracy (noise re-\nmoval approach: 94.50%, Gabor filter approach:\n94.07%) when applied to the DRIVE database. The\nnoise removal approach extracted a greater proportion\nof the vessels (72.33%) than the Gabor filter approach\n(68.07%). In terms of segmentation noise, both ap-\nproaches performed similarly (percentage of correctly\nsegmented background pixels: ~98%)." + }, + { + "id": 15345, + "strid": "87b8c962-73e8-4251-b65e-83ef39cd809f", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2494.566, + 579.507, + 529.4659999999999, + 34.936000000000035 + ], + "priority": 38, + "parents": [ + 15334 + ], + "children": [ + 15340, + 15348, + 15366, + 15346, + 15368, + 15360 + ], + "area": 1445618.4589619997, + "iscrowd": 0, + "segmentation": [], + "text": "IMAGE REGIST\n\nRATION." + }, + { + "id": 15340, + "strid": "bf5ed3ce-f74a-4b54-8221-090318b93034", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2361.476, + 689.956, + 764.6839999999997, + 405.88 + ], + "priority": 39, + "parents": [ + 15345 + ], + "children": [ + 15347 + ], + "area": 1629314.535056, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15347, + "strid": "854b624d-424b-4856-bcba-8e1bc4139748", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2295.221, + 1107.846, + 877.431, + 90.2059999999999 + ], + "priority": 40, + "parents": [ + 15340 + ], + "children": [], + "area": 2542751.403966, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 5: Schematic diagram of apparatus used to\nobtain spectroscopic fundus images" + }, + { + "id": 15346, + "strid": "fec4891b-3b06-4798-b5e2-76a44e4521a2", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2294.378, + 1220.201, + 926.54, + 427.8430000000001 + ], + "priority": 41, + "parents": [ + 15345 + ], + "children": [], + "area": 2799602.3299780004, + "iscrowd": 0, + "segmentation": [], + "text": "A tungsten halogen light (Light Source) produced\nwhite light (black arrows), which were filtered by a\nVariSpec filter (Filter). The filtered light (red arrows)\nwas fed into the fundus camera via a fibre optic cable.\nThe light reflected back out of the subject’s eye (blue ar-\nrows) was captured by a CCD camera with 25° field-of-\nview. The images were then saved on a PC. The PC\nsynchronised the CCD camera (dotted double arrow)\nwith the filter (dotted arrow)." + }, + { + "id": 15348, + "strid": "8f1793a2-6992-4e2b-bfef-1efee885dd23", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2297.941, + 1708.966, + 922.0590000000002, + 358.0749999999998 + ], + "priority": 42, + "parents": [ + 15345 + ], + "children": [ + 15351 + ], + "area": 3927103.0390059995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15351, + "strid": "215837d1-0016-43ed-9f89-9f901d850d46", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2295.45, + 2092.186, + 892.1210000000001, + 90.43299999999999 + ], + "priority": 43, + "parents": [ + 15348 + ], + "children": [], + "area": 4802508.3537, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 6: Aligning fundus images using automati-\ncally extracted surface vessels" + }, + { + "id": 15366, + "strid": "569111ad-14af-45ce-943a-00e9180bdfa8", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2293.904, + 2187.908, + 929.1210000000001, + 384.5819999999999 + ], + "priority": 44, + "parents": [ + 15345 + ], + "children": [], + "area": 5018850.912831999, + "iscrowd": 0, + "segmentation": [], + "text": "The noise removal vessel extraction approach was ap-\nplied to spectroscopic images obtained with the appa-\nratus shown in figure 5 (yellow vessels: A = 605nm;\nblue vessels: A = 586nm). The alignment was obtained\nby shifting the yellow vessels relatively against the blue\nvessels. The shift resulting in the smallest difference\nwas considered to align the two images. Left: Una-\nligned images. Right: Aligned images." + }, + { + "id": 15360, + "strid": "a31f98b3-c278-472c-9060-cf1aa37b4017", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2378.912, + 2630.944, + 764.114, + 571.114 + ], + "priority": 45, + "parents": [ + 15345 + ], + "children": [ + 15355 + ], + "area": 6258784.252927999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 15355, + "strid": "cff20be3-8e9b-40c2-8b7f-d81bd563adcd", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2294.715, + 3214.735, + 612.8670000000002, + 40.91800000000012 + ], + "priority": 46, + "parents": [ + 15360 + ], + "children": [], + "area": 7376900.6255250005, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 7: Aligning fundus images" + }, + { + "id": 15368, + "strid": "42a760d6-3986-4c90-bb53-6b30e3d5ba38", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2294.625, + 3260.652, + 903.4719999999998, + 190.10899999999992 + ], + "priority": 47, + "parents": [ + 15345 + ], + "children": [], + "area": 7481973.5955, + "iscrowd": 0, + "segmentation": [], + "text": "The alignment of two spectroscopic fundus images (Ai\n= 586nm, A2 = 548nm). Each square is taken from one\nimage, while the 4 neighbouring squares belong to the\nalternate image." + }, + { + "id": 15365, + "strid": "4da76af1-1b09-437a-8c2c-96ed429c0db7", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2586.085, + 3550.405, + 346.84799999999996, + 37.715000000000146 + ], + "priority": 48, + "parents": [ + 15334 + ], + "children": [ + 15369 + ], + "area": 9181649.114425, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 15369, + "strid": "65573c22-c1a4-420b-8416-bced59566664", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2294.393, + 3679.993, + 927.864, + 335.58399999999983 + ], + "priority": 49, + "parents": [ + 15365 + ], + "children": [], + "area": 8443350.179249, + "iscrowd": 0, + "segmentation": [], + "text": "Both automatic vessel extraction approaches resulted in\naccurate, binary masks of the surface vessels. The im-\nage registration algorithm was sufficiently robust to\ncorrect eye movements in spectroscopic datasets.\nAutomatic vessel extraction can also be used to select a\nspecific vessel segment for further processing, such as\nretinal oximetry measurements." + }, + { + "id": 15367, + "strid": "556b8456-a8e4-454c-85cc-c3cfa87a01c8", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2486.648, + 4139.071, + 545.7129999999997, + 37.460000000000036 + ], + "priority": 50, + "parents": [ + 15334 + ], + "children": [ + 15370 + ], + "area": 10292412.624008, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENTS" + }, + { + "id": 15370, + "strid": "9b9c90c4-e0cf-4f38-b4fe-89926ab8d497", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2294.801, + 4255.716, + 923.685, + 139.89000000000033 + ], + "priority": 51, + "parents": [ + 15367 + ], + "children": [], + "area": 9766021.332516, + "iscrowd": 0, + "segmentation": [], + "text": "We would like to thank the BBSRC for funding this\ndoctoral work and Prof D. Henson for providing the in-\nfrastructure and equipment used." + }, + { + "id": 15357, + "strid": "fc1d0631-e3b0-4c7f-a2a9-19bcaab7ffeb", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 397.101, + 4495.553, + 296.87, + 37.797999999999774 + ], + "priority": 52, + "parents": [ + 15334 + ], + "children": [ + 15371 + ], + "area": 1785188.591853, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 15371, + "strid": "32748af3-d283-464c-9553-fd6842f30267", + "image_id": 201106, + "image_name": "116600.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1029.769, + 4474.501, + 2196.295, + 90.04799999999977 + ], + "priority": 53, + "parents": [ + 15357 + ], + "children": [], + "area": 4607702.420269, + "iscrowd": 0, + "segmentation": [], + "text": "Marin et al (2011), IEEE Trans Med Imaging, 30, 146-158 | Oloumi et al (2007), Conf Proc IEEE Eng Med Biol Soc., 6451-6454\nSaleh and Eswaran (2011), Comput Methods Biomech Biomed Engin., 1-9 | Staal et al (2004), IEEE Trans Med Imaging, 23, 501-509" + }, + { + "id": 122027, + "strid": "ede09cde-3bcc-4047-89e5-53dbd0098740", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 5374.26, + 91.15, + 134.76999999999953, + 332.45000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 122004, + 122019, + 122009, + 122002, + 122008, + 122005, + 122003, + 122006, + 122023, + 122025, + 122007 + ], + "area": 489863.79900000006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122002, + "strid": "d8e48452-dd1d-4804-9f1c-ecaf7c601621", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 136.8, + 56.758, + 5209.3, + 231.052 + ], + "priority": 1, + "parents": [ + 122027 + ], + "children": [], + "area": 7764.494400000001, + "iscrowd": 0, + "segmentation": [], + "text": "The true relative financial costs of Planned Caesarean Section (PCS) versus Planned Vaginal Birth (PVB) in England\ntaking into account litigation and compensation for harm" + }, + { + "id": 122003, + "strid": "427cf72d-7034-4e3a-a0ca-771fe469356f", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 100.239, + 313.666, + 5085.296, + 81.82999999999998 + ], + "priority": 2, + "parents": [ + 122027 + ], + "children": [], + "area": 31441.566174, + "iscrowd": 0, + "segmentation": [], + "text": "AUTHORS:\nJonathan H West! ; Myles J Taylor? ; Michael Magro? +4Former NHS Consultant in Obstetrics & Gynaecology. 2 Trews Weir Reach, Exeter EX2 4EG; 2Consultant Obstetrician & Gynaecologist, Royal Devon & Exeter NHS Foundation Trust 3?ST7 O&G Registrar Queens Hospital BHR Trust. Darzi Fellow, NHS Resolution (2016-7)" + }, + { + "id": 122004, + "strid": "eca73ba3-3dab-4cb7-80e4-f8f47139a8bd", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 100.562, + 447.093, + 1720.369, + 113.57499999999999 + ], + "priority": 3, + "parents": [ + 122027 + ], + "children": [], + "area": 44960.566266, + "iscrowd": 0, + "segmentation": [], + "text": "AIM To determine the true financial costs of Planned Caesarean Section and Planned Vaginal\nBirth in England in 2017/18 after accounting for litigation and compensation for harm" + }, + { + "id": 122005, + "strid": "c8f8cbd6-e9ca-422a-8f77-c6c849abcd1c", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 148.957, + 654.823, + 537.371, + 44.24199999999996 + ], + "priority": 4, + "parents": [ + 122027 + ], + "children": [ + 122010 + ], + "area": 97540.469611, + "iscrowd": 0, + "segmentation": [], + "text": "SUMMARY\n\nMESSAGE" + }, + { + "id": 122010, + "strid": "756aa5b4-d409-4228-877e-c0b0abdf8c79", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 144.748, + 785.261, + 1763.484, + 1423.8889999999997 + ], + "priority": 5, + "parents": [ + 122005 + ], + "children": [], + "area": 113664.95922799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122006, + "strid": "80105b33-bdfc-49bc-a4ef-dfd20e9b2391", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1961.89, + 444.377, + 200.3230000000001, + 44.38900000000001 + ], + "priority": 6, + "parents": [ + 122027 + ], + "children": [ + 122012 + ], + "area": 871818.7925300001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 122012, + "strid": "edcf8a67-e9b4-4a7c-91b4-430971cc040b", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1959.128, + 511.855, + 3532.7200000000003, + 270.52199999999993 + ], + "priority": 7, + "parents": [ + 122006 + ], + "children": [], + "area": 1002789.46244, + "iscrowd": 0, + "segmentation": [], + "text": "The procedure was to estimate the proportion of LCFH costs attributable to three categories, namely: unaffected or equally affected by planned mode of delivery; solely or predominantly attributable to the choice of PVB;\nand, solely or mainly attributable to the choice of PCS. This was done by examining the breakdown of obstetric claims by value reported in the NHS Litigation Authority publication 'Ten Years of Maternity Claims: An Analysis of\nNHS Litigation Authority Data’ (October 2012)(9p17 Figure 6) and assuming that the proportions continue to hold sufficiently true as to be applicable to current costs. Figure 1 below reproduces this data. The resulting sub-\ncategorisation was then applied to overall obstetric LCFH costs, both those currently recovered through CNST funding and anticipated true costs for which financial provision must be made i.e. the ‘annual cost of harm’\n\nreported by NHS Resolution in its Annual Report and Accounts for 2017/18, being the most recent available (6) . Base costs were taken from published NHS Reference costs, which was also the method in the comparison of\nPCS and PVB performed by NICE in 2011 (2)." + }, + { + "id": 122007, + "strid": "c21d0a19-ffc9-4e72-ab93-beac3c7c7471", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1962.825, + 844.592, + 179.09500000000003, + 43.98299999999995 + ], + "priority": 8, + "parents": [ + 122027 + ], + "children": [ + 122017, + 122016, + 122014, + 122015, + 122018, + 122013 + ], + "area": 1657786.2924, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 122013, + "strid": "39fda5f9-b5c9-46b2-9372-e9be8cadb134", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1959.357, + 912.148, + 3521.889, + 81.60299999999995 + ], + "priority": 9, + "parents": [ + 122007 + ], + "children": [], + "area": 1787223.568836, + "iscrowd": 0, + "segmentation": [], + "text": "Our sub-categorisation and its impact on the relative risks is as follows, along with our justification. Figures following claim categories in brackets below are the proportionate values of the claims to the overall total. Weighted\ntotals have been calculated assuming a PCS rate of 9.7%, which was current at the time of the NHSLA report (10). Where deemed appropriate figures have been rounded to the nearest one or two decimal places." + }, + { + "id": 122014, + "strid": "be6062e0-4fb6-4475-898a-a1bbd3589e3f", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1960.562, + 1050.736, + 229.45699999999988, + 36.57999999999993 + ], + "priority": 10, + "parents": [ + 122007 + ], + "children": [], + "area": 2060033.073632, + "iscrowd": 0, + "segmentation": [], + "text": "From Figure 1:" + }, + { + "id": 122015, + "strid": "7f70d83e-d581-4036-a1f9-c98b02643d84", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1960.068, + 1098.38, + 3510.13, + 130.3789999999999 + ], + "priority": 11, + "parents": [ + 122007 + ], + "children": [], + "area": 2152899.4898400004, + "iscrowd": 0, + "segmentation": [], + "text": "Claim values from causes deemed unaffected or likely to be equally affected by planned mode of delivery:\nAccident (0.02%); Anaesthetic (0.61%); Antenatal Care (4.64%); Antenatal investigations (4.81%); Bladder (0.28%); Drug error (0.28%); Maternal Death (0.64%); Nursing Care (0.01%); Other (1.29%); Postpartum haemorrhage\n(0.1%); Psychological (0.02%); Retained swabs (0.1%); Stillbirth (0.5%); Cerebral Palsy (3.24%)* Subtotal: 16.55%" + }, + { + "id": 122016, + "strid": "d4b55f10-d29c-4e3f-b9b9-9364fda6a6b6", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1957.668, + 1238.685, + 3526.2480000000005, + 129.86200000000008 + ], + "priority": 12, + "parents": [ + 122007 + ], + "children": [], + "area": 2424933.98658, + "iscrowd": 0, + "segmentation": [], + "text": "Sole or predominantly PVB causes:\nCaesarean Section (CS)** (5.93%); CTG interpretation (14.95%); Management of labour (13.6%); Operative vaginal delivery (3%); Perineal trauma (1%); Shoulder dystocia (3.32%); Uterine rupture (3.31%); Cerebral Palsy (CP) *\n(37.28%) Subtotal: 82.4%" + }, + { + "id": 122017, + "strid": "70993328-b596-4d55-a621-16d0181722e7", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1959.099, + 1379.422, + 3460.062, + 128.82999999999993 + ], + "priority": 13, + "parents": [ + 122007 + ], + "children": [], + "area": 2702424.260778, + "iscrowd": 0, + "segmentation": [], + "text": "Sole or predominantly PCS causes\nThis figure has been calculated by excluding the 71% of claims values (i.e. 71% of 6.93%) related to CS attributed to delay, leaving 29%. 29% of 6.93% = 2.0097% attributable to complications of the procedures themselves.\nEmergency CS rates and PCS rates are sufficiently similar to make little or no significant difference to the subtotal so allocating half to PCS and half to PVB = 1.01% Subtotal = 1.01%" + }, + { + "id": 122018, + "strid": "209cdabb-645d-4831-8a24-b768e3402fda", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1961.043, + 1565.403, + 3527.977, + 642.374 + ], + "priority": 14, + "parents": [ + 122007 + ], + "children": [], + "area": 3069822.5953289997, + "iscrowd": 0, + "segmentation": [], + "text": "Calculations\nApplying these figures to current (2017/18) CNST obstetric costs the amount unrelated to mode of delivery is 16.55% of £1,469/birth i.e. £243.12. The appropriate additional ‘premium’ for sole PCS causes is 1.01%, which\nweighted for a 9.7% PCS rate = £152.96. The appropriate additional ‘premium’ for PVB (rate = 100%-9.7%=90.3%) is 82.4% of £1,469/birth with weighting for a PVB rate of 90.3% = £1,340. This ratio (£1,340/£152.96) = 8.8:1.\n\nThe overall appropriate ‘premium’ for PVB is thus £243.12 + £1,340 = £1,583.6, and that for PCS £243.12 + £152.96 = £396.08 . The difference (£1,190.22) exceeds the difference in base costs of PCS and PVB (£4,016 - £3,265\n= £751) by £439/birth.\n\nAs previously mentioned current CNST funding and charges are set only to cover expected LCFH costs for the immediate future. The true anticipated cost based on ‘annual cost of harm’ is 2.83 to 3.23 higheri.e. £4,481.6 -\n£5,115.0 for PVB and £1,120 - £1,279.3 for PCS. Added to the ‘base’ costs the true overall costs are therefore found to be: PVB £7,747-£8,380; PCS £5,136-£5,295.\n\n* Although a relatively small proportion of all CP cases by far the most that lead to claims arise from brain damage caused during labour. In the 2017 NHS Resolution publication 'Five years of cerebral palsy claims’ (11,059) the\nauthor and co-author of this study analysed fifty CP claims in depth. Of these four (8%) including the only one delivered by elective CS arose from causes unrelated to the mode of delivery e.g. late deficiencies in neonatal care\n\n(review by the author MM of the case details). 8% of the Figure 1 amount for CP claims (8% x 40.53% = 3.24%) has thus been added to the 'unrelated causes' total with the remainder (37.28%) being attributed to PVB\n\n**the explanation for the allocation of 1% of CS causes to PVB prior to weighting is given above under 'PCS causes’. From Figure 1. 'Caesarean section’, 6.93% -1% = 5.93% to PVB." + }, + { + "id": 122008, + "strid": "5aec14bc-4f35-4ff4-80a4-dee16a1383ad", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 103.528, + 2319.743, + 296.095, + 53.80099999999993 + ], + "priority": 15, + "parents": [ + 122027 + ], + "children": [ + 122021, + 122011 + ], + "area": 240158.35330400002, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 122011, + "strid": "dc6ae387-8dd4-4fc1-804c-6132bb870935", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.429, + 2433.506, + 1791.875, + 2134.8919999999994 + ], + "priority": 16, + "parents": [ + 122008 + ], + "children": [], + "area": 237094.056074, + "iscrowd": 0, + "segmentation": [], + "text": "Caesarean section (CS) is often subject to negative perceptions by the public and health professionals, especially\nwith respect to its cost relative to planned vaginal birth. Examples of this include: newspaper headlines (‘NHS\npolicing pregnancies to put women off caesareans: Mothers-to-be are having to beg for the procedure as\nhospitals face pressure to cut costs')(1); the economic analysis accompanying the NICE Guideline on CS ('.. the\ncosts of birth and downstream costs associated with the outcomes... found that a planned vaginal birth was\napproximately £700 cheaper than a maternal request CS. This implies that the NHS could save £4.9 million for\nevery percentage point reduction in CSs')(2,p217); the National Audit Office ('.. the most common reasons for\nmaternity claims have consistently been mistakes in the management of labour and relating to caesarean\nsections.... The Department's objectives include decreasing the number of ‘unnecessary interventions’ by\npromoting normal births')(3,p16); and a plethora of journal publications e.g. 'FIGO position paper: how to stop\nthe caesarean section epidemic'(4).\n\nProviding balance to the above views NICE also assessed that Planned Caesarean Section (PCS) v Planned Vaginal\nBirth (PVB) may be cost-effective subject to different assumptions regarding downstream costs such as urinary\nincontinence (2p100) but either way despite the significant contribution that litigation and compensation for\nharm (LCFH) makes to maternity costs NICE has not considered it ‘appropriate’ to include these in its economic\n\nmodels (5,p94).\n\nNHS Resolution is tasked with the management of LCFH for NHS patients in England and runs the CNST schemes.\nIncome to defend or settle claims and provide compensation for harm is derived principally from members of the\nscheme and subscriptions are adjusted annually to cover payments expected to be required for the following\nyear. Charges to subscribers lag behind actual costs of harm however because of factors beyond NHS Resolution’s\ncontrol such as delays between incidents and claims and Periodic Payment Orders (PPO's). NHS Resolution and its\npredecessor the NHS Litigation Authority (NHSLA) produce annual reports and accounts as well as other\npublications analysing and detailing factors responsible for claims.\n\nFrom the NHS Resolution Annual Report and Accounts 2017/18 (6,025) the value of new clinical claims received\nfor the year was reported to be £4,513.2 million, of which the obstetric proportion was 48% i.e. £2,166.3 million.\nDivided by the number of births in England during the year (646, 794)(7) this amounts to an average of £3,348.8\nclaimed for every birth. By way of comparison ‘Reference Costs' published by NHS Improvement show that the\nentire cost of providing intrapartum care (i.e. all normal births, all assisted vaginal births, all emergency\nCaesarean sections and all elective Caesarian sections) in the same year amounted to £1,954.6 million ((8), sheet\n2 rows 1858-1893).\n\nApart from setting CNST charges to cover immediate needs NHS Resolution uses an actuarial methodology to\nmake financial provision for future cash flows. This takes into account known outstanding claims, provision for\nincidents incurred but not reported (IBNR), probability of settlement, adjustments for PPO's and HM Treasury\ndiscount rates. Taking these into account it was communicated in the 2017/18 report (6,p8) that 'At current\nprices the annual financial 'cost of harm' is now £7-8 billion, roughly double the figure prior to 2016/7'.\n\nAlthough obstetric claims accounted for 48% of the overall value of claims for 2017/8 the proportion charged to\nobstetric providers is currently lower. Overall CNST funding of all schemes in 2017/8 was £2,227.5 million (6,015)\nof which the obstetric proportion was 37% (NHS Resolution telephone personal communication to JW, November\n30 2018) i.e. £916.16 million, or £1,469.40 per birth. Applying the same proportion to the ‘annual cost of harm'\nthe true anticipated cost of obstetric LCFH at current prices can therefore be estimated to be 37% of £7-8 billion\n/646,794 i.e. £4,154 - £4,748 per birth." + }, + { + "id": 122021, + "strid": "16c90db9-50f9-4233-9e94-9e471c7f1a68", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2000.317, + 2625.544, + 1236.3249999999998, + 1587.8289999999997 + ], + "priority": 17, + "parents": [ + 122008 + ], + "children": [ + 122020 + ], + "area": 5251920.297448, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122020, + "strid": "1646bdb3-d32a-488b-80c9-4f3d1e09d9ca", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2004.587, + 2473.915, + 1159.4069999999997, + 82.49200000000019 + ], + "priority": 18, + "parents": [ + 122021 + ], + "children": [], + "area": 4959177.848105, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Total number and value of claims reported by the NHS\nLitigation Authority according to category over a ten year period °" + }, + { + "id": 122019, + "strid": "52fbf3f2-099b-4e43-b25f-663c2f1360b7", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3349.048, + 2218.583, + 2156.0189999999993, + 1348.5989999999997 + ], + "priority": 19, + "parents": [ + 122027 + ], + "children": [], + "area": 7430140.958984, + "iscrowd": 0, + "segmentation": [], + "text": "Critique\n\nIt is not possible to be precise about the total overall relative costs that we have investigated, but nevertheless we believe that the\namounts and differences are so stark as to provide sufficient indication that LCFH costs in obstetrics should not be ignored in health\neconomic models comparing PCS and PVB.\n\nIt may be argued that the values and causes of obstetric claims in Figure 1 are historic, referring as they do to events occurring between\n2000 and 2010. Unfortunately this NHSLA study has not been repeated and more up to date information is not available. Improvements\nfrom changes to some procedures e.g. the timing of PCS, changed practices regarding breech and twin births, routine use of\nprophylactic antibiotics and steroids, labour ward staffing, education and protocols may have had some effect since then in either\ndirection but the continued dominance of obstetrics in the overall cost of LCFH and its similar proportion by specialty then and now\nsuggests that significant changes in the categories and relative amounts are unlikely. Awards for brain damage to babies from obstetric\ncauses remain high as do obstetric indemnity costs both in the UK and some other countries where they may pose serious problems for\nthe provision of care (12). Indeed if they have increased at a higher rate than other LCFH costs then the PVB/PCS ratio of cost of harm\nmay be even greater than our analysis suggests.\n\nSub-categorisation of the claim types between PVB and PCS is of necessity somewhat subjective and approximate. Some, e.g.\n‘management of labour' and 'perineal trauma’ are self-evident. Some e.g. anaesthetic, retained swabs, or drug errors have required\nassumptions of equality. Where such assumptions have been made, however, it should be noted that the related claim values are a tiny\nproportion of the overall totals and may favour PVB since errors and complications are arguably more likely in an emergency rather than\nelective setting.\n\nWe have ignored the economic impact of clinical ‘adverse outcomes’ from choosing PCS or PVB. In the assessment by NICE in 2011\n(2p100) it was concluded that these depended on assumptions made about long-term effects e.g. urinary incontinence in particular.\nUnder one set of assumptions PVB had an advantage of £87 per birth but under other assumptions PCS was actually more cost-effective\noverall even without accounting for LCFH.\n\nThe PCS rate of 9.7% was applied as the average value for the years 2005-2010 reported in NHS Hospital Episode Statistics (10).\nModeling for different rates would alter the relative costs by approximately £100 per percentage point, lower rates reducing the\ndifference between PCS and PVB and vice versa." + }, + { + "id": 122009, + "strid": "0040c91b-beb0-4b41-abc0-5f4ff7e2ee5c", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3352.437, + 3663.022, + 455.26900000000023, + 28.66300000000001 + ], + "priority": 20, + "parents": [ + 122027 + ], + "children": [ + 122022 + ], + "area": 12280050.484614, + "iscrowd": 0, + "segmentation": [], + "text": "DISCUSSION & CONCLUSION" + }, + { + "id": 122022, + "strid": "3c56d07c-33cd-4b80-9b0d-248e0ee6ffe7", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3347.106, + 3756.901, + 2146.4060000000004, + 1529.1710000000003 + ], + "priority": 21, + "parents": [ + 122009 + ], + "children": [], + "area": 12574745.878506001, + "iscrowd": 0, + "segmentation": [], + "text": "We do not believe it will come as much of a surprise to obstetricians, other health professionals or those involved with healthcare\nlitigation that planned vaginal birth should be so much more risky with respect to LCFH than planned Caesarean section. What may be\nsurprising to some, however, is the degree to which these risks and costs may now dominate the health economics of maternity care in\nEngland and that this has not so far been taken into consideration with respect to funding, improvement initiatives and other relevant\npolicies such as NHS Commissioning (13p14).\n\nThe reports and values used as the basis for our analysis are from authoritative sources. They are in the public domain and may easily\nbe accessed and checked. We believe our assumptions about the applicability of the data to be reasonable and in accordance with\nexperience. There is also, however, an alternative way of approaching the issue, which is to consider the number of additional CS\nprocedures required to prevent one case of cerebral palsy. In this regard any argument that intrapartum hypoxia does not cause CP is\nirrelevant since we are dealing with litigation costs and legal opinion does not support this. The figure is reported to be in the region of\n3,000-5,000 (14). That LCFH costs for individual cases now amount to £Emillions (in some cases tens of Emillions) provides separate\ncorroboration of our contention that obstetric LCFH costs have reached £thousands per birth and may be reduced by PCS.\n\nIn any normal business model indemnity costs would be included and insurers would adjust premiums according to risk. This is not\ncurrently the case with NICE economic models, which has implications for both obstetrics and the wider NHS. We believe we have\ndemonstrated PCS currently to be cost-effective or even more cost-effective than previously thought and that maternity LCFH costs\nmust surely be accounted for since they are so high relative to the costs of service provision. Until such time as these costs can be\nproved to be insignificant any analysis that ignores them risks criticism for not being rooted in the 'real world' potentially leading to\npolicies that are harmful, unfair, costly and missing out on opportunities for improvements.\n\nSerious adverse events in childbirth are rare. Women may truthfully be reassured that their risk of experiencing one is low but\nrisk/benefit evaluation also requires account to be taken of the severity of harm when it occurs. PCS has a different profile and\nincidence of medical complications from PVB and rational medical reasons may therefore inform and justify a woman's individual choice\naccording to her personal priorities, for which she deserves to be properly counselled. Failure to do so risks continuing the pattern and\nhistory of increasing claims for obstetric litigation and compensation for harm. The possibility and cost of medical error may be taken as\na proxy for risk and may reasonably form part of that choice. This may seem obvious in countries with variable or unpredictable\nstandards of obstetric care but appears to be a taboo subject in the UK. Against this background the promotion of 'normal birth' rather\nthan informed choice according to the views of health professionals and others as to what constitutes an ‘appropriate CS rate’ is thus\narguably patronising and perhaps consideration should be given as to whether as a notion it should be dropped.\n\nWhatever attitude is taken to CS rates and maternal choice Caesarean section in particular, however, this analysis shows that there is\ncurrently no justification to deny or discourage women from PCS on the grounds of cost." + }, + { + "id": 122023, + "strid": "da4a7828-0d57-4529-aa5c-8ede1ec40ac0", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3360.03, + 5384.841, + 796.0570000000002, + 37.94200000000001 + ], + "priority": 22, + "parents": [ + 122027 + ], + "children": [ + 122024 + ], + "area": 18093227.305230003, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENTS/CONELICTS OF INTERESTS" + }, + { + "id": 122024, + "strid": "a5d74a35-8994-4539-8baf-fcb4de070a0d", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3359.918, + 5435.647, + 2050.6149999999993, + 128.64800000000014 + ], + "priority": 23, + "parents": [ + 122023 + ], + "children": [], + "area": 18263328.196946, + "iscrowd": 0, + "segmentation": [], + "text": "The authors have no conflicts of interest to declare.\nPauline Hull of the Caesarean Birth Organisation and Maria Booker of the Birthrights Charity kindly helped source some references\nNHS Resolution staff provided a helpful discussion of their published Annual Reports and Accounts" + }, + { + "id": 122025, + "strid": "d22ff4af-f64a-4a17-946c-9c9828563321", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 101.359, + 4598.468, + 240.515, + 39.63299999999981 + ], + "priority": 24, + "parents": [ + 122027 + ], + "children": [ + 122026 + ], + "area": 466096.11801199993, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 122026, + "strid": "eedfa5f4-a740-4446-ac7b-75409cd70f3c", + "image_id": 205249, + "image_name": "14510.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 101.392, + 4655.206, + 3129.049, + 871.1620000000003 + ], + "priority": 25, + "parents": [ + 122025 + ], + "children": [], + "area": 472000.646752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120348, + "strid": "9d6db63b-eae2-490f-b1ce-1d43001e5e6c", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 559.62, + 62.28, + 147.51, + 120.68 + ], + "priority": -1, + "parents": [], + "children": [ + 120340, + 120345, + 120336, + 120332, + 120334, + 120333 + ], + "area": 34853.1336, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120332, + "strid": "1c52d5e2-1fad-4638-9eb9-7ccc6e349f3d", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 853.845, + 31.471, + 1773.7550000000003, + 182.3 + ], + "priority": 1, + "parents": [ + 120348 + ], + "children": [], + "area": 26871.355995, + "iscrowd": 0, + "segmentation": [], + "text": "SPARQL-Powered Search Engine and RESTful APIs for\nProtein Ontology" + }, + { + "id": 120333, + "strid": "66dfdefe-2aec-4127-908a-fe516a271519", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 828.821, + 223.615, + 1827.112, + 153.897 + ], + "priority": 2, + "parents": [ + 120348 + ], + "children": [], + "area": 185336.807915, + "iscrowd": 0, + "segmentation": [], + "text": "Xiang Lit, Chuming Chen+, Hongzhan Huang}, Darren A. Natale2, Cecilia N. Arighit, Cathy H. Wut\n\n1 Protein Information Resource, Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19711, USA\n2 Protein Information Resource, Georgetown University Medical Center, Washington, D. C., 20007, USA" + }, + { + "id": 120334, + "strid": "d0ad5214-3465-4e25-89ac-96fce145e4d3", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1560.361, + 425.104, + 474.5640000000001, + 69.02800000000002 + ], + "priority": 3, + "parents": [ + 120348 + ], + "children": [ + 120335 + ], + "area": 663315.702544, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 120335, + "strid": "8487fcef-e518-46e8-9aa1-a0d02a74fb11", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.077, + 504.567, + 3373.193, + 441.26099999999997 + ], + "priority": 4, + "parents": [ + 120334 + ], + "children": [], + "area": 57054.922659, + "iscrowd": 0, + "segmentation": [], + "text": "The Protein Ontology (PRO) represents protein-related entities, ranging from broad protein families down to very specific proteoforms, and protein complexes. We currently use a\nrelational database to store not only the ontology itself, but also other information, such as orthology, annotation and cross-reference information. Data integration and information\nretrieval can be efficiently achieved using the powerful Semantic Web technologies. Once data are converted into the widely used Resource Description Framework (RDF) format, they\ncan be queried using the SPARQL language. In this work, we investigate the use of Semantic Web technologies to power the PRO website. We studied the content and organization of\ndata source and extracted the relevant information. This was converted into RDF triples (10,657,089 in total, PRO release 56.0) and integrated into a Virtuoso RDF store. We then\ndeveloped a SPARQL-powered search engine to query the resulting RDF database to handle full-scale text search and hierarchy browsing for the PRO website. Tests reveal that we\nachieved a performance similar to the Apache Lucene-based search engine in current use. We also developed RESTful APIs for programmatic access to the PRO based on the new search\nengine. The SPARQL-powered PRO text search website and the PRO APIs are accessible at https://proconsortium.org/rdf_based." + }, + { + "id": 120336, + "strid": "c5470b11-2f8a-4b3b-bcba-28e61727d496", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 156.126, + 1003.046, + 1366.473, + 87.99299999999994 + ], + "priority": 5, + "parents": [ + 120348 + ], + "children": [ + 120338, + 120337, + 120339 + ], + "area": 156601.55979600002, + "iscrowd": 0, + "segmentation": [], + "text": "Data Integration and Semantic Web" + }, + { + "id": 120338, + "strid": "48cf7256-5fe3-4214-8741-a2e4c7abe503", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 118.871, + 1094.717, + 1445.068, + 483.1489999999999 + ], + "priority": 6, + "parents": [ + 120336 + ], + "children": [], + "area": 130130.10450700001, + "iscrowd": 0, + "segmentation": [], + "text": "As the volume and diversity of data and the desire to share them increase, we\ninevitably encounter the problems of combining heterogeneous data\ngenerated from many different but related sources and providing users with a\nunified view of this combined data set. These problems emerge in the life\nsciences research community, where research data from different\nbioinformatics data repositories and laboratories need to be combined and\nanalyzed. The benefit of developing a data integration system is that it can\nfacilitate information access and reuse by providing a common access point. It\nalso provides users with more complete view of the available information." + }, + { + "id": 120337, + "strid": "2d2e0b7f-4468-4020-a56e-56196c2cb28d", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1592.569, + 1028.531, + 1870.455, + 561.741 + ], + "priority": 7, + "parents": [ + 120336 + ], + "children": [], + "area": 1638006.5861389998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120339, + "strid": "247a3f5b-ed72-4149-94d5-a7a512f00698", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.899, + 1600.849, + 3337.801, + 219.87400000000002 + ], + "priority": 8, + "parents": [ + 120336 + ], + "children": [], + "area": 167927.459251, + "iscrowd": 0, + "segmentation": [], + "text": "Semantic Web provides the requisite technologies to make such integration possible: 1) an abstract model for the relational graphs: RDF; 2) a query language adapted for the relational\ngraphs: SPARQL; and 3) various technologies to characterize the relationships and categorize resources: RDFS (RDF Schemas), OWL (Web Ontology Language) etc. In life sciences,\nSemantic Web technologies have been used to build and provide the largest network of Linked data by defining a set of simple conventions to create RDF(s) compatible Linked Data\nfrom a diverse set of heterogeneously formatted sources obtained from multiple data providers." + }, + { + "id": 120340, + "strid": "0e712601-76bf-4184-b3da-40bdb942bc7c", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 390.965, + 1875.283, + 654.615, + 88.29300000000012 + ], + "priority": 9, + "parents": [ + 120348 + ], + "children": [ + 120343, + 120342, + 120341, + 120344 + ], + "area": 733170.018095, + "iscrowd": 0, + "segmentation": [], + "text": "Protein Ontology" + }, + { + "id": 120341, + "strid": "82061758-36ea-46b5-9667-a6467d84b404", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 114.79, + 1967.441, + 1199.533, + 474.1650000000002 + ], + "priority": 10, + "parents": [ + 120340 + ], + "children": [], + "area": 225842.55239000003, + "iscrowd": 0, + "segmentation": [], + "text": "Protein Ontology (PRO) (https://proconsortium.org/pro/\npro.shtml) represents protein-related entities. Each PRO term\nrepresents a distinct class of entities (including specific modified\nforms, orthologous isoforms, and protein complexes) ranging\nfrom the taxon-neutral to the taxon-specific. In addition to the\nmain ontology file itself (in OBO or OWL format), PRO databases\ndraw on sources that provide orthology, annotation, and\nmapping information, as well as sequence-related data, including\namino acid and splice variants and multiple sequence alignments." + }, + { + "id": 120342, + "strid": "66b51754-f103-4783-bd95-333d264948dd", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1349.123, + 1887.31, + 1129.042, + 568.7179999999998 + ], + "priority": 11, + "parents": [ + 120340 + ], + "children": [], + "area": 2546213.32913, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120343, + "strid": "a171c68b-88f9-40b9-8dd7-6d5b03968215", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2522.236, + 1885.211, + 904.4929999999999, + 581.3099999999997 + ], + "priority": 12, + "parents": [ + 120340 + ], + "children": [], + "area": 4754947.0517959995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120344, + "strid": "a5ed152e-e2ca-4cb8-815b-002be79a1aa7", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 103.387, + 2494.631, + 3302.839, + 165.57799999999997 + ], + "priority": 13, + "parents": [ + 120340 + ], + "children": [], + "area": 257912.415197, + "iscrowd": 0, + "segmentation": [], + "text": "These contribute to the underlying data, supporting the PRO website to provide PRO entry view, batch retrieval and search functionalities. The PRO website is currently hosted in two\nplaces: University of Delaware for entry page and visualization, and Georgetown University for text search and browse. The dual-site structure requires that data files be duplicated\nand overlapped, thus creating website maintenance issues." + }, + { + "id": 120345, + "strid": "f3910a73-c20f-45d1-bdf8-91e6af87f7b1", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1153.402, + 2688.984, + 1194.1999999999998, + 87.99400000000014 + ], + "priority": 14, + "parents": [ + 120348 + ], + "children": [ + 120347, + 120346 + ], + "area": 3101479.523568, + "iscrowd": 0, + "segmentation": [], + "text": "Search Engine and RESTful APls" + }, + { + "id": 120346, + "strid": "982ff199-f664-45a0-a37b-362c05267fd4", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 220.18, + 2812.231, + 3084.156, + 1276.726 + ], + "priority": 15, + "parents": [ + 120345 + ], + "children": [], + "area": 619197.0215800001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 120347, + "strid": "1485be94-abed-4032-9e60-5ab95c43224f", + "image_id": 205186, + "image_name": "14414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 150.031, + 4108.77, + 2773.347, + 594.848 + ], + "priority": 16, + "parents": [ + 120345 + ], + "children": [], + "area": 616442.87187, + "iscrowd": 0, + "segmentation": [], + "text": "To streamline the update process and to remove redundancy, we explored simplifying the data integration for the PRO database using Semantic Web\ntechnology. We studied the content and organization of each data source, identified and extracted relevant information, converted them into RDF\ntriples, and integrated them into a Virtuoso RDF triple store. We then developed a Virtuoso/SPARQL based search engine for the full-scale text search\nand hierarchy browsing of PRO website using Virtuoso full text search in SPARQL. Tests reveal that we achieved comparable performance as compared\nto the Apache Lucene-based search engine in current use. We also developed RESTful APIs for programmatic access to the PRO database based on the\nnew search engine. The API specification was designed using Swagger Editor based on Open API Specification 3. Swagger UI was used to visualize and\ninteract with the API’s resources automatically generated from API specifications. The PRO APIs include 8 API operation groups and 33 access paths,\nand are implemented using Django-REST framework.\n\nOur results indicate that: 1) RDF facilitates integration of the heterogeneous data for PRO database; 2) the SPARQL-based search engine is powerful\nenough to support PRO’s need for full-scale text search, hierarchy browsing and RESTful APIs." + }, + { + "id": 62347, + "strid": "85d48cb7-eabd-418d-9356-064899401bfd", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 430.78, + 162.5, + 220.09000000000003, + 289.59 + ], + "priority": -1, + "parents": [], + "children": [ + 62328, + 62326, + 62325, + 62329, + 62324, + 62327, + 62322, + 62323 + ], + "area": 70001.75, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62322, + "strid": "13185025-3119-48dd-a6c6-a6e8c12f3138", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 997.088, + 98.5, + 2787.74, + 225.27800000000002 + ], + "priority": 1, + "parents": [ + 62347 + ], + "children": [], + "area": 98213.16799999999, + "iscrowd": 0, + "segmentation": [], + "text": "Depression Severity Predicts Striatat Reactivity to Positive\n7 . RN\nSocial Cues in Anxiety Disorders _.c®" + }, + { + "id": 62323, + "strid": "10e9ab6c-b5ff-4705-afb4-686d57206ef1", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 934.652, + 339.825, + 2910.021, + 170.543 + ], + "priority": 2, + "parents": [ + 62347 + ], + "children": [], + "area": 317618.1159, + "iscrowd": 0, + "segmentation": [], + "text": "Daniel A. Fitzgerald':2 K. Chau’, Christine A. Rabin Amy E. Kennedy'?, Heide Klumpp. Luan Phant2 q\n\n‘Mood and Anxiety Disorders Resbarch Program, Psychiatry, University of iRals at Chicago, Chicago, IL, @Mental Health e Line, Jesse Brown Veterans\nAdminiStration Medical Center, Chicago, IL, 7Department of Psychiatry, University of Michigan, Ann Atbor, MI, USA" + }, + { + "id": 62324, + "strid": "64607c0e-a0cd-40a9-a13f-5f0578822829", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 730.843, + 588.626, + 470.1829999999999, + 52.11699999999996 + ], + "priority": 3, + "parents": [ + 62347 + ], + "children": [ + 62330 + ], + "area": 430193.191718, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62330, + "strid": "1e2cd67a-60b8-49d5-88be-fd6d3abbf23b", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 78.796, + 673.818, + 1811.961, + 524.875 + ], + "priority": 4, + "parents": [ + 62324 + ], + "children": [], + "area": 53094.163128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62325, + "strid": "cffc54d4-d7da-43a9-86c6-1010f22e7a25", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 859.269, + 1223.997, + 307.231, + 51.950000000000045 + ], + "priority": 5, + "parents": [ + 62347 + ], + "children": [ + 62332, + 62331, + 62333 + ], + "area": 1051742.6781930001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62331, + "strid": "e1da4859-bb2f-4abb-997f-85788ef298e1", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 78.011, + 1307.849, + 1634.031, + 325.297 + ], + "priority": 6, + "parents": [ + 62325 + ], + "children": [], + "area": 102026.60833899998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62332, + "strid": "b25ccbd1-9370-443c-bab6-579feca77af1", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.945, + 1669.511, + 1830.698, + 458.3159999999998 + ], + "priority": 7, + "parents": [ + 62325 + ], + "children": [], + "area": 130130.03489499999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62333, + "strid": "37dfde04-71ec-4fb1-9b0a-b602d4c542d1", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 79.023, + 2165.724, + 1814.599, + 412.74699999999984 + ], + "priority": 8, + "parents": [ + 62325 + ], + "children": [], + "area": 171142.007652, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62326, + "strid": "3aec35d9-702e-44a9-b673-db918c515048", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 782.612, + 2639.213, + 462.3849999999999, + 53.766000000000076 + ], + "priority": 9, + "parents": [ + 62347 + ], + "children": [ + 62342, + 62343 + ], + "area": 2065479.764356, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62343, + "strid": "5f4d789a-6e13-4b25-91b4-237600689eb8", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 113.818, + 2931.952, + 1004.512, + 595.1030000000001 + ], + "priority": 10, + "parents": [ + 62326 + ], + "children": [ + 62338 + ], + "area": 333708.912736, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62338, + "strid": "1b710ea6-16b8-461e-ad36-0a88da7cd6f1", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 97.33, + 2736.578, + 1021.689, + 182.4029999999998 + ], + "priority": 11, + "parents": [ + 62343 + ], + "children": [], + "area": 266351.13674, + "iscrowd": 0, + "segmentation": [], + "text": "emotional face trials (fear, angry, happy ated with\nblocks of geometric shape trials (circle, gle, square),\nwith each block lasting 20 seconds. . Q,\n\nBigure 1. Emotional face assessment task: ‘Blocks of\nae" + }, + { + "id": 62342, + "strid": "7b8110db-6681-435f-bad1-1ceb755ec9b9", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1194.945, + 2780.951, + 781.1189999999999, + 763.7129999999997 + ], + "priority": 12, + "parents": [ + 62326 + ], + "children": [ + 62337 + ], + "area": 3323083.492695, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62337, + "strid": "7bf421b5-a9f7-4655-87fc-0a278f0b3856", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1195.116, + 2734.16, + 766.1570000000002, + 37.072000000000116 + ], + "priority": 13, + "parents": [ + 62342 + ], + "children": [], + "area": 3267638.36256, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Participant Demographic Characteristics" + }, + { + "id": 62329, + "strid": "04304a12-87a7-464f-8483-4de66d5b6d9d", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3232.952, + 588.422, + 283.3760000000002, + 53.537000000000035 + ], + "priority": 14, + "parents": [ + 62347 + ], + "children": [ + 62345, + 62334, + 62346, + 62344 + ], + "area": 1902340.0817440003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62344, + "strid": "051befe3-77ab-44e2-b786-9eb33d41f6cc", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2034.391, + 808.466, + 2641.597, + 806.398 + ], + "priority": 15, + "parents": [ + 62329 + ], + "children": [ + 62339 + ], + "area": 1644735.954206, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62339, + "strid": "c9136cb2-34c7-4e54-adc6-42bf859a4268", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2022.703, + 691.454, + 2704.9189999999994, + 102.11000000000001 + ], + "priority": 16, + "parents": [ + 62344 + ], + "children": [], + "area": 1398606.080162, + "iscrowd": 0, + "segmentation": [], + "text": "Fi 2. Happy > Shapes (Negative BDI & ID Correlations): Correlation maps s pyidg bilateral caudate with extracted para r\niaates from left and right caudate plotte inst BDI & HAMD scores\n\n," + }, + { + "id": 62345, + "strid": "0558dc9a-3e76-4ed8-9bdf-820e4d0c49a8", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1992.42, + 1820.082, + 1577.795, + 527.7850000000001 + ], + "priority": 17, + "parents": [ + 62329 + ], + "children": [ + 62340 + ], + "area": 3626367.7784400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62340, + "strid": "79142546-f13d-419b-99ef-6553b7803f8c", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2020.633, + 1649.91, + 1493.543, + 155.71399999999994 + ], + "priority": 18, + "parents": [ + 62345 + ], + "children": [], + "area": 3333862.59303, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Happy > Shapes (Negati 3D! Correlations): Correlation\nmaps showing A) Right Anterior-Cingulate and B) Left Medial-Frontal Gyrus\nwith extracted parameter ostimates. (fted against BDI scores" + }, + { + "id": 62346, + "strid": "b9649bcc-7f62-4315-853b-08f21af9903e", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3612.147, + 1774.038, + 1107.7579999999998, + 529.183 + ], + "priority": 19, + "parents": [ + 62329 + ], + "children": [ + 62341 + ], + "area": 6408086.039586, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62341, + "strid": "3a1d34b7-79f7-4d2c-a725-34948cb685f4", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3616.707, + 1645.247, + 1082.274, + 96.57500000000005 + ], + "priority": 20, + "parents": [ + 62346 + ], + "children": [], + "area": 5950376.341629, + "iscrowd": 0, + "segmentation": [], + "text": "Figure Fear > Shapes (Control condition): Extracted parameter estimatés from A)\nRight Caudate, C) Right Anterior-Cingulate and D) Left Medi. ital Gyrus\npl d against BDI depression index" + }, + { + "id": 62334, + "strid": "a338b977-bb9c-487e-bb4b-038f259cf78f", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2021.496, + 2361.42, + 2659.0119999999997, + 260.0749999999998 + ], + "priority": 21, + "parents": [ + 62329 + ], + "children": [], + "area": 4773601.08432, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62328, + "strid": "c50cfb24-a566-49ff-9e15-da0577f5ebe8", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2952.73, + 2669.474, + 726.1680000000001, + 55.05699999999979 + ], + "priority": 22, + "parents": [ + 62347 + ], + "children": [ + 62335 + ], + "area": 7882235.964020001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62335, + "strid": "02cc11d2-0b75-4d63-a4d5-04b8081d465a", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2022.257, + 2762.987, + 2706.806, + 546.288 + ], + "priority": 23, + "parents": [ + 62328 + ], + "children": [], + "area": 5587469.801659, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62327, + "strid": "c11483cd-b031-426e-a4c5-a018411e1e77", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3136.017, + 3358.945, + 472.625, + 52.514000000000124 + ], + "priority": 24, + "parents": [ + 62347 + ], + "children": [ + 62336 + ], + "area": 10533708.622065, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 62336, + "strid": "26e23d38-424d-4b0a-aed4-527c594a66de", + "image_id": 202956, + "image_name": "119500.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2021.96, + 3438.187, + 2702.0739999999996, + 112.39499999999998 + ], + "priority": 25, + "parents": [ + 62327 + ], + "children": [], + "area": 6951876.58652, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by the Department of Veterans Affairs Merit Review Program Award (to KLP) and by the National\nInstitutes of Health grants MHI 98 (to KLP) and MH903679 (to HK)" + }, + { + "id": 172835, + "strid": "ca836a1a-f819-483d-bf54-27c14e4e8d0d", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2966.2, + 64.79, + 180.33000000000038, + 105.84999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 172816, + 172820, + 172817, + 172818, + 172819, + 172815, + 172821 + ], + "area": 192180.098, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172815, + "strid": "b0dc26f5-459e-4eb4-8021-942ae1e545f7", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 104.124, + 65.609, + 1158.34, + 46.057 + ], + "priority": 1, + "parents": [ + 172835 + ], + "children": [], + "area": 6831.471515999999, + "iscrowd": 0, + "segmentation": [], + "text": "Effects of music on pain in patients with fibromyalgia" + }, + { + "id": 172816, + "strid": "78595e0c-6df0-47fb-8a58-5647a2c671e5", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 94.27, + 113.065, + 2780.35, + 121.338 + ], + "priority": 2, + "parents": [ + 172835 + ], + "children": [], + "area": 10658.63755, + "iscrowd": 0, + "segmentation": [], + "text": "Giller Balci Alparslan'- Burcu Babadag'- Ayse Ozkaraman’: Pinar Yildiz?- Anmet Musmul® - Cengiz Korkmaz*\n‘Department of Nursing, Eskisehir Osmangazi University, Eskigehir School of Health @Department of Internal Medicine, Eskisehir Osmangazi University, School of Medicine\n8Department of Biostatistics, Eskisehir Osmangazi University, School of Medicine “Department of Internal Medicine and Rheumatology, Eskisehir Osmangazi University,School of Medicine" + }, + { + "id": 172817, + "strid": "696d3e2b-e997-4afe-ab51-38043b627d87", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 90.87, + 299.286, + 251.89099999999996, + 26.646000000000015 + ], + "priority": 3, + "parents": [ + 172835 + ], + "children": [ + 172822 + ], + "area": 27196.11882, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172822, + "strid": "55ef8d57-a9ea-44ff-9487-d82236594110", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 88.018, + 342.173, + 854.057, + 343.783 + ], + "priority": 4, + "parents": [ + 172817 + ], + "children": [], + "area": 30117.383114, + "iscrowd": 0, + "segmentation": [], + "text": "Fibromyalgia syndrome (FMS) is a chronic syndrome\ncharacterized by diffuse musculoskeletal system pain and\npainful tender points in certain areas of the body.It is\nsuggested that nonpharmacologic treatment may be also\neffective in addition to pharmacological treatment. Music\nmay be suggested as a nonpharmacological treatment for\nFMS. Therefore, this study was carried out to assess the\neffect of the music on the pain in FMS patients." + }, + { + "id": 172818, + "strid": "bdc3dbe4-5043-4ae9-aa7d-f802cc058a50", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 89.79, + 739.634, + 446.204, + 26.879999999999995 + ], + "priority": 5, + "parents": [ + 172835 + ], + "children": [ + 172823 + ], + "area": 66411.73686, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172823, + "strid": "af98ce33-b29f-42ec-8c35-f6487942b323", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.499, + 783.52, + 855.46, + 473.97399999999993 + ], + "priority": 6, + "parents": [ + 172818 + ], + "children": [], + "area": 68557.21647999999, + "iscrowd": 0, + "segmentation": [], + "text": "This randomized clinical trial was carried out with 37\nfibromyalgia outpatients as an experimental group n=21\nand control group n=16 at a University Hospital Internal\nMedicine and Rheumatology Clinic between 1 June-1\nDecember 2014. The research instruments were used a\nDescriptive Characteristics Questionnaire, Visual\nAnalogue Scale(VAS), music CD which is including water\nand wave sounds is recommended by the Turkish\nPsychological Association for psychological relaxation\nand Pain Evaluation Form. Statistical analysis was\nperformed by using IBM SPSS 20.0 package program." + }, + { + "id": 172819, + "strid": "9f5c4b96-369a-45e4-865b-54d90f18da80", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 90.876, + 1310.016, + 149.848, + 27.54600000000005 + ], + "priority": 7, + "parents": [ + 172835 + ], + "children": [ + 172827, + 172829, + 172830, + 172831, + 172825, + 172833, + 172824, + 172832 + ], + "area": 119049.01401600002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172824, + "strid": "9ae12493-7366-40b0-9880-13f6abcdcdac", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.111, + 1348.341, + 855.275, + 276.674 + ], + "priority": 8, + "parents": [ + 172819 + ], + "children": [], + "area": 117455.332851, + "iscrowd": 0, + "segmentation": [], + "text": "Sociodemographic, Disease and _ Pain-Related\nFactors\n\nThe mean age for all patients was 43.59+10.30 years\nwith 94.6% are being female, 40.5% are being primary\nschool graduates and 81.1% are being married.The\nmean disease duration of the patients was 23.62+45.58\nmonths (min:1; max:20 years)." + }, + { + "id": 172830, + "strid": "a03e013f-2d45-46df-9ddc-10be5eb4936e", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 978.418, + 343.807, + 900.1149999999999, + 602.111 + ], + "priority": 9, + "parents": [ + 172819 + ], + "children": [ + 172812 + ], + "area": 336386.95732600003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172812, + "strid": "56ff4106-1f57-455b-9aca-ee3cafb048c1", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 987.163, + 285.356, + 663.74, + 34.384000000000015 + ], + "priority": 10, + "parents": [ + 172830 + ], + "children": [], + "area": 281692.885028, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 Sociodemographic characteristics" + }, + { + "id": 172829, + "strid": "0942e996-419b-4786-96f2-92db7529f3ca", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 986.503, + 951.138, + 212.67700000000002, + 53.87800000000004 + ], + "priority": 11, + "parents": [ + 172819 + ], + "children": [], + "area": 938300.4904140001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172825, + "strid": "beaf1907-787a-48ab-8c52-50753aaa211b", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 983.635, + 1059.119, + 877.0240000000001, + 586.8610000000001 + ], + "priority": 12, + "parents": [ + 172819 + ], + "children": [], + "area": 1041786.5175649999, + "iscrowd": 0, + "segmentation": [], + "text": "In the initial interview with the patient, general pain severity\nwas evaluated by using VAS in which a mean score of\n6.89+1.64 was obtained. Of the patients, 56.8% reported\nthat they have another disease other than fibromyalgia.\nControl and intervention groups were found to be similar in\nterms of sociodemographic characteristics such as age\nand gender (p>0.05) (Table 1).\n\nVAS scores comparations\n\nThe mean VAS score in the intervention group changed\nfrom 5.45+2.73 on Day 1 to 4.57+2.71 on Day 7 and\n4.14+2.45 on Day 14 with a significant decrease in pain\nseverity in the intervention group of patients who had\nlistened to the music (p=0.026) (Table 2)." + }, + { + "id": 172831, + "strid": "68caae05-4c37-4b9c-bec2-2a4f2a528c81", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1940.731, + 431.651, + 843.5359999999998, + 339.768 + ], + "priority": 13, + "parents": [ + 172819 + ], + "children": [ + 172813 + ], + "area": 837718.476881, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172813, + "strid": "49f553d2-0274-42b1-a5c9-c8c2e38588c6", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1924.478, + 297.555, + 845.8240000000001, + 35.678 + ], + "priority": 14, + "parents": [ + 172831 + ], + "children": [], + "area": 572638.0512900001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2 VAS scores in the intervention group by days" + }, + { + "id": 172833, + "strid": "da5cc424-c4dc-4709-8cb5-d8e7330c8471", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1947.759, + 782.116, + 113.99299999999994, + 20.851999999999975 + ], + "priority": 15, + "parents": [ + 172819 + ], + "children": [], + "area": 1523373.478044, + "iscrowd": 0, + "segmentation": [], + "text": "° Tukey Test" + }, + { + "id": 172827, + "strid": "d6dbb807-cc8f-4474-8cab-45bffbb3f546", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1947.184, + 848.219, + 815.4799999999998, + 233.4090000000001 + ], + "priority": 16, + "parents": [ + 172819 + ], + "children": [], + "area": 1651638.465296, + "iscrowd": 0, + "segmentation": [], + "text": "Repeated measures showed a significant difference\nbetween VAS scores on Day 1 and 14 (p=0.022)(Table\n2). The mean VAS score in the control group changed\nfrom 6.25+2.41 on Day 1 to 5.68+3.28 on Day 7 and\n5.40+3.11 on Day 14 with no statistically significant\ndifference (p=0.853)(Table 3)." + }, + { + "id": 172832, + "strid": "4e12796e-044b-4c2f-bb4f-30db81398afb", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1932.003, + 1126.668, + 872.992, + 256.5429999999999 + ], + "priority": 17, + "parents": [ + 172819 + ], + "children": [ + 172814 + ], + "area": 2176725.956004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172814, + "strid": "b39cc2a0-8559-4e47-b3c4-7251d0c5d4dc", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1924.916, + 1389.529, + 486.38699999999994, + 22.207000000000107 + ], + "priority": 18, + "parents": [ + 172832 + ], + "children": [], + "area": 2674726.604564, + "iscrowd": 0, + "segmentation": [], + "text": "2Friedman Repeated measures Analysis of Variance" + }, + { + "id": 172820, + "strid": "b037de80-bfe5-4e2f-bfeb-a4a1008bef9e", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1938.783, + 1446.201, + 223.9409999999998, + 26.873000000000047 + ], + "priority": 19, + "parents": [ + 172835 + ], + "children": [ + 172826, + 172828 + ], + "area": 2803869.913383, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172826, + "strid": "8cc10f76-f2ca-4405-855f-64102a4703a0", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1938.972, + 1526.452, + 870.3529999999998, + 114.92200000000003 + ], + "priority": 20, + "parents": [ + 172820 + ], + "children": [], + "area": 2959747.6873439997, + "iscrowd": 0, + "segmentation": [], + "text": "Pain is one of the most important symptoms of FMS and\nmany other diseases and the pain management includes\nseveral non-pharmacological methods" + }, + { + "id": 172828, + "strid": "5f94817b-69f2-4c43-b61e-172173752178", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2838.54, + 308.163, + 773.556, + 436.289 + ], + "priority": 21, + "parents": [ + 172820 + ], + "children": [], + "area": 874733.00202, + "iscrowd": 0, + "segmentation": [], + "text": "Physicians and Nurses provide the painful\nfibromyalgia patients to use the music therapy as a\ncomplementary treatment method, helping to\nreduce the complaints and to increase the\nrelaxation, happiness and competence feelings.\n\nIn conclusion, music therapy being a _non-\npharmacological nursing intervention for pain\nmanagement in fibromyalgia patients is\nrecommended to be used in this group of patients\nand to be studied on larger study samples." + }, + { + "id": 172821, + "strid": "ac8234b2-ea77-4464-bedb-c07eca0dc2fc", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2840.859, + 789.704, + 225.42799999999988, + 27.30499999999995 + ], + "priority": 22, + "parents": [ + 172835 + ], + "children": [ + 172834 + ], + "area": 2243437.715736, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172834, + "strid": "0ef1b352-53cd-4a92-bba4-b06c4880cc48", + "image_id": 207247, + "image_name": "7182.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2845.043, + 917.828, + 788.7710000000002, + 658.826 + ], + "priority": 23, + "parents": [ + 172821 + ], + "children": [], + "area": 2611260.126604, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40957, + "strid": "bdc4745e-6a7b-4253-b3b5-af00feba3fe0", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 3564.05, + 107.87, + 302.6999999999998, + 302.71 + ], + "priority": -1, + "parents": [], + "children": [ + 40938, + 40936, + 40948, + 40944, + 40937 + ], + "area": 384454.07350000006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40936, + "strid": "bd808bf8-ae89-4501-a220-3284dcf048f9", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 197.469, + 186.59, + 3290.727, + 288.42999999999995 + ], + "priority": 1, + "parents": [ + 40957 + ], + "children": [], + "area": 36845.74071, + "iscrowd": 0, + "segmentation": [], + "text": "a\nACO EL\n=> = s €\nhe a= Y c rc JS\n—=— Yr 2 Te" + }, + { + "id": 40937, + "strid": "c2dbfc8a-7726-4dfc-b626-aac40e79cfec", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 232.43, + 625.179, + 3548.566, + 222.87800000000004 + ], + "priority": 2, + "parents": [ + 40957 + ], + "children": [], + "area": 145310.35497, + "iscrowd": 0, + "segmentation": [], + "text": "i a ee ee —\nJianjun Wang*, Ji Shen1, Yucheng-Wu, Chen Tu,Janne Soininen, James C. Stegen, Jizheng He,.Xingqi Liu, Lu Zhang, Enlou Zhang\nState Key Laboratory of Lake Science and Environment Ze Institute of pS an ll EIS) eS ave eu) of Salley Tal Lal 210008 China\n*Contact: JJWang@niglas.ac.cn; COE Te" + }, + { + "id": 40938, + "strid": "3c3f17bd-b770-4e5b-8007-ab736d9dcc58", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 84.781, + 914.198, + 459.743, + 91.65300000000002 + ], + "priority": 3, + "parents": [ + 40957 + ], + "children": [ + 40940, + 40941, + 40939 + ], + "area": 77506.62063800001, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 40939, + "strid": "38893910-4e3d-42f1-9c42-d7634d315752", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 71.447, + 1051.689, + 2377.983, + 683.2259999999999 + ], + "priority": 4, + "parents": [ + 40938 + ], + "children": [], + "area": 75140.023983, + "iscrowd": 0, + "segmentation": [], + "text": "Increasing evidence has emerged for non-random spatial distributions of microbes, but knowledge ~\nof the processes that cause variation in microbial assemblage among ecosystems is lacking. For ’\ninstance, some studies showed that deterministic processes such as habitat specialization are\nimportant, while other studies hold that bacterial communities are assembled by stochastic forces.\n\nHere we examine the relative influence of deterministic and stochastic processes for bacterial\ncommunities from subsurface environments, stream biofilm, lake water, lake sediment and soil using\npyrosequencing of the 16S rRNA gene. We characterized patterns of spatial turnover in the\nphylogenetic composition of microbial communities, and inferred processes by comparing phylogenetic\nturnover to null model expectations based on the detection of phylogenetic signal in microbial habitat\nassociations." + }, + { + "id": 40940, + "strid": "48f7de22-2ac0-42a5-b93c-52a74094e49f", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2413.493, + 862.041, + 918.8710000000001, + 655.6140000000001 + ], + "priority": 5, + "parents": [ + 40938 + ], + "children": [ + 40942 + ], + "area": 2080529.919213, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40942, + "strid": "098405b5-188b-4772-924b-5cf262089577", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2551.105, + 1718.867, + 928.674, + 42.89300000000003 + ], + "priority": 6, + "parents": [ + 40940 + ], + "children": [], + "area": 4385010.198035, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. The sampling locations from various habitats." + }, + { + "id": 40941, + "strid": "58fb4267-85c1-412f-aa56-a65205c2e8b6", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3055.677, + 1362.592, + 874.0480000000002, + 337.2629999999999 + ], + "priority": 7, + "parents": [ + 40938 + ], + "children": [ + 40943 + ], + "area": 4163641.0347840004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40943, + "strid": "1b7bebe0-19b2-4b12-8ac6-669c276a503e", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2552.476, + 1767.96, + 1274.0729999999999, + 45.50299999999993 + ], + "priority": 8, + "parents": [ + 40941 + ], + "children": [], + "area": 4512675.46896, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Brief description of the sample groups with different habitat types." + }, + { + "id": 40944, + "strid": "2f71e461-dfce-4ec3-ad28-f117dc068eb6", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1826.934, + 1792.878, + 281.9440000000002, + 81.85500000000002 + ], + "priority": 9, + "parents": [ + 40957 + ], + "children": [ + 40946, + 40953, + 40950, + 40947, + 40954 + ], + "area": 3275469.776052, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 40950, + "strid": "8efa5b5e-afb7-4dcb-956f-86e04b52f7c1", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 27.728, + 1831.749, + 1984.411, + 1074.197 + ], + "priority": 10, + "parents": [ + 40944 + ], + "children": [ + 40952, + 40951 + ], + "area": 50790.736272, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40951, + "strid": "dbed359b-cd8d-4f46-9ef2-2406f1412348", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 40.04, + 2915.647, + 957.073, + 368.47299999999996 + ], + "priority": 11, + "parents": [ + 40950 + ], + "children": [], + "area": 116742.50588, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 Pearson correlation resulting from Mantel\ncorrelogram between the pairwise matrix of OTU niche\ndistances and phylogenetic distances (with Jukes-Cantor\nmodel) for each sample group with 9,999 permutations.\nSignificant correlations (P < 0.05, solid circles) indicate\nphylogenetic signal in species ecological niches, and were\nconsistently found across short phylogenetic distances for all\nsample groups." + }, + { + "id": 40952, + "strid": "8b3b609e-bc5e-43eb-9cdc-e210d111d935", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1037.048, + 2915.963, + 1104.869, + 413.94299999999976 + ], + "priority": 12, + "parents": [ + 40950 + ], + "children": [], + "area": 3023993.5972240004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. The relationships between unweighted Unifrac and spatial\nchange for different sample groups. (A-D) Lake surface sediments; (E,\nF) lake subsurface sediments; (G) soils; (H) stream biofilm and (I) Lake\nwater. The regression slopes of the linear relationships based on\nGaussian generalized model are shown with solid (statistically\nsignificant, ranked Mantel test, 9,999 permutations, P< 0.05) or J\ndashed (statistically non-significant, P > 0.05) lines. The significant\nslope (unweighted Unifrac per 10? km) is shown at the corner of each\nsample group panel." + }, + { + "id": 40953, + "strid": "cdf5201c-40f8-4282-b8cd-419d76789bfa", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 15.831, + 3367.098, + 1153.268, + 774.6610000000001 + ], + "priority": 13, + "parents": [ + 40944 + ], + "children": [ + 40956 + ], + "area": 53304.528438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40956, + "strid": "6debec17-783a-4eea-9b5e-7b76fd0a108e", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 19.212, + 4225.948, + 1059.414, + 188.6790000000001 + ], + "priority": 14, + "parents": [ + 40953 + ], + "children": [], + "area": 81188.912976, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Non-metric multidimensional scaling plots (A and C), or\nboxplots (B and D) of community dissimilarities within habitat\ngroups using unweighted Unifrac and betaMNTD, respectively. The\nsamples are colored by habitat groups." + }, + { + "id": 40954, + "strid": "eebb1c80-04bd-42a5-8e7a-bebc0a089e1a", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1209.873, + 3361.148, + 861.038, + 846.1109999999999 + ], + "priority": 15, + "parents": [ + 40944 + ], + "children": [ + 40955 + ], + "area": 4066562.2142040003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40955, + "strid": "9c221c8e-3589-4f73-b45a-b85513325e96", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1115.951, + 4223.788, + 996.6889999999999, + 191.89999999999964 + ], + "priority": 16, + "parents": [ + 40954 + ], + "children": [], + "area": 4713540.442388, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Non-metric multidimensional scaling plots (A & C), or\nboxplots (B & D) of community dissimilarities within habitat\ngroups using unweighted Unifrac and betaMNTD, respectively.\nThe samples are colored by habitat groups." + }, + { + "id": 40946, + "strid": "05cee974-ffe8-40ed-8520-18f3fefa52b6", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2188.777, + 2093.931, + 1692.179, + 674.7089999999998 + ], + "priority": 17, + "parents": [ + 40944 + ], + "children": [ + 40945 + ], + "area": 4583148.012387, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40945, + "strid": "bf79be8e-0578-4691-96da-119a957884d8", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2178.012, + 1891.36, + 1700.5750000000003, + 161.41099999999983 + ], + "priority": 18, + "parents": [ + 40946 + ], + "children": [], + "area": 4119404.77632, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 Mantel and partial Mantel tests for the correlation between ses.betaMNTD and the\nexplanatory distances (elevational, geographic and environmental distance) using Spearman’s\nrho for different habitat types and spatial scales." + }, + { + "id": 40947, + "strid": "f78a7863-dd08-4135-8126-a904b568ae48", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2201.149, + 2804.498, + 1645.5989999999997, + 169.76200000000017 + ], + "priority": 19, + "parents": [ + 40944 + ], + "children": [], + "area": 6173117.968202, + "iscrowd": 0, + "segmentation": [], + "text": "The significances are tested based on 10,000 permutations. °** P < 0.001; ** P < 0.01; * P< 0.05. For the HX\ngroup, both the geographic and environmental distances were not significantly related to bacterial phylogenetic\n\nturnover (P > 0.05). For ZJ and NJ groups, the Mantel analyses are not conducted due to their lower sample\nnumbers (7 and 5, respectively)." + }, + { + "id": 40948, + "strid": "175d38da-dcf9-47c6-9011-7c4a29ef921a", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2812.593, + 3001.095, + 455.797, + 72.42300000000023 + ], + "priority": 20, + "parents": [ + 40957 + ], + "children": [ + 40949 + ], + "area": 8440858.789335, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 40949, + "strid": "a8d3b0df-e515-40c1-a39a-d944cdb4f06a", + "image_id": 202109, + "image_name": "118146.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2124.399, + 3116.194, + 1754.995, + 1285.4569999999999 + ], + "priority": 21, + "parents": [ + 40948 + ], + "children": [], + "area": 6620039.417405999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89437, + "strid": "2f957cb9-b5b1-4a97-a8a9-89fafd5438f0", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 25.27, + 37.72, + 103.48, + 147.84 + ], + "priority": -1, + "parents": [], + "children": [ + 89410, + 89408, + 89426, + 89415, + 89409, + 89411, + 89434, + 89431, + 89435 + ], + "area": 953.1844, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89408, + "strid": "b3e8418b-6188-40b8-a4ea-9dc120f85cb2", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 164.987, + 35.536, + 2392.408, + 180.581 + ], + "priority": 1, + "parents": [ + 89437 + ], + "children": [], + "area": 5862.978032, + "iscrowd": 0, + "segmentation": [], + "text": "Interactome-regulome-transcriptome integrative approach:\na mean to disclose cancer stem cells regulatory circuits" + }, + { + "id": 89409, + "strid": "42598880-6247-4fe5-abc0-f906ab1db102", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 75.198, + 245.72, + 2606.576, + 152.816 + ], + "priority": 2, + "parents": [ + 89437 + ], + "children": [], + "area": 18477.65256, + "iscrowd": 0, + "segmentation": [], + "text": "ie >A Tol 0T-] (=) a bane R El-Helou??:4, Q Da Costa!?:?4, E Charafe-Jauffret?:?:37, Centre de Recherche en Cancérologie de Marseille\nC Ginestier?*34 and G Bidaut 1234 a eee\nRey or letoil maak\n\ncontact: claire.rioualen@inserm.fr www.iti.sourceforge.net Pea erseiet ato Orda eracc" + }, + { + "id": 89410, + "strid": "bd18aef6-fa3b-4767-9e9e-98b7f06ae900", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.912, + 466.936, + 1264.458, + 152.57200000000006 + ], + "priority": 3, + "parents": [ + 89437 + ], + "children": [], + "area": 54123.485632, + "iscrowd": 0, + "segmentation": [], + "text": "Breast cancer is the deadliest cancer in women worldwide’. One rising\nhypothesis is»that» cancer stem cells (CSC) could ‘explain relapses, by\nresisting to ‘conventional “treatments and/being able to generate\nmetastases thanks to self-renewal and differentiation properties’." + }, + { + "id": 89435, + "strid": "55ea631d-b9f3-43af-9254-6d171ed99425", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1490.239, + 463.113, + 1190.618, + 156.06400000000002 + ], + "priority": 4, + "parents": [ + 89437 + ], + "children": [], + "area": 690149.054007, + "iscrowd": 0, + "segmentation": [], + "text": "An miRNA screening revealed miR-600 could be a potential regulator of\nCSCs. We decided to,nvestigate the effect of miR-600 knock up and kock\ndown on CSCs, and>to»incorporate a network-based approach in order\nto identify key signaling pathways." + }, + { + "id": 89411, + "strid": "0892b792-8d93-4f2a-af99-437213b2bbd0", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 32.569, + 655.021, + 531.121, + 83.70299999999997 + ], + "priority": 5, + "parents": [ + 89437 + ], + "children": [ + 89418, + 89412, + 89416, + 89419, + 89417, + 89413, + 89414, + 89436 + ], + "area": 21333.378949, + "iscrowd": 0, + "segmentation": [], + "text": "Input ‘data" + }, + { + "id": 89436, + "strid": "5f81f402-f400-449a-bbf8-a1d290af6e5e", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.506, + 805.153, + 324.125, + 42.04399999999998 + ], + "priority": 6, + "parents": [ + 89411 + ], + "children": [], + "area": 59988.729418, + "iscrowd": 0, + "segmentation": [], + "text": "Networks building" + }, + { + "id": 89412, + "strid": "d156d2db-7f30-4833-87d0-b6a940569eff", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 117.543, + 859.092, + 577.087, + 516.87 + ], + "priority": 7, + "parents": [ + 89411 + ], + "children": [], + "area": 100980.250956, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89413, + "strid": "b00baac4-4a0b-46a4-b98a-97a5ebca7062", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 815.066, + 855.747, + 562.0330000000001, + 516.87 + ], + "priority": 8, + "parents": [ + 89411 + ], + "children": [], + "area": 697490.284302, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89414, + "strid": "55a97f66-67c7-47e6-b9dc-72719d9d394c", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.002, + 1388.388, + 1265.291, + 97.97299999999996 + ], + "priority": 9, + "parents": [ + 89411 + ], + "children": [], + "area": 156890.620776, + "iscrowd": 0, + "segmentation": [], + "text": "Public databases were parsed, and two bignetworks were built: the interactome, made of\nprotein-protein interactions, andthe regulome, made of TFAarget relationships. Above are\nsubsets of these networks. &" + }, + { + "id": 89417, + "strid": "48539a14-b021-4e65-9164-05aa3fc60fd6", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1454.851, + 804.862, + 1011.0070000000001, + 220.0970000000001 + ], + "priority": 10, + "parents": [ + 89411 + ], + "children": [], + "area": 1170954.285562, + "iscrowd": 0, + "segmentation": [], + "text": "Transcriptome data\n\nAfter a genome-wide miRNA screening, miR-600 was identified as a\npotential \"switcher\" for CSCs: its activation by MIMIC and its\ninhibition by LNA could have a mirror effect on CSC» pathways, by\nfavoring their differentiation and preventing their self-renewal at the\nsame time." + }, + { + "id": 89418, + "strid": "aa54ee17-d18a-4a33-97a7-4bc587a11068", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2488.484, + 791.492, + 210.8409999999999, + 271.52199999999993 + ], + "priority": 11, + "parents": [ + 89411 + ], + "children": [], + "area": 1969615.1781279999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89416, + "strid": "1e1b3208-214b-49ee-b0eb-72497ad8c167", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1493.933, + 1035.244, + 1014.0920000000001, + 64.79500000000007 + ], + "priority": 12, + "parents": [ + 89411 + ], + "children": [], + "area": 1546585.174652, + "iscrowd": 0, + "segmentation": [], + "text": "Transcriptome data was generated by measuring. gene expression in\nmiR-600 overexpression and knock-down, by adding either LNA or MIMIC." + }, + { + "id": 89419, + "strid": "ae4e4404-9b56-446b-9033-32128227a77c", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1538.158, + 1126.972, + 1085.241, + 351.5519999999999 + ], + "priority": 13, + "parents": [ + 89411 + ], + "children": [], + "area": 1733460.997576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89415, + "strid": "bc202445-fec2-475b-982e-261abca2e53a", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 31.06, + 1549.593, + 1962.544, + 94.82500000000005 + ], + "priority": 14, + "parents": [ + 89437 + ], + "children": [ + 89422, + 89424, + 89428, + 89423, + 89429, + 89421, + 89425, + 89427, + 89420 + ], + "area": 48130.35858, + "iscrowd": 0, + "segmentation": [], + "text": "Data -tntegration & Networks analysis" + }, + { + "id": 89420, + "strid": "d60a26f3-90e8-42ea-aa54-94a7925c4ca0", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.781, + 1710.741, + 1306.244, + 465.98799999999983 + ], + "priority": 15, + "parents": [ + 89415 + ], + "children": [], + "area": 129641.663721, + "iscrowd": 0, + "segmentation": [], + "text": "Subnetworks detection algorithm\n\nA subnetwork is recursively*aggregated around a \"seed\", a gene from the\nnetwork, by using the I?Palgorithm*®. Its score is calculated by averaging\ncorrelations between .genes expressions (LNA vs control, MIMIC vs\ncontrol).\n\nNeighbouring nodes,are added if they improve the score of the subnetwork.\nThis procedure isepeated for each gene of the two networks (interactome and\nregulome).\n\nResulting (‘subnetworks are _ statistically validated by/ randomizing\ninteraction\\data, expression data and subnetworks interactions.\n\nThe procedure is repeated separately in the interactome andthe regulome." + }, + { + "id": 89421, + "strid": "26350161-bf49-4401-9779-be679d5a5a89", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 145.175, + 2208.456, + 1186.013, + 301.73099999999977 + ], + "priority": 16, + "parents": [ + 89415 + ], + "children": [], + "area": 320612.5998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89423, + "strid": "aece182b-b9cf-4a8a-9f6d-40909c6b457f", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.685, + 1709.553, + 1229.3309999999997, + 268.8689999999999 + ], + "priority": 17, + "parents": [ + 89415 + ], + "children": [], + "area": 2480022.893805, + "iscrowd": 0, + "segmentation": [], + "text": "Switchers identification\n\n42 subetworks are found ine the 4 different conditions (LNA-\ninteractome, LNA-regulome, MIMIC-interactome;MIMIC-regulome).\n\n35 genes were found to act like switchers in the subnetworks (double\necircles): they were both being strongly over-expressed in MIMIC and\nunder-expressed in LNA, confirming:the-biological experiments." + }, + { + "id": 89422, + "strid": "9779a2a4-796b-4bad-b246-7626ad937560", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1498.484, + 2009.791, + 1177.0499999999997, + 439.153 + ], + "priority": 18, + "parents": [ + 89415 + ], + "children": [], + "area": 3011639.656844, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89428, + "strid": "49720abc-025e-4f92-8d18-afa3485db9ec", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.525, + 2623.069, + 682.568, + 533.8980000000001 + ], + "priority": 19, + "parents": [ + 89415 + ], + "children": [], + "area": 200730.355225, + "iscrowd": 0, + "segmentation": [], + "text": "Subnetworks integration\n\nIn order to visualize pathways of\nregulation that involve several levels\nof regulation, . we “integrated the\ninteractome subnetworks (groups of\ninteracting proteins) with regulome\nsubnetworks (transcription factors and\ntargets):\n\nMost subnetworks interact with each\nother»showing a possible implication in\ncommon pathways regulating cancer\nstem cells." + }, + { + "id": 89429, + "strid": "4792ac1a-8ee8-4419-8e5b-06bd0e921d3b", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 793.49, + 2699.002, + 587.1290000000001, + 451.6880000000001 + ], + "priority": 20, + "parents": [ + 89415 + ], + "children": [], + "area": 2141631.09698, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89427, + "strid": "b7bda5a3-abb6-4704-b1e1-d8634f9dddbf", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 112.313, + 3183.854, + 1269.661, + 159.82799999999997 + ], + "priority": 21, + "parents": [ + 89415 + ], + "children": [], + "area": 357588.194302, + "iscrowd": 0, + "segmentation": [], + "text": "The integration sheds light on potential pathways that are connecting\nswitching genes, thus regulating CSC «differentiation and proliferation. It\ncould also enable the discovery of new*switchers, whose expression is only\nslightly affected by miR-600 overexpression or knock-down." + }, + { + "id": 89424, + "strid": "f1e7c829-7dbb-4ab1-80f9-3b37fe082e32", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1498.484, + 2634.165, + 1159.1259999999997, + 492.92700000000013 + ], + "priority": 22, + "parents": [ + 89415 + ], + "children": [], + "area": 3947254.1058599995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89425, + "strid": "b3ce30c3-d97c-44b8-9102-39405f207b15", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1492.509, + 3183.854, + 1187.5060000000003, + 161.32200000000012 + ], + "priority": 23, + "parents": [ + 89415 + ], + "children": [], + "area": 4751930.749686, + "iscrowd": 0, + "segmentation": [], + "text": "Targeting a\\pathway, rather than several genes separately, could™prove to\nbe more efficient and less money-consuming.\n\nA GenesOntology enrichment search revealed the presence\\of several\nterms-related to cell proliferation." + }, + { + "id": 89426, + "strid": "5d8d8eae-839e-4056-8358-805d2098d831", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 36.134, + 3407.912, + 1672.965, + 82.154 + ], + "priority": 24, + "parents": [ + 89437 + ], + "children": [ + 89430, + 89432, + 89433 + ], + "area": 123141.492208, + "iscrowd": 0, + "segmentation": [], + "text": "Online database of subnetworks" + }, + { + "id": 89430, + "strid": "33723ade-2365-4ec7-b5a1-d25ad4f6de42", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 109.693, + 3565.698, + 1082.219, + 471.462 + ], + "priority": 25, + "parents": [ + 89426 + ], + "children": [], + "area": 391132.11071399995, + "iscrowd": 0, + "segmentation": [], + "text": "Our pipeline includes the possibility of generating full HTML\nreports.\n\nDetected subnetworks are stored and can be investigated gene by.\ngene (a). .This_visualization also includes all the information on\nGene Ontology terms enriched in the subnetworks (b).. Each\nsubnetwork has its own page, compiling all the related information\n(c).\n\nAll the data can be downloaded from the site in flat format, and\nsubnetwork files are formatted in *.nnf format, thus.enabling their\nanalysis in Cytoscape." + }, + { + "id": 89432, + "strid": "1828ec01-0897-4a53-a125-9f827697ab66", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1227.701, + 3571.405, + 826.5360000000001, + 571.4169999999999 + ], + "priority": 26, + "parents": [ + 89426 + ], + "children": [], + "area": 4384617.489905001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89433, + "strid": "1e12f6cf-889b-457b-9312-02d2058677db", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2103.7, + 3495.91, + 609.1639999999998, + 648.2129999999997 + ], + "priority": 27, + "parents": [ + 89426 + ], + "children": [], + "area": 7354345.866999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89431, + "strid": "5b100668-ace3-4666-b88f-fef60418c9d6", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 111.224, + 4102.981, + 1268.966, + 385.741 + ], + "priority": 28, + "parents": [ + 89437 + ], + "children": [], + "area": 456349.958744, + "iscrowd": 0, + "segmentation": [], + "text": "We developed a new multi-level integrative approach mixing interactome,\nregulome, transcriptome data and\\,post-translational information with a\ncandidate approach.\n\nThe integrative analysis confirmed\\the potential implication of miR-600 in CSC\ndifferentiation or self-renewal>Using a pathway approach to explore the\nbiology of cancer stem cells is‘a good way to develop new targets in breast\ncancer treatment.\n\nUltimately, elaborating a new drug targeting CSCs could greatly improve\nbreast cancer clinical outcome." + }, + { + "id": 89434, + "strid": "c22a33fd-d859-4d52-baba-8cab679ca423", + "image_id": 203972, + "image_name": "121247.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1493.606, + 4406.309, + 1174.258, + 82.7470000000003 + ], + "priority": 29, + "parents": [ + 89437 + ], + "children": [], + "area": 6581289.560254, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments\nSupport to this project is coming from the Institut National’du Cancer grant Number INCA_5911 to CG.\nAdditional support for QDC obtained from Plan Cancer 2013-2016 Action 3.6 to GB." + }, + { + "id": 192991, + "strid": "4c11d755-af98-4ada-84a2-3e9d2529bca0", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 12.98, + 43.79, + 110.88, + 170.01000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 192960, + 192961, + 192964, + 192963, + 192962 + ], + "area": 568.3942, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192960, + "strid": "ff9b5d90-36e0-4d1e-baab-4c3c52d29f9b", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 154.79, + 132.104, + 2966.367, + 216.131 + ], + "priority": 1, + "parents": [ + 192991 + ], + "children": [], + "area": 20448.37816, + "iscrowd": 0, + "segmentation": [], + "text": "IL-12 therapy suppresses TC-1 tumor growth accelerated by\nadmixture of the docetaxel-treated senescent tumor cells" + }, + { + "id": 192961, + "strid": "3de928e9-a77d-4e57-ac74-c8146cdede3c", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 462.365, + 369.924, + 2475.0690000000004, + 211.91499999999996 + ], + "priority": 2, + "parents": [ + 192991 + ], + "children": [], + "area": 171039.91026, + "iscrowd": 0, + "segmentation": [], + "text": "O. Sapega, J. Simova, T. Imrichova, |. Stepanek, L. Kyjacova, R. Mikyskova, M. Indrova, J. Bieblova,\nJ. Bartek, Z. Hodny, M. Reinis\n\nInstitute of Molecular Genetics CAS, Prague" + }, + { + "id": 192962, + "strid": "41ec0913-f41c-413e-89c4-770fd83a47c4", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1479.35, + 608.667, + 290.24800000000005, + 53.72500000000002 + ], + "priority": 3, + "parents": [ + 192991 + ], + "children": [ + 192965 + ], + "area": 900431.52645, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 192965, + "strid": "90a051c2-1d14-4142-b64b-3b2120accc28", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.377, + 701.546, + 3093.2, + 199.043 + ], + "priority": 4, + "parents": [ + 192962 + ], + "children": [], + "area": 71822.17484200001, + "iscrowd": 0, + "segmentation": [], + "text": "Cellular senescence is considered to be a principal barrier against tumorigenesis that inhibits acquisition of an immortal phenotype. However, senescent cells can survive in the\norganism for protracted periods of time and they can promote tumor development. Elimination of such potentially cancer-promoting senescent cells could offer a therapeutic benefit.\nIn this study, we have documented significant acceleration of tumor growth, when proliferating tumor cells were co-administered into syngeneic mice together with syngeneic tumor\ncells that had been subjected to the senescence-inducing treatment with docetaxel (DTX). We have also documented that IL-12 therapy can be a suitable candidate for senescent\ncells detrimental effects elimination." + }, + { + "id": 192963, + "strid": "a3cfcc4a-e2c0-4e9f-9904-c0f699f6af7a", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1503.823, + 944.645, + 271.9870000000001, + 44.754999999999995 + ], + "priority": 5, + "parents": [ + 192991 + ], + "children": [ + 192966 + ], + "area": 1420578.8778350002, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 192966, + "strid": "34f3c70a-2f01-4a4f-9ae4-14594d382015", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.56, + 1051.159, + 3065.984, + 229.22199999999998 + ], + "priority": 6, + "parents": [ + 192963 + ], + "children": [], + "area": 102551.07204000001, + "iscrowd": 0, + "segmentation": [], + "text": "We have demonstrated that two tumorigenic cell lines TC-1 and TRAMP-C2 treated with DTX in vitro in sub-apoptotic doses, induced persistent DNA damage response, cell cycle\narrest and development of senescence-like phenotype accompanied by complex alteration of cytokine expression. In vivo, we demonstrated that senescent cells co-injected with\nproliferating tumor cells can ensure tumor growth-promoting microenvironment, similarly as admixture of proliferating or lethally irradiated tumor cells. We also show that\n\nimmunotherapy with irradiated IL-12-producing cells injected into the vicinity of growing tumors inhibited tumor growth both in proliferating tumor cells only-injected mice and in\nmice co-administered with proliferating and senescent cells to similar levels." + }, + { + "id": 192964, + "strid": "eab9af7e-64d4-4cd8-81b1-b121ed14ec7a", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1537.632, + 1329.326, + 226.67000000000007, + 45.96499999999992 + ], + "priority": 7, + "parents": [ + 192991 + ], + "children": [ + 192987, + 192969, + 192975, + 192978, + 192980, + 192971, + 192982, + 192983, + 192981, + 192974, + 192967, + 192970, + 192972, + 192973, + 192976, + 192984, + 192990, + 192979, + 192989, + 192986, + 192988, + 192968, + 192977, + 192985 + ], + "area": 2044014.196032, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192970, + "strid": "8e841ed8-7fed-4f6e-82b9-1fb18b45b6be", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.582, + 1325.736, + 1146.3380000000002, + 209.25 + ], + "priority": 8, + "parents": [ + 192964 + ], + "children": [], + "area": 153231.218352, + "iscrowd": 0, + "segmentation": [], + "text": "TC-1 cell line was obtained by in vitro co-transfection of\nmurine lung C57BL/6 cells with HPV16 E6/E7 and\nactivated human H-Ras (G12V) oncogenes (Lin KY et al,.\nCancer Res. 1996)." + }, + { + "id": 192971, + "strid": "e63802b1-1a10-46f7-be73-a8f8fbc97fb0", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 269.029, + 1643.533, + 566.383, + 95.21900000000005 + ], + "priority": 9, + "parents": [ + 192964 + ], + "children": [], + "area": 442158.039457, + "iscrowd": 0, + "segmentation": [], + "text": "Cell morphology after DTX\ntreatment" + }, + { + "id": 192984, + "strid": "67556c2d-940f-4cf4-958b-f48af1636ec9", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 8.688, + 1812.038, + 1155.278, + 564.8250000000003 + ], + "priority": 10, + "parents": [ + 192964 + ], + "children": [], + "area": 15742.986144, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192977, + "strid": "6eed7a2c-e0fd-45d3-bfe6-2eb04aed3775", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 64.213, + 2405.737, + 1054.255, + 78.54899999999998 + ], + "priority": 11, + "parents": [ + 192964 + ], + "children": [], + "area": 154479.589981, + "iscrowd": 0, + "segmentation": [], + "text": "Senescence-associated B-galactosidase activity in TC-1 and TRAMP-C2 cells treated with DTX for 4 days\n(A). Phase contrast microscopic images of control and DTX-treated (7.5 uM) TC-1 and TRAMP-C2 cells at\nday 4 after the treatment (B)." + }, + { + "id": 192972, + "strid": "07f6bb43-d942-4b97-83b2-984947bfaa95", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.538, + 2642.105, + 912.7369999999999, + 95.3409999999999 + ], + "priority": 12, + "parents": [ + 192964 + ], + "children": [], + "area": 310547.73748999997, + "iscrowd": 0, + "segmentation": [], + "text": "Docetaxel-induced senescence in TC-1 and\nTRAMP-C2 cell lines in vitro and in vivo" + }, + { + "id": 192986, + "strid": "c531ceeb-b894-4fb3-892a-0b5c4a7fd2a3", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 17.483, + 2866.252, + 1152.154, + 1240.199 + ], + "priority": 13, + "parents": [ + 192964 + ], + "children": [], + "area": 50110.683716, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192979, + "strid": "b90c905b-d4d1-4f43-b709-6ddd04169e71", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 32.771, + 4166.695, + 1020.28, + 181.17500000000018 + ], + "priority": 14, + "parents": [ + 192964 + ], + "children": [], + "area": 136546.761845, + "iscrowd": 0, + "segmentation": [], + "text": "Cell proliferation was determined by counting cell number every 24 h and plotted as log* ratio of total\nnumber of cells to seeding cell number to compensate for different seeding capacity of control and\nDTX-treated cells (A). To detect DNA damage, control and DTX-treated cells were stained with\nphosphoSer139 H2AX (yH2AX) antibody and mounted with Mowiol containing DAPI (B). Mice were\ntransplanted s.c. on day 0 with TC-1 cells (3 x 10*) or with senescent DTX-treated cells at the doses 3\nx 104 [TC-1/DTX(a)] or 5 x 105 [TC-1/DTX(b)] tumor cells, respectively, and the tumor growth was\nmonitored." + }, + { + "id": 192969, + "strid": "fc3acd76-399f-4731-b427-25ba74ea3776", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1391.464, + 1472.959, + 483.4390000000001, + 95.71000000000004 + ], + "priority": 15, + "parents": [ + 192964 + ], + "children": [], + "area": 2049569.421976, + "iscrowd": 0, + "segmentation": [], + "text": "Expression of selected\nsenescence markers" + }, + { + "id": 192985, + "strid": "208031f3-2ecb-40ab-a99f-ecb45a2e7096", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1196.817, + 1649.334, + 938.2370000000001, + 428.42100000000005 + ], + "priority": 16, + "parents": [ + 192964 + ], + "children": [], + "area": 1973950.969878, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192978, + "strid": "b7be8488-2bb2-4d73-9262-d0196bdd0ddb", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1201.468, + 2113.102, + 924.595, + 106.19900000000007 + ], + "priority": 17, + "parents": [ + 192964 + ], + "children": [], + "area": 2538824.433736, + "iscrowd": 0, + "segmentation": [], + "text": "Immunoblotting detection of mouse pi6INK4A (p16) and p21waft/cip1 (p21) in control and\nDTX-treated TC-1 and TRAMP-C2 cells. GAPDH was used as a loading control (C). qRT-\nPCR quantification of p16 and p21 in control and DTX-treated TC-1 and TRAMP-C2 cells.\n*p<0.05, **p<0.005 (D)." + }, + { + "id": 192973, + "strid": "054ad714-4708-4424-9e9a-cd8d6a3b6b71", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1330.799, + 2336.141, + 648.527, + 48.48799999999983 + ], + "priority": 18, + "parents": [ + 192964 + ], + "children": [], + "area": 3108934.1066590003, + "iscrowd": 0, + "segmentation": [], + "text": "Explanted tumor cells analysis" + }, + { + "id": 192987, + "strid": "928b1fc0-3163-4cd1-ad1b-087ad51a6b8e", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1197.071, + 2457.357, + 1094.92, + 1029.234 + ], + "priority": 19, + "parents": [ + 192964 + ], + "children": [], + "area": 2941630.8013469996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192980, + "strid": "67fbb614-0ef7-4871-ad2b-4516da5b4786", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1135.22, + 3551.416, + 983.758, + 158.85500000000002 + ], + "priority": 20, + "parents": [ + 192964 + ], + "children": [], + "area": 4031638.47152, + "iscrowd": 0, + "segmentation": [], + "text": "Explanted tumor cells were cultured for seven days and analyzed for the proportion of TC-1\n(CD80+) and TRAMP-C2 (CD80-) cells by flow cytometry using CD80 as a marker. To exclude\nleukocytes from the analysis, CD45+ cells were gated out. For comparison, explanted cells were\ncultured in the culture medium optimized either for TC-1 cells (TC-1 medium) or for TRAMP-C2\n\ncells (TRAMP-C2 medium) (A). Flow cytometry analysis of the CD80 cell surface expression on\ncultured TC-1 and TRAMP-C2 cells, as well as their mixed culture (B)." + }, + { + "id": 192975, + "strid": "6368bb80-41e2-433a-911f-9f80bf757fec", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1233.59, + 3816.993, + 838.4420000000002, + 102.69399999999996 + ], + "priority": 21, + "parents": [ + 192964 + ], + "children": [], + "area": 4708604.39487, + "iscrowd": 0, + "segmentation": [], + "text": "IL12-based immunotherapy suppresses\nsenescence-accelerated tumor growth" + }, + { + "id": 192990, + "strid": "3667431c-1412-4472-bfe7-afc1d1cab1e3", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1337.21, + 3997.76, + 593.2950000000001, + 400.79299999999967 + ], + "priority": 22, + "parents": [ + 192964 + ], + "children": [], + "area": 5345844.6496, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192981, + "strid": "d9a0e7c3-d695-4cb2-9cb7-cc7e76e7d069", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1247.242, + 4509.14, + 898.836, + 104.48099999999977 + ], + "priority": 23, + "parents": [ + 192964 + ], + "children": [], + "area": 5623988.79188, + "iscrowd": 0, + "segmentation": [], + "text": "Mice were transplanted on day O s.c. with TC-1 cells (3 x 10%), docetaxel-induced\nsenescent TC-1/DTX (3 x 105) or TC-1 cells (3 x 10*) admixed with TC-1/DTX. IL-12\nproducing TC-1/IL-12 cells were administered on day 3 in the vicinity of transplanted\ncontrol TC-1 cells and TC-1 cells admixture with TC-1/DTX senescent cells. p < 0.05." + }, + { + "id": 192967, + "strid": "7af4604f-f488-41c8-aa1e-baa2592933dd", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2040.122, + 1326.725, + 1064.077, + 211.22000000000003 + ], + "priority": 24, + "parents": [ + 192964 + ], + "children": [], + "area": 2706680.86045, + "iscrowd": 0, + "segmentation": [], + "text": "TRAMP-C2 tumor cells, MHC class I-deficient, were\nestablished from a heterogeneous, 32-week tumor of\nthe TRAMP model (Foster BA et al., Cancer res.\n1997)." + }, + { + "id": 192968, + "strid": "3418da25-f129-427c-8cfd-096ea889e3cb", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2320.117, + 1633.693, + 851.808, + 102.71199999999999 + ], + "priority": 25, + "parents": [ + 192964 + ], + "children": [], + "area": 3790358.902081, + "iscrowd": 0, + "segmentation": [], + "text": "The analysis of TC-1 and TRAMP-C2 cell\nproliferation by EdU incorporation" + }, + { + "id": 192988, + "strid": "15e06cd4-386a-4e21-a893-2fafa4d700d7", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2251.53, + 1823.677, + 1016.2269999999999, + 1089.9620000000002 + ], + "priority": 26, + "parents": [ + 192964 + ], + "children": [], + "area": 4106063.47581, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192982, + "strid": "573c8bce-57fc-4dc4-a05d-fbe4869310a8", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2364.483, + 3010.268, + 911.4740000000002, + 158.5590000000002 + ], + "priority": 27, + "parents": [ + 192964 + ], + "children": [], + "area": 7117727.5114440005, + "iscrowd": 0, + "segmentation": [], + "text": "The cells were driven to senescence by 4-day treatment with 7.5 yM docetaxel (DTX),\nincubated with 10 uM ethynyl deoxyuridine (EdU) for 6 h. Click-iT reaction was performed on\nfixed cells and FACS analysis was carried out to determine the fraction of proliferating cells\nin DTX-treated and control samples (A). Control and DTX-treated TC-1 and TRAMP-C2 cells\nwere incubated with 10 uM Edu for 6 h. Following fixation, Click-iT reaction was performed\nand the cover slides were mounted with Mowiol containing DAPI (B)." + }, + { + "id": 192974, + "strid": "8eef66a4-ec9a-40e6-8977-64ecb6ae00d3", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2323.703, + 3339.681, + 930.6640000000002, + 156.46399999999994 + ], + "priority": 28, + "parents": [ + 192964 + ], + "children": [], + "area": 7760426.758743, + "iscrowd": 0, + "segmentation": [], + "text": "Co-administration of DTX-treated senescent\ncells and TC-1 tumor cells resulted in\naccelerated tumor growth" + }, + { + "id": 192989, + "strid": "8dd9e87f-709f-4237-a73c-d6da501358c2", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2148.689, + 3619.349, + 1121.149, + 776.598 + ], + "priority": 29, + "parents": [ + 192964 + ], + "children": [], + "area": 7776855.3834609995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192983, + "strid": "8a616047-823b-4976-abca-4e53c130cdb3", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2213.128, + 4508.97, + 1052.0149999999999, + 77.58200000000033 + ], + "priority": 30, + "parents": [ + 192964 + ], + "children": [], + "area": 9978927.75816, + "iscrowd": 0, + "segmentation": [], + "text": "Mice were transplanted s.c. on day 0 with TC-1 cells (3 x 10*), or (A) TC-1 cells admixed with TC-1/DTX\n(3 x 105), or (B) TC-1 cells admixed with TRAMP-C2/DTX cells (3 x 105), or (C) irradiated TC-1 cells (150\nGy; 3 x 105), or (D) TRAMP-C2 cells (3 x 105), p < 0.05." + }, + { + "id": 192976, + "strid": "c9c5243a-5848-49f9-8dc8-46adcb5bfdd8", + "image_id": 208040, + "image_name": "9264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.859, + 4447.77, + 861.711, + 158.33600000000024 + ], + "priority": 31, + "parents": [ + 192964 + ], + "children": [], + "area": 279582.37443, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by research grants Nos. 15-24769S from the Czech Science\n\nFoundation and NT14461 from the Grant Agency of the Ministry of Health of the Czech\nRepublic\n\nO.S. is a Ph.D. student supported in part by the Faculty of Science, Charles University,\n\nPrague.\n\nolena.sapega @img.cas.cz" + }, + { + "id": 165173, + "strid": "131401c9-f763-4c12-804d-7bb7bdee0f54", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 234.4, + 79.89, + 185.83, + 109.60000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 165160, + 165159, + 165163, + 165158, + 165162, + 165161, + 165164, + 165165 + ], + "area": 18726.216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165158, + "strid": "6e943f15-2693-4401-bc11-899658ccc42d", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 507.562, + 125.443, + 3648.898, + 295.257 + ], + "priority": 1, + "parents": [ + 165173 + ], + "children": [], + "area": 63670.099966, + "iscrowd": 0, + "segmentation": [], + "text": "Lack of Evidence for Central Sensitization in Idiopathic,\ni Non-Traumatic Neck Pain — A Systematic Review" + }, + { + "id": 165159, + "strid": "7d4e2bc2-e18c-4af1-8959-0ddb94c3b595", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 118.421, + 462.215, + 4438.833, + 252.84599999999995 + ], + "priority": 2, + "parents": [ + 165173 + ], + "children": [], + "area": 54735.962515, + "iscrowd": 0, + "segmentation": [], + "text": "Anneleen Malfliet'!:23,msc; Jeroen Kregel'*,msc; Barbara Cagnie'?,PhD; Mandy Kuipers?,BSc; Mieke Dolphens',Php; Nathalie Roussel'*,PhD; Mira Meeus'*:4,PhD;\nLieven Danneels'?,PhD ; Bramer Wichor5,BSc & JO Nijs':25,PhD\n\n1 Pain in Motion Research Group; ? Dept of Human Physiology and Physiotherapy, Faculty of Physical Education & Physiotherapy, Vrije Universiteit Brussel, Brussels, Belgium; * Dept of Rehabilitation Sciences and Physiotherapy, Faculty of Medicine & Health\nSciences, Ghent University, Ghent, Belgium; + Dept of Rehabilitation Sciences and Physiotherapy, Faculty of Medicine & Health Sciences, University of Antwerp, Antwerp, Belgium; 5° Medical Library, Erasmus MC - University MC Rotterdam, the Netherlands" + }, + { + "id": 165163, + "strid": "f94bb4d0-0e64-4549-b06d-a4502f887636", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 260.974, + 784.006, + 1192.67, + 324.15099999999995 + ], + "priority": 3, + "parents": [ + 165173 + ], + "children": [], + "area": 204605.18184399998, + "iscrowd": 0, + "segmentation": [], + "text": "Chronic Neck Pain\nCommon but poorly understood\nRX = age # symptoms" + }, + { + "id": 165165, + "strid": "3f224331-397d-41e5-9f51-8efc078d501c", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 34.423, + 1160.201, + 1637.704, + 1135.7730000000001 + ], + "priority": 4, + "parents": [ + 165173 + ], + "children": [], + "area": 39937.599023, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165164, + "strid": "34b96660-bc0f-4a53-a374-bf8889f18826", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.918, + 2322.605, + 1478.714, + 443.04399999999987 + ], + "priority": 5, + "parents": [ + 165173 + ], + "children": [], + "area": 273876.93639, + "iscrowd": 0, + "segmentation": [], + "text": "Aim\nTo review the existing literature on the\nrole of central sensitization in chronic\nidiopathic, non-traumatic NP." + }, + { + "id": 165160, + "strid": "ab36a19b-0654-416e-8fd8-e27817932e27", + "image_id": 206942, + "image_name": "6691.png", + "category_id": 5, + 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"segmentation": [], + "text": "A. Arslan* and V. van Noort\nCentre of Microbial and Plant Genetics (CMPG), Department of Microbial and Molecular Systems (M2S),\nKU Leuven, Kasteelpark Arenberg 22 —box 2460, 3001 Leuven, Belgium. *presenting author, ahmed.arslan@biw.kuleuven.be" + }, + { + "id": 4398, + "strid": "5da104e9-9c23-49e5-88a5-0690bb3ba23c", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.212, + 710.796, + 316.784, + 61.48299999999995 + ], + "priority": 3, + "parents": [ + 4423 + ], + "children": [ + 4408 + ], + "area": 44930.836752, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 4408, + "strid": "45637b19-2a01-4a62-be5b-4c51b5102390", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.541, + 857.114, + 979.988, + 599.635 + ], + "priority": 4, + "parents": [ + 4398 + ], + "children": [], + "area": 56176.108674, + "iscrowd": 0, + "segmentation": [], + "text": "Ebola Virus (EBOV), a member of Filoviridae family,\ncauses severe hemorrhagic fever known as Ebola Virus\nDisease (EVD) with a mortality rate of up to 90%.\n\nThe recent outbreak of EVD resulted in a large number of\nhuman deaths; moreover there is no suitable medicine\ncommercially available to date for EVD. Due to this dev-\nastation and lack of medication, EBOV has attracted re-\nnewed interest as model for virus evolution.\n\nRecent literature on EBOV has improved our under-\nstanding of the underlying genetics and its scope with ref-\nerence to the 2014 outbreak. But no study yet, has fo-\ncused on the conservation patterns of EBOV proteins\nthat can contribute to the virus fitness and onset of EVD." + }, + { + "id": 4399, + "strid": "f13423cf-c298-45c7-ab85-a3d6962b38c3", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.118, + 1566.558, + 108.95999999999998, + 49.317999999999984 + ], + "priority": 5, + "parents": [ + 4423 + ], + "children": [ + 4409 + ], + "area": 120809.819844, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 4409, + "strid": "fe0e58c9-8c09-43e4-b05f-bac521498269", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 59.573, + 1670.902, + 989.4130000000001, + 184.76 + ], + "priority": 6, + "parents": [ + 4399 + ], + "children": [], + "area": 99540.64484600001, + "iscrowd": 0, + "segmentation": [], + "text": "The aim is to understand the molecular biology of\nEVD by discovering most conserved regions of EBOV\nproteins and predicting their functional annotations\nwith computational tools." + }, + { + "id": 4400, + "strid": "8c16303b-be12-47f9-abae-eaeb478b1a55", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 39.288, + 1975.632, + 194.72899999999998, + 48.39499999999998 + ], + "priority": 7, + "parents": [ + 4423 + ], + "children": [ + 4410 + ], + "area": 77618.630016, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 4410, + "strid": "86fa7151-2fe6-4a6a-970b-ddb4c4d18ce2", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 36.623, + 2080.201, + 1005.7249999999999, + 1257.257 + ], + "priority": 8, + "parents": [ + 4400 + ], + "children": [], + "area": 76183.201223, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4404, + "strid": "fed58e1f-2ec4-4185-8bd1-33333c8c0bcb", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 65.438, + 3432.593, + 544.354, + 47.585000000000036 + ], + "priority": 9, + "parents": [ + 4423 + ], + "children": [ + 4411 + ], + "area": 224622.020734, + "iscrowd": 0, + "segmentation": [], + "text": "Material and Methods" + }, + { + "id": 4411, + "strid": "566b0827-5fa7-4ff1-a014-57774f09a706", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 64.564, + 3538.017, + 963.5770000000001, + 1069.9840000000004 + ], + "priority": 10, + "parents": [ + 4404 + ], + "children": [], + "area": 228428.52958799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4402, + "strid": "a8a3220b-1ada-4a17-8855-ba2ae86f8532", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1090.678, + 712.731, + 1014.2480000000003, + 59.053999999999974 + ], + "priority": 11, + "parents": [ + 4423 + ], + "children": [ + 4419 + ], + "area": 777360.0216180001, + "iscrowd": 0, + "segmentation": [], + "text": "PTMs present at GP conserved residues" + }, + { + "id": 4419, + "strid": "d1967840-af65-4c53-bd6e-ff8809346785", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1126.254, + 805.959, + 987.0299999999997, + 560.6240000000001 + ], + "priority": 12, + "parents": [ + 4402 + ], + "children": [ + 4421 + ], + "area": 907714.5475859998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4421, + "strid": "839551ee-07b1-4e16-b8d2-834fb462752d", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1092.412, + 1413.085, + 1042.331, + 88.64100000000008 + ], + "priority": 13, + "parents": [ + 4419 + ], + "children": [], + "area": 1543671.01102, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: The ConSurf diagram (Celinker et al 2013) of GP protein two types of structural views\n(left: space-filled; right: ribbon) with different PTMs sites at cons. residues. (Abbreviation: P=-\nphosphorylation, GPI=GPl-anchor, O=o-linked glycosylation, M=Methylation)" + }, + { + "id": 4403, + "strid": "254ec75c-7eeb-40f9-b378-538edb99f9e0", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2166.43, + 711.767, + 1127.0170000000003, + 60.650999999999954 + ], + "priority": 14, + "parents": [ + 4423 + ], + "children": [ + 4420 + ], + "area": 1541993.38181, + "iscrowd": 0, + "segmentation": [], + "text": "PTMs present at conserved interface residue" + }, + { + "id": 4420, + "strid": "68a1c5df-6501-4e24-8878-fec826c3f613", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2264.972, + 784.971, + 886.0210000000002, + 571.5630000000001 + ], + "priority": 15, + "parents": [ + 4403 + ], + "children": [ + 4422 + ], + "area": 1777937.335812, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4422, + "strid": "9303b83a-fb29-4043-be99-37452a86ef06", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2250.769, + 1408.234, + 963.748, + 59.013999999999896 + ], + "priority": 16, + "parents": [ + 4420 + ], + "children": [], + "area": 3169609.4319459996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: The PTMs position at interface of two complexes between virus molecules, (A)\nVP35 and RNA (B) NP and VP35; whereas PTM positions are shown in red." + }, + { + "id": 4401, + "strid": "89bc8248-4ae0-4be0-90a3-c63488dbeca4", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1139.121, + 1570.698, + 730.394, + 60.03099999999995 + ], + "priority": 17, + "parents": [ + 4423 + ], + "children": [ + 4418 + ], + "area": 1789215.0764580003, + "iscrowd": 0, + "segmentation": [], + "text": "EBOV proteins Conservation" + }, + { + "id": 4418, + "strid": "c96a4070-a077-490e-bf4f-94ca00ff6d5e", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1243.699, + 1695.806, + 1775.7649999999999, + 1150.6690000000003 + ], + "priority": 18, + "parents": [ + 4401 + ], + "children": [ + 4415 + ], + "area": 2109072.226394, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4415, + "strid": "b82b8305-8ff9-4b5d-bd89-580933c0f3cf", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1137.13, + 2921.008, + 1882.625, + 29.73700000000008 + ], + "priority": 19, + "parents": [ + 4418 + ], + "children": [], + "area": 3321565.82704, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: The ConSurf diagrams of EBOV proteins shows conserved residues in respective secondary structures. (red is the most conserved one and blue is most variable)" + }, + { + "id": 4405, + "strid": "3d705c32-3d11-4fd0-ad34-52524d791b7b", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1104.717, + 3035.746, + 765.117, + 51.733000000000175 + ], + "priority": 20, + "parents": [ + 4423 + ], + "children": [ + 4417 + ], + "area": 3353640.213882, + "iscrowd": 0, + "segmentation": [], + "text": "ATM “Junction Kinase’”in EVD" + }, + { + "id": 4417, + "strid": "6faed6b4-8fd9-4f81-9de3-5667581a782d", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1094.968, + 3202.571, + 1094.6379999999997, + 665.7049999999999 + ], + "priority": 21, + "parents": [ + 4405 + ], + "children": [ + 4416 + ], + "area": 3506712.762728, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4416, + "strid": "a23f012b-d7e2-4feb-b463-051c3032d8ea", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1109.784, + 3921.323, + 1030.424, + 118.61799999999994 + ], + "priority": 22, + "parents": [ + 4417 + ], + "children": [], + "area": 4351821.524232, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: The role of ATM kinase in different EVD related pathways. The functions of DNA\ndamage response element, ATM, elucidated in four closely related and virus exploited path-\nways under stress.The blue arrows show the published interactions, black arrows normal cell\nsignaling and green shows the predicted phosphorylation on VP40 by ATM in out analysis." + }, + { + "id": 4406, + "strid": "64f546f0-5da3-4191-bf3c-4f612f4849e8", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2240.21, + 3039.606, + 293.2159999999999, + 49.23100000000022 + ], + "priority": 23, + "parents": [ + 4423 + ], + "children": [ + 4413 + ], + "area": 6809355.75726, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 4413, + "strid": "422d3953-cf24-491f-bb46-9f77af29ea43", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2241.186, + 3143.959, + 960.1300000000001, + 185.13799999999992 + ], + "priority": 24, + "parents": [ + 4406 + ], + "children": [], + "area": 7046196.895374, + "iscrowd": 0, + "segmentation": [], + "text": "Based on our results and current understanding of EVD\ndependent activated pathways, an association is\n\nanticipated of ATM kinase with these pathways and\nkinases through which Ebola pathology is achieved." + }, + { + "id": 4407, + "strid": "dc4a1541-a4a8-4236-8f7e-9b9c10c5c32d", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2238.766, + 3432.566, + 450.38099999999986, + 53.934999999999945 + ], + "priority": 25, + "parents": [ + 4423 + ], + "children": [ + 4414 + ], + "area": 7684712.053556, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 4414, + "strid": "8f06ac8d-c723-4652-af68-caf5e47f9cdc", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2240.484, + 3525.099, + 941.634, + 116.46399999999994 + ], + "priority": 26, + "parents": [ + 4407 + ], + "children": [], + "area": 7897927.907916, + "iscrowd": 0, + "segmentation": [], + "text": "| would like to thank to the people at Harvard and MIT, who pro-\nvided the genomic sequences of EBOV. Also, | would like to\nthanks CMPG/CSB group for their guidance and support." + }, + { + "id": 4412, + "strid": "623d6be0-66b3-4a83-97dc-ce757d5c72bd", + "image_id": 200683, + "image_name": "10595.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2242.398, + 3801.605, + 542.857, + 268.14699999999993 + ], + "priority": 27, + "parents": [ + 4423 + ], + "children": [], + "area": 8524711.44879, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74751, + "strid": "bb7bdac0-965f-4ed5-8685-74064243a5f6", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 80.42, + 149.17, + 399.33, + 325.99 + ], + "priority": -1, + "parents": [], + "children": [ + 74742, + 74734, + 74733, + 74749, + 74737, + 74735 + ], + "area": 11996.2514, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74733, + "strid": "f6e553e3-fd04-4b1d-bb3b-797fa42b610b", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 510.605, + 47.843, + 2596.155, + 220.745 + ], + "priority": 1, + "parents": [ + 74751 + ], + "children": [], + "area": 24428.875015, + "iscrowd": 0, + "segmentation": [], + "text": "Estimation of Cortical Thickness from T1- weighted MR Images\nusing Tissue Fractions\n\n \n\ni" + }, + { + "id": 74734, + "strid": "96ba31fa-1607-44da-8c20-e2319dd06c23", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 630.575, + 270.987, + 2349.017, + 249.53800000000007 + ], + "priority": 2, + "parents": [ + 74751 + ], + "children": [], + "area": 170877.62752500002, + "iscrowd": 0, + "segmentation": [], + "text": "Anand A. Joshi2, Chitresh Bhushan?, Ronald Salloum?, David W. Shattuck?, Richard M. Leahy?\n\n1Signal and Image Processing Institute, University of Southern California, Los Angeles, USA\n2Brain and Creativity Institute, University of Southern California, Los Angeles, USA\n3Ahmanson-Lovelace Brain Mapping Center, University of California, Los Angeles, USA" + }, + { + "id": 74735, + "strid": "f65e0594-f39b-4abb-81b0-a4908879207e", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 840.821, + 599.926, + 214.2510000000001, + 48.898000000000025 + ], + "priority": 3, + "parents": [ + 74751 + ], + "children": [ + 74736 + ], + "area": 504430.379246, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 74736, + "strid": "6b2dcc06-2a45-4e42-b9bb-b443483ac438", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 35.615, + 690.234, + 1705.479, + 1085.502 + ], + "priority": 4, + "parents": [ + 74735 + ], + "children": [], + "area": 24582.683910000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74737, + "strid": "f904c668-ce1e-442f-a998-980995d6cf42", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 821.677, + 1799.962, + 228.438, + 49.152000000000044 + ], + "priority": 5, + "parents": [ + 74751 + ], + "children": [ + 74738, + 74739, + 74741 + ], + "area": 1478987.376274, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 74738, + "strid": "acae79bd-8184-4879-a4c6-fc9d625ba12a", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 58.191, + 1885.465, + 1645.371, + 380.52600000000007 + ], + "priority": 6, + "parents": [ + 74737 + ], + "children": [], + "area": 109717.093815, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74739, + "strid": "f1bed759-82dc-4883-a4a6-7e437cffc5f3", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 176.101, + 2276.71, + 1461.3609999999999, + 398.3910000000001 + ], + "priority": 7, + "parents": [ + 74737 + ], + "children": [ + 74740 + ], + "area": 400930.90771, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74740, + "strid": "229f5a6f-2596-4436-96b4-d2b62605f20d", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 127.419, + 2682.502, + 1561.93, + 209.79100000000017 + ], + "priority": 8, + "parents": [ + 74739 + ], + "children": [], + "area": 341801.72233799996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Thickness estimation procedure. (a) Gray-matter fraction estimated using a\npartial volume model; (b) Temperature map obtained using the proposed ALE\nmethod; and (c) Thickness estimate using the ALE method shown on the estimated\nmid-cortical surface." + }, + { + "id": 74741, + "strid": "628fa42b-d035-4c80-96a1-da4198f43208", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 34.316, + 2913.779, + 1693.083, + 1741.6700000000005 + ], + "priority": 9, + "parents": [ + 74737 + ], + "children": [], + "area": 99989.240164, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74742, + "strid": "de546dd4-6cc0-4757-a8a4-47901bddf99e", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2637.61, + 601.698, + 180.82999999999993, + 46.572 + ], + "priority": 10, + "parents": [ + 74751 + ], + "children": [ + 74746, + 74743, + 74744, + 74747 + ], + "area": 1587044.66178, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74743, + "strid": "e310b309-2d39-419a-95fd-9af271edc352", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1871.619, + 698.605, + 1685.1379999999997, + 772.1770000000001 + ], + "priority": 11, + "parents": [ + 74742 + ], + "children": [], + "area": 1307522.3914949999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74744, + "strid": "c9a8f370-308b-44d2-963f-efd73eb8e3bf", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1935.611, + 1481.447, + 1497.4260000000002, + 991.885 + ], + "priority": 12, + "parents": [ + 74742 + ], + "children": [ + 74745 + ], + "area": 2867505.109117, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74745, + "strid": "85949c67-0d83-4b39-a049-a6057863a593", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1938.269, + 2473.638, + 1562.5199999999998, + 204.48099999999977 + ], + "priority": 13, + "parents": [ + 74744 + ], + "children": [], + "area": 4794575.852622, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Average,cortical thickness map estimated using (row 1) histological findings\nfrom literature. [4]*; (row 2) proposed Anisotropic Laplace Equation*(ALE) method;\n(row 3) Isotropic Laplace Equation (LE) method; and (row.4)-Linked Distance (LD)\nmethod," + }, + { + "id": 74746, + "strid": "038bf9d2-6433-4e7d-bf86-535e72ab0e79", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1868.999, + 2709.26, + 1679.907, + 635.4259999999999 + ], + "priority": 14, + "parents": [ + 74742 + ], + "children": [], + "area": 5063604.2307400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74747, + "strid": "9ff72d1c-eb63-4b1b-b4aa-67b29db9fe25", + "image_id": 203414, + "image_name": "120189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1896.799, + 3394.329, + 762.511, + 691.0259999999998 + ], + "priority": 15, + "parents": [ + 74742 + ], + "children": [ + 74748 + ], + "area": 6438359.852871, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74748, + "strid": "b274fa1f-fa94-4f9b-8c61-1f10c601ff0d", + 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Research Group on Plant Foods in Hominin Dietary Ecology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany\nc Max Planck Weizmann Center for Integrative Archaeology and Anthropology, Max Planck Institute of Evolutionary Anthropology" + }, + { + "id": 122185, + "strid": "b6bb2719-4568-46e8-92ab-dac4ca5aacfd", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1495.017, + 551.276, + 257.17599999999993, + 41.462999999999965 + ], + "priority": 3, + "parents": [ + 122229 + ], + "children": [ + 122193, + 122216, + 122191, + 122214, + 122192, + 122213, + 122215 + ], + "area": 824166.991692, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 122191, + "strid": "efa69c28-f6c6-4c97-bca3-49dab648be55", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 181.721, + 650.73, + 2913.278, + 76.12599999999998 + ], + "priority": 4, + "parents": [ + 122185 + ], + "children": [], + "area": 118251.30633, + "iscrowd": 0, + "segmentation": [], + "text": "Researchers have performed phytolith analysis on reference populations to measure the reliability of dietary studies based on phytoliths in dental calculus. However, these studies are challenged by\nincomplete knowledge of phytoliths in the diet of these reference populations. To cross validate published this data, this study describes egested phytoliths of a group used as a reference population." + }, + { + "id": 122213, + "strid": "319faf0a-0119-46e7-92a2-2e1ef85670e8", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 197.456, + 841.648, + 998.5659999999999, + 521.5769999999999 + ], + "priority": 5, + "parents": [ + 122185 + ], + "children": [], + "area": 166188.447488, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122214, + "strid": "f6e004c9-a7c9-4229-bf5a-4cae2c5659d9", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1425.892, + 805.572, + 915.876, + 447.81799999999987 + ], + "priority": 6, + "parents": [ + 122185 + ], + "children": [], + "area": 1148658.670224, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122193, + "strid": "b38b3771-51dd-4397-a5f0-edb7e3f23201", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1510.674, + 1335.059, + 1061.663, + 94.48700000000008 + ], + "priority": 7, + "parents": [ + 122185 + ], + "children": [], + "area": 2016838.919766, + "iscrowd": 0, + "segmentation": [], + "text": "Discrepancy between diet and dental calculus. Colours represent different foods. Outermost\nring = minutes spent consuming each genus averaged in feeding records, innermost\nring = phytolith counts" + }, + { + "id": 122192, + "strid": "c706cd6e-409c-4a04-a949-b508dcf11462", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2460.173, + 884.549, + 338.451, + 274.0799999999999 + ], + "priority": 8, + "parents": [ + 122185 + ], + "children": [], + "area": 2176143.566977, + "iscrowd": 0, + "segmentation": [], + "text": "Previous research has\nbuilt a quantitative\ndataset of diet and\nphytoliths from\nchimpanzees from the\nTai National Park in\nCéte d'Ivoire" + }, + { + "id": 122215, + "strid": "7d025b2c-ba8b-4808-9593-9dde9104c972", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2590.955, + 1264.348, + 192.70400000000018, + 191.78199999999993 + ], + "priority": 9, + "parents": [ + 122185 + ], + "children": [], + "area": 3275868.7723399997, + 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"Methods" + }, + { + "id": 122221, + "strid": "8009844c-ba4b-46d8-ab70-b709775739cd", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 173.255, + 1705.141, + 272.044, + 247.52999999999997 + ], + "priority": 12, + "parents": [ + 122186 + ], + "children": [], + "area": 295424.20395500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122207, + "strid": "565cc3de-f8d9-446a-a185-1cac00a12f4b", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 487.428, + 1658.264, + 611.9509999999999, + 182.95399999999995 + ], + "priority": 13, + "parents": [ + 122186 + ], + "children": [], + "area": 808284.304992, + "iscrowd": 0, + "segmentation": [], + "text": "Sample treatment\n\nFaeces of wild chimpanzees were\ncollected in the Tai Forest during January\nand February 2015." + }, + { + "id": 122222, + "strid": "3ed12eaf-d1d3-40c1-aa03-fed363945e87", + "image_id": 205257, 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Samples were\n\ntreated with 10% HCL to\n\nremove carbonites." + }, + { + "id": 122203, + "strid": "95f62a0a-9fe5-4e88-bef2-12927aa94623", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1607.215, + 2464.869, + 687.8689999999999, + 76.59999999999991 + ], + "priority": 25, + "parents": [ + 122186 + ], + "children": [], + "area": 3961574.429835, + "iscrowd": 0, + "segmentation": [], + "text": "How do assemblages compare with the dental\ncalculus reference dataset?" + }, + { + "id": 122199, + "strid": "13221261-5784-4da7-9d91-88a47a7b5c04", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2670.502, + 1656.435, + 350.81500000000005, + 39.94399999999996 + ], + "priority": 26, + "parents": [ + 122186 + ], + "children": [], + "area": 4423512.98037, + "iscrowd": 0, + "segmentation": [], + "text": "Reference feeding data" + }, + { + "id": 122217, + "strid": "fdd89b22-b2e2-44eb-90c8-c5acb685aa5a", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2514.86, + 1860.577, + 298.91499999999996, + 240.87500000000023 + ], + "priority": 27, + "parents": [ + 122186 + ], + "children": [ + 122212 + ], + "area": 4679090.67422, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122212, + "strid": "30db06eb-2917-48a2-9202-4aad319e0d4f", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2510.295, + 2117.305, + 346.06899999999996, + 28.577000000000226 + ], + "priority": 28, + "parents": [ + 122217 + ], + "children": [], + "area": 5315060.154975, + "iscrowd": 0, + "segmentation": [], + "text": "Picture by Adam van Carsteren" + }, + { + "id": 122198, + "strid": "53c2759c-d5fa-4412-adec-b61492ede1df", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2837.226, + 1851.815, + 292.63499999999976, + 243.13900000000012 + ], + "priority": 29, + "parents": [ + 122186 + ], + "children": [], + "area": 5254017.66519, + "iscrowd": 0, + "segmentation": [], + "text": "Comprehensive\nbehavioural data\nwas collected from\n1992 onwards from\nabout 128\nchimpanzees." + }, + { + "id": 122197, + "strid": "ee58be1e-864a-4d66-9b25-6baa1c6a351c", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2503.944, + 2233.081, + 556.7089999999998, + 81.48999999999978 + ], + "priority": 30, + "parents": [ + 122186 + ], + "children": [], + "area": 5591509.771464, + "iscrowd": 0, + "segmentation": [], + "text": "Feeding information was subsampled\nfrom data and trends plotted." + }, + { + "id": 122196, + "strid": "b72bfcc3-7703-495a-9878-ce160340d37c", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2479.926, + 2462.112, + 649.3499999999999, + 79.77500000000009 + ], + "priority": 31, + "parents": [ + 122186 + ], + "children": [], + "area": 6105855.563712, + "iscrowd": 0, + "segmentation": [], + "text": "How do assemblages compare with feeding\nrecords?" + }, + { + "id": 122187, + "strid": "d34f28a4-053e-4974-87ef-3773c1aeb8b4", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1570.725, + 2595.94, + 159.8209999999999, + 40.77599999999984 + ], + "priority": 32, + "parents": [ + 122229 + ], + "children": [ + 122224, + 122225, + 122208, + 122223, + 122194, + 122227, + 122195, + 122226 + ], + "area": 4077507.8564999998, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 122223, + "strid": "a2ba6ac2-8480-49f2-b2da-9b50830d17db", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 185.822, + 2642.5, + 740.073, + 212.98999999999978 + ], + "priority": 33, + "parents": [ + 122187 + ], + "children": [], + "area": 491034.635, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122194, + "strid": "9fa68dec-d40d-464e-9628-914cc573c96f", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 968.613, + 2680.6, + 276.51199999999994, + 150.94999999999982 + ], + "priority": 34, + "parents": [ + 122187 + ], + "children": [], + "area": 2596464.0078000003, + "iscrowd": 0, + "segmentation": [], + "text": "A selection of phytolith\nmorphotypes in faecal\nsamples. A) short-cell,\nB) Multicellular tracheid,\nC) Spheroid echinate." + }, + { + "id": 122225, + "strid": "0a76f7da-2fa7-4c63-8cee-42882ff4f1f7", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1573.13, + 2669.118, + 888.5610000000001, + 305.12400000000025 + ], + "priority": 35, + "parents": [ + 122187 + ], + "children": [], + "area": 4198869.59934, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122195, + "strid": "6f8918e7-3d3a-4ae6-983d-aefaf5053f44", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2490.159, + 2700.911, + 628.598, + 160.31399999999985 + ], + "priority": 36, + "parents": [ + 122187 + ], + "children": [], + "area": 6725697.834849, + "iscrowd": 0, + "segmentation": [], + "text": "Remaining residue percent following\nphytolith extraction. Phytoliths and other\nparticles were a relatively small portion of\neach sample." + }, + { + "id": 122224, + "strid": "fd62e2c3-c52d-4225-aec9-aeba523f57e0", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 83.952, + 2969.003, + 883.931, + 1085.6330000000003 + ], + "priority": 37, + "parents": [ + 122187 + ], + "children": [], + "area": 249253.739856, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122226, + "strid": "eab561e5-9eec-4e15-98a8-b09d7fed6e3b", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1055.957, + 2985.772, + 982.8320000000001, + 1071.4899999999998 + ], + "priority": 38, + "parents": [ + 122187 + ], + "children": [], + "area": 3152846.8438040004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122227, + "strid": "6e4300a6-44c7-4535-b3e9-caece897db8c", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2127.447, + 2990.838, + 1058.824, + 1066.424 + ], + "priority": 39, + "parents": [ + 122187 + ], + "children": [], + "area": 6362849.330586, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122208, + "strid": "85371832-06cb-43c7-ab66-1e50aa9cd1f9", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.091, + 4153.584, + 1409.141, + 80.21500000000015 + ], + "priority": 40, + "parents": [ + 122187 + ], + "children": [], + "area": 424043.544144, + "iscrowd": 0, + "segmentation": [], + "text": "Phytolith assemblages in faecal samples are relatively diverse, but are dominated by dicot-type\nphytoliths including some relatively rare types." + }, + { + "id": 122188, + "strid": "6b75172f-4dc7-4ac5-a460-7a16c0d083ea", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2314.607, + 4081.037, + 236.471, + 42.06600000000026 + ], + "priority": 41, + "parents": [ + 122229 + ], + "children": [ + 122211 + ], + "area": 9445996.807458999, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 122211, + "strid": "9f071801-ca8c-4e15-8199-a9bc27f57131", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1686.62, + 4168.49, + 1445.274, + 203.66300000000047 + ], + "priority": 42, + "parents": [ + 122188 + ], + "children": [], + "area": 7030658.603799999, + "iscrowd": 0, + "segmentation": [], + "text": "Phytoliths from dental calculus differ from faecal samples. Unlike dental calculus, faecal samples\nshow a relative diverse assemblage that is not shewed to any particular morphotype. Dental\ncalculus overrepresents spheroid echinates, potentially due to tapbhonomic robustness (Cabanes\nand Shahack-Gross, 2015). Further interpretation of faecal samples requires a larger sample size\nand coverage of faecal samples from additional seasons." + }, + { + "id": 122189, + "strid": "17577216-a656-404b-9ba4-017065e510ba", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2225.858, + 4401.058, + 396.21399999999994, + 49.71100000000024 + ], + "priority": 43, + "parents": [ + 122229 + ], + "children": [ + 122210 + ], + "area": 9796130.157764, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 122210, + "strid": "572745a6-77fb-40b7-82c3-feb87640f4be", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1703.796, + 4465.397, + 1468.584, + 94.47000000000025 + ], + "priority": 44, + "parents": [ + 122189 + ], + "children": [], + "area": 7608125.547012, + "iscrowd": 0, + "segmentation": [], + "text": "We thank Amanda Henry for access to research facilities. | also thank Adam van Carsteren for his picture. We thank Roman Wittig, and field assistants at Tai National Park\nfor collection of samples. We also wish to acknowledge the Ministére de la Recherche Scientifique and the Ministére de I'Environnement et des Eaux et Foréts of Céte\nd'Ivoire, the Office Ilvorien des Parcs et Reserves, the Director of the Tai National Park for permission to conduct this research. We are grateful for support by the Centre\nSuisse de Recherches Scientifiques at Abidjan, Céte d'Ivoire" + }, + { + "id": 122190, + "strid": "ec6abe79-552f-460c-9fe3-2f893646f4e6", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 704.137, + 4308.365, + 273.087, + 50.07800000000043 + ], + "priority": 45, + "parents": [ + 122229 + ], + "children": [ + 122209 + ], + "area": 3033679.2060049996, + "iscrowd": 0, + "segmentation": [], + "text": "Bibliography" + }, + { + "id": 122209, + "strid": "df6f0e15-7ef6-4851-ba98-0bb61b5ccd5a", + "image_id": 205257, + "image_name": "14528.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.723, + 4377.312, + 1437.492, + 189.35800000000017 + ], + "priority": 46, + "parents": [ + 122190 + ], + "children": [], + "area": 541574.172576, + "iscrowd": 0, + "segmentation": [], + "text": "Cabanes, D., Shahack-Gross, R., 2015. Understanding fossil phytolith preservation: The role of partial dissolution in paleoecology and archaeology. PLoS ONE. 10,\n\n0125532.\n\nFritz J, Streich WJ, Schwarm A, Clauss M. 2012. Condensing results of wet sieving analyses into a single data: a comparison of methods for particle size description. J\nAnim Physiol Anim Nutr 96:783-797.\n\nLeonard, C., Vashro, L., O'Connell, J.F., Henry, A.G., 2015. Plant microremains in dental calculus as a record of plant consumption: A test with Twe forager-\nhorticulturalists. Journal of Archaeological Science: Reports. 2, 449-457.\n\nPower, R.C., Salazar-Garcia, D.C., Wittig, R.M., Freiberg, M., Henry, A.G., 2015. Dental calculus evidence of Tai Forest Chimpanzee plant consumption and life history\n\ntransitions. 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boy (11)" + }, + { + "id": 124799, + "strid": "fb5bc014-239c-43bd-9577-5c8202bc5e03", + "image_id": 205358, + "image_name": "14866.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 645.936, + 1967.064, + 922.0690000000001, + 21.60200000000009 + ], + "priority": 29, + "parents": [ + 124801 + ], + "children": [], + "area": 1270597.451904, + "iscrowd": 0, + "segmentation": [], + "text": "it doesn’t matter to me whether he has tics, it matters that he’s happy.” - mother of a boy (10)" + }, + { + "id": 124800, + "strid": "b373daac-ce63-46ac-918f-5595e6552372", + "image_id": 205358, + "image_name": "14866.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 72.339, + 2051.443, + 1446.584, + 21.108999999999924 + ], + "priority": 30, + "parents": [ + 124801 + ], + "children": [], + "area": 148399.335177, + "iscrowd": 0, + "segmentation": [], + "text": "iked the explanation about the content of the therapy. The contacts with other parents were also nice (sharing experiences).” - mother of a girl (13)" + }, + { + "id": 159514, + "strid": "b280896a-8adb-4a22-8797-1b31dad78b9c", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 56.67, + 527.33, + 154.83999999999997, + 154.83999999999992 + ], + "priority": -1, + "parents": [], + "children": [ + 159489, + 159490, + 159483, + 159484, + 159486, + 159487, + 159491, + 159488, + 159485 + ], + "area": 29883.791100000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159484, + "strid": "446f19b8-ddae-49a5-9408-3956bf4838ec", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 248.45, + 617.068, + 2794.676, + 203.19900000000007 + ], + "priority": 1, + "parents": [ + 159514 + ], + "children": [], + "area": 153310.5446, + "iscrowd": 0, + "segmentation": [], + "text": "A systems approach to unravel host response processes and host-\nparasite interactions in trypanosome infections" + }, + { + "id": 159483, + "strid": "c3e8564c-e0ba-47b7-9eea-017a8a4d9169", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1806.695, + 64.698, + 1480.907, + 377.101 + ], + "priority": 2, + "parents": [ + 159514 + ], + "children": [], + "area": 116889.55310999998, + "iscrowd": 0, + "segmentation": [], + "text": "Siddharth Jayaraman’, Sofie Demeyer’, Darren Creek?, Christiane\nHertz-Fowler?, Michael P. Barrett’, Liam J. Morrison? & Tom Michoel*\n\n1Roslin Institute, University of Edinburgh, Bush Estate, Midlothian EH25 9RG, 2 Biochemistry\nand Molecular Biology, University of Melbourne, Parkville 3010, Victoria, Australia and\n3Centre for Genomic Research, Institute of Integrative Biology, University of Liverpool,\nCrown Street, Liverpool L69 7ZB , 4 Wellcome Trust Centre for Molecular Parasitology,\nInstitute of Infection, Immunity and Inflammation, University of Glasgow, Glasgow G12 8TA" + }, + { + "id": 159485, + "strid": "5de5da18-452b-4e07-bfaf-a5c0aa7888ca", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 96.33, + 868.153, + 328.648, + 45.71799999999996 + ], + "priority": 3, + "parents": [ + 159514 + ], + "children": [ + 159492, + 159508 + ], + "area": 83629.17849, + "iscrowd": 0, + "segmentation": [], + "text": "1 Introduction" + }, + { + "id": 159492, + "strid": "c3d412ec-1ec0-4de9-a691-3b02a9e16daf", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.789, + 921.267, + 1469.299, + 417.49599999999987 + ], + "priority": 4, + "parents": [ + 159485 + ], + "children": [], + "area": 121412.856663, + "iscrowd": 0, + "segmentation": [], + "text": "The relative resistance or susceptibility to parasite infections depends on a complex\ninterplay between host and parasite genotypes (1,2). A host-parasite genotype infection\nmatrix using severe and mildly virulent trypanosome strains (3,4) with susceptible and\nresistant mice (5)(Fig. 1A) will enable investigation of the relative contribution of host or\nparasite genotype to disease phenotypes. In order to identify key host response processes\nand host-parasite interactions at the molecular, pathway and whole-system level, we have\ngenerated mouse RNAseq gene expression profiles during disease progression and used\ndata mining algorithms to link those data to mouse metabolome profiles derived from the\nsame samples. byo 3 6 1» 2" + }, + { + "id": 159508, + "strid": "2fea4f48-fb00-4098-8dad-ee64ad8533fd", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 104.783, + 1311.959, + 1513.487, + 383.28300000000013 + ], + "priority": 5, + "parents": [ + 159485 + ], + "children": [ + 159498 + ], + "area": 137470.999897, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159498, + "strid": "fb73baf4-9fac-4d66-85b0-374edcdefe87", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 117.509, + 1715.965, + 1485.516, + 160.55600000000004 + ], + "priority": 6, + "parents": [ + 159508 + ], + "children": [], + "area": 201641.331185, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: A) Our experimental models; C57BI/6 mice are tolerant to trypanosome infections, BALB/c mice are\nsusceptible, Trypanosoma brucei TREU927 are virulent pathogens, Trypanosoma brucei STIB247 are less\nvirulent. B) experimental time series setup and C) shows the biological replicates and total number of\nsamples used for this analysis." + }, + { + "id": 159486, + "strid": "0180cd56-99b7-4b8d-a29f-81d6721cd90d", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 97.197, + 1920.269, + 597.801, + 55.011999999999944 + ], + "priority": 7, + "parents": [ + 159514 + ], + "children": [ + 159504, + 159509 + ], + "area": 186644.385993, + "iscrowd": 0, + "segmentation": [], + "text": "2 Methods and objectives" + }, + { + "id": 159509, + "strid": "0fa34e0d-0505-40d6-ab08-6e73739ee9ea", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 131.965, + 2116.312, + 1484.009, + 688.1459999999997 + ], + "priority": 8, + "parents": [ + 159486 + ], + "children": [ + 159499 + ], + "area": 279279.11308, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159499, + "strid": "a4a77b20-ba13-4ea3-a0d5-a59eee8075ee", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 118.47, + 1979.381, + 1488.004, + 117.68000000000006 + ], + "priority": 9, + "parents": [ + 159509 + ], + "children": [], + "area": 234497.26707, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: The experimental workflow consisting of extracting the RNA from spleens, which underwent RNA-\nSeq for transcriptome analysis, and the blood plasma from each of the sampled mice was subjected to LC-MS\nfor metabalome analysis." + }, + { + "id": 159504, + "strid": "714f8e77-bed3-4b3e-a983-0539e4b09800", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 115.5, + 2797.768, + 1499.974, + 368.94000000000005 + ], + "priority": 10, + "parents": [ + 159486 + ], + "children": [], + "area": 323142.204, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159487, + "strid": "1a989a15-d917-4ce8-a180-6e5cb582d4e6", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 94.98, + 3217.008, + 1192.861, + 129.962 + ], + "priority": 11, + "parents": [ + 159514 + ], + "children": [ + 159511, + 159493, + 159494, + 159510 + ], + "area": 305551.41984, + "iscrowd": 0, + "segmentation": [], + "text": "3 Results\n3.1 Exploration of relationships between conditions" + }, + { + "id": 159493, + "strid": "48b74f19-7b85-4a2e-b65d-0bb1d147243c", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 112.197, + 3345.415, + 1456.437, + 116.54399999999987 + ], + "priority": 12, + "parents": [ + 159487 + ], + "children": [], + "area": 375345.526755, + "iscrowd": 0, + "segmentation": [], + "text": "The first step of analysis was to examine sample variability (the data for each sample encompassing gene\nexpression for all genes in a given sample), the similarities and differences between treatments, and outline\ngeneral trends.\n\nOO" + }, + { + "id": 159510, + "strid": "fe15e9f8-e538-4fae-afcb-64e4006556a7", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 123.118, + 3469.166, + 661.1870000000001, + 703.2789999999995 + ], + "priority": 13, + "parents": [ + 159487 + ], + "children": [ + 159500 + ], + "area": 427116.779588, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159500, + "strid": "fffd7a85-843c-45df-a4bd-e1f6b4bf129e", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 124.669, + 4186.37, + 606.991, + 72.80100000000039 + ], + "priority": 14, + "parents": [ + 159510 + ], + "children": [], + "area": 521910.56152999995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Dendrogram showing the distances\nbetween different conditions" + }, + { + "id": 159511, + "strid": "e0bb8973-bd8b-4c9b-850e-b3bf4e08f177", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 808.859, + 3451.628, + 789.216, + 722.5710000000004 + ], + "priority": 15, + "parents": [ + 159487 + ], + "children": [ + 159501 + ], + "area": 2791880.372452, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159501, + "strid": "30fef6a9-e27a-4126-a184-e934d605bd57", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 853.22, + 4191.232, + 718.556, + 113.45600000000013 + ], + "priority": 16, + "parents": [ + 159511 + ], + "children": [], + "area": 3576042.96704, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Individual replicate level MDS plot for gene-\nlevel features showing a separation between the\nmouse genotype along the second dimension" + }, + { + "id": 159494, + "strid": "fbfa1227-af20-4f19-b47a-af18dc39c01a", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 100.587, + 4321.861, + 1519.353, + 90.70799999999963 + ], + "priority": 17, + "parents": [ + 159487 + ], + "children": [], + "area": 434723.032407, + "iscrowd": 0, + "segmentation": [], + "text": "The data showed a strong time-dependent effect (early vs late) and the second level of variation\nis due to a mouse genotype effect." + }, + { + "id": 159488, + "strid": "7fea39b8-03d9-4971-b039-cbebbd8cb062", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1671.352, + 864.433, + 1282.6580000000001, + 115.74000000000001 + ], + "priority": 18, + "parents": [ + 159514 + ], + "children": [ + 159496, + 159513, + 159495 + ], + "area": 1444771.823416, + "iscrowd": 0, + "segmentation": [], + "text": "3.2 Summary of differentially expressed genes between\nconditions" + }, + { + "id": 159495, + "strid": "80bbbc39-4bd8-4e9f-a835-b225d3c7ad7c", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1672.597, + 984.449, + 1455.314, + 38.798 + ], + "priority": 19, + "parents": [ + 159488 + ], + "children": [], + "area": 1646586.4440529998, + "iscrowd": 0, + "segmentation": [], + "text": "The next level of analysis is to examine genes that are differentially expressed between treatments." + }, + { + "id": 159513, + "strid": "344f8b83-8b07-4c12-b290-fac8df399ed4", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1727.973, + 1054.9, + 1452.8559999999998, + 358.6779999999999 + ], + "priority": 20, + "parents": [ + 159488 + ], + "children": [ + 159502 + ], + "area": 1822838.7177000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159502, + "strid": "92fbaf82-6bf5-4859-8844-2c8eaf2dd8d4", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1699.933, + 1418.3, + 1478.73, + 121.23399999999992 + ], + "priority": 21, + "parents": [ + 159513 + ], + "children": [], + "area": 2411014.9739, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: A) Venn diagram showing the overlap between the differentially expressed genes relative to\nrespective uninfected mice for both genotypes, B) shows the differences in the genes differentially\nexpressed (relative to uninfected) between the mouse-parasite genotype pairs at early time point (day 3)." + }, + { + "id": 159496, + "strid": "76feecaf-3a3a-4cb3-acc5-b57409c16cfd", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1668.214, + 1552.491, + 1538.9279999999999, + 231.3520000000001 + ], + "priority": 22, + "parents": [ + 159488 + ], + "children": [], + "area": 2589887.221074, + "iscrowd": 0, + "segmentation": [], + "text": "Genes differentially expressed between infected and uninfected mice show both significant time\ndependent and host and 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More perturbation is seen in the\ntranscriptome from mice infected with 927 at early time points, but the differentially expressed\ngenes between the different genotype combinations (Fig. 5B) only partially overlap, suggesting a\nhost-parasite genotype effect." + }, + { + "id": 159489, + "strid": "7413f7c2-69fb-4909-b1c9-243e16abdf09", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1675.583, + 1830.78, + 1469.3470000000002, + 58.350999999999885 + ], + "priority": 23, + "parents": [ + 159514 + ], + "children": [ + 159512, + 159507, + 159497 + ], + "area": 3067623.84474, + "iscrowd": 0, + "segmentation": [], + "text": "3.3 Gene-metabolite correlation — Trypanosomes and Glycolysis" + }, + { + "id": 159512, + "strid": "97150d12-878e-4b0d-befd-a9b7ad71098c", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1690.274, + 1903.626, + 1501.085, + 898.135 + ], + "priority": 24, + "parents": [ + 159489 + ], + "children": [ + 159503 + ], + "area": 3217649.5335239996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159503, + "strid": "8d9ac236-a453-48c2-8b16-913ed767bf54", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1700.899, + 2819.963, + 1474.455, + 119.36700000000019 + ], + "priority": 25, + "parents": [ + 159512 + ], + "children": [], + "area": 4796472.246737, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: A) Aerobic glycolysis in bloodstream form T. brucei, B) Host gene expression plot over time and\ngenotype for hexokinase and pyruvate kinase, compared to plasma metabolite levels over time and\ngenotype for glucose and pyruvate." + }, + { + "id": 159497, + "strid": "bc235d14-0510-4e0d-97b9-ec9b59501406", + "image_id": 206731, + "image_name": "6334.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1678.185, + 2959.218, + 1502.6, + 231.84000000000015 + ], + "priority": 26, + "parents": [ + 159489 + ], + "children": [], + "area": 4966115.25933, + "iscrowd": 0, + "segmentation": [], + "text": "Study objectives: Applying integrated omics approach to study the impact of trypanosome\nglucose consumption in vivo, upon the host response and infection phenotype along with\nsignatures of parasite glucose consumption. 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+ "text": "Unusual Properties of a Fie\nby Low-Level Laser Radiation Used in\nTherapy of Infection Pathology\nIncluding Hepatitis C Virus and a New\nCoronavirus Infection" + }, + { + "id": 155231, + "strid": "a3f69a70-71e4-4f03-acd8-4b0b4399176f", + "image_id": 206556, + "image_name": "22727.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 338.584, + 438.227, + 646.665, + 227.75599999999997 + ], + "priority": 2, + "parents": [ + 155232 + ], + "children": [], + "area": 148376.65056799998, + "iscrowd": 0, + "segmentation": [], + "text": "Naylya Djumaeva, M.D., Ph.D.\nNeurologist,\n\nExpert in “Medicament testing”\nScientific-Research Institute of Virology,\nUzbekistan" + }, + { + "id": 26235, + "strid": "ba9a2867-f6b1-4e2c-9e89-0f21d2acbed2", + "image_id": 201541, + "image_name": "117271.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 152.16, + 27.12, + 78.99000000000001, + 81.91 + ], + "priority": -1, + "parents": [], + "children": [ + 26219, 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Buxbaum’, A. Blanchetot?, N. Larsen”, G. Meisenberg?, A. Yin3, D.B. Averill4 & B.E.\nWright?\n(1) Address for Correspondence: Department of Biochemistry, Ross University School of Medicine Portsmouth\nCampus, P.O. Box 266, Roseau, Commonwealth of Dominica, West Indies, ebuxbaum@rossmed.edu.dm\n(2) Dept. of Biochemistry, RUSM, (3) Dept. of Anatomy, RUSM\n(4) Department of Basic Sciences, The Commonwealth Medical College (5) Dept. of Physiology, RUSM" + }, + { + "id": 111975, + "strid": "ea29c658-fdec-4135-85c5-2db0c6a22564", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 594.188, + 837.447, + 144.43200000000002, + 27.851 + ], + "priority": 3, + "parents": [ + 111999 + ], + "children": [ + 111980 + ], + "area": 497600.95803599997, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 111980, + "strid": "085cc06e-3ce2-41d5-9514-d24d661ad3af", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 194.941, + 905.566, + 946.6689999999999, + 492.2850000000001 + ], + "priority": 4, + "parents": [ + 111975 + ], + "children": [], + "area": 176531.941606, + "iscrowd": 0, + "segmentation": [], + "text": "N order to help students integrate basic science and clinical\n\nconcepts, we use an approach where students solve a clin-\nical case and then answer questions relating to the case. In\norder to arrive at the correct diagnosis, students have to or-\nder exams and lab tests, and pay for them from a restricted\nbudget, represented by “tokens”. To order tests in a proper se-\nquence (search to confirmatory) students need a good under-\nstanding of the science behind the disease, how tests work,\nand how they are interpreted.\nBoth students and faculty enjoy this new format, which is very\nflexible and can be easily adjusted for different learning ob-\njectives." + }, + { + "id": 111976, + "strid": "c3fd30ff-fbd0-49fa-843d-e624ceb52be5", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 550.471, + 1460.666, + 234.53499999999997, + 29.76800000000003 + ], + "priority": 5, + "parents": [ + 111999 + ], + "children": [ + 111981 + ], + "area": 804054.273686, + "iscrowd": 0, + "segmentation": [], + "text": "1. Introduction" + }, + { + "id": 111981, + "strid": "cf5cd4fa-ab08-4a29-a4a1-0ac6a7743c82", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 192.429, + 1532.228, + 947.783, + 653.4940000000001 + ], + "priority": 6, + "parents": [ + 111976 + ], + "children": [], + "area": 294845.10181200004, + "iscrowd": 0, + "segmentation": [], + "text": "EDICAL students have to integrate basic science with clin-\nM ical knowledge. In order to use medical tests success-\nfully, students have to understand the working principle, and\nbe able to interpret its results in the context of the patient’s\nsituation. Clinical cases that simulate aspects of the work of\na physician are used to achieve this. Often, such sessions are\noffered in team-based learning (TBL) format to also improve\nsocial competencies of students.\nThe decision to order procedures, laboratory tests, or physi-\ncal exams depends upon cost (see for example [4]), complex-\nity, risk and availability. Physicians should not simply order\nevery available test. This concept can be made more con-\ncrete by incorporating \"tokens\" as tangible assets, with which\nstudents pay for test results. This should prepare students\nfor the budget restrictions they will encounter later in their\ncareer." + }, + { + "id": 111977, + "strid": "e6306130-9f31-4c5f-a91e-c3b67304b476", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 578.373, + 2247.82, + 179.29499999999996, + 28.447999999999865 + ], + "priority": 7, + "parents": [ + 111999 + ], + "children": [ + 111993, + 111983, + 111982, + 111992 + ], + "area": 1300078.3968600002, + "iscrowd": 0, + "segmentation": [], + "text": "2. Methods" + }, + { + "id": 111992, + "strid": "68d7b037-dca2-49bf-b5ce-7c672b381b3f", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 193.126, + 2318.194, + 945.3500000000001, + 797.1210000000001 + ], + "priority": 8, + "parents": [ + 111977 + ], + "children": [], + "area": 447703.534444, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111982, + "strid": "e79e1ac3-0381-4f33-9ef6-ad127c4fc83e", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 194.797, + 3130.546, + 947.299, + 325.49400000000014 + ], + "priority": 9, + "parents": [ + 111977 + ], + "children": [], + "area": 609820.969162, + "iscrowd": 0, + "segmentation": [], + "text": "Exam results can be given to the students on paper slips, or by\naccess to an electronic database. The entire session can even\nbe applied electronically, using web-shop software to handle\nthe selling of test results. Multiple choice questions can be\nanswered by simple show of hands, web survey (e.g., Survey-\nMonkey) or by an audience response system.\n\nWe have tested this format in first year students with four\ncases:" + }, + { + "id": 111993, + "strid": "208276ab-1669-4361-ae44-83f779869570", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 209.741, + 3474.763, + 928.655, + 495.2829999999999 + ], + "priority": 10, + "parents": [ + 111977 + ], + "children": [], + "area": 728800.2663830001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111983, + "strid": "7475c8f2-0281-42c9-8d28-f2f00560ddbf", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 193.788, + 3988.0, + 946.8409999999999, + 206.75900000000001 + ], + "priority": 11, + "parents": [ + 111977 + ], + "children": [], + "area": 772826.544, + "iscrowd": 0, + "segmentation": [], + "text": "Students reception of this teaching strategy was assessed\nafter IRB approval and Informed Consent by an anonymous\nquestionnaire using SurveyMonkey. A LIKERT-scale [3] was\nused to assess how much students agreed with the state-\nments given." + }, + { + "id": 111978, + "strid": "fc08d22d-0a53-4a85-951b-c59e0aa94c90", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 459.507, + 4257.016, + 413.56800000000004, + 33.935999999999694 + ], + "priority": 12, + "parents": [ + 111999 + ], + "children": [ + 111996, + 111984, + 111989, + 111997, + 111988, + 111986, + 111987, + 111995, + 111998, + 111985 + ], + "area": 1956128.6511119998, + "iscrowd": 0, + "segmentation": [], + "text": "3. Results and Discussion" + }, + { + "id": 111984, + "strid": "7f2016a7-7433-402d-8275-2b0bf09f03d8", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 194.731, + 4346.926, + 944.316, + 146.2569999999996 + ], + "priority": 13, + "parents": [ + 111978 + ], + "children": [], + "area": 846481.2469060001, + "iscrowd": 0, + "segmentation": [], + "text": "3.1 Case presentation\n\nWW: have originally developed this format for use with first\nyear Progressive Academic Education (PAcE)-students" + }, + { + "id": 111997, + "strid": "3fb69264-6849-4786-90bd-1467090edbd9", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1222.033, + 1216.694, + 851.049, + 592.3969999999999 + ], + "priority": 14, + "parents": [ + 111978 + ], + "children": [ + 111990 + ], + "area": 1486840.2189019998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111990, + "strid": "d6b26418-fe71-4cc2-9143-7d43b77010ae", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1179.92, + 813.038, + 945.2110000000002, + 207.28300000000002 + ], + "priority": 15, + "parents": [ + 111997 + ], + "children": [], + "area": 959319.7969600001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1: Tokens used for a paper-based lesson. Exam- and lab-\ntokens have different color. All tokens of a group are num-\nbered, the group number is added by hand. Students are\nasked to use the tokens in sequence, we are thus able to fol-\nlow their thinking later." + }, + { + "id": 111998, + "strid": "9a61c9fa-0bb2-45d6-9808-f17c6919bc5f", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1220.615, + 2377.39, + 854.923, + 2099.89 + ], + "priority": 16, + "parents": [ + 111978 + ], + "children": [ + 111991 + ], + "area": 2901877.89485, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111991, + "strid": "a383f835-737b-476f-b4e0-91f09accd65f", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1180.673, + 2025.736, + 942.278, + 163.3610000000001 + ], + "priority": 17, + "parents": [ + 111998 + ], + "children": [], + "area": 2391731.800328, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2: Lab results for a paper-based presentation. The two\nsides are printed onto the same sheet of paper, one sheet is\nneeded per group. The individual strips are cut with a guillo-\ntine and folded, so that the result is covered." + }, + { + "id": 111985, + "strid": "95a05f82-85af-456d-8186-90d7c6153482", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2162.638, + 808.628, + 947.1590000000001, + 1294.6169999999997 + ], + "priority": 18, + "parents": [ + 111978 + ], + "children": [], + "area": 1748769.640664, + "iscrowd": 0, + "segmentation": [], + "text": "(a scholar program), to help them integrate basic and clini-\ncal sciences. The lab-token approach is, however, extremely\nflexible. We have also used it for large classes. Other de-\npartments have modified this approach for teaching in sec-\nond year, with emphasis more on clinical procedure rather\nthan basic knowledge. Academic Success is now using this\napproach to develop the critical thinking ability of weak stu-\ndents.\n\nBy numbering the tokens, one can check that students order\ntests in proper sequence. For example, for a patient with pale\nmucus membranes a CBC should be ordered to check for the\npresence of anemia and to identify its type. If it is megaloblas-\ntic, blood levels of cobalamin and folate should be checked. If\ncobalamin is low in a child, one might do a SCHILLING-test. In\nan elderly patient, a search for anti-intrinsic factor autoanti-\nbodies would be more appropriate. To get this right, students\nneed a good understanding of how a test works and what the\nresult means. They also need to understand the role of vita-\nmin B,, and its uptake. This can be aided by keeping the re-\nport brief (e. g., “SCHILLING-test positive both with and without\nintrinsic factor”). Students work on level 5 (synthesis) and 6\n(evaluation) of BLOOM’s taxonomy [2]. We allow students one\nworking computer per group to search for information.\nStudents who get to the right diagnosis in a minimum number\nof steps receive commendation in front of their peers or even\na fruit basket. If they get it very wrong, students may receive\na letter from the insurance company that a certain test will\nnot be paid for.\n\nIt is possible to ask some basic science questions after an ini-\ntial case presentation, then have the case progress further\nand ask more questions." + }, + { + "id": 111986, + "strid": "ba19a8f1-83cf-4b13-b72b-4e8e9b8278ad", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2166.784, + 2115.385, + 938.886, + 136.94000000000005 + ], + "priority": 19, + "parents": [ + 111978 + ], + "children": [], + "area": 4583582.371840001, + "iscrowd": 0, + "segmentation": [], + "text": "3.2 Student responses\n\n23 out of 33 attending students answered the question-\nnaire after the second presentation of the Floppy Girl case." + }, + { + "id": 111995, + "strid": "0f7b64cc-f523-4dac-9151-160606f60b17", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2164.669, + 2265.104, + 928.1329999999998, + 270.81899999999996 + ], + "priority": 20, + "parents": [ + 111978 + ], + "children": [], + "area": 4903200.410575999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111989, + "strid": "6bdc0fa0-b116-43a4-8634-e71c035b4c47", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2164.459, + 2536.393, + 943.6909999999998, + 113.16400000000021 + ], + "priority": 21, + "parents": [ + 111978 + ], + "children": [], + "area": 5489918.656386999, + "iscrowd": 0, + "segmentation": [], + "text": "When asked, how many of the 4 practice sessions of a\nsemester should contain tokens, the following results were\nobtained:" + }, + { + "id": 111996, + "strid": "09935e38-327f-4742-b921-780411eeebf5", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2164.796, + 2648.394, + 307.43600000000015, + 332.5430000000001 + ], + "priority": 22, + "parents": [ + 111978 + ], + "children": [], + "area": 5733232.737623999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111987, + "strid": "d1204dea-cc8c-4b38-8025-5ff9d8454c3a", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2164.803, + 2991.635, + 944.7159999999999, + 328.3580000000002 + ], + "priority": 23, + "parents": [ + 111978 + ], + "children": [], + "area": 6476300.422905, + "iscrowd": 0, + "segmentation": [], + "text": "These results can be affected negatively when too little time\n(only one hour) is available. Students then wish for fewer\ncases (median 2 rather than 3), and are less sure about the\nvalue of the token format. More students feel that getting the\nright diagnosis is the primary objective of the presentation.\nTwo hours are normally required to do a meaningful presenta-\ntion of such a token-based case and to ask some 5-6 multiple\nchoice questions relating to it." + }, + { + "id": 111988, + "strid": "89241599-e469-4061-8df0-95ffd8b91c18", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2164.682, + 3335.097, + 945.203, + 263.6909999999998 + ], + "priority": 24, + "parents": [ + 111978 + ], + "children": [], + "area": 7219424.444154, + "iscrowd": 0, + "segmentation": [], + "text": "3.3 Faculty responses\n\nFaculty enjoy this format. It has been easier to enlist faculty\nfrom various departments for these cases than for those in\nother formats, even though they are more laborious to set up\nand administer. This may have to do with the more active role\nfaculty have, or it may simply be the novelty of the format." + }, + { + "id": 111979, + "strid": "e76300e6-da3a-47b7-b7c6-89a381da18a2", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2545.106, + 3659.8, + 183.90999999999985, + 29.572000000000116 + ], + "priority": 25, + "parents": [ + 111999 + ], + "children": [ + 111994 + ], + "area": 9314578.938800002, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 111994, + "strid": "1d2c05a7-fecd-4f9c-b041-416442daf3cb", + "image_id": 204847, + "image_name": "13273.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2193.465, + 3740.71, + 917.3139999999999, + 503.5510000000004 + ], + "priority": 26, + "parents": [ + 111979 + ], + "children": [], + "area": 8205116.460150001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119308, + "strid": "4a7d1280-ece3-4040-a9e6-90c7f04d40f4", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1043.16, + 64.85, + 506.53999999999996, + 228.19000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 119271, + 119287, + 119261, + 119289, + 119282, + 119264, + 119300, + 119257, + 119293, + 119266, + 119277, + 119281, + 119292, + 119305, + 119284, + 119258, + 119259, + 119307, + 119304, + 119301, + 119267, + 119306, + 119303, + 119254, + 119265, + 119302, + 119270, + 119268, + 119255, + 119269, + 119295, + 119288, + 119283, + 119260, + 119256, + 119298, + 119291, + 119273, + 119275, + 119253, + 119297, + 119276, + 119278, + 119272, + 119299, + 119252, + 119280, + 119296, + 119285, + 119263, + 119286, + 119274, + 119294, + 119262, + 119279, + 119290 + ], + "area": 67648.92599999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119252, + "strid": "a25b4e53-48d5-4f64-a130-5a314e3e328a", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 508.048, + 483.321, + 2527.7160000000003, + 119.20799999999997 + ], + "priority": 1, + "parents": [ + 119308 + ], + "children": [], + "area": 245550.267408, + "iscrowd": 0, + "segmentation": [], + "text": "UNCOVERING THE GENETIC HEREDITABLE COMPONENT OF LATE ONSET ALZHEIMER’S DISEASE\nTHROUGH THE ANALYSIS OF GWA DATA" + }, + { + "id": 119253, + "strid": "789b99a8-7b5a-40ac-a64d-cc55f1f88ba2", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 958.361, + 673.445, + 1726.661, + 150.10299999999995 + ], + "priority": 2, + "parents": [ + 119308 + ], + "children": [], + "area": 645403.4236450001, + "iscrowd": 0, + "segmentation": [], + "text": "Margherita Squillario*, Federico Tomasi*, Veronica Tozzo*, Annalisa Barla*, Daniela Uberti**\n(*) DIBRIS, University of Genoa, Via Dodecaneso 35, 16146, Genova, Italy\n(**) DMMT, University of Brescia, Viale Europa 11, 25123 Brescia, Italy" + }, + { + "id": 119254, + "strid": "67aedc14-3106-4019-be4f-20537f0bacdb", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.125, + 949.165, + 1777.012, + 139.8019999999999 + ], + "priority": 3, + "parents": [ + 119308 + ], + "children": [], + "area": 122560.930625, + "iscrowd": 0, + "segmentation": [], + "text": "Background: The late onset form of Alzheimer's Disease is the most widespread and APOE represents the only strong associated gene.\nFrom the literature is coming out the idea that multiple low penetrance genetic variants could be responsible. Therefore the genetic\npredisposition of the patients and their relatives should be unveiled from the analysis of their genetic profiles. The main purpose of this\nwork is to uncover the signatures of genetic variants, genes and pathways that characterize the patients." + }, + { + "id": 119255, + "strid": "6be53aa7-c184-440b-90b9-2b86473ed4a2", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.234, + 1109.229, + 1800.355, + 140.5530000000001 + ], + "priority": 4, + "parents": [ + 119308 + ], + "children": [], + "area": 141131.642586, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: We analysed two public GWA data derived from the Alzheimer’s Disease Neuroimaging initiative (ADNI) using a 3-fold kernel\napproach, based on SNPs, Genes and Pathways, and two binary classification tasks : AD vs. cognitively healthy subjects (CN) and\nsubjects at risk vs. subjects not at risk of developing AD, according with APOE status (1 or 2 alleles (High risk) vs. 0 allele (Low risk)\nof APOEé4)." + }, + { + "id": 119256, + "strid": "65fa3864-e1ce-491a-864e-fefb015fc870", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.569, + 1272.821, + 1819.188, + 182.60300000000007 + ], + "priority": 5, + "parents": [ + 119308 + ], + "children": [], + "area": 162372.50214899998, + "iscrowd": 0, + "segmentation": [], + "text": "Results: Among the results, we identified 4 statistically robust SNPs signatures and the comparisons of these lists showed: 1) the new and\nstrong involvement of GRM7 in AD which is active within the shared KEGG pathway “Neuroactive ligand-receptor interaction” 2) the\nconfirmation of the involvement of TOMM40 in AD; 3) the involvement of many identified genes, with their SNPs, in many neurological\ndiseases or disorders (e.g., Bipolar and Mood disorders, Schizophrenia) common to both datasets. Phenopedia have been utilized to\n\nperform an accurate comparison of these signatures with the literature." + }, + { + "id": 119257, + "strid": "fe256cac-39ed-4714-b0c1-5ea0e0724380", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.263, + 1477.316, + 1786.351, + 69.2360000000001 + ], + "priority": 6, + "parents": [ + 119308 + ], + "children": [], + "area": 188007.666108, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions: This new approach allowed us to confirm the involvement of specific genes, SNPs and pathways in AD but also to uncover\nnew knowledge that we mostly validated using in silico procedures." + }, + { + "id": 119267, + "strid": "800b0a11-e93c-4d78-bd4e-6e7ac359a663", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2092.852, + 937.538, + 162.29599999999982, + 31.639999999999986 + ], + "priority": 7, + "parents": [ + 119308 + ], + "children": [], + "area": 1962128.278376, + "iscrowd": 0, + "segmentation": [], + "text": "Workflow" + }, + { + "id": 119261, + "strid": "aebd24d1-69ab-4c7b-b464-407740fac401", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2135.111, + 960.555, + 1225.6999999999998, + 566.41 + ], + "priority": 8, + "parents": [ + 119308 + ], + "children": [], + "area": 2050891.5466049998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119273, + "strid": "b22bc05f-47f8-409e-972c-128f029abda7", + "image_id": 205141, + "image_name": "14344.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 136.238, + 1651.142, + 241.33499999999998, + 35.4369999999999 + ], + "priority": 9, + "parents": [ + 119308 + ], + "children": [], + "area": 224948.283796, + "iscrowd": 0, + "segmentation": [], + "text": "ADNI datasets" + }, + { + "id": 119265, + "strid": "aeacb94c-c922-46bc-aa7b-272168cd1415", + "image_id": 205141, + "image_name": 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The segmentation becomes possible due to\nthevintegration of a distributed visual information. However, a spatial\nbinding is also necessary for the image formation. We investigated\nwhether the information taken out by the SOFVs is» sufficient for the\nrecognition.\n\nBasing on the psychophysical data, we implemented a software model\nof the SOFV, following the scheme -filtering-rectification-filtering”\n(FRF). 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The parameters of the filter were being changed to\nachieve a relatively complete coverage of the spatial frequencies and an\norientation of the(luminance gradients in the image: we used 6 peak\nspatial frequencies (from 0.5 to 16 cycles per picture, increasing by\noctave on each step) and 6 preferred orientations (from 0 to 150-witha\n30 degrees0.05" + }, + { + "id": 16777, + "strid": "fc87dbe9-089f-4292-ad5c-7b1d6e1ed0e2", + "image_id": 201162, + "image_name": "116691.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1837.329, + 784.398, + 275.93299999999977, + 50.86099999999999 + ], + "priority": 12, + "parents": [ + 16762 + ], + "children": [ + 16768, + 16772, + 16767 + ], + "area": 1441197.192942, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 16767, + "strid": "a16dc2f9-b432-4ae4-a095-7c67bd8123ce", + "image_id": 201162, + "image_name": "116691.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1333.141, + 899.37, + 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"segmentation": [], + "text": "In Summary" + }, + { + "id": 111459, + "strid": "0233b0e7-43a6-4929-bf70-0db18367ce1f", + "image_id": 204827, + "image_name": "13211.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1119.82, + 3739.388, + 2106.4800000000005, + 90.01999999999998 + ], + "priority": 22, + "parents": [ + 111446 + ], + "children": [], + "area": 4187441.4701599996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111447, + "strid": "71352f76-26f3-471a-9c8b-23e1c65012fa", + "image_id": 204827, + "image_name": "13211.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2702.992, + 3905.028, + 287.442, + 40.90299999999979 + ], + "priority": 23, + "parents": [ + 111463 + ], + "children": [ + 111449 + ], + "area": 10555259.443776, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgment" + }, + { + "id": 111449, + "strid": "b357d918-ba1b-4d32-ba8f-31a4973c389e", + "image_id": 204827, + "image_name": "13211.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1072.244, + 3974.974, + 2206.053, + 35.891000000000076 + ], + "priority": 24, + "parents": [ + 111447 + ], + "children": [], + "area": 4262142.021656, + "iscrowd": 0, + "segmentation": [], + "text": "This project has been made possible in part by the Brain Canada Foundation through the Canada Brain Research Fund, with the financial support of Health Canada." + }, + { + "id": 113476, + "strid": "486460bc-bee5-4c86-8b73-52f9aba4b8b2", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 31.16, + 131.72, + 306.51, + 153.26000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 113456, + 113449, + 113442, + 113441, + 113443, + 113453, + 113463, + 113472, + 113468, + 113457 + ], + "area": 4104.3952, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 113441, + "strid": "1dd837d7-f6b0-4ccf-b6dc-c806399f0e38", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 429.193, + 16.888, + 1883.599, + 241.797 + ], + "priority": 1, + "parents": [ + 113476 + ], + "children": [], + "area": 7248.211384, + "iscrowd": 0, + "segmentation": [], + "text": "Porcine subcutaneous fat tissue transcriptome analysis,\ndifferential gene expression, and target analysis on backfat\nthickness divergent samples" + }, + { + "id": 113442, + "strid": "0717c6c0-981a-4afd-a78b-183482b01294", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 728.811, + 263.702, + 1159.078, + 96.18899999999996 + ], + "priority": 2, + "parents": [ + 113476 + ], + "children": [], + "area": 192188.918322, + "iscrowd": 0, + "segmentation": [], + "text": "Paolo Zambonelli', Martina Zappaterra', Roberta Davoli'\n\nCorresponding author: paolo.zambonelli@unibo. it" + }, + { + "id": 113443, + "strid": "54ef4967-bc0b-4a0f-a53a-bf831d50e088", + "image_id": 204902, + "image_name": "13474.png", + 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Short noncoding RNAs (sRNAs) modulate the expression of messenger RNAs (mRNAs). In particular, microRNAs (miRNAs) interactions with target\n\nmRNAs regulate gene expression and modulate pathways activation. In pigs, miRNA discovery is far from saturation and the knowledge of miRNA expression in backfat tissue is still fragmentary. Moreover, as\ngene expression can change between breeds, developmental stages and farming condition. the identification of the porcine backfat mRNAs transcription profile is still incomplete." + }, + { + "id": 113445, + "strid": "e9556066-f48c-4dd7-86cf-ba374c6490f9", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 61.413, + 586.573, + 2173.387, + 126.01200000000006 + ], + "priority": 5, + "parents": [ + 113443 + ], + "children": [], + "area": 36023.207648999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 113449, + "strid": "4c45389a-4760-48c6-8381-6bf1a92b0228", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1064.32, + 750.076, + 509.58400000000006, + 51.18399999999997 + ], + "priority": 6, + "parents": [ + 113476 + ], + "children": [ + 113446, + 113452, + 113451, + 113450, + 113447, + 113448 + ], + "area": 798320.88832, + "iscrowd": 0, + 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184414.49835, + "iscrowd": 0, + "segmentation": [], + "text": "We detected 31 DE genes (30\nmiRNAs and 1 moRNA [2,3,4, 5])." + }, + { + "id": 113459, + "strid": "a8ebe23a-ee50-4614-98f7-ace1cdf66068", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 615.734, + 1791.607, + 622.043, + 168.24800000000005 + ], + "priority": 20, + "parents": [ + 113456 + ], + "children": [], + "area": 1103153.344538, + "iscrowd": 0, + "segmentation": [], + "text": "The transcription profile of the sRNAs\nshows that only 17 miRNAs are\nexpressed at least at 1% of the\ncumulative expression (CE)." + }, + { + "id": 113461, + "strid": "502f8955-46e9-4a5e-8616-011c4d052f33", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 676.928, + 2004.1, + 567.823, + 146.75599999999986 + ], + "priority": 21, + "parents": [ + 113456 + ], + "children": [], + "area": 1356631.4048, + "iscrowd": 0, + 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new\npossibilities to get lights on the patterns of gene regulation for fat traits in pigs with different\naptitudes for backfat deposition." + }, + { + "id": 113468, + "strid": "2975c76e-2697-4f57-a469-5896d1c3ba0f", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 908.235, + 3422.993, + 298.8639999999999, + 52.97600000000011 + ], + "priority": 34, + "parents": [ + 113476 + ], + "children": [ + 113467 + ], + "area": 3108882.047355, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 113467, + "strid": "c34dcdad-4c29-4cb7-9212-71dbe4aae74e", + "image_id": 204902, + "image_name": "13474.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 45.044, + 3490.813, + 2016.8999999999999, + 314.81899999999996 + ], + "priority": 35, + "parents": [ + 113468 + ], + "children": [], + "area": 157240.180772, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157406, + "strid": 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"86f50252-e4bc-4ecb-818e-1f02715ac7f3", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 283.817, + 143.814, + 999.5230000000001, + 134.06199999999998 + ], + "priority": 2, + "parents": [ + 157406 + ], + "children": [], + "area": 40816.858038, + "iscrowd": 0, + "segmentation": [], + "text": "Joram Soch'®*, Carsten Allefeld':2, John-Dylan Haynes? 2.3:4.5.6\n\n1 Bernstein Center for Computational Neuroscience, Berlin, Germany ? Berlin Center of Advanced Neuroimaging, Berlin, Germany\n3 Berlin School of Mind and Brain, Berlin, Germany ¢ Excellence Cluster NeuroCure, Charité-Universitatsmedizin Berlin, Germany\n5 Department of Neurology, Charité-Universitatsmedizin Berlin, Germany ® Department of Psychology, Humboldt-Universitat zu Berlin, Germany\n© Bernstein Center for Computational Neuroscience, PhilippstraBe 13, Haus 6, 10115 Berlin, Germany / joram.soch @bccn-berlin.de" + }, + { + "id": 157385, + "strid": "a1a5d65f-86f5-4ee1-8fcf-927c24e0c009", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 22.343, + 304.468, + 195.327, + 35.059000000000026 + ], + "priority": 3, + "parents": [ + 157406 + ], + "children": [ + 157392 + ], + "area": 6802.728524, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 157392, + "strid": "997bf1e6-5dd7-449a-b37d-2a4e02d235d6", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 17.488, + 354.88, + 462.038, + 409.20799999999997 + ], + "priority": 4, + "parents": [ + 157385 + ], + "children": [], + "area": 6206.141439999999, + "iscrowd": 0, + "segmentation": [], + "text": "EMU ols SCO Co\nAtari eur en Rome aan RU Ry\nCore M ene Set ae eMac Oem\neee ce Me MC\nperformed for general linear models (GLMs) [1] used to\nPrN mee On eon lee eae eel}\n(NOM CMR ce Mere ie ee eum Ciuc)\nCCR CME NSM eo roo C= SUE\nCeO oe SUR ong mot\nCee Cae an aC Rea mse Mead\nee Rome eR UC Nea rua\neee ROM SC Mu Recent Re Une col cy\nroe M OMReaeS (Mee CM ONTO\neRe Rm ORC eae Ren LS\nCRS CN Ma eam UCR miu aed\nReece MCT TeR (ot\nRca niccCh mute icccelen hace cecal" + }, + { + "id": 157386, + "strid": "589a81d9-a2de-46e6-ac24-8695dab01ea7", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 21.042, + 802.841, + 319.41099999999994, + 40.56000000000006 + ], + "priority": 5, + "parents": [ + 157406 + ], + "children": [ + 157393 + ], + "area": 16893.380322, + "iscrowd": 0, + "segmentation": [], + "text": "First-Level Analysis" + }, + { + "id": 157393, + "strid": "2fdb0c8a-b60d-4b29-ad51-23f111409c5c", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 19.45, + 856.36, + 464.767, + 602.188 + ], + "priority": 6, + "parents": [ + 157386 + ], + "children": [], + "area": 16656.202, + "iscrowd": 0, + "segmentation": [], + "text": "Be REUE NEM Seen eae ae\nmodel (GLM) [1] in which fMRI data (y) are modelled as a\nECO Som CCRC Cream ca\nCONTRO RUE OR re Sctu ROM mun\neure Rte Ona m OM eae Name e une\nRute ten MMe Man CICInceod cad\n\ny=XBt+e e~N(0,0°V)\n\nUsing normal-gamma priors p(B,tlm) on the unknown\nparameters B and t = 1/0? [3], the Bayesian model evidence\n(ME), also called marginal likelihood [4], is given as:\n\ner ee cd eo\n\nem Re eae Mme eM Mme Ute\nMeme merecca ee ein aces mom ure ued\neS Ree ec CMe me ot\nRe Re Can un mut cme on)\nProce eee eevee mae\n\nEy\noan oe eal PACA DCO te spk\n\nSCRA Reet Re eVect\nRiese rte unica oe" + }, + { + "id": 157387, + "strid": "78e2cb43-c147-4698-9e24-ed558286840b", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 19.858, + 1496.15, + 367.693, + 39.82400000000007 + ], + "priority": 7, + "parents": [ + 157406 + ], + "children": [ + 157394 + ], + "area": 29710.546700000003, + "iscrowd": 0, + "segmentation": [], + "text": "Second-Level Analysis" + }, + { + "id": 157394, + "strid": "040e46a0-aa1d-4577-a3e9-a04565b499bc", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.195, + 1551.149, + 470.18, + 630.7599999999998 + ], + "priority": 8, + 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Using simple, but reasonable assumptions on model\nRaat Cmt Re eeu Ne Mute aon ee eee mute Ree Uceu Ome Weenie seer U Net cece\nPee MOC ieee CUP ee OR meer ie Recut cen ue RCC\nReese en CRON aC eeu meee mse CUR Mine he en aR ramon ae nme m IS\nPecoraro eee Mie at Reem cee OMe CU RUC me CMS Cu tne mi\nOy RMN ne ee eee eC SCM CR CR Reece Reem cea\nCOEUR rae INRIRe MME ONCE URC ye Mele Regie RSC" + }, + { + "id": 157389, + "strid": "7dba75d5-40f2-46fc-9b07-89f6f4a99524", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 512.182, + 1972.151, + 180.49599999999998, + 35.50700000000006 + ], + "priority": 22, + "parents": [ + 157406 + ], + "children": [ + 157396 + ], + "area": 1010100.2434820001, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 157396, + "strid": "1aec189d-494a-4601-aff1-2df22485fd94", + "image_id": 206647, + "image_name": "6180.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 508.694, + 2020.965, + 1003.827, + 158.93900000000008 + ], + "priority": 23, + "parents": [ + 157389 + ], + "children": [], + "area": 1028052.76971, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51818, + "strid": "f7b2144a-4118-4be6-94dc-deb554b80892", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2387.43, + 229.21, + 293.74000000000024, + 146.86999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 51798, + 51796, + 51817, + 51794, + 51812, + 51804, + 51808, + 51810, + 51800, + 51795, + 51815, + 51799, + 51807, + 51811, + 51816, + 51802, + 51809, + 51805, + 51806, + 51801, + 51814, + 51803, + 51813 + ], + "area": 547222.8303, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51794, + "strid": "5ee4d0c6-19c5-4b60-b671-fbde200ac323", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 115.401, + 71.938, + 3664.748, + 95.43600000000002 + ], + "priority": 1, + "parents": [ + 51818 + ], + "children": [], + "area": 8301.717138, + "iscrowd": 0, + "segmentation": [], + "text": "System Wide Analyses have Underestimated Protein Abundances and Transcriptional Importance" + }, + { + "id": 51795, + "strid": "09df74fe-895b-474a-a0b0-e4015d2f4d2f", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 117.738, + 184.562, + 1713.955, + 198.41899999999998 + ], + "priority": 2, + "parents": [ + 51818 + ], + "children": [], + "area": 21729.960756, + "iscrowd": 0, + "segmentation": [], + "text": "Jingyi Jessica Li'?, Peter J. Bickel? and Mark D. Biggin?\n\n‘Department of Statistics, University of California, Los Angeles CA 90095, USA\n2Department of Statistics, University of California, Berkeley CA 94720, USA\n\n3Genomics Division, Lawrence Berkeley National Laboratory, Berkeley CA 94720, USA." + }, + { + "id": 51796, + "strid": "9c1a96b4-3565-4d72-8437-01ed91535aa1", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 124.641, + 430.566, + 218.325, + 30.420000000000016 + ], + "priority": 3, + "parents": [ + 51818 + ], + "children": [ + 51797 + ], + "area": 53666.176805999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 51797, + "strid": "7c4f6023-9a1e-430a-9414-54d4b3c7c0e8", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.764, + 466.431, + 1136.623, + 900.7429999999999 + ], + "priority": 4, + "parents": [ + 51796 + ], + "children": [], + "area": 56794.504283999995, + "iscrowd": 0, + "segmentation": [], + "text": "System wide surveys in mammalian tissue culture cells suggest that the protein expressed\nat the median abundance is present at 8,000 - 16,000 molecules per cell and that\ndifferences in mRNA expression between genes explain only 10-40% of the differences in\nprotein levels. We find, however, that these surveys have significantly underestimated\nprotein abundances. Using individual measurements for 61 housekeeping proteins to\nrescale whole proteome data from Schwanhausser et al., we find that the median protein\ndetected is expressed at 170,000 molecules per cell and that our corrected protein\nabundance estimates show a higher correlation with mRNA abundances than do the\nuncorrected protein data.\n\nTo estimate the degree to which mRNA expression levels determine protein levels, it is\ncritical to measure the error in protein and mRNA abundance data and to consider all\ngenes, not only those whose protein expression is readily detected. By taking direct\nmeasurements of experimental error into account, we estimate that MRNA levels explain at\nleast 56% of the differences in protein abundance for the 4,212 genes detected by\nSchwanhausser et al. By in addition modeling all genes’ expression, we show that under\nreasonable assumptions MRNA levels can explain at least 65% of protein levels for genes\nthat are expressed and 100% for genes that are not expressed. Separately, we employ a\nsecond strategy to determine the contribution of mRNA levels to protein expression. This\nshows that the variance in translation rates directly measured by Ingolia et al. is 4.6 fold less\nthan the variance inferred by Schwanhausser et al. and that based on this mRNA levels are\nexpected to explain ~75% of the variance in protein levels for the 4,212 detected genes and\n~82% for all expressed genes. While the magnitude of our differently derived estimates\nvary, all suggest that the previous studies have significantly underestimated the importance\nof transcription.\n\nA preprint describing this work is publicly available at http://arxiv.org/abs/1212.0587." + }, + { + "id": 51808, + "strid": "4a19f8ed-2448-453c-8052-abcc717c6e5d", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 220.39, + 1467.475, + 922.7119999999999, + 419.9680000000001 + ], + "priority": 5, + "parents": [ + 51818 + ], + "children": [], + "area": 323416.81525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51798, + "strid": "37a28a16-b0a1-47c6-9dee-cd31bf8cecd1", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 119.349, + 1906.797, + 1140.392, + 175.03200000000015 + ], + "priority": 6, + "parents": [ + 51818 + ], + "children": [], + "area": 227574.315153, + "iscrowd": 0, + "segmentation": [], + "text": "2. Four steps determine protein expression levels. The steady state\nconcentration of a protein in a cell is determined by the combined effects of the rates of\ngene transcription, RNA degradation, translation and protein degradation. The differences in\nprotein levels between highly expressed, poorly expressed and not expressed genes is\ntherefore determined by the differences between each gene in the rates of these four steps." + }, + { + "id": 51809, + "strid": "e120a148-6657-46ba-9b89-9aefce6db6fa", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 132.581, + 2193.141, + 1096.061, + 496.68499999999995 + ], + "priority": 7, + "parents": [ + 51818 + ], + "children": [], + "area": 290768.82692099997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51799, + "strid": "2a0b9b75-041a-4cb0-b6e6-6d175ed4f2b0", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.038, + 2718.29, + 1140.646, + 438.1410000000001 + ], + "priority": 8, + "parents": [ + 51818 + ], + "children": [], + "area": 326298.09502, + "iscrowd": 0, + "segmentation": [], + "text": "3. Published work suggest that translation is the most important step.\nIn the most detailed paper to quantitate the relative importance of the four steps,\nSchwanhausser et al claimed to have measured that translation is the most important,\nfollowed by transcription. Their evidence for this is largely that measured levels of mRNA for\n4,212 genes in mouse NIH3T3 cells only correlate poorly with mass spectrometry\nmeasurements of protein abundance for the same genes in the same cells. Schwanhausser\net al—and also a number of other groups who have used a similar approach to come to\nsimilar conclusions—argue that the vertical displacement of data points about the line of\nbest fit (above, right) measures the combined influences of differences in translation and\nprotein degradation rates between each gene. Since Schwanhausser et al separately\nquantitated the degradation rates of proteins and mRNAs, they were able to calculate the\nfraction of the total variance in protein expression levels that is explained the variance in\neach of the four steps (above, left)." + }, + { + "id": 51800, + "strid": "27c58eb2-62dc-437f-b207-6d08ff4470a6", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.509, + 3273.468, + 637.345, + 479.799 + ], + "priority": 9, + "parents": [ + 51818 + ], + "children": [], + "area": 381388.483212, + "iscrowd": 0, + "segmentation": [], + "text": "4. A non-linear bias in the published\nprotein abundances. We first noticed that for\nhousekeeping proteins that are expressed below\none million molecules per cell, Schwanhausser et\nal.'s protein abundance estimates are lower than\nindividual measurements in the literature. The\nliterature data are mostly western blot and SILAC\nMS/MS measurements, both of which diverge to a\nsimilar degree from Schwanhausser et al.’s\nestimates. We have also shown that the\ndisagreement between the western and SILAC\ndata and Schwanhausser et al.’s results is not due\nto differences in expression levels between cell\nlines (see our preprint)." + }, + { + "id": 51810, + "strid": "2d82aa83-1d83-4d80-8542-975036d28485", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 783.877, + 3264.123, + 490.69100000000003, + 493.39699999999993 + ], + "priority": 10, + "parents": [ + 51818 + ], + "children": [], + "area": 2558670.944871, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51815, + "strid": "b30720b5-9614-467e-ab4b-9df8783f6cef", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1465.504, + 413.24, + 958.328, + 918.048 + ], + "priority": 11, + "parents": [ + 51818 + ], + "children": [], + "area": 605604.87296, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51801, + "strid": "a2665db5-b016-4e5a-a61b-e02da12fd618", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1375.418, + 1359.383, + 1141.651, + 212.1579999999999 + ], + "priority": 12, + "parents": [ + 51818 + ], + "children": [], + "area": 1869719.8470939999, + "iscrowd": 0, + "segmentation": [], + "text": "5. Correcting protein abundances increases the correlation between\nprotein and mRNA levels. We rescaled Schwanhausser et al.’s whole proteome data\nusing the individual abundance estimates for 61 house keeping proteins from the literature.\nThis correction removes the non-linear bias (compare panels A and C) and increases the\ncorrelation between protein and mRNA levels (compare panel B and D). This result\nsuggests that translation rates vary less that Schwanhausser et al. estimated." + }, + { + "id": 51814, + "strid": "bf998e57-479a-43a8-8e7d-6a6a947138ae", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1475.351, + 1659.863, + 949.7539999999999, + 484.3509999999999 + ], + "priority": 13, + "parents": [ + 51818 + ], + "children": [], + "area": 2448880.536913, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51802, + "strid": "50724054-a480-4383-90fd-4377f5098789", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1375.293, + 2161.684, + 1141.622, + 374.9659999999999 + ], + "priority": 14, + "parents": [ + 51818 + ], + "children": [], + "area": 2972948.873412, + "iscrowd": 0, + "segmentation": [], + "text": "6. Estimating two other sources of measurement error. A second source of\nerror in Schwanhausser et al.’s data is due to the stochastic error between replica protein\nabundance experiments, which can be estimated from the variance about the line of best fit\nfor the plot on the left. The third source of error is due to the well known GC content bias in\nmRNA Seq data. The plot on the right compares Schwanhausser et al.’s mMRNA-seq data to\nNanoString data for 78 genes. NanoString is more accurate method than mRNA-seq, giving\na better correlation with known standards than does mRNA-seq (R? 0.99 vs R? 0.77). Thus,\nthe bulk of the variance about the line of best fit (right panel) should be due to error in the\nmRNA-seq data. Note there is a final source of error that for technical reasons we are not\nable to estimate: the tendency of label free mass spectrometry to reproducibly\nunderestimate some proteins’ abundances and overestimate others." + }, + { + "id": 51811, + "strid": "6e89bb21-3b29-412d-88c2-40924de9ceb6", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1384.767, + 2619.296, + 1115.0020000000002, + 816.279 + ], + "priority": 15, + "parents": [ + 51818 + ], + "children": [], + "area": 3627114.664032, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51803, + "strid": "d751929d-5b3c-4377-a43d-643d05b2cc7e", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1375.589, + 3448.127, + 1142.4359999999997, + 309.741 + ], + "priority": 16, + "parents": [ + 51818 + ], + "children": [], + "area": 4743205.571803, + "iscrowd": 0, + "segmentation": [], + "text": "7. Using ANOVA to estimate the impact of error. We have the relationship\nbetween measured mRNA levels and our correction to measured protein levels (green\nellipses). Given that we now have estimates for variance due to the measurement errors\ndetermined in Section 6 (green circles), it is possible to use Analysis of Variance (ANOVA)\nto determine the lower variances expected in true protein and true MRNA levels as well as\nthe variance in true protein levels due to the combined effect of translation and protein\nturnover (green arrow). By also using Schwanhausser et al.’s data for protein and mRNA\ndegradation rates, we can then formally calculate the reduced role that translation is\nexpected to play (see Section 11)." + }, + { + "id": 51807, + "strid": "334d3732-89c6-4d22-8cc9-ccbb62f8c153", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2631.222, + 425.499, + 553.3040000000001, + 374.4169999999999 + ], + "priority": 17, + "parents": [ + 51818 + ], + "children": [], + "area": 1119582.3297780002, + "iscrowd": 0, + "segmentation": [], + "text": "8. The variance in measured\n\ntranslation rates. Ingolia et al. (2012,\nCell 147, p 337) have directly measured the\ndistribution of translation rates for\nthousands of genes by ribosome profiling in\nmouse ES cells (grey line). The variance in\nthese measured translation rates is 4.6 fold\nless than that. inferred indirectly by\nSchwanhausser et al. in NIH3T3 cells (black\nline). The 2.5 and 97.5 percentiles of each\ndistribution are shown as dashed lines." + }, + { + "id": 51816, + "strid": "a4334bab-9a13-4ac9-8ccc-bf27bbd5da05", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3217.397, + 430.66, + 562.48, + 508.95200000000006 + ], + "priority": 18, + "parents": [ + 51818 + ], + "children": [], + "area": 1385604.19202, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51817, + "strid": "035137f4-a01d-4255-953b-ae3c8af6c2e3", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2664.975, + 1041.619, + 1056.107, + 791.5840000000001 + ], + "priority": 19, + "parents": [ + 51818 + ], + "children": [], + "area": 2775888.5945249996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51806, + "strid": "e5e8ee4f-51dd-4a8a-ae0e-3b6e8a0db258", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2630.868, + 1846.722, + 1140.078, + 278.5350000000001 + ], + "priority": 20, + "parents": [ + 51818 + ], + "children": [], + "area": 4858481.814696, + "iscrowd": 0, + "segmentation": [], + "text": "9. Using directly measured translation rates. The availability of measured\ntranslation rates opens up a second strategy. By using direct experimental data for the\nvariances of the terms circled, we can infer the variance in true protein and true RNA levels\nand at the same time capture all protein errors (arrowed) as the unexplained term. In this\ncase, we are not relying on our rescaling of Schwanhausser et al.’s protein abundance\nestimates, but use their published estimates. This “measured translation” calculation is thus\nsignificantly independent from the “measured error” strategy described earlier and leads to a\nsignificantly higher estimate of the importance of transcription (Section 11)." + }, + { + "id": 51805, + "strid": "e3583d90-eaa5-4d84-ac68-000cf0e88579", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2631.507, + 2204.776, + 582.0219999999999, + 607.2870000000003 + ], + "priority": 21, + "parents": [ + 51818 + ], + "children": [], + "area": 5801883.4774319995, + "iscrowd": 0, + "segmentation": [], + "text": "10. Estimates for all. genes.\nSchwanhausser et al. considered only the\n4,212 genes whose expression they detected.\nTo determine the relationship between protein\nand mRNA levels for all genes we used deep\nmRNA-seq data and insights from Hebenstreit\net al. (2011, 2012) to model protein expression\nlevels. Since 8,763 genes express no MRNA\nin a given cell, these genes are assumed to\nhave the same rate of translation as each\nother, i.e. zero (Section 11). The 12,546\nexpressed genes are assumed to have the\nsame variances in rates of translation and\nprotein degradation as the 4,212 detected\ngenes. Because the total variance in protein\nlevels is now higher, this leads to translation\nand protein degradation contributing less as a\npercent of the total variance (Section 11)." + }, + { + "id": 51813, + "strid": "3dfa766b-f999-4af7-80cf-38eef2015e66", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3245.721, + 2247.334, + 536.5320000000002, + 486.41600000000017 + ], + "priority": 22, + "parents": [ + 51818 + ], + "children": [], + "area": 7294219.157814, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51812, + "strid": "7fa8648e-7c39-475e-b5ff-e7188b047ca0", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2626.133, + 2920.503, + 1163.29, + 551.0419999999999 + ], + "priority": 23, + "parents": [ + 51818 + ], + "children": [], + "area": 7669629.304899, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51804, + "strid": "1a7c38f6-28a9-4d45-8e35-6d8a81640491", + "image_id": 202538, + "image_name": "118839.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2632.943, + 3509.458, + 1137.7330000000002, + 248.36500000000024 + ], + "priority": 24, + "parents": [ + 51818 + ], + "children": [], + "area": 9240202.874894, + "iscrowd": 0, + "segmentation": [], + "text": "11. Transcription is the predominant step determining protein\n\nexpression levels. Shown are the variance in protein expression levels determined by\nthe variance in the rates of the four steps in gene expression for different senarios. We\nbelieve that the estimates using measured rates of translation are likely more accurate than\nthose using only measurements of error as we are unable to estimate an important class of\nprotein error for the latter strategy. We assume that the absence of transcrption is the\npredominant reason why ~40% of genes are not expressed." + }, + { + "id": 132708, + "strid": "7958c61e-c367-431d-b02f-d52ab7a58099", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 59.13, + 28.96, + 268.19, + 280.96000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 132683, + 132685, + 132684, + 132688, + 132689, + 132687, + 132682, + 132686 + ], + "area": 1712.4048, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132682, + "strid": "ad2ec3d4-a26e-43f3-85ae-859be3c830f3", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 473.066, + 469.539, + 2368.022, + 257.256 + ], + "priority": 1, + "parents": [ + 132708 + ], + "children": [], + "area": 222122.936574, + "iscrowd": 0, + "segmentation": [], + "text": "OpenRiskNet Part III:\nModelling Services in Chemical/Nano-safety, Environmental Science\nand Pharmacokinetics" + }, + { + "id": 132683, + "strid": "4566ce1e-1106-4078-97ef-e741238259ae", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 147.28, + 777.932, + 3027.681, + 45.889999999999986 + ], + "priority": 2, + "parents": [ + 132708 + ], + "children": [], + "area": 114573.82496, + "iscrowd": 0, + "segmentation": [], + "text": "Stefan Kramer?, Philip Doganis®, Denis Gebele?, Atif Raza?, Pantelis Karatzas®, Haralambos Sarimveis®, Jonathan Alvarsson®, Ola Spjuth®, Staffan Arvidsson®, Thomas Exner’, Lucian Farcal', Barry Hardy’" + }, + { + "id": 132684, + "strid": "a12213ef-5313-40db-9f5c-0edc04357549", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 670.625, + 927.758, + 320.471, + 47.35299999999995 + ], + "priority": 3, + "parents": [ + 132708 + ], + "children": [ + 132690 + ], + "area": 622177.70875, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 132690, + "strid": "998dbed9-2f4f-4932-86cd-8c58955e4f9b", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 33.403, + 1039.561, + 1592.691, + 509.5629999999999 + ], + "priority": 4, + "parents": [ + 132684 + ], + "children": [], + "area": 34724.456083, + "iscrowd": 0, + "segmentation": [], + "text": "The OpenRiskNet project has the main objective of developing an open e-infrastructure\nproviding data, software resources and services to a variety of industries requiring risk\nassessment (e.g. chemicals, cosmetic ingredients, pharma or nanotechnologies).\nCentral to risk assessment decisions is the ability to generate predictions that provide\ninsights into the relationships among material composition, functionality and adverse\neffects.\n\nThe concept of case studies was followed in OpenRiskNet in order to test and evaluate\nproposed solutions, as described in:\nhttps://openrisknet.org/e-infrastructure/development/case-studies/.\n\nModelling within risk assessment is the focus of two case studies, namely ModelRX and\nRevK." + }, + { + "id": 132686, + "strid": "61ff53d9-f816-4683-a060-ca8f1f597e64", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 134.576, + 1598.796, + 1388.794, + 134.79500000000007 + ], + "priority": 5, + "parents": [ + 132708 + ], + "children": [ + 132693, + 132698, + 132692, + 132703, + 132691 + ], + "area": 215159.570496, + "iscrowd": 0, + "segmentation": [], + "text": "Modelling for Reverse dosimetry and PBPK prediction\n(RevK Case Study)" + }, + { + "id": 132691, + "strid": "a1d2bd30-ba07-4935-a822-4aed1ad71fee", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 38.326, + 1789.135, + 1585.306, + 135.39100000000008 + ], + "priority": 6, + "parents": [ + 132686 + ], + "children": [], + "area": 68570.38801, + "iscrowd": 0, + "segmentation": [], + "text": "Modelling within the RevK - Reverse dosimetry and PBPK prediction case study is\ncentered on physiologically based pharmacokinetic (PBPK) models for the purpose of\nrisk assessment-relevant scenarios." + }, + { + "id": 132698, + "strid": "24548020-50ce-4107-ac74-274e5c53b4c3", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 36.275, + 1975.811, + 1567.254, + 285.14200000000005 + ], + "priority": 7, + "parents": [ + 132686 + ], + "children": [], + "area": 71672.544025, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132692, + "strid": "1139ecce-afeb-4372-80aa-249f493c307c", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.095, + 2301.16, + 1582.844, + 376.6329999999998 + ], + "priority": 8, + "parents": [ + 132686 + ], + "children": [], + "area": 85361.5302, + "iscrowd": 0, + "segmentation": [], + "text": "Development of PBPK models is supported through the integration of the PKSim open-\nsource software (developed by Bayer AG), the httk R package and additionally it is\npossible to develop and integrate custom-made PBPK models.\n\nFor each of these three modelling services, simulations have been performed for a\nreferenced chemical: Imazalil for the httk model, Theophylline for the PKSim model,\nand Diazepam for the user-defined model.\n\nPBPK models aew exposed as a web service using the Jaqpot modelling platform,\nallowing the user to consume services both over UI and API." + }, + { + "id": 132703, + "strid": "03c19815-4fc2-4625-8af2-4601863dd6f3", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 30.166, + 2759.238, + 1566.976, + 1101.156 + ], + "priority": 9, + "parents": [ + 132686 + ], + "children": [], + "area": 83235.17350799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 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study suggests a workflow that produces semantically annotated\npredictive models that can be shared, tested, validated and eventually applied for\npredicting adverse effect of substances in a safe by design and/or risk assessment\nregulatory framework.\n\nThe following tools are available in the area of modelling for prediction or read\nacross:" + }, + { + "id": 132707, + "strid": "88f7cb00-6fbb-4916-b1db-607888d219a8", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1686.663, + 2179.589, + 1591.629, + 914.482 + ], + "priority": 19, + "parents": [ + 132685 + ], + "children": [], + "area": 3676232.1215069997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132700, + "strid": "fe75ff87-ed06-4d39-b75c-bc1b8d7adbe1", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1679.084, + 3141.542, + 1590.9459999999997, + 336.06500000000005 + ], + "priority": 20, + 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"3967a770-04b3-4d79-9c87-1ceca3a1aa29", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2271.09, + 3873.912, + 422.1289999999999, + 52.41600000000017 + ], + "priority": 22, + "parents": [ + 132708 + ], + "children": [ + 132706 + ], + "area": 8798002.80408, + "iscrowd": 0, + "segmentation": [], + "text": "Other resources" + }, + { + "id": 132706, + "strid": "5543964e-dd88-4b98-89f4-53ab91d58626", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1679.959, + 3964.305, + 1550.061, + 327.1749999999997 + ], + "priority": 23, + "parents": [ + 132688 + ], + "children": [], + "area": 6659869.863495, + "iscrowd": 0, + "segmentation": [], + "text": "RevK Case Study\n\nDescription, Technical Implementation, Outcomes, Service catalog, Tutorial and report are available\nhere:\n\nhttps://openrisknet.org/e-infrastructure/development/case-studies/case-study-revk/\n\nModelRX Case Study\n\nDescription, Technical Implementation, Outcomes, Service catalog, Webinar recording and\npresentation are available here:\nhttps://openrisknet.org/e-infrastructure/development/case-studies/case-study-modelrx/" + }, + { + "id": 132689, + "strid": "782ad6fe-132b-47e6-a3d2-70c0c0be294a", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2223.507, + 4325.855, + 511.7040000000002, + 63.051000000000386 + ], + "priority": 24, + "parents": [ + 132708 + ], + "children": [ + 132694, + 132705 + ], + "area": 9618568.873484999, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 132694, + "strid": "c4c31e1b-9d68-462a-ae43-60d57ffaa9f8", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1747.49, + 4465.345, + 1047.89, + 160.84900000000016 + ], + "priority": 25, + "parents": [ + 132689 + ], + "children": [], + "area": 7803145.73405, + "iscrowd": 0, + "segmentation": [], + "text": "OpenRiskNet (Project no. 731075) is funded by the\nEuropean Commission within the\nHorizon 2020 Programme" + }, + { + "id": 132705, + "strid": "493ba4b0-11a5-475a-9a6c-117656b4a266", + "image_id": 205650, + "image_name": "15506.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2842.505, + 4426.909, + 341.9250000000002, + 227.94999999999982 + ], + "priority": 26, + "parents": [ + 132689 + ], + "children": [], + "area": 12583510.967045, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152701, + "strid": "82e1d3ce-edd8-430a-9570-d50ffe795650", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 77.77, + 24.78, + 543.08, + 53.629999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 152676, + 152677, + 152679, + 152675, + 152680, + 152678 + ], + "area": 1927.1406, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152675, + "strid": "5949232f-2c3c-406d-a6d9-e47b654cf184", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 96.018, + 125.079, + 3156.709, + 232.822 + ], + "priority": 1, + "parents": [ + 152701 + ], + "children": [], + "area": 12009.835422, + "iscrowd": 0, + "segmentation": [], + "text": "Structure-activity relationships generated for peptaibols produced\nby Trichoderma: via accelerated MD simulations" + }, + { + "id": 152676, + "strid": "af133ab6-de3f-4125-8531-576b401acc6b", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 327.951, + 415.01, + 2687.843, + 214.24900000000002 + ], + "priority": 2, + "parents": [ + 152701 + ], + "children": [], + "area": 136102.94451, + "iscrowd": 0, + "segmentation": [], + "text": "Dora Balazs, Tamas Marik, Andras Szekeres, Csaba Vagvolgyi, Laszlo Kredics, Chetna Tyagi\n\nDepartment of Microbiology, Faculty of Science and Informatics, University of Szeged, Szeged, Hungary\ndora.balazs91@gmail.com" + }, + { + "id": 152677, + "strid": "175b94e6-8206-448a-bd02-1ffdda5614ef", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 184.4, + 692.279, + 428.611, + 54.68100000000004 + ], + "priority": 3, + "parents": [ + 152701 + ], + "children": [ + 152681, + 152682 + ], + "area": 127656.2476, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 152681, + "strid": "2f116e03-4e43-4a83-b221-82e91a13ee0f", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 123.612, + 825.644, + 840.204, + 897.856 + ], + "priority": 4, + "parents": [ + 152677 + ], + "children": [], + "area": 102059.506128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152682, + "strid": "e19a7438-3154-488a-9f12-3fd8eb8b4a37", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1006.728, + 846.072, + 307.2199999999999, + 829.493 + ], + "priority": 5, + "parents": [ + 152677 + ], + "children": [ + 152683 + ], + "area": 851764.372416, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152683, + "strid": "36d74d98-a665-43fa-930d-edeae7667f26", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 854.747, + 1748.821, + 459.4409999999999, + 42.309999999999945 + ], + "priority": 6, + "parents": [ + 152682 + ], + "children": [], + "area": 1494799.5032869999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Peptaibol sequence" + }, + { + "id": 152678, + "strid": "db6a694e-f378-4f19-9f43-a5e99f230f0e", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1501.158, + 693.888, + 740.1219999999998, + 52.299999999999955 + ], + "priority": 7, + "parents": [ + 152701 + ], + "children": [ + 152688, + 152689, + 152684, + 152685 + ], + "area": 1041635.522304, + "iscrowd": 0, + "segmentation": [], + "text": "METHODS AND MATERIAL" + }, + { + "id": 152684, + "strid": "3911157f-5e44-4a39-9e46-0b770f75edc1", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1452.362, + 814.452, + 911.8130000000001, + 399.9179999999999 + ], + "priority": 8, + "parents": [ + 152678 + ], + "children": [], + "area": 1182879.135624, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152685, + "strid": "c82982ba-53d4-41d4-9f26-4187408fa9ed", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1538.972, + 1237.108, + 769.7279999999998, + 391.76700000000005 + ], + "priority": 9, + "parents": [ + 152678 + ], + "children": [ + 152686 + ], + "area": 1903874.572976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152686, + "strid": "d8e201f0-c4b6-4a4e-9a5a-9059cc47e37f", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1464.936, + 1658.847, + 878.5179999999998, + 137.82500000000005 + ], + "priority": 10, + "parents": [ + 152685 + ], + "children": [], + "area": 2430104.688792, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. T. reesei SZMC 22616 against Gram-positive C.\nmichiganensis (A), T. longibrachiatum f. bissettii SZMC\n12546 against Gram-negative R. radiobacter (B)" + }, + { + "id": 152688, + "strid": "c33525bd-d24e-4c51-b9d3-470132bf8bba", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2383.825, + 924.87, + 852.031, + 382.3659999999999 + ], + "priority": 11, + "parents": [ + 152678 + ], + "children": [ + 152687 + ], + "area": 2204728.2277499996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152687, + "strid": "a357b438-f0cb-4d2f-9ecf-796c52e5224c", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2388.145, + 823.329, + 819.1869999999999, + 83.93600000000004 + ], + "priority": 12, + "parents": [ + 152688 + ], + "children": [], + "area": 1966229.0347049998, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Peptaibol sequences from the Trichoderma\nstrains selected for aMD simulations" + }, + { + "id": 152689, + "strid": "a9ff2231-ab77-4ad9-82d4-7d886969135a", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2363.975, + 1347.254, + 863.1010000000001, + 456.57500000000005 + ], + "priority": 13, + "parents": [ + 152678 + ], + "children": [], + "area": 3184874.7746499996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152679, + "strid": "e6de1574-dec5-48a0-bca1-49d0c4ec71c4", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 184.113, + 1919.521, + 229.11399999999998, + 54.27500000000009 + ], + "priority": 14, + "parents": [ + 152701 + ], + "children": [ + 152692, + 152699, + 152696, + 152693, + 152691, + 152694 + ], + "area": 353408.769873, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 152691, + "strid": "11f896fa-41e3-4d87-bd4a-d834d0e1f501", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 137.412, + 2182.968, + 1544.446, + 551.2579999999998 + ], + "priority": 15, + "parents": [ + 152679 + ], + "children": [ + 152690 + ], + "area": 299965.998816, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152690, + "strid": "ac58987e-10be-4213-bcc4-37d73b229a9e", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 200.486, + 2070.701, + 1418.518, + 89.38999999999987 + ], + "priority": 16, + "parents": [ + 152691 + ], + "children": [], + "area": 415146.560686, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2. Minimum inhibitory concentration (MIC) values of the purified peptaibol extracts\nagainst Gram-positive and Gram-negative bacteria (n/a: no data)" + }, + { + "id": 152692, + "strid": "f2651882-d923-4ae5-ac3d-b3b393b775dd", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1717.9, + 2104.976, + 1465.534, + 573.123 + ], + "priority": 17, + "parents": [ + 152679 + ], + "children": [], + "area": 3616138.2704000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152694, + "strid": "31a8a4ff-a092-4d13-a392-b6fceef9ba46", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 108.268, + 2749.521, + 867.125, + 1666.453 + ], + "priority": 18, + "parents": [ + 152679 + ], + "children": [ + 152695 + ], + "area": 297685.13962800003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152695, + "strid": "de759af3-f63c-47e8-bb7e-ecfe0f807136", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 262.347, + 4427.451, + 620.379, + 88.51000000000022 + ], + "priority": 19, + "parents": [ + 152694 + ], + "children": [], + "area": 1161528.487497, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. The most produced peptaibol\n(Pept-B-XXVII) from group B" + }, + { + "id": 152693, + "strid": "bb8a6ea9-3b1f-498f-b880-da6fef92eb4a", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1038.29, + 2793.297, + 1389.755, + 94.59799999999996 + ], + "priority": 20, + "parents": [ + 152679 + ], + "children": [], + "area": 2900252.34213, + "iscrowd": 0, + "segmentation": [], + "text": "The most stable conformational states of sequences from group A and B were\ndetermined using the aMD simulation technique (Figure 3)." + }, + { + "id": 152696, + "strid": "40090894-953a-4700-af7c-4dc582b6596a", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 975.506, + 2905.251, + 1473.1660000000002, + 473.9670000000001 + ], + "priority": 21, + "parents": [ + 152679 + ], + "children": [ + 152697 + ], + "area": 2834089.782006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152697, + "strid": "071c5a9d-6645-4d4d-9fdb-fe0b75752cba", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1006.094, + 3394.808, + 1468.6390000000001, + 92.53600000000006 + ], + "priority": 22, + "parents": [ + 152696 + ], + "children": [], + "area": 3415495.959952, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. The three-dimensional representative models of the first three most-populated\nclusters in the case of Pept-B-XXVII (B) from the group B and Pept-A-lVa (A) from the group A" + }, + { + "id": 152699, + "strid": "46825e0d-eee5-4abc-9d0b-b6db52f24c52", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2530.902, + 2728.636, + 709.8040000000001, + 1679.8849999999998 + ], + "priority": 23, + "parents": [ + 152679 + ], + "children": [ + 152700 + ], + "area": 6905910.309672, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152700, + "strid": "b12031b5-4a17-4f90-b9c9-435982ffb529", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2570.469, + 4432.495, + 619.3130000000001, + 90.3779999999997 + ], + "priority": 24, + "parents": [ + 152699 + ], + "children": [], + "area": 11393590.990155, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. The most produced peptaibol\n(Pept-A-IVa) from group A" + }, + { + "id": 152680, + "strid": "d43cf889-a0ff-4e24-9690-e0acee42f03b", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1089.222, + 3608.895, + 420.60300000000007, + 57.76499999999987 + ], + "priority": 25, + "parents": [ + 152701 + ], + "children": [ + 152698 + ], + "area": 3930887.82969, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 152698, + "strid": "c2121321-36b1-41cd-807e-1cbf9dca18d5", + "image_id": 206444, + "image_name": "21463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1043.885, + 3727.807, + 1370.2609999999997, + 664.2280000000001 + ], + "priority": 26, + "parents": [ + 152680 + ], + "children": [], + "area": 3891401.810195, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92366, + "strid": "f3323082-c86e-4a1f-80c7-bffe2ded1379", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 129.16, + 137.77, + 162.58, + 154.03 + ], + "priority": -1, + "parents": [], + "children": [ + 92313, + 92320, + 92319, + 92318, + 92314, + 92316, + 92317, + 92315 + ], + "area": 17794.3732, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92313, + "strid": "36b5448d-9471-4346-9647-e8d9865e1598", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 424.376, + 94.537, + 1924.9960000000003, + 343.57899999999995 + ], + "priority": 1, + "parents": [ + 92366 + ], + "children": [], + "area": 40119.233912, + "iscrowd": 0, + "segmentation": [], + "text": "Cross-presentation of the oncofetal tumor\nantigen 514 from irradiated prostate cancer\ng¢s cells —a key role for Hsp70" + }, + { + "id": 92314, + "strid": "ff975d35-6e5e-4a2b-858c-495f40e71ca1", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 62.599, + 510.953, + 2630.432, + 223.447 + ], + "priority": 2, + "parents": [ + 92366 + ], + "children": [], + "area": 31985.146846999996, + "iscrowd": 0, + "segmentation": [], + "text": "J Salimu, L.K Spary, S Al-Taei and Z Tabi.\n\nInstitute of Cancer and Genetics, Cardiff University, Cardiff, United Kingdom." + }, + { + "id": 92315, + "strid": "151a7bed-376b-4bf7-b773-cf40b1ac671c", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 66.389, + 829.347, + 266.699, + 38.722999999999956 + ], + "priority": 3, + "parents": [ + 92366 + ], + "children": [ + 92339 + ], + "area": 55059.517983, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 92339, + "strid": "e60a446e-3ba4-4cd8-a0f0-551e7919da5d", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.894, + 913.498, + 803.655, + 264.51 + ], + "priority": 4, + "parents": [ + 92315 + ], + "children": [], + "area": 70242.51521200001, + "iscrowd": 0, + "segmentation": [], + "text": "Immune responses contribute to the success of radiation therapy\nof solid tumors; however, the mechanism of triggering CD8* T\ncell responses is poorly understood. Antigen cross-presentation\nfrom tumor cells by dendritic cells (DC) is a likely dominant\nmechanism to achieve CD8* T cell stimulation. We established a\ncross-presentation model in prostate cancer (PCa) in which DC\npresent a naturally expressed oncofetal tumor antigen (514)\nfrom irradiated DU145 tumor cells to 5T4-specific T cells." + }, + { + "id": 92316, + "strid": "2b1d002c-3775-494a-b92f-019d518bd920", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.642, + 1211.419, + 90.787, + 38.478000000000065 + ], + "priority": 5, + "parents": [ + 92366 + ], + "children": [ + 92340 + ], + "area": 77097.12799800001, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 92340, + "strid": "2a3d7c5f-96b6-4796-b6df-ca483a0fe687", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 104.362, + 1303.051, + 652.988, + 60.7829999999999 + ], + "priority": 6, + "parents": [ + 92316 + ], + "children": [], + "area": 135989.008462, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92317, + "strid": "f426c218-de36-4043-b1c0-0309a89fcfa2", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 67.283, + 1424.371, + 260.695, + 47.881000000000085 + ], + "priority": 7, + "parents": [ + 92366 + ], + "children": [ + 92341 + ], + "area": 95835.953993, + "iscrowd": 0, + "segmentation": [], + "text": "Key Players" + }, + { + "id": 92341, + "strid": "cd5f7bb8-6c49-4557-8512-319442402cdf", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 113.718, + 1497.009, + 690.923, + 245.26199999999994 + ], + "priority": 8, + "parents": [ + 92317 + ], + "children": [], + "area": 170236.869462, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92318, + "strid": "2189d236-5f4d-4ec6-8bab-961896904dbc", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 66.746, + 1783.755, + 461.94500000000005, + 42.47399999999993 + ], + "priority": 9, + "parents": [ + 92366 + ], + "children": [ + 92334, + 92326, + 92360, + 92330, + 92361, + 92332, + 92337, + 92329, + 92348, + 92362, + 92344, + 92323, + 92359, + 92336, + 92342, + 92325, + 92365, + 92328, + 92347, + 92358, + 92324, + 92349, + 92338, + 92364, + 92331, + 92333, + 92346, + 92335, + 92345, + 92327, + 92343, + 92363 + ], + "area": 119058.51123, + "iscrowd": 0, + "segmentation": [], + "text": "Methods and Results" + }, + { + "id": 92343, + "strid": "06e98870-9451-4a06-b3cb-5c0c2e8a1c61", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 59.604, + 1968.938, + 838.548, + 275.9319999999998 + ], + "priority": 10, + "parents": [ + 92318 + ], + "children": [ + 92355 + ], + "area": 117356.580552, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92355, + "strid": "aad12aa5-070b-44b9-9753-8dd41b5ed38b", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 63.4, + 1869.729, + 827.67, + 67.37400000000002 + ], + "priority": 11, + "parents": [ + 92343 + ], + "children": [], + "area": 118540.8186, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Irradiation induces immunologically relevant cell\ndeath in PCa cells" + }, + { + "id": 92361, + "strid": "9596cf47-b3ad-4623-9785-29881f8a598d", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 93.636, + 2271.725, + 793.367, + 38.92399999999998 + ], + "priority": 12, + "parents": [ + 92318 + ], + "children": [], + "area": 212715.24209999997, + "iscrowd": 0, + "segmentation": [], + "text": "Representative dot plots showing different types of cell death and average percentages of DU145 cells labelled with\nAnnexin V and PI (Propidium Iodide), following 12Gy radiation and cultured up to 72 h." + }, + { + "id": 92330, + "strid": "f0d2c830-b18f-4f58-b8ca-f391e39fe830", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.366, + 2356.554, + 554.015, + 26.172000000000025 + ], + "priority": 13, + "parents": [ + 92318 + ], + "children": [], + "area": 231804.790764, + "iscrowd": 0, + "segmentation": [], + "text": "What type of cell death is induced by irradiation?" + }, + { + "id": 92332, + "strid": "14d5c749-bfc9-4548-a3cd-da2f78e6018f", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 71.03, + 2412.682, + 812.993, + 52.48799999999983 + ], + "priority": 14, + "parents": [ + 92318 + ], + "children": [], + "area": 171372.80245999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92346, + "strid": "18fd8f3d-b21b-4ed5-888b-39adf2a40fca", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 83.205, + 2621.407, + 793.66, + 295.08399999999983 + ], + "priority": 15, + "parents": [ + 92318 + ], + "children": [ + 92357 + ], + "area": 218114.16943500002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92357, + "strid": "2d2094b5-12ed-47f9-b614-5e0f5fe80eb8", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 43.887, + 2502.709, + 867.2920000000001, + 67.40299999999979 + ], + "priority": 16, + "parents": [ + 92346 + ], + "children": [], + "area": 109836.389883, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Radiation-induced expression of damage-associated\nmolecular patterns (DAMP) in tumor cells" + }, + { + "id": 92363, + "strid": "1603c3ad-597a-43ed-8720-81ba223705c7", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 103.191, + 2931.931, + 779.813, + 58.27599999999984 + ], + "priority": 17, + "parents": [ + 92318 + ], + "children": [], + "area": 302548.891821, + "iscrowd": 0, + "segmentation": [], + "text": "(A) ELISA assay was used to detect the concentration of HMGBI passively released into the extracellular space.\n(B) Flow cytometry analysis was used to detect surface expression of Hsp70. The assays were carried out at\ndifferent times (x-axis) after 12Gy irradiation from triplicate cultures. Means+SEM shown." + }, + { + "id": 92328, + "strid": "6e04cc49-e8bb-4040-8067-e72eed890dfb", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.57, + 3043.986, + 792.373, + 77.11599999999999 + ], + "priority": 18, + "parents": [ + 92318 + ], + "children": [], + "area": 230034.02201999997, + "iscrowd": 0, + "segmentation": [], + "text": "Can irradiation induce the upregulation and/or release of danger\nSignals such as Hsp70 and HMGB1 required for efficient cross-\npresentation?" + }, + { + "id": 92327, + "strid": "2afa8fd4-27f0-4a75-83f2-9ceaeb7f8644", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 51.929, + 3152.119, + 814.73, + 113.8739999999998 + ], + "priority": 19, + "parents": [ + 92318 + ], + "children": [], + "area": 163686.38755100002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92349, + "strid": "808541ea-de69-4772-8818-06c4fe46f126", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 73.625, + 3371.532, + 760.399, + 206.73399999999992 + ], + "priority": 20, + "parents": [ + 92318 + ], + "children": [ + 92352 + ], + "area": 248229.0435, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92352, + "strid": "eea3f25c-ed7b-4796-94fc-27972b885549", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 61.991, + 3281.078, + 705.685, + 32.03200000000015 + ], + "priority": 21, + "parents": [ + 92349 + ], + "children": [], + "area": 203397.306298, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Irradiated tumor cells are taken up by DC" + }, + { + "id": 92364, + "strid": "04b55b7f-a33b-4e8d-a679-44761ef1a75d", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.186, + 3589.663, + 848.941, + 38.73199999999997 + ], + "priority": 22, + "parents": [ + 92318 + ], + "children": [], + "area": 190919.816318, + "iscrowd": 0, + "segmentation": [], + "text": "Phagocytosis of DU145 tumor cells by DCs at a 1:1 ratio HLA-DR and CFSE double positive population on dot plot\nrepresents phagocytosis." + }, + { + "id": 92325, + "strid": "66240aa3-4561-4346-a9ad-ff9c2c38a745", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 96.065, + 3667.803, + 666.1579999999999, + 25.94900000000007 + ], + "priority": 23, + "parents": [ + 92318 + ], + "children": [], + "area": 352347.49519499997, + "iscrowd": 0, + "segmentation": [], + "text": "Are irradiated tumor cells taken up more efficiently by DC?" + }, + { + "id": 92326, + "strid": "8a038b06-743f-403a-b4d0-12fe3b060ff0", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 71.305, + 3742.143, + 819.847, + 72.86200000000008 + ], + "priority": 24, + "parents": [ + 92318 + ], + "children": [], + "area": 266833.506615, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92342, + "strid": "3197fd0c-8aed-40af-905c-cbec43840cce", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 955.668, + 947.162, + 850.484, + 565.9579999999999 + ], + "priority": 25, + "parents": [ + 92318 + ], + "children": [ + 92350 + ], + "area": 905172.414216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92350, + "strid": "95c68ed8-2358-4fab-aae0-88a39661ee64", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 931.841, + 834.933, + 856.151, + 68.62300000000005 + ], + "priority": 26, + "parents": [ + 92342 + ], + "children": [], + "area": 778024.801653, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: DC activation and tumor antigen cross-presentation\nfollowing uptake of irradiated PCa cells" + }, + { + "id": 92358, + "strid": "5fd72122-103a-44a6-9781-61ecf66759a5", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 960.796, + 1535.684, + 717.3970000000002, + 38.9670000000001 + ], + "priority": 27, + "parents": [ + 92318 + ], + "children": [], + "area": 1475479.044464, + "iscrowd": 0, + "segmentation": [], + "text": "(B) DC maturation by tumor cells at a 1:1 ratio. Mean and SD of MFIs for CD86 and HLA-DR are shown.\ni) Cross-presentation protocol. ii) Mean+SE of % IFNy+ CD8 T cells from triplicate cultures are shown." + }, + { + "id": 92337, + "strid": "f54e71c6-ac0a-4298-8f88-f3c9f611fd11", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1003.459, + 1622.983, + 769.227, + 55.12200000000007 + ], + "priority": 28, + "parents": [ + 92318 + ], + "children": [], + "area": 1628596.898197, + "iscrowd": 0, + "segmentation": [], + "text": "Does the uptake of irradiated DU145 tumor cells by DC cause DC\nactivation and trigger antigen cross-presentation?" + }, + { + "id": 92335, + "strid": "7036193e-f6ab-4f25-871b-caa2bad97a51", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 977.999, + 1712.042, + 794.152, + 147.51199999999994 + ], + "priority": 29, + "parents": [ + 92318 + ], + "children": [], + "area": 1674375.363958, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92344, + "strid": "2a03226d-a4ec-4077-9d4a-4a1e04e3f634", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 945.104, + 2050.992, + 852.81, + 390.4949999999999 + ], + "priority": 30, + "parents": [ + 92318 + ], + "children": [ + 92354 + ], + "area": 1938400.7431680004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92354, + "strid": "36f58165-45ba-4cfd-a07d-b5521aad17cb", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 951.908, + 1914.356, + 853.0269999999999, + 67.42100000000005 + ], + "priority": 31, + "parents": [ + 92344 + ], + "children": [], + "area": 1822290.791248, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: The effect of HMGB1/TLR4 pathway inhibitors on\nDC activation and antigen cross-presentation" + }, + { + "id": 92360, + "strid": "1b1daba8-fd70-40eb-9376-5aa0bf548ee9", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 960.417, + 2466.669, + 829.417, + 78.74200000000019 + ], + "priority": 32, + "parents": [ + 92318 + ], + "children": [], + "area": 2369030.840973, + "iscrowd": 0, + "segmentation": [], + "text": "(A) DC were cultured with OGy or 12Gy treated DU145 cells in the presence or absence of 504M HMGBI inhibitor\n(Glycyrrhizin) for 72h. CD86 upregulation on i) DC and ii) ST4 specific T cell stimulation were analyzed by flow\ncytometry. (B) DC cultured as in (A) but in the presence of 25yg/ml Myd88 and 25yg/ml TRIF inhibitory peptides\ntogether or of the same concentration of control peptide. Mean+SE of triplicate samples are shown" + }, + { + "id": 92329, + "strid": "938d68a6-5e28-474d-9c59-f591f6b228ab", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 978.584, + 2627.108, + 808.899, + 73.18100000000004 + ], + "priority": 33, + "parents": [ + 92318 + ], + "children": [], + "area": 2570845.855072, + "iscrowd": 0, + "segmentation": [], + "text": "Does the inhibition of HMGB1 function or TLR4 signalling affect DC\nactivation and cross-presentation of antigen from irradiated tumor\ncells?" + }, + { + "id": 92333, + "strid": "a9a1678a-5ffd-4ccb-826b-2e36bfdd0917", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 952.823, + 2755.967, + 833.928, + 121.71300000000019 + ], + "priority": 34, + "parents": [ + 92318 + ], + "children": [], + "area": 2625948.744841, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92348, + "strid": "56929ed1-a90a-41f6-946d-0f91c0f5e306", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 983.99, + 3059.189, + 784.1490000000001, + 328.65200000000004 + ], + "priority": 35, + "parents": [ + 92318 + ], + "children": [ + 92356 + ], + "area": 3010211.38411, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92356, + "strid": "d3893de2-c16f-4441-9fa7-1fde1367c8a9", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 938.314, + 2909.658, + 795.5660000000001, + 67.80699999999979 + ], + "priority": 36, + "parents": [ + 92348 + ], + "children": [], + "area": 2730172.8366119997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: TLR4 single nucleotide polymorphism does not\naffect cross-presentation" + }, + { + "id": 92365, + "strid": "c3b3b5fe-842a-4d47-bd39-47e1fcea99ac", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 960.401, + 3415.68, + 829.881, + 58.73500000000013 + ], + "priority": 37, + "parents": [ + 92318 + ], + "children": [], + "area": 3280422.48768, + "iscrowd": 0, + "segmentation": [], + "text": "Stimulation of 5T4-specific T cells with DC, from 3 donors with the Asp299 TLR4 allele (299A) and 3 donors with Gly299\n(299G) allele, loaded with untreated, 12Gy irradiated or oxaliplatin-treated DU145 cells. Mean+SE of % IFNy+ CD8 T\ncells from triplicate cultures are shown." + }, + { + "id": 92324, + "strid": "deffb528-bf93-47dc-b9db-929626f5f48c", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 991.194, + 3552.579, + 789.281, + 76.21399999999994 + ], + "priority": 38, + "parents": [ + 92318 + ], + "children": [], + "area": 3521294.989326, + "iscrowd": 0, + "segmentation": [], + "text": "Does the TLR4 single nucleotide polymorphism (SNP) affect\nradiation-induced antigen cross-presentation, in a similar manner as\noxaliplatin-treated tumor cells?" + }, + { + "id": 92323, + "strid": "c30e6295-7d6c-4668-9975-466ac214af0d", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 965.253, + 3659.179, + 813.2419999999998, + 77.69900000000007 + ], + "priority": 39, + "parents": [ + 92318 + ], + "children": [], + "area": 3532033.5072870003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92345, + "strid": "812e412e-4400-4481-8401-e024bdb01219", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1889.448, + 952.208, + 756.5829999999999, + 465.6940000000001 + ], + "priority": 40, + "parents": [ + 92318 + ], + "children": [ + 92351 + ], + "area": 1799147.501184, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92351, + "strid": "643fa3f0-f77f-4cff-8250-57333b9d7052", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1838.736, + 834.929, + 847.6020000000001, + 67.89499999999998 + ], + "priority": 41, + "parents": [ + 92345 + ], + "children": [], + "area": 1535214.009744, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7: Hsp70 inhibition prevents DC activation and blocks\nantigen cross-presentation" + }, + { + "id": 92359, + "strid": "c57240a6-d9b4-4fce-81e3-4bd435484fc0", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1854.304, + 1438.75, + 828.9200000000001, + 58.74499999999989 + ], + "priority": 42, + "parents": [ + 92318 + ], + "children": [], + "area": 2667879.8800000004, + "iscrowd": 0, + "segmentation": [], + "text": "(A) CD86 expression following 48h co-culture of DU145 cells with or without Hsp70 inhibitor (VER155008) and DC (B)\nT cell stimulation with DC, loaded with 0Gy or 12Gy irradiated DUI4S5 that were treated with VER155008 (VER),\nPifithrin-1 (PFT) or left untreated. Mean+SE of % IFNy+ CD8 T cells from triplicate cultures are shown." + }, + { + "id": 92338, + "strid": "d9502ec6-0124-40e1-a007-6dc762f64d41", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1885.958, + 1582.023, + 793.3339999999998, + 50.97399999999993 + ], + "priority": 43, + "parents": [ + 92318 + ], + "children": [], + "area": 2983628.933034, + "iscrowd": 0, + "segmentation": [], + "text": "Does the inhibition of Hsp70 affect DC activation and cross-\npresentation of antigen?" + }, + { + "id": 92336, + "strid": "f49033b0-9370-4a81-b135-bd4f7f0b0eae", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1846.111, + 1642.924, + 837.472, + 472.23900000000003 + ], + "priority": 44, + "parents": [ + 92318 + ], + "children": [], + "area": 3033020.068564, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92347, + "strid": "7b4ba2c1-4565-4d94-b395-e7f6cf214a80", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1839.082, + 2300.581, + 860.6290000000001, + 401.35300000000007 + ], + "priority": 45, + "parents": [ + 92318 + ], + "children": [ + 92353 + ], + "area": 4230957.106642, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92353, + "strid": "5fb38ef9-7a0f-41e5-8096-3d41a3d19ff2", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1870.787, + 2153.912, + 778.3549999999998, + 67.55200000000013 + ], + "priority": 46, + "parents": [ + 92347 + ], + "children": [], + "area": 4029510.5687439996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 8: Irradiated tumor-derived Hsp70 signals mainly\nvia CD91 on DC" + }, + { + "id": 92362, + "strid": "5d887fe6-8ddf-45ec-9cfe-3e995dd04cca", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1860.0, + 2730.203, + 829.906, + 59.33699999999999 + ], + "priority": 47, + "parents": [ + 92318 + ], + "children": [], + "area": 5078177.58, + "iscrowd": 0, + "segmentation": [], + "text": "(A) CD91 and SREC-I expression on day 5 DC. Mean+SEM of MFI for isotype and test from triplicate samples are shown.\n(B) Stimulation of 5T4-specific T cells in a cross-presentation experiment where DC were pre-treated either with\nneutralizing (N) or isotype (iso) antibodies, as indicate. Mean+SEM of IFNy*T cells from triplicate samples are shown." + }, + { + "id": 92331, + "strid": "2b2a73c5-a430-4fb6-afe0-8ec0342b4139", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1884.142, + 2866.292, + 795.6409999999998, + 48.47499999999991 + ], + "priority": 48, + "parents": [ + 92318 + ], + "children": [], + "area": 5400501.141464, + "iscrowd": 0, + "segmentation": [], + "text": "Which receptor is Hsp70 signalling via in the cross-presentation\nmodel?" + }, + { + "id": 92334, + "strid": "bfa70621-9472-43d5-9d26-e107745ce37a", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1859.019, + 2965.579, + 818.8660000000002, + 172.23399999999992 + ], + "priority": 49, + "parents": [ + 92318 + ], + "children": [], + "area": 5513067.707001001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92319, + "strid": "bef5bf1c-72af-45b5-b0ca-4f3718df33ca", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1855.398, + 3188.769, + 250.58299999999986, + 39.284999999999854 + ], + "priority": 50, + "parents": [ + 92366 + ], + "children": [ + 92321 + ], + "area": 5916435.625061999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 92321, + "strid": "7e99ea08-31ca-41fa-af8b-fd17f9c90892", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1871.979, + 3296.62, + 795.597, + 130.82799999999997 + ], + "priority": 51, + "parents": [ + 92319 + ], + "children": [], + "area": 6171203.41098, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92320, + "strid": "648f15d5-45fe-494f-85f7-356b72858bed", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1853.074, + 3484.695, + 433.8589999999999, + 48.91600000000017 + ], + "priority": 52, + "parents": [ + 92366 + ], + "children": [ + 92322 + ], + "area": 6457397.7024300005, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 92322, + "strid": "1825fb26-5fcf-4c8c-b791-58a59202ebc6", + "image_id": 204078, + "image_name": "121417.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1865.579, + 3561.493, + 826.9950000000001, + 144.5050000000001 + ], + "priority": 53, + "parents": [ + 92320 + ], + "children": [], + "area": 6644246.549447, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88505, + "strid": "c387f457-f3b6-4b46-ad84-8842a6586a26", + "image_id": 203936, + "image_name": "121201.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 95.15, + 92.07, + 242.59, + 188.69 + ], + "priority": -1, + "parents": [], + "children": [ + 88465, + 88464, + 88470, + 88473, + 88474, + 88463, + 88468, + 88469, + 88467, + 88466, + 88472, + 88471 + ], + "area": 8760.4605, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88463, + "strid": "41780fde-4589-40d5-a58c-b686c6a9e667", + "image_id": 203936, + "image_name": "121201.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 416.884, + 72.27, + 3104.026, + 201.327 + ], + "priority": 1, + "parents": [ + 88505 + ], + "children": [], + "area": 30128.20668, + "iscrowd": 0, + "segmentation": [], + "text": "Photophysical properties of porphyrins as a-selection criterion of porphyrins\n‘ for studyof their effectiveness“against microorganisms" + }, + { + "id": 88464, + "strid": "08abdbc9-b1da-4f64-83b4-5938393e0951", + "image_id": 203936, + "image_name": "121201.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 111.942, + 371.075, + 3711.311, + 407.454 + ], + "priority": 2, + "parents": [ + 88505 + ], + "children": [], + "area": 41538.877649999995, + "iscrowd": 0, + "segmentation": [], + "text": "_ ' Anna G. Gyulkhandanyan, 2 Elena S. Tuchina, 3? Robert K. Ghazaryan, 4 Marina H. Paronyan, 5 Boris M. Dzagarov, Oat\n’ Grigor V. Gyulkhandanyan, ®”8 Valery V. Tuchin g\n‘Institute of Biochemistry NAS, Armenia; 2Biological Department,’/N.G. Chemyshevsky Saratov State University; 7Yerevan State Medical University,\n\nArmenia; Science and_Production Center \"Armbiotechnology\"\\NAS, Armenia; Institute of Physics: NAS, Belarus; ®Institute of Optics and-Biophotonics,\nN.G. Chemyshevsky Saratov State University; 7Institute of Precise Mechanics and Control RAS, Saratov, Russia; ®University of Oulu, Finland" + }, + { + "id": 88465, + "strid": "75a338b6-7b7a-47e0-b28e-1fff0b1d0bac", + "image_id": 203936, + "image_name": "121201.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 911.478, + 1049.729, + 370.33900000000006, + 65.654 + ], + "priority": 3, + "parents": [ + 88505 + ], + "children": [ + 88483 + ], + "area": 956804.889462, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 88483, + "strid": "f1a25192-9a87-4a18-9d0f-5874a21cba84", + "image_id": 203936, + "image_name": "121201.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 82.573, + 1161.735, + 1821.351, + 853.5029999999999 + ], + "priority": 4, + "parents": [ + 88465 + ], + "children": [], + "area": 95927.94415499999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88467, + "strid": "08b4ca1f-656a-476d-90cc-68d889861037", + "image_id": 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National\nNatural Science Foundation of China, China [91229105]. Small Project Funding, University\nGrants Committee, The University of Hong Kong, Hong Kong SAR, China\n[201409176183]. 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"category_name": "Root", + "bbox": [ + 897.47, + 99.81, + 211.20000000000005, + 140.81 + ], + "priority": -1, + "parents": [], + "children": [ + 40485, + 40492, + 40494, + 40487, + 40493, + 40490, + 40489, + 40486, + 40491, + 40488 + ], + "area": 89576.4807, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40485, + "strid": "6f00647d-95e4-456d-8a52-9ebced9053f2", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1209.748, + 134.429, + 2400.519, + 277.576 + ], + "priority": 1, + "parents": [ + 40521 + ], + "children": [], + "area": 162625.213892, + "iscrowd": 0, + "segmentation": [], + "text": "Effect of tree age and agronomic treatments on\nmycorrhizal colonization in apple orchards" + }, + { + "id": 40486, + "strid": "e3c49190-c983-47b5-a970-6a4156a4e8cf", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1938.505, + 453.072, + 1786.272, + 137.99400000000003 + ], + "priority": 2, + "parents": [ + 40521 + ], + "children": [], + "area": 878282.33736, + "iscrowd": 0, + "segmentation": [], + "text": "Elisabetta Tomé, Massimo Tagliavini, Francesca Scandellari\n\nFree University of Bolzano-Bozen, Italy" + }, + { + "id": 40487, + "strid": "31ad5168-02d8-4ab6-b6ea-0df68973f940", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 95.138, + 741.409, + 409.403, + 82.76200000000006 + ], + "priority": 3, + "parents": [ + 40521 + ], + "children": [ + 40495 + ], + "area": 70536.169442, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 40495, + "strid": "80d0c5bb-4968-4990-b081-e1f3433dc070", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 86.178, + 893.276, + 1489.3900000000003, + 353.533 + ], + "priority": 4, + "parents": [ + 40487 + ], + "children": [], + "area": 76980.73912799999, + "iscrowd": 0, + "segmentation": [], + "text": "Arbuscular mycorrhizal fungi (AMF) colonize plant roots and spread in\nthe surrounding soil, enhance plant nutrient uptake from the soil and\nstimulate the transfer of photosynthates from the plant to the soil (1).\nThe importance of this symbiotic association in agro-ecosystems has\ngained importance due to its role in the sustainability of fruit production\nas well as in carbon (C) budgets." + }, + { + "id": 40489, + "strid": "83d02df9-0c79-4477-a91a-d95503ba115d", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 98.376, + 1343.889, + 313.3430000000001, + 69.05999999999995 + ], + "priority": 5, + "parents": [ + 40521 + ], + "children": [ + 40497, + 40513, + 40514, + 40496, + 40515 + ], + "area": 132206.424264, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 40496, + "strid": "03a50723-24a7-4260-8032-a467b06f8ece", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.026, + 1497.091, + 1486.388, + 290.6959999999999 + ], + "priority": 6, + "parents": [ + 40489 + ], + "children": [], + "area": 136274.20536599998, + "iscrowd": 0, + "segmentation": [], + "text": "We studied 1, 2 and 5 years-old apple orchards grafted on M9 rootstock.\nIn each orchard, at planting, 4 plots of 20 trees each were either treated\nwith chemical fumigation (Basamid, 80 g m%), or inoculated with\nmycorrhizae (Micosat ,75 g tree). Untreated trees as control were also\npresent." + }, + { + "id": 40513, + "strid": "3ae77d2d-e89d-4198-b0ec-66c9b9172430", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 138.517, + 1834.989, + 412.29299999999995, + 617.5430000000001 + ], + "priority": 7, + "parents": [ + 40489 + ], + "children": [ + 40502 + ], + "area": 254177.171313, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40502, + "strid": "734537b9-eb11-4927-943e-ea8c2f2996e0", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 147.508, + 2456.867, + 392.43899999999996, + 79.47499999999991 + ], + "priority": 8, + "parents": [ + 40513 + ], + "children": [], + "area": 362407.5374360001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 : Soil respiration\nchamber" + }, + { + "id": 40514, + "strid": "758113f6-54b8-414f-a485-8fea82997a6d", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 608.684, + 1833.282, + 404.39699999999993, + 615.6650000000002 + ], + "priority": 9, + "parents": [ + 40489 + ], + "children": [ + 40503 + ], + "area": 1115889.420888, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40503, + "strid": "8681bfb6-016b-49f4-b4ba-d91a4f6d3bd6", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 619.759, + 2456.445, + 283.485, + 37.63599999999997 + ], + "priority": 10, + "parents": [ + 40514 + ], + "children": [], + "area": 1522403.896755, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Soil core" + }, + { + "id": 40515, + "strid": "bd1c11e5-32f9-43c4-8d33-4c9f402b3d75", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1069.518, + 1835.974, + 450.4200000000001, + 608.1209999999999 + ], + "priority": 11, + "parents": [ + 40489 + ], + "children": [ + 40504 + ], + "area": 1963607.240532, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40504, + "strid": "83415d8e-628e-47a4-be12-244a457f5073", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1072.539, + 2457.124, + 482.846, + 132.19000000000005 + ], + "priority": 12, + "parents": [ + 40515 + ], + "children": [], + "area": 2635361.3178359997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3 : Apple roots after\nstaining procedure, visible in\ndark blue vesicles and hyphae" + }, + { + "id": 40497, + "strid": "72cf1013-ee0e-4146-ba10-77259ddf8587", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.457, + 2635.698, + 1487.138, + 413.0720000000001 + ], + "priority": 13, + "parents": [ + 40489 + ], + "children": [], + "area": 241053.03198599996, + "iscrowd": 0, + "segmentation": [], + "text": "We measured soil respiration (R,) in 60 positions per orchard (tot =180\nmeasurements) in September 2012 with a survey chamber coupled with\nan infrared gas analyser (LI-8100, Li-Cor) (Fig.1). At each position we\nsampled the soil (Fig.2) for the analysis of mycorrhizal root length\ncolonization (RLC) (Fig.3) (2), enzymatic activity (acid and alkaline\nphosphatase) (3), total soil C using an Elemental Analyzer Flash 2000\n(ThermoFisher Scientific), and microbial C concentrations (C,..) (4)." + }, + { + "id": 40488, + "strid": "ba6ac0dc-2300-4b30-962a-851be65a31c9", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1687.543, + 741.356, + 365.4849999999999, + 79.673 + ], + "priority": 14, + "parents": [ + 40521 + ], + "children": [ + 40509 + ], + "area": 1251070.1283079998, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 40509, + "strid": "8b419f84-666e-4d75-98f4-bc8e3e712560", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1680.45, + 892.699, + 1573.5600000000002, + 229.7399999999999 + ], + "priority": 15, + "parents": [ + 40488 + ], + "children": [], + "area": 1500136.03455, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40490, + "strid": "e3ac0f58-df11-418b-89ca-9e5379ebb7dd", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1683.22, + 1240.654, + 249.60400000000004, + 66.30700000000002 + ], + "priority": 16, + "parents": [ + 40521 + ], + "children": [ + 40510, + 40518, + 40517, + 40516, + 40498, + 40499 + ], + "area": 2088293.62588, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 40516, + "strid": "3436c11c-d012-460f-aa9a-edd3bfaff3d5", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1718.739, + 1342.191, + 813.5720000000001, + 531.1000000000001 + ], + "priority": 17, + "parents": [ + 40490 + ], + "children": [ + 40505 + ], + "area": 2306876.017149, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40505, + "strid": "c67e5d70-f983-42f8-b761-c6fd9c0822ac", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1725.814, + 1881.974, + 786.7320000000002, + 88.53899999999999 + ], + "priority": 18, + "parents": [ + 40516 + ], + "children": [], + "area": 3247937.076836, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4 : Variation of RLC in the orchards (bars\nindicate standard errors)" + }, + { + "id": 40510, + "strid": "9a839c38-9faa-4a9a-a177-5445ec97fefa", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2557.977, + 1412.678, + 758.9180000000001, + 413.0240000000001 + ], + "priority": 19, + "parents": [ + 40490 + ], + "children": [], + "area": 3613597.8324060002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40498, + "strid": "d4726a7f-512e-492e-a349-476388291b7c", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1724.839, + 2040.1, + 794.549, + 649.5219999999999 + ], + "priority": 20, + "parents": [ + 40490 + ], + "children": [], + "area": 3518844.0439, + "iscrowd": 0, + "segmentation": [], + "text": "We observed a significant correlation\nof RLC with acid phosphatase\n(p<0.001) suggesting an active role of\nmycorrhizal symbiosis in the inorganic\nP uptake from soil. The two agronomic\ntreatments had neither a significative\neffect on the microbial biomass nor\naffected soil functionality. R, positively\ncorrelated with the total soil C\n(p<0.001), but not with microbial\ncarbon and RLC." + }, + { + "id": 40517, + "strid": "860f4400-da8d-4b7f-a3e9-54ba2802ab96", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2584.519, + 1944.353, + 740.569, + 740.569 + ], + "priority": 21, + "parents": [ + 40490 + ], + "children": [ + 40506 + ], + "area": 5025217.271207, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40506, + "strid": "f7d296fa-c014-4b2a-8021-7513caa40da6", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2597.799, + 2704.443, + 672.8699999999999, + 45.184999999999945 + ], + "priority": 22, + "parents": [ + 40517 + ], + "children": [], + "area": 7025599.320957, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5 : PCA and Eigen values (small box)" + }, + { + "id": 40518, + "strid": "e453f0c2-50ae-4f43-a4b9-f06b4121800d", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1712.668, + 2762.394, + 809.7140000000002, + 638.9670000000001 + ], + "priority": 23, + "parents": [ + 40490 + ], + "children": [ + 40507 + ], + "area": 4731063.807192, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40507, + "strid": "53f8d197-6601-4c0b-b56f-b91a00a2f5b5", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1730.281, + 3416.851, + 777.4369999999999, + 82.66400000000021 + ], + "priority": 24, + "parents": [ + 40518 + ], + "children": [], + "area": 5912112.365131, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6 : CO, soil fluxes in the orchards and\nbetween treatments" + }, + { + "id": 40499, + "strid": "1e613e67-7ba1-4194-adec-06c8043fd977", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2591.831, + 2882.422, + 721.8780000000002, + 529.1379999999999 + ], + "priority": 25, + "parents": [ + 40490 + ], + "children": [], + "area": 7470750.694682, + "iscrowd": 0, + "segmentation": [], + "text": "After one year from the\napplication of treatments, R, was\nhigher in fumigated plots\ncompared with the control and\ninoculated plots, probably due to a\npriming effect, whereas no\nsignificative difference was\ndetected after 3 and 5 years from\ntreatments." + }, + { + "id": 40494, + "strid": "cf7a0cda-7eb8-4414-bb11-8f9e8318e28b", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3489.039, + 735.843, + 373.2840000000001, + 81.45299999999997 + ], + "priority": 26, + "parents": [ + 40521 + ], + "children": [ + 40519, + 40520 + ], + "area": 2567384.924877, + "iscrowd": 0, + "segmentation": [], + "text": "Study area" + }, + { + "id": 40519, + "strid": "23406442-07c7-4a2c-848c-123fbd1025a8", + "image_id": 202094, + "image_name": "118117.png", 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+ "segmentation": [], + "text": "Figure 7: The map shows the location of\napple orchards in the Alto Adige Region.\nThe red dot specify the study site" + }, + { + "id": 40491, + "strid": "385b58c1-7418-48f3-95ce-c9aa98b4c0b1", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3482.845, + 1500.743, + 1211.1339999999996, + 82.09500000000003 + ], + "priority": 30, + "parents": [ + 40521 + ], + "children": [ + 40501, + 40511 + ], + "area": 5226855.253834999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions and future perspectives" + }, + { + "id": 40511, + "strid": "ac1a374b-9770-4ab3-abc1-c505e6dced9a", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3482.127, + 1691.026, + 1219.3030000000003, + 643.8100000000002 + ], + "priority": 31, + "parents": [ + 40491 + ], + "children": [], + "area": 5888367.292302, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40501, + "strid": "53773428-7f96-4d9b-bf3f-43a81722421c", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3482.534, + 2408.879, + 1215.904, + 173.09299999999985 + ], + "priority": 32, + "parents": [ + 40491 + ], + "children": [], + "area": 8389003.019385999, + "iscrowd": 0, + "segmentation": [], + "text": "Future work will be done to better understand the\ncontribution of the mycorrhizal fungi in R, and _ in the total\ncarbon budgets." + }, + { + "id": 40492, + "strid": "7e946a52-18fa-4485-b567-738e25ce06e7", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3479.989, + 2688.074, + 685.6960000000004, + 79.96900000000005 + ], + "priority": 33, + "parents": [ + 40521 + ], + "children": [ + 40500 + ], + "area": 9354467.951186, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 40500, + "strid": "2d24ac6d-444a-4d33-823c-556149751662", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3477.952, + 2809.626, + 1218.531, + 345.96500000000015 + ], + "priority": 34, + "parents": [ + 40492 + ], + "children": [], + "area": 9771744.365952002, + "iscrowd": 0, + "segmentation": [], + "text": "This project is funded by the Free University of Bolzano\n(TN5051). We would like to thank Dr. Luciano Cavani and Dr.\nMartin Thalheimer for their support in the lab and in the\nfield. A big thank to Maddalena Bolognesi, Christian\nCeccon and Damiano Zanotelli for their support in field\nwork." + }, + { + "id": 40493, + "strid": "d9c3c6b9-b298-4592-bb7d-b6e5976ab036", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.653, + 3128.61, + 246.012, + 43.583000000000084 + ], + "priority": 35, + "parents": [ + 40521 + ], + "children": [ + 40512 + ], + "area": 311775.37233000004, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 40512, + "strid": "8404aeea-af00-4e48-baf9-df7716bc83d0", + "image_id": 202094, + "image_name": "118117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 98.979, + 3222.569, + 1482.852, + 278.924 + ], + "priority": 36, + "parents": [ + 40493 + ], + "children": [], + "area": 318966.657051, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71717, + "strid": "59dcea7e-c73d-44ad-a92f-2bbde8e75b7c", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 387.53, + 273.05, + 242.59000000000003, + 224.62 + ], + "priority": -1, + "parents": [], + "children": [ + 71708, + 71709, + 71716, + 71707, + 71704, + 71710, + 71705, + 71706 + ], + "area": 105815.0665, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71704, + "strid": "5a557b51-ad4e-4fd7-ba64-bb179bf2189f", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 287.94, + 89.93, + 5003.717, + 133.097 + ], + "priority": 1, + "parents": [ + 71717 + ], + "children": [], + "area": 25894.4442, + "iscrowd": 0, + "segmentation": [], + "text": "Local spatial synchronization {MRI indicates functional specialization of putamen in motorimagery" + }, + { + "id": 71705, + "strid": "0a311785-09fd-46d7-8ba1-169dc4ba9419", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 671.966, + 227.937, + 4234.493, + 167.608 + ], + "priority": 2, + "parents": [ + 71717 + ], + "children": [], + "area": 153165.91414200002, + "iscrowd": 0, + "segmentation": [], + "text": "Henning U. Vosst, Santosh A: Helekar? & Nicholas D. Schiff?\n\nDepartment of Radiology, 7Department-of Neurology and Neuroscience, Weill Gornell Medical College, New York, NYs?Houston Methodist Research Institute, Houston, TX" + }, + { + "id": 71706, + "strid": "daf3b725-e7c2-41e4-a0b8-5f22930ce3d8", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.804, + 629.044, + 547.281, + 68.774 + ], + "priority": 3, + "parents": [ + 71717 + ], + "children": [ + 71712 + ], + "area": 59006.843376, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 71712, + "strid": "f942b335-406d-40c2-b00f-e2b8cd375842", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 88.985, + 795.273, + 1648.633, + 659.139 + ], + "priority": 4, + "parents": [ + 71706 + ], + "children": [], + "area": 70767.367905, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71707, + "strid": "b6ba8c76-bbb7-42c8-9768-6a466767e5ed", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 96.178, + 1539.873, + 354.062, + 64.14699999999993 + ], + "priority": 5, + "parents": [ + 71717 + ], + "children": [ + 71713 + ], + "area": 148101.905394, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 71713, + "strid": "79f88f1a-6738-4cbc-9923-8dd22959a653", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 83.777, + 1703.011, + 1653.533, + 1762.353 + ], + "priority": 6, + "parents": [ + 71707 + ], + "children": [], + "area": 142673.152547, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71716, + "strid": "c0cc42bf-a05a-41ce-b0b4-0eba39c34e38", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1796.433, + 617.428, + 2039.442, + 2501.461 + ], + "priority": 7, + "parents": [ + 71717 + ], + "children": [ + 71711 + ], + "area": 1109168.034324, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71711, + "strid": "54d75964-fbfc-4613-91de-3ed6c4950d84", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1799.514, + 3122.663, + 2023.0360000000003, + 306.759 + ], + "priority": 8, + "parents": [ + 71716 + ], + "children": [], + "area": 5619275.785782, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: BOLD and local spatial synchronization fMRI (IssfMRI) for sports motor imagery\ntasks. Glass brains and SPMs for (a) BOLD response at an FDR controlled threshold of p-=\n0.05, (b) IssfMRI map with an exploratory(p « 0.005 (uncorr.), and (c) IssfMRI map masked.by\nthe BOLD response, FDR = 0.05; only,putaminal but not cortical synchronization withstands\nthe FDR controlled threshold." + }, + { + "id": 71708, + "strid": "17a711d5-a7e2-4097-ae55-fd7ca88d139d", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3900.152, + 632.014, + 293.6090000000004, + 64.70100000000002 + ], + "priority": 9, + "parents": [ + 71717 + ], + "children": [ + 71714 + ], + "area": 2464950.6661280002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 71714, + "strid": "f6fd28f1-7024-48e6-8060-3d9355dac977", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3887.407, + 795.952, + 1603.013, + 951.74 + ], + "priority": 10, + "parents": [ + 71708 + ], + "children": [], + "area": 3094189.376464, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71709, + "strid": "ac553be5-a53b-44cc-a0aa-c2c3a617ca3c", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3895.232, + 1828.324, + 970.3490000000002, + 72.45800000000008 + ], + "priority": 11, + "parents": [ + 71717 + ], + "children": [ + 71715 + ], + "area": 7121746.151168, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 71715, + "strid": "b3b21c5e-4d38-4a08-933a-5dcf4bf5eb26", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3895.394, + 1998.743, + 1594.3840000000005, + 1311.9069999999997 + ], + "priority": 12, + "parents": [ + 71709 + ], + "children": [], + "area": 7785891.489742, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71710, + "strid": "83efb638-7152-49d6-9bed-383c1060df0f", + "image_id": 203296, + "image_name": "120011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3894.882, + 3355.62, + 1588.8539999999998, + 119.55699999999979 + ], + "priority": 13, + "parents": [ + 71717 + ], + "children": [], + "area": 13069743.93684, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGMENTS Funded by\\NIH, the James S. McDonnell Foundation\n(NDS), and the Nancy M and Samuel C Fleming Research Scholar Award (HUV)" + }, + { + "id": 193783, + "strid": "26c3f74d-3e83-4478-957c-9ce981e6c407", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 211.22, + 293.04, + 281.32000000000005, + 137.89999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 193740, + 193742, + 193778, + 193746, + 193744, + 193762, + 193777, + 193779, + 193747, + 193765, + 193745, + 193741, + 193743, + 193739, + 193764, + 193780, + 193763, + 193761 + ], + "area": 61895.908800000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193739, + "strid": "4be36e27-4341-4323-a81d-d1af0e077cae", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 314.047, + 137.233, + 4973.994999999999, + 109.79000000000002 + ], + "priority": 1, + "parents": [ + 193783 + ], + "children": [], + "area": 43097.611951000006, + "iscrowd": 0, + "segmentation": [], + "text": "Perceived chromatic diversity in dichromacy benefits trom the color distributions of natural scenes" + }, + { + "id": 193740, + "strid": "f3a53997-1cd4-439c-9cb6-ecef79de9d10", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1159.065, + 293.586, + 3278.0749999999994, + 130.07299999999998 + ], + "priority": 2, + "parents": [ + 193783 + ], + "children": [], + "area": 340285.25709, + "iscrowd": 0, + "segmentation": [], + "text": "Sérgio M.C. Nascimento+ (smcn@fisica.uminho.pt) , Jodo M.M. Linhares, Ruben C. Pastilha*, Jorge L. A. Santos* and Vasco M. N. de Almeida?\n1Centre of Physics, University of Minho, 4710-057 Braga, Portugal; 7Department of Physics, University of Beira Interior, 6201-001 Covilha, Portugal" + }, + { + "id": 193741, + "strid": "99c1e2ec-74c3-4f36-8cfa-e104ccecb524", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 110.54, + 980.734, + 148.84299999999996, + 38.043000000000006 + ], + "priority": 3, + "parents": [ + 193783 + ], + "children": [ + 193748 + ], + "area": 108410.33636000002, + "iscrowd": 0, + "segmentation": [], + "text": "Purpose" + }, + { + "id": 193748, + "strid": "71c02a68-5f07-4920-abfe-278c4b48bb88", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.304, + 1077.704, + 1533.27, + 35.12799999999993 + ], + "priority": 4, + "parents": [ + 193741 + ], + "children": [], + "area": 114564.24601599999, + "iscrowd": 0, + "segmentation": [], + "text": "To estimate, empirically, how much dichromacy impairs discrimination of colors in natural scenes." + }, + { + "id": 193742, + "strid": "79a29570-6271-4d05-abb3-23b3f63f0268", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 108.532, + 1229.877, + 273.494, + 32.460000000000036 + ], + "priority": 5, + "parents": [ + 193783 + ], + "children": [ + 193749, + 193752, + 193750 + ], + "area": 133481.010564, + "iscrowd": 0, + "segmentation": [], + "text": "1. Introduction" + }, + { + "id": 193749, + "strid": "12e2f359-19ca-45ed-8a3c-01738717dbb0", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.563, + 1328.8, + 1661.122, + 220.87400000000002 + ], + "priority": 6, + "parents": [ + 193742 + ], + "children": [], + "area": 144258.5144, + "iscrowd": 0, + "segmentation": [], + "text": "Inherited color vision deficiencies impair color discrimination and therefore impoverish the chromatic\ndiversity perceived in natural scenes.\n\nFor dichromacy, estimates based on Brettel’s perceptual model [1] and on the gamut of natural colors\npredict that dichromats see only a few percent of the colors that normal trichromats can see (Table 1)." + }, + { + "id": 193750, + "strid": "452f0a53-a0d6-4df3-b1a4-0098f2342e0e", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 223.005, + 1629.227, + 1419.946, + 331.88599999999997 + ], + "priority": 7, + "parents": [ + 193742 + ], + "children": [ + 193751 + ], + "area": 363325.76713500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193751, + "strid": "bdc45479-ad55-4c4b-8461-9308796f394d", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 230.746, + 1978.247, + 1394.906, + 26.899000000000115 + ], + "priority": 8, + "parents": [ + 193750 + ], + "children": [], + "area": 456472.582262, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 — Theoretical predictions of the fraction of colors discriminated by dichromats. Predictions based on Brettel’s model." + }, + { + "id": 193752, + "strid": "51b17242-6ca7-4a94-8c57-0189ae96139b", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.292, + 2074.962, + 1660.305, + 270.3119999999999 + ], + "priority": 9, + "parents": [ + 193742 + ], + "children": [], + "area": 224701.784904, + "iscrowd": 0, + "segmentation": [], + "text": "These estimates, however, do not take into account how frequent the colors appear in the scenes. Pairs\nof colors confused by dichromats may be rare and thus have small impact on the overall perceived\nchromatic diversity.\n\nThe purpose of this work was to estimate with a psychophysical experiment how much dichromacy\nimpairs discrimination of pairs of colors in natural scenes." + }, + { + "id": 193743, + "strid": "90e4b6a8-295d-4920-b68c-95bf41770083", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 105.104, + 2474.008, + 178.849, + 31.70699999999988 + ], + "priority": 10, + "parents": [ + 193783 + ], + "children": [ + 193753, + 193754, + 193758 + ], + "area": 260028.136832, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193753, + "strid": "c9932575-ec3c-4b7d-b314-64aabeddcda7", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 105.938, + 2532.409, + 799.574, + 520.058 + ], + "priority": 11, + "parents": [ + 193743 + ], + "children": [ + 193755 + ], + "area": 268278.34464200004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193755, + "strid": "84de5fc3-a880-4c11-9d3e-22c06af5338c", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 112.57, + 3064.751, + 784.884, + 90.50700000000006 + ], + "priority": 12, + "parents": [ + 193753 + ], + "children": [], + "area": 344999.02007, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 8 — Individual results expressed as d’ computed for a 1AFC.\nsame-different task using the differencing model [5, 6]. Data based\non 2640 trials for each observer." + }, + { + "id": 193754, + "strid": "41b6be0a-8798-4483-b672-991446d8becb", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 954.637, + 2529.961, + 786.9089999999999, + 522.7629999999999 + ], + "priority": 13, + "parents": [ + 193743 + ], + "children": [ + 193756 + ], + "area": 2415194.3791569998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193756, + "strid": "ef9fe791-b964-485a-ae1f-d1d79a8b1613", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 965.12, + 3063.629, + 770.6849999999998, + 91.6289999999999 + ], + "priority": 14, + "parents": [ + 193754 + ], + "children": [], + "area": 2956769.62048, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 9 — Individual results expressed as % discrimination\ncomputed from d’ assuming that all observers have the same\ncriterion [5]. Data based on 2640 trials for each observer." + }, + { + "id": 193758, + "strid": "a60035cc-e777-4ec0-99c1-9c723fd33c01", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 531.181, + 3207.189, + 806.002, + 545.6669999999999 + ], + "priority": 15, + "parents": [ + 193743 + ], + "children": [ + 193757 + ], + "area": 1703597.860209, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193757, + "strid": "0a9f92cc-65bd-46b8-8b5c-f632d53aa3a1", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 355.563, + 3762.118, + 1169.7999999999997, + 92.57900000000018 + ], + "priority": 16, + "parents": [ + 193758 + ], + "children": [], + "area": 1337669.9624339999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 10 — Average of group results expressed as % discrimination computed from a” assuming that all\nobservers have the same criterion [5]. Data based on 4 normal trichromats, 2 deuteranope, two\nprotanope and 2640 trials for each observer." + }, + { + "id": 193744, + "strid": "75324c82-ec4f-4059-9e0e-f476964d0538", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1891.059, + 981.736, + 212.21800000000007, + 33.50800000000004 + ], + "priority": 17, + "parents": [ + 193783 + ], + "children": [ + 193766, + 193759, + 193773, + 193760, + 193774 + ], + "area": 1856520.698424, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193766, + "strid": "70b2ab02-b860-4688-8526-8d14df61a845", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1890.098, + 1082.471, + 1176.7179999999998, + 358.1590000000001 + ], + "priority": 18, + "parents": [ + 193744 + ], + "children": [], + "area": 2045976.272158, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193759, + "strid": "e563d8c9-1780-41fa-bec3-64e871839b07", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1909.067, + 1457.419, + 518.549, + 349.31600000000003 + ], + "priority": 19, + "parents": [ + 193744 + ], + "children": [ + 193767 + ], + "area": 2782310.518073, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193767, + "strid": "1739bd62-407b-4b0b-8180-23b8971d5742", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1920.39, + 1830.074, + 497.95399999999995, + 193.85500000000002 + ], + "priority": 20, + "parents": [ + 193759 + ], + "children": [], + "area": 3514455.80886, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 — Stimuli were 3D objects painted\nwith a matte white paint. The scene\nsubtended 10 deg and was set inside a light\nbooth illuminated by a spectrally tunable\nlight source based on the Digital Light\nProcessor technology." + }, + { + "id": 193760, + "strid": "c7d8f198-8d3d-4b4a-aecc-80c02ec57837", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2485.784, + 1459.998, + 522.8089999999997, + 351.403 + ], + "priority": 21, + "parents": [ + 193744 + ], + "children": [ + 193768 + ], + "area": 3629239.668432, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193768, + "strid": "4752be16-f77e-4ea0-a595-392a7f586468", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2494.535, + 1824.737, + 501.85599999999977, + 154.5920000000001 + ], + "priority": 22, + "parents": [ + 193760 + ], + "children": [], + "area": 4551870.312295, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 — OL 490 Agile Light Source, Gooch\n& Housego. The spectral composition of the\nlight source could be tuned very fast with a\nspectral resolution of 20 nm using in-house\nsoftware." + }, + { + "id": 193773, + "strid": "5002b772-1c4e-4b21-96ef-59e9d009d4af", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1892.773, + 2081.327, + 691.2639999999999, + 265.00700000000006 + ], + "priority": 23, + "parents": [ + 193744 + ], + "children": [], + "area": 3939479.549771, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193774, + "strid": "62c381db-fe2d-4356-9e2b-80d8bb17e0d9", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1890.127, + 2431.042, + 1174.009, + 212.7260000000001 + ], + "priority": 24, + "parents": [ + 193744 + ], + "children": [], + "area": 4594978.122334, + "iscrowd": 0, + "segmentation": [], + "text": "Design and procedure\n\nA 1AFC sequential same-different procedure (Fig. 7) was used. A large\nadapting field illuminated by the adapting illuminant was seen at all times\nduring the experimental sessions (Fig. 3 and 4)." + }, + { + "id": 193745, + "strid": "58902555-4a57-40e8-8f85-302f8fa285cd", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1888.776, + 2773.387, + 265.59600000000023, + 32.728999999999814 + ], + "priority": 25, + "parents": [ + 193783 + ], + "children": [ + 193775 + ], + "area": 5238306.804312, + "iscrowd": 0, + "segmentation": [], + "text": "4. Conclusions" + }, + { + "id": 193775, + "strid": "39a5af45-e5ac-4d48-8207-8ca76d225341", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1888.512, + 2870.226, + 1171.974, + 450.85699999999997 + ], + "priority": 26, + "parents": [ + 193745 + ], + "children": [], + "area": 5420456.243712, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193777, + "strid": "f13f9cc5-0e6c-4470-91c2-e12484a3f93e", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3396.282, + 1016.779, + 508.8910000000001, + 41.541999999999916 + ], + "priority": 27, + "parents": [ + 193783 + ], + "children": [], + "area": 3453268.2156780004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193761, + "strid": "627a4547-fe8c-4ca9-b48d-fc726f7615e8", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3208.587, + 1132.874, + 487.71399999999994, + 336.7370000000001 + ], + "priority": 28, + "parents": [ + 193783 + ], + "children": [ + 193769 + ], + "area": 3634924.789038, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193769, + "strid": "27eec3bf-c550-4c65-b7f5-f3d117e29588", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3214.71, + 1479.97, + 472.7420000000002, + 53.99000000000001 + ], + "priority": 29, + "parents": [ + 193761 + ], + "children": [], + "area": 4757674.3587, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3 — What the obseryer sees inside\nthe booth. a" + }, + { + "id": 193762, + "strid": "e4ea7452-0751-474c-9ba4-177ba53b419f", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3728.711, + 1131.717, + 348.99900000000025, + 522.932 + ], + "priority": 30, + "parents": [ + 193783 + ], + "children": [ + 193770 + ], + "area": 4219845.626787, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193770, + "strid": "eeeae125-3859-4128-823a-2cd9ee1e9607", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3736.412, + 1665.08, + 332.82299999999987, + 92.12300000000005 + ], + "priority": 31, + "parents": [ + 193762 + ], + "children": [], + "area": 6221424.89296, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4 — Large adapting\nfield illuminated by the\nadapting illuminant." + }, + { + "id": 193778, + "strid": "a3e7ddcd-2ba5-4a8d-8e96-b805712b1ce7", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4658.264, + 1021.656, + 400.6880000000001, + 39.156999999999925 + ], + "priority": 32, + "parents": [ + 193783 + ], + "children": [], + "area": 4759143.365184, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193763, + "strid": "5f97dc8f-6b86-4cea-9e25-3826e48d9111", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4181.611, + 1123.694, + 762.8180000000002, + 510.0709999999999 + ], + "priority": 33, + "parents": [ + 193783 + ], + "children": [ + 193771 + ], + "area": 4698851.191033999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193771, + "strid": "5f6d4c8d-f1d7-4364-b864-7eaa53daa621", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4190.819, + 1660.749, + 743.0339999999997, + 55.54299999999989 + ], + "priority": 34, + "parents": [ + 193763 + ], + "children": [], + "area": 6959898.463431001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5 — In each trial the spectra were Boece from random\nlocations of one of 4 natural scenes. \\" + }, + { + "id": 193764, + "strid": "925d2e09-bb58-46eb-b385-bd71173060ba", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4973.611, + 1115.984, + 520.8310000000001, + 530.613 + ], + "priority": 35, + "parents": [ + 193783 + ], + "children": [ + 193772 + ], + "area": 5550470.298223999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193772, + "strid": "b7819e7b-31bd-4255-89dd-e61ebe49b94c", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4991.377, + 1659.782, + 494.7359999999999, + 59.548 + ], + "priority": 36, + "parents": [ + 193764 + ], + "children": [], + "area": 8284597.699814, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6. Gamut of the 4 natural scenes\nunder the adapting illuminant." + }, + { + "id": 193779, + "strid": "119282d2-7788-4fdd-8167-4ad907fcabc0", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3986.787, + 1947.291, + 281.43799999999965, + 39.577 + ], + "priority": 37, + "parents": [ + 193783 + ], + "children": [], + "area": 7763434.444017, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193780, + "strid": "60e01e95-5867-48ca-bec2-b0abd9f82c68", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 5214.154, + 1948.332, + 113.22299999999996, + 37.85400000000004 + ], + "priority": 38, + "parents": [ + 193783 + ], + "children": [], + "area": 10158903.091128001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193765, + "strid": "bdf4edf6-2902-47fe-8f5e-1e05ce44255d", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 2, + 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[ + 193783 + ], + "children": [ + 193776 + ], + "area": 6689129.215167, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 193776, + "strid": "b1816b48-a1c8-407e-8381-f00840015767", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1887.779, + 3639.161, + 963.4230000000002, + 221.07200000000012 + ], + "priority": 42, + "parents": [ + 193746 + ], + "children": [], + "area": 6869931.713419, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by the Centro de Fisica of Minho\nUniversity, Braga, Portugal, by FEDER through the COMPETE\nProgram and by the Portuguese Foundation for Science and\nTechnology (FCT) in the framework of the project FCOMP-\n01-0124-FEDER-029564." + }, + { + "id": 193747, + "strid": "7c7a8d2b-ade0-4994-8239-08d5e8017637", + "image_id": 208079, + "image_name": "9332.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3191.492, + 2776.428, 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"segmentation": [] + }, + { + "id": 194830, + "strid": "38cd8a82-1898-4417-a2e6-347e868ef4b6", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 8.378, + 3.11, + 705.682, + 92.833 + ], + "priority": 1, + "parents": [ + 194848 + ], + "children": [], + "area": 26.05558, + "iscrowd": 0, + "segmentation": [], + "text": "EVALUATION OF THE QUALITY OF ASTHMA MANAGEMENT IN\nTHE ADULT EMERGENCY AND TRAUMA CENTRE AT QUEEN\nSOVAN eka Disy een eGR dV 4th" + }, + { + "id": 194831, + "strid": "d566e9b1-dfe0-4cf1-a873-aad794af48d2", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 9.21, + 101.167, + 502.88000000000005, + 33.894000000000005 + ], + "priority": 2, + "parents": [ + 194848 + ], + "children": [], + "area": 931.7480700000001, + "iscrowd": 0, + "segmentation": [], + "text": "EUS ier mute)\nER Ten se rete tena eT ee Chen" + }, + { + "id": 194832, + "strid": "87cc5429-9145-4668-8296-bd5ea7258f5c", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 23.625, + 145.325, + 109.37799999999999, + 23.09899999999999 + ], + "priority": 3, + "parents": [ + 194848 + ], + "children": [ + 194839 + ], + "area": 3433.303125, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 194839, + "strid": "61df9646-d6c5-47e6-ae1e-5c7b8c8554ac", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 22.433, + 170.894, + 250.29500000000002, + 161.95600000000002 + ], + "priority": 4, + "parents": [ + 194832 + ], + "children": [], + "area": 3833.665102, + "iscrowd": 0, + "segmentation": [], + "text": "Evidence-based asthma management\nguidelines in everyday practice achieves\ngood clinical control for patients\npresenting with acute asthma and\nprevent further exacerbations.\n\nWe evaluated the quality of acute\nasthma management in adult patients\npresenting at the largest tertiary\nhospital in Malawi." + }, + { + "id": 194834, + "strid": "345e6bba-a3c9-4d7f-9b89-6af0fa846724", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 22.356, + 350.925, + 43.921, + 17.086000000000013 + ], + "priority": 5, + "parents": [ + 194848 + ], + "children": [ + 194840 + ], + "area": 7845.279300000001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 194840, + "strid": "1257867e-aaf4-4f45-a338-2e141e6b0719", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 21.848, + 374.679, + 246.09699999999998, + 89.77300000000002 + ], + "priority": 6, + "parents": [ + 194834 + ], + "children": [], + "area": 8185.986791999999, + "iscrowd": 0, + "segmentation": [], + "text": "To review the presentation of\nasthmatic patients and determine\nadherence to the departmental asthma\nmanagement protocols that are based\non national treatment guidelines." + }, + { + "id": 194835, + "strid": "8f505035-4ae1-41b6-a46b-c140c04b0cbc", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 23.732, + 482.871, + 130.207, + 21.72800000000001 + ], + "priority": 7, + "parents": [ + 194848 + ], + "children": [ + 194841 + ], + "area": 11459.494572, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 194841, + "strid": "923cf618-5db2-433b-bbc8-455bf357bb23", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 21.228, + 506.961, + 249.13799999999998, + 237.70100000000002 + ], + "priority": 8, + "parents": [ + 194835 + ], + "children": [], + "area": 10761.768108, + "iscrowd": 0, + "segmentation": [], + "text": "3n: Retrospective descriptive\nStudy setting: Short stay ward of the\nAdult Emergency and Trauma Centre\n(AETC) at Queen Elizabeth Central\nHospital\n\nStudy population: Asthmatic patients\nseen from January to April 2015\n\nData Collection: Case Record review of\npertinent history, examination,\ncategorization of the asthmatic\nexacerbation, treatment received,\noutcome and follow up plan.\n\nData Analysis done in STATA" + }, + { + "id": 194836, + "strid": "9ece6578-49eb-44b0-ae9a-678437cbdcdd", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 23.254, + 767.249, + 101.09, + 17.389999999999986 + ], + "priority": 9, + "parents": [ + 194848 + ], + "children": [ + 194842 + ], + "area": 17841.608246, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 194842, + "strid": "558ec067-411c-4945-8409-6df5d48ae43b", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 22.054, + 791.248, + 243.431, + 127.28899999999999 + ], + "priority": 10, + "parents": [ + 194836 + ], + 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17, + "parents": [ + 194848 + ], + "children": [ + 194843 + ], + "area": 20449.707744, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgement:" + }, + { + "id": 194843, + "strid": "d560eeba-c7dd-43af-a0a1-e77c6486e352", + "image_id": 208124, + "image_name": "9417.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.236, + 958.105, + 369.74699999999996, + 14.145999999999958 + ], + "priority": 18, + "parents": [ + 194837 + ], + "children": [], + "area": 148732.38778, + "iscrowd": 0, + "segmentation": [], + "text": "Kenneth K ankhadze , Ivy Yelewa and all AETC staff at QECH" + }, + { + "id": 41490, + "strid": "e9c80eb3-b4ae-412e-8df9-5933a9e0c0f9", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 15.36, + 5.29, + 100.57000000000001, + 268.19 + ], + "priority": -1, + "parents": [], + "children": [ + 41465, + 41459, + 41460, + 41461, + 41462, + 41463, + 41464 + ], + "area": 81.2544, + "iscrowd": 0, + 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Reid*', John Lewis', Alan C. Evans’;\n\n1. McConnell Centre for Brain Imaging, Montreal Neurological Institute, McGill University, Montreal, QC Canada" + }, + { + "id": 41461, + "strid": "69cc3cf2-03f1-47fb-9c67-56d68d595e60", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 405.233, + 599.721, + 582.2080000000001, + 87.00700000000006 + ], + "priority": 3, + "parents": [ + 41490 + ], + "children": [ + 41471, + 41470 + ], + "area": 243026.739993, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 41470, + "strid": "f07a92e5-cb6a-4e17-9ade-fc32724ae840", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 431.459, + 734.65, + 892.912, + 641.2970000000001 + ], + "priority": 4, + "parents": [ + 41461 + ], + "children": [], + "area": 316971.35435, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41471, + "strid": "ca8ac70b-7e50-49cf-8190-8271cc5abc26", + "image_id": 202128, 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"children": [ + 41476, + 41477 + ], + "area": 5007964.61484, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 41476, + "strid": "f201ac8e-0be6-47bd-96a0-90726ade76ea", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2477.69, + 2185.904, + 957.5170000000003, + 965.7580000000003 + ], + "priority": 29, + "parents": [ + 41464 + ], + "children": [], + "area": 5415992.48176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41477, + "strid": "ff4bdfae-170a-4f03-9259-eb36332063f8", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2477.955, + 3175.388, + 952.1440000000002, + 597.027 + ], + "priority": 30, + "parents": [ + 41464 + ], + "children": [], + "area": 7868468.57154, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41465, + "strid": "c03710bb-3c68-471e-9aee-cec793dc09e7", + "image_id": 202128, + "image_name": "118194.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2474.561, + 3862.791, + 494.875, + 174.37199999999984 + ], + "priority": 31, + "parents": [ + 41490 + ], + "children": [], + "area": 9558711.959751, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements\nATR is supported by a CIHR\nPostdoctoral Fellowship" + }, + { + "id": 133413, + "strid": "e4a559e3-85a7-45e3-af7d-837965d7fc4b", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 235.99, + 126.92, + 260.63, + 220.08999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 133393, + 133370, + 133392, + 133394, + 133369, + 133391, + 133390, + 133368, + 133371 + ], + "area": 29951.8508, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133368, + "strid": "42d88765-100b-4091-a2b8-61082a58093f", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 694.406, + 128.126, + 3103.766, + 289.67600000000004 + ], + "priority": 1, + "parents": [ + 133413 + ], + "children": [], + "area": 88971.463156, + "iscrowd": 0, + "segmentation": [], + "text": "Determining a minimum flow regime\nto protect a winter warm-water refuge for manatees" + }, + { + "id": 133369, + "strid": "28607f87-8ca6-4a76-812d-b9c0bb056277", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1292.791, + 421.867, + 1913.519, + 126.73099999999994 + ], + "priority": 2, + "parents": [ + 133413 + ], + "children": [], + "area": 545385.860797, + "iscrowd": 0, + "segmentation": [], + "text": "Casey Harris (charris@sjrwmd.com), Joseph Stewart, Jian Di, and Andrew Sutherland\nSt. Johns River Water Management District, Palatka, FL" + }, + { + "id": 133370, + "strid": "3c041833-5148-41ed-87c6-538c991b4fa1", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 97.261, + 629.793, + 906.777, + 57.750999999999976 + ], + "priority": 3, + "parents": [ + 133413 + ], + "children": [ + 133396 + ], + "area": 61254.296973, + "iscrowd": 0, + "segmentation": [], + "text": "Minimum flows -- Florida state laws" + }, + { + "id": 133396, + "strid": "579549c6-2244-43f5-a1ef-b186b2838873", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.632, + 690.337, + 1264.196, + 543.9389999999999 + ], + "priority": 4, + "parents": [ + 133370 + ], + "children": [], + "area": 68089.318984, + "iscrowd": 0, + "segmentation": [], + "text": "In Florida, water management districts are required to establish “minimum\nflows and levels” (here, minimum flows) for lakes, wetlands, rivers, and\naquifers.\n\nMinimum flows for a given water body are the limits at which further\ngroundwater or surface water withdrawals for human use would be\nsignificantly harmful to the water resources or ecology of the area (Section\n373.042, Florida Statutes).\n\nMinimum flows are expressed as multiple flows defining a minimum\nhydrologic regime, recognizing that water bodies experience variations and\nextremes that contribute to significant functions of the system." + }, + { + "id": 133371, + "strid": "34f09dc8-d9d4-49b2-8f71-3cfae2da53c0", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 97.168, + 1284.799, + 959.859, + 64.56799999999998 + ], + "priority": 5, + "parents": [ + 133413 + ], + "children": [ + 133403, + 133401, + 133400, + 133372, + 133395, + 133374, + 133373, + 133397, + 133404, + 133402, + 133398, + 133375, + 133399 + ], + "area": 124841.34923200001, + "iscrowd": 0, + "segmentation": [], + "text": "Spring Garden Run at De Leon Springs" + }, + { + "id": 133372, + "strid": "48e02844-c5d4-4ed0-a62f-a69d989c2965", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.756, + 1361.605, + 315.84400000000005, + 447.8040000000001 + ], + "priority": 6, + "parents": [ + 133371 + ], + "children": [], + "area": 133105.05838, + "iscrowd": 0, + "segmentation": [], + "text": "De Leon Springs\nvents from the\nupper and lower\nFloridan aquifer at\na nearly-constant\n22°C (72°F) into\n\na large concrete\nswimming pool in\nDe Leon Springs\nState Park." + }, + { + "id": 133398, + "strid": "2849f1aa-dfb0-46d3-bc65-3085bfe8ba54", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 465.981, + 1352.067, + 900.8979999999999, + 507.27600000000007 + ], + "priority": 7, + "parents": [ + 133371 + ], + "children": [], + "area": 630037.532727, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133399, + "strid": "07c1dcb8-b19a-476a-b14c-d306ae37b62c", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 99.046, + 1857.976, + 901.639, + 506.7310000000002 + ], + "priority": 8, + "parents": [ + 133371 + ], + "children": [], + "area": 184025.090896, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133373, + "strid": "7dda7666-c2ec-4e38-83eb-37762a29b90d", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1013.308, + 1897.845, + 350.221, + 362.9950000000001 + ], + "priority": 9, + "parents": [ + 133371 + ], + "children": [], + "area": 1923101.52126, + "iscrowd": 0, + "segmentation": [], + "text": "Water from the\n\npool flows over\n\na constructed\nwaterfall into a wide\nspring run (Spring\nGarden Run) used\nby manatees as a\nwarm-water refuge." + }, + { + "id": 133397, + "strid": "41b9ed17-5333-4ba5-acf4-8859b0be9486", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 965.867, + 2288.691, + 400.17499999999995, + 315.03099999999995 + ], + "priority": 10, + "parents": [ + 133371 + ], + "children": [], + "area": 2210571.110097, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133404, + "strid": "560915bf-782e-495c-bd2b-96cab5074891", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1076.403, + 2608.779, + 291.193, + 49.95400000000018 + ], + "priority": 11, + "parents": [ + 133371 + ], + "children": [], + "area": 2808097.541937, + "iscrowd": 0, + "segmentation": [], + "text": "Above: Same view, 1915\nSource: State Archives of Florida" + }, + { + "id": 133374, + "strid": "233c020c-2ad1-43d4-875b-473f901914c4", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.264, + 2455.835, + 816.181, + 226.17799999999988 + ], + "priority": 12, + "parents": [ + 133371 + ], + "children": [], + "area": 241320.17044, + "iscrowd": 0, + "segmentation": [], + "text": "Manatees are susceptible to cold stress below\n20°C (68°F). Several warm-water sites, including\nSpring Garden Run at De Leon Springs, in the\nSt. Johns River basin provide manatees with a\nnetwork of warm-water refuges for resting and" + }, + { + "id": 133375, + "strid": "d27e4016-bb5b-4ef5-86b6-d81d5b495dc7", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.213, + 2683.242, + 381.88300000000004, + 43.28699999999981 + ], + "priority": 13, + "parents": [ + 133371 + ], + "children": [], + "area": 263529.246546, + "iscrowd": 0, + "segmentation": [], + "text": "foraging during winter." + }, + { + "id": 133403, + "strid": "0731ae77-cdd8-44d3-9caa-bb3b3228d2b4", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 244.776, + 2762.615, + 288.181, + 90.10500000000002 + ], + "priority": 14, + "parents": [ + 133371 + ], + "children": [], + "area": 676221.84924, + "iscrowd": 0, + "segmentation": [], + "text": "Right: A network of\nwarm-water refuges in\nthe St. Johns River basin" + }, + { + "id": 133400, + "strid": "ad98de59-3a1c-4fc7-91d2-9288c8746bf3", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 548.181, + 2710.446, + 817.2469999999998, + 829.335 + ], + "priority": 15, + "parents": [ + 133371 + ], + "children": [], + "area": 1485814.998726, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133401, + "strid": "b78fa07e-7882-4488-8bfc-ca1ec117c28a", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 99.656, + 2901.853, + 701.0720000000001, + 979.9459999999999 + ], + "priority": 16, + "parents": [ + 133371 + ], + "children": [], + "area": 289187.06256800005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133395, + "strid": "5d4d879c-b42f-40bd-ac9b-cf6597d439ce", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 798.316, + 3613.266, + 349.24700000000007, + 115.84999999999991 + ], + "priority": 17, + "parents": [ + 133371 + ], + "children": [], + "area": 2884528.060056, + "iscrowd": 0, + "segmentation": [], + "text": "Left: Manatee carcasses in the\nSt. Johns River basin since\n2005, in cases where mortality\nwas due to cold stress" + }, + { + "id": 133402, + "strid": "42af5c99-cc84-4012-b3f3-2539195b65a8", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 800.679, + 3759.939, + 326.08900000000006, + 45.090000000000146 + ], + "priority": 18, + "parents": [ + 133371 + ], + "children": [], + "area": 3010504.198581, + "iscrowd": 0, + "segmentation": [], + "text": "Data source: Florida Fish and Wildlife\nConservation Commission" + }, + { + "id": 133394, + "strid": "b9011b14-de39-422d-897f-3c0886519b7f", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 96.165, + 3897.156, + 720.64, + 61.22699999999986 + ], + "priority": 19, + "parents": [ + 133413 + ], + "children": [ + 133376 + ], + "area": 374770.00674000004, + "iscrowd": 0, + "segmentation": [], + "text": "Water temperature modeling" + }, + { + "id": 133376, + "strid": "5ce73e6a-465d-477a-91cd-796e120221ae", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.889, + 3958.035, + 1167.304, + 135.683 + ], + "priority": 20, + "parents": [ + 133394 + ], + "children": [], + "area": 379532.018115, + "iscrowd": 0, + "segmentation": [], + "text": "Water temperatures in the spring run were modeled using the\nenvironmental fluid dynamics code (EFDC) to evaluate the sensitivity\nof water temperatures in the spring run to variations in spring flow." + }, + { + "id": 133390, + "strid": "c6129d57-6223-4472-86d9-e979b619d382", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1710.419, + 633.591, + 907.1769999999999, + 60.995000000000005 + ], + "priority": 21, + "parents": [ + 133413 + ], + "children": [ + 133389, + 133388, + 133408, + 133412, + 133410, + 133407, + 133411 + ], + "area": 1083706.0846290002, + "iscrowd": 0, + "segmentation": [], + "text": "Water temperature modeling results" + }, + { + "id": 133388, + "strid": "e2b18bd6-caf6-46f4-82c4-01eb9c758996", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1714.141, + 692.961, + 1254.5430000000001, + 356.2180000000001 + ], + "priority": 22, + "parents": [ + 133390 + ], + "children": [], + "area": 1187832.8615010001, + "iscrowd": 0, + "segmentation": [], + "text": "Model results demonstrated the spring run is sensitive to variations\nin spring flow, and that reductions in flow result in lower winter water\ntemperatures in the spring run.\n\nResults were mapped for one of the coldest days of the model period,\nFebruary 21, 2015. Modeled 5% and 25% reductions in spring flow reduced\ntemperatures in the spring run, including in the two areas where manatees\nare seen most frequently (shown below)." + }, + { + "id": 133412, + "strid": "f7393fbe-eb41-4704-aba8-77986fe927a3", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1799.972, + 1049.575, + 1100.3770000000002, + 851.203 + ], + "priority": 23, + "parents": [ + 133390 + ], + "children": [], + "area": 1889205.6119000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133407, + "strid": "4347ea85-74c7-4eb5-bbdd-2e70bb15092c", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1702.45, + 2084.119, + 672.8370000000002, + 1362.9280000000003 + ], + "priority": 24, + "parents": [ + 133390 + ], + "children": [ + 133405 + ], + "area": 3548108.3915500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133405, + "strid": "ca1f4076-367b-4e8a-827e-6cd7c6e60194", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2043.152, + 1960.211, + 287.25300000000016, + 87.9820000000002 + ], + "priority": 25, + "parents": [ + 133407 + ], + "children": [], + "area": 4005009.025072, + "iscrowd": 0, + "segmentation": [], + "text": "Left side:\nTemperatures near water\ncolumn surface" + }, + { + "id": 133408, + "strid": "e28ec0d9-811e-457e-b4ae-3f9d5d385379", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2425.09, + 2054.503, + 453.759, + 1391.386 + ], + "priority": 26, + "parents": [ + 133390 + ], + "children": [ + 133406 + ], + "area": 4982354.68027, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133406, + "strid": "dec45c56-2c98-4f01-a26f-4731e158765e", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2506.369, + 1960.794, + 287.83500000000004, + 87.9820000000002 + ], + "priority": 27, + "parents": [ + 133408 + ], + "children": [], + "area": 4914473.296986001, + "iscrowd": 0, + "segmentation": [], + "text": "Right side:\nTemperatures near water\ncolumn bottom" + }, + { + "id": 133389, + "strid": "daf1571c-a13a-4b65-89f1-a3936dd8e6fe", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1708.574, + 3479.331, + 1278.386, + 140.27199999999993 + ], + "priority": 28, + "parents": [ + 133390 + ], + "children": [], + "area": 5944694.483994001, + "iscrowd": 0, + "segmentation": [], + "text": "Decreases in water temperatures due to reductions in spring flow may even\nbe more severe than the modeled temperatures shown above, since the\nmodel did not fully capture the low-temperature extremes." + }, + { + "id": 133411, + "strid": "e511d465-e40c-4159-8299-8f1beea9281e", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2039.309, + 3635.315, + 704.7569999999998, + 27.210999999999785 + ], + "priority": 29, + "parents": [ + 133390 + ], + "children": [], + "area": 7413530.597335, + "iscrowd": 0, + "segmentation": [], + "text": "Comparison of modeled and observed temperatures at dock, winter 2014-2015" + }, + { + "id": 133410, + "strid": "7b7b13fa-bb07-4c7a-81a7-b7acb7335e06", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1601.492, + 3685.485, + 1443.3059999999998, + 416.56799999999976 + ], + "priority": 30, + "parents": [ + 133390 + ], + "children": [], + "area": 5902274.74362, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133391, + "strid": "bf4c3f7e-27a1-4f37-8247-fe84e6a2f617", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3331.144, + 629.857, + 828.2149999999997, + 60.099000000000046 + ], + "priority": 31, + "parents": [ + 133413 + ], + "children": [ + 133379 + ], + "area": 2098144.366408, + "iscrowd": 0, + "segmentation": [], + "text": "Minimum flow recommendations" + }, + { + "id": 133379, + "strid": "9bde81cf-424f-481d-9928-5c8dee2eb3a8", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3326.937, + 691.544, + 1278.7399999999998, + 272.5659999999999 + ], + "priority": 32, + "parents": [ + 133391 + ], + "children": [], + "area": 2300723.320728, + "iscrowd": 0, + "segmentation": [], + "text": "The loss of warm-water habitat has been identified by the U.S. Fish and\nWildlife Service and Florida Fish and Wildlife Conservation Commission\n\nas one of the most significant threats to manatee populations. To help\nachieve these agencies’ long-term goals of improving and enhancing warm-\nwater habitat, we recommend protecting existing manatee habitat at De\nLeon Springs by maintaining current water use impacts on spring flow." + }, + { + "id": 133392, + "strid": "798fb13b-34db-4091-b3e9-c19b707ad243", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3330.546, + 1015.964, + 939.3809999999999, + 60.67999999999995 + ], + "priority": 33, + "parents": [ + 133413 + ], + "children": [ + 133384, + 133385, + 133382, + 133383, + 133386, + 133380, + 133381, + 133387 + ], + "area": 3383714.836344, + "iscrowd": 0, + "segmentation": [], + "text": "Calculating the minimum flow regime" + }, + { + "id": 133380, + "strid": "7549a4f3-4d53-4ead-98eb-0018bb3c6c7f", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3331.724, + 1077.293, + 717.223, + 537.326 + ], + "priority": 34, + "parents": [ + 133392 + ], + "children": [], + "area": 3589242.943132, + "iscrowd": 0, + "segmentation": [], + "text": "Flow data for De Leon Springs Is available\nfrom 1964 - present and water use data is\navailable 1950 - present. Total water use\nreached a maximum in the mid-1980s and\nhas since remained relatively stable.\n\nA rainfall/flow model was calibrated using\n1997 - 2016 flow data, considered\nrepresentative of current water use\nimpacts. The model was used along with\nrainfall data to estimate flows back to\n1910 as though current water use impacts" + }, + { + "id": 133381, + "strid": "32a375ef-75be-46cf-8cc9-18d6d9c5ab5e", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3331.238, + 1618.203, + 284.52700000000004, + 79.93000000000006 + ], + "priority": 35, + "parents": [ + 133392 + ], + "children": [], + "area": 5390619.325313999, + "iscrowd": 0, + "segmentation": [], + "text": "were present the\nwhole time." + }, + { + "id": 133382, + "strid": "5ba6627e-3639-45a2-bdda-86264534cc13", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4061.533, + 1078.992, + 532.9690000000005, + 517.3700000000001 + ], + "priority": 36, + "parents": [ + 133392 + ], + "children": [], + "area": 4382361.614736, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133383, + "strid": "2dc4df8d-f5af-41f6-a4c4-b01c4ee6e832", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3626.348, + 1626.393, + 677.2619999999997, + 482.5149999999999 + ], + "priority": 37, + "parents": [ + 133392 + ], + "children": [], + "area": 5897867.002764, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133385, + "strid": "2890ac7f-4f6e-4a30-8f9d-9dd55278442b", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3533.911, + 2129.287, + 922.9570000000003, + 32.65599999999995 + ], + "priority": 38, + "parents": [ + 133392 + ], + "children": [], + "area": 7524710.751456999, + "iscrowd": 0, + "segmentation": [], + "text": "Model-estimated (black) and observed (blue) spring flow from 1910 - 2016" + }, + { + "id": 133384, + "strid": "772f1f48-f576-47ee-b5ca-a1d5d95c5e63", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3411.06, + 2163.079, + 1117.904, + 588.5039999999999 + ], + "priority": 39, + "parents": [ + 133392 + ], + "children": [], + "area": 7378392.253740001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133386, + "strid": "1554d2b7-f37b-4eb7-bd04-94a8c33fde13", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3328.248, + 2782.314, + 1259.364, + 183.8760000000002 + ], + "priority": 40, + "parents": [ + 133392 + ], + "children": [], + "area": 9260231.005872, + "iscrowd": 0, + "segmentation": [], + "text": "The estimated flows from 1910 - 2016 were used to calculate the\nrecommended minimum flows, including the long-term mean and 10th,\n\n50th, and 90th percentiles of monthly mean flows to ensure variations and\nextremes of spring flow:" + }, + { + "id": 133387, + "strid": "89706b57-6474-4c6b-b89a-60d0a3987034", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3330.944, + 3008.711, + 1250.2490000000003, + 184.64699999999993 + ], + "priority": 41, + "parents": [ + 133392 + ], + "children": [], + "area": 10021847.853184, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 133393, + "strid": "063b93ff-06a5-476a-b4df-3a23f526a419", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3330.157, + 3241.459, + 430.9670000000001, + 55.690000000000055 + ], + "priority": 42, + "parents": [ + 133413 + ], + "children": [ + 133409, + 133378, + 133377 + ], + "area": 10794567.379062999, + "iscrowd": 0, + "segmentation": [], + "text": "Future directions" + }, + { + "id": 133377, + "strid": "34b0369e-cade-4fd9-9e5c-86874dcfe335", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3326.97, + 3298.012, + 1273.2959999999998, + 269.4810000000002 + ], + "priority": 43, + "parents": [ + 133393 + ], + "children": [], + "area": 10972386.98364, + "iscrowd": 0, + "segmentation": [], + "text": "Based on the rainfall/flow model, current water use impacts at De Leon\nSprings cause a 10.4% average reduction in spring flow compared to less-\nsevere 1965 - 1977 water use impacts. Maintaining current water use\nimpacts should at least maintain existing manatee habitat, which will allow\nfor further improvement and enhancement of manatee habitat by other\nmeans." + }, + { + "id": 133378, + "strid": "fc9b9706-c44d-4d9d-95eb-7c8687f52f97", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3326.97, + 3611.284, + 439.59000000000015, + 405.9050000000002 + ], + "priority": 44, + "parents": [ + 133393 + ], + "children": [], + "area": 12014633.52948, + "iscrowd": 0, + "segmentation": [], + "text": "This minimum flow\nregime will be used to set\nlong-term limits on local\nand regional water use,\nand similar methods for\ndetermining minimum\nflows may be applied to\nother springs used by\nmanatees." + }, + { + "id": 133409, + "strid": "79232a05-4303-436b-9df1-3f53fbcc3ab2", + "image_id": 205677, + "image_name": "15572.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3771.689, + 3579.814, + 827.7959999999998, + 522.1129999999998 + ], + "priority": 45, + "parents": [ + 133393 + ], + "children": [], + "area": 13501945.085846, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152242, + "strid": "4bc7962d-359c-4138-a177-262fc7922a3f", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 445.29, + 70.75, + 75.30000000000001, + 127.41999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 152223, + 152222, + 152226, + 152225, + 152224 + ], + "area": 31504.2675, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152222, + "strid": "a77b9ea6-2b0f-4420-879d-6de9e317edd7", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 616.414, + 128.971, + 2905.911, + 228.837 + ], + "priority": 1, + "parents": [ + 152242 + ], + "children": [], + "area": 79499.529994, + "iscrowd": 0, + "segmentation": [], + "text": "Single cell-level analysis of responses to cancer immunotherapy\nusing a syngeneic murine model of lung cancer" + }, + { + "id": 152223, + "strid": "b02a4d9f-4b86-4fb6-8354-b82aa1cecfaa", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 924.515, + 384.677, + 2286.127, + 212.71500000000003 + ], + "priority": 2, + "parents": [ + 152242 + ], + "children": [], + "area": 355639.656655, + "iscrowd": 0, + "segmentation": [], + "text": "Subin Cho’, Gyu jin Lee?, Jaesang Kim2*, Sanghyuk Lee™\n\n'EWHA Research Center for Systems Biology (ERCSB), Department of Bio-Information Science, Ewha Womans University, Seoul 03760, Rep. of Korea\n2Ewha-JAX International Research Center for Cancer, Department of Life Science, Ewha Womans University, Seoul 03760, Rep. of Korea\nCorresponding author: sanghyuk@ewha.ac.kr, jkim1964@ewha.ac.kr" + }, + { + "id": 152224, + "strid": "731e69fb-2d8d-4869-8a65-9f068b6c9c9d", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 200.522, + 607.361, + 242.502, + 52.68100000000004 + ], + "priority": 3, + "parents": [ + 152242 + ], + "children": [ + 152227 + ], + "area": 121789.24244199999, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 152227, + "strid": "568d6036-01f3-4213-b49b-4bcf5d3721b0", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.366, + 699.037, + 3865.007, + 280.289 + ], + "priority": 4, + "parents": [ + 152224 + ], + "children": [], + "area": 90431.62054200002, + "iscrowd": 0, + "segmentation": [], + "text": "Immunotherapy is currently the most promising treatment modality for various types of cancers. It has been demonstrated that targeting immune checkpoints with PD-1 or CTLA-4 blockade (ICB) can lead to long-term survival or complete remission\nfrom cancers. However, immunotherapy is limited in efficacy as only a minority of patients benefit from such therapies. Clearly, closer scrutiny of responses from various cells found in tumor tissues during immunotherapy would significantly enhance\nour understanding of the interactions within the tumor microenvironment (TME) and possibly point to novel targets. Here, we report a longitudinal study using a Lewis lung carcinoma (LLC) syngeneic mouse model and anti-PD-1 antibody treatment.\nSpecifically, we performed single-cell RNA seq using tumor tissues isolated from multiple time points and attempted to reconstruct potentially significant cellular interactions in response to the immunotherapy. Interestingly, natural killer (NK) cells, in\nparticular, showed activation by anti-PD-1 antibody treatment and expressed elevated levels of Xcl-1, which has been implicated in recruiting conventional dendritic cells (cDCs). We present results from gene expression analysis suggesting enhanced\nantigen-presenting by cDCs and strategies for demonstrating the functionalities of altered cellular responses to immunotherapy." + }, + { + "id": 152225, + "strid": "bec1689b-c9bf-4ea1-8f3d-9652e6fbc88e", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 216.693, + 1031.509, + 210.78, + 51.636999999999944 + ], + "priority": 5, + "parents": [ + 152242 + ], + "children": [ + 152228, + 152231, + 152235, + 152232, + 152230, + 152233, + 152239, + 152236, + 152238, + 152240, + 152229, + 152234 + ], + "area": 223520.779737, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 152231, + "strid": "fb300695-abcf-4516-86b1-5b7ba7608a3f", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.398, + 1128.607, + 1802.118, + 55.9380000000001 + ], + "priority": 6, + "parents": [ + 152225 + ], + "children": [], + "area": 140396.453586, + "iscrowd": 0, + "segmentation": [], + "text": "Longitudinal study design using Lewis Lung Carcinoma syngeneic mouse model" + }, + { + "id": 152228, + "strid": "2f0fb7f6-c56f-454e-aac1-0797be154b13", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 95.826, + 1218.186, + 1960.786, + 635.52 + ], + "priority": 7, + "parents": [ + 152225 + ], + "children": [], + "area": 116733.89163599999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152232, + "strid": "9a3b6442-565a-4e4e-b59c-ae4ec6026fa1", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.644, + 1908.969, + 1892.504, + 166.70499999999993 + ], + "priority": 8, + "parents": [ + 152225 + ], + "children": [], + "area": 247486.37703600002, + "iscrowd": 0, + "segmentation": [], + "text": "(A) Outline of the longitudinal study. The top black arrow indicates the flow of days, and the day of LLC injection was set\nas day 0. On days marked with yellow boxes, pembrolizumab was administered, and control mice were simultaneously\nadministered with Ig. (B) Average tumor growth curve of the Ig-treated group and the anti-PD1-treated group. Statistically\nsignificant cases are marked with **** (p < 10 in two-way ANOVA test)." + }, + { + "id": 152234, + "strid": "7e40abca-25f2-40bd-b986-408bced9ce23", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.023, + 2110.422, + 1147.204, + 58.98700000000008 + ], + "priority": 9, + "parents": [ + 152225 + ], + "children": [], + "area": 259630.445706, + "iscrowd": 0, + "segmentation": [], + "text": "T cells were activated in response to anti-PD1" + }, + { + "id": 152235, + "strid": "7cca18eb-ea9b-40ec-a4bf-7721339caa0f", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 95.457, + 2184.814, + 1919.0700000000002, + 739.2130000000002 + ], + "priority": 10, + "parents": [ + 152225 + ], + "children": [], + "area": 208555.78999799996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152236, + "strid": "8610bd7c-9871-4fdc-b109-0be17b78556b", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.586, + 2962.227, + 1894.283, + 163.13500000000022 + ], + "priority": 11, + "parents": [ + 152225 + ], + "children": [], + "area": 383863.14802200004, + "iscrowd": 0, + "segmentation": [], + "text": "(A) UMAP plot of 124,786 cells in total, annotated into nine major cell types. (B) The T and NK clusters (2,123 cells) were\ndivided into four subgroups, representing CD8T, CD4T, and NK cells. (C) Differential display of //2rb expression (Ig vs. anti-\nPD1 treatment samples) by day in CD8T and CD4T cells. II2rb was used as a marker for T cell activation, differentiating\nCD8+ and CD4+ T cells into effector cells." + }, + { + "id": 152238, + "strid": "3d34bbf0-3910-4990-a728-28d4cbd134ee", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.807, + 3161.522, + 1779.145, + 63.248999999999796 + ], + "priority": 12, + "parents": [ + 152225 + ], + "children": [], + "area": 394580.076254, + "iscrowd": 0, + "segmentation": [], + "text": "NK cell activation and Xcl1 overexpression in anti-PD1 treated samples" + }, + { + "id": 152239, + "strid": "d7e881e4-3a80-4039-baee-a0d2d5adcc79", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 142.157, + 3246.59, + 1882.316, + 603.7629999999999 + ], + "priority": 13, + "parents": [ + 152225 + ], + "children": [], + "area": 461525.49463000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152240, + "strid": "084cb724-57f4-45eb-8228-18e1e927958e", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.31, + 3859.797, + 1891.489, + 166.46399999999994 + ], + "priority": 14, + "parents": [ + 152225 + ], + "children": [], + "area": 510689.74107, + "iscrowd": 0, + "segmentation": [], + "text": "(A) Violin plot shows that Prf1 and Xcl1 are overexpressed on anti-PD1 treatment in NK populations. (B) Cell-cell\ninteraction results predicted by CellPhoneDB. Xcl1 expression in NK cells are strongly correlated with Xcr1 expression in\ncDC1 cells. The size of the dot is proportional to the significance, and the color of the dot indicates the mean expression\nof the receptor-ligand complex." + }, + { + "id": 152230, + "strid": "9b0f33cf-873a-4b15-9524-23cd7b422b41", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2107.118, + 1127.797, + 1507.9879999999998, + 58.03500000000008 + ], + "priority": 15, + "parents": [ + 152225 + ], + "children": [], + "area": 2376401.359046, + "iscrowd": 0, + "segmentation": [], + "text": "DCs, recruited by NK cells, overexpressed prosaposin (Psap)" + }, + { + "id": 152229, + "strid": "152bc171-7205-4d19-ada8-8541f1776dcc", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2113.032, + 1217.504, + 1909.83, + 992.8009999999999 + ], + "priority": 16, + "parents": [ + 152225 + ], + "children": [], + "area": 2572624.912128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152233, + "strid": "dc1dca44-5062-4ad3-95d3-22c6005d2116", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2103.86, + 2247.102, + 1889.864, + 210.29199999999992 + ], + "priority": 17, + "parents": [ + 152225 + ], + "children": [], + "area": 4727588.01372, + "iscrowd": 0, + "segmentation": [], + "text": "(A) UMAP colored with the annotated DC subtypes. (B) A bar plot showing the proportions of dendritic cell types for each\nsample. The ratio of cDC1 increased substantially on anti-PD1 treatment at the initial days (D12 and D15). Colors for cell\ntypes are consistent with Fig. (A). (C) Expression of known marker genes for each DC subtype. (D) Violin plot shows\noverexpression of Psap on anti-PD1 treatment in cDC1 cells. Psap is an essential molecule for processing apoptotic body\nand presenting lipid antigens in DCs." + }, + { + "id": 152226, + "strid": "48abda0f-f0aa-4fb0-833b-87cd73808ef6", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2152.482, + 2548.528, + 314.672, + 53.3159999999998 + ], + "priority": 18, + "parents": [ + 152242 + ], + "children": [ + 152237, + 152241 + ], + "area": 5485660.646496, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 152237, + "strid": "3730042a-2be1-44f3-97fc-4271512a6ab9", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2165.381, + 2695.142, + 1760.1370000000002, + 1014.3360000000002 + ], + "priority": 19, + "parents": [ + 152226 + ], + "children": [], + "area": 5836009.2791019995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152241, + "strid": "651a0d99-b4b8-4ab8-8cf1-9ccb59474d06", + "image_id": 206426, + "image_name": "21404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2099.914, + 3779.852, + 1894.004, + 196.67700000000013 + ], + "priority": 20, + "parents": [ + 152226 + ], + "children": [], + "area": 7937364.132728, + "iscrowd": 0, + "segmentation": [], + "text": "Summary overview of immune cell responses to anti-PD1 treatment.\n\nFrom the differentially expressed genes analysis of single-cell transcriptome data, we showed that T cells and NK were\nactivated on ICB treatment. Specifically, NK cells overexpressed Xcl1 and recruited cDC1. We hypothesize that the antigen-\npresenting ability of DC was enhanced via increased Psap expression. Validation experiments are currently in progress." + }, + { + "id": 77939, + "strid": "fbe0c255-59cf-41cc-a6b2-a18698e60dc8", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 542.23, + 202.8, + 287.17999999999995, + 325.98999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 77925, + 77927, + 77932, + 77938, + 77929, + 77923, + 77933, + 77924, + 77935 + ], + "area": 109964.244, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 77923, + "strid": "a6f01d66-5d8b-4cfa-bc56-321a90c8a8fd", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1147.462, + 223.966, + 1970.498, + 363.644 + ], + "priority": 1, + "parents": [ + 77939 + ], + "children": [], + "area": 256992.474292, + "iscrowd": 0, + "segmentation": [], + "text": "QF Multiplexed protein\nMRM assay panel for high throughput\n\ntoxicological assessment in rat liver samples" + }, + { + "id": 77924, + "strid": "307cbdc0-af5e-4228-949e-5a1fdb1e0d42", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1058.823, + 646.703, + 2054.5909999999994, + 313.64300000000003 + ], + "priority": 2, + "parents": [ + 77939 + ], + "children": [], + "area": 684744.010569, + "iscrowd": 0, + "segmentation": [], + "text": "Reto Ossola', Jasmin van,den Heuvel', Claudia Escher', Roland Bruderer'2,\nSasa M. Miladinevic'*, Lukas Reiter’, Oliver Rinner'y Yulia Butscheid'\n\n'‘Biognosys AG, Zurich, Switzerland, www.biognosys.ch\n?Institute of Molecular Systems Biology,ETH Zurich, Zurich, Switzerland" + }, + { + "id": 77925, + "strid": "d82e2a60-e934-4092-b1f3-d884a0c39420", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 475.371, + 1227.094, + 302.74, + 44.15000000000009 + ], + "priority": 3, + "parents": [ + 77939 + ], + "children": [ + 77926 + ], + "area": 583324.901874, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 77926, + "strid": "40954030-ad09-4ede-895f-06d7f9ceb987", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 180.185, + 1283.945, + 827.863, + 1431.5759999999998 + ], + "priority": 4, + "parents": [ + 77925 + ], + "children": [], + "area": 231347.62982499998, + "iscrowd": 0, + "segmentation": [], + "text": "Early prediction — of\ndrug toxicity remains\nchallenging in pre-clinical\ntoxicological studies. Espe*\ncially on the protein level thére\nis a lack of methods enabling\ndiscovery and_ validation of\npredictive biomarkers ‘signatures\nin animal or cell-based models\nexposed to toxi@ insults. Multiple\nreaction monitOring (MRM), a mass-\nspectromethc, \"approach, enables\nmonitoring-of up to 100 proteins\nin a sirtgle measurement with high\nspecificity and accuracy if optimal\nassays are available.\n\n \n \n \n\nOur research was aiming for\ndevelopment = and validation\nof a MRM assay panel covering\n100 proteins for toxicity niarker\nidentification and early toxicologi-\ncal assessment in rat liver Samples." + }, + { + "id": 77927, + "strid": "5c0faf10-ecf0-4fdb-bbba-9bed990c4875", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 207.328, + 2769.338, + 212.734, + 42.547000000000025 + ], + "priority": 5, + "parents": [ + 77939 + ], + "children": [ + 77928 + ], + "area": 574161.308864, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 77928, + "strid": "2cb3c9a7-f031-4e8b-aab2-c53fe6990279", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 192.098, + 2819.162, + 820.0350000000001, + 1250.2649999999999 + ], + "priority": 6, + "parents": [ + 77927 + ], + "children": [], + "area": 541555.381876, + "iscrowd": 0, + "segmentation": [], + "text": "Fresh-frozen livertissue from 3 male\nWistar rats Was homogenized and\nlysed in.urea/detergent-based lysis\nbuffer. The lysate was digested with\ntrypsin and peptides were cleaned\nwith”C18. Biognosys’ iRT-peptides\nwere spiked in prior to injection.\nSeveral HRM-MS™ (Hyper Reaction\nMonitoring) and unscheduled MRM\nruns were performed to select the\nmost responsive peptide foreach\nprotein. Finally, a single labelfree\nscheduled LC-MRM method with\na 30 minutes gradient was set\nup for the protein quantification.\n3 consecutiverNinjections were\nperformed sfory LC-MS variability\nevaluationNURM data was analyzed\nwith Biognosys’ proprietary\nSpectFoDive™ software." + }, + { + "id": 77929, + "strid": "ac144217-0d72-45b2-a22f-57e1b9cf0838", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 208.529, + 4124.961, + 262.024, + 42.60599999999977 + ], + "priority": 7, + "parents": [ + 77939 + ], + "children": [ + 77930 + ], + "area": 860173.992369, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 77930, + "strid": "661cdd52-7568-4574-b4e0-efbb0d6b2d98", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 199.772, + 4178.021, + 799.8410000000001, + 310.66600000000017 + ], + "priority": 8, + "parents": [ + 77929 + ], + "children": [], + "area": 834651.6112119999, + "iscrowd": 0, + "segmentation": [], + "text": "The developed label-free MRM\nassay panel is suitable for fast pre-\nclinical toxicological evaluation\nand validation of new toxicity/bio-\nmarker signatures." + }, + { + "id": 77932, + "strid": "49f68d9e-ffd8-4175-a703-8e93be61c9d8", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1177.127, + 1293.454, + 973.3470000000002, + 701.578 + ], + "priority": 9, + "parents": [ + 77939 + ], + "children": [ + 77931 + ], + "area": 1522559.6266579998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 77931, + "strid": "b5d606e1-8766-4e4c-b891-a0fcbc5cd142", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1175.09, + 1223.078, + 889.9469999999999, + 55.62200000000007 + ], + "priority": 10, + "parents": [ + 77932 + ], + "children": [], + "area": 1437226.7270199999, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. MRM assay panel specifications" + }, + { + "id": 77933, + "strid": "60bf1605-dee1-4fe1-a2cf-bc55a0eae997", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2174.106, + 1194.495, + 963.0080000000003, + 607.05 + ], + "priority": 11, + "parents": [ + 77939 + ], + "children": [ + 77934 + ], + "area": 2596958.74647, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 77934, + "strid": "f6bd4af9-5d63-4f61-a4cc-37051d3ccf90", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2166.314, + 1828.936, + 967.201, + 171.68700000000013 + ], + "priority": 12, + "parents": [ + 77933 + ], + "children": [], + "area": 3962049.6619039997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Variability (%CV) distribution of\nsingle proteinassays includedinto the panel.\n92 assays show %CV below 15%." + }, + { + "id": 77935, + "strid": "26789778-64c3-4fe8-8915-484740d4be25", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1165.804, + 2008.999, + 1920.0460000000003, + 735.9840000000002 + ], + "priority": 13, + "parents": [ + 77939 + ], + "children": [ + 77936 + ], + "area": 2342099.0701960004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 77936, + "strid": "b424f194-7597-4758-bad7-1f2466097c02", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1173.496, + 2749.756, + 1959.3689999999997, + 116.89899999999989 + ], + "priority": 14, + "parents": [ + 77935 + ], + "children": [], + "area": 3226827.666976, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Assay ionseurrents of a typical panel run. Signal intensities indicate the abun-\ndance of the corresponding proteins." + }, + { + "id": 77938, + "strid": "a55dcd87-f962-4fd9-9ea2-5612da9fe022", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1162.516, + 2951.213, + 1969.134, + 1485.4870000000005 + ], + "priority": 15, + "parents": [ + 77939 + ], + "children": [ + 77937 + ], + "area": 3430832.3319080006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 77937, + "strid": "6390d1d2-02a7-4b4b-972c-ac94e0b806f0", + "image_id": 203540, + "image_name": "120439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1171.731, + 2886.273, + 1450.8680000000002, + 61.365999999999985 + ], + "priority": 16, + "parents": [ + 77938 + ], + "children": [], + "area": 3381935.5485630003, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2. List of’selected proteins included into MRMassay panel*" + }, + { + "id": 126953, + "strid": "63686025-2667-48be-972f-e36db75bf437", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 155.43, + 391.03, + 177.39999999999998, + 340.03 + ], + "priority": -1, + "parents": [], + "children": [ + 126949, + 126944, + 126943, + 126941, + 126939, + 126940, + 126942 + ], + "area": 60777.7929, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126939, + "strid": "6c95a05a-04e4-4634-ae3c-0b7d82374c1f", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 364.81, + 213.126, + 2779.21, + 221.40899999999996 + ], + "priority": 1, + "parents": [ + 126953 + ], + "children": [], + "area": 77750.49606, + "iscrowd": 0, + "segmentation": [], + "text": "NORMAL MRI IN PATIENTS WITH ACUTE STROKE IS THE BEST\nPREDICTOR OF 90-DAY OUTCOME" + }, + { + "id": 126940, + "strid": "391f0e5d-fac3-474c-9ebf-75c7db9b4410", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 320.528, + 464.056, + 2821.383, + 284.6689999999999 + ], + "priority": 2, + "parents": [ + 126953 + ], + "children": [], + "area": 148742.941568, + "iscrowd": 0, + "segmentation": [], + "text": "Zain A. Bhutta, MD?; Naveed Akhtar, MD?; Saadat Kamran, MD2, Pooja George, MD?; Dirk Deleu, MD?; Stephen H.\nThomas, MD}; Ashfaq Shuaib, MD?\n\n1 Department of Emergency Medicine, Hamad Medical Corporation, Doha, Qatar; * Department of Neurology, Hamad Medical\nCorporation, Doha, Qatar; ? Department of Medicine, University of Alberta, Canada; * University of London, United Kingdom" + }, + { + "id": 126941, + "strid": "08b48b94-9dcb-4ae9-8eb9-6086bc9e1609", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 208.251, + 1049.825, + 398.221, + 44.452999999999975 + ], + "priority": 3, + "parents": [ + 126953 + ], + "children": [ + 126945 + ], + "area": 218627.10607500002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 126945, + "strid": "c29cc202-90e1-4199-bdbe-a9a15bdb6fbc", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 207.09, + 1123.935, + 1439.939, + 424.1680000000001 + ], + "priority": 4, + "parents": [ + 126941 + ], + "children": [], + "area": 232755.69915, + "iscrowd": 0, + "segmentation": [], + "text": "Patients presenting with symptoms of an acute focal\nneurologic deficits have multiple underlying etiologies\nwhere MR imaging may be useful for confirmation the\npotential cause. The aim of our study was to evaluate the\nusefulness of MRI in patients presenting with a suspected\ndiagnosis of acute stroke." + }, + { + "id": 126942, + "strid": "9afd2bae-6b3c-4a28-8f3e-33daf1d8d00d", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 206.204, + 1638.328, + 262.115, + 46.322000000000116 + ], + "priority": 5, + "parents": [ + 126953 + ], + "children": [ + 126946 + ], + "area": 337829.786912, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 126946, + "strid": "2d97db01-dc07-4243-8c1a-c273c3a057eb", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 205.695, + 1708.561, + 1442.73, + 574.8590000000002 + ], + "priority": 6, + "parents": [ + 126942 + ], + "children": [], + "area": 351442.454895, + "iscrowd": 0, + "segmentation": [], + "text": "We admitted 4400 patients with the diagnosis of acute\nstroke between Jan 2014 and June 2017 at Hamad\nMedical Corporation. A total of 2880 patients underwent\n3T MRI within 48 hours of admission. Patients were\nassessed for demographics, risk factors, clinical features,\nseverity of stroke and outcome. Multivariate regression\nanalysis done to find out predictors of abnormal MRI and\n90-day prognosis." + }, + { + "id": 126943, + "strid": "1b30f55d-0454-4931-9883-4e861717e043", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 208.47, + 2372.997, + 211.58700000000002, + 43.460999999999785 + ], + "priority": 7, + "parents": [ + 126953 + ], + "children": [ + 126950, + 126947, + 126951, + 126952 + ], + "area": 494698.68458999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 126947, + "strid": "40615c39-c03b-42aa-927f-af776e4d0a24", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 203.369, + 2440.158, + 1451.101, + 1458.078 + ], + "priority": 8, + "parents": [ + 126943 + ], + "children": [], + "area": 496252.492302, + "iscrowd": 0, + "segmentation": [], + "text": "Mean age was 55.9 (+13.2) and 83.3% were male\n(1570/1885). Ischemic stroke was diagnosed in 65.4%\n(1885/2880) including lacunar strokes 44.1% (831),\ncortical strokes 26.6% (502), and posterior circulation\nstroke 29.3% (552). Normal MRI was found in 5.4%\n(n=101) in patients with confirmed ischemic stroke.\nNormal MRI was more frequent in lacunar strokes\ncompared to posterior circulation or cortical strokes\n(62.4%, 24.8% and 12.9%, p<0.0001). Abnormal MRI was\nsignificantly higher patients with diabetes (55.5% vs\n43.6%, p=0.019), dyslipidemia (54.9% vs 43.6%, p= 0.026),\nhigher systolic blood pressure at arrival\n\n(157.8 vs151.7 mmHg, p=0.047), higher admitting NIHSS\n(5.21 vs 3.43, p<0.0001), higher Hbaic on (7.5% vs 6.9%,\np=0.021) and higher serum cholesterol (5.06 vs 4.62,\np=0.002). Patients with normal MRI were found to have\nbetter 90-day prognosis (mRS O-2) as compared to\npatients with abnormal MRI on admission (68.3% vs\n53.0%, p=0.003). On multivariate analysis, after adjusting\nfor age and other factors, NIHSS (p=0.011, OR=1.096" + }, + { + "id": 126952, + "strid": "bb88d246-5e4e-4f5c-abe1-f3126f8d0174", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1767.703, + 1041.333, + 1380.96, + 992.3330000000001 + ], + "priority": 9, + "parents": [ + 126943 + ], + "children": [], + "area": 1840767.4680990002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126951, + "strid": "f4127e83-b9f5-474f-8c09-ab3e3b4e3501", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1764.223, + 2105.813, + 1397.4859999999999, + 736.0230000000001 + ], + "priority": 10, + "parents": [ + 126943 + ], + "children": [], + "area": 3715123.7282990003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126950, + "strid": "49e7a797-a009-4708-be0f-09e1c804fde2", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1766.134, + 2916.146, + 1383.2219999999998, + 210.1880000000001 + ], + "priority": 11, + "parents": [ + 126943 + ], + "children": [], + "area": 5150304.599564, + "iscrowd": 0, + "segmentation": [], + "text": "[Cl 1.021-1.176]) and higher serum cholesterol levels\n(p0.015, OR 1.340 [CI 1.059-1.696]) were associated\nwith higher frequency of abnormal MRI." + }, + { + "id": 126944, + "strid": "d1079877-b2f6-4706-8aa4-495987ca1a32", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1766.211, + 3213.457, + 335.76, + 46.3119999999999 + ], + "priority": 12, + "parents": [ + 126953 + ], + "children": [ + 126948 + ], + "area": 5675643.101427, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 126948, + "strid": "3924e4cf-bc7e-4b1e-ac1c-a4dae8fc9968", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1764.433, + 3284.973, + 1386.984, + 280.71900000000005 + ], + "priority": 13, + "parents": [ + 126944 + ], + "children": [], + "area": 5796114.765308999, + "iscrowd": 0, + "segmentation": [], + "text": "After excluding mimics and TIAs, 5.4 % of patients with\nacute ischemic stroke have normal MRI. These patients\nhave lower NIHSS, are more likely to have lacunar\nstroke and have a significantly better prognosis." + }, + { + "id": 126949, + "strid": "615f1af0-f025-449a-8ef7-204e2563db82", + "image_id": 205446, + "image_name": "15142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1757.789, + 3667.016, + 1380.34, + 247.49800000000005 + ], + "priority": 14, + "parents": [ + 126953 + ], + "children": [], + "area": 6445840.387624, + "iscrowd": 0, + "segmentation": [], + "text": "Author Disclosure Information:\n\nZ.A. Bhutta: None, N. Akhtar: None, S. Kamran: None, P.\nGeorge: None, D. Deleu: None, S. H. Thomas: None, A.\nShuaib: None." + }, + { + "id": 66565, + "strid": "ed6b8d1a-1e91-4b9a-80be-5f577c5fd44e", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2805.75, + 2.75, + 155.76999999999998, + 193.02 + ], + "priority": -1, + "parents": [], + "children": [ + 66546, + 66544, + 66540, + 66539, + 66545, + 66541, + 66542, + 66543 + ], + "area": 7715.8125, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66539, + "strid": "f6853765-d64d-4f37-b50c-60a1e8fde9fc", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 51.45, + 13.352, + 2734.061, + 202.007 + ], + "priority": 1, + "parents": [ + 66565 + ], + "children": [], + "area": 686.9604, + "iscrowd": 0, + "segmentation": [], + "text": "Perception of Illusory Motion in the Rotating Snake py the Aged:\nPupil Size and Retinal Illumination" + }, + { + "id": 66540, + "strid": "4dacc269-1a0e-4659-b662-654fe8576cfd", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 248.887, + 221.239, + 1025.299, + 30.062999999999988 + ], + "priority": 2, + "parents": [ + 66565 + ], + "children": [], + "area": 55063.510993, + "iscrowd": 0, + "segmentation": [], + "text": "Cisarik, PM and Fickett, G | Southern College of Optometry, Memphis, Tennessee" + }, + { + "id": 66541, + "strid": "d6aabdaa-a39c-40c4-b3ea-d711db99a48e", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 49.282, + 298.351, + 556.297, + 55.90699999999998 + ], + "priority": 3, + "parents": [ + 66565 + ], + "children": [ + 66547 + ], + "area": 14703.333981999998, + "iscrowd": 0, + "segmentation": [], + "text": "Introductior?/ Purpose" + }, + { + "id": 66547, + "strid": "85874d32-c01b-4cf2-a807-07c2ad2613a3", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.097, + 366.694, + 815.298, + 823.681 + ], + "priority": 4, + "parents": [ + 66541 + ], + "children": [], + "area": 18003.575318000003, + "iscrowd": 0, + "segmentation": [], + "text": "The normal ageprelated decline of visual functions can be used a:\n\n \n\ndiagnostic referent pathology as well as a guide for creating rehal ive\nor compen fata to help the elderly continue to work and eOertan\nindependepce™Not all visual functions begin to decline at the si ge, and\nchange: erally are gradual over time.' Impaired performanc: y be due to\nalte! PS of structures anywhere along the visual pathway; thus Consideration of\n\n“Ci the optical and neural components contribute t given visual function\nScent for identifying the source of the ow formance in a given\nindividual.\n\nMore specifically, studies have shown 6 », processes in vision are\nadversely affected with aging. Billino, et *eported that only 23.7% of their 38\n\nsubjects 65+ years of age perceived the ory motion in repeated asymmetric\nstationary patterns.? Neurophysiol data provides evidence that timing\ndifferences in V1 cell responses t inance contrast variations account for the\n\nillusory perception of maton uese patterns; therefore, degeneration of visual\ncortex with age* has ey fested to cause degraded perception of this men\n\nmotion?\nSince srescenl of the eye insufficiently explain the decline of a\ni i ited\n\nvisual ‘nator ie contribution of pre-cortical factors to the\n\ndecline in ill motion perception is presumed to be minimal and hi CX been\ninvesti )Reduced retinal illumination degrades the perce of illusory\nmothe young subjects;> therefore, we initiated a pilot stud Cae ae aged\nars to qualitatively investigate the effects of tra Qrirston on illusory\nion perception in the elderly." + }, + { + "id": 66542, + "strid": "7927cc00-89bd-4200-b0bd-e92859711429", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.781, + 1246.67, + 212.75799999999998, + 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"priority": 10, + "parents": [ + 66558 + ], + "children": [], + "area": 940748.62344, + "iscrowd": 0, + "segmentation": [], + "text": "Figure la" + }, + { + "id": 66564, + "strid": "69e18b8d-dd79-42df-8893-427986efef05", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1366.389, + 536.796, + 390.345, + 293.16100000000006 + ], + "priority": 11, + "parents": [ + 66542 + ], + "children": [ + 66560 + ], + "area": 733472.149644, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66560, + "strid": "47433bf7-93cd-4c56-a520-5adf66f64455", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1531.879, + 841.781, + 57.761999999999944, + 15.716000000000008 + ], + "priority": 12, + "parents": [ + 66564 + ], + "children": [], + "area": 1289506.6364989998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure Ib" + }, + { + "id": 66561, + "strid": "1a0aa703-2d1a-4d82-bbcc-18d2f11b643d", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1161.166, + 862.697, + 380.999, + 15.913000000000011 + ], + "priority": 13, + "parents": [ + 66542 + ], + "children": [], + "area": 1001734.424702, + "iscrowd": 0, + "segmentation": [], + "text": "Color (a) and grayscale (b) stimuli presented to the observers." + }, + { + "id": 66551, + "strid": "a4a33f4f-2ea9-4eeb-8ae0-34f52b8a9c78", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 944.356, + 910.836, + 815.9089999999999, + 748.3689999999999 + ], + "priority": 14, + "parents": [ + 66542 + ], + "children": [], + "area": 860153.441616, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66543, + "strid": "c56862e2-5e19-4dd9-ab3a-d201b65f5ed9", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1841.971, + 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[], + "text": "Figure 2: Comparison of the mean age of subjects who per-\nceived versus those who failed to perceive motion in the\nRotating Snakes stimulus. Data for all subjects and for pseu-\ndophakic subjects only are shown. Mean age differen\n\nsignificant only in the total subjects group." + }, + { + "id": 66557, + "strid": "33943e5b-df90-42d7-8d3c-fbf8bc58fbca", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2270.058, + 366.498, + 384.6109999999999, + 284.772 + ], + "priority": 18, + "parents": [ + 66543 + ], + "children": [ + 66563 + ], + "area": 831971.716884, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66563, + "strid": "9a4f974d-286a-455c-84d7-35c26b0d2e4e", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2266.941, + 663.959, + 388.174, + 77.70000000000005 + ], + "priority": 19, + "parents": [ + 66557 + ], + "children": [], + "area": 1505155.8794189997, + "iscrowd": 0, + "segmentation": [], + "text": "bidure 3: Comparison of the mean pupil size of subjects who\nperceived versus those who failed to perceive motion in the\nRotating Snakes stimulus. Data for all subjects and for pseu-\ndophakic subjects only are shown. Mean pupil size difference\nwas significant for both subject groups." + }, + { + "id": 66552, + "strid": "f76028e5-3810-4d19-8d87-b97eee850bbf", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1874.318, + 779.929, + 783.3239999999998, + 815.7019999999999 + ], + "priority": 20, + "parents": [ + 66543 + ], + "children": [], + "area": 1461834.963422, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66544, + "strid": "0f084e40-6870-44ac-9876-83ab1efd1920", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2737.655, + 302.24, + 255.54300000000012, + 44.476999999999975 + ], + "priority": 21, + "parents": [ + 66565 + ], + "children": [ + 66553 + ], + "area": 827428.8472000001, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 66553, + "strid": "25df54a6-ef3b-43ad-95e5-76182102c7a8", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2735.951, + 366.109, + 814.9760000000001, + 615.4740000000002 + ], + "priority": 22, + "parents": [ + 66544 + ], + "children": [], + "area": 1001656.284659, + "iscrowd": 0, + "segmentation": [], + "text": "Retinal illumination varies directl jth the square of the pupil radius (Retinal\n\nES Area of the pupil). The pupil radius of the\npseudophakic subjects who, sete ived motion in the stimulus was approximately\ndouble that of the pseudophakic subjects who failed to perceive motion, leading to\napproximately 4 time: es units) greater retinal illumination for those suo\nwho perceived, & ed to those who did not perceive, motion in the Rey ig\n\nSnakes stimul\naren in the Rotating Snakes illusion is rated stranger at low\nh\n\nversus Pi minance contrast,’ reduced retinal illumination ady affects the\ntel pitt of suprathreshold spatial stimuli® elimina’ Mnotion reversal\n| BF non for centrally-presented stimuli? and reduc ors modulation\nSehsitivity.° The physical stimulus is static, yet mi i appear to be\ntriggered by a pattern of neural activity generat Aa contrast variations in\nthe stimulus that emulate contrast variations i moving objects.\" Thus, non-\nneural factors that degrade spatial contragt ety, such as reduced retinal\nilluminance,” can be expected to advers: ect perception of illusory motion in\n\nilluminance in Trolands = Lumin,\n\ncontrast-based repeated asymmetrig patterns because the input to the motion\ndetectors is compromised. rn" + }, + { + "id": 66545, + "strid": "6920b7e7-7e4c-4835-9ea5-882d8431c1e3", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2737.225, + 1037.905, + 269.6010000000001, + 43.944999999999936 + ], + "priority": 23, + "parents": [ + 66565 + ], + "children": [ + 66554 + ], + "area": 2840979.5136249997, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 66554, + "strid": "967dc2c4-a99f-4f8b-a7fc-6a8101d2adb6", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2736.377, + 1102.169, + 814.8560000000002, + 199.73000000000002 + ], + "priority": 24, + "parents": [ + 66545 + ], + "children": [], + "area": 3015949.901713, + "iscrowd": 0, + "segmentation": [], + "text": "Our results Se that factors affecting retinal illumination, such\nsize and crystallineNens transmission, may significantly contribute to thi\n\n \n \n\nperception sory motion in repeated asymmetric Mahe:\naging. These Yesults suggest that such stimuli should NOT be uséd to‘aSsess visual\nneural function without compensating for retinal illuminance, from a larger\n\n005(3f pseudophakic subjects are needed to confirm our preliaiinary findings." + }, + { + "id": 66546, + "strid": "2bb56679-0841-4e03-b04e-6e799ed55c2d", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2737.569, + 1357.248, + 271.69299999999976, + 45.37799999999993 + ], + "priority": 25, + "parents": [ + 66565 + ], + "children": [ + 66555 + ], + "area": 3715560.050112, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 66555, + "strid": "c3bd10a7-b5ec-4297-b1c3-4baec5b52639", + "image_id": 203111, + "image_name": "119730.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2736.605, + 1414.293, + 810.7670000000003, + 289.519 + ], + "priority": 26, + "parents": [ + 66546 + ], + "children": [], + "area": 3870361.295265, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121757, + "strid": "296c2e20-fe92-4db2-b8d5-3962897f5e85", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 244.5, + 270.12, + 281.6, + 154.20999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 121736, + 121731, + 121728, + 121737, + 121727, + 121733, + 121753, + 121726 + ], + "area": 66044.34, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121726, + "strid": "08a1d750-ec7c-4cd6-9e4a-d3595329eb9a", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 274.623, + 87.358, + 3222.529, + 122.33699999999999 + ], + "priority": 1, + "parents": [ + 121757 + ], + "children": [], + "area": 23990.516034, + "iscrowd": 0, + "segmentation": [], + "text": "—\n—_-\n\n \n\nThe FAIR human disease ontology domain standard" + }, + { + "id": 121727, + "strid": "a82f5189-f991-43f9-aed0-447dff15d31f", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 654.321, + 258.111, + 2132.997, + 130.51300000000003 + ], + "priority": 2, + "parents": [ + 121757 + ], + "children": [], + "area": 168887.447631, + "iscrowd": 0, + "segmentation": [], + "text": "Lynn M. Schriml (Pl), James Munro, Rebecca Tauber, Michael S. Sinclair, Michelle Giglio\nUniversity of Maryland School of Medicine, Baltimore, MD" + }, + { + "id": 121728, + "strid": "80d618d5-34bd-4af7-9b9c-5c9f6130426e", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 424.834, + 608.23, + 964.693, + 71.79399999999998 + ], + "priority": 3, + "parents": [ + 121757 + ], + "children": [ + 121730, + 121729 + ], + "area": 258396.78382, + "iscrowd": 0, + "segmentation": [], + "text": "Human Disease Ontology (DO)" + }, + { + "id": 121729, + "strid": "358afc71-1520-4482-9d43-55fe85fbfbd6", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 238.183, + 730.798, + 1340.039, + 222.88699999999994 + ], + "priority": 4, + "parents": [ + 121728 + ], + "children": [], + "area": 174063.660034, + "iscrowd": 0, + "segmentation": [], + "text": "The Human Disease Ontology is a critical infrastructure resource for the biomedical\ncommunity. As the NIH/NHGRI-funded community resource for human diseases\nand the OBO Foundry human disease domain ontology, the DO is an authoritative\ndisease nomenclature and classification resource utilized across the biomedical and\nclinical research communities for the breadth of human diseases." + }, + { + "id": 121730, + "strid": "f4ac6f81-d467-4950-a859-56bafc133170", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 239.024, + 981.847, + 1337.7130000000002, + 364.078 + ], + "priority": 5, + "parents": [ + 121728 + ], + "children": [], + "area": 234684.997328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121731, + "strid": "718e7b9d-f814-4f4c-9403-430bb5f9aaed", + "image_id": 205239, + "image_name": "14492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 673.307, + 1380.503, + 507.48299999999995, + 56.14499999999998 + ], + "priority": 6, + "parents": [ + 121757 + ], + "children": [ + 121755, + 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Descriptive Analysis\n\nBaseline charactefstics do not differ between the two cohorts\nMedian adherente in the total cohort is high.\nMedian adherence is lower for those who default." + }, + { + "id": 63102, + "strid": "92f9ff5d-4cbb-492b-b6ba-4a4c97c5b09b", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1102.735, + 690.677, + 995.1879999999999, + 309.15999999999997 + ], + "priority": 17, + "parents": [ + 63076 + ], + "children": [], + "area": 761633.701595, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63091, + "strid": "1a53a09b-7f98-4008-b4d0-a3a4c0ed4811", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1090.385, + 1038.666, + 959.077, + 138.51700000000005 + ], + "priority": 18, + "parents": [ + 63076 + ], + "children": [], + "area": 1132545.82641, + "iscrowd": 0, + "segmentation": [], + "text": "ll. Time to culture conversion\n\nN= 1169 patients, antotal 574 person years, median follow-up¢time 3.0\nmonths (IQR 1.8455.16)" + }, + { + "id": 63098, + "strid": "c081bc08-0e30-47ec-bd3a-334e9c6a5638", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1093.06, + 1221.515, + 970.0839999999998, + 305.35000000000014 + ], + "priority": 19, + "parents": [ + 63076 + ], + "children": [], + "area": 1335189.1859000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63101, + "strid": "91c9b214-fb48-43ac-a01a-5a4556e539bd", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1072.754, + 1564.189, + 1050.672, + 599.6389999999999 + ], + "priority": 20, + "parents": [ + 63076 + ], + "children": [], + "area": 1677990.006506, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63081, + "strid": "06cd438d-26ea-4eb9-b867-80469b6ba8c5", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1173.224, + 2193.325, + 914.1189999999999, + 78.44300000000021 + ], + "priority": 21, + "parents": [ + 63076 + ], + "children": [], + "area": 2573261.5297999997, + "iscrowd": 0, + "segmentation": [], + "text": "*adjusted for age, gendefy employment status, history of imprisonment, alcohol e6nsumption,\nsputum smear positivity at admission, BMI, no. of previous treatments;\nany comorbidities, place of treatment" + }, + { + "id": 63089, + "strid": "8262a47a-d4a5-413e-96dd-f072b2ac2caa", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2260.027, + 343.699, + 899.4110000000001, + 144.00600000000003 + ], + "priority": 22, + "parents": [ + 63103 + ], + "children": [], + "area": 776769.0198730001, + "iscrowd": 0, + "segmentation": [], + "text": "~ \\ll. Unfavourabletreatment outcome\n\nN = 860 patients, in total 4360.1 person years, 266 patients\nexperienced an unfavourable treatment outcome (rate 19.6/100 py)," + }, + { + "id": 63099, + "strid": "9f7b67b5-37de-468e-a2a5-e43195bb2278", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2263.272, + 505.506, + 901.3409999999999, + 287.121 + ], + "priority": 23, + "parents": [ + 63103 + ], + "children": [], + "area": 1144097.5756319999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63100, + "strid": "53e25265-0cde-4877-8118-7478a15db15b", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2202.217, + 809.293, + 1053.399, + 503.5479999999999 + ], + "priority": 24, + "parents": [ + 63103 + ], + "children": [], + "area": 1782238.8025810001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63082, + "strid": "cc964d96-b3f2-4c03-86ae-f3ee80ab68db", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2275.513, + 1321.042, + 915.165, + 78.2650000000001 + ], + "priority": 25, + "parents": [ + 63103 + ], + "children": [], + "area": 3006048.244546, + "iscrowd": 0, + "segmentation": [], + "text": "LRTfor linearity in each model p<0.001 _LRT for departure from linearity for (i) adherence p=0.0791\n(ii) cumulative adherence p=0.189 (iii) proportion of months.under adherence of 95% p=0.8249\n(iv) proportion of months under adherence of 90% p=0.0161" + }, + { + "id": 63080, + "strid": "a7d76ba9-a1ac-49ea-a634-be7d2dfec33f", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2250.663, + 1476.4, + 289.24900000000025, + 46.634000000000015 + ], + "priority": 26, + "parents": [ + 63103 + ], + "children": [ + 63096, + 63095 + ], + "area": 3322878.8532000002, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 63095, + "strid": "f741f22c-2d3f-498f-8309-db4d24e7c5b6", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2246.572, + 1532.487, + 780.0770000000002, + 156.01600000000008 + ], + "priority": 27, + "parents": [ + 63080 + ], + "children": [], + "area": 3442842.384564, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63096, + "strid": "f0d53433-932f-46ed-b0aa-9d6f05fdc955", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2246.572, + 1696.255, + 1000.5340000000001, + 312.75800000000004 + ], + "priority": 28, + "parents": [ + 63080 + ], + "children": [], + "area": 3810758.98786, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63079, + "strid": "c5531bd6-cf3f-45c0-8abf-bc1288395eb6", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2247.778, + 2068.909, + 297.97699999999986, + 47.34999999999991 + ], + "priority": 29, + "parents": [ + 63103 + ], + "children": [ + 63088 + ], + "area": 4650448.134202, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 63088, + "strid": "305b345e-8583-4c10-b4a2-30e744d56296", + "image_id": 202986, + "image_name": "119545.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2243.948, + 2137.389, + 958.0720000000001, + 156.7750000000001 + ], + "priority": 30, + "parents": [ + 63079 + ], + "children": [], + "area": 4796189.771772, + "iscrowd": 0, + "segmentation": [], + "text": "This study supports the;strong association between adherence and\n\ntreatment outcomes.Even a difference of a few missed days has an\nimpact on treatment outcome. Shorter and easier to take treatment\nregimens are urgently needed." + }, + { + "id": 189445, + "strid": "c4d18c33-1058-491b-8749-1a1b083f4789", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 180.37, + 493.62, + 316.61, + 273.83000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 189428, + 189426, + 189427, + 189430, + 189438, + 189436, + 189437, + 189429 + ], + "area": 89034.2394, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189426, + "strid": "49c069c2-a8b6-44db-b6a8-d2e86651b3ad", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 369.169, + 70.181, + 2825.021, + 245.75 + ], + "priority": 1, + "parents": [ + 189445 + ], + "children": [], + "area": 25908.649588999997, + "iscrowd": 0, + "segmentation": [], + "text": "De novo assembly and preliminary analysis of the spider crab\na Maja brachydactyla transcriptome A" + }, + { + "id": 189427, + "strid": "e115a9d3-03d0-46cc-8797-b7568a1e65c9", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 592.817, + 423.919, + 2350.921, + 89.14499999999998 + ], + "priority": 2, + "parents": [ + 189445 + ], + "children": [], + "area": 251306.389823, + "iscrowd": 0, + "segmentation": [], + "text": "Garcia-Junco RM|', Kaderali L?, Gonzalez-Tizon AM? , Martinez-Lage At" + }, + { + "id": 189436, + "strid": "9d44bf0d-c093-4a94-a132-aecf34d42f17", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 97.693, + 886.184, + 875.122, + 655.7630000000001 + ], + "priority": 3, + "parents": [ + 189445 + ], + "children": [], + "area": 86573.973512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189429, + "strid": "f2fff127-f012-4129-8e3b-fbc934092526", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1069.96, + 959.36, + 263.4960000000001, + 43.17700000000002 + ], + "priority": 4, + "parents": [ + 189445 + ], + "children": [ + 189435 + ], + "area": 1026476.8256000001, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 189435, + "strid": "40f65aac-ca8e-4f62-97dc-6c82b8f82eaf", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1069.094, + 1016.001, + 2334.78, + 422.701 + ], + "priority": 5, + "parents": [ + 189429 + ], + "children": [], + "area": 1086200.573094, + "iscrowd": 0, + "segmentation": [], + "text": "The spider crab Maja brachydactyla Balss, 1922 is a brachyuran decapod crustacean occurring in the north-east Atlantic. Its\ngeographical distribution spans from the Sudafrican Coast to the Northern Sea (Sotelo et a/ 2009). This species is subject of a\nheavy exploitation pressure in the coastal area comprehended between Morocco and the north of France. In Spain the highest\nnumber of captures (over 70%) is registered in Galician coasts, located at the northwest of the country. Ecological data suggest\nthat there might be overexploitation problems with M.brachydactyla in this region (Freire et al 2002). Several studies about the\nspider crab have been carried out from an ecological and biochemical perspective but there is very little information on the\nmolecular genetics aspects. In order to design an efficient fisheries management model for this species it is needed to widen our\nknowledge about different biological processes such as growth and development also from a molecular point of view." + }, + { + "id": 189428, + "strid": "4c24acd5-b965-4c3d-8b3a-ee37fead13e6", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 125.151, + 1678.859, + 194.015, + 45.374000000000024 + ], + "priority": 6, + "parents": [ + 189445 + ], + "children": [ + 189434 + ], + "area": 210110.882709, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 189434, + "strid": "5151fd8c-684a-4b93-9c8f-d14dfe6d1d2f", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.9, + 1738.59, + 1454.527, + 786.8660000000002 + ], + "priority": 7, + "parents": [ + 189428 + ], + "children": [], + "area": 215411.301, + "iscrowd": 0, + "segmentation": [], + "text": "We performed Illumina paired-end sequencing of gut, gill, hepatopancreas and\nheart extracted from a female adult M. brachydactyla. We obtained a total of\n82457957 paired reads. The quality of the fastq raw reads was evaluated using\nthe FastQC tool (Andrews 2010). Remaining adapters were removed and the\nreads with a Phred-Score under 20 were filtered using Trimmomatic v0.30\n(Bolger et al 2014). Pre-processed reads were assembled using Trinity (Grabherr\net al 2011) and SOAPdenovo-trans (Xie et al 2014), ranging kmer size from 21 to\n31. The resulting seven assemblies were evaluated with RSEM-EVAL (Li et al\n2014) and TransRate (Smith-Unna et a/ 2015). Both programs indicated that the\nbest assembly had been obtained with Trinity. The 120698 unigenes from this\nassembly were compared with the NCBI non-redundant (nr) protein database\nand UniProtKB database using BLAST+ (Camacho et a/ 2009) with E values less\nthan 1.06 10°. These results were imported to BLAST2GO (Conesa et a/ 2005) in\norder to get gene ontology annotations as well as KEGG methabolic pathway\nannotation." + }, + { + "id": 189430, + "strid": "62c7fb06-245b-4c33-953b-60505af85590", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 119.595, + 2713.806, + 533.118, + 41.05699999999979 + ], + "priority": 8, + "parents": [ + 189445 + ], + "children": [ + 189439, + 189433, + 189440, + 189442 + ], + "area": 324557.62857, + "iscrowd": 0, + "segmentation": [], + "text": "Results and Further Work" + }, + { + "id": 189442, + "strid": "7767d54d-3066-4319-b6df-e1111991d4a0", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.346, + 2771.182, + 1454.322, + 474.7350000000001 + ], + "priority": 9, + "parents": [ + 189430 + ], + "children": [], + "area": 319644.758972, + "iscrowd": 0, + "segmentation": [], + "text": "We obtained annotation for 29849 unigenes from a total of 120698 (24.73%).\nThe number of unigenes as well as the percentage of annotated sequences is\nsimilar to the results obtained in other crustacean de novo transcriptome\nassemblies, as it is shown in Table 1. Annotation results are currently being\nscreened (Fig 1-2), focusing especially on genes related to the regulation of\nmolt processes. So far, we have identified an ortholog to Tigriopus japonicus\necdysone receptor (Hwang et a/ 2010).\n\nCurrently we are conducting real-time PCR experiments testing the expression\nof a set of molt-related genes within different life stages of M. brachydactyla." + }, + { + "id": 189439, + "strid": "5a49286e-78d0-46ad-9a80-ca3ed017ddd2", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 98.716, + 3585.23, + 1508.103, + 536.4360000000001 + ], + "priority": 10, + "parents": [ + 189430 + ], + "children": [ + 189441 + ], + "area": 353919.56467999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189441, + "strid": "579ae088-881c-4409-8729-6e49b3baebfb", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 123.674, + 3446.355, + 1437.966, + 99.54100000000017 + ], + "priority": 11, + "parents": [ + 189439 + ], + "children": [], + "area": 426224.50827000005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1. BLAST2GO table with top-hit species distribution after BLAST+ to nr\nprotein database." + }, + { + "id": 189433, + "strid": "79bb2239-c2d1-48ed-94f3-7a6a712df117", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1673.56, + 1916.033, + 1771.911, + 483.30200000000013 + ], + "priority": 12, + "parents": [ + 189430 + ], + "children": [ + 189431 + ], + "area": 3206596.18748, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189431, + "strid": "43106b8e-bd64-47c7-8049-f55106b3997e", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1710.688, + 1696.437, + 1691.435, + 153.50600000000009 + ], + "priority": 13, + "parents": [ + 189433 + ], + "children": [], + "area": 2902074.418656, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Comparison of de novo transcriptome assemblies in five different crustacean\nspecies: C. firmanchicus (Lenz et al 2014), C. rogercresseyi (Gallardo-Escarate et al 2014),\nL. vannamei (Ghaffari et al 2014), P. trituberculatus (Lv et al 2014) and M. brachydactyla." + }, + { + "id": 189440, + "strid": "22b6b3ec-4391-47c8-a25c-62887acacc5f", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1688.467, + 2783.875, + 1744.9519999999998, + 921.4790000000003 + ], + "priority": 14, + "parents": [ + 189430 + ], + "children": [ + 189432 + ], + "area": 4700481.0696250005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189432, + "strid": "2e80afbd-090b-49df-88b0-02c6d7b10663", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1736.375, + 2641.005, + 1656.574, + 95.0340000000001 + ], + "priority": 15, + "parents": [ + 189440 + ], + "children": [], + "area": 4585775.056875, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2. REVIGO (Supek et a/ 2011) tree-map of most abundant GO terms sorted by\nmolecular function." + }, + { + "id": 189437, + "strid": "4857be58-4a45-4e0d-8585-f1843b979b34", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.483, + 4286.348, + 418.248, + 54.40599999999995 + ], + "priority": 16, + "parents": [ + 189445 + ], + "children": [ + 189443 + ], + "area": 456423.194084, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 189443, + "strid": "e4170baa-d42d-4cf8-adaf-89882bfd06ce", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 109.895, + 4346.807, + 1465.911, + 273.2489999999998 + ], + "priority": 17, + "parents": [ + 189437 + ], + "children": [], + "area": 477692.35526499996, + "iscrowd": 0, + "segmentation": [], + "text": "This work was funded by a CTM2014-53838-R grant from the Spanish Governement\n(Ministerio de Economia y Competitividad) and grant from Xunta de Galicia, Programa de\nInvestigacidn Competitiva do Sistema Universitario Galego, Modalidade grupos de referencia\ncompetitiva: Grupo de Investigacién en Biologia Evolutiva (GIBE). RM Garcia-Junco was\nsupported by a scholarship from Xunta de Galicia, Plan galego de investigacion, innovacion e\ncrecemento (I2C), and a scholarship by INDITEX-UDC 2014." + }, + { + "id": 189438, + "strid": "f9b60645-cb97-4325-ac38-cab28c53572b", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1693.702, + 3904.595, + 231.57600000000002, + 41.134000000000015 + ], + "priority": 18, + "parents": [ + 189445 + ], + "children": [ + 189444 + ], + "area": 6613220.36069, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 189444, + "strid": "81f7a569-dadc-4e41-b1db-8d26d590327b", + "image_id": 207891, + "image_name": "9037.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1693.318, + 3949.477, + 1717.901, + 658.6390000000001 + ], + "priority": 19, + "parents": [ + 189438 + ], + "children": [], + "area": 6687720.494686, + "iscrowd": 0, + "segmentation": [], + "text": "Andrews S_ (2010) http://www.bioinformatics.\nbbsrc.ac.uk/projects/fastqc\n\nBolger AM et al (2014) Bioinformatics, 30, 2114-\n2120.\n\nCamacho C et al (2009) BMC Bioinformatics, 10, 421.\n\nConesa A et al (2005) Bioinformatics, 21, 3674-3676.\n\nFreire J et al (2002) Aquat Ecol, 36, 41-50.\n\nGallardo —Escarate C et al (2014) PLoS ONE 9(4):\ne92239.\n\nGhaffari N et al (2014) Sci Rep 4, 7081.\n\nGrabherr MG et al (2011) Nat Biotechnol, 29, 644-\n52.\n\nHwang D et al (2010) Comp Biochem Physiol C\nToxicol Pharmacol, 151, 303-312.\n\nLenz P et al (2014) PLoS ONE 9(2): e88589.\n\nLi B et al (2014) Genome Biol, 15, 553.\n\nLv J et al (2014) PLoS ONE 9(4): e94055.\n\nSmith-Unna RD et al (2015) http://dx.doi.org/\n\n10.1101/021626\n\nSotelo G et al (2009) Mol Phylogenet Evol, 53, 314-\n319.\n\nSupek F et a/ (2011) PLoS ONE 6(7): e21800.\n\nXie Y et al (2014) Bioinformatics, 30, 1660-1666." + }, + { + "id": 199926, + "strid": "3646142e-f251-4fb0-8a8f-3da363edbdd5", + "image_id": 208327, + "image_name": "9949.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 138.92, + 378.87, + 220.09, + 144.79999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 199914, + 199915, + 199916, + 199910, + 199918, + 199913, + 199912, + 199917, + 199911 + ], + "area": 52632.62039999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199910, + "strid": "b0f6bc13-ea93-43e4-aa34-337e906694f6", + "image_id": 208327, + "image_name": "9949.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 425.792, + 84.855, + 2153.034, + 171.038 + ], + "priority": 1, + "parents": [ + 199926 + ], + "children": [], + "area": 36130.58016, + "iscrowd": 0, + "segmentation": [], + "text": "MyGene.info and MyVariant.info: Providing Gene and Genetic\nVariant Annotations as a Service" + }, + { + "id": 199911, + "strid": "13385851-c422-444f-ad83-473cb34247a8", + "image_id": 208327, + "image_name": "9949.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 432.303, + 322.45, + 2133.112, + 159.716 + ], + "priority": 2, + "parents": [ + 199926 + ], + "children": [], + "area": 139396.10235, + "iscrowd": 0, + "segmentation": [], + "text": "Jiwen Xin, Cyrus Afrasiabi , Sebastien Lelong, Ginger Tsueng, Andrew I. 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It will create a forum to collaborate and\ncommunicate RDM best practices" + }, + { + "id": 154939, + "strid": "09dc5165-3b82-4a4c-b426-92891114b55d", + "image_id": 206541, + "image_name": "22670.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 174.774, + 3746.885, + 1295.0770000000002, + 143.19999999999982 + ], + "priority": 21, + "parents": [ + 154952 + ], + "children": [], + "area": 654858.0789900001, + "iscrowd": 0, + "segmentation": [], + "text": "Integration with registries and other\ninformation resources" + }, + { + "id": 154940, + "strid": "8661fa4d-2f99-4d6a-a82d-297afb06ceb7", + "image_id": 206541, + "image_name": "22670.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1805.38, + 3172.844, + 491.33399999999983, + 79.31399999999985 + ], + "priority": 22, + "parents": [ + 154952 + ], + "children": [ + 154942, + 154941 + ], + "area": 5728189.10072, + "iscrowd": 0, + "segmentation": [], + "text": "Sustainability" + }, + { + "id": 154941, + "strid": "c76ed2e9-2ac8-4467-9d3d-a237e138c202", + "image_id": 206541, + "image_name": "22670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2012.099, + 3308.239, + 1085.947, + 297.7220000000002 + ], + "priority": 23, + "parents": [ + 154940 + ], + "children": [], + "area": 6656504.383661, + "iscrowd": 0, + "segmentation": [], + "text": "RDMkit is hosted on GitHub, so the hosting is free. It also uses\nthe ELIXIR Toolkit theme, an open-source and Jekyll theme.\n\nAnyone can contribute to the site, and membership of the\neditorial board is also open." + }, + { + "id": 154942, + "strid": "102cb3e2-cf0f-4110-854e-84ec1413fa32", + "image_id": 206541, + "image_name": "22670.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2013.219, + 3729.409, + 1090.379, + 148.04599999999982 + ], + "priority": 24, + "parents": [ + 154940 + ], + "children": [], + "area": 7508117.057571, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173545, + "strid": "57d81ac5-b95e-4d3e-9bb9-e2450843ee30", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 69.92, + 131.16, + 209.57, + 341.51 + ], + "priority": -1, + "parents": [], + "children": [ + 173527, + 173526, + 173529, + 173524, + 173525, + 173530, + 173531 + ], + "area": 9170.7072, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173524, + "strid": "1bfe65b2-b9ac-4994-ad62-afbe7c6120fc", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 345.621, + 211.432, + 3105.664, + 435.89199999999994 + ], + "priority": 1, + "parents": [ + 173545 + ], + "children": [], + "area": 73075.339272, + "iscrowd": 0, + "segmentation": [], + "text": "EVALUATION OF THE ANALGESIC EFFECT OF\nVENLAFAXINE, A SEROTININ AND\nNORADRENALINE REUPTAKE INHIBITOR" + }, + { + "id": 173525, + "strid": "76920792-c102-4c7c-961a-e2bf4e1364f4", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 290.544, + 734.123, + 3252.464, + 621.8 + ], + "priority": 2, + "parents": [ + 173545 + ], + "children": [], + "area": 213295.032912, + "iscrowd": 0, + "segmentation": [], + "text": "Magalhaes, R.A.\", Felix, J.A.', Albuquerque, J.C.', Bastos,\nM.V.R.2, Viana, G.S.B.2, Fonteles, M.M.F.2, Félix, F.H.C.°,\nFontenele, J.B.\"\n\n'‘Departaments of Pharmacy, *Phisiology and Pharmacology, Federal University of\nCeara, *Hospital Infantil Albert Sabin, Fortaleza-CE, Brazil." + }, + { + "id": 173526, + "strid": "5ed9e736-9cce-4173-ab24-e0f3c6416bee", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 718.072, + 1469.392, + 628.311, + 63.41799999999989 + ], + "priority": 3, + "parents": [ + 173545 + ], + "children": [ + 173532 + ], + "area": 1055129.252224, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173532, + "strid": "8265e748-d4c4-4290-9a6d-32762ec8f93a", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 253.473, + 1650.138, + 1568.037, + 443.83399999999983 + ], + "priority": 4, + "parents": [ + 173526 + ], + "children": [], + "area": 418265.429274, + "iscrowd": 0, + "segmentation": [], + "text": "Venlafaxine is an antidepressant drug that blocks the synoptosomal uptake of\nnoradrenaline and serotonin and, to a lesser degree, of dopamine (Lloyd 1992).\nVenlafaxine has been reported to attenuate signs of spontaneous pain and hindpaw\nmechanical and thermal hypersensitivity in animal models of tonic nociception and\nneuropathic pain (Marchand et al. 2003a; lyengar et al. 2004; Uyar et al. 2003).\nThese studies have motivated the investigation of the efficacy of the SNRI\nantidepressants in the treatment of various types of chronic pain independently of\ndepression. Thus, the present study was designed to investigate the analgesic\neffects of the antidepressant venlafaxine in experimental models of nociception." + }, + { + "id": 173527, + "strid": "97a40676-44ba-4b3a-b14d-bb654d0dba48", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 828.139, + 2171.15, + 408.927, + 63.68899999999985 + ], + "priority": 5, + "parents": [ + 173545 + ], + "children": [ + 173536, + 173533, + 173535, + 173538, + 173534, + 173537 + ], + "area": 1798013.98985, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173533, + "strid": "c6e92db9-7760-4fb8-ad00-d2f88a8aad23", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 245.958, + 2344.965, + 1590.422, + 305.1999999999998 + ], + "priority": 6, + "parents": [ + 173527 + ], + "children": [], + "area": 576762.90147, + "iscrowd": 0, + "segmentation": [], + "text": ">» ACETIC ACID-INDUCED WRITHING\n\nGroups of six to twelve mice were administered i.p. 0.6% acetic acid (10 mL kg-1,\ni.p.), and the number of abdominal contractions was registered for 20 min, starting 30\nmin after the injection. Animals were pre-treated with venlafaxine (10, 20, 40 and 60\nmg kg-1, i.p.), 30 min before acetic acid administration. DMSO 5% was used as\nvehicle (control group)." + }, + { + "id": 173534, + "strid": "c89fecff-df45-4715-80a5-082e09670837", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 561.183, + 2698.807, + 986.4279999999999, + 334.14400000000023 + ], + "priority": 7, + "parents": [ + 173527 + ], + "children": [], + "area": 1514524.6086809998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173535, + "strid": "b24a754e-78a6-463e-be6b-47efb944d363", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 239.637, + 3107.088, + 1596.2, + 255.97400000000016 + ], + "priority": 8, + "parents": [ + 173527 + ], + "children": [], + "area": 744573.247056, + "iscrowd": 0, + "segmentation": [], + "text": ">HOT PLATE TEST\n\nAnimals were treated with venlafaxine (10, 20, 40 and 60 mg kg-1, i.p.), 5% DMSO\n(controls) or morphine (10 mg kg-1, i.p.) as standard. Measurements were performed\nbefore (time 0) and after 30, 60, 90 and 120 min from drug administration; a cut-off\ntime of 45 seconds was used to avoid paw lesions." + }, + { + "id": 173536, + "strid": "d2a60f40-b450-4242-acae-4adb2fc2781b", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 471.378, + 3413.332, + 1151.987, + 339.7950000000001 + ], + "priority": 9, + "parents": [ + 173527 + ], + "children": [], + "area": 1608969.6114959999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173537, + "strid": "6089dba3-70e1-4352-96bb-2daa7d72efe9", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 238.065, + 3825.394, + 1603.449, + 249.13900000000012 + ], + "priority": 10, + "parents": [ + 173527 + ], + "children": [], + "area": 910692.4226099999, + "iscrowd": 0, + "segmentation": [], + "text": "> ROTA-ROD TEST\n\nGroups of six mice were treated with venlafaxine (10, 20, 40 and 60 mg/kg, i.p.) and\nplaced on the rota-rod 30 min after the injection. DMSO 5% was used as vehicle\n(control group). The number of falls was recorded by one minute and the length of stay\nin the bar." + }, + { + "id": 173538, + "strid": "9c6f1bb5-044b-4d46-9f25-f43f1a5cd00a", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 490.089, + 4122.547, + 1117.886, + 401.366 + ], + "priority": 11, + "parents": [ + 173527 + ], + "children": [], + "area": 2020414.9366829998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173531, + "strid": "541099c8-a69d-4235-989c-df47e888b83b", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2565.945, + 1468.108, + 376.91100000000006, + 66.59999999999991 + ], + "priority": 12, + "parents": [ + 173545 + ], + "children": [ + 173528, + 173539, + 173541 + ], + "area": 3767084.38206, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173539, + "strid": "33a2a67b-9eb5-4fb2-91d6-046d7e3ba71c", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2304.328, + 1624.547, + 877.2069999999999, + 397.63200000000006 + ], + "priority": 13, + "parents": [ + 173531 + ], + "children": [ + 173540 + ], + "area": 3743489.139416, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173540, + "strid": "5888ad08-cf2a-4c1c-bb37-ac2f3a486360", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2170.891, + 2042.623, + 1144.1910000000003, + 163.92700000000013 + ], + "priority": 14, + "parents": [ + 173539 + ], + "children": [], + "area": 4434311.887093, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 — Effects of Velafaxine (VENLA 10, 20, 40 and 60 mg/Kg, i.p.) on acetic acid-\ninduced abdominal writhing in mice (6-12 animals/ groups). DMSO 5% (control) and VENLA\nwere administred 30 min before acetic acid 0.6%. The number of abdominal contractions\nwas registered for 20 min, starting 30 min after the treatments. Values are mean + E.P.M. of\nabdominal writhing. *p< 0,001 vs. control. (ANOVA and Tukey)." + }, + { + "id": 173541, + "strid": "59874739-2380-4724-871c-5d5c8c9fb1d4", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2249.949, + 2293.642, + 1006.8589999999999, + 549.212 + ], + "priority": 15, + "parents": [ + 173531 + ], + "children": [ + 173542 + ], + "area": 5160577.524258, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173542, + "strid": "6e6bfa7d-d3cb-49b1-888d-85f4b9dd876e", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2186.648, + 2869.214, + 1144.3220000000001, + 164.01000000000022 + ], + "priority": 16, + "parents": [ + 173541 + ], + "children": [], + "area": 6273961.054672, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 — Effects of Velafaxine (VENLA) in the hot plate test in mice (9 animals/group).\nMeasurements were performed before (time 0) and after 30, 60, 90 and 120 min from drug\nadministration (DMSO 5% control, VENLA 10, 20, 40 and 60 mg/kg, i.p. and Morphine 10\nmg/kg, i.p.). Values are mean + E.P.M. of abdominal writhing. *p< 0,05 vs. control. (ANOVA\nand Tukey)." + }, + { + "id": 173528, + "strid": "2f298c63-b211-4bb9-b899-a906f0e534ca", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1996.227, + 3104.088, + 1509.898, + 164.48500000000013 + ], + "priority": 17, + "parents": [ + 173531 + ], + "children": [], + "area": 6196464.275976, + "iscrowd": 0, + "segmentation": [], + "text": "ROTA-ROD TEST\nNo difference between groups treated with venlafaxine and control\ngroup was observed in any period of time." + }, + { + "id": 173529, + "strid": "e2e91994-f067-4ee5-b64b-097f56f211f8", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2478.72, + 3323.52, + 555.1599999999999, + 71.22499999999991 + ], + "priority": 18, + "parents": [ + 173545 + ], + "children": [ + 173543 + ], + "area": 8238075.494399999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173543, + "strid": "c4d593fe-4329-4fb2-a413-1d38367f5f45", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1995.203, + 3465.679, + 1529.1370000000002, + 390.96900000000005 + ], + "priority": 19, + "parents": [ + 173529 + ], + "children": [], + "area": 6914733.137837, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173530, + "strid": "d95f2788-b95f-44e4-b512-f53427d9fc08", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2475.781, + 3918.667, + 562.982, + 64.19999999999982 + ], + "priority": 20, + "parents": [ + 173545 + ], + "children": [ + 173544 + ], + "area": 9701761.303926999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173544, + "strid": "0f335355-36b5-4468-be9b-7fb48536ae9d", + "image_id": 207277, + "image_name": "7255.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1973.013, + 4045.863, + 1574.592, + 368.8340000000003 + ], + "priority": 21, + "parents": [ + 173530 + ], + "children": [], + "area": 7982540.2952189995, + "iscrowd": 0, + "segmentation": [], + "text": "Dunham, M., Miya, T. Journal of American Pharmaceutical Association. 1957; 44: 208-209.\n\nEddy, N.B. and D.J. Leimbach. 1953. J. Pharmacol. Exp. Ther. 107: 385.\n\nlyengar S, Webster AA, Hemrick-Luecke SK, Xu JY, Simmons RM. 2004; J Pharmacol Exp Ther.\n311:576-584.\n\nKoster, R., Anderson, M. and De Beer, E.J. 1959. Fed. Proc. 18: 412.\n\nLloyd, GK, Cronin,S, A. Fletcher,A, Mitchell, PJ. Clin. Neuropharm. 1992. 15 Suppl. 1; part B, p. 428B.\nMarchand F, Alloui A, Chapuy E, Hernandez A, Pelissier T, Ardid D, Eschalier A. 2003. Neurosci Lett.\n342:105-108.\n\nUyar M., Onal A., Uyar M., Dogru A., Soykan N. Methods Find Exp Clin Pharmacol. 2003; 25: 361-365." + }, + { + "id": 151701, + "strid": "d8b0ce32-4685-4bf4-8544-adf0cf5f2588", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 25.91, + 22.71, + 52.42, + 162.01 + ], + "priority": -1, + "parents": [], + "children": [ + 151678, + 151679, + 151675, + 151676, + 151674, + 151677, + 151673 + ], + "area": 588.4161, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151673, + "strid": "f8318049-f771-43d0-8a20-dbffa80d6c1d", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 96.522, + 20.321, + 2145.522, + 58.12700000000001 + ], + "priority": 1, + "parents": [ + 151701 + ], + "children": [], + "area": 1961.4235620000002, + "iscrowd": 0, + "segmentation": [], + "text": "Machine learning identifies weak prognostic signal in colorectal polyp’s transcriptome" + }, + { + "id": 151674, + "strid": "fff775e7-bdaf-47cf-a462-9727c67e661b", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 270.095, + 80.688, + 1803.0649999999998, + 118.94100000000002 + ], + "priority": 2, + "parents": [ + 151701 + ], + "children": [], + "area": 21793.42536, + "iscrowd": 0, + "segmentation": [], + "text": "Russell Hung', Simon Fisher’, Ditte Andersen’, Gerard Lynch?, Noori Maka*, Jennifer Hay?, Jakub Jawny*, William Sloan?,\nStephen McSorley?, Joanne Edwards? and lan Poole’\non behalf of Integrated Technologies for Improved Polyp Surveillance (INCISE) collaborators" + }, + { + "id": 151675, + "strid": "c6d75809-f934-4263-9ff0-980b26b139d5", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 518.491, + 350.389, + 153.93000000000006, + 30.930000000000007 + ], + "priority": 3, + "parents": [ + 151701 + ], + "children": [ + 151682, + 151680, + 151681 + ], + "area": 181673.542999, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 151680, + "strid": "c3870902-a508-498a-9c55-0e31b40a2041", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.944, + 394.118, + 1136.484, + 241.613 + ], + "priority": 4, + "parents": [ + 151675 + ], + "children": [], + "area": 10224.997392, + "iscrowd": 0, + "segmentation": [], + "text": "Colorectal polyps are growths that can appear on the lining of the colon or rectum and represent possible\npremalignant lesions to colorectal cancers (CRC). As most polyps are asymptomatic, in the UK surveillance of\npolyps is monitored through colonoscopies, which is an expensive and unpleasant procedure.\n\nPatients with metachronous polyps may need multiple colonoscopies throughout their lifetime. Understanding\nthe risk factors associated with development of metachronous polyps can result in better risks stratification and\nmanagement of screening program resources. In this study, we are particularly concerned with identifying\ndistinct patterns in the transcriptome of index polyps related to metachronous risks. We aim to use machine\nlearning and deep learning techniques to:" + }, + { + "id": 151681, + "strid": "1606f8ee-1633-41c0-8d1e-61736ad325ad", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 25.911, + 659.339, + 931.1579999999999, + 55.888000000000034 + ], + "priority": 5, + "parents": [ + 151675 + ], + "children": [], + "area": 17084.132829000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151682, + "strid": "88fb38c0-178e-4e1e-b35f-187cc2ffe60e", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 24.862, + 740.933, + 1138.149, + 82.19299999999998 + ], + "priority": 6, + "parents": [ + 151675 + ], + "children": [], + "area": 18421.076245999997, + "iscrowd": 0, + "segmentation": [], + "text": "This research is part of the Integrated Technologies for Improved Polyp Surveillance’ (INCISE) project that aims\nto improve on current bowel cancer screening program in the UK. The INCISE project is a retrospective study\nthat seeks to develop a comprehensive risk stratification tool for metachronous polyps prediction." + }, + { + "id": 151676, + "strid": "b11ecc06-ae6f-4c02-9c11-250198b9bc66", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 538.537, + 841.356, + 111.452, + 25.652000000000044 + ], + "priority": 7, + "parents": [ + 151701 + ], + "children": [ + 151685, + 151689, + 151683, + 151688, + 151687, + 151684 + ], + "area": 453101.33617200004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 151683, + "strid": "47c79023-d4c6-4955-b6a7-4e59eaaafdf8", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.727, + 884.083, + 1070.414, + 161.43999999999994 + ], + "priority": 8, + "parents": [ + 151676 + ], + "children": [], + "area": 22744.803341, + "iscrowd": 0, + "segmentation": [], + "text": "Data Acquisition\n\nThe data used in this study is collected as part of the INCISE project. Index polyps are sequenced with\nTempOSeq to collect gene expression data over three batches. Only patients who underwent a follow-up\ncolonoscopy were selected. The data is composed of expression counts of 22,537 genes for 1,789 patients.\nCorresponding data on polyp recurrence events and right censored time of event occurrence since index\npolypectomy for the patients were also obtained." + }, + { + "id": 151684, + "strid": "b9249266-4151-43af-b65e-7a383cbdcd27", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.549, + 1071.425, + 1124.838, + 188.31200000000013 + ], + "priority": 9, + "parents": [ + 151676 + ], + "children": [], + "area": 27373.837324999997, + "iscrowd": 0, + "segmentation": [], + "text": "Data Pre-processing\n\nThe data was split into training (1,380) and validation (446) sets. The training set was used in model\ndevelopment and parameter search. The validation set was only used for evaluation of models. Splitting was\nstratified on event outcome (recurrence vs non-recurrence) and batch identity to account for class imbalance.\nIn the validation set, the minority class within each batch is up-sampled so that there is an even distribution of\nevents in batches. The counts per gene were normalised to counts per million (CPM) and then transformed with\nlog, with an offset of 1." + }, + { + "id": 151685, + "strid": "35822de8-9162-496c-a2fe-fe93bf3e192a", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 32.466, + 1264.677, + 1128.285, + 444.74199999999996 + ], + "priority": 10, + "parents": [ + 151676 + ], + "children": [ + 151686 + ], + "area": 41059.003482, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151686, + "strid": "111f6699-1545-43df-b03d-8bda4e94b30f", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 41.823, + 1714.23, + 1055.792, + 80.26999999999998 + ], + "priority": 11, + "parents": [ + 151685 + ], + "children": [], + "area": 71694.24129, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Distribution of positive and negative cases (0 for non-recurrence and 1 for recurrence) in each\nbatch in the holdout validation set before (a) and after (b) up-sampling. Up-sampling ensures that the\ndistribution of labels is even within each batch." + }, + { + "id": 151687, + "strid": "0f640638-1fea-4490-9b5b-e0dfc39e6a24", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 27.89, + 1800.759, + 204.591, + 24.146999999999935 + ], + "priority": 12, + "parents": [ + 151676 + ], + "children": [], + "area": 50223.16851, + "iscrowd": 0, + "segmentation": [], + "text": "Modelling approach" + }, + { + "id": 151688, + "strid": "9d3d57fb-b223-405e-8f25-a827922fbbe8", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 28.119, + 1851.629, + 1128.418, + 637.2849999999999 + ], + "priority": 13, + "parents": [ + 151676 + ], + "children": [], + "area": 52065.955851, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151689, + "strid": "8ee1c155-557f-4bff-a791-f5f3f1786f27", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 52.288, + 2489.74, + 1019.3039999999999, + 621.7730000000001 + ], + "priority": 14, + "parents": [ + 151676 + ], + "children": [ + 151690 + ], + "area": 130183.52511999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151690, + "strid": "6d6d9171-55a9-45be-bacf-56c3a45b6669", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 39.847, + 3127.873, + 1084.993, + 131.64699999999993 + ], + "priority": 15, + "parents": [ + 151689 + ], + "children": [], + "area": 124636.355431, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Overall model architecture of autoencoder-survival model. Encoder and decoder are symmetric,\nand contains 512, 256, 128 and 64 nodes on each respective hidden layer. All layers are 1-dimensional. The\nbottleneck layer contains 32 nodes. They are used as input features for Nnet-survival model. The model is\ntrained simultaneously on autoencoder reconstruction and time-to-event modelling. Figure produced with\nNN-SVG4." + }, + { + "id": 151677, + "strid": "3ef0697c-155d-486b-86bf-472351a7bf81", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1702.17, + 351.379, + 96.36400000000003, + 26.13900000000001 + ], + "priority": 16, + "parents": [ + 151701 + ], + "children": [ + 151694, + 151691, + 151695, + 151692, + 151697 + ], + "area": 598106.79243, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 151691, + "strid": "6e0446bc-f03e-41b7-8506-97a249dca213", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1182.632, + 392.836, + 1094.6619999999998, + 123.202 + ], + "priority": 17, + "parents": [ + 151677 + ], + "children": [], + "area": 464580.42435200006, + "iscrowd": 0, + "segmentation": [], + "text": "Binary Classification Approach\n\nGWAS-selected genes coupled with SVM and LR provides the best performance in cross-validation study. RF is\nconsistently the worst-performing classifier across all sets of input features. GWAS-SVM model was not\npredictive in the holdout validation set (ROC-AUC = 0.52)." + }, + { + "id": 151692, + "strid": "0cf80279-b97a-44a2-ad7b-30e24472cf93", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1190.034, + 523.259, + 1116.469, + 622.1610000000001 + ], + "priority": 18, + "parents": [ + 151677 + ], + "children": [ + 151693 + ], + "area": 622696.0008060001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151693, + "strid": "82066c33-2f7f-4ebc-ba58-6490e2f88e19", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1196.005, + 1166.56, + 1100.071, + 109.38799999999992 + ], + "priority": 19, + "parents": [ + 151692 + ], + "children": [], + "area": 1395211.5928, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. ROC-AUC score with 1 SD error bars for prediction of metachronous polyps given by 12 models,\nwhich is derived from combinations of 4 sets of input features on 3 classifies. Abbreviations of model: GWAS\nCatalogue (GWAS), PGS Catalogue (Polygenic) and Protein Atlas (Protein Atlas), or all genes on PCA (naive).\nSupport vector machine (SVM), logistic regression (LR), random forests (RF)." + }, + { + "id": 151694, + "strid": "acdac23c-6afe-419b-9e8a-9da4dad44735", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1181.636, + 1324.007, + 1120.5610000000001, + 123.37799999999993 + ], + "priority": 20, + "parents": [ + 151677 + ], + "children": [], + "area": 1564494.3354520001, + "iscrowd": 0, + "segmentation": [], + "text": "Time-to-event approach\n\nThe single best model obtained from the cross-validation study had predictive performance of about 0.62 ROC-\nAUC between 1-year to 6-year from the date of index polypectomy. Model performance differ significantly\nbetween re-substitution and holdout validation (approximately 0.90 and 0.54 at 5-year timepoint respectively)." + }, + { + "id": 151695, + "strid": "20b88304-62c6-4230-9863-76d307f16957", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1210.407, + 1493.594, + 682.204, + 531.4850000000001 + ], + "priority": 21, + "parents": [ + 151677 + ], + "children": [ + 151696 + ], + "area": 1807856.632758, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151696, + "strid": "6c008b15-de4b-4035-a0df-1ad231ec715a", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1204.794, + 2055.895, + 706.4579999999999, + 59.0329999999999 + ], + "priority": 22, + "parents": [ + 151695 + ], + "children": [], + "area": 2476929.96063, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. ROC-AUC for future polyp recurrence predicted by time-to-\nevent model over a 6-year period from the date of index polypectomy" + }, + { + "id": 151697, + "strid": "69b623c0-de33-42b7-831b-67c6868b47b8", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1191.408, + 2155.331, + 1118.188, + 370.97800000000007 + ], + "priority": 23, + "parents": [ + 151677 + ], + "children": [ + 151698 + ], + "area": 2567878.596048, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151698, + "strid": "ae9e58ad-8710-40a3-8128-46dec2c11c57", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1199.494, + 2548.923, + 1092.8749999999998, + 58.69900000000007 + ], + "priority": 24, + "parents": [ + 151697 + ], + "children": [], + "area": 3057417.8449619994, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Comparison of model performance between binary classification and time-to-event approach.\nScores reported are ROC-AUC. For time-to-event approach, the ROC-AUC at the 5-year timepoint is reported." + }, + { + "id": 151678, + "strid": "79967bfb-cd85-4fdb-bfa0-fe936486c776", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1558.646, + 2642.096, + 384.2950000000001, + 32.090000000000146 + ], + "priority": 25, + "parents": [ + 151701 + ], + "children": [ + 151699 + ], + "area": 4118092.362016, + "iscrowd": 0, + "segmentation": [], + "text": "Key Findings and Conclusions" + }, + { + "id": 151699, + "strid": "b1ed9c59-4005-40c5-8522-6b4bdb7a8314", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1180.37, + 2684.77, + 1133.1480000000001, + 213.99099999999999 + ], + "priority": 26, + "parents": [ + 151678 + ], + "children": [], + "area": 3169021.9648999996, + "iscrowd": 0, + "segmentation": [], + "text": "Overall, weak signals from both models in the holdout validation set indicates that neither approach was\nsuccessful in prognostic prediction. The large discrepancy between re-substitution and validation performance\nsuggests model overfitting. The potential for false signals is high if problems such as data leakage exists.\n\nAlthough time-to-event method has better performance than binary classification approach, the improvement in\nthe holdout validation set is small. An entirely separate test set has been withheld and will be used to test our\nfinal models at conclusion of the INCISE project." + }, + { + "id": 151679, + "strid": "086bbf76-7cc8-4281-8622-2a82ccf34f01", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1676.474, + 2936.005, + 148.34100000000012, + 26.804000000000087 + ], + "priority": 27, + "parents": [ + 151701 + ], + "children": [ + 151700 + ], + "area": 4922136.04637, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 151700, + "strid": "7c50a3cf-2166-4e4c-8255-0156cc347374", + "image_id": 206402, + "image_name": "21313.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1179.675, + 2977.781, + 1082.1179999999997, + 314.72400000000016 + ], + "priority": 28, + "parents": [ + 151679 + ], + "children": [], + "area": 3512813.8011749997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55934, + "strid": "b87988a1-496b-492c-9faa-79a7bc0d6f2e", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 230.47, + 256.03, + 147.84, + 168.97000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 55917, + 55918, + 55919, + 55925, + 55930, + 55931, + 55920 + ], + "area": 59007.234099999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55917, + "strid": "52570ece-1fcd-43d3-a303-3346e7cf3426", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 450.504, + 270.363, + 1184.467, + 137.522 + ], + "priority": 1, + "parents": [ + 55934 + ], + "children": [], + "area": 121799.61295200001, + "iscrowd": 0, + "segmentation": [], + "text": "Heparin stability in parenteral nutrition bags\nprepared in a neonatal intensive care unit" + }, + { + "id": 55918, + "strid": "9e6f48f6-1966-431f-8c5a-a6baef291431", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 97.086, + 496.609, + 1869.121, + 264.694 + ], + "priority": 2, + "parents": [ + 55934 + ], + "children": [], + "area": 48213.781374, + "iscrowd": 0, + "segmentation": [], + "text": "A. Foinard?, M. Perez?, B. Décaudin*, C. Barthélémy?, A. Tournoys?, L. Storme’*, P. Odou?2\n1. Laboratoire de Biopharmacie, Pharmacie Galénique et Hospitaliére, Faculté de Pharmacie, Lille, France\n2. — Institut de Pharmacie, CHRU de Lille, France\n3. Institut d’Hématologie, Centre de Biologie Pathologie, CHRU de Lille, France\n4 Clinique de Médecine Néonatale, Pédle Femme Mére Nouveau-né, Hopital Jeanne de Flandre, CHRU de Lille,\nFrance" + }, + { + "id": 55919, + "strid": "c382f6de-3443-4c4f-92de-7e18442ef287", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 381.989, + 835.24, + 337.152, + 47.31899999999996 + ], + "priority": 3, + "parents": [ + 55934 + ], + "children": [ + 55921 + ], + "area": 319052.49236, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 55921, + "strid": "b69ef4fc-0cfb-43d4-9efa-4dab087f60ad", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.732, + 943.187, + 857.667, + 666.91 + ], + "priority": 4, + "parents": [ + 55919 + ], + "children": [], + "area": 114816.039884, + "iscrowd": 0, + "segmentation": [], + "text": "Heparin is commonly given in our neonatal\nintensive care unit (NICU) by continuous IV\ninfusion. For administration, heparin is diluted in\nparenteral nutrition bags and administered over a\nperiod of 24h with an in-line IV filtration. However,\nthere are few and contradictory data on heparin\nstability in parenteral nutrition bags, especially on\nits compatibility with 50% dextrose mainly present\nin bags (1).\n\nThe aim of our in vitro study was to determine\nheparin stability in bags of binary parenteral\nnutrition (BPN) prepared in a NICU after 24h of\ninfusion and to assess its interaction or not with\n50% dextrose." + }, + { + "id": 55920, + "strid": "44c11b89-efcb-4f61-836b-f2dff194394a", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1396.402, + 835.24, + 224.76800000000003, + 48.798 + ], + "priority": 5, + "parents": [ + 55934 + ], + "children": [ + 55922, + 55923 + ], + "area": 1166330.80648, + "iscrowd": 0, + "segmentation": [], + "text": "METHODS" + }, + { + "id": 55922, + "strid": "a167277d-090a-442f-880c-8a04d2e77dfd", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1076.995, + 932.836, + 857.6669999999999, + 233.6400000000001 + ], + "priority": 6, + "parents": [ + 55920 + ], + "children": [], + "area": 1004659.7078199999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55923, + "strid": "021331d9-1607-462c-b9f8-90c3ae4b37ba", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1082.91, + 1176.828, + 856.1879999999999, + 479.1100000000001 + ], + "priority": 7, + "parents": [ + 55920 + ], + "children": [], + "area": 1274398.80948, + "iscrowd": 0, + "segmentation": [], + "text": "These bags (n=6 per type) were infused over a\nperiod of 24h with and without an in-line filter.\nBags just being prepared (references for others\nmeasures), after 24-h infusion and in effluents at\nthe end of infusion line after 24h were analyzed.\n1-mL samples were diluted by saline (1/10°) and\ncitrated plasma (1/20°) and heparin activity was\nmeasured using a chromogenic anti-Xa method\n(Biophen Heparin LRT®, Neuville-Sur-Oise, France)\nby a Sysmex CA-7000 system." + }, + { + "id": 55925, + "strid": "1e93dc6e-e076-4091-a19c-ffa309225bb5", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 937.149, + 1711.026, + 183.78599999999994, + 42.25 + ], + "priority": 8, + "parents": [ + 55934 + ], + "children": [ + 55926, + 55928, + 55924 + ], + "area": 1603486.3048740001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 55924, + "strid": "492a27b2-e9fd-4a5c-8883-0a0e789d7722", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.732, + 1809.89, + 1709.418, + 139.00099999999998 + ], + "priority": 9, + "parents": [ + 55925 + ], + "children": [], + "area": 220321.52948, + "iscrowd": 0, + "segmentation": [], + "text": "Our results show that values of heparin activity measured in bags and effluents, with and without in-line\nfiltration, 24h-infusion for both types of bag assessed (Graphs 1 and 2). Results are expressed in median\nvalues (min-max) in percent." + }, + { + "id": 55926, + "strid": "928f5257-d34c-4197-a5d4-c4863d1313b2", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 109.744, + 1960.838, + 1879.878, + 481.73000000000025 + ], + "priority": 10, + "parents": [ + 55925 + ], + "children": [ + 55927 + ], + "area": 215190.205472, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55927, + "strid": "bb89d92e-0828-429a-83a2-ff3dc983154e", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 218.349, + 2455.472, + 1486.59, + 47.04399999999987 + ], + "priority": 11, + "parents": [ + 55926 + ], + "children": [], + "area": 536149.855728, + "iscrowd": 0, + "segmentation": [], + "text": "Graph 1. Results of heparin activity in parenteral nutrition bags, including sodium heparin (77 Ul/mL)." + }, + { + "id": 55928, + "strid": "35c2aacc-450a-440a-8517-1589929df04f", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 109.475, + 2543.437, + 1876.383, + 486.56899999999996 + ], + "priority": 12, + "parents": [ + 55925 + ], + "children": [ + 55929 + ], + "area": 278442.76557499997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55929, + "strid": "1e818fd1-ba71-4de9-8004-950f29d38310", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 218.349, + 3058.233, + 1630.41, + 38.978999999999814 + ], + "priority": 13, + "parents": [ + 55928 + ], + "children": [], + "area": 667762.117317, + "iscrowd": 0, + "segmentation": [], + "text": "Graph 2. Results of heparin activity in bags containing only sodium heparin diluted in 50% dextrose (193 Ul/mL)" + }, + { + "id": 55930, + "strid": "54747cd6-df66-4513-b5b4-b64a8ec0e609", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 398.46, + 3206.085, + 301.08199999999994, + 40.322999999999865 + ], + "priority": 14, + "parents": [ + 55934 + ], + "children": [ + 55932 + ], + "area": 1277496.6291, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 55932, + "strid": "fa0c4eb3-95bb-4bc2-a926-212857ba4da5", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.916, + 3303.758, + 854.856, + 286.2959999999998 + ], + "priority": 15, + "parents": [ + 55930 + ], + "children": [], + "area": 406084.718328, + "iscrowd": 0, + "segmentation": [], + "text": "There is no loss of heparin activity when drug is\ninfused over 24h for both types of bag prepared,\nwith and without filtration, showing heparin in vitro\nactivity remains stable during this period and there\nis no interaction of drug with other nutrient\ncomponents of bags, especially 50% dextrose." + }, + { + "id": 55931, + "strid": "793a1484-fa50-4a79-821a-63e43120fe94", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1374.287, + 3204.741, + 264.78999999999996, + 44.35600000000022 + ], + "priority": 16, + "parents": [ + 55934 + ], + "children": [ + 55933 + ], + "area": 4404233.8946670005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 55933, + "strid": "8aa1661b-cffe-47aa-b159-55b5bed08088", + "image_id": 202700, + "image_name": "119115.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1079.926, + 3305.102, + 846.7919999999999, + 299.7370000000001 + ], + "priority": 17, + "parents": [ + 55931 + ], + "children": [], + "area": 3569265.5824519997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82089, + "strid": "0c77e1f4-4dd1-4237-bcf7-d857804eb63f", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 73.52, + 20.53, + 650.41, + 50.03 + ], + "priority": -1, + "parents": [], + "children": [ + 82058, + 82061, + 82059, + 82086, + 82060, + 82057 + ], + "area": 1509.3656, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82057, + "strid": "8961610e-74ac-4351-b925-e1cb492726a9", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 92.389, + 105.527, + 3915.946, + 279.71 + ], + "priority": 1, + "parents": [ + 82089 + ], + "children": [], + "area": 9749.534002999999, + "iscrowd": 0, + "segmentation": [], + "text": "The effect.of large ungulates on sagebrush plant communities:\nSOIL DEPTH CONTROLS THE MAGNITUDE OF COMMUNITY CHANGE" + }, + { + "id": 82086, + "strid": "6cd4d685-b9f5-4eb2-8aaa-8e94c5737d74", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1571.352, + 540.706, + 1614.655, + 185.10800000000006 + ], + "priority": 2, + "parents": [ + 82089 + ], + "children": [], + "area": 849639.4545120001, + "iscrowd": 0, + "segmentation": [], + "text": "Kyle C. Nehring', Kari E. Veblen’, Tamara J. Zelikova?\n1 Utah State University, Wildland Resources Department and Ecology’Center\n2 University of Wyoming, Department of Biology" + }, + { + "id": 82058, + "strid": "921c1d52-9cc8-45f9-a15a-3099428eb501", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 593.698, + 560.01, + 390.366, + 56.759000000000015 + ], + "priority": 3, + "parents": [ + 82089 + ], + "children": [ + 82062, + 82063 + ], + "area": 332476.81698, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 82062, + "strid": "c42ac579-7207-48c0-bb87-ee287e76a28f", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.623, + 714.312, + 1331.773, + 533.0500000000001 + ], + "priority": 4, + "parents": [ + 82058 + ], + "children": [], + "area": 86162.456376, + "iscrowd": 0, + "segmentation": [], + "text": "Sagebrush (Artemisia tridentata) dominated(rangelands in North\nAmerica have experienced major changes in‘herbivory regime in\nthe last 200 years, including the introduction-of domestic livestock\nand in some cases wild ungulates. Herbivory can greatly affect\nsemi-arid plant communities by causing plant community state\nshifts. Research using single herbivore species models has shown\nthat plant community composition-shifts may differ according to\nherbivore feeding guild. However, little is known how overlapping\nuse by multiple guilds of large ungulates affect plant community\ncomposition and alternative state shifts." + }, + { + "id": 82063, + "strid": "f739b4e5-e80f-4d46-a50b-2d3b011d1a4d", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.029, + 1291.64, + 1234.7, + 175.413 + ], + "priority": 5, + "parents": [ + 82058 + ], + "children": [], + "area": 160200.81756, + "iscrowd": 0, + "segmentation": [], + "text": "Research Question:\n\nDo different;combinations of use by large ungulate\nherbivores alter sagebrush plant communities differently?" + }, + { + "id": 82059, + "strid": "02c27e72-70b7-411c-8db3-c8311a8c0325", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 654.034, + 1570.711, + 276.784, + 56.14499999999998 + ], + "priority": 6, + "parents": [ + 82089 + ], + "children": [ + 82072, + 82079, + 82064, + 82071, + 82065 + ], + "area": 1027298.398174, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 82064, + "strid": "aacb1760-13fb-4fd2-bc71-401090f981b9", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.029, + 1703.774, + 1244.918, + 246.94000000000005 + ], + "priority": 7, + "parents": [ + 82059 + ], + "children": [], + "area": 211317.38544599997, + "iscrowd": 0, + "segmentation": [], + "text": "We surveyed nine, paired, long-term (60+ Years) exclosures in\nsagebrush dominated plant communities on‘the Colorado Plateau.\nThree ungulate species overlap within thesstudy sites; mule deer\n(Odocoileus hemionus ; browser), elk (Cervus canadensis; mixed\nfeeder), and cattle (Bos taurus; grazer):" + }, + { + "id": 82071, + "strid": "91f2994e-4137-4779-b8b4-b0e3b1727c21", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 161.186, + 1990.798, + 568.919, + 556.8509999999999 + ], + "priority": 8, + "parents": [ + 82059 + ], + "children": [ + 82080 + ], + "area": 320888.766428, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82080, + "strid": "76a3ff28-95f7-4434-adc2-2304bca3f692", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 178.59, + 2578.046, + 481.716, + 40.06899999999996 + ], + "priority": 9, + "parents": [ + 82071 + ], + "children": [], + "area": 460413.23514, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Study site locations." + }, + { + "id": 82072, + "strid": "f9d006c6-f207-4c0b-9601-f8fc8a9629a7", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 804.238, + 1989.074, + 608.5710000000001, + 549.9560000000001 + ], + "priority": 10, + "parents": [ + 82059 + ], + "children": [ + 82081 + ], + "area": 1599688.8956120003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82081, + "strid": "c928e2cb-da4a-4f30-a6be-7df9be581b07", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 800.992, + 2568.252, + 585.0049999999999, + 86.3710000000001 + ], + "priority": 11, + "parents": [ + 82072 + ], + "children": [], + "area": 2057149.305984, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Aer to of study site\nexclosures ing treatment types." + }, + { + "id": 82079, + "strid": "0e17015a-f82a-4a08-9ede-4ce24bde9846", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 124.373, + 2702.434, + 1306.193, + 618.6459999999997 + ], + "priority": 12, + "parents": [ + 82059 + ], + "children": [], + "area": 336109.82388200006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82065, + "strid": "a36c67ca-9c35-4600-95a3-824cfd0ed1de", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.732, + 3365.936, + 1307.93, + 141.35199999999986 + ], + "priority": 13, + "parents": [ + 82059 + ], + "children": [], + "area": 423205.86515200004, + "iscrowd": 0, + "segmentation": [], + "text": "Data‘Analysis included NMDS, Two-way ANOVA (Factors: site, herbivory\ntreatment; Response: shrub and grass counts), MANOVA» and Bray-Curtis\nDissimilarity Index (community composition)." + }, + { + "id": 82060, + "strid": "5aec9a80-f368-4fdd-aaff-c772434237d5", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2285.193, + 789.016, + 222.35800000000017, + 54.841999999999985 + ], + "priority": 14, + "parents": [ + 82089 + ], + "children": [ + 82077, + 82073, + 82074, + 82066, + 82067, + 82078 + ], + "area": 1803053.840088, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 82067, + "strid": "ded3d6a0-c774-4b88-8c2b-21a3f06fecdf", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1620.023, + 912.593, + 1529.082, + 414.81000000000006 + ], + "priority": 15, + "parents": [ + 82060 + ], + "children": [], + "area": 1478421.649639, + "iscrowd": 0, + "segmentation": [], + "text": "Plant'community response to herbivory variedby soil depth.\n\nDeep Soils (>100 cm):\n\nWildlife herbivory (LX) decreased all size classes of sagebrush (Fig. 3a) and\nshifted the plant community from sagebrush to-bunch grass dominated (Fig. 3b).\nThe addition of cattle herbivory (OX) did notsignificantly change the sagebrush\ncounts (Fig. 3a) or plant community composition (LX; Fig.3a; Bray-Curtis analysis -\nnot shown)." + }, + { + "id": 82078, + "strid": "4ee8a038-dac2-4e44-a287-545f11f0b088", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1643.825, + 1342.575, + 775.7989999999998, + 625.8109999999999 + ], + "priority": 16, + "parents": [ + 82060 + ], + "children": [ + 82087 + ], + "area": 2206958.349375, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82087, + "strid": "f0a75edf-e863-4d53-aac6-82724f123885", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1641.914, + 1975.23, + 781.5330000000001, + 84.0659999999998 + ], + "priority": 17, + "parents": [ + 82078 + ], + "children": [], + "area": 3243157.79022, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3a. Sagebrush counts by height class in\nsoils > 100cm in the three exclosure treatments." + }, + { + "id": 82077, + "strid": "a121db7a-1f93-4d87-83b8-99d51efefa17", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2483.412, + 1402.915, + 655.1190000000001, + 456.8600000000001 + ], + "priority": 18, + "parents": [ + 82060 + ], + "children": [ + 82088 + ], + "area": 3484015.94598, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82088, + "strid": "8c9e393a-29da-44d9-9702-ec5989224550", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2496.428, + 1883.774, + 588.46, + 129.33199999999988 + ], + "priority": 19, + "parents": [ + 82077 + ], + "children": [], + "area": 4702706.159271999, + "iscrowd": 0, + "segmentation": [], + "text": "comparing DX exclosure (fenced\narea) and OX treatment.\n\ncomparing DX of deep soiled site" + }, + { + "id": 82066, + "strid": "5045ec05-7ce1-40d3-9a99-3f8ba6d1ba48", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1620.023, + 2126.614, + 1538.8130000000003, + 318.7109999999998 + ], + "priority": 20, + "parents": [ + 82060 + ], + "children": [], + "area": 3445163.5921219997, + "iscrowd": 0, + "segmentation": [], + "text": "Moderately Deep Soils (<100 cm):\n\nHerbivory by large ungulates (LX;QX) did not significantly alter overall plant\ncommunity composition compared to.no herbivory (DX; Bray-Curtis- not shown) but\ndid change the size distribution of-sagebrush (Fig. 4a). Wildlife herbivory (LX)\ndecreased larger sagebrush (50-100 and 100-200cm; Fig. 4a). The addition of\ncattle grazing (OX) increased.small sagebrush (<15cm; Fig. 4a)." + }, + { + "id": 82073, + "strid": "86ed8867-c709-404f-ab1f-b9f407e5f309", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1648.997, + 2494.206, + 767.1789999999999, + 624.087 + ], + "priority": 21, + "parents": [ + 82060 + ], + "children": [ + 82082 + ], + "area": 4112938.2113820002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82082, + "strid": "c5f312ae-894b-4021-bb9a-14d8ffee3c12", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1643.449, + 3133.395, + 772.3020000000001, + 77.23000000000002 + ], + "priority": 22, + "parents": [ + 82073 + ], + "children": [], + "area": 5149574.879355, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4a. Sagebrush counts by height in\nsoils < 100cm in the three exclosure tre nts." + }, + { + "id": 82074, + "strid": "38eba244-0f10-4d5b-aa1a-d5f38ee13a39", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2486.86, + 2556.27, + 653.395, + 479.27199999999993 + ], + "priority": 23, + "parents": [ + 82060 + ], + "children": [ + 82083 + ], + "area": 6357085.6122, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82083, + "strid": "676e1087-b9a0-4818-bbfa-5970c1234b74", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2497.524, + 3061.633, + 558.864, + 127.79199999999992 + ], + "priority": 24, + "parents": [ + 82074 + ], + "children": [], + "area": 7646501.896691999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4b. Photo of shallow soiled\nstudy site comparing LX exclosure\n(left) to OX treatment (rightt)." + }, + { + "id": 82061, + "strid": "dce13fdc-495c-4ccd-af30-52432c306709", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3846.437, + 559.114, + 323.72800000000007, + 54.79600000000005 + ], + "priority": 25, + "parents": [ + 82089 + ], + "children": [ + 82069, + 82068, + 82070, + 82076, + 82075 + ], + "area": 2150596.7768180002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 82068, + "strid": "0e346cd8-cae2-479f-ac19-c7a0c407d34b", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3340.088, + 694.848, + 1265.1110000000003, + 156.923 + ], + "priority": 26, + "parents": [ + 82061 + ], + "children": [], + "area": 2320853.466624, + "iscrowd": 0, + "segmentation": [], + "text": "Soil depth appears to mediate the size and scale of plant\ncommunity effects thatlarge ungulate herbivores have on\nsagebrush plant communities:" + }, + { + "id": 82076, + "strid": "66cd99f6-ed27-4594-84fc-4b703721c42c", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3390.235, + 913.299, + 1177.4910000000004, + 541.336 + ], + "priority": 27, + "parents": [ + 82061 + ], + "children": [ + 82085 + ], + "area": 3096298.2352650003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82085, + "strid": "d7f0a926-753b-4941-a4ad-0106110a12bc", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3468.353, + 1545.547, + 1108.2640000000001, + 170.70100000000002 + ], + "priority": 28, + "parents": [ + 82076 + ], + "children": [], + "area": 5360502.5740910005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. * Sagebrush in ep soil sites used to persist even with\nherbivory. What is casi hs stat shift now? We think that a\ndecrease in pre te), ombined with increased wild ungulate use\nhas caused the shi sagebrush to grass." + }, + { + "id": 82075, + "strid": "7950074f-ce05-48e1-af30-b9725c9115f8", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3378.167, + 1840.811, + 1260.243, + 543.059 + ], + "priority": 29, + "parents": [ + 82061 + ], + "children": [ + 82084 + ], + "area": 6218566.973436999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82084, + "strid": "b18b1663-4b6e-45f2-93c7-8aab3a7a7b9e", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3481.285, + 2463.712, + 1091.4520000000002, + 171.99400000000014 + ], + "priority": 30, + "parents": [ + 82075 + ], + "children": [], + "area": 8576883.62992, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6. In moderately eep)soil sites herbivory does not cause a\nstate shift in the com composition. However, herbivory type is\nimportant determining he size and recruitment of sagebrush, which\n\nin turn can effectet stem function." + }, + { + "id": 82069, + "strid": "e134c475-11a4-4ec9-bc6c-6dd85d0b8543", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3338.929, + 2697.362, + 1314.9279999999999, + 315.69900000000007 + ], + "priority": 31, + "parents": [ + 82061 + ], + "children": [], + "area": 9006300.205298001, + "iscrowd": 0, + "segmentation": [], + "text": "Our study shows that ecosystem effects of herbivores are\ncontext-dependent. In particular, the effects of herbivores on\nsagebrush'systems differ according to interactions between biotic\nfactors (wild vs. domestic herbivores) and abiotic factors-(soil\ndepth). This type of information can be incorporated‘into state and\ntransition models to improve their utility for land managers." + }, + { + "id": 82070, + "strid": "24b0d0ce-3c59-4da9-8423-e0ccd558b170", + "image_id": 203692, + "image_name": "120751.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3334.585, + 3112.983, + 1293.2060000000001, + 208.53499999999985 + ], + "priority": 32, + "parents": [ + 82061 + ], + "children": [], + "area": 10380506.417055001, + "iscrowd": 0, + "segmentation": [], + "text": "What is next?\nExperimental test of the interactive.effect of climatic factors and\nherbivory level on sagebrush stress and survival at the southern edge\nand central portion of Wyoming big sagebrush range." + }, + { + "id": 127243, + "strid": "e78f26c7-f0d7-40b9-a20f-18cdc41c777f", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 73.61, + 561.55, + 354.82, + 214.36 + ], + "priority": -1, + "parents": [], + "children": [ + 127219, + 127220, + 127221, + 127241, + 127229, + 127228, + 127218 + ], + "area": 41335.695499999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127218, + "strid": "942442ab-3e00-4d0b-8c0c-d47d4c052560", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 38.932, + 210.244, + 2500.83, + 302.79999999999995 + ], + "priority": 1, + "parents": [ + 127243 + ], + "children": [], + "area": 8185.219408000001, + "iscrowd": 0, + "segmentation": [], + "text": "Expanding Genome3D with models for\nhuman proteins from reir" + }, + { + "id": 127219, + "strid": "5e672d5c-18fa-4d79-8ec5-fdad8adefdcd", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 124.297, + 764.847, + 3063.874, + 168.02300000000002 + ], + "priority": 2, + "parents": [ + 127243 + ], + "children": [], + "area": 95068.187559, + "iscrowd": 0, + "segmentation": [], + "text": "ELIXIR funded collaboration between Genome3D and SWISS-MODEL: The implementation study aims to extend predicted domain structures in Genome3D\nwith homology models built by SWISS-MODEL for human proteins. The CATH Functional Families (FunFams) in Genome3D are being used to send templates\nto SWISS MODEL and the models are being integrated in Genome3D. There are also plans to extend Genome3D with predicted data from other resources." + }, + { + "id": 127220, + "strid": "13e858c5-8bd3-4500-8b56-ef84e3b0a5f9", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 682.367, + 1034.405, + 356.4580000000001, + 58.44599999999991 + ], + "priority": 3, + "parents": [ + 127243 + ], + "children": [ + 127226, + 127222 + ], + "area": 705843.836635, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 127222, + "strid": "98bf715c-de7f-494b-9221-7e5f1e904735", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.376, + 1184.767, + 1477.614, + 338.68000000000006 + ], + "priority": 4, + "parents": [ + 127220 + ], + "children": [], + "area": 153280.41539200002, + "iscrowd": 0, + "segmentation": [], + "text": "Genome3D |! is a collaborative project that currently integrates five UK-\nbased structural resources to provide a unique perspective on sequence—\nstructure—function relationships. The main aim of Genome3D is to enable\ncomparisons between all the resources so that biologists can see where\npredictions agree and are therefore more trusted. Structural annotations\nand 3D model predictions are currently available for ten model genomes." + }, + { + "id": 127226, + "strid": "d3ef1565-11f6-4e84-a28c-c273ed229cce", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 107.713, + 1626.523, + 1492.901, + 608.9219999999998 + ], + "priority": 5, + "parents": [ + 127220 + ], + "children": [ + 127227 + ], + "area": 175197.67189899998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127227, + "strid": "78622a3a-da39-4fa0-ac46-bbe6cd8b0e2a", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 365.762, + 2262.316, + 1008.597, + 55.51899999999978 + ], + "priority": 6, + "parents": [ + 127226 + ], + "children": [], + "area": 827469.2247919999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Domain structure annotations in Genome3D resource." + }, + { + "id": 127221, + "strid": "9564b08f-9e72-436e-b8f8-e9efc189c6bf", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1885.863, + 1033.513, + 1144.198, + 71.19299999999998 + ], + "priority": 7, + "parents": [ + 127243 + ], + "children": [ + 127224, + 127223 + ], + "area": 1949063.9267189999, + "iscrowd": 0, + "segmentation": [], + "text": "CATH Functional Families (FunFams)" + }, + { + "id": 127223, + "strid": "b042135c-1b30-42d0-a7a5-d2afa971e28f", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1735.754, + 1189.517, + 1459.3249999999998, + 278.37799999999993 + ], + "priority": 8, + "parents": [ + 127221 + ], + "children": [], + "area": 2064708.890818, + "iscrowd": 0, + "segmentation": [], + "text": "CATH |! superfamilies are sub-classified into ~68,000 functionally coherent\nFunctional Families (FunFams) using distinguishing sequence patterns |!\nthat capture functional specificity of the relatives. They have been shown\nto be structurally coherent !4! and a good resource for searching templates\nfor homology modelling §!." + }, + { + "id": 127224, + "strid": "f3ebd306-2a62-49a1-957e-8aa595b4df61", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1761.99, + 1490.119, + 1401.448, + 737.49 + ], + "priority": 9, + "parents": [ + 127221 + ], + "children": [ + 127225 + ], + "area": 2625574.7768099997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127225, + "strid": "6ed17bf6-e167-4e38-a42e-421d3dd149bc", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1838.806, + 2235.737, + 1283.1550000000002, + 111.15000000000009 + ], + "priority": 10, + "parents": [ + 127224 + ], + "children": [], + "area": 4111086.610022, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. (A) CATH superfamilies are sub-classified into FunFams.\n(B) CATH FunFams have been found to be structurally coherent (avg. RMSD <2A)" + }, + { + "id": 127228, + "strid": "257c5158-707c-494a-ba64-c4a7df9e46da", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 427.204, + 2463.136, + 870.0530000000001, + 76.97200000000021 + ], + "priority": 11, + "parents": [ + 127243 + ], + "children": [ + 127237, + 127230, + 127236, + 127234, + 127233, + 127232, + 127231 + ], + "area": 1052261.551744, + "iscrowd": 0, + "segmentation": [], + "text": "Modelling in SWISS-MODEL" + }, + { + "id": 127230, + "strid": "d9101478-5938-4bd4-9b1c-d9da5a2afc8e", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.596, + 2620.491, + 1487.973, + 341.8319999999999 + ], + "priority": 12, + "parents": [ + 127228 + ], + "children": [], + "area": 326502.696636, + "iscrowd": 0, + "segmentation": [], + "text": "To provide high quality 3D structural models, Genome3D teams up with\nSWISS-MODEL |. SWISS-MODEL’s modelling engine ProMod3 is heavily\nused by our users (approx. 1.49 million models, i.e. 2.8 models per minute\nhave been requested over the past 12 months) and by our SWISS-MODEL\nRepository '7] which provides up-to-date models for more than 220'000\nprotein sequences of 13 selected core species." + }, + { + "id": 127236, + "strid": "8385d61a-0f6d-490b-9115-ce152ac16c42", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 121.099, + 3083.069, + 619.733, + 512.018 + ], + "priority": 13, + "parents": [ + 127228 + ], + "children": [], + "area": 373356.572831, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127234, + "strid": "5193503f-0cdc-4d8c-bac2-816b7ef96c33", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 127.239, + 3628.58, + 604.938, + 276.0169999999998 + ], + "priority": 14, + "parents": [ + 127228 + ], + "children": [], + "area": 461696.89062, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127237, + "strid": "ef3bb804-dc3b-43db-bd5c-b94ca8763726", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 764.906, + 3056.405, + 350.1790000000001, + 905.9670000000001 + ], + "priority": 15, + "parents": [ + 127228 + ], + "children": [ + 127235 + ], + "area": 2337862.52293, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127235, + "strid": "f8b9afc0-d5ad-4c57-85ab-38583f741aba", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 796.433, + 3997.878, + 782.066, + 98.36299999999983 + ], + "priority": 16, + "parents": [ + 127237 + ], + "children": [], + "area": 3184041.969174, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. All atom model is built given a template\nstructure and a target-template alignment." + }, + { + "id": 127231, + "strid": "730f3f9b-74ba-4a97-a121-1c04da41924e", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1121.235, + 3040.766, + 376.36799999999994, + 235.44500000000016 + ], + "priority": 17, + "parents": [ + 127228 + ], + "children": [], + "area": 3409413.26601, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127232, + "strid": "33d237d2-7bbe-4ea1-b7e4-86a63726f770", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1119.861, + 3329.02, + 463.76099999999997, + 276.895 + ], + "priority": 18, + "parents": [ + 127228 + ], + "children": [], + "area": 3728039.6662200005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127233, + "strid": "5f1c77ae-fbe3-45ed-a258-9b68f0a837ec", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1123.505, + 3679.033, + 452.385, + 237.3499999999999 + ], + "priority": 19, + "parents": [ + 127228 + ], + "children": [], + "area": 4133411.9706650004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127229, + "strid": "65980cb4-223a-4132-ac23-bfdee89bfb78", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1800.151, + 2464.357, + 1319.193, + 80.39100000000008 + ], + "priority": 20, + "parents": [ + 127243 + ], + "children": [ + 127239, + 127238 + ], + "area": 4436214.717907, + "iscrowd": 0, + "segmentation": [], + "text": "Model quality estimates in SWISS-MODEL" + }, + { + "id": 127238, + "strid": "2f23687d-146e-4760-abc7-f87970db28a4", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1730.339, + 2620.416, + 1464.4269999999997, + 182.27700000000004 + ], + "priority": 21, + "parents": [ + 127229 + ], + "children": [], + "area": 4534208.001024, + "iscrowd": 0, + "segmentation": [], + "text": "Estimating the quality of models is crucial since the suitability of a\nmodel depends on its local and global quality. In SWISS-MODEL, we\nuse our own estimator QMEANDisCo |! for this task." + }, + { + "id": 127239, + "strid": "42bce850-e1bc-4b8d-83de-936c9df9e660", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1784.32, + 2844.395, + 1312.972, + 571.8719999999998 + ], + "priority": 22, + "parents": [ + 127229 + ], + "children": [ + 127240 + ], + "area": 5075310.8864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127240, + "strid": "c36c8fd1-8c1c-4829-8ea7-ff058278388e", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1778.616, + 3456.936, + 1386.757, + 206.36500000000024 + ], + "priority": 23, + "parents": [ + 127239 + ], + "children": [], + "area": 6148561.680576, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. QMEANDisCo estimates local and global quality of a model by evaluating\nstatistical potentials of mean force and the consistency of a model (red) with structural\nfeatures predicted from sequence and with distance-based constraints extracted from\n\nan ensemble of experimentally determined structures (grey) of homologous proteins." + }, + { + "id": 127241, + "strid": "78ae0fe8-2392-45dd-9cb8-5e9091eb1a3c", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1805.933, + 3759.108, + 1308.1279999999997, + 76.03699999999981 + ], + "priority": 24, + "parents": [ + 127243 + ], + "children": [ + 127242 + ], + "area": 6788697.187764, + "iscrowd": 0, + "segmentation": [], + "text": "Genome3D and SWISS-MODEL webpages" + }, + { + "id": 127242, + "strid": "c5e3cad1-cadf-4da9-b086-e55838775882", + "image_id": 205458, + "image_name": "15167.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1729.929, + 3888.437, + 1471.029, + 224.98099999999977 + ], + "priority": 25, + "parents": [ + 127241 + ], + "children": [], + "area": 6726719.930973, + "iscrowd": 0, + "segmentation": [], + "text": "Genome3D can be accessed from http://genome3d.eu. SWISS-MODEL\nserver can be accessed from https://swissmodel.expasy.org. An API\nimplemented for this study can be found at https://github.com/CATH-\nSWISSMODEL/cath-swissmodel-api." + }, + { + "id": 99674, + "strid": "13208731-16b3-45a6-86a6-271f0fb64b6f", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 823.67, + 59.67, + 139.01, + 272.21999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 99669, + 99665, + 99672, + 99664, + 99666, + 99663, + 99670 + ], + "area": 49148.3889, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99663, + "strid": "d3be21d9-d35f-431c-b77b-12522a9df5f6", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1079.056, + 94.881, + 2107.589, + 275.7370000000001 + ], + "priority": 1, + "parents": [ + 99674 + ], + "children": [], + "area": 102381.91233600001, + "iscrowd": 0, + "segmentation": [], + "text": "Ultrastructural analysis of pollen in\nArabidopsis CTF7/ECO1 mutants" + }, + { + "id": 99664, + "strid": "b9f2f030-ff0e-4ffe-bd98-499fa96e69e0", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 157.054, + 428.405, + 3954.8769999999995, + 292.99199999999996 + ], + "priority": 2, + "parents": [ + 99674 + ], + "children": [], + "area": 67282.71887, + "iscrowd": 0, + "segmentation": [], + "text": "Pablo Bolafhos-Villegas! and Guang-Yuh Jauh?\n\nDepartment of Agricultural and Food Sciences, University of Costa Rica', Institute of Plant and Microbial Biology, Academia Sinica,\nTaipei, Taiwan2" + }, + { + "id": 99665, + "strid": "f6da2748-9f3f-433b-92d3-872d5d83e747", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 163.984, + 798.126, + 1520.496, + 1033.748 + ], + "priority": 3, + "parents": [ + 99674 + ], + "children": [ + 99673 + ], + "area": 130879.89398400001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99673, + "strid": "e3918d5f-0100-4a15-97cd-397abfb4550e", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 162.367, + 1884.223, + 1502.924, + 53.236000000000104 + ], + "priority": 4, + "parents": [ + 99665 + ], + "children": [], + "area": 305935.63584099995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. The eukaryotic cohesin complex is regulated by CTF7/ECO1." + }, + { + "id": 99672, + "strid": "093664f1-9c96-4da6-a6f8-cfd8fc7f2cb6", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 164.812, + 2012.616, + 1519.7070000000003, + 1441.752 + ], + "priority": 5, + "parents": [ + 99674 + ], + "children": [ + 99671 + ], + "area": 331703.26819200005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99671, + "strid": "4a1b41c7-789e-4ed2-b660-c420b14e3076", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 161.359, + 3507.586, + 1543.179, + 537.5799999999999 + ], + "priority": 6, + "parents": [ + 99672 + ], + "children": [], + "area": 565980.569374, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Homozygous ctf7-1 and ctf7-2 plants are dwarf.\n\n(a) Diagram shows genomic organization and T-DNA insertion sites in the\nArabidopsis CTF7 locus. Dark boxes represent exons. The primer sets used\nfor genotyping of both T-DNA lines) and Quantitative RT PCR are indicated.\n(b) The Arabidopsis CTF7/ECO1 protein colocalized with the ERF4 nuclear\nmarker in leaf protoplasts. (c) Homozygous ctf7-1 and ctf7-2 plants are dwarf\nand fail to develop mature siliques, however transformation of ctf7-1\nheterozygous plants with the full genomic sequence of CTF7 allowed normal\ndevelopment in complementation homozygotes (Com). (d) The T-DNA alleles\nshow distorted segregation raies (e) The T-DNA alleles are leaky." + }, + { + "id": 99666, + "strid": "8bc54a4c-3b8a-48ed-9b45-f7e35a644bc2", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1833.024, + 799.447, + 2286.502, + 1978.29 + ], + "priority": 7, + "parents": [ + 99674 + ], + "children": [ + 99667 + ], + "area": 1465405.537728, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99667, + "strid": "91a6ae4d-a957-414f-8498-6889ec5c73dd", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1833.926, + 2814.677, + 2300.753, + 658.0340000000001 + ], + "priority": 8, + "parents": [ + 99666 + ], + "children": [], + "area": 5161909.331902, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Anther dehiscence and microsporogenesis are defective in homozygous ctf7-1 plants.\n\n(a) Sections of developing anthers revealed that ctf7-1 had multiple developmental defects, including: a reduction in\nsize (all stages), unsynchronized release of free tetrads (stage 7), release of irregular microspores (stage 8), lack of\npollen mitosis II (stage 10), and failure of the septum (Sn) and stomium (St) to degenerate during anthesis (stage\n12).\n\n(b) Left, transmission electron microscopy (TEM) showed that homozygous ctf7-1 and ctf7-2 pollen grains were\nsmaller, lacked cytoplasm, a vegetative nucleus and sperm cells, right, staining with DNA dye DAPI (bottom)\nrevealed DNA fragmentation within homozygous ctf7-1 and ctf7-2 pollen, unlike wild-type pollen were vegetative\nnuclei and sperm cells were clearly observed. Abbreviations: T, tapetum; PMC, pollen mother cell; StR, stomium\nregium, E, epidermis; En, endothecium; ML, middle layer; V, vascular tissue; C, connective tissue; MC, meiotic cell;\nTd, tetrad; Msp, microspore; Sm, septum; PG, pollen grain; Fb, fiber bands, St, stomium. Scale bars = in a, 25 um\nfor stages 5-8 and 50 um for stages 9-12; in b left, 50 um, and right: 2 um." + }, + { + "id": 99669, + "strid": "790e3d26-3280-4b87-85bc-108d06307dfc", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1888.7, + 3608.353, + 320.01599999999985, + 47.389000000000124 + ], + "priority": 9, + "parents": [ + 99674 + ], + "children": [ + 99668 + ], + "area": 6815096.3111000005, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 99668, + "strid": "bca71418-43fe-40a9-8ea2-956ebe76f812", + "image_id": 204356, + "image_name": "121980.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1889.308, + 3669.174, + 2193.296, + 175.15999999999985 + ], + "priority": 10, + "parents": [ + 99669 + ], + "children": [], + "area": 6932199.791592, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99670, + "strid": "fb21b7a4-9acc-466a-95bf-b103615fcfd4", + "image_id": 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enzyme associated with 88 diseases\nin the Open Targets Platform, based on supporting\nevidence including text mining, drugs and genetic\n\nevidence." + }, + { + "id": 131269, + "strid": "1ace8983-9871-4ca5-ad7f-98209a497793", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 128.068, + 3022.131, + 1238.802, + 681.2490000000003 + ], + "priority": 7, + "parents": [ + 131261 + ], + "children": [], + "area": 387038.27290800004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131270, + "strid": "3151d901-6747-4b3d-87e2-be3b073686ef", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 27.807, + 3793.917, + 1355.679, + 221.4720000000002 + ], + "priority": 8, + "parents": [ + 131261 + ], + "children": [], + "area": 105497.450019, + "iscrowd": 0, + "segmentation": [], + "text": "One of the diseases associated with GUCY1A1 is Moyamoya\ndisease with early-onset achalasia. The association is supported\nby ars751701114, a SNP that changes amino acid residue 517." + }, + { + "id": 131266, + "strid": "a8dc64e0-cea5-4095-a4b1-95a055c51d16", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1502.73, + 1006.204, + 1142.6969999999997, + 1050.7859999999998 + ], + "priority": 9, + "parents": [ + 131261 + ], + "children": [], + "area": 1512052.93692, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131268, + "strid": "d0eeac2e-756d-4c11-9631-663546f09b40", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1485.248, + 2178.269, + 1186.37, + 629.6289999999999 + ], + "priority": 10, + "parents": [ + 131261 + ], + "children": [], + "area": 3235269.6757119996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131267, + "strid": "beb9b054-807e-47d9-bbe0-a61331c1e807", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1524.648, + 2950.678, + 1084.403, + 746.4090000000001 + ], + "priority": 11, + "parents": [ + 131261 + ], + "children": [], + "area": 4498745.311344, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131271, + "strid": "dcf55240-79bc-4c07-8843-2ad777183116", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1540.413, + 3792.83, + 1025.964, + 220.7130000000002 + ], + "priority": 12, + "parents": [ + 131261 + ], + "children": [], + "area": 5842524.63879, + "iscrowd": 0, + "segmentation": [], + "text": "PepVep and the next-generation of UniProt\nProtVista (PMID: 28334231) to be integrated into\nthe Open Targets Platform." + }, + { + "id": 131273, + "strid": "23789f73-8bf6-47f0-854e-31b6f19fa51e", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2957.591, + 890.979, + 340.0749999999998, + 52.548 + ], + "priority": 13, + "parents": [ + 131274 + ], + "children": [], + "area": 2635151.471589, + "iscrowd": 0, + "segmentation": [], + "text": "Open Targets" + }, + { + "id": 131265, + "strid": "0ec12b09-7bd4-44a5-ad60-e5ad5b125efb", + "image_id": 205598, + "image_name": "15389.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2715.229, + 1163.443, + 564.9740000000002, + 1586.468 + ], + "priority": 14, + "parents": [ + 131274 + ], + "children": [], + "area": 3159014.173447, + "iscrowd": 0, + "segmentation": [], + "text": "Denise Carvalho-Silva,\nJohn Berrisford, Miguel\nCarmona, Noemi Del\nToro Ayllon, Antonio\nFabregat, Adam\nFaulconbridge, Leyla\nGarcia, Anna Gaulton,\nDavid Hulcoop, Andrew\nHercules, Henning\nHermjakob, Andrew\nJarnuczak, Andrew\nLeach, Elaine McAuley,\nJuan Felipe Mosquera,\nAndrew Nightingale,\nDavid Ochoa, Sandra\nOrchard, Vivek Poddar,\nPablo Porras, Gustavo\nSalazar, Anjali\nShrivastava, Michaela\nSpitzer, Sameer\nVelankar, Juan Antonio\nVizcaino, lan Dunham,\nRob Finn, Maria-Jesus\nMartin, and Open\nTargets Consortium" + }, + { + "id": 134643, + "strid": "78fa722b-dead-486a-b0c9-da6cd9a600b1", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 41.55, + 22.68, + 195.36, + 185.82999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 134621, + 134620, + 134619, + 134615, + 134618, + 134617, + 134616, + 134622 + ], + "area": 942.3539999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134615, + "strid": "f276ab73-1b26-406e-9c3d-f889b25c3c12", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 989.974, + 69.589, + 2218.251, + 200.40299999999996 + ], + "priority": 1, + "parents": [ + 134643 + ], + "children": [], + "area": 68891.300686, + "iscrowd": 0, + "segmentation": [], + "text": "Evapotranspiration in the Congo Basin Determined\nby a Remotely Sensed Water Balance" + }, + { + "id": 134616, + "strid": "8bdfaa41-19bf-4ee8-a923-9464abbfcf1b", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1130.99, + 304.187, + 1933.418, + 144.25 + ], + "priority": 2, + "parents": [ + 134643 + ], + "children": [], + "area": 344032.45513, + "iscrowd": 0, + "segmentation": [], + "text": "Michael W. Burnett, Gregory R. Quetin, & Alexandra G. Konings\n\nDepartment of Earth System Science, Stanford University" + }, + { + "id": 134617, + "strid": "30fefb70-d0be-4262-8962-4e4a711433c5", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 147.771, + 537.553, + 808.309, + 40.63700000000006 + ], + "priority": 3, + "parents": [ + 134643 + ], + "children": [ + 134623 + ], + "area": 79434.74436299999, + "iscrowd": 0, + "segmentation": [], + "text": ". Introduction: the Water Balance" + }, + { + "id": 134623, + "strid": "1e6f7203-8f77-4870-ad42-d6708ad0f337", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 78.378, + 655.476, + 953.302, + 847.6650000000001 + ], + "priority": 4, + "parents": [ + 134617 + ], + "children": [], + "area": 51374.897928, + "iscrowd": 0, + "segmentation": [], + "text": "There are almost no measurements of ET in the\nCongo Basin, except for short-term studies from single\nlocations and water balance-based estimates from\nseveral decades ago. Here, we use remote sensing to\ncalculate basin-wide monthly ET from 2002-2016 using\na water balance approach:\n\nET =P—R ds\n7 dt\nET = Evapotranspiration\nP = Precipitation\nR = Surface Runoff (i.e. Congo River discharge)\n\ndS/dt = Change in terrestrial water storage (e.g.\ngroundwater, soil water)\n\nBecause the Congo River drains the entire basin, this\napproach is applied only at the whole-basin-scale." + }, + { + "id": 134618, + "strid": "3b46180b-1644-48a4-8270-cbf01e654a8c", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 427.22, + 1606.553, + 560.6, + 50.42699999999991 + ], + "priority": 5, + "parents": [ + 134643 + ], + "children": [ + 134626, + 134641, + 134625, + 134624 + ], + "area": 686351.5726600001, + "iscrowd": 0, + "segmentation": [], + "text": "2. Water Balance Inputs" + }, + { + "id": 134624, + "strid": "64c776fe-bc4c-4254-9182-d3ae3dc3f187", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.726, + 1717.303, + 1261.8309999999997, + 460.3799999999999 + ], + "priority": 6, + "parents": [ + 134618 + ], + "children": [], + "area": 133479.092978, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134641, + "strid": "789c1717-b4d6-46de-b212-6f062ca002ff", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.163, + 2228.785, + 1233.37, + 415.9839999999999 + ], + "priority": 7, + "parents": [ + 134618 + ], + "children": [], + "area": 171979.73695499997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134626, + "strid": "b0dd57c1-4883-43d1-bb85-6eca3b9cec5f", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 45.089, + 2746.491, + 1387.94, + 687.1999999999998 + ], + "priority": 8, + "parents": [ + 134618 + ], + "children": [], + "area": 123836.53269899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134625, + "strid": "e2e5ff79-8888-44a7-bd62-03623acb6f2a", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 159.219, + 3479.619, + 1124.232, + 44.684999999999945 + ], + "priority": 9, + "parents": [ + 134618 + ], + "children": [], + "area": 554021.457561, + "iscrowd": 0, + "segmentation": [], + "text": "Uncertainties in precipitation cause most of the uncertainty in ET." + }, + { + "id": 134620, + "strid": "7b352743-8cfb-4dc0-9682-e1e46d918d44", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1498.475, + 533.688, + 1012.4630000000002, + 51.39999999999998 + ], + "priority": 10, + "parents": [ + 134643 + ], + "children": [ + 134627, + 134628 + ], + "area": 799718.1257999999, + "iscrowd": 0, + "segmentation": [], + "text": "3. Monthly ET Estimates vs. Global Models" + }, + { + "id": 134627, + "strid": "9e1cf70a-6dca-4edc-a25a-7167d0e2fbe4", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1170.496, + 648.006, + 1673.1350000000002, + 628.9430000000001 + ], + "priority": 11, + "parents": [ + 134620 + ], + "children": [], + "area": 758488.430976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134628, + "strid": "4bfb6147-dd21-4d8c-bee0-bccb46c07eef", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1148.944, + 1323.204, + 1716.047, + 179.87999999999988 + ], + "priority": 12, + "parents": [ + 134620 + ], + "children": [], + "area": 1520287.2965759998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134619, + "strid": "4c9d2a47-9fe6-44a9-a50f-7b0230c1dd9a", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1663.649, + 1608.867, + 993.5909999999999, + 49.46100000000001 + ], + "priority": 13, + "parents": [ + 134643 + ], + "children": [ + 134631, + 134633, + 134630, + 134632, + 134629 + ], + "area": 2676589.975683, + "iscrowd": 0, + "segmentation": [], + "text": "4. Water Cycle Seasonality and its Drivers" + }, + { + "id": 134629, + "strid": "b1dbe881-b13b-42fc-93a5-1d4496bb92a3", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1433.429, + 1690.309, + 1459.301, + 653.1769999999999 + ], + "priority": 14, + "parents": [ + 134619 + ], + "children": [], + "area": 2422937.939561, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134630, + "strid": "17ce1256-1114-4fa0-b6cc-c848ee2aa841", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1476.911, + 2410.851, + 1383.4300000000003, + 293.2159999999999 + ], + "priority": 15, + "parents": [ + 134619 + ], + "children": [], + "area": 3560612.3612610004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134632, + "strid": "7d8a19a8-ba38-4e2f-85a6-8d7b967d408b", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1474.227, + 2763.574, + 1380.068, + 86.53699999999981 + ], + "priority": 16, + "parents": [ + 134619 + ], + "children": [], + "area": 4074135.4072980005, + "iscrowd": 0, + "segmentation": [], + "text": "Surprisingly, evapotranspiration (ET) is lower during SON than MAM despite the\ngreater precipitation, allowing more water to enter the terrestrial storage system." + }, + { + "id": 134631, + "strid": "35067f37-5484-4d07-b2e9-7c935dec9c1a", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1474.216, + 2895.296, + 1380.726, + 257.913 + ], + "priority": 17, + "parents": [ + 134619 + ], + "children": [], + "area": 4268291.687936, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134633, + "strid": "b0c076e9-1465-4e70-85ba-4ae4714e0481", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1475.294, + 3216.021, + 1382.8680000000002, + 332.5039999999999 + ], + "priority": 18, + "parents": [ + 134619 + ], + "children": [], + "area": 4744576.485174, + "iscrowd": 0, + "segmentation": [], + "text": "Additional information is needed to test the VPD hypothesis, but PAR-\nnormalized Solar-induced Fluorescence (SIF) from GOME-2 suggests\nvegetation activity is actually greater in SON, which is normally expected to\ncause an increase in ET.\n\nBy contrast, the seasonal cycle of CERES R,, (and PAR) suggests ET might be\nlower in SON because of energy-limitations." + }, + { + "id": 134621, + "strid": "7dc51657-19e9-43ca-be25-898f6e30f2d2", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3305.677, + 540.793, + 480.56399999999985, + 48.99699999999996 + ], + "priority": 19, + "parents": [ + 134643 + ], + "children": [ + 134635, + 134636, + 134634, + 134637, + 134640 + ], + "area": 1787686.9818610002, + "iscrowd": 0, + "segmentation": [], + "text": "5. Long-term Trends" + }, + { + "id": 134634, + "strid": "e7c9bc72-b525-4bfb-b0e1-2cfc2c148381", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2959.898, + 644.83, + 1178.8769999999995, + 749.1809999999999 + ], + "priority": 20, + "parents": [ + 134621 + ], + "children": [], + "area": 1908631.0273400003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134640, + "strid": "cc5d22e9-6702-43c8-8f86-49be1181fdef", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2985.5, + 1426.852, + 1035.3919999999998, + 87.42900000000009 + ], + "priority": 21, + "parents": [ + 134621 + ], + "children": [], + "area": 4259866.646000001, + "iscrowd": 0, + "segmentation": [], + "text": "When scaled to precipitation, wet season water fluxes show\nseveral statistically-significant trends:" + }, + { + "id": 134635, + "strid": "d56aa7c0-ff6e-4bac-9081-aefcc00f2b3f", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3056.046, + 1518.388, + 1007.6550000000002, + 278.63599999999997 + ], + "priority": 22, + "parents": [ + 134621 + ], + "children": [], + "area": 4640263.573848, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134637, + "strid": "2e3b11e9-81c3-4a03-bb2a-440c38c4cd00", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2998.262, + 1881.972, + 404.73199999999997, + 412.53700000000003 + ], + "priority": 23, + "parents": [ + 134621 + ], + "children": [], + "area": 5642645.132664001, + "iscrowd": 0, + "segmentation": [], + "text": "R, and PAR have both\nsteadily increased\n(p<0.01) over the past\n18 years.\n\nMore work is needed to\ndetermine why this has\nnot led to increased ET\nacross the entire year." + }, + { + "id": 134636, + "strid": "91cfa98b-7789-4c60-8a3e-f7ff2f43175f", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3450.429, + 1833.869, + 650.4070000000002, + 554.421 + ], + "priority": 24, + "parents": [ + 134621 + ], + "children": [], + "area": 6327634.779801, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134622, + "strid": "4b296897-8f51-4ed0-ac1f-b56c80997042", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3312.2, + 2454.874, + 467.92999999999984, + 41.66100000000006 + ], + "priority": 25, + "parents": [ + 134643 + ], + "children": [ + 134642, + 134639, + 134638 + ], + "area": 8131033.662799999, + "iscrowd": 0, + "segmentation": [], + "text": "6. Future Directions" + }, + { + "id": 134638, + "strid": "cae4b78d-bddc-42f3-9a96-41e4b6178854", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2971.772, + 2561.028, + 1130.946, + 535.0369999999998 + ], + "priority": 26, + "parents": [ + 134622 + ], + "children": [], + "area": 7610791.301615999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134642, + "strid": "d63310c9-3196-416e-8339-a30ec89743ff", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2988.565, + 3167.411, + 915.1300000000001, + 42.22699999999986 + ], + "priority": 27, + "parents": [ + 134622 + ], + "children": [], + "area": 9466013.655215, + "iscrowd": 0, + "segmentation": [], + "text": "We are in the process of further linking our results to:" + }, + { + "id": 134639, + "strid": "dd59ea4f-0492-4209-9bf4-84379a967668", + "image_id": 205721, + "image_name": "15707.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2987.703, + 3260.812, + 1079.7729999999997, + 229.3209999999999 + ], + "priority": 28, + "parents": [ + 134622 + ], + "children": [], + "area": 9742337.794836, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122677, + "strid": "f8caebfb-36ce-4d49-9dcd-65bf45567b9d", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 96.29, + 236.3, + 177.40999999999997, + 295.68 + ], + "priority": -1, + "parents": [], + "children": [ + 122666, + 122667, + 122661, + 122664, + 122662, + 122676, + 122663, + 122665 + ], + "area": 22753.327, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122661, + "strid": "b8cfd18c-68b2-41cf-9b88-60c2129ff4d4", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 124.182, + 127.306, + 1931.9759999999999, + 323.667 + ], + "priority": 1, + "parents": [ + 122677 + ], + "children": [], + "area": 15809.113692, + "iscrowd": 0, + "segmentation": [], + "text": "Steps to registration of an oral\ntreatment for sleeping sickness" + }, + { + "id": 122662, + "strid": "4386a8f8-0dbd-4957-ad39-ddfe657709de", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 72.253, + 567.182, + 2429.85, + 210.29999999999995 + ], + "priority": 2, + "parents": [ + 122677 + ], + "children": [], + "area": 40980.601046, + "iscrowd": 0, + "segmentation": [], + "text": "Nathalie Strub-Wourgaft', Antoine Tarral', Louise Burrows', Nona Ghazanfari2, Guillermo Doll?\n\n'Drugs for Neglected Diseases initiative, Geneva, Switzerland — on behalf of the wider fexinidazole for HAT team\n2Tuberculosis and Neglected Tropical Disease Programme, Sanofi, France" + }, + { + "id": 122663, + "strid": "12ccca67-b27e-48be-9d06-ddda406e047c", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.785, + 893.523, + 242.694, + 46.60000000000002 + ], + "priority": 3, + "parents": [ + 122677 + ], + "children": [ + 122668, + 122673 + ], + "area": 72183.255555, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 122668, + "strid": "9e675f44-4900-4a1e-942e-3637a06971f9", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.274, + 954.837, + 1527.424, + 407.99299999999994 + ], + "priority": 4, + "parents": [ + 122663 + ], + "children": [], + "area": 72829.237338, + "iscrowd": 0, + "segmentation": [], + "text": "Research into the treatment of sleeping sickness treatment was initiated by DNDi\nat the request of MSF. Fexinidazole is the first new chemical entity brought by\nDNDi through all stages of the drug development pipeline and into patients,\nincluding three clinical studies involving 749 patients. This 10 day all-oral treatment\n(1800 mg per day for 4 days followed by 1200 mg per day for 6 days) for both\nstages of T. b. gambiense sleeping sickness (g-HAT), is a significant improvement\nupon previous treatments because it eliminates the need for systematic\nhospitalization and should remove the need for systematic lumbar punctures." + }, + { + "id": 122673, + "strid": "3807a35c-0d20-4e18-9860-e8be4c0dccba", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1658.837, + 841.169, + 1563.714, + 562.0599999999998 + ], + "priority": 5, + "parents": [ + 122663 + ], + "children": [], + "area": 1395362.260453, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122664, + "strid": "a90bc535-310f-4126-81d8-e4f3474d22d1", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 74.667, + 1491.454, + 175.056, + 41.386999999999944 + ], + "priority": 6, + "parents": [ + 122677 + ], + "children": [ + 122674, + 122669 + ], + "area": 111362.395818, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 122669, + "strid": "ee54a90a-0ac9-4636-a76e-d85f1a7835c0", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.398, + 1567.732, + 1024.484, + 1730.9250000000002 + ], + "priority": 7, + "parents": [ + 122664 + ], + "children": [], + "area": 104094.269336, + "iscrowd": 0, + "segmentation": [], + "text": "For high-priority medicines and vaccines for use\noutside the EU that address unmet medical needs or\nare of major public health interest, the European\nMedicines Agency (EMA) has in place a regulatory\npathway for review of these products, Article 58.\n\nArticle 58 is a regulatory process involving the EMA-\nCHMP (Committee for Medicinal Products for Human\nUse), the World Health Organization, and national\nregulators in target countries in evaluating medicines to\nthe same standards as those marketed within the EU.\nIn this case, the target countries were Democratic\nRepublic of Congo and Uganda. Regulators, experts\nand observers from concerned endemic countries are\ninvited to participate, to ensure that local knowledge\nand specific disease expertise is included in the\nscientific review.\n\nOnce the positive scientific opinion was granted by the\nEMA for fexinidazole, this process enabled national\nmarketing authorisation or registration of a medicine at\nnational level. WHO will develop guidelines for use;\nother endemic countries could then include fexinidazole\ninto national policy and submit letters to WHO to\nrequest the product, which then facilitates supply to\nthese countries.\n\nIn addition, fexinidazole was added to the\nprequailification list following the positive opinion and\nwas submitted for inclusion in the WHO Essential\nMedicines List (EML).\n\nSince fexinidazole is planned to be submitted\nto the FDA for registration, the DNDi team ran\na mock GCP inspection in order to ensure full\ncompliance with FDA Result:\nregulatory requirements. « Dece" + }, + { + "id": 122674, + "strid": "799783a7-818b-4cd0-b185-4662e5c61a8c", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1108.356, + 1413.22, + 2097.1310000000003, + 1814.419 + ], + "priority": 8, + "parents": [ + 122664 + ], + "children": [], + "area": 1566350.86632, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122665, + "strid": "3a0601cc-2f7c-4a97-ae12-a8ac4cab773a", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 957.822, + 3203.0, + 148.7489999999999, + 37.98900000000003 + ], + "priority": 9, + "parents": [ + 122677 + ], + "children": [ + 122671 + ], + "area": 3067903.866, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 122671, + "strid": "82c77838-fe1c-4eda-8385-25ecdf9fbad2", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 953.256, + 3252.92, + 931.109, + 365.34500000000025 + ], + "priority": 10, + "parents": [ + 122665 + ], + "children": [], + "area": 3100865.50752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122666, + "strid": "fe54b6b7-97c4-401d-8b31-8840d6c70f21", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 953.17, + 3631.135, + 473.0580000000001, + 47.77799999999979 + ], + "priority": 11, + "parents": [ + 122677 + ], + "children": [ + 122672 + ], + "area": 3461088.94795, + "iscrowd": 0, + "segmentation": [], + "text": "On-going & future trials" + }, + { + "id": 122672, + "strid": "a4f7deec-78e8-4109-a274-604b8d35f73a", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 951.657, + 3684.192, + 905.5859999999999, + 408.94000000000005 + ], + "priority": 12, + "parents": [ + 122666 + ], + "children": [], + "area": 3506087.1061440003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122667, + "strid": "123b3d32-89bf-49c7-bb32-2a6e29e5d096", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1952.251, + 3323.721, + 230.12599999999998, + 40.585000000000036 + ], + "priority": 13, + "parents": [ + 122677 + ], + "children": [ + 122670 + ], + "area": 6488737.645971, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 122670, + "strid": "082bd3a8-d070-4861-bfd1-c443cc49728b", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1950.638, + 3379.069, + 1200.8900000000003, + 588.2469999999998 + ], + "priority": 14, + "parents": [ + 122667 + ], + "children": [], + "area": 6591340.396021999, + "iscrowd": 0, + "segmentation": [], + "text": "Due to the involvement of in-country experts and WHO in the\nEMA Article 58 review process, this innovative mechanism\nfacilitated registration of fexinidazole in DRC in just 39 days, with\nregistration in Uganda expected shortly.\n\nThanks to this regulatory process, which was based on data\ncollected in patients recruited by MSF in DRC and CAR, and by\nthe PNLTHA, new g-HAT patients should shortly benefit from this\nsimplified, short-course oral regimen, the second transformative\ntherapeutic improvement delivered by DNDi for sleeping\nsickness patients.\n\nFor questions or comments contact: nstrub@dndi.org" + }, + { + "id": 122676, + "strid": "ac93a7f6-4549-45a7-a02d-cb02eb49b741", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 72.6, + 3439.563, + 171.631, + 40.72400000000016 + ], + "priority": 15, + "parents": [ + 122677 + ], + "children": [ + 122675 + ], + "area": 249712.2738, + "iscrowd": 0, + "segmentation": [], + "text": "Partners" + }, + { + "id": 122675, + "strid": "0c6a2691-f4d5-440f-bddc-458f9947be19", + "image_id": 205276, + "image_name": "14571.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 523.975, + 3570.327, + 304.61199999999997, + 346.9279999999999 + ], + "priority": 16, + "parents": [ + 122676 + ], + "children": [], + "area": 1870762.0898250001, + "iscrowd": 0, + "segmentation": [], + "text": "National control\nprogrammes of\nthe Democratic\nRepublic of the\nCongo and the\nCentral African\nRepublic" + }, + { + "id": 46108, + "strid": "05f75daa-42a7-491e-a8d8-568f8708c83d", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 110.05, + 37.39, + 66.52, + 41.58 + ], + "priority": -1, + "parents": [], + "children": [ + 46102, + 46095, + 46096, + 46107, + 46092, + 46103, + 46105, + 46093, + 46094 + ], + "area": 4114.7695, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46092, + "strid": "61816862-6bf1-4dfd-bd65-30c65c53b460", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 212.73, + 19.481, + 576.009, + 119.451 + ], + "priority": 1, + "parents": [ + 46108 + ], + "children": [], + "area": 4144.193130000001, + "iscrowd": 0, + "segmentation": [], + "text": "EVALUATION CEaHE PELVIC FLOOR real OF\nTHE QUALITY OF SEXUAL LIFE OF FEMALE\n2\nSS” sex worKeRS >" + }, + { + "id": 46093, + "strid": "b8be6978-6bda-4d36-9644-45f60aa6cc68", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 59.395, + 155.013, + 528.918, + 76.95399999999998 + ], + "priority": 2, + "parents": [ + 46108 + ], + "children": [], + "area": 9206.997135000001, + "iscrowd": 0, + "segmentation": [], + "text": "‘Pereira CMA, *Spizziti G, \"Santos MCM\n\n‘Physiotherapist, Master, Professor at Centro Universitario Italo Brasil,\n“Dostor and PHD in Psychiatry at Instituto de Peiquiatria do Hospital das Clinicas da Faculdade de Medicina ds USP.\n*Physiotherapiet, Centro Universitério- Italo Brasileiro." + }, + { + "id": 46095, + "strid": "4bd9b9a0-ef04-4149-af79-5b076da853f8", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.27, + 254.255, + 372.602, + 409.5210000000001 + ], + "priority": 3, + "parents": [ + 46108 + ], + "children": [], + "area": 15323.94885, + "iscrowd": 0, + "segmentation": [], + "text": "‘Sex workers are individuals who trade sexual favors for\ninterests that are not sentimental or emotional. It is a relationship\nin which a financial and / or material return can be achieved,\n‘among other interests. Clients can see in the sex workers the\npossibility of experiencing certain sexual behaviors related to the\nimaginary such as fanciful, freakish, exciting and / or\npromiscuos'2\n\nThe quailty of sexual life is influenced by numerous factors\nthat are linked to physical, psychological, cultural and social\nconditions. Women and men have essential emotional needs as\naffection, respect and understanding, which must be met\nHowever, these needs apparently are not present in relationships\nwith sex workers, given the nature of their work. Prostitution is\nconsidered one of the oldest professions®®, Several not only are\nsex workers but also are wives and mothers. Undoubtedly their\n‘work can interfere in their sexual function. Furthermore, the\npelvic floor muscle plays an important role in sexual functioning,\ncollaborating for an improvement of the quality of sexual life’." + }, + { + "id": 46105, + "strid": "0d9f74f4-bc9d-46b4-bb37-6a2bcc5753d3", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.322, + 682.918, + 367.817, + 35.551000000000045 + ], + "priority": 4, + "parents": [ + 46108 + ], + "children": [], + "area": 42560.815596, + "iscrowd": 0, + "segmentation": [], + "text": "Objective: Evaluate the quality of sexual life and of the\n‘musculature of pelvic floor of female sex work@a" + }, + { + "id": 46107, + "strid": "d3efbde2-95bd-4811-adb6-162716430635", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.954, + 737.612, + 369.868, + 339.78599999999994 + ], + "priority": 5, + "parents": [ + 46108 + ], + "children": [], + "area": 44960.401848, + "iscrowd": 0, + "segmentation": [], + "text": "Method: Forty-nine women, who are sex workers for at\nleast a year and aged between eighteen years old and forty-five\nyears old, were evaluated and answered to the questionnaire\nFemale Sexual Function Index (FSF), which is composed of\nnineteen questions and investigates the quality of sexual life of\nthe last four weeks, The scores of FSF’ vary from two to thirty-\nsix points. The higher the score is, the better is the sexual\nsatisfaction. The functional evaluation of pelvic floor (FEP) was\nachieved by the vaginal bi-digital examination. The participants\n‘were instructed to contract the pelvic floor muscles around the\nfingers of the examiner, without and against resistance,\n\nThe intensity of the contraction is classified in diferente\nlevels, which go from zero (atony) to five (strong contractile\n\n \n\ntion). During the examin:\n\n \n\n, asyrrimetry, ineoordination and /\net reucics Coxeerd on be cL" + }, + { + "id": 46096, + "strid": "ba61477f-3dac-48a6-8c8f-8f2c0ac0edb8", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 449.965, + 254.939, + 338.41900000000004, + 83.40799999999999 + ], + "priority": 6, + "parents": [ + 46108 + ], + "children": [], + "area": 114713.62713499999, + "iscrowd": 0, + "segmentation": [], + "text": "This study was approved by the local Ethics\nCommittee and all participants signed an informed consent.\nFor the analysis of the results the tests of Pearson\nCorrelation were applied." + }, + { + "id": 46094, + "strid": "be46ff76-6c8d-4ea4-8027-a4aab8060814", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 450.648, + 353.388, + 49.22399999999999, + 15.040999999999997 + ], + "priority": 7, + "parents": [ + 46108 + ], + "children": [ + 46097, + 46098, + 46099 + ], + "area": 159253.595424, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 46097, + "strid": "ca0ae815-f4a4-4f43-ba0c-29724eeb77f2", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 449.281, + 384.837, + 336.368, + 28.714 + ], + "priority": 8, + "parents": [ + 46094 + ], + "children": [], + "area": 172899.952197, + "iscrowd": 0, + "segmentation": [], + "text": "Graphics A and B ~ Means of quantitative variables FSF! and\nFEP. of 49 women, who are sex workers." + }, + { + "id": 46098, + "strid": "edf2c8df-74dd-47c1-ab87-be45103bd3fd", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 448.597, + 449.102, + 170.918, + 170.235 + ], + "priority": 9, + "parents": [ + 46094 + ], + "children": [ + 46101 + ], + "area": 201465.80989399998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46101, + "strid": "394e3ca9-0e33-462d-9727-a60bba29db57", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 456.801, + 626.857, + 162.031, + 16.408000000000015 + ], + "priority": 10, + "parents": [ + 46098 + ], + "children": [], + "area": 286348.90445699997, + "iscrowd": 0, + "segmentation": [], + "text": "Graphic A: Mean of FSFI (24.2)" + }, + { + "id": 46099, + "strid": "6e025992-d678-43ad-af3f-9dfb7fd2959a", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 634.557, + 449.102, + 170.918, + 166.81600000000003 + ], + "priority": 11, + "parents": [ + 46094 + ], + "children": [ + 46100 + ], + "area": 284980.817814, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46100, + "strid": "8a179d94-24eb-40bf-8395-79f26cbaf624", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 651.648, + 628.225, + 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"segmentation": [], + "text": "The participants of the study presented a barely functional\npelvic floor with low strength grade and an unsatisfactory\nquality of sexual life." + }, + { + "id": 46103, + "strid": "729aae8e-4c1b-4644-a5f6-dd5a45381ea8", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 459.536, + 803.245, + 76.57199999999995, + 15.041000000000054 + ], + "priority": 15, + "parents": [ + 46108 + ], + "children": [ + 46104 + ], + "area": 369119.99432, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 46104, + "strid": "a6c3c185-fe2d-4809-880b-f5b0de08bff8", + "image_id": 202302, + "image_name": "118513.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 459.536, + 825.122, + 336.368, + 260.4799999999999 + ], + "priority": 16, + "parents": [ + 46103 + ], + "children": [], + "area": 379173.263392, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 42360, + "strid": 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Prostate\nGlucose metabolism Akt pathway Focal adhesion\nynth Regulation of ornithine decarboxylase\nBone remodeling\nWnt pathw ay Cholesterol synthes\n\n,_ Hedgehog signaling Endothelin signaling pathway\nSteroid hormone metabolismAndrogen signaling\nAndrogen receptor (AR) signaling = e27asnainsy\ncored faty soateubeien\n\nOo\nMAPK pathway\n\nOxidative stress “cep junction\n\nMevalonate pathway" + }, + { + "id": 42342, + "strid": "8b22b2fb-ff3d-4649-8ff5-7e068849a869", + "image_id": 202161, + "image_name": "118264.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1807.252, + 4328.58, + 725.2939999999999, + 86.83100000000013 + ], + "priority": 21, + "parents": [ + 42360 + ], + "children": [ + 42349 + ], + "area": 7822834.86216, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 42349, + "strid": "34beb866-7961-44da-8d4b-2809c3250eda", + "image_id": 202161, + "image_name": "118264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1716.296, + 4444.822, + 841.0580000000002, + 164.42500000000018 + ], + "priority": 22, + "parents": [ + 42342 + ], + "children": [], + "area": 7628630.219312, + "iscrowd": 0, + "segmentation": [], + "text": "This research is co-funded by the Biotechnology and\nBiological Sciences Research Council (BBSRC), the\nUniversity of Manchester and the Chinese Scholarship\nCouncil (CSC)." + }, + { + "id": 42341, + "strid": "f41192a4-798b-4d4c-9c1f-90411adbfdff", + "image_id": 202161, + "image_name": "118264.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1812.437, + 4088.599, + 426.69399999999996, + 70.23499999999967 + ], + "priority": 23, + "parents": [ + 42360 + ], + "children": [ + 42348 + ], + "area": 7410328.1057629995, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 42348, + "strid": "311f6ed4-b561-483c-bf00-3ec9e4e34a3d", + "image_id": 202161, + "image_name": "118264.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1727.143, + 4216.681, + 1476.7960000000003, + 80.1279999999997 + ], + "priority": 24, + "parents": [ + 42341 + ], + "children": [], + "area": 7282811.072383, + "iscrowd": 0, + "segmentation": [], + "text": "1. Wuetal. (2013). PathNER: A tool for systematic identification of biological pathway mentions\nin the literature. BMC Systems Biology InCoB 2013 Supplementary. Accepted." + }, + { + "id": 86756, + "strid": "021bc282-9c9c-47a8-8575-7fe4f49179d7", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 63.68, + 47.02, + 278.53, + 260.57 + ], + "priority": -1, + "parents": [], + "children": [ + 86733, + 86746, + 86726, + 86727, + 86750, + 86748, + 86731, + 86744 + ], + "area": 2994.2336, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86726, + "strid": "31300ff4-9a67-4cce-a2dd-be57575606bc", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 562.503, + 82.748, + 2808.861, + 258.647 + ], + "priority": 1, + "parents": [ + 86756 + ], + "children": [], + "area": 46545.99824400001, + "iscrowd": 0, + "segmentation": [], + "text": "Proteomic approach of cryo-damage in bovine\nspermatozoa" + }, + { + "id": 86727, + "strid": "8e20b5ba-1815-4823-8eba-14549c21a70b", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 375.0, + 366.674, + 3183.914, + 175.44299999999998 + ], + "priority": 2, + "parents": [ + 86756 + ], + "children": [], + "area": 137502.75, + "iscrowd": 0, + "segmentation": [], + "text": "Sung-Jae Yoon, Woo-Sung Kwon, Md Saidur Rahman, June-Sub Lee, Yoo-Jin Park, Young-Ah You and Myung-Geol Pang\nDepartment of Animal Science and Technology, Chung-Ang University, Anseongy Gyoenggi-Do 456-756, Korea" + }, + { + "id": 86744, + "strid": "54a45f44-e9f0-43eb-a466-ac9faec3d2d6", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 430.741, + 610.501, + 457.116, + 50.94399999999996 + ], + "priority": 3, + "parents": [ + 86756 + ], + "children": [ + 86745 + ], + "area": 262967.81124099996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 86745, + "strid": "f5fc9519-9b45-48cd-ac4c-91189cd88120", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.975, + 726.157, + 1218.518, + 313.9229999999999 + ], + "priority": 4, + "parents": [ + 86744 + ], + "children": [], + "area": 34837.382075, + "iscrowd": 0, + "segmentation": [], + "text": "Cryopreservation is most ‘efficient way for storing spermatozoa. It consists of four\nprocessing steps.i.ex(1)) fresh semen collection; (2) dilution and cooling; (3) addition of\ncryoprotectant; and (4) freezing and thawing. During cryopreservation, spermatozoa are\nexposed to various stresses and damages. Over the past several decades protocols of\ncryopreservation has been developed and optimized. However, there are no study/in\n\nliterature comparing the proteomic profiling of different cryopreservation steps." + }, + { + "id": 86746, + "strid": "0abfff6b-440f-49e4-9e76-70dec2ce9b42", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 483.061, + 1125.445, + 351.098, + 53.69699999999989 + ], + "priority": 5, + "parents": [ + 86756 + ], + "children": [ + 86747 + ], + "area": 543658.587145, + "iscrowd": 0, + "segmentation": [], + "text": "OBJECTIVES" + }, + { + "id": 86747, + "strid": "7ec8296b-c96f-45a3-975b-cf15a9e31800", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 52.105, + 1231.463, + 1215.764, + 206.52800000000002 + ], + "priority": 6, + "parents": [ + 86746 + ], + "children": [], + "area": 64165.37961499999, + "iscrowd": 0, + "segmentation": [], + "text": "The objectives of the current study were 2-fold: 1) to investigate the effects of bovine\nsperm cryopreservation (different steps) on motility-viability, capacitation status, and\nmitochondrial activity of spermatozoa; and 2) to identify.the dynamics of protein profiling\n\nin bovine sperm cryopreservation steps using Two-dimensional electrophoresis (2DE)." + }, + { + "id": 86748, + "strid": "65ca889b-0c99-4eab-9ed6-3091e51d28a5", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 288.924, + 1512.341, + 736.6179999999999, + 53.697000000000116 + ], + "priority": 7, + "parents": [ + 86756 + ], + "children": [ + 86749 + ], + "area": 436951.6110839999, + "iscrowd": 0, + "segmentation": [], + "text": "MATARIALS AND METHODS" + }, + { + "id": 86749, + "strid": "3691b7f8-3d58-4a18-836a-0801f6a2e0c4", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 30.338, + 1632.084, + 1262.118, + 1800.294 + ], + "priority": 8, + "parents": [ + 86748 + ], + "children": [], + "area": 49514.164392000006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86750, + "strid": "120b2108-2433-4374-88c7-05e4e80473ca", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 521.801, + 3502.689, + 271.79200000000003, + 48.7829999999999 + ], + "priority": 9, + "parents": [ + 86756 + ], + "children": [ + 86739, + 86728, + 86753, + 86754, + 86743, + 86740, + 86729, + 86734, + 86751, + 86737 + ], + "area": 1827706.622889, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 86751, + "strid": "17365ea7-ae05-4002-aa84-c1d852389452", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 29.845, + 3633.299, + 1194.69, + 628.1599999999999 + ], + "priority": 10, + "parents": [ + 86750 + ], + "children": [ + 86752 + ], + "area": 108435.808655, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86752, + "strid": "3aef10f9-ef06-45b2-a6da-a24b6b25d276", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 23.919, + 4269.756, + 1265.802, + 103.11300000000028 + ], + "priority": 11, + "parents": [ + 86751 + ], + "children": [], + "area": 102128.29376400002, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1. Effect of cryopreservation on bovine sperm motility. Data are presented as the mean\n+ SE. Values with different superscripts (a,b,c) were significantly different among cryopreservatio\nn steps by One-way ANOVA (p<0.05, n=9)." + }, + { + "id": 86753, + "strid": "231ba9b8-3862-461b-baad-ad22d156fb20", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 23.657, + 4421.293, + 1254.269, + 498.6700000000001 + ], + "priority": 12, + "parents": [ + 86750 + ], + "children": [ + 86755 + ], + "area": 104594.528501, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86755, + "strid": "2e0a7ebb-ab73-436a-aab2-51d614c6d102", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 683.911, + 5059.048, + 612.3570000000001, + 256.26900000000023 + ], + "priority": 13, + "parents": [ + 86753 + ], + "children": [], + "area": 3459938.5767279994, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2. Effect of cryopreservation on bovine\nsperm speed parameters, (A) rapid (>50pm/s)\n(B) medium (25-50pm/s) (C) slow(<25ym/s).\nData are presented.as mean + SE. Values\nwith different superscripts (a,b,c) were\nsignificantly.different among cryopreservation\nsteps by One-way ANOVA (p<0.05, n=9)." + }, + { + "id": 86754, + "strid": "67734b51-74c9-4651-a15c-4d22eb339983", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 23.58, + 4918.028, + 610.947, + 509.35699999999997 + ], + "priority": 14, + "parents": [ + 86750 + ], + "children": [], + "area": 115967.10024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86743, + "strid": "f0f25fd5-fe11-4002-b35f-3402a8d07738", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1347.727, + 649.053, + 1240.5470000000003, + 1024.3810000000003 + ], + "priority": 15, + "parents": [ + 86750 + ], + "children": [ + 86742 + ], + "area": 874746.2525310001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86742, + "strid": "917780b7-3770-4c73-bc41-92aa4fa2fef4", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1328.451, + 1688.579, + 1273.592, + 144.56999999999994 + ], + "priority": 16, + "parents": [ + 86743 + ], + "children": [], + "area": 2243194.461129, + "iscrowd": 0, + "segmentation": [], + "text": "Fig3..Effect of cryopreservation on bovine sperm capacitation status assessed by\ncombined CTC/H33258 staining (A) AR pattern. (B) F pattern. (C) B pattern. (D)/D)pattern. Data\nare,presented as the mean + SE. Values with different superscripts (a,b,c) were.significantly\ndifferent among cryopreservation steps by One-way ANOVA (p<0.05, n=9)." + }, + { + "id": 86740, + "strid": "2a471c09-9ac2-4496-bc7c-f52482c9b071", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1332.647, + 1894.59, + 1222.7420000000002, + 637.8930000000003 + ], + "priority": 17, + "parents": [ + 86750 + ], + "children": [ + 86741 + ], + "area": 2524819.67973, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86741, + "strid": "be3568b8-8205-4e68-bfce-00ea88ef047e", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1343.528, + 2537.924, + 1277.1470000000002, + 144.17200000000003 + ], + "priority": 18, + "parents": [ + 86740 + ], + "children": [], + "area": 3409771.955872, + "iscrowd": 0, + "segmentation": [], + "text": "Fig4. Effect of cryopreservation on bovine sperm mitochondrial activity assessed by\nrhodamine123,staining. Data are presented as the mean + SE. Values with different\nsuperscripts (a,b,c) were significantly different among cryopreservation steps by Oné-way,ANOVA\n(p<0.05, n=9)." + }, + { + "id": 86739, + "strid": "87f0695a-954d-49d1-9d5e-75a74079ef8d", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1335.367, + 2747.381, + 1221.3819999999998, + 617.491 + ], + "priority": 19, + "parents": [ + 86750 + ], + "children": [ + 86738 + ], + "area": 3668761.9238269995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86738, + "strid": "fcebcee6-be66-4c3d-9ee2-1e99fc6ad713", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1346.248, + 3379.834, + 1234.9829999999997, + 142.8119999999999 + ], + "priority": 20, + "parents": [ + 86739 + ], + "children": [], + "area": 4550094.762832, + "iscrowd": 0, + "segmentation": [], + "text": "Fig5. Effect of cryopreservation on bovine sperm viability assessed by hypo-osmotic\nsperm swelling test. Data are presented as the mean + SE. Values with different superscripts\n(a,b,c) were significantly different among cryopreservation steps by One-way ANOVA (p<0.05,\nn=9)." + }, + { + "id": 86737, + "strid": "3e2bc16e-7b83-4502-aea4-5acee857f2c3", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1331.519, + 3576.953, + 1296.6030000000003, + 1086.9100000000003 + ], + "priority": 21, + "parents": [ + 86750 + ], + "children": [ + 86736 + ], + "area": 4762780.881607, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86736, + "strid": "615e703f-514e-4722-be5c-8af89ee2f970", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1337.754, + 4679.287, + 1227.92, + 109.47500000000036 + ], + "priority": 22, + "parents": [ + 86737 + ], + "children": [], + "area": 6259734.901398, + "iscrowd": 0, + "segmentation": [], + "text": "Fig6. Separation of proteins by 2-DE. 2-DE gels were stained with silver nitrate and\nanalyzed using PDQuest 8.0 software. Protein spots from (A) Fresh. (B) After TYB. (C) After\nGycerol. (D) After Thawing." + }, + { + "id": 86734, + "strid": "e39bcfdf-5b23-4465-bb92-a395eadea14b", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1323.082, + 4934.352, + 1311.436, + 506.7430000000004 + ], + "priority": 23, + "parents": [ + 86750 + ], + "children": [ + 86735 + ], + "area": 6528552.312864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86735, + "strid": "2bc611a5-426b-40e9-9587-4186323ffed4", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1330.982, + 4848.578, + 1248.2349999999997, + 71.10199999999986 + ], + "priority": 24, + "parents": [ + 86734 + ], + "children": [], + "area": 6453370.043596, + "iscrowd": 0, + "segmentation": [], + "text": "Table1. Differentially expressed (> 3-fold) proteins of spermatozoa from different steps of\ncryopreservation." + }, + { + "id": 86728, + "strid": "60ba1a86-d8b2-4bb8-b578-497478850b9a", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2650.142, + 595.848, + 1267.2070000000003, + 1642.9989999999998 + ], + "priority": 25, + "parents": [ + 86750 + ], + "children": [], + "area": 1579081.8104159997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86729, + "strid": "ee1ce414-1396-4471-9753-16b00e1a6b4a", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2664.125, + 2284.874, + 1252.4849999999997, + 2677.349 + ], + "priority": 26, + "parents": [ + 86750 + ], + "children": [ + 86730 + ], + "area": 6087189.94525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86730, + "strid": "8210c8ec-08fd-4bb6-9b26-cfda9fd8a1b3", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2662.964, + 4975.462, + 1171.6999999999998, + 106.61700000000019 + ], + "priority": 27, + "parents": [ + 86729 + ], + "children": [], + "area": 13249476.189368, + "iscrowd": 0, + "segmentation": [], + "text": "Fig7. Signal pathways analyzed.using pathway studio 9.0 related with bovine sperm\ncryopreservation. (A) actinscytoskeleton regulation. (B) notch pathway. (C) glucose\nmetabolism. (D) glutathione metabolism. (E) pyrimidine metabolism" + }, + { + "id": 86731, + "strid": "6b3be2fa-39fd-4e39-988e-28f895a5ad26", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3086.169, + 5146.267, + 394.9180000000001, + 51.13299999999981 + ], + "priority": 28, + "parents": [ + 86756 + ], + "children": [ + 86732 + ], + "area": 15882249.681123, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSION" + }, + { + "id": 86732, + "strid": "fcf5476d-4a56-4adf-8e13-1e9c6a62ee31", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2685.811, + 5240.917, + 1195.6349999999998, + 192.5640000000003 + ], + "priority": 29, + "parents": [ + 86731 + ], + "children": [], + "area": 14076112.528687002, + "iscrowd": 0, + "segmentation": [], + "text": "Differentially. expressed proteins and their related signaling pathways suggest a logical\nground of sperm functional modifications during cryo-preservation in the proteomic\nviewpoint. And these finding might apply for development of novel approaches to evaluate\n\nsperm cryo- damage." + }, + { + "id": 86733, + "strid": "0e9553ed-cbb9-4456-aedb-d8cef9ab4507", + "image_id": 203874, + "image_name": "121082.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 600.255, + 5456.661, + 2731.065, + 31.157000000000153 + ], + "priority": 30, + "parents": [ + 86756 + ], + "children": [], + "area": 3275388.048555, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgement) This work was carried out with the support of \"Cooperative Research Program for Agriculture Science & Technology Development (Project No. PJ008415)\" Rural Development Administration, Republic of Korea." + }, + { + "id": 38842, + "strid": "8ab9e87d-89dd-4312-8dc2-83b8456a4eec", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 119.47, + 208.64, + 151.71, + 214.93 + ], + "priority": -1, + "parents": [], + "children": [ + 38813, + 38814, + 38826, + 38839, + 38815, + 38822 + ], + "area": 24926.2208, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38813, + "strid": "d3665ae8-0421-494e-b6e7-6cd2bae9dd41", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 277.944, + 99.013, + 3189.617, + 351.2679999999999 + ], + "priority": 1, + "parents": [ + 38842 + ], + "children": [], + "area": 27520.069272000004, + "iscrowd": 0, + "segmentation": [], + "text": "KeyNet: Dynamic Keyword Network Web Server\nUsing PubMed Database" + }, + { + "id": 38814, + "strid": "1a6b5a15-c8b6-47e2-8bb8-0c8ba8d31c36", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 218.163, + 512.344, + 3267.407, + 242.08000000000004 + ], + "priority": 2, + "parents": [ + 38842 + ], + "children": [], + "area": 111774.50407200001, + "iscrowd": 0, + "segmentation": [], + "text": "Yu-Ting Tseng'*’, Chia-Wei Weng!*, Te-Wei Tzeng!, Ghia-Chun Yang!”, I-En Liao”, Jeremy J.W.Chen>*, Chao Cheng>*, Chun-Chi Liu\n\nInstitute of Genomics and Bioinformatics, National Ghung Hsing University, Taiwan. 7Department of Computer Science and Engineering, National Chung Hsing University, Taiwan.\nInstitute of Molecular Biology,-National Chung Hsing University, Taiwan. ‘Institute of Biomedical Sciences, National/Chung Hsing University, Taiwan.\n“Institute for Quantitative Biomedical Sciences, Norris Cotton Cancer Center, Geisel School of Medicine at Dartmouth, Lebanon, New Hampshire, USA. “Department pf Genetics, Geisel School of Medicine at Dartmouth, Hanover, New Hampshire, USA-\nAQQUIa eee Meee) oe MNO llman ya" + }, + { + "id": 38815, + "strid": "faf5450d-0337-409f-9ccd-77c264813350", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 141.018, + 823.669, + 293.79999999999995, + 63.03200000000004 + ], + "priority": 3, + "parents": [ + 38842 + ], + "children": [ + 38818, + 38817, + 38820, + 38819, + 38816 + ], + "area": 116152.155042, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 38816, + "strid": "daa2e1bc-bce0-404c-a380-e195af4b09ef", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 135.272, + 901.181, + 1693.142, + 1446.3889999999997 + ], + "priority": 4, + "parents": [ + 38815 + ], + "children": [], + "area": 121904.556232, + "iscrowd": 0, + "segmentation": [], + "text": "PubMed is the important resource for biomedical science. To summarize the\nnumerous PubMed abstracts and then study the associations among keywords,\nsuch as proteins, diseases and drugs, we developed a dynamic keyword-network\nweb server (KeyNet) with network visualization and temporal information. We\nprocessed 12,274,608 PubMed abstracts to infer the disease-protein-drug\nassociations. In order to understand comprehensive keywords in the abstracts, the\nUnified Medical Language System (UMLS) was used to transfer the PubMed\nabstracts into keywords. To construct connectivity among the keywords, we\nsystematically performed enrichment analysis to calculate the intersection/union\nratio (I/U ratio) and hypergeometric P-value for each keyword pair. In addition, to\nprovide the temporal information, we also performed the enrichment analysis for\neach year. To evaluate the protein-drug associations in the server, we used\nDrugBank database to perform validation, and then it achieved > 60% precision.\nUsers can input one or two keywords in the KeyNet server, and then the server will\ndiscover the keywords significantly associated with the input keywords\n(hypergeometric P-value < 1e-6 and I/U Ratio > 0.02). Furthermore, the\ndisease-protein-drug association network will be constructed, and then the users\ncan study the network topology and iteratively search associated keywords with\ntemporal constraint. According to our knowledge, there has yet to be a web\nsystem that supports the disease-protein-drug associations using network\nvisualization and temporal information. The KeyNet is the first web server that\nprovides the user-friendly . interface to discover novel _ potential\ndisease-protein-drug relationships with temporal information. The KeyNet\nwebserver is freely available at http://syslab.nchu.edu.tw/KeyNet." + }, + { + "id": 38817, + "strid": "1d1f85b7-c21a-4e71-b63a-761d151eb4a1", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 528.07, + 2386.01, + 853.5090000000001, + 87.48199999999997 + ], + "priority": 5, + "parents": [ + 38815 + ], + "children": [], + "area": 1259980.3007000003, + "iscrowd": 0, + "segmentation": [], + "text": "Main function of KeyNet" + }, + { + "id": 38818, + "strid": "5456c04c-b937-4168-acc1-60953fe8a780", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 338.831, + 2495.395, + 418.26200000000006, + 46.552000000000135 + ], + "priority": 6, + "parents": [ + 38815 + ], + "children": [], + "area": 845517.1832450001, + "iscrowd": 0, + "segmentation": [], + "text": "Temporal information" + }, + { + "id": 38819, + "strid": "8e75501f-3c47-451e-bd1f-cb7de92c5b8b", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1058.857, + 2519.874, + 792.1779999999999, + 105.38900000000012 + ], + "priority": 7, + "parents": [ + 38815 + ], + "children": [], + "area": 2668186.2240179996, + "iscrowd": 0, + "segmentation": [], + "text": "Distribution of the number of PubMed\nabstracts corresponding to both keywords" + }, + { + "id": 38820, + "strid": "b68f14c8-e378-4ae5-b791-52ad6036b1a8", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 152.041, + 2567.284, + 1637.709, + 1009.8040000000001 + ], + "priority": 8, + "parents": [ + 38815 + ], + "children": [ + 38821 + ], + "area": 390332.426644, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38821, + "strid": "f93c6c4d-f89e-46a5-ab4b-b3dcff69c2e3", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 586.546, + 3604.928, + 389.794, + 96.99499999999989 + ], + "priority": 9, + "parents": [ + 38820 + ], + "children": [], + "area": 2114456.098688, + "iscrowd": 0, + "segmentation": [], + "text": "disease-protein-drug\nassociation network" + }, + { + "id": 38822, + "strid": "d0d4e21b-36d9-4682-a2f1-4ac83f53632a", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 142.189, + 3692.309, + 251.422, + 71.03699999999981 + ], + "priority": 10, + "parents": [ + 38842 + ], + "children": [ + 38823, + 38825, + 38841 + ], + "area": 525005.724401, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 38823, + "strid": "c0f15c97-af2a-4dac-9705-ff7cd2a4f2c6", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 140.829, + 3782.384, + 1680.363, + 351.6189999999997 + ], + "priority": 11, + "parents": [ + 38822 + ], + "children": [], + "area": 532669.356336, + "iscrowd": 0, + "segmentation": [], + "text": "Users can input one or two keywords in the KeyNet server, and then the server will\ndiscover the keywords significantly associated with the input keywords\n(hypergeometric P-value < 1e-6 and I/U Ratio > 0.02). Furthermore, the\ndisease-protein-drug association network will be constructed, and then the users\ncan study the network topology and iteratively search associated keywords with\ntemporal constraint. To evaluate the protein-drug associations in the server, we" + }, + { + "id": 38841, + "strid": "af2c0a13-c3e9-488a-b62a-542c0ed89276", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.725, + 4147.341, + 631.894, + 162.13799999999992 + ], + "priority": 12, + "parents": [ + 38822 + ], + "children": [], + "area": 575339.880225, + "iscrowd": 0, + "segmentation": [], + "text": "used DrugBank database to\nperform validation, and then it\nachieved > 60% precision." + }, + { + "id": 38825, + "strid": "5715739e-a286-4c16-9102-6b175c633812", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 813.533, + 4173.244, + 995.2189999999999, + 592.3159999999998 + ], + "priority": 13, + "parents": [ + 38822 + ], + "children": [ + 38824 + ], + "area": 3395071.7110519996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38824, + "strid": "f253674d-314f-44d6-8df0-00295b174ed9", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 140.642, + 4356.264, + 620.7, + 359.78499999999985 + ], + "priority": 14, + "parents": [ + 38825 + ], + "children": [], + "area": 612673.681488, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. The protein-drug\nassociations validation using\nthe DrugBank database\n\n( http://www.drugbank.ca/).\nPrecision versus p-value curve\nfor year from all to 2012." + }, + { + "id": 38826, + "strid": "368c6677-4cbb-4226-9da5-c79f02205de0", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1930.98, + 814.263, + 747.194, + 93.024 + ], + "priority": 15, + "parents": [ + 38842 + ], + "children": [ + 38831, + 38830, + 38827, + 38835, + 38836, + 38833, + 38828, + 38834, + 38829, + 38837, + 38832 + ], + "area": 1572325.56774, + "iscrowd": 0, + "segmentation": [], + "text": "Materials & Methods" + }, + { + "id": 38827, + "strid": "afddc31e-0ea7-44c7-871a-3611943c6cee", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2182.815, + 926.96, + 653.9230000000002, + 71.45500000000004 + ], + "priority": 16, + "parents": [ + 38826 + ], + "children": [], + "area": 2023382.1924, + "iscrowd": 0, + "segmentation": [], + "text": "Database integration" + }, + { + "id": 38828, + "strid": "987934f7-0922-4b62-adf7-b5fe32bdd693", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1960.871, + 1049.3, + 925.6700000000001, + 210.03500000000008 + ], + "priority": 17, + "parents": [ + 38826 + ], + "children": [], + "area": 2057541.9403, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38831, + "strid": "a7b476fd-8717-4451-84fb-7e6094e459e8", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3072.58, + 795.702, + 552.5, + 455.549 + ], + "priority": 18, + "parents": [ + 38826 + ], + "children": [], + "area": 2444858.05116, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38829, + "strid": "eab4a5b5-25f4-4748-852f-5a36a963a0bf", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 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types" + }, + { + "id": 38833, + "strid": "80bd86c0-54a8-4335-be2b-9d7b16563975", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2827.577, + 1451.762, + 718.2619999999997, + 570.988 + ], + "priority": 22, + "parents": [ + 38826 + ], + "children": [], + "area": 4104968.8406740003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38834, + "strid": "a6f7bc86-9a96-4e04-a9d3-1028948c93bc", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2452.226, + 2086.575, + 627.9560000000001, + 75.44000000000005 + ], + "priority": 23, + "parents": [ + 38826 + ], + "children": [], + "area": 5116753.46595, + "iscrowd": 0, + "segmentation": [], + "text": "Enrichment analysis" + }, + { + "id": 38835, + "strid": "5011159d-c274-4733-89cc-36a084b4a5b6", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1963.348, + 2205.042, + 1538.929, + 283.5300000000002 + ], + "priority": 24, + "parents": [ + 38826 + ], + "children": [], + "area": 4329264.800616, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38836, + "strid": "14e018ef-7539-4384-8708-2aafeb0b59ef", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2219.813, + 2548.811, + 1112.074, + 83.86099999999988 + ], + "priority": 25, + "parents": [ + 38826 + ], + "children": [], + "area": 5657883.792343001, + "iscrowd": 0, + "segmentation": [], + "text": "Case study of the KeyNet server" + }, + { + "id": 38837, + "strid": "b7973297-500e-4ca6-bcca-a7d0d618d53b", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1941.138, + 2641.162, + 1659.1980000000003, + 1165.306 + ], + "priority": 26, + "parents": [ + 38826 + ], + "children": [ + 38838 + ], + "area": 5126859.922355999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 38838, + "strid": "3971f2b9-507b-4928-8379-b1897a252d2f", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1931.025, + 3838.09, + 1683.554, + 417.16399999999976 + ], + "priority": 27, + "parents": [ + 38837 + ], + "children": [], + "area": 7411447.742250001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. The case study and web interface of the KeyNet server. Users input two\nkeywords: Breast Carcinoma and trastuzumab. (A) According to the result of all\nyears, there is no direct connection between Breast Carcinoma and trastuzumab\nbut ErbB-2 Receptors connect both Breast Carcinoma and trastuzumab. (B)\nHowever, the year 2010 displays the direct connection between Breast Carcinoma\nand trastuzumab. (C) Statistical data for the distribution of the number of PubMed\nabstracts, the overlap and the I/U ratio corresponding to both keywords." + }, + { + "id": 38839, + "strid": "a1489fec-6ab5-4e2e-8af4-48e0b9660998", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1932.264, + 4285.613, + 378.83400000000006, + 74.23800000000028 + ], + "priority": 28, + "parents": [ + 38842 + ], + "children": [ + 38840 + ], + "area": 8280935.717832, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 38840, + "strid": "087c7648-2c71-4d1c-933b-66e1477a472b", + "image_id": 202028, + "image_name": "118020.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1928.747, + 4375.389, + 1702.124, + 288.8029999999999 + ], + "priority": 29, + "parents": [ + 38839 + ], + "children": [], + "area": 8439018.407583, + "iscrowd": 0, + "segmentation": [], + "text": "According to our knowledge, there has yet to be a web system that supports the\ndisease-protein-drug associations using network visualization and temporal\ninformation. The KeyNet is the first web server that provides the user-friendly\ninterface to discover novel potential disease-protein-drug relationships with\n\ntemporal information. ig poy We ee" + }, + { + "id": 85048, + "strid": "1ccd9f41-b568-42d6-a44e-c48118f3a0fe", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2333.02, + 417.46, + 610.6500000000001, + 225.67000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 85031, + 85041, + 85047, + 85032, + 85034, + 85030 + ], + "area": 973942.5292, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85030, + "strid": "ecc12ad0-fe66-4ceb-bf6c-80447422813e", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 133.161, + 293.519, + 2010.6129999999998, + 247.36300000000006 + ], + "priority": 1, + "parents": [ + 85048 + ], + "children": [], + "area": 39085.283559, + "iscrowd": 0, + "segmentation": [], + "text": "The Role of UniProt's Protein Sequence\nDatabases in Biomedical Research" + }, + { + "id": 85031, + "strid": "cbeeafea-f823-40e4-b6d0-7e2b63bfb16c", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 135.362, + 73.072, + 1711.48, + 198.54399999999998 + ], + "priority": 2, + "parents": [ + 85048 + ], + "children": [], + "area": 9891.172064, + "iscrowd": 0, + "segmentation": [], + "text": "Andrew Nightingale’, Tunca Dogan’, Diego Poggioli’, Maria Martin’ and the UniProt Consortium'?*\n\n1 EMBL-European Bioinformatics Institute, Cambridge, UK\n2 SIB Swiss Institute of Bioinformatics, Geneva, Switzerland\n3 Protein Information Resource, Georgetown University, Washington DC & University od Delaware, USA" + }, + { + "id": 85032, + "strid": "74d8e208-fd33-49d5-816a-43a612140875", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 156.954, + 755.041, + 494.901, + 79.68200000000002 + ], + "priority": 3, + "parents": [ + 85048 + ], + "children": [ + 85043, + 85033 + ], + "area": 118506.70511400001, + "iscrowd": 0, + "segmentation": [], + "text": "introduction" + }, + { + "id": 85033, + "strid": "79b33736-4e46-4e27-b46a-5004d00bef44", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.001, + 854.703, + 1439.275, + 807.557 + ], + "priority": 4, + "parents": [ + 85032 + ], + "children": [], + "area": 132479.819703, + "iscrowd": 0, + "segmentation": [], + "text": "UniProt provides human disease information with extensive\ncross-references to disease relevant databases such as: Medical\nSubject Headings (MeSH)' and Online Mendelian Inheritance in Man\n(OMIM)’?, Figure 1. In Jorder to further enhance the functional\nannotations relevance ¢toNbiomedical research; UniProt has recently\ndeveloped a pipeline for importing protein altering variants from globally\nrecognised geneticwvariant repositories with the aim to extend the\nmanually curated, set of natural protein altering variants provided by\nUniProt. By combining these resources UniProt has become a more\nrelevant resource for biomedical research and drug target identification.\nHere we,describe how users of UniProt can develop methodologies to\nutilise the’ described cross-references, protein structure and functional\nannotations to explore how structural, functional and chemical ligand\nannotations can be utilised to identify relationships between a protein\nand disease causing variants." + }, + { + "id": 85043, + "strid": "0d5f3e57-c186-4bb5-b224-ecb761d2cb83", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 184.747, + 1708.858, + 1351.391, + 888.9680000000001 + ], + "priority": 5, + "parents": [ + 85032 + ], + "children": [ + 85042 + ], + "area": 315706.38892600004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85042, + "strid": "172bf335-80ae-43ea-add8-c597ab5f0bf9", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 158.37, + 2619.171, + 1354.2710000000002, + 82.73700000000008 + ], + "priority": 6, + "parents": [ + 85043 + ], + "children": [], + "area": 414798.11127, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Disease and natural variant annotation for UniProtKB/SwissProt entry for Human\nBRCA1" + }, + { + "id": 85041, + "strid": "f88fd11d-8ca2-41fd-a572-192166cb303d", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 148.21, + 2844.157, + 524.0, + 103.05799999999999 + ], + "priority": 7, + "parents": [ + 85048 + ], + "children": [ + 85044, + 85040 + ], + "area": 421532.50897, + "iscrowd": 0, + "segmentation": [], + "text": "Methodology" + }, + { + "id": 85040, + "strid": "1f8f08b8-1f85-4e2c-b70d-23c7c5654d77", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.242, + 2965.265, + 1446.295, + 542.6280000000002 + ], + "priority": 8, + "parents": [ + 85041 + ], + "children": [], + "area": 412889.42912999995, + "iscrowd": 0, + "segmentation": [], + "text": "Utilising the extensive cross-referencing within UniProt-(Figure 2),\nInterPro domains for protein targets with disease annotation were\nprobabilistically matched to ChEMBL? ligands based.upon ChEMBL's\nactivity. Score. Imported variants from the Ensembl variation’ and\nCOSMIC® databases were mapped to the InterPro® domains. Variants\nwithin binding pockets was determined using*PDBe’ binding pocket\ndefinitions when a high resolution structure »with ligands bounds was\navailable for the protein target. Finally any variant within a defined\nbinding pocket was also mapped to ProSite patterns to determine if the\nvariant was within the pattern." + }, + { + "id": 85044, + "strid": "7ff1911f-60b1-4bb9-9965-b2f9b60e409f", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 316.718, + 3578.124, + 1126.85, + 732.808 + ], + "priority": 9, + "parents": [ + 85041 + ], + "children": [ + 85045 + ], + "area": 1133256.277032, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85045, + "strid": "f81fce7d-9349-44bb-816b-d745d8ef67d0", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 140.289, + 4307.018, + 786.624, + 42.822000000000116 + ], + "priority": 10, + "parents": [ + 85044 + ], + "children": [], + "area": 604227.2482019999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Extensive cross-referencing within UniProt" + }, + { + "id": 85034, + "strid": "7a1bb927-901d-4c68-b51e-647cea825179", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1649.872, + 741.118, + 1277.381, + 296.6539999999999 + ], + "priority": 11, + "parents": [ + 85048 + ], + "children": [ + 85039, + 85035, + 85037, + 85036 + ], + "area": 1222749.8368960002, + "iscrowd": 0, + "segmentation": [], + "text": "Mapping diseases to InterPro\nDomains, Variants and ChEMBL\nCompounds ae" + }, + { + "id": 85035, + "strid": "22c19a6f-fbdb-4ef7-b33b-8e170e56ced6", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1647.658, + 1132.966, + 1523.1169999999997, + 318.7919999999999 + ], + "priority": 12, + "parents": [ + 85034 + ], + "children": [], + "area": 1866740.4936279997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85036, + "strid": "d400607e-b51e-4030-a275-51f4935c5b41", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 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"area": 4762743.701184, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: MAPK4 binding pocket with analogue inhibitor bound and p.Ser233Ala variant." + }, + { + "id": 85039, + "strid": "fc24643e-3ad4-435c-9065-a6dadd3f2d87", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1653.579, + 2956.381, + 1503.095, + 577.712 + ], + "priority": 16, + "parents": [ + 85034 + ], + "children": [], + "area": 4888609.537598999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85047, + "strid": "f2df9013-2a18-48fe-8ddd-efd4032a49c3", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1649.316, + 3638.332, + 508.69600000000014, + 74.13200000000006 + ], + "priority": 17, + "parents": [ + 85048 + ], + "children": [ + 85046 + ], + "area": 6000759.180912, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 85046, + "strid": "762ddeb2-6c96-4de4-a416-88d3a07ede12", + "image_id": 203807, + "image_name": "120958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1649.892, + 3740.27, + 1508.1649999999997, + 221.221 + ], + "priority": 18, + "parents": [ + 85047 + ], + "children": [], + "area": 6171041.550840001, + "iscrowd": 0, + "segmentation": [], + "text": "These results illustrate that UniProtKB is a useful resource for biomedical\nresearch and therefore from these findings UniProt is planning}, in\ncollaboration with its partner databases, to develop new services~to aid\nbiomedical research’and-drug discovery pipelines." + }, + { + "id": 49185, + "strid": "63e2b26e-0392-43ed-a0dc-b920d487ea7c", + "image_id": 202428, + "image_name": "118682.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 589.24, + 36.89, + 357.58000000000004, + 223.49 + ], + "priority": -1, + "parents": [], + "children": [ + 49181, + 49183, + 49182, + 49184, + 49179, + 49178, + 49180 + ], + "area": 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Taddei-Ferretti’, A. Gini?, Denis Larrivee’, “Institute of Cybernetics, CNR, Pozzuoli, Naples, Italy, 7Neuroradiology Division, San\nCamillo-Forlanini Medical Center, Rome, Italy, >Catholic Diocese of Charleston, USA" + }, + { + "id": 49180, + "strid": "32079fe3-b68e-46e7-b184-4c3692a3fbec", + "image_id": 202428, + "image_name": "118682.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 406.156, + 721.265, + 1241.105, + 902.622 + ], + "priority": 3, + "parents": [ + 49185 + ], + "children": [], + "area": 292946.10734, + "iscrowd": 0, + "segmentation": [], + "text": "1.Convergence of scientific and philosophical enquirie\nWithin the field of the mind-body pro there are\nnumerous issues which are stan perspective\nof science and which are al ralal ed to recurrent philosophical\nreflections. Included amon e€ are neural representations of sen\nor motor events, the oa of consciousness, perception as a m\nconscious event whi ects together the several, concomitant and\never-changing in uts from many sensory channels, memory, the imagi\nfunction, thinki tivity, and the will. From the scientific point of vie\nand other i , are considered reductionistically. This is an ob ious\nnece ary cl nsequence of employing the scientific method seca\nhas i, Se oneself to what one can observe either directly,\n~ suitable instruments, in nature. Philosophical rom\nploy several options depending on the general background a\none has assumed, such as those of monism, cuss,\nreductionism, spiritualism,\n\n©\nDp icliectualism, etc. cS\n\n \n \n \n \n \n \n \n \n \n \n\n4" + }, + { + "id": 49184, + "strid": "ae298a1d-cafe-4813-9e3b-ae2a474c715b", + "image_id": 202428, + "image_name": "118682.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.678, + 2472.02, + 863.637, + 957.1060000000002 + ], + "priority": 4, + "parents": [ + 49185 + ], + "children": [], + "area": 162357.32955999998, + "iscrowd": 0, + "segmentation": [], + "text": ". Brain imaging technique\nntemporary brain imaging techniques\nprovide a plethora of perspectives from\nwhich to explore the neural correlates of mental\nevents. Global functional capacity may be fered\nby use of electroencephalography (EE\nmagnetoencephalography (MEG); an\nconfigurations of pertinent brain str\ndeciphered by magnetic resonance i\nand computerized axial oe y (CAT); and\nFunctional determination aha ‘er activity may be\n\nging (MRI)\n\nassessed by single pho ission computerized\ntomography (SPECT) , positron emission tomography\n(PET) and func ric nat resonance imaging\n(fMRI). The array of technologies yield a\nof empirically generated data that —\nance our understanding of =\nbrain activity.\n\n \n \n \n\n \n \n \n\nwealt" + }, + { + "id": 49183, + "strid": "62d5db7e-67ae-4a7b-a8c1-8e7ddc656cfd", + "image_id": 202428, + "image_name": "118682.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1819.999, + 3004.433, + 1075.1050000000002, + 744.221 + ], + "priority": 5, + "parents": [ + 49185 + ], + "children": [], + "area": 5468065.055567, + "iscrowd": 0, + "segmentation": [], + "text": "~ 3. Caution i csinn interpreting brain\nimaging data\neee offered by brain imaging\nexercise caution when interpreting such\n\n \n\nIn spite of the gr\ntechniques, gare)\ndata. First, th n, and in general the mammalian brain, is not\ndarn 0 a rigid anatomical-functional correlation such\nas ros brains (e.g., of several invertebrate species):\ner, past events, context, expectations, and uk\np important role. Second, and more important, ae\noo in humans are always accompanied by Co ental\nactivities; insight utilizes the cooperation of neural\nrepresentations, memory, imagination, a ting and 4\n\ngathering similar elements, seo asoning, af\nand thinking. 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Anthropological ethical implications\nAlthough it is not up to sci ific investigation to scan\nhether understanding has a spiritual character or not, interpretation\nof brain agg an by activity based models ought to\nconsider whether ing has in fact identified loci of neural activity\nputatively correlated with the so-called “spiritual” activity of insight _\neaee re) r, rather, merely loci of the neural activity correlated\nwith “I ental activities immediately preceding understa :\n\n��S) Distinguishing between these alternatives is\n\nCF significance for judging the ethical a Del\nNy ve data as well as of the anthropological vision\n\nderived from theirinterpretation. = =" + }, + { + "id": 89484, + "strid": "742430a6-e4b0-4cdb-8055-1bd4b007abef", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 28.55, + 34.57, + 69.34, + 108.97 + ], + "priority": -1, + "parents": [], + "children": [ + 89443, + 89474, + 89465, + 89473, + 89440, + 89442, + 89439, + 89464, + 89483, + 89441, + 89472, + 89455, + 89454, + 89482, + 89438 + ], + "area": 986.9735000000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89438, + "strid": "602f9b1d-aa03-41a7-b417-48c2e161a092", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 160.457, + 43.5, + 3184.804, + 97.74000000000001 + ], + "priority": 1, + "parents": [ + 89484 + ], + "children": [], + "area": 6979.8795, + "iscrowd": 0, + "segmentation": [], + "text": "Using a network approach to unravel biological pathways involved in cancer" + }, + { + "id": 89439, + "strid": "f3d364f8-4b6c-4eac-8aca-8f8ae03d0384", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 97.75, + 159.54, + 3247.375, + 292.264 + ], + "priority": 2, + "parents": [ + 89484 + ], + "children": [], + "area": 15595.035, + "iscrowd": 0, + "segmentation": [], + "text": "(6 TET CT eke Q Da CL TAT kee a Se Teak Seer hi eee (6 ean aeakeee\ni) Vasseur !:2:3,4, F eT EM CTT A Ell el ecko E Mas®»9, I eae T habe G hehe A PETE he G Bidaut!»2:3,4\n\nCancer Research Center of Marseille\n1. 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"area": 2853899.614657, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89464, + "strid": "fbbbf6b0-0bfa-4f52-9cac-f979e591f6aa", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2987.499, + 2660.764, + 378.2510000000002, + 31.052000000000135 + ], + "priority": 21, + "parents": [ + 89484 + ], + "children": [], + "area": 7949029.789236, + "iscrowd": 0, + "segmentation": [], + "text": "Just see what we can do!" + }, + { + "id": 89465, + "strid": "657ec720-d9ce-432b-ac55-8fdbbf6f2626", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2947.382, + 2709.456, + 478.7890000000002, + 299.1909999999998 + ], + "priority": 22, + "parents": [ + 89484 + ], + "children": [], + "area": 7985801.844192, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89455, + "strid": "2d506675-23d4-457e-aafa-85d10c1e7da2", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 601.961, + 3028.109, + 1005.2250000000001, + 58.878999999999905 + ], + "priority": 23, + "parents": [ + 89484 + ], + "children": [ + 89466, + 89475, + 89456, + 89477, + 89476, + 89478 + ], + "area": 1822803.521749, + "iscrowd": 0, + "segmentation": [], + "text": "A. Pancreatic cancer project" + }, + { + "id": 89456, + "strid": "6189e066-b5e8-4662-9d5e-33c5c17e898f", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 180.836, + 3289.226, + 1117.156, + 620.4209999999998 + ], + "priority": 24, + "parents": [ + 89455 + ], + "children": [], + "area": 594810.4729360001, + "iscrowd": 0, + "segmentation": [], + "text": "This study in mouse aims to identify metabolic pathways involved in\nthe pancreatic cancer development (tumorigenesis) over time.\nTherefore, we analysed transcriptome data from 3 different stages of\ndisease development (4, 6 and 9 weeks old diseased mice and the\nage-paired normal mice; diseased=T for \"tumor\" and healthy=C for\n\"control\", early stage=4 for 4 weeks, intermediate stage=6 for 6\nweeks and late stage=9 for 9 weeks).\n\nThe mouse network used is constituted by 15,000 proteins, 125,000\nPPIs, 1,700 TFs, 34,000 regulations.\n\nIn these ITI analyses, we used only proteins involved in metabolism\nas seed (start point of aggregation) of each subnetwork.\n\nWe made 3 analyses to isolate subnetworks for each time. We will\nshortly compare and combine subnetworks to visualize the gene\nexpression evolution over time." + }, + { + "id": 89466, + "strid": "bb9d9a23-4c62-4121-bb9b-383288e94dd3", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1560.755, + 3262.871, + 800.9839999999999, + 518.924 + ], + "priority": 25, + "parents": [ + 89455 + ], + "children": [], + "area": 5092542.227605, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89475, + "strid": "a7a3ff63-ed53-41f0-adcb-7bed3d1b9bf9", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1472.119, + 3707.747, + 492.3399999999999, + 204.875 + ], + "priority": 26, + "parents": [ + 89455 + ], + "children": [], + "area": 5458244.805892999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89476, + "strid": "c0428b61-5a86-48a1-8371-aecf22837091", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2699.042, + 3226.851, + 423.29100000000017, + 163.70199999999977 + ], + "priority": 27, + "parents": [ + 89455 + ], + "children": [], + "area": 8709406.376742, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89478, + "strid": "ca0aabf9-b9a6-4c53-bccc-74657c5c7d31", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2511.74, + 3432.167, + 841.9450000000002, + 405.9380000000001 + ], + "priority": 28, + "parents": [ + 89455 + ], + "children": [], + "area": 8620711.140579998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89477, + "strid": "3391fd2a-0168-4633-ade5-89920b8d3c94", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2421.589, + 3771.669, + 479.605, + 114.84700000000021 + ], + "priority": 29, + "parents": [ + 89455 + ], + "children": [], + "area": 9133432.162041, + "iscrowd": 0, + "segmentation": [], + "text": "A subnetwork from the 9T\n\nversus 9C analysis\n\nPicture performed by Graphviz\n\n(software used in the HTML report making)" + }, + { + "id": 89454, + "strid": "a59c574d-448b-4b0e-813e-3ce31425a890", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 561.039, + 4135.686, + 1248.107, + 63.12299999999959 + ], + "priority": 30, + "parents": [ + 89484 + ], + "children": [ + 89448, + 89469, + 89453, + 89450, + 89467, + 89452, + 89449, + 89470, + 89468, + 89451 + ], + "area": 2320281.137754, + "iscrowd": 0, + "segmentation": [], + "text": "B. Breast cancer stem cells project" + }, + { + "id": 89448, + "strid": "d7b8a4f5-f47b-4375-bb17-3ca60a190ade", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 173.855, + 4331.319, + 1353.697, + 169.3100000000004 + ], + "priority": 31, + "parents": [ + 89454 + ], + "children": [], + "area": 753021.464745, + "iscrowd": 0, + "segmentation": [], + "text": "Background. Breast cancer has a 5-year survival rate of ~90%, but remaining 10% are associated\nwith letal metastatic relapses. Cancer stem cells (CSC) might be the cause for these relapses, for\nthey tend to resist conventional treatments, and have the ability to generate metastases thanks to\ntheir properties: self-renewal and differenciation (5, 6). The aim of this study is to better\nunderstand their biology, in order to build a new drug which could target them specifically." + }, + { + "id": 89449, + "strid": "94ba5a5f-1b6e-437a-bcf4-7ea0238f67ac", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 174.274, + 4528.154, + 140.152, + 25.48199999999997 + ], + "priority": 32, + "parents": [ + 89454 + ], + "children": [], + "area": 789139.5101960001, + "iscrowd": 0, + "segmentation": [], + "text": "Methods." + }, + { + "id": 89467, + "strid": "3429dc50-9c8c-4f3a-b6b8-7b65b018ffbf", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 326.772, + 4571.864, + 984.799, + 487.7020000000002 + ], + "priority": 33, + "parents": [ + 89454 + ], + "children": [], + "area": 1493957.1430079998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89450, + "strid": "259b50bd-72ec-4fb2-9d34-655cf6a6213e", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 174.575, + 5128.774, + 1131.413, + 163.0699999999997 + ], + "priority": 34, + "parents": [ + 89454 + ], + "children": [], + "area": 895355.72105, + "iscrowd": 0, + "segmentation": [], + "text": "A genome-wide siRNA screening was performed on cancer cells, and the Aldh1\nactivity was measured. A low aldh+/aldh- ratio is associated with a low proportion\nof CSCs, while a high ratio is associated with a high proportion of CSCs (7). All\ngenes are scored accordingly.\n\nSubnetworks are built by aggregation of genes using their score." + }, + { + "id": 89468, + "strid": "07f3a68f-8c82-4153-9438-2d5ff6e5a049", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1346.062, + 5127.149, + 182.61799999999994, + 167.88799999999992 + ], + "priority": 35, + "parents": [ + 89454 + ], + "children": [], + "area": 6901460.437238, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89451, + "strid": "3a0c1bf9-8dbe-4933-9bbe-cbe18c6a5c78", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1585.433, + 4326.88, + 1019.4200000000001, + 267.97000000000025 + ], + "priority": 36, + "parents": [ + 89454 + ], + "children": [], + "area": 6859978.33904, + "iscrowd": 0, + "segmentation": [], + "text": "Ce\nSubnetworks detection\n\n62 subnetworks were found in total. Double-circled are the genes found\nto be interesting after a primary screening. Green nodes are proteins\ncoded by genes associated with a growth of the CSC population, while red\nones are associated with CSC population decrease. Squares are\ntranscription factors." + }, + { + "id": 89452, + "strid": "94b506fd-07f7-474f-b126-6deffd793d87", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1586.906, + 4634.267, + 330.86400000000003, + 30.572000000000116 + ], + "priority": 37, + "parents": [ + 89454 + ], + "children": [], + "area": 7354146.107902, + "iscrowd": 0, + "segmentation": [], + "text": "Subnetworks integration" + }, + { + "id": 89469, + "strid": "18ae05f8-f427-4753-a639-0f50a3a51ef4", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1610.694, + 4698.142, + 996.0700000000002, + 617.6890000000003 + ], + "priority": 38, + "parents": [ + 89454 + ], + "children": [], + "area": 7567269.130547999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89470, + "strid": "91a5e03a-8ff3-49e2-bdf8-99d7564d763b", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2685.159, + 4308.986, + 674.4009999999998, + 391.7560000000003 + ], + "priority": 39, + "parents": [ + 89454 + ], + "children": [], + "area": 11570312.538774, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89453, + "strid": "341db59e-ae85-4d8b-93a3-3a2dd2e133f4", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2657.256, + 4773.961, + 744.3359999999998, + 458.28700000000026 + ], + "priority": 40, + "parents": [ + 89454 + ], + "children": [], + "area": 12685636.511016, + "iscrowd": 0, + "segmentation": [], + "text": "RUNX1, which was already described as a master\nregulator of leukemic stem cells, is linked to breast\nCSCs self-renewal, together with EP300. Our analysis\nidentifies new potential breast CSCs regulators, such\nas TAMM41, which might be interesting to further\ninvestigate.\n\nAnalysis of genes linked with CSC _ population\ndecrease (fig on the left) revealed the potential\nimplication of the MED family (mediator complex), as\nwell as the RPL family (ribosomal proteins). NCOR1/\nRARA (nuclear corepressor complex), known for\nregulating Aldh1 expression, were used as a positive\ncontrol." + }, + { + "id": 89441, + "strid": "349e0399-a5a7-45f7-9006-0b84259ad534", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 156.634, + 5450.242, + 323.11199999999997, + 40.06700000000001 + ], + "priority": 41, + "parents": [ + 89484 + ], + "children": [ + 89445 + ], + "area": 853693.205428, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 89445, + "strid": "e5284469-736e-4602-a06c-134e57e8e819", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.674, + 5510.446, + 1325.645, + 358.1400000000003 + ], + "priority": 42, + "parents": [ + 89441 + ], + "children": [], + "area": 675988.452604, + "iscrowd": 0, + "segmentation": [], + "text": "Network biology seems to be a good approach in order to understand complex diseases such as\ncancer. Thus we developed the ITI pipeline in the Integrative Bioinformatics team.\n\nNetwork data integration tends to confirm the implication of genes identifed in vitro, but also\nallows the discovery of new genes, and their connections alltogether. These connections can lead\nus to building whole pathways involved in a given clinical condition.\n\nThese findings can potentially better treatments in several ways: limit secondary effects due to\nlack of specificity, improve efficiency through synergistic effects. They can be used in drug\nrepositioning or adjuvant drug building (1), thus improving the disease's prognosis and clinical\noutcome." + }, + { + "id": 89442, + "strid": "418ec8ef-f3b1-4d11-b95b-a91e2ae3b590", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1561.663, + 5454.902, + 579.2550000000001, + 48.38799999999992 + ], + "priority": 43, + "parents": [ + 89484 + ], + "children": [ + 89446 + ], + "area": 8518718.622026, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 89446, + "strid": "82c0e558-fa9c-430a-850b-3e3d28b02681", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1605.912, + 5532.089, + 1447.4929999999997, + 64.5 + ], + "priority": 44, + "parents": [ + 89442 + ], + "children": [], + "area": 8884048.110168, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89443, + "strid": "5eeb2c30-9517-46ed-9d2c-1eab1436d304", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1560.962, + 5624.611, + 334.509, + 41.375 + ], + "priority": 45, + "parents": [ + 89484 + ], + "children": [ + 89447 + ], + "area": 8779804.035782, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 89447, + "strid": "4adc9c54-3920-4a6f-970e-eb17a200860d", + "image_id": 203973, + "image_name": "121248.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1607.022, + 5695.629, + 1875.585, + 153.92500000000018 + ], + "priority": 46, + "parents": [ + 89443 + ], + "children": [], + "area": 9153001.106838, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138330, + "strid": "08d5dceb-1dba-4808-8bbc-3b1b3bd889fd", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2889.17, + 56.91, + 315.1300000000001, + 214.56000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 138329, + 138319, + 138322, + 138327, + 138318, + 138325, + 138317 + ], + "area": 164422.6647, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138317, + "strid": "6caf5768-a38b-4009-9765-baa681239a3c", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 54.704, + 15.523, + 2733.725, + 266.081 + ], + "priority": 1, + "parents": [ + 138330 + ], + "children": [], + "area": 849.170192, + "iscrowd": 0, + "segmentation": [], + "text": "Expansion of Galactosemia Proteins Database 2.0\nwith a new galactosemia-related protein" + }, + { + "id": 138318, + "strid": "cbd70503-c415-4891-9782-3643322c2672", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 50.432, + 283.053, + 2421.305, + 405.457 + ], + "priority": 2, + "parents": [ + 138330 + ], + "children": [], + "area": 14274.928896000001, + "iscrowd": 0, + "segmentation": [], + "text": "Antonio dAcierno*, Angelo Faccniano*, Federica aan oO, / | f N\nBernardina Scafuri? and Anna Mara Tia y _/ ;\n1CNR-ISA, National Research era cart “4 Foo sci Me, Feit} Tea\nPS aT of Chemistry and Biology Wave alot) Uneasy of Eee\nFisciano, SA, Italy" + }, + { + "id": 138319, + "strid": "6f653a4a-c675-4f7b-bea6-e05136275dd6", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.638, + 749.163, + 1577.703, + 718.0219999999999 + ], + "priority": 3, + "parents": [ + 138330 + ], + "children": [], + "area": 49922.72399400001, + "iscrowd": 0, + "segmentation": [], + "text": "Galactosemia_ Proteins Database 2.0 [d’Acierno et al., 2018]\n(http://www. protein-variants.eu/galactosemia) is the ELIXIR-IIB resource\ndedicated to the analysis and bioinformatics interpretation of the\nconsequences of missense mutations occurring on three enzymes involved\nin the galactose metabolism, i.e. galactose-1-phosphate uridylyltransferase,\ngalactokinase and UDP-galactose-4-epimerase. The impairment of each of\nthese three enzymes leads to different forms of galactosemia, a group of\nrare, autosomal recessive inborn errors of metabolism that can cause both\nacute symptoms and long-term complications [Viggiano et al., 2018]. The\nknowledge of the impact of the mutations [Facchiano and Marabotti, 2010]\nhas allowed to clarify the mechanisms by which the activity of these\nproteins has been impaired, and this is essential either to find a connection" + }, + { + "id": 138329, + "strid": "518dc335-aaa7-4b95-b105-41dae151ea79", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1658.745, + 745.66, + 1588.219, + 674.584 + ], + "priority": 4, + "parents": [ + 138330 + ], + "children": [], + "area": 1236859.7966999998, + "iscrowd": 0, + "segmentation": [], + "text": "between the genotype of the patients and their phenotypes, and to\nhypothesize a therapeutic strategy.\n\nVery recently, a new form of galactosemia (Type IV galactosemia) has been\nfound, associated to the impairment of galactose mutarotase enzyme\n(GALM) [Wada et al., 2019] and several mutations has been characterized\nalso for this protein [lwasawa et al., 2019]. Therefore, we have modelled and\nanalyzed all these new mutants, in order to create a new section of our\ndatabase to collect these new data. Moreover, this upgrade allows us to\nimplement other additional functionalities for the automatic upload and\ncontrol of the data produced, and for the automation of most of the\nanalyses performed on the data sets." + }, + { + "id": 138322, + "strid": "c1910f7e-9cda-4dcf-a915-0fa4eee89fe3", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 61.333, + 1489.302, + 652.647, + 79.19800000000009 + ], + "priority": 5, + "parents": [ + 138330 + ], + "children": [ + 138321, + 138323, + 138320 + ], + "area": 91343.359566, + "iscrowd": 0, + "segmentation": [], + "text": "The new database" + }, + { + "id": 138323, + "strid": "7571d668-ccce-440c-a93e-ff31089640be", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 70.133, + 1575.833, + 1145.432, + 1039.835 + ], + "priority": 6, + "parents": [ + 138322 + ], + "children": [], + "area": 110517.895789, + "iscrowd": 0, + "segmentation": [], + "text": "The data about GALM mutations have been retrieved from\nliterature [lwasawa et al., 2019] and the mutant proteins\nhave been modelled starting from the X-ray structure of\nthe wild-type enzyme complexed with B-D-galactose (PDB\ncode: 1SOo0).\n\nSubsequently, by using a semi-automated procedure,\nstructural data about wild-type protein were calculated\nand the impact of mutations on protein structure and\nfunction were predicted by using several tools. The results\nwere collected in the database and are easily accessible to\nthe users via a Web server with an interface of\ninterrogation.\n\nTwo levels of data can be visualized: a simple indication of\nthe involvement of the residues in structural effects, and a\ndetailed analysis showing these effects, with a summary of\nthe predicted impact of mutation on the protein.\n\nAll the data collected are programmatically accessible and\nlinked out from RD Connect via common API." + }, + { + "id": 138321, + "strid": "903c396b-c8b0-4ac8-b379-09e88de35e95", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1248.312, + 1532.456, + 2004.7600000000002, + 982.2749999999999 + ], + "priority": 7, + "parents": [ + 138322 + ], + "children": [], + "area": 1912983.2142719997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138320, + "strid": "0bcd3a10-9a3e-40dd-9628-05685f8d792d", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 76.575, + 2634.128, + 3172.586, + 844.9050000000002 + ], + "priority": 8, + "parents": [ + 138322 + ], + "children": [], + "area": 201708.35160000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138325, + "strid": "6647e603-b782-44de-b3fa-4a828f4aa0d8", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 69.531, + 3498.601, + 1215.106, + 81.59900000000016 + ], + "priority": 9, + "parents": [ + 138330 + ], + "children": [ + 138324, + 138328 + ], + "area": 243261.22613100003, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion and Tuture perspectives" + }, + { + "id": 138324, + "strid": "39feccd5-ce0a-4b43-abdf-6710506a8028", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.534, + 3608.618, + 1575.571, + 491.20199999999977 + ], + "priority": 10, + "parents": [ + 138325 + ], + "children": [], + "area": 272573.352012, + "iscrowd": 0, + "segmentation": [], + "text": "The understanding of the clinical effects of mutations in rare diseases\ncannot be separated from the analysis of their effects on the proteins\nexpressed by the mutated genes, since the proteins are the macromolecules\nthrough which the genes perform their actions and interactions in the cell.\n\nOur Web resources represents a conceptual example of integration between\nthe aims of the well established ELIXIR Rare Disease Community and the\nnew ELIXIR Structural Biology Community. The massive use of this\napproach and the development of a platform to annotate the structures of" + }, + { + "id": 138328, + "strid": "e1a8176a-6237-4ee0-bd91-2882a9a960a2", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1677.685, + 3612.501, + 1579.6950000000002, + 418.6790000000001 + ], + "priority": 11, + "parents": [ + 138325 + ], + "children": [], + "area": 6060638.740185, + "iscrowd": 0, + "segmentation": [], + "text": "proteins collected in the PDB database and involved in RD with the effects\nof the mutations collected in RD-Connect would greatly increase the\nknowledge of these mutations at the molecular level, it would allow the use\nof this information to different professional figures by facilitating the\ninterconnection \"from bench to bedside\" and would also make it easier to\ndevelop therapeutic hypotheses to be applied for the treatment or\ncontainment of the symptoms of patients suffering from rare diseases." + }, + { + "id": 138327, + "strid": "7dd7129e-4d1c-4382-a07c-419fcbc044a8", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 847.3, + 4217.339, + 709.845, + 90.93099999999959 + ], + "priority": 12, + "parents": [ + 138330 + ], + "children": [ + 138326 + ], + "area": 3573351.3346999995, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 138326, + "strid": "8988fd66-af38-47b2-98af-cd0547fe946c", + "image_id": 205863, + "image_name": "16490.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 832.51, + 4332.068, + 836.452, + 264.2399999999998 + ], + "priority": 13, + "parents": [ + 138327 + ], + "children": [], + "area": 3606489.93068, + "iscrowd": 0, + "segmentation": [], + "text": "This project has been partially\nsupported by University of Salerno\n(FARB-ORSA170308 and 183080) (to\nA.M.)" + }, + { + "id": 119141, + "strid": "722d9945-7b05-4bad-87e0-f0126ceeac84", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 497.36, + 101.07, + 344.81999999999994, + 153.25 + ], + "priority": -1, + "parents": [], + "children": [ + 119126, + 119137, + 119138, + 119129, + 119131, + 119140, + 119124, + 119123 + ], + "area": 50268.1752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119123, + "strid": "5081f753-264e-491f-82b9-b0a10e9d7140", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 959.629, + 274.252, + 2093.742, + 220.536 + ], + "priority": 1, + "parents": [ + 119141 + ], + "children": [], + "area": 263180.172508, + "iscrowd": 0, + "segmentation": [], + "text": "Multivariate Curve Resolution and Other Methods\nApplied to the Terra-ref Hyperspectral Dataset" + }, + { + "id": 119124, + "strid": "df9e7519-8622-4a89-8043-77e3f9b3290c", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 23.954, + 578.02, + 3496.676, + 169.67499999999995 + ], + "priority": 2, + "parents": [ + 119141 + ], + "children": [], + "area": 13845.89108, + "iscrowd": 0, + "segmentation": [], + "text": "eR ee\n\nCody Champion}, Jerilyn Ann Timlin?, David Hanson?, Benjamin Duval*\nMntelligence Community Postdoctoral Research Fellowship Program, New Mexico Institute of Mining and Technology, Socorro, NM ?Sandia National Laboratories, Albuquerque, NM ?University\nof New Mexico, Department of Biology, Albuquerque, NM *New Mexico Institute of Mining and Technology, Department of Biology" + }, + { + "id": 119131, + "strid": "549835fc-7cc8-4973-92cf-81c12e4f5ed5", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 34.982, + 833.297, + 251.51700000000002, + 50.692999999999984 + ], + "priority": 3, + "parents": [ + 119141 + ], + "children": [ + 119130 + ], + "area": 29150.395654, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 119130, + "strid": "9bfc3c85-ad44-4f18-9823-a37ccd71e38b", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.133, + 911.286, + 785.748, + 2441.733 + ], + "priority": 4, + "parents": [ + 119131 + ], + "children": [], + "area": 26548.495037999997, + "iscrowd": 0, + "segmentation": [], + "text": "Large-scale, multi-modal datasets, such as\nTerra-ref are valuable sources of\ninformation that provide the ability to\ndetect effects that may not be sufficiently\nrepresented in smaller scale, single sensor\nexperiments. In this study, we utilized a\ndataset consisting of 103 hyperspectral\nreflectance images of Sorghum bicolor\ncollected at irregular intervals from May\n5th, 2016 to October 23rd, 2017 from the\nTerra-ref project at the University of\nArizona Maricopa Agricultural Center and\nUSDA Arid Land Research. We extracted\nthe average reflectance spectra of\nSorghum bicolor across this timespan and\ncalculated the change in each wavelength\nrepresented in the spectra over time. We\ncreate an index that expresses the change\nin the spectra over time. Traditional crop\nindices, while often quite useful, generally\nextract and make use of one or at most a\nfew discrete spectral bands from the\nhyperspectral data. The high-resolution\nhyperspectral image potentially contains\nmuch more information To augment\ntraditional indices for image analysis, we\napplied a multivariate curve resolution\n(MCR) method to the hyperspectral image\ndata. MCR is an exploratory analysis\nmethod that uses the data covariance to\nidentify the underlying spectral signatures\nand map their per pixel abundances. This\nMCR results provide an in-depth view of\nthe spectroscopic properties of the\nSorghum plant over time as the plant\nmatures. This work represents a unique\napproach to phenotyping with the aim of\npredicting the health and stress response\nof this crop." + }, + { + "id": 119129, + "strid": "6594e1d6-402b-4b5d-81b3-aeed48df0fc1", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 914.318, + 835.246, + 577.125, + 56.543000000000006 + ], + "priority": 5, + "parents": [ + 119141 + ], + "children": [ + 119127, + 119134, + 119128, + 119133, + 119132 + ], + "area": 763680.4522279999, + "iscrowd": 0, + "segmentation": [], + "text": "EXPERIMENTAL SECTION" + }, + { + "id": 119127, + "strid": "f0492307-4e6b-4951-8024-c425b0e306e9", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 904.569, + 905.437, + 1647.536, + 154.0300000000001 + ], + "priority": 6, + "parents": [ + 119129 + ], + "children": [], + "area": 819030.241653, + "iscrowd": 0, + "segmentation": [], + "text": "Plant masking\nSoil and plant spectra were separated using a method in which pixels were grouped using k-means with\nreflectance values at 950, 900, and 840 nm as features" + }, + { + "id": 119128, + "strid": "90078d1c-148a-420a-84ad-f1bb46271ffd", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1546.036, + 1098.462, + 623.9189999999999, + 643.4169999999999 + ], + "priority": 7, + "parents": [ + 119129 + ], + "children": [], + "area": 1698261.796632, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119132, + "strid": "63c1428d-c519-42f0-b0ab-ad474a084cda", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 912.368, + 1800.371, + 887.1350000000001, + 101.38699999999994 + ], + "priority": 8, + "parents": [ + 119129 + ], + "children": [], + "area": 1642600.888528, + "iscrowd": 0, + "segmentation": [], + "text": "Time analysis\nThese figures examine change in the spectra over time." + }, + { + "id": 119134, + "strid": "5bf09c61-dc41-4be9-b3ff-efa553239494", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 942.543, + 1963.407, + 1654.964, + 742.7609999999997 + ], + "priority": 9, + "parents": [ + 119129 + ], + "children": [], + "area": 1850595.524001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119133, + "strid": "5d4f3ee9-f098-4fcd-89b4-e66af47789f1", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 910.047, + 2833.83, + 1466.953, + 608.1350000000002 + ], + "priority": 10, + "parents": [ + 119129 + ], + "children": [], + "area": 2578918.49001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119126, + "strid": "3b353599-7e10-4d3d-9151-4d54484e9aa2", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2702.626, + 813.019, + 343.93499999999995, + 46.79399999999998 + ], + "priority": 11, + "parents": [ + 119141 + ], + "children": [ + 119125 + ], + "area": 2197286.2878940003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 119125, + "strid": "6ef6e675-54df-4bf8-9721-4823994a05b5", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2692.892, + 885.269, + 770.415, + 543.4179999999999 + ], + "priority": 12, + "parents": [ + 119126 + ], + "children": [], + "area": 2383933.807948, + "iscrowd": 0, + "segmentation": [], + "text": "Feature selection is a vital initial step for\nalgorithm development. Our primary goal is to\ndevelop a method to detect stress in Sorghum\nplants. However, to accomplish this a deeper\nunderstanding of the spectra of this plant is\n\nneeded.\n\nIn order to do this we utilized the Terra-ref data\nset which is a time series hyperspectral image\nrecord of a Sorghum field." + }, + { + "id": 119140, + "strid": "c052d769-040f-4145-a685-b6323adba23b", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2681.399, + 1581.747, + 615.0990000000002, + 54.71199999999999 + ], + "priority": 13, + "parents": [ + 119141 + ], + "children": [ + 119139 + ], + "area": 4241294.824053, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS AND DISCUSSION" + }, + { + "id": 119139, + "strid": "f7ae6f78-676d-4b1b-9e8d-4c7ec514a054", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2678.083, + 1656.355, + 784.21, + 218.84899999999993 + ], + "priority": 14, + "parents": [ + 119140 + ], + "children": [], + "area": 4435856.167465, + "iscrowd": 0, + "segmentation": [], + "text": "We have isolated specific regions that are\nvariable over time. Additionally, we have\ncreated a robust dataset to utilize in future\n\nresearch that requires an average spectra." + }, + { + "id": 119138, + "strid": "e441a0bc-a8ff-4f70-b964-1c9fab3b1020", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2686.372, + 1982.971, + 351.4850000000001, + 59.68599999999992 + ], + "priority": 15, + "parents": [ + 119141 + ], + "children": [ + 119136 + ], + "area": 5326997.7712119995, + "iscrowd": 0, + "segmentation": [], + "text": "FUTURE WORK" + }, + { + "id": 119136, + "strid": "7251f4a8-f062-4b15-883d-589dc2dd916c", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2684.715, + 2064.21, + 742.761, + 266.92999999999984 + ], + "priority": 16, + "parents": [ + 119138 + ], + "children": [], + "area": 5541815.5501500005, + "iscrowd": 0, + "segmentation": [], + "text": "Our future work is to collect spectra from\nstressed plants and create a method to\ndetermine if the plant is stressed. This will be\ndone by utilizing a simple binning followed by\na random forest." + }, + { + "id": 119137, + "strid": "7ecd92bd-6943-40a9-b5ca-5a1134acd5b5", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2676.425, + 2443.88, + 505.674, + 61.34400000000005 + ], + "priority": 17, + "parents": [ + 119141 + ], + "children": [ + 119135 + ], + "area": 6540861.529000001, + "iscrowd": 0, + "segmentation": [], + "text": "ACJNOWLEDGMENTS" + }, + { + "id": 119135, + "strid": "2b5fbd29-b0c1-4ca6-a863-854dcadbf4ed", + "image_id": 205135, + "image_name": "14309.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2676.425, + 2520.146, + 782.5520000000001, + 628.3620000000001 + ], + "priority": 18, + "parents": [ + 119137 + ], + "children": [], + "area": 6744981.758050001, + "iscrowd": 0, + "segmentation": [], + "text": "We would like to thank Dr. Sally Pias who\nprovided bandwidth and processing power\n\nfor this project.\n\nThis research was supported by an appointment\nto the Intelligence Community Postdoctoral\nResearch Fellowship Program at New Mexico\nInstitute of Mining and Technology,\nadministered by Oak Ridge Institute for Science\nand Education through an interagency\nagreement between the U.S. Department of\nEnergy and the Office of the Director of National\nIntelligence." + }, + { + "id": 23234, + "strid": "30241827-b4a5-46fe-a819-b2477874952d", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 30.72, + 175.4, + 115.84, + 191.12999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 23213, + 23224, + 23225, + 23216, + 23214, + 23232, + 23223, + 23215, + 23221, + 23212 + ], + "area": 5388.288, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23212, + "strid": "54fe2be8-1429-4850-990a-46ef361dfc8b", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 128.768, + 30.133, + 1791.457, + 134.352 + ], + "priority": 1, + "parents": [ + 23234 + ], + "children": [], + "area": 3880.166144, + "iscrowd": 0, + "segmentation": [], + "text": "Extracorporeal membrane oxygenation (EGMO):\na The \"MOTOR\" of cytokine production?" + }, + { + "id": 23213, + "strid": "ce39ff78-7a16-417f-95f6-a5f2b74cb2e7", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 386.548, + 166.107, + 1582.499, + 215.354 + ], + "priority": 2, + "parents": [ + 23234 + ], + "children": [], + "area": 64208.328636, + "iscrowd": 0, + "segmentation": [], + "text": "Yoshitaka Hara-}sOsamu Nishida\"! , Tomoyuki Nakamura~\\)Sohta Uchiyama”!, Junpei Shibata*!, Chizuru Yamashita”!\nMiho Yumot6 4 Yasuyo Shimomura*!, Naohide Kuriyamé*!, Natsumi Yasuoka*!, Mai Ito*!, Kotare.Kawata\"!,\nSeiko Hayakawa\"! Shingo Yamada”, Taku Miyashé™,Kazuhiro Moriyama’!\n\n*! Department of Anesthesiology & Criticél Care Medicine, Fujita Health University SchoglofMedicine, Toyoake, Japan\n*2 Shino-Test Corporation, Tokyo, Japaty\n*3 Department of Veterinary Science \\R&kuno Gakuen University, Ebetsu, Japan" + }, + { + "id": 23214, + "strid": "991d80ff-0697-4a8e-81d6-82e21c6205b0", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 100.392, + 421.286, + 278.358, + 48.00600000000003 + ], + "priority": 3, + "parents": [ + 23234 + ], + "children": [ + 23217 + ], + "area": 42293.744112, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 23217, + "strid": "59c3f0f5-0a85-4086-a40b-d7626d238402", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.093, + 475.877, + 1867.805, + 195.67000000000002 + ], + "priority": 4, + "parents": [ + 23214 + ], + "children": [], + "area": 48583.710561, + "iscrowd": 0, + "segmentation": [], + "text": "The usefulness of extracorporeal membrane oxygenation (ECMO) is being rediscovered in the wake of the pandemic of H1N1 influenza.\nHowever, it has been reported that patients who received ECMO often developed virus-associated hemophagocytic syndrome (VAHS),\ncompared to those without ECMO support (1). Although there is ample evidence that extensive cytokine activation is a key factor in VAHS,\nECMO itself could be a potential trigger to exacerbate the pathology by amplifying cytokine activation. In this study, we investigated\nwhether mediators such as cytokines may be produced by ECMO." + }, + { + "id": 23215, + "strid": "c99b8dff-962a-43a4-88f5-0d0b4d8e1d69", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 102.337, + 722.227, + 501.76700000000005, + 45.25599999999997 + ], + "priority": 5, + "parents": [ + 23234 + ], + "children": [ + 23219 + ], + "area": 73910.544499, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 23219, + "strid": "d9e37544-9a20-418b-a9d5-c411a6b8157a", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 102.209, + 775.782, + 552.2259999999999, + 547.955 + ], + "priority": 6, + "parents": [ + 23215 + ], + "children": [], + "area": 79291.902438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23221, + "strid": "1c3b963b-cf1a-4b86-a239-41135686951d", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 688.918, + 691.361, + 1185.379, + 533.526 + ], + "priority": 7, + "parents": [ + 23234 + ], + "children": [ + 23222 + ], + "area": 476291.037398, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23222, + "strid": "9218045b-72bc-4515-a12e-8d838d9fe7dd", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 726.104, + 1229.254, + 712.6479999999999, + 117.82300000000009 + ], + "priority": 8, + "parents": [ + 23221 + ], + "children": [], + "area": 892566.246416, + "iscrowd": 0, + "segmentation": [], + "text": "Figure. 1 ECMO system and blood sampling sites\n\nBlood specimens were drawn simultaneously from the blood circuit at\nthe inlet of the centrifugal pump (before) and outlet of the hollow fiber\noxygenator (after) at a frequency of 3 to 4 times per day." + }, + { + "id": 23223, + "strid": "b1058768-c201-4980-a685-8d7dff607519", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1496.311, + 1239.571, + 475.845, + 105.481 + ], + "priority": 9, + "parents": [ + 23234 + ], + "children": [], + "area": 1854783.7225809998, + "iscrowd": 0, + "segmentation": [], + "text": "ECMO system consisted of : (A) CAPIOX ® EBS ®\n(TERUMO), (B) the combination ROTAFLOW\nCENTRIFUGAL PUMP (MAQUET) and\nBIOCUBE TNC coating 6000 (NIPRO)." + }, + { + "id": 23216, + "strid": "2391c9a7-e863-4e0c-90c0-763126b48946", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 104.665, + 1384.67, + 161.88099999999997, + 46.972999999999956 + ], + "priority": 10, + "parents": [ + 23234 + ], + "children": [ + 23231, + 23218, + 23230, + 23220 + ], + "area": 144926.48555, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 23220, + "strid": "3bbe54a2-3db9-4c3a-b2f1-2ebaf0ed354e", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 114.906, + 1446.382, + 888.7440000000001, + 439.624 + ], + "priority": 11, + "parents": [ + 23216 + ], + "children": [ + 23229 + ], + "area": 166197.970092, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23229, + "strid": "da0de501-c99b-4a44-8cb6-10285d697347", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1043.369, + 1404.774, + 873.539, + 29.201999999999998 + ], + "priority": 12, + "parents": [ + 23220 + ], + "children": [], + "area": 1465697.6436059996, + "iscrowd": 0, + "segmentation": [], + "text": "Table. 1 Characteristics of two patients and operating conditions for ECMO" + }, + { + "id": 23218, + "strid": "769cb136-f23e-4576-a465-45d6b8ba5479", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1027.618, + 1435.499, + 924.0729999999999, + 507.1490000000001 + ], + "priority": 13, + "parents": [ + 23216 + ], + "children": [], + "area": 1475144.611382, + "iscrowd": 0, + "segmentation": [], + "text": "Case1: A 78-year-old man with acute exacerbation of interstitial pneumonia\nrequired ECMO. At ICU admission, steroid pulse therapies, consisting of\nintravenous methylprednisolone (1,000 mg/day), were administered for 3\nconsecutive days. Before initiation of ECMO, PaO2 was 47.9mmHg. In the ICU,\nthe right femoral vein was cannulated with a 23 Fr cannula for venous\ndrainage, and a 21 Fr cannula inserted into the right internal jugular vein, for\nreturn of oxygenated blood. ECMO circuit was CAPIOX ® EBS ® (TERUMO).\n\nCase2: A 68-year-old man with acute exacerbation of interstitial pneumonia\nrequired ECMO. At ICU admission, steroid pulse therapies, consisting of\nintravenous methylprednisolone (1,000 mg/day), were administered for 3\nconsecutive days and cyclosporin was infused. Before initiation of ECMO, PaO2\nwas 80.1mmHg. The right femoral vein was cannulated with a 25 Fr cannula\nfor venous drainage, and a 21 Fr cannula inserted into the right internal\njugular vein. ECMO cuircuit was ROTAFLOW CENTRIFUGAL PUMP\n(MAQUET) and BIOCUBE TNC coating 6000 (NIPRO). 19 sets samples were\nanalyzed in Case.1 and 34 sets in Case2. (One set sample means simultaneous\ndrawing from two sites; before pump and after oxygenator.)" + }, + { + "id": 23231, + "strid": "afcd282e-357a-41f9-bc1a-f3431d6b7d33", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 119.454, + 1986.635, + 883.872, + 747.798 + ], + "priority": 14, + "parents": [ + 23216 + ], + "children": [], + "area": 237311.49729, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23230, + "strid": "56f1f863-97ee-41b1-ac27-da3c7126b712", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1031.169, + 1986.879, + 891.422, + 542.181 + ], + "priority": 15, + "parents": [ + 23216 + ], + "children": [ + 23228 + ], + "area": 2048808.0315510002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23228, + "strid": "a977cbb4-b28e-4a11-9295-8a3aa1003b4b", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1036.976, + 2547.332, + 924.106, + 239.45699999999988 + ], + "priority": 16, + "parents": [ + 23230 + ], + "children": [], + "area": 2641522.1480320003, + "iscrowd": 0, + "segmentation": [], + "text": "Table. 2 The change of cytokines through ECMO system\n\n(A) All samples were 34 sets. In most cases, blood levels of IL-1, IL-2, IL-4, IL-5, IL-\n12(p70), IL-13, IL-17, GM-CSF, IFN-y, and TNF-a were below the detection limit and did\nnot increase during ECMO. (B) The other mediators, IL-6, IL-7, IL-8, IL-10, G-CSF, MCP-\n1, MIP-18, HMGB-1, were detected at the inlet (before), but no significant increase was\nobserved at the outlet (after). (HMGB1; p=0.33, IL-6; p=0.12, IL-7; p=0.22, IL-8; p=0.43,\nIL-10; p=0.84, MCP-1; p=0.10, and MIP=18; p=0.65, Wilcoxon signed-rank test)\nComparison of the two groups was made by two — sided Wilcoxon’s signed rank test." + }, + { + "id": 23224, + "strid": "291a5444-f190-473a-8617-b9dacf02818f", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 100.272, + 2827.633, + 232.07100000000003, + 47.152000000000044 + ], + "priority": 17, + "parents": [ + 23234 + ], + "children": [ + 23226 + ], + "area": 283532.41617599997, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 23226, + "strid": "66fe09e7-e0ad-4958-a985-cca91d7359ff", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 102.003, + 2881.79, + 1838.956, + 278.7510000000002 + ], + "priority": 18, + "parents": [ + 23224 + ], + "children": [], + "area": 293951.22537, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23225, + "strid": "26f50f1a-d111-48c4-a795-38c8096c412b", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 100.907, + 3199.914, + 265.125, + 48.61000000000013 + ], + "priority": 19, + "parents": [ + 23234 + ], + "children": [ + 23227 + ], + "area": 322893.721998, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 23227, + "strid": "daafdb22-acbe-4d88-8108-78f70f1c55ed", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 102.318, + 3254.563, + 1768.684, + 109.35699999999997 + ], + "priority": 20, + "parents": [ + 23225 + ], + "children": [], + "area": 333000.377034, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23232, + "strid": "cf02b192-e4ac-44de-b8a3-b274be66e0fb", + "image_id": 201431, + "image_name": "117103.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 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2709.8592, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 39743, + "strid": "d5cf1e4f-fbe5-42e4-ac18-0b1211fcd81e", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 275.265, + 63.049, + 1992.185, + 463.164 + ], + "priority": 1, + "parents": [ + 39768 + ], + "children": [], + "area": 17355.182985, + "iscrowd": 0, + "segmentation": [], + "text": "Scientific collaboration: new challenges for\nuniversity libraries\n\nLa colaboracion cientifica: nuevos retos para\nlas bibliotecas universitarias (*)" + }, + { + "id": 39744, + "strid": "6f83cb6d-3e4f-44be-9105-7d012ad8db0c", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 684.112, + 594.779, + 2229.121, + 169.59299999999996 + ], + "priority": 2, + "parents": [ + 39768 + ], + "children": [], + "area": 406895.45124799997, + "iscrowd": 0, + "segmentation": [], + "text": "José-Rodolfo Hernandez-Carrion, Gregorio Gonzalez Alcaide, Javier Gomez Ferri (Universitat de Valencia, Espanya)\nFrancisco Javier Hernandez San Miguel (Universidad Politécnica de Valencia y Universidad de Valencia, Espana)\n\n \n\n(UVEG), Frahersa@bib.upv.es (UPV) SPAIN" + }, + { + "id": 39745, + "strid": "40ac60a1-b31f-49b8-8160-9209f5d5aaa9", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 179.064, + 833.341, + 859.6270000000001, + 106.38099999999997 + ], + "priority": 3, + "parents": [ + 39768 + ], + "children": [ + 39754 + ], + "area": 149221.372824, + "iscrowd": 0, + "segmentation": [], + "text": "Pregunta de investigacion / Research\nQuestion" + }, + { + "id": 39754, + "strid": "b71fe49a-8766-4cb1-87f9-c8f318d2b056", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 147.891, + 997.33, + 790.988, + 326.879 + ], + "priority": 4, + "parents": [ + 39745 + ], + "children": [], + "area": 147496.13103, + "iscrowd": 0, + "segmentation": [], + "text": "4 Cuales son las practicas de\ncolaboracion cientifica en la\nComunidad Valenciana/Espana?\n\nWhat are the scientific collaboration\npractices in Valencia region/Spain?" + }, + { + "id": 39746, + "strid": "53695247-c980-42fd-931d-043351cc6d08", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 184.291, + 1429.975, + 848.548, + 52.92599999999993 + ], + "priority": 5, + "parents": [ + 39768 + ], + "children": [ + 39767, + 39755 + ], + "area": 263531.522725, + "iscrowd": 0, + "segmentation": [], + "text": "Encuesta electronica / Online Survey" + }, + { + "id": 39755, + "strid": "1ccfaada-a457-4ccd-91cb-0df3c4d4e855", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.86, + 1562.465, + 884.2990000000001, + 1245.057 + ], + "priority": 6, + "parents": [ + 39746 + ], + "children": [], + "area": 232588.5399, + "iscrowd": 0, + "segmentation": [], + "text": "Se ha pasado un cuestionario a una\nmuestra de 3070 investigadores\n(N=11090) de las universidades de la\nregion de la Comunidad Valenciana en\nEspana, analizando por ramas de\nconocimiento (Artes y Humanidades,\nCiencias, Ciencias de la Salud,\nCiencias Sociales y Juridicas e\nIngenieria y Arquitectura), categorias\nacadémicas, sexo, cOmo se contacta\n(pre-colaboraci6n), desarrollo de la\ncolaboraci6n (tareas y motivos\nprincipales para colaborar, numero de\ncolaboradores habituales y a nivel de\ngrupos de investigaci6n que hacen que\nla colaboraci6n resulte exitosa), el\ngrado de satisfaccion con la\nplasmacion del trabajo en colaboracion\na través de las publicaciones cientificas\ne identificando los problemas y\nbarreras de la colaboracion cientifica." + }, + { + "id": 39767, + "strid": "fde3645b-61e5-4a04-9291-e30771d75522", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 151.685, + 2873.768, + 882.566, + 1064.051 + ], + "priority": 7, + "parents": [ + 39746 + ], + "children": [], + "area": 435907.49908000004, + "iscrowd": 0, + "segmentation": [], + "text": "Survey responses from 3070\nresearchers (N=11090) of the main\nuniversities of the Valencia region in\nSpain, were analyzed by academic\nfields (Arts and Humanities, Sciences,\nHealth Sciences, Social and Legal\nSciences and Engineering and\nArchitecture), academic title, gender,\nmethod of contact (pre-collaboration),\ndetails of the collaboration process\n(main tasks and motives to collaborate,\nnumber of regular collaborators and the\nlevel of research team collaboration\nwhich results in success), the degree of\nsatisfaction with collaborative work\nthrough scientific publications and\nidentifying the problems and barriers of\nscientific collaboration." + }, + { + "id": 39748, + "strid": "907d8d29-2af9-46dd-a58d-2a9fdad9c5d8", + "image_id": 202063, + "image_name": 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in Spain-Europe" + }, + { + "id": 39763, + "strid": "55a86ba5-9290-4acc-ae5b-821f98baafcb", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1149.042, + 3417.914, + 1023.5239999999999, + 1202.784 + ], + "priority": 18, + "parents": [ + 39751 + ], + "children": [], + "area": 3927326.738388, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 39752, + "strid": "72b32897-e866-467d-ad4e-5be977ea6844", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2365.733, + 859.377, + 778.5280000000002, + 52.712999999999965 + ], + "priority": 19, + "parents": [ + 39768 + ], + "children": [ + 39764 + ], + "area": 2033056.528341, + "iscrowd": 0, + "segmentation": [], + "text": "Sintesis de resultados / Highlights" + }, + { + "id": 39764, + "strid": "34844788-b9dc-46c1-a7ce-cfaee2ed7d58", + "image_id": 202063, + "image_name": "11808.png", + "category_id": 3, + 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96564, + 96565, + 96567, + 96562, + 96566 + ], + "area": 4063.035, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96561, + "strid": "fb48cc5e-e949-4a99-a2cd-8223b5a8fdc8", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 163.98, + 119.569, + 2923.99, + 187.44799999999998 + ], + "priority": 1, + "parents": [ + 96584 + ], + "children": [], + "area": 19606.924619999998, + "iscrowd": 0, + "segmentation": [], + "text": "Agricultural Land Use Constraints and Atlantic Forest Resilience: Challenges for Rural\nActivities and Opportunities for Ecosystem Recovery\n\noe ee" + }, + { + "id": 96562, + "strid": "56b7c937-bfe4-4cb8-81d6-c60673177b1d", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 88.643, + 367.985, + 1017.924, + 185.79899999999998 + ], + "priority": 2, + "parents": [ + 96584 + ], + "children": [], + "area": 32619.294355, + "iscrowd": 0, + "segmentation": [], + "text": "Ramon Felipe Bicudo da Silva (Doctoral student)\n\nCenter for Environmental Studies, University of Campinas, Brazil\nSupervisor: Mateus Batistella\n\nEMBRAPA Satellite Monitoring, Brazil" + }, + { + "id": 96563, + "strid": "01358b28-b290-4ba3-bd69-1e32f8837c48", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.952, + 615.517, + 234.483, + 39.74300000000005 + ], + "priority": 3, + "parents": [ + 96584 + ], + "children": [ + 96581, + 96568 + ], + "area": 57829.053184000004, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 96568, + "strid": "5b688054-8bba-4a7d-b09f-d77a674e155a", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 92.843, + 668.416, + 1504.738, + 954.5949999999999 + ], + "priority": 4, + "parents": [ + 96563 + ], + "children": [], + "area": 62057.74668800001, + "iscrowd": 0, + "segmentation": [], + "text": "Understanding resilience of tropical ecosystems raises knowledge about how the\nenvironment reacts after disturbances. Places experience forest transitions when\ndeclines in forest cover cease and recoveries in forest cover begin (Rudel et al.\n2005). In the case of Brazilian Atlantic Forest, centuries of pressure over its original\ndomain and forest remnants conducted the biome to a critical level of conservancy\n(about 8% in 1990s). However, natural regeneration processes have driven the\nmajor trajectory of ecosystem recovery in the Atlantic forest. These dynamic\nprocesses have occurred since the 1960s and are related to agricultural constraints\nsuch as land use policies, environmental legislations, agricultural modernization,\neconomic development and biophysical aspects of the landscape. This set of Forest\nTransition pathways is analyzed for the Paraiba Valley region, in Sdo Paulo State,\nBrazil (total area of 1418964 hectare). The Valley is characterized by a relief\ndominated by hills, two mountain ranges and flat areas covered by urban zones.\nDuring the 18% and 19* centuries, the farms on the Valley were responsible for\nthe providing the largest portion of the State wealthy. Despite of that, nowadays,\nthe Valley contributes to about 6% to the State's GDP and the contribution of rural\nactivities is inexpressive. Between 1962 and 2011, the forest cover area increased\nfrom 252 to 446 thousand hectares (+76%), in the study region (Figure 1)." + }, + { + "id": 96581, + "strid": "0cd99f0a-19ce-42c9-abf2-32f0cf4ca23b", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 445.424, + 1691.332, + 785.5239999999999, + 420.4469999999999 + ], + "priority": 5, + "parents": [ + 96563 + ], + "children": [ + 96580 + ], + "area": 753359.864768, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96580, + "strid": "bdeb67d3-5041-4c00-b159-500178cf37b4", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 445.679, + 2149.818, + 788.282, + 75.2800000000002 + ], + "priority": 6, + "parents": [ + 96581 + ], + "children": [], + "area": 958128.736422, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Variation rates of land use and land cover classes\nin the Paraiba Valley, Sdo Paulo State ." + }, + { + "id": 96564, + "strid": "41b46d09-3015-4e59-b6d1-02757e591b58", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 91.008, + 2280.259, + 167.897, + 39.065000000000055 + ], + "priority": 7, + "parents": [ + 96584 + ], + "children": [ + 96582 + ], + "area": 207521.81107199998, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 96582, + "strid": "dd3803b8-33fc-4818-984f-2f502934633e", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 84.161, + 2330.036, + 1514.358, + 211.69700000000012 + ], + "priority": 8, + "parents": [ + 96564 + ], + "children": [], + "area": 196098.15979600002, + "iscrowd": 0, + "segmentation": [], + "text": "We conducted map analysis (Multi-layer perception neural network (MPNN)\nmodel) to evaluate the influence of 17 independent variables for the process of\nforest transition, field observation and a set of ninety interviews applied in three\nmunicipalities of the study region." + }, + { + "id": 96565, + "strid": "105f830b-b03b-4add-a7e4-10dca914b8d5", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 87.306, + 2599.435, + 140.23400000000004, + 41.36900000000014 + ], + "priority": 9, + "parents": [ + 96584 + ], + "children": [ + 96578, + 96574, + 96583, + 96569 + ], + "area": 226946.27211, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 96583, + "strid": "84784a4a-fa56-4ca8-a44e-2ac6d3ad3414", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 88.359, + 2652.382, + 1511.523, + 688.357 + ], + "priority": 10, + "parents": [ + 96565 + ], + "children": [], + "area": 234361.821138, + "iscrowd": 0, + "segmentation": [], + "text": "Based on the model's results, the process of forest increase is conditioned by a set\nof biophysical and socioeconomic variables that operate during different historical\nperiods and landscape settings (Figure 2). The proximity of Atlantic forest remnants\nwas an influential variable towards the forest transition for the three periods\nanalyzed: 1985 to 1995, 1995 to 2005, and 2005 to 2011. In the first period of\nchange (1985 to 1995), topography was most influential. Between the periods of\n1995/2005 and 2005/2011, the proximity to eucalyptus plantations was an\nimportant factor, indicating high probability of native forest recovery occurring in\nthe vicinity of these monocultural areas. Forest transition tends to occur in areas\nless suitable for agriculture mainly while these areas are available in the landscape,\nbut as far as these areas are replaced by forest cover, socioeconomic driving forces\nsuch as farm credit and economic development play important roles in the\ndynamics of forest transition." + }, + { + "id": 96574, + "strid": "258e028f-d542-45c0-a0ea-d4d4559c41d7", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 86.134, + 3446.005, + 1818.215, + 1099.687 + ], + "priority": 11, + "parents": [ + 96565 + ], + "children": [ + 96575 + ], + "area": 296818.19467, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96575, + "strid": "b0901d67-ba79-4de4-b3ea-de7506d45288", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 90.776, + 4561.29, + 1181.966, + 35.827000000000226 + ], + "priority": 12, + "parents": [ + 96574 + ], + "children": [], + "area": 414055.66104, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Summary of Forest Transition process in the Paraiba Valley and MPNN results." + }, + { + "id": 96569, + "strid": "cfd6a641-88b9-4edf-a389-bbdc15f0c316", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1655.076, + 670.498, + 1564.4970000000003, + 370.85699999999997 + ], + "priority": 13, + "parents": [ + 96565 + ], + "children": [], + "area": 1109725.147848, + "iscrowd": 0, + "segmentation": [], + "text": "Among the slope classes of 0-3% (1), 3-6% (2), 6-12% (3), 12-20% (4), 20-40% (5),\n>40% (6) — the majority of new forest areas occurred in the classes 5 and 6 (Figure 3).\nThese classes mean terrain less suitable for agriculture, livestock, and suitable for\nrestricted forestry operations and conservancy. According to the answers from rural\nproperties with at least one agro-pastoral activity (68 in total), 78% recognized the\nmost steep slopes as a very significant constraint to land use, thus more likely to be\nabandoned and replaced by forest through natural regeneration." + }, + { + "id": 96578, + "strid": "58589757-dd68-4f76-8d8a-8d8c9f445b7c", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1988.69, + 1093.994, + 897.4699999999998, + 362.423 + ], + "priority": 14, + "parents": [ + 96565 + ], + "children": [ + 96579 + ], + "area": 2175614.9278599997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96579, + "strid": "67cbc0a1-92bd-4a0e-bfc3-4e4b59153963", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2051.324, + 1493.472, + 779.7220000000002, + 75.88200000000006 + ], + "priority": 15, + "parents": [ + 96578 + ], + "children": [], + "area": 3063594.956928, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. The pattern of forest cover increase over the\nmunicipalities' topography where the survey was applied." + }, + { + "id": 96567, + "strid": "97144a32-5947-4ae6-adae-a2a9f4861b57", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1656.445, + 1630.858, + 834.5249999999999, + 50.59699999999998 + ], + "priority": 16, + "parents": [ + 96584 + ], + "children": [ + 96577, + 96570 + ], + "area": 2701426.57981, + "iscrowd": 0, + "segmentation": [], + "text": "Collective action pathway of forest transition" + }, + { + "id": 96570, + "strid": "e08d11f9-9339-496f-8031-c6ffb3c96c56", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1656.027, + 1686.353, + 1567.9160000000002, + 581.7709999999997 + ], + "priority": 17, + "parents": [ + 96567 + ], + "children": [], + "area": 2792646.099531, + "iscrowd": 0, + "segmentation": [], + "text": "Considering forests and its related ecosystem services as public goods, volunteer\ninitiatives to boost forest cover inside private properties sheds light on the theory of\nCollective Action (Olson, 1965). As defined by Ostrom (1998), “social dilemmas” refer\nto a large number of situations in which individuals make independent choices in an\ninterdependent situation, reforestation initiatives and environmental complaint\nencompass self-interest and contribute to the production of public goods.\n\nThe society of Paraiba Valley interacts with public policies ensuring law enforcement\nthrough environmental complaint by citizens. As soon as the individuals realize the\noperation of the system via the consequences of legal punishment the system gives\nfeedback to individuals, then increasing the individuals’ trust in the public policy,\nstrengthening environmental complaint as a positive act (Figure 4)." + }, + { + "id": 96577, + "strid": "ef2590c5-af3f-4110-8ded-a1ae03280cae", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2089.839, + 2346.082, + 661.7570000000001, + 598.674 + ], + "priority": 18, + "parents": [ + 96567 + ], + "children": [ + 96576 + ], + "area": 4902933.660797999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96576, + "strid": "78f4c9ca-a929-4ed5-8e4f-6aa977986413", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2098.955, + 2963.055, + 407.1489999999999, + 34.76899999999978 + ], + "priority": 19, + "parents": [ + 96577 + ], + "children": [], + "area": 6219319.107524999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Analysis framework." + }, + { + "id": 96566, + "strid": "6b3a2442-3eab-4fb1-8d4b-7326877ad1de", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1647.875, + 3053.891, + 190.125, + 49.85500000000002 + ], + "priority": 20, + "parents": [ + 96584 + ], + "children": [ + 96571, + 96572 + ], + "area": 5032430.631625, + "iscrowd": 0, + "segmentation": [], + "text": "Highlights" + }, + { + "id": 96571, + "strid": "1e7a0448-d339-4d92-99f4-0693f124a141", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1649.759, + 3109.296, + 1569.1710000000003, + 264.23900000000003 + ], + "priority": 21, + "parents": [ + 96566 + ], + "children": [], + "area": 5129589.059664, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96572, + "strid": "cc15ed3c-9d2a-42cc-a0b9-8197d0592dea", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1922.475, + 3395.562, + 1297.0350000000003, + 797.3900000000003 + ], + "priority": 22, + "parents": [ + 96566 + ], + "children": [], + "area": 6527883.05595, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96573, + "strid": "47568bab-999c-4a2f-9ef6-e3d57bfd86f3", + "image_id": 204230, + "image_name": "121688.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1925.245, + 4247.687, + 1292.341, + 229.89999999999964 + ], + "priority": 23, + "parents": [ + 96584 + ], + "children": [], + "area": 8177838.158314999, + "iscrowd": 0, + "segmentation": [], + "text": "References\n\nRudel, T. K., Coomesb, O. T., Moran, E., Achardd, F., Angelsene, A., Xuf, J., Lambin, E. (2005). Forest transitions:\ntowards a global understanding of land use change. Global Environmental Change 15: 23—31.\n\nOlson, Mancur. (1965). The Logic of Collective Action: Public Goods and the Theory of Groups. Cambridge:\nHarvard University Press.\n\nOstrom, E. (1998). A Behavioral Approach to the Rational Choice Theory of Collective Action: Presidential Address,\nAmerican Political Science Association, 1997. The American Political Science Review 92(1): 1-22." + }, + { + "id": 122555, + "strid": "d56446a9-86a3-4574-aae4-680fa0f034dd", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 44.55, + 339.79, + 273.5, + 384.37999999999994 + ], + "priority": -1, + "parents": [], + "children": [ + 122553, + 122551, + 122537, + 122541, + 122554, + 122539, + 122542, + 122538, + 122543, + 122540 + ], + "area": 15137.6445, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122537, + "strid": "6592a6d1-1a0d-46c2-b1ea-48f76a57cb29", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 63.983, + 47.93, + 2208.66, + 477.07 + ], + "priority": 1, + "parents": [ + 122555 + ], + "children": [], + "area": 3066.7051899999997, + "iscrowd": 0, + "segmentation": [], + "text": "Blast-related injuries from explosive\nremnants of war in a post-conflict\nsetting, Raqaa, Sire) A retrospective analysis" + }, + { + "id": 122538, + "strid": "4f3e49b0-0bd7-4de2-b440-3d7a2ac195b3", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 139.837, + 594.0, + 2229.957, + 292.25800000000004 + ], + "priority": 2, + "parents": [ + 122555 + ], + "children": [], + "area": 83063.178, + "iscrowd": 0, + "segmentation": [], + "text": "Jennifer OKeeffe?, Larissa Vernier?, Vanessa Cramond!, Shazeer Majeed}, Antonio Isidro Carrion\nMartin®”, Maartje Hoetjes*, Mohana Amirtharajah2\n\n1 Médecins Sans Frontiéres, Tal-Abyad, Syria, 2 Médecins sans Frontiéres,, Amsterdam, the Netherlands:\n3 Médecins sans Frontiéres, London, United Kingdom" + }, + { + "id": 122553, + "strid": "0e9f6f01-0846-4f6d-a002-b5be8c3b87ba", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 161.969, + 931.939, + 1411.125, + 893.092 + ], + "priority": 3, + "parents": [ + 122555 + ], + "children": [], + "area": 150945.227891, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122541, + "strid": "c9f2b8ff-02fa-4807-8f92-1fef007beb8c", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 164.985, + 1934.031, + 223.15999999999997, + 45.222999999999956 + ], + "priority": 4, + "parents": [ + 122555 + ], + "children": [ + 122548 + ], + "area": 319086.104535, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 122548, + "strid": "6b7b2f8f-3beb-4305-82c5-609164e39600", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 157.526, + 2029.702, + 1408.654, + 454.4309999999998 + ], + "priority": 5, + "parents": [ + 122541 + ], + "children": [], + "area": 319730.837252, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122542, + "strid": "ba2ac16e-b078-4d7e-a83f-7257356b8052", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 154.637, + 2608.425, + 227.33499999999998, + 56.860999999999876 + ], + "priority": 6, + "parents": [ + 122555 + ], + "children": [ + 122549, + 122552 + ], + "area": 403359.01672500005, + "iscrowd": 0, + "segmentation": [], + "text": "Findings" + }, + { + "id": 122549, + "strid": "24304efa-a1df-46ee-ba07-a129b9cc5fae", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 145.624, + 2703.122, + 1379.468, + 772.2490000000003 + ], + "priority": 7, + "parents": [ + 122542 + ], + "children": [], + "area": 393639.43812799995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122552, + "strid": "56b79971-ff47-49a1-b980-a507e6a47959", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 148.979, + 3595.887, + 1423.117, + 697.5319999999997 + ], + "priority": 8, + "parents": [ + 122542 + ], + "children": [ + 122550 + ], + "area": 535711.649373, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122550, + "strid": "9ddb5d26-b452-4d90-84b0-03092cdc9aeb", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 156.183, + 4381.801, + 1365.74, + 97.54200000000037 + ], + "priority": 9, + "parents": [ + 122552 + ], + "children": [], + "area": 684362.8255830001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Distrubution of new blast case admissions, in the offensive\nand postoffensive period, by week, Tal Abyad hospital, 2016 -2017." + }, + { + "id": 122539, + "strid": "49cb180b-d83c-4a21-8827-8dbdf26e971f", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1735.641, + 946.893, + 318.674, + 56.38099999999997 + ], + "priority": 10, + "parents": [ + 122555 + ], + "children": [ + 122547 + ], + "area": 1643466.3134130002, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 122547, + "strid": "32054ac1-0c3c-47eb-8970-232a6f5e5b73", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1731.75, + 1043.508, + 1407.716, + 584.799 + ], + "priority": 11, + "parents": [ + 122539 + ], + "children": [], + "area": 1807094.979, + "iscrowd": 0, + "segmentation": [], + "text": "In June 2017, the U.S-backed Syrian Democratic Forces (SDF)\nlaunched a military operation to retake the city of Raqqa, Syria,\nfrom the so-called Islamic State. The city population incurred\nmass numbers of wounded. In the post-offensive period, the\npopulation returned to a city (Raqqa) contaminated with\nimprovised explosive devices (IEDs) and explosive remnants of\nwar (ERWs), resulting in a second wave of wounded patients.\nMédecins Sans Frontiéres (MSF) supported a hospital in Tal-\nAbyad (north of Raqqa) and scaled up operations in response\nto this crisis." + }, + { + "id": 122540, + "strid": "69f9dd56-0c8a-4653-8564-af729bc4374b", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1732.515, + 1680.977, + 282.91499999999996, + 60.47499999999991 + ], + "priority": 12, + "parents": [ + 122555 + ], + "children": [ + 122546 + ], + "area": 2912317.867155, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 122546, + "strid": "dab59050-3881-496a-a243-436b7be35ad8", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1737.429, + 1775.1, + 1385.0230000000001, + 114.27600000000007 + ], + "priority": 13, + "parents": [ + 122540 + ], + "children": [], + "area": 3084110.2179, + "iscrowd": 0, + "segmentation": [], + "text": "To describe the cohort of blast wounded cases admitted to this\nhospital, in order to understand better their medical needs." + }, + { + "id": 122551, + "strid": "0498cb57-1da8-4be0-b4ac-017e1d74d7c9", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1720.818, + 2004.136, + 1425.7010000000002, + 1211.9069999999997 + ], + "priority": 14, + "parents": [ + 122555 + ], + "children": [], + "area": 3448753.303248, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 122543, + "strid": "fc15feae-a114-46cf-a5b2-eb49a00f81e6", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1734.202, + 3317.568, + 298.97900000000004, + 48.99200000000019 + ], + "priority": 15, + "parents": [ + 122555 + ], + "children": [ + 122545 + ], + "area": 5753333.060736001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 122545, + "strid": "92054d81-5882-4407-a8f8-8e601ad38416", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1735.639, + 3396.302, + 1383.5419999999997, + 716.0970000000002 + ], + "priority": 16, + "parents": [ + 122543 + ], + "children": [], + "area": 5894754.206978, + "iscrowd": 0, + "segmentation": [], + "text": "In the wake of the Raqqa offensive, the MSF-supported\ndistrict hospital received a second, larger and more\ncomplex wave of blast-wounded cases as the population\nreturned to acity strewn with IEDs and ERWs.\n\nThese findings indicate the high risk of traumatic injury to\nthe population even after warring factions have vacated\nconflict zones.\n\nMedical humanitarian actors should be prepared for a\ncontinued and scaled up response in areas known to be\nhighly contaminated with explosive ordnance." + }, + { + "id": 122554, + "strid": "829a5975-ecd9-4e5c-afc2-df58ea66bedd", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1729.356, + 4185.557, + 394.49300000000017, + 45.83299999999963 + ], + "priority": 17, + "parents": [ + 122555 + ], + "children": [ + 122544 + ], + "area": 7238318.111292, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 122544, + "strid": "02f999d5-b6d4-444e-82a4-5262a2aeef04", + "image_id": 205271, + "image_name": "14566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1728.745, + 4253.457, + 691.9409999999998, + 298.442 + ], + "priority": 18, + "parents": [ + 122554 + ], + "children": [], + "area": 7353142.521465, + "iscrowd": 0, + "segmentation": [], + "text": "The study team would like to\nacknowledge the skill, commitment\nand dedication of the health care\nteams at the MSF supported hospital\nas well as all staff who assisted in the\nimplementation of this research." + }, + { + "id": 5781, + "strid": "9fea9a3d-b371-4990-82b0-0fba4a2c48c7", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 857.59, + 69.54, + 227.95999999999992, + 227.96999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 5767, + 5779, + 5768, + 5769, + 5771, + 5770 + ], + "area": 59636.80860000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5767, + "strid": "479000c8-612d-4e58-b3ad-b9a7e222a364", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 254.086, + 605.746, + 2685.4749999999995, + 180.524 + ], + "priority": 1, + "parents": [ + 5781 + ], + "children": [], + "area": 153911.578156, + "iscrowd": 0, + "segmentation": [], + "text": "Modeling of adjustment for misclassification and incompleteness in mortality\ndata-Isfahan 2014" + }, + { + "id": 5768, + "strid": "1792df91-e303-47a2-8bcb-61987fd40351", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 123.452, + 860.253, + 2463.3239999999996, + 270.99799999999993 + ], + "priority": 2, + "parents": [ + 5781 + ], + "children": [], + "area": 106199.953356, + "iscrowd": 0, + "segmentation": [], + "text": "Shams-Beyranvand M(Presenter) +, Maracy MR}, Farzadfar F*, Mohammadi Y?, Mansouri A2\n'Epidemiology & Biostatistics Dept, Isfahan Uni of Medical Sciences, Isfahan, Iran\n\n2Non-communicable Diseases Research Center, Tehran Uni of Medical Sciences, Tehran, Iran\n\nEpidemiology & Biostatistics Dept, Hamadan Uni of Medical Sciences, Hamadan, Iran" + }, + { + "id": 5769, + "strid": "cb3c37e8-c5b6-4471-a8f6-897728b6a4a0", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 151.549, + 1264.72, + 484.871, + 40.68599999999992 + ], + "priority": 3, + "parents": [ + 5781 + ], + 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"image_name": "10739.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 437.899, + 1634.326, + 2394.931, + 1126.589 + ], + "priority": 6, + "parents": [ + 5770 + ], + "children": [ + 5776 + ], + "area": 715669.721074, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5776, + "strid": "92cdd475-7c16-4b1f-b6b7-49dc20bcaf2f", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 960.291, + 2834.055, + 1175.2619999999997, + 28.84400000000005 + ], + "priority": 7, + "parents": [ + 5773 + ], + "children": [], + "area": 2721517.510005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1. Scientific scheme of processes in modeling of adjustment for misclassification and incompleteness in mortality data" + }, + { + "id": 5771, + "strid": "1a6b33f1-6acc-4938-a68e-67aba0c6807f", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 137.364, + 2966.303, + 131.564, + 35.61000000000013 + ], + "priority": 8, + "parents": [ + 5781 + ], + "children": [ + 5774, + 5775 + ], + "area": 407463.245292, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 5774, + "strid": "42c5ef1d-1c15-4d72-9388-e3c3059a358a", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 193.241, + 3049.057, + 953.202, + 485.60199999999986 + ], + "priority": 9, + "parents": [ + 5771 + ], + "children": [ + 5777 + ], + "area": 589202.823737, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5777, + "strid": "36c7642b-f176-4c81-bc25-432948b9fd8e", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 414.363, + 3599.815, + 400.242, + 26.79399999999987 + ], + "priority": 10, + "parents": [ + 5774 + ], + "children": [], + "area": 1491630.142845, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2. Misclassification correction results" + }, + { + "id": 5775, + "strid": "6da3a5a0-a095-4e22-b0fe-e65e7f8576fd", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1947.141, + 3133.643, + 925.7150000000001, + 305.297 + ], + "priority": 11, + "parents": [ + 5771 + ], + "children": [ + 5778 + ], + "area": 6101644.764663001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5778, + "strid": "dfa6a589-2adc-410a-917b-e27cfd565b2c", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2226.403, + 3599.278, + 389.5720000000001, + 27.916999999999916 + ], + "priority": 12, + "parents": [ + 5775 + ], + "children": [], + "area": 8013443.337033999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3. Incompleteness estimation results" + }, + { + "id": 5779, + "strid": "e2102d39-8178-4098-843a-f3d71681f55a", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 131.224, + 3699.424, + 431.18800000000005, + 36.4340000000002 + ], + "priority": 13, + "parents": [ + 5781 + ], + "children": [ + 5780 + ], + "area": 485453.21497599996, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion and conclusion:" + }, + { + "id": 5780, + "strid": "ad7e0812-ea97-41b3-84a9-2062d108e950", + "image_id": 200734, + "image_name": "10739.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 132.04, + 3743.898, + 2866.63, + 79.2159999999999 + ], + "priority": 14, + "parents": [ + 5779 + ], + "children": [], + "area": 494344.29192, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199213, + "strid": "9babfc40-ade0-4f8a-b9db-df0811d5ef46", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 67.44, + 38.35, + 366.08, + 63.35999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 199198, + 199194, + 199192, + 199193, + 199197, + 199195, + 199196 + ], + "area": 2586.324, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199192, + "strid": "13dc99aa-9744-4ab7-90f8-d10515e2cd47", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 483.467, + 55.821, + 2720.336, + 399.7049999999999 + ], + "priority": 1, + "parents": [ + 199213 + ], + "children": [], + "area": 26987.611406999997, + "iscrowd": 0, + "segmentation": [], + "text": "Epidemiology and Outcomes of Out-of-Hospital Cardiac\nArrest in a Developing Country-A Multicenter Cohort\nLaer AY\n\n————" + }, + { + "id": 199193, + "strid": "52e17a8a-3937-4e9d-a5e0-b0b1b0877c38", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 85.186, + 562.086, + 3318.419, + 539.1879999999999 + ], + "priority": 2, + "parents": [ + 199213 + ], + "children": [], + "area": 47881.857996000006, + "iscrowd": 0, + "segmentation": [], + "text": "Minaz Mawani, MSc Epidemiology and Biostatistics:, Muhammad Masood Kadir MBBS, MPH, MOHS, FCPS2, Iqbal Azam\nMSc2, Amber Mehmood mess, FcPs?, Bryan McNally Mp, MPH?, Kent Stevens MD, MPH, FACS’ ,Rozina Nuruddin,\nMBBS, MSc, PhD?, Mohammad Ishaq MBBS, MRCP, FRCP, FACC, FCPS, FNAMS2* Junaid Abdul Razzak MD, PhD’\n‘Department of Medicine, The Aga Khan University, Karachi Pakistan,?7Department of Community Health Sciences, The Aga Khan University, Karachi Pakistan, ?International Health Johns\nHopkins Bloomberg School of Public Health, Baltimore, MD, USA, “Emory University School of Medicine & Rollins School of Public Health Atlanta, Georgia USA, Department of Surgery,\n\nJohns Hopkins University School of Medicine, Baltimore, MD, USA, ®Karachi Institute of Heart Diseases, Karachi Pakistan, 7Department of Emergency Medicine, The Aga Khan University,\nKarachi Pakistan" + }, + { + "id": 199194, + "strid": "5f0f3914-3641-4c34-8d03-ff0b907830bc", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 289.663, + 1182.068, + 313.75800000000004, + 45.97399999999993 + ], + "priority": 3, + "parents": [ + 199213 + ], + "children": [ + 199199 + ], + "area": 342401.363084, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 199199, + "strid": "0fc9845d-5fda-4b3a-9706-293f309f1cb0", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 63.515, + 1285.846, + 785.627, + 594.529 + ], + "priority": 4, + "parents": [ + 199194 + ], + "children": [], + "area": 81670.50869, + "iscrowd": 0, + "segmentation": [], + "text": "Out-of-hospital Cardiac Arrest (OHCA)\nis one of the leading causes of death\nand disability worldwide. Survival\npost OHCA has been reported to be\npoor and limited studies have been\nconducted in developing countries.\nWe aimed to investigate the rates of\nsurvival from OHCA and explore the\ncomponents of chain of survival in\nKarachi, Pakistan." + }, + { + "id": 199196, + "strid": "96f5f3f3-b9b0-4126-b22c-f3c87acd8b77", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 189.486, + 1905.556, + 507.321, + 43.79299999999989 + ], + "priority": 5, + "parents": [ + 199213 + ], + "children": [ + 199210 + ], + "area": 361076.18421599997, + "iscrowd": 0, + "segmentation": [], + "text": "Study settings and locations" + }, + { + "id": 199210, + "strid": "eadbab0b-4940-4497-ab75-b75096f349c8", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 45.845, + 1971.928, + 802.785, + 737.7079999999999 + ], + "priority": 6, + "parents": [ + 199196 + ], + "children": [], + "area": 90403.03916, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199197, + "strid": "904d7308-ca60-4800-b1b1-7de88cbe8b0a", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 339.443, + 2756.47, + 229.12400000000002, + 47.48900000000003 + ], + "priority": 7, + "parents": [ + 199213 + ], + "children": [ + 199207, + 199204, + 199200, + 199206, + 199205, + 199211, + 199209 + ], + "area": 935664.4462099998, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 199200, + "strid": "4d633381-09a5-4951-8133-bb6aeea3abc5", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 59.407, + 2864.938, + 796.755, + 1489.116 + ], + "priority": 8, + "parents": [ + 199197 + ], + "children": [], + "area": 170197.371766, + "iscrowd": 0, + "segmentation": [], + "text": "We conducted a prospective cohort\nstudy at emergency departments (ED)\nof five major public and _ private\nhospitals of Karachi, Pakistan from\nJanuary 2013 to April 2013. These are\nthe largest teaching hospitals of the\ncity where majority of patients and\nmost of the EMS(Emergency Medical\nServices) visits are received. Combine,\nthese hospitals receive population\nthat is diverse in socioeconomic status\nand ethnicities and is largely\nrepresentative of the — general\npopulation. Twenty-four hour data\ncollection was performed by a team\nconsisting of 17 trained data\ncollectors, using a structured\nquestionnaire. All patients > 18 year,\npresenting with non-traumatic OHCA,\nwere included. Patients with Do-not-\nresuscitate status or referred from\nother hospitals were — excluded.\nPrimary outcome of this study was\nsurvival of OHCA patients at the end\nof ED stay." + }, + { + "id": 199206, + "strid": "1c6f8b70-017a-45e5-95a1-40edf6c19958", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 149.641, + 4376.377, + 654.117, + 553.0820000000003 + ], + "priority": 9, + "parents": [ + 199197 + ], + "children": [], + "area": 654885.430657, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199207, + "strid": "69659321-4e26-4efa-8ee1-1d9ba34adc65", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 897.056, + 1156.95, + 914.8510000000001, + 912.499 + ], + "priority": 10, + "parents": [ + 199197 + ], + "children": [], + "area": 1037848.9392000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199211, + "strid": "c53bc6f2-dcaf-454f-8a3b-9d4121cf0a9f", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1813.093, + 1156.781, + 810.8079999999998, + 913.587 + ], + "priority": 11, + "parents": [ + 199197 + ], + "children": [], + "area": 2097351.533633, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199205, + "strid": "7e3c1992-89e4-4f68-8589-066917743d17", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 901.664, + 2266.753, + 1714.108, + 1253.25 + ], + "priority": 12, + "parents": [ + 199197 + ], + "children": [ + 199203 + ], + "area": 2043849.5769920002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199203, + "strid": "3d364b45-c7d4-463b-ad97-8033b95afc1a", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 915.774, + 2131.436, + 1638.167, + 99.86299999999983 + ], + "priority": 13, + "parents": [ + 199205 + ], + "children": [], + "area": 1951913.6714640001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Comparison of demographic and cardiac arrest related characteristics of 399 study\nparticipants" + }, + { + "id": 199204, + "strid": "3c8cb156-8876-4185-8267-582fb34cc88a", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 901.368, + 3546.49, + 1711.842, + 402.203 + ], + "priority": 14, + "parents": [ + 199197 + ], + "children": [], + "area": 3196692.59832, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199209, + "strid": "27aa6466-ffa7-4ced-bd1f-dc318d9b9fd8", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 898.136, + 3979.907, + 1716.17, + 837.366 + ], + "priority": 15, + "parents": [ + 199197 + ], + "children": [ + 199212 + ], + "area": 3574497.753352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199212, + "strid": "2e676b6f-d9b9-4e7c-900d-8de9d9979ae6", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 917.548, + 4839.443, + 1664.387, + 95.2470000000003 + ], + "priority": 16, + "parents": [ + 199209 + ], + "children": [], + "area": 4440421.245764, + "iscrowd": 0, + "segmentation": [], + "text": "Kaplan Meier survival curves showing survival time by transportation status of cardiac arrest\npatients" + }, + { + "id": 199195, + "strid": "06291083-ec3a-47dc-8c75-387ccea1ff07", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2956.751, + 1181.757, + 182.13599999999997, + 46.488000000000056 + ], + "priority": 17, + "parents": [ + 199213 + ], + "children": [ + 199208, + 199201 + ], + "area": 3494161.1915070005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 199201, + "strid": "773f3208-6c69-4a32-a7d4-2b5dca9a00be", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2663.528, + 1303.12, + 766.4389999999999, + 1434.828 + ], + "priority": 18, + "parents": [ + 199195 + ], + "children": [], + "area": 3470896.6073599993, + "iscrowd": 0, + "segmentation": [], + "text": "During the study period, about 399\nOHCA patients were assessed.\nOverall survival at the end of\nemergency department stay was only\n1.5%. More than a half(56.6%) of the\npatients were brought to the hospital\nin a public or private transportation\n(Non-EMS vehicle). Patients utilizing\nNon-EMS transportation reached to\nthe hospital earlier with a median\ntime of 23 minutes, however,\npatients utilizing ambulance with life\nsupport facilities, had the shortest\ntime to receive any life support\ninterventions (16 minutes). Most of\nthe patients (92.2%) had a witnessed\narrest whereas a smaller percentage\n(1.7%) received bystander CPR\n(cardiopulmonary resuscitation).\nMedian time from arrest to receiving\nfirst CPR was 20 minutes and a\nsmaller percentage of patients were\nfound to have a shockable rhythm on\nfirst assessment (1.5%)" + }, + { + "id": 199208, + "strid": "5f691ec8-c302-468e-aa63-6b18ac2d5831", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2690.546, + 2769.699, + 712.2750000000001, + 736.3089999999997 + ], + "priority": 19, + "parents": [ + 199195 + ], + "children": [], + "area": 7452002.565653999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199198, + "strid": "82c2017e-15a3-470c-9627-60dbcbf6e6ae", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2906.554, + 3571.391, + 279.52300000000014, + 48.378999999999905 + ], + "priority": 20, + "parents": [ + 199213 + ], + "children": [ + 199202 + ], + "area": 10380440.796614, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 199202, + "strid": "d873689c-bda3-4f7f-a9d8-1903436e3220", + "image_id": 208299, + "image_name": "9874.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2662.886, + 3686.936, + 768.645, + 767.185 + ], + "priority": 21, + "parents": [ + 199198 + ], + "children": [], + "area": 9817890.257296, + "iscrowd": 0, + "segmentation": [], + "text": "This is the first city wide study for\nOHCA, assessing its outcomes in\nKarachi Pakistan. The overall survival\nis poor in this population. Lack of\nbystander CPR and weak EMS\nsystems leading to a delay in\nreceiving life support interventions\nwere some of the’ important\nobservations. Poor survival\nemphasizes the need to standardize\nEMS systems, initiate — public\nawareness programs and strengthen\nlinks in the chain of survival." + }, + { + "id": 111057, + "strid": "6e17f7b3-440e-41b7-98b1-7f1e8a44f5cc", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 174.69, + 282.91, + 434.65000000000003, + 124.19 + ], + "priority": -1, + "parents": [], + "children": [ + 111055, + 111041, + 111043, + 111044, + 111038, + 111042, + 111040, + 111045, + 111054, + 111039, + 111056, + 111053, + 111052 + ], + "area": 49421.547900000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111038, + "strid": "f29633e7-9838-4ce6-804c-cfa4cac1497b", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 590.098, + 60.253, + 2603.056, + 227.99 + ], + "priority": 1, + "parents": [ + 111057 + ], + "children": [], + "area": 35555.174794, + "iscrowd": 0, + "segmentation": [], + "text": "Toward a standard network model of musical improvisation\n\nSarah Faber" + }, + { + "id": 111039, + "strid": "176485b2-3020-46f2-86e2-7aaa82c3660f", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1052.997, + 313.976, + 1662.3679999999997, + 134.85199999999998 + ], + "priority": 2, + "parents": [ + 111057 + ], + "children": [], + "area": 330615.78607200005, + "iscrowd": 0, + "segmentation": [], + "text": "Rotman Research Institute, Baycrest Centre, University of Toronto\nsfaber@research.baycrest.org" + }, + { + "id": 111040, + "strid": "b99bd008-6190-476a-8e97-9628f023905e", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1697.517, + 494.791, + 387.05100000000016, + 58.77400000000006 + ], + "priority": 3, + "parents": [ + 111057 + ], + "children": [ + 111046 + ], + "area": 839916.133947, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 111046, + "strid": "28de8194-ec9b-4201-8af3-98f9f650a625", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.203, + 615.405, + 3617.452, + 523.4199999999998 + ], + "priority": 4, + "parents": [ + 111040 + ], + "children": [], + "area": 47511.112215, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111041, + "strid": "e77cba36-6e0a-4b81-aed3-5d14f6910768", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 325.637, + 1237.355, + 345.479, + 60.208000000000084 + ], + "priority": 5, + "parents": [ + 111057 + ], + "children": [ + 111047 + ], + "area": 402928.570135, + "iscrowd": 0, + "segmentation": [], + "text": "Production" + }, + { + "id": 111047, + "strid": "44f3bce6-f489-4d1e-a5c4-b429c0ce9405", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 64.525, + 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}, + { + "id": 111049, + "strid": "12699662-e8c1-4900-9769-e0b91db09394", + "image_id": 204810, + "image_name": "13171.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 17.767, + 3419.716, + 2768.286, + 531.5570000000002 + ], + "priority": 19, + "parents": [ + 111043 + ], + "children": [], + "area": 60758.094172, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76215, + "strid": "b0f262cf-471f-4b53-b456-b6ca48b13faa", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 218.74, + 191.82, + 240.82, + 252.85000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 76185, + 76182, + 76183, + 76207, + 76206, + 76192, + 76181, + 76210 + ], + "area": 41958.7068, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76181, + "strid": "90d49bd2-9373-41ae-bb93-566961d76b93", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 779.388, + 60.865, + 2093.04, + 426.552 + ], + "priority": 1, + "parents": [ + 76215 + ], + "children": [], + "area": 47437.45062, + "iscrowd": 0, + "segmentation": [], + "text": "TMIRIVEVALUATION OF VISUAL, AUDITORY, AND\nMOTOR CORTEX IN VISUALLY IMPAIRED AND,\nSIGHTED JUDO ATHLETES" + }, + { + "id": 76182, + "strid": "0dfceeae-346a-485e-8d64-ac71063fe00c", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 695.81, + 557.158, + 2135.171, + 110.02499999999998 + ], + "priority": 2, + "parents": [ + 76215 + ], + "children": [], + "area": 387676.10798, + "iscrowd": 0, + "segmentation": [], + "text": "Authors: Catarina Correia*, Nuno Martins*, Margarida.Ribeiro*, Hugo Ferreira?\n\nAffiliations: ‘Escola Superior de Tecnologia da Saude de Lisboa (ESTeSL), Instituto Politécnico de Lisboa, Lisboa, Portugal, ?Servico de Radiologia, Hospital*GUF Descobertas, Lisboa, Portugal,\nLisboa, Portugal, 3Institute of Biophysics and Biomedical Enginéering, Lisboa, Portugal" + }, + { + "id": 76183, + "strid": "8de1b120-b79e-4480-9f93-1d866c3247cc", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1589.029, + 756.265, + 360.596, + 57.339000000000055 + ], + "priority": 3, + "parents": [ + 76215 + ], + "children": [ + 76184 + ], + "area": 1201727.016685, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 76184, + "strid": "1cf41088-ae0b-474b-aecc-8d26ad332f02", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 84.753, + 846.977, + 3399.073, + 287.27699999999993 + ], + "priority": 4, + "parents": [ + 76183 + ], + "children": [], + "area": 71783.84168099999, + "iscrowd": 0, + "segmentation": [], + "text": "Judo is*one.of the sports where visually impaired athletes can practice and compete in a almost identical manner as sighted athletes, In fact, visually impaired athletes may have some advantage over sighted athletes as\nthey can™predict\" the opponent's action faster by compensating the lack of vision with improved sensory modalities such as touch and’hearing. Several neuroimaging studies have shown that, inwisual impaired individuals,\nthevoccipital cortex is recruited in non-visual tasks such as Braille\\reading (Burton, 2002; Sadato, 2002); memory recovery (Amedi, 2003); sound localization (Gougoux, 2005); or other,auditory functions (Arno, 2001).\nAdditionally, other studies suggest that these individuals also have larger cortical representation of auditory and sensorymotof functions, as well as in voice perception (Gougoux, 2009).\n\nIn spite of advances in the understanding of the brain of visually impaired individuals, there is lack of studies regarding*blinded athletes, and in particular Judo athletes. Therefore, the main aim of this study was to assess\nbrain responses in visual, auditory and motor areas in blind judo athletes and in sighted judo athletes when exposed tojudo-related stimuli." + }, + { + "id": 76185, + "strid": "5b2e9a04-0e48-435c-a7c5-eb604cba2da6", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1431.134, + 1267.138, + 678.5370000000003, + 62.787000000000035 + ], + "priority": 5, + "parents": [ + 76215 + ], + "children": [ + 76195, + 76190, + 76187, + 76193, + 76189, + 76191, + 76186, + 76188, + 76194 + ], + "area": 1813444.274492, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 76188, + "strid": "58d52299-4e38-42bd-afcf-6b6705f81066", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.563, + 1363.567, + 1682.88, + 132.69499999999994 + ], + "priority": 6, + "parents": [ + 76185 + ], + "children": [], + "area": 103035.213221, + "iscrowd": 0, + "segmentation": [], + "text": "Twelve judo athletes (aged 19 to 52°years old), 6 visually impaired (2 early and 4 late totally blind) and 6\nsighted, were studied by fMRI using a‘e5T MRI scanner (General Electric, Milwaukee, USA) and an*8-channel\nneurovascular coil. fMRI data Was-acquired using:" + }, + { + "id": 76187, + "strid": "098c0b58-bce7-42ea-a9bb-172bfddfb41a", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 80.246, + 1532.168, + 1470.569, + 231.04500000000007 + ], + "priority": 7, + "parents": [ + 76185 + ], + "children": [], + "area": 122950.35332799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76189, + "strid": "38ec5ddf-ad94-4c21-866d-4955b79cb661", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.653, + 1772.579, + 1638.763, + 128.07600000000002 + ], + "priority": 8, + "parents": [ + 76185 + ], + "children": [], + "area": 142963.814087, + "iscrowd": 0, + "segmentation": [], + "text": "Three different block-design paradigms were tested. In the first, a motor \\execution paradigm, subjects\nwere instructed to open and close the right and left hands alternately \\(15s each hand), simulating the\nkimonogrip." + }, + { + "id": 76186, + "strid": "b96d46bc-778e-4390-a46b-a1680473a8c0", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 506.152, + 1894.817, + 787.7819999999999, + 122.82200000000012 + ], + "priority": 9, + "parents": [ + 76185 + ], + "children": [], + "area": 959065.414184, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76190, + "strid": "f4ae6e54-a95a-471e-bae5-cfe7f4dc7730", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.124, + 2061.273, + 1643.852, + 84.41300000000001 + ], + "priority": 10, + "parents": [ + 76185 + ], + "children": [], + "area": 158973.618852, + "iscrowd": 0, + "segmentation": [], + "text": "In the second, a tactile sensory paradigm, 15s rest periods.were alternated with 15s periods during which a\nkimono was passed by the subjects' right hands, simulating the touch during the kimono grip." + }, + { + "id": 76191, + "strid": "d6afe4d0-26ec-495c-b36a-82712dfb4690", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 692.452, + 2181.61, + 451.36799999999994, + 211.4000000000001 + ], + "priority": 11, + "parents": [ + 76185 + ], + "children": [], + "area": 1510660.20772, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76195, + "strid": "54bf7500-fe9d-4bcf-a9aa-260c73bb89af", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1800.27, + 1366.763, + 1667.9940000000001, + 223.35400000000004 + ], + "priority": 12, + "parents": [ + 76185 + ], + "children": [], + "area": 2460542.42601, + "iscrowd": 0, + "segmentation": [], + "text": "In the third, a motor imagery paradigm, 15s rest periods were alternated with 15s periods during which the\nnames of different judo techniques (which translate different movement sequences) were pronounced: ‘O®\nsoto-gari; Uchi-mata; O-goshi; Hon-kesa-gatame; and Kami-shio-gatame. In this paradigm subjects were\npreviously instructed to imagine executing.the corresponding judo techniques. In every paradigm the first\nperiod was 20s long." + }, + { + "id": 76194, + "strid": "26a3b807-76fe-4ae7-ab23-bf36b6883235", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1977.569, + 1604.738, + 1296.3579999999997, + 484.3109999999999 + ], + "priority": 13, + "parents": [ + 76185 + ], + "children": [], + "area": 3173480.121922, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76193, + "strid": "0e7ae91b-3b6e-4890-a8ef-236c56c28ec3", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1784.876, + 2099.336, + 1685.486, + 266.63099999999986 + ], + "priority": 14, + "parents": [ + 76185 + ], + "children": [], + "area": 3747054.4423359996, + "iscrowd": 0, + "segmentation": [], + "text": "A.3D,T1-weighted SPGR sequence was also run for depiction.of brain anatomy. Images were analyzed using\nFEAT and MELODIC tools of FSL software. The first 2 volumés)were excluded due to lack of signal steady-state.\nIndividual subject and group analysis was done (using temporal concatenation). MELODIC components were\nselected based on their temporal similarity to the block-design used and on the identification of the networks\nof interest. Activation maps were then compared.within and between groups (visually impaired and sighted)\nregarding activated areas, activation values and*spatial extension." + }, + { + "id": 76192, + "strid": "73221cb2-963f-4e74-8c3f-6e06da8ebc99", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1447.779, + 2527.849, + 650.1979999999999, + 55.99200000000019 + ], + "priority": 15, + "parents": [ + 76215 + ], + "children": [ + 76203, + 76202, + 76214, + 76211, + 76198, + 76199, + 76196 + ], + "area": 3659766.6973710004, + "iscrowd": 0, + "segmentation": [], + "text": "Results ana Discussion" + }, + { + "id": 76196, + "strid": "49cc7cfa-9067-469d-a223-a51a6e3dfadf", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 151.41, + 2613.189, + 3142.624, + 534.3620000000001 + ], + "priority": 16, + "parents": [ + 76192 + ], + "children": [ + 76197 + ], + "area": 395662.94648999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76197, + "strid": "807b56e6-d8b5-4fa2-9ee6-1231c7f2e07b", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 958.49, + 3142.533, + 1359.347, + 25.510999999999967 + ], + "priority": 17, + "parents": [ + 76196 + ], + "children": [], + "area": 3012086.45517, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 - Typical activation maps for a) motor execution (right hand); c) touch; and’d) motor imagery paradigms for a sighted judo athlete (FEAT/FSL)." + }, + { + "id": 76198, + "strid": "60e2f760-d3f3-4f0a-8180-2551014825ae", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.597, + 3182.351, + 3385.606, + 217.5680000000002 + ], + "priority": 18, + "parents": [ + 76192 + ], + "children": [], + "area": 256487.943547, + "iscrowd": 0, + "segmentation": [], + "text": "It was observed that both groups (visually impaired and sighted) showed similar regional activation. maps\nwithin and between groups for all paradigms. Additionally, activation in the visual cortex was observed,for\nall paradigms as well. This suggests that ‘the loss of vision does not lead to inactivation of the visual-cortex\n\nbut in fact it adapts to process_other type of information in agreement with known literature (neural\nplasticity).\n\nDifferences between groups also agree with the literature: typically higher activation values and larger\nactivation volumes are observed in the visually impaired group. In particular, in the motor imagery paradigm,\nmotor-, auditory- and visually-related activations are more evident in the visually impaired judo athletes." + }, + { + "id": 76199, + "strid": "c201248f-669c-4b68-8871-a9f93f797fc4", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 94.49, + 3402.511, + 1626.588, + 427.70600000000013 + ], + "priority": 19, + "parents": [ + 76192 + ], + "children": [ + 76200 + ], + "area": 321503.26438999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76200, + "strid": "8ee6642e-53fb-4fc7-8503-e314a7ecc1ee", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 92.806, + 3848.765, + 1627.592, + 51.31700000000001 + ], + "priority": 20, + "parents": [ + 76199 + ], + "children": [], + "area": 357188.48458999995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 — Group activation maps of the visual cortex obtained for the motor execution paradigm: a) visually impaired and b) sighted judo athletes. (MELODIC/FSL temporal\nconcatenation)." + }, + { + "id": 76202, + "strid": "ff981570-e545-4952-aad4-53395972c48f", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 82.282, + 3966.183, + 1644.716, + 297.91600000000017 + ], + "priority": 21, + "parents": [ + 76192 + ], + "children": [ + 76201 + ], + "area": 326345.469606, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76201, + "strid": "778a5b67-08b4-495f-9b49-248af1ecb0cc", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 101.201, + 3925.602, + 1124.137, + 21.463000000000193 + ], + "priority": 22, + "parents": [ + 76202 + ], + "children": [], + "area": 397274.84800199996, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 — Group activation clusters obtained for the motor execution paradigm. (FEAT/FSL). Vx= Voxels; BA= Brodmann area." + }, + { + "id": 76214, + "strid": "0df6cf6d-964a-4dd4-983f-f693092dafc3", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1808.808, + 3398.003, + 1584.6930000000002, + 782.4789999999998 + ], + "priority": 23, + "parents": [ + 76192 + ], + "children": [ + 76213 + ], + "area": 6146335.010424, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76213, + "strid": "d1524ae8-3c9d-468c-b33f-fccfa91dac52", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1801.01, + 4192.526, + 1592.427, + 50.82899999999972 + ], + "priority": 24, + "parents": [ + 76214 + ], + "children": [], + "area": 7550781.251259999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4 — Group activation maps of the motor-, auditory- and visual cortex obtained for the motor imagery paradigm: a) visually impaired and b) sighted judo athletes.\n(MELODIC/FSL temporal concatenation)." + }, + { + "id": 76203, + "strid": "adb07bfc-c033-47ec-a13e-a3a0822ced20", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 90.519, + 4288.81, + 1620.004, + 425.59400000000005 + ], + "priority": 25, + "parents": [ + 76192 + ], + "children": [ + 76204 + ], + "area": 388218.7923900001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76204, + "strid": "76ce0977-9a2b-4162-b8a8-a7c458043d1e", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 85.051, + 4738.51, + 1629.591, + 49.73099999999977 + ], + "priority": 26, + "parents": [ + 76203 + ], + "children": [], + "area": 403015.01401000004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure_.3°= Group activation maps of the visual cortex obtained for the tactile sensory paradigm: a),visuallysimpaired and b) sighted judo athletes. (MELODIC/FSL temporal\nMcncatenation)." + }, + { + "id": 76211, + "strid": "c949bd8f-50f1-4f44-9cef-1c5c5b7dea75", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1781.976, + 4332.468, + 1647.29, + 310.3810000000003 + ], + "priority": 27, + "parents": [ + 76192 + ], + "children": [ + 76212 + ], + "area": 7720353.996768001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76212, + "strid": "a60e9684-9d6d-4ee0-ab13-0dfde87959d9", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1801.01, + 4289.858, + 1295.597, + 25.954999999999927 + ], + "priority": 28, + "parents": [ + 76211 + ], + "children": [], + "area": 7726077.15658, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2 — Group activation clusters obtained for the tactile sensory and motor imagery paradigms. (FEAT/FSL). Vx= Voxels; BA= Brodmann area." + }, + { + "id": 76206, + "strid": "5cd02baa-78c6-4155-9fc2-f8e3cd7a0324", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1605.441, + 4940.419, + 311.04600000000005, + 56.21900000000005 + ], + "priority": 29, + "parents": [ + 76215 + ], + "children": [ + 76205 + ], + "area": 7931551.219779, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 76205, + "strid": "1ba3a991-1d8d-426e-92c5-4e48112a7c0b", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.375, + 5042.818, + 3366.371, + 220.6310000000003 + ], + "priority": 30, + "parents": [ + 76206 + ], + "children": [], + "area": 491044.40275, + "iscrowd": 0, + "segmentation": [], + "text": "In both groups of volunteers (sighted and,blind athletes) the visual cortex activation was observed when they received a verbal stimulus associated with a motor action. This suggests that vision loss does not lead to\npermanent inactivation of the visual cortex.Blindness leads to an adaptation of the visual cortex for analyzing information from other sense organs, particularly auditory and tactile (brain plasticity).\n\nThus, this research contributes to-understanding and development of studies in functional MRI geared to support the sport for athletes with a visual impaifment; to guide clinical treatment decisions in cases of visual\n\nimpairment; to improve training methodologies and effective communication between coaches and athletes with this handicap." + }, + { + "id": 76210, + "strid": "c104b0fd-e873-467a-a1d3-7515f6e63067", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2201.272, + 5360.345, + 427.174, + 58.146999999999935 + ], + "priority": 31, + "parents": [ + 76215 + ], + "children": [ + 76209 + ], + "area": 11799577.35884, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 76209, + "strid": "7d1b9812-6aeb-441d-adc2-2c2606d4cbce", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2651.796, + 5348.368, + 802.2629999999999, + 72.6880000000001 + ], + "priority": 32, + "parents": [ + 76210 + ], + "children": [], + "area": 14182780.868928, + "iscrowd": 0, + "segmentation": [], + "text": "We thank the CUF Descobertas Hospital and its Radiologists and Radiographers, for supporting the\nrealization of this study and for the many helpful comments. Special thanks for all judo\nathletes from Clube Judo Total and Judo Clube Lisboa." + }, + { + "id": 76207, + "strid": "9e9818f3-64f8-46d9-86c7-c92ae6999252", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 115.303, + 5357.004, + 253.27800000000002, + 50.65599999999995 + ], + "priority": 33, + "parents": [ + 76215 + ], + "children": [ + 76208 + ], + "area": 617678.632212, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 76208, + "strid": "fc14e16b-8ced-4879-8f83-61dc2f2ce2ee", + "image_id": 203470, + "image_name": "120292.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 387.577, + 5344.34, + 1755.006, + 97.09000000000015 + ], + "priority": 34, + "parents": [ + 76207 + ], + "children": [], + "area": 2071343.26418, + "iscrowd": 0, + "segmentation": [], + "text": "Amedi, A. (2003) “Early ‘visual’ cortex activation correlates with superior verbal memory performance in the blind”, Nature Neuroscience,ol. 6, pp. 758-766; Arno, P. (2001), “Occipital activation by pattern recognition in\nthe early blind-using auditory substitution for vision”, Neuroimage, vol.13, pp. 632-645; Burton, H. (2002), “Adaptive Changesift Early’and Late Blind: A fMRI Study of Braille Reading”, Journal of Neurophysiology, vol. 87, pp.\n589-607; Gougoux, F. (2005), “A Functional Neuroimaging Study of Sound Localization: Visual Cortex Activity Predicts Peffermante in Early-Blind Individuals’, PLoS Bio, vol. 3, no. 2, pp. e27; Gougoux, F. (2009), “Voice\nperception in blind persons: A functional magnetic resonance imaging study”, Neuropsychology, vol. 47, pp. 2967-2974." + }, + { + "id": 23315, + "strid": "2cef0450-c73d-406d-a3c1-05b05ae56e08", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1297.13, + 302.83, + 323.8499999999999, + 309.76000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 23273, + 23274, + 23276, + 23278, + 23271, + 23272, + 23277, + 23270, + 23275 + ], + "area": 392809.8779, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23270, + "strid": "915baeb9-4c73-488a-ae46-557f11e78d92", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1485.341, + 132.939, + 4989.091999999999, + 146.533 + ], + "priority": 1, + "parents": [ + 23315 + ], + "children": [], + "area": 197459.74719899998, + "iscrowd": 0, + "segmentation": [], + "text": "On the Use of 3D Anatomical Software as a Study Aid in Gross Anatomy Courses" + }, + { + "id": 23271, + "strid": "b7eaaae4-d507-4c06-8d0b-5df42ef6e569", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1917.961, + 293.427, + 4134.318, + 404.7099999999999 + ], + "priority": 2, + "parents": [ + 23315 + ], + "children": [], + "area": 562781.5423470001, + "iscrowd": 0, + "segmentation": [], + "text": "Joseph C. Daniel\nDepartment of Neurobiology and Developmental Sciences\nUniversity of Arkansas for Medical Sciences, Little Rock, AR jdaniel@uams.edu" + }, + { + "id": 23272, + "strid": "380c573e-9fea-4ade-b2e2-f9d7c48a265d", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 708.661, + 765.945, + 384.12800000000004, + 44.666000000000054 + ], + "priority": 3, + "parents": [ + 23315 + ], + "children": [ + 23282, + 23290, + 23286, + 23281, + 23280, + 23291, + 23285, + 23287, + 23289, + 23283, + 23284, + 23288 + ], + "area": 542795.349645, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23280, + "strid": "9d9af6ff-0f17-4e98-a6a7-c49eb73554bc", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.674, + 850.051, + 1544.575, + 203.35199999999998 + ], + "priority": 4, + "parents": [ + 23272 + ], + "children": [], + "area": 105129.207374, + "iscrowd": 0, + "segmentation": [], + "text": "Anatomy students commonly have difficulty understanding three-dimensional relationships from two-\ndimensional illustrations. Laboratory experience with a cadaver is key for this understanding, but by the\ntime the students have finished their dissections, the cadaver is often so mangled that they find it difficult\nto review many of the relationships." + }, + { + "id": 23281, + "strid": "92b916e0-abda-44ee-8f2f-201c8c34fef2", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 134.076, + 1083.269, + 1534.829, + 613.2059999999999 + ], + "priority": 5, + "parents": [ + 23272 + ], + "children": [], + "area": 145240.374444, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23282, + "strid": "f41f8f5d-6e84-4556-abc7-e7e6bba68c29", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.049, + 1728.394, + 1501.697, + 93.2650000000001 + ], + "priority": 6, + "parents": [ + 23272 + ], + "children": [], + "area": 214405.54730600002, + "iscrowd": 0, + "segmentation": [], + "text": "Gross anatomy is often considered one of the hardest courses in medical school. The course also has\nadditional drawbacks from an administrative and educational standpoint." + }, + { + "id": 23283, + "strid": "c6cef858-16e3-4529-b99f-76ee5ca1b549", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 124.268, + 1855.918, + 1439.453, + 372.1780000000001 + ], + "priority": 7, + "parents": [ + 23272 + ], + "children": [], + "area": 230631.218024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23284, + "strid": "adb8b776-0ad9-465a-8242-39c977d8c9b1", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.116, + 2278.664, + 745.999, + 202.82499999999982 + ], + "priority": 8, + "parents": [ + 23272 + ], + "children": [], + "area": 280539.99702400004, + "iscrowd": 0, + "segmentation": [], + "text": "Some schools have tried replacing cadaver labs\nwith computer-based virtual anatomy.\nThesevattempts have met with failure. Students\nfailed to learn anatomy and placed patients at risk." + }, + { + "id": 23291, + "strid": "fabbd9f0-666f-4bf2-8647-9480e7249f2e", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 898.499, + 2274.872, + 780.613, + 223.24099999999999 + ], + "priority": 9, + "parents": [ + 23272 + ], + "children": [], + "area": 2043970.217128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23285, + "strid": "98bdaae6-35af-4c85-a29a-6b51952def95", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.192, + 2553.001, + 1550.622, + 984.7759999999998 + ], + "priority": 10, + "parents": [ + 23272 + ], + "children": [], + "area": 317062.300192, + "iscrowd": 0, + "segmentation": [], + "text": "Computer aided instruction has been shown to enhance performance on short term tests. However...\nThe software only worked if students used it. It was usually left unused unless required.\nSoftware packages did not provide the 3D learning experience of real cadavers.\nOverall test scores and board examination results were inferior to traditional classes.\n\nComputer aided virtual anatomy has been successful as a supplement to traditional cadaver labs, raising\nperformance in class and on board exams. Unfortunately, studies showing improvement were\ndescriptions of entire curriculum restructuring. No controls were used and there was no method for\n\nidentifying which part of the new curriculum was effective.\n\nThis study was undertaken as a direct test of the efficacy of readily available 3D virtual anatomy\nsoftware on medical student performance in Gross Anatomy courses and on Board examinations.\n\nInterest in this topic is widespread in the medical education field, and not just by professionals:\nModern students are increasingly expecting high levels of classroom technology. Student technological\nknowledge is rapidly increasing and their expectations are concordantly increasing. When the UAMS\nanatomy students were polled at the beginning of the 2010-2011 school year about theirawareness of\nwhat 3D°anatomical software was available, 0 of 174 answered yes, although all expresSed interest.\nWhen.the 2011-2012 class was asked, 44% answered yes." + }, + { + "id": 23288, + "strid": "15b2184f-b1b2-4007-955f-e4dc3eaf7649", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 138.813, + 3578.126, + 612.874, + 339.078 + ], + "priority": 11, + "parents": [ + 23272 + ], + "children": [], + "area": 496690.404438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23286, + "strid": "e7e74d14-1ccf-499a-b216-2b02b1b59890", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 772.347, + 3577.351, + 673.2529999999999, + 332.68200000000024 + ], + "priority": 12, + "parents": [ + 23272 + ], + "children": [], + "area": 2762956.312797, + "iscrowd": 0, + "segmentation": [], + "text": "Anatomy & Physiology REVEALED\nAnatronica\n\nBiodigital Human\n\nNetter’s 3D Interactive Anatomy\n\nVirtual Human Body\n\nVisible Body Human Anatomy Atlas\n\nVisible Body Muscle Premium\n\nVisible body Skeleton Premium\n\nVisible Body 3D Heart & Circulatory Premium" + }, + { + "id": 23289, + "strid": "f0f3a6f6-525a-4b5a-bedc-bae773c2477c", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 170.118, + 3947.613, + 582.739, + 316.2260000000001 + ], + "priority": 13, + "parents": [ + 23272 + ], + "children": [], + "area": 671560.0283339999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23287, + "strid": "1d7cd261-fe63-4a19-803d-80ed251f60fd", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 773.987, + 3949.628, + 357.505, + 292.8489999999997 + ], + "priority": 14, + "parents": [ + 23272 + ], + "children": [], + "area": 3056960.726836, + "iscrowd": 0, + "segmentation": [], + "text": "Desktop computer, Mac\nDesktop computer, PC\nLaptop computer, Mac\nLaptop computer, PC\nTablet, Android\n\nTablet, iPad\n\nSmart phone, Android\nSmart phone, iPhone" + }, + { + "id": 23290, + "strid": "c71a7c5a-aecd-4858-9370-88164fdc8433", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1279.365, + 3943.501, + 318.52099999999996, + 298.5510000000004 + ], + "priority": 15, + "parents": [ + 23272 + ], + "children": [], + "area": 5045177.156865001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23273, + "strid": "b8200be6-594e-4478-95e1-0f7cef5ff5b3", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2164.092, + 763.989, + 670.163, + 43.960000000000036 + ], + "priority": 16, + "parents": [ + 23315 + ], + "children": [ + 23313 + ], + "area": 1653342.4829880001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23313, + "strid": "2fa4c1bc-5953-486d-9376-5a26e7b2da95", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1746.038, + 828.694, + 1502.958, + 421.5329999999999 + ], + "priority": 17, + "parents": [ + 23273 + ], + "children": [], + "area": 1446931.214372, + "iscrowd": 0, + "segmentation": [], + "text": "The UAMS gross anatomy course had six written and practical exams, with the National Board of\nmedical Examiners (NBME) assessment as the course final. For Year 1 (2010-2011), students\ncompleted the first three as usual and were provided free access to Primal Picture’s Anatomy.tv\nwebsite and their Interactive Functional Anatomy software for the remainder of the course. For Year 2,\nstudents were given access to Primal Pictures’ Interactive Human: The 3D Real-Time Body for the\nentire year (administrative demands precluded student.pretests). After completing the course, all\nstudents were given a five question survey about their experience with the website and their views on\nits value as an educational tool." + }, + { + "id": 23278, + "strid": "4e98ef9e-d6db-4e34-9a03-9b2c178aad22", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2396.758, + 1324.63, + 230.53600000000006, + 48.15000000000009 + ], + "priority": 18, + "parents": [ + 23315 + ], + "children": [ + 23293, + 23294, + 23297, + 23295, + 23314, + 23279, + 23296, + 23292 + ], + "area": 3174817.54954, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23292, + "strid": "9b4ec91c-18bc-43f1-b046-2ca4090fe4cb", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1745.888, + 1405.747, + 1521.196, + 274.82899999999995 + ], + "priority": 19, + "parents": [ + 23278 + ], + "children": [], + "area": 2454276.818336, + "iscrowd": 0, + "segmentation": [], + "text": "Student Feedback on 3D Anatomy Survey\nThe students were asked to rate the software in four questions using a scale of 1-5, with 1 being the\nworst and 5 being the best, with a fifth open-ended question for comments. The following graph depicts\na summary of the scores for each question, with selected comments below. In Year 1, only 8/162\nstudents who finished. the course returned surveys. In Year 2, only 16/168 returned surveys." + }, + { + "id": 23314, + "strid": "b3e7bcc3-f056-40e5-bd01-189c62ae751c", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1922.484, + 1728.375, + 1205.591, + 888.1040000000003 + ], + "priority": 20, + "parents": [ + 23278 + ], + "children": [], + "area": 3322773.2835, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23293, + "strid": "171527dd-224b-4aa2-8de0-a4dbcd7bd1d5", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1751.598, + 2648.401, + 1496.08, + 370.8409999999999 + ], + "priority": 21, + "parents": [ + 23278 + ], + "children": [], + "area": 4638933.894797999, + "iscrowd": 0, + "segmentation": [], + "text": "Despite the paucity of responses, comments reflected a preference for the much more intuitive,\ninteractive, and independently controllable Interactive Human: 3D Real-time Body over the Interactive\nFunctional Anatomy software, which, while having much greater text information, had much less\nindividual control over structure visibility and restricted rotation around one axis. As shown in the\ntable below, after initial interest by the students in Year 1, participation dropped off sharply. A small\nsurge after a midterm reminder appeared, but that also dropped off quickly. despite free access, the\n\nsoftware went largely unused after inspection." + }, + { + "id": 23279, + "strid": "7d6fa951-9410-4475-a750-ebcf30595820", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2003.086, + 3047.418, + 600.617, + 45.215999999999894 + ], + "priority": 22, + "parents": [ + 23278 + ], + "children": [], + "area": 6104240.331948, + "iscrowd": 0, + "segmentation": [], + "text": "Anatomy.tv usage for Arkansas trial" + }, + { + "id": 23294, + "strid": "a34e9a35-95dc-4afc-827e-a362b57b585e", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1749.463, + 3121.011, + 901.1090000000002, + 628.7069999999999 + ], + "priority": 23, + "parents": [ + 23278 + ], + "children": [], + "area": 5460093.267093, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23295, + "strid": "7a535f65-d2d6-490c-8e54-c9470b495930", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2727.898, + 3073.233, + 499.6489999999999, + 650.1109999999999 + ], + "priority": 24, + "parents": [ + 23278 + ], + "children": [], + "area": 8383466.1542340005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23296, + "strid": "f69ccb2a-c11d-48aa-ae8a-a9a0b8712787", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1768.318, + 3752.792, + 801.6009999999999, + 530.6370000000002 + ], + "priority": 25, + "parents": [ + 23278 + ], + "children": [], + "area": 6636129.643856, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23297, + "strid": "0a11dd24-eef3-4b20-aa72-4ef158284703", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2576.789, + 3804.219, + 674.058, + 425.46900000000005 + ], + "priority": 26, + "parents": [ + 23278 + ], + "children": [], + "area": 9802669.672791, + "iscrowd": 0, + "segmentation": [], + "text": "To the left is an example of the Interactive\nFunctional Anatomy software. While praised\nfor the content and the usefulness as an end-\nof-course review in preparation for the\nNBME, the interface was sharply criticized,\nchiefly for the slow interactions, limited\nrotational ability, and lack of control over what\n\nappeared in each layer." + }, + { + "id": 23274, + "strid": "0a1b5397-466a-405d-b0d1-7ff07a989815", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3579.707, + 759.042, + 1048.8759999999997, + 51.07600000000002 + ], + "priority": 27, + "parents": [ + 23315 + ], + "children": [ + 23311, + 23298, + 23310, + 23312 + ], + "area": 2717147.960694, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23312, + "strid": "e61b979a-2681-42d0-a306-01c7c173483b", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3344.531, + 852.222, + 1495.0280000000002, + 206.43799999999987 + ], + "priority": 28, + "parents": [ + 23274 + ], + "children": [], + "area": 2850282.897882, + "iscrowd": 0, + "segmentation": [], + "text": "During Year 2 (2011-2012) students were given free access to Interactive Human: The 3D Real-\nTime Body by Primal Pictures. Informal comments provided throughout the year were mostly positive.\nMost negative complaints were matched with an overall approval of the product. The following is a\nselection of comments made by the students." + }, + { + "id": 23311, + "strid": "c174074f-f2d5-4f6b-a915-538905c79079", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3390.398, + 1130.437, + 1399.4030000000002, + 1809.5079999999998 + ], + "priority": 29, + "parents": [ + 23274 + ], + "children": [], + "area": 3832631.343926, + "iscrowd": 0, + "segmentation": [], + "text": "“This program, and those like it — were useful for me to see superficial/deep type relationships and\noverall function. Don't know if it helped on small details.“\n\n“It's nice to-be able to pull up the entire body, regions of the body, or only certain structures. A good\natlas can serve a similar purpose — but when looking for something specific the instant aceess.of the\nsoftware is valuable.”\n\nIt did help, particularly for large structures and general relationships. However, when looking at small\nstructures (head/neck or pelvis/perineum) | found myself reverting to atlas images. Its hard to navigate\nzoomed in and you lose your orientation quickly.”\n\n“It had all of the structures that we needed to learn...l; however, it was not really easy to test myself\nwith the software. If there were a way to see a structure highlighted and be given a chance to name it\nas part of a quiz to test oneself, that would be very useful. In some cases it really had too many\nstructures, and | felt like | was picking through a lot of the ligaments and lymphatics saying to myself,\n“we didn't focus on that,” a lot. Much of studying for medical school-has been about the economy of\ntime. Anything that does not efficiently convey the very particular information that we are responsible\nfor will be sidelined. There needs to be a way for it to be tailored to the particular list of structures\nrequired by a given school's gross course, ...”\n\n“great supplement to the dissector when studying outside of the lab.”\n\n“_..the MSK heavy units were greatly supplemented by the program. It allowed me to have the ability to\nisolate a single muscle, then examine it's relationships to surrounding structures piece by piece as |\nadded them. | was able to study the muscle from all angles, instead of simply the angles provided by\nan atlas. For the UL/LL, it greatly aided my dissections as | prepared and reviewed dissections. For the\nthorax/abdomen/GU/head sections, it never seemed like an advantageous aid. The viscera, in my\nexperience, didn't require the same type of spatial comprehension.”\n\n“| like it,... pretty awesomefor seeing the big picture for stuff, but | tended to forget about it.”\n\n“_..the software provides a regional representation of all structures or a type of structures-- all muscles,\n\nor all arteries, or all lymphatic vessels. | think that is very good. | do like the feature that allows removal\nof particular structures in the 3D representation. | think the software should be designed as a 3D atlas,\n\nwhich includes a glossary. As a first time learner of anatomy, | would like to search specific structures;\nand see the structures of interest in relation with each other and with other adjacent structures.“\n\n“The software had a good tutorial, and was all controllable using finger swipe motions.”\n\n“Some sort of quiz would be helpful. Also building in clinical descriptors might be nice.,Potentially\nhaving the software demonstrate denervations, fractures, and other clinical issues could help with\nconcepts.”\n\n“The software was great, but as a medical student, there is some additional information that would\nmake it more useful.”\n\n“If the program had many more bookmarks that are used in commen classroom settings, then this\nwould be much better for the student. Further, some structures are commonly bisected or cut in\ncommon places that the software does not allow (bisection of the head, for example)....allow selection\nof the muscles, and have a small window pop up with innervation,blood supply, and attachments. A\nmore detailed treatment of bony landmarks would help as well, as certain processes and fossae are\nnot pointed out. Thanks very much for the use of this software, and | hope that I'll be able to further\naccess it long into the future.”" + }, + { + "id": 23310, + "strid": "d37ff142-e74f-41d2-afca-bb0bfc121754", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3390.774, + 3006.621, + 1400.837, + 920.719 + ], + "priority": 30, + "parents": [ + 23274 + ], + "children": [], + "area": 10194772.314654, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23298, + "strid": "37617a26-8a2c-4d1d-b910-f53bcd1d5e35", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3347.137, + 3951.624, + 1496.083, + 339.4889999999996 + ], + "priority": 31, + "parents": [ + 23274 + ], + "children": [], + "area": 13226626.900488, + "iscrowd": 0, + "segmentation": [], + "text": "Exam\n\nTest scores of the students with access to the program did not reflect their general approval of the\nsoftware and belief that it helped their grades, scoring marginally lower than the students using\ntraditional study methods. Time spent on program is not known though, so it is unknown how many of\nthe students with access actually used it; nor how the students who chose to access the program\n\npreviously compared to the students who chose not to." + }, + { + "id": 23275, + "strid": "4f89ab77-b9a4-455d-bed3-0b2e4d4353fc", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 5513.071, + 766.297, + 367.433, + 40.37699999999995 + ], + "priority": 32, + "parents": [ + 23315 + ], + "children": [ + 23307 + ], + "area": 4224649.768087, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23307, + "strid": "cbe5f2e6-53f7-48ea-80b9-5e2b6f2f34c9", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4922.798, + 835.589, + 1549.2079999999996, + 444.168 + ], + "priority": 33, + "parents": [ + 23275 + ], + "children": [], + "area": 4113435.858022, + "iscrowd": 0, + "segmentation": [], + "text": "It is almost inconsequential that no strong evidence exists for\noverall benefit to 3D anatomical programs to medical education. For\nsome students it does help. More importantly, more students will\nexpect it to be available and will demand them. The question now is\nwhat are the items that make for a successful program? Many\nprograms currently on the market have some of the pieces, but none\nhave everything. With limited resources, the following points should\nbe considered before any departmental purchase or recommendation." + }, + { + "id": 23276, + "strid": "4afc3659-6fb3-4630-9810-10703bc292eb", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4995.493, + 1312.806, + 1405.7290000000003, + 47.30799999999999 + ], + "priority": 34, + "parents": [ + 23315 + ], + "children": [ + 23304, + 23302, + 23308, + 23301, + 23300, + 23303, + 23309, + 23305, + 23306 + ], + "area": 6558113.183358001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 23306, + "strid": "766c3d89-55b6-45d6-93f9-f14b82ab028d", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4924.042, + 1406.11, + 799.973, + 552.4869999999999 + ], + "priority": 35, + "parents": [ + 23276 + ], + "children": [], + "area": 6923744.69662, + "iscrowd": 0, + "segmentation": [], + "text": "Content completeness. Content\nlevel must be at sufficient level, with\nmore attention given to complicated\nareas, such as the head, pelvis, and\nperineum. Structures should be\nannotated with function and clinical\nrelevance. Functional animations or\nvideos are requested, along with\ncommon clinical visualizations, such\nas MRI, X-ray, CT, or endoscope." + }, + { + "id": 23308, + "strid": "c66283de-e5f6-42cf-b46a-8a7ee698e05f", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 5779.162, + 1448.795, + 696.4210000000003, + 463.3879999999999 + ], + "priority": 36, + "parents": [ + 23276 + ], + "children": [], + "area": 8372821.0097900005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23305, + "strid": "358640c9-9374-47d9-be6f-374b41e8598a", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4919.564, + 1977.378, + 1533.902, + 220.76300000000015 + ], + "priority": 37, + "parents": [ + 23276 + ], + "children": [], + "area": 9727837.623192001, + "iscrowd": 0, + "segmentation": [], + "text": "Speed. Many students exhibited little patience for slow\nresponsiveness or long download times. Incorporate optional settings\nto adjust display to improve response time for less powerful systems\nand streaming downloads for online usage." + }, + { + "id": 23304, + "strid": "d48817da-c0a8-44f0-a3c0-ed74b366cbb6", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4922.302, + 2205.991, + 828.9459999999999, + 329.8989999999999 + ], + "priority": 38, + "parents": [ + 23276 + ], + "children": [], + "area": 10858553.911282, + "iscrowd": 0, + "segmentation": [], + "text": "Ease of use. Most medical students\nfeel under tight time constraints. Few\nwill take the time to learn a difficult\nprogram. Any successful program will\nhave an intuitive, easy to understand\ngraphic user interface (GUI)." + }, + { + "id": 23309, + "strid": "b07ad552-4e47-406f-86c8-c7f3f24b3488", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 5779.767, + 2198.692, + 697.3339999999998, + 427.346 + ], + "priority": 39, + "parents": [ + 23276 + ], + "children": [], + "area": 12707927.464763999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23303, + "strid": "984096be-785d-4569-a015-adabf73d6dcd", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4922.58, + 2571.745, + 1486.9490000000005, + 334.35199999999986 + ], + "priority": 40, + "parents": [ + 23276 + ], + "children": [], + "area": 12659620.5021, + "iscrowd": 0, + "segmentation": [], + "text": "Full interactive display control.\nAll three rotational axes should be under user control. Structure\nvisibility and transparency should be independently controlled, both\nas individual and grouped structures. Pruning to level is requested,\ne.g. hiding all vessels downstream of a point or all vessels below a\ncertain size (branching pattern complexity)." + }, + { + "id": 23302, + "strid": "9b4090b7-0495-4733-afd2-9bdca6c63550", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4919.758, + 2918.794, + 1505.2889999999998, + 220.07999999999993 + ], + "priority": 41, + "parents": [ + 23276 + ], + "children": [], + "area": 14359760.131852, + "iscrowd": 0, + "segmentation": [], + "text": "Portability. Students have almost completely transitioned from\ndesktop computers to laptops, tablets, and smart phones, which are\nbeing brought into the lab. Any successful program should. be cross-\nplatform compatible and/or available in multiple forms." + }, + { + "id": 23301, + "strid": "50e93cb6-5248-47f9-adab-1d7d8c2cfe74", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4923.991, + 3145.927, + 1489.7709999999997, + 221.49000000000024 + ], + "priority": 42, + "parents": [ + 23276 + ], + "children": [], + "area": 15490516.234657, + "iscrowd": 0, + "segmentation": [], + "text": "Gamification. Repeated memory retention exercises (e.g. quizzes)\nare effective learning tools and students use them, particularly if\npresented in a fun and challenging manner. Designers should also\nconsider online multi-player competitive challenges." + }, + { + "id": 23300, + "strid": "e4c1deee-2fd9-422b-af5a-8c7b5bbb8168", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4918.762, + 3595.434, + 895.9449999999997, + 168.06899999999996 + ], + "priority": 43, + "parents": [ + 23276 + ], + "children": [], + "area": 17685084.132708, + "iscrowd": 0, + "segmentation": [], + "text": "Before buying an app or program, check\nout any reviews that should cover these\npoints, e.g. medicalappjournalkcom." + }, + { + "id": 23277, + "strid": "7b7f44c2-d6c1-451a-b7bc-9ee4367d0f4b", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 5462.071, + 3859.332, + 470.9489999999996, + 49.46900000000005 + ], + "priority": 44, + "parents": [ + 23315 + ], + "children": [ + 23299 + ], + "area": 21079945.396571998, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 23299, + "strid": "3ebab3dc-cb6f-48fe-8654-cf30b2e55b2e", + "image_id": 201434, + "image_name": "117106.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4925.202, + 3939.703, + 911.2789999999995, + 338.69100000000026 + ], + "priority": 45, + "parents": [ + 23277 + ], + "children": [], + "area": 19403833.095006, + "iscrowd": 0, + "segmentation": [], + "text": "| wish to thank Katriona Kerr for all her work and assistance\nand Primal Pictures for their generosity in allowing UAMS to\nuse their educational materials for free during the study. | also\nwish to thank Dr. Gwen Childs, Dr. Patrick Tank, Dr. Bruce\nNewton, and the other professors in Gross Anatomy for their\nhelpful comments and for allowing me to conduct the study.\nFinally, | extend my grateful appreciation for the students who\nparticipated in the study and took the time to respond to the\nsurveys, providing valuable feedback on their experiences." + }, + { + "id": 27791, + "strid": "9a12ff3e-5177-4436-9ca3-decdf3f67bcf", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 23.77, + 19.58, + 330.96000000000004, + 131.33999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 27767, + 27765, + 27764, + 27763, + 27760, + 27762, + 27768, + 27761, + 27766 + ], + "area": 465.41659999999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27760, + "strid": "7a8eeeb7-bbb9-4de1-a8ad-86ecfb527515", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 895.168, + 127.083, + 2897.679, + 90.648 + ], + "priority": 1, + "parents": [ + 27791 + ], + "children": [], + "area": 113760.634944, + "iscrowd": 0, + "segmentation": [], + "text": "Influence of contextual priming on rapid visual categorization in monkey" + }, + { + "id": 27761, + "strid": "9a609331-6aec-4daf-bcaa-ade0847de271", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1304.006, + 236.659, + 1692.5109999999997, + 148.72000000000003 + ], + "priority": 2, + "parents": [ + 27791 + ], + "children": [], + "area": 308604.755954, + "iscrowd": 0, + "segmentation": [], + "text": "Anne-Claire Collet and Denis Fize\n\nCentre de Recherche Cerveau et Cognition, Toulouse, France (CNRS, UPS)" + }, + { + "id": 27762, + "strid": "28dae65c-722b-4d0a-9a45-940c7c171e54", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 70.52, + 460.878, + 314.606, + 48.718999999999994 + ], + "priority": 3, + "parents": [ + 27791 + ], + "children": [ + 27771, + 27770, + 27769, + 27772 + ], + "area": 32501.11656, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 27769, + "strid": "b8d0ae7f-0079-4266-b7f2-b205519a06e0", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.7, + 554.487, + 1758.8, + 681.0270000000002 + ], + "priority": 4, + "parents": [ + 27762 + ], + "children": [], + "area": 26449.0299, + "iscrowd": 0, + "segmentation": [], + "text": "Rapid visual categorization is a crucial ability for animals to react and adapt their behavior to\nan unexpected situation. It’s now well known that context can influence visual recognition and\ncategorization of an object. Previous studies, both in human and monkey have shown that\nperformances in rapid visual categorization tasks are affected by the congruence between the\ntarget and the context (Fize et al.,2011, Oliva & Torralba, 2007, Bar 2004) .\n\nIn the present study we aim to determine whether it is possible to predispose macaque\nmonkeys to recognize a target by using contextual priming.\n\nProtocol:\n\nWe addressed this question using a go/no-go categorization task (Animal versus Non-Animal),\npreceded by a Rapid Serial Visual Presentation (RSVP) consisting of 10 real scenes (either\nnatural or man-made) and a mask.\n\nRSVP prime Test Response" + }, + { + "id": 27770, + "strid": "eb93f1e4-e74f-4eba-830d-dbafcf50ef2d", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 56.621, + 1256.307, + 1761.931, + 662.307 + ], + "priority": 5, + "parents": [ + 27762 + ], + "children": [], + "area": 71133.358647, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27771, + "strid": "c4c281ad-3003-470c-a699-88f95ff7cb23", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 105.754, + 1975.37, + 715.355, + 477.116 + ], + "priority": 6, + "parents": [ + 27762 + ], + "children": [], + "area": 208903.27898, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27772, + "strid": "036bd048-cba6-48c8-899c-3abac92a3e06", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 853.411, + 2020.731, + 998.285, + 230.09100000000012 + ], + "priority": 7, + "parents": [ + 27762 + ], + "children": [], + "area": 1724514.063441, + "iscrowd": 0, + "segmentation": [], + "text": "H1: Animal categorization performance is affected by the\ncontextual RSVP prime (hit rate, false alarm rate, reaction time)\n\nHO: The RSVP contextual prime has no impact on Animal\ncategorization performance" + }, + { + "id": 27764, + "strid": "550b5fe2-5603-4d7c-85d2-37860c354953", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.541, + 2580.021, + 616.113, + 48.56100000000015 + ], + "priority": 8, + "parents": [ + 27791 + ], + "children": [ + 27773, + 27774 + ], + "area": 156197.051361, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and methods" + }, + { + "id": 27773, + "strid": "82a2f52e-463e-4024-8aa0-80ca9d8315bc", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 42.632, + 2699.279, + 1193.477, + 80.10800000000017 + ], + "priority": 9, + "parents": [ + 27764 + ], + "children": [], + "area": 115075.66232799999, + "iscrowd": 0, + "segmentation": [], + "text": "Subjects:\n2 adult macaques (Rx and Ry), both expert in go/no-go categorization task" + }, + { + "id": 27774, + "strid": "dbd699ce-e5bb-4732-9a69-d8f27dc8f354", + "image_id": 201594, + "image_name": "117370.png", 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], + "children": [], + "area": 1111481.0757600002, + "iscrowd": 0, + "segmentation": [], + "text": "Reaction times and accuracy (hit rate and false-alarm rate),\nacross 20 sessions." + }, + { + "id": 27775, + "strid": "9dea8560-9d63-4c7e-bb7f-0f71441c233c", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1952.639, + 693.408, + 1097.133, + 957.7290000000002 + ], + "priority": 13, + "parents": [ + 27763 + ], + "children": [], + "area": 1353975.5037119999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27777, + "strid": "3ba5f16c-3342-4c1e-9ebe-8118b900c139", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1944.874, + 1677.419, + 1128.271, + 232.2639999999999 + ], + "priority": 14, + "parents": [ + 27763 + ], + "children": [], + "area": 3262368.6002060003, + "iscrowd": 0, + "segmentation": [], + "text": "No significant effect of contextual priming on_ global\nperformances (except for the False alarm rate in the monkey Rx, ANOVA\nF(10,297)=2.9, p-value=1.7x10-3). However a increasing trend appears in\nthe false alarm rate in both monkeys, and even in hit rate in\nmonkey Rx: is there a change of response strategy?" + }, + { + "id": 27778, + "strid": "2d442f34-e9a5-4843-8e4e-98e18daecd43", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1947.676, + 1963.639, + 1095.605, + 40.39799999999991 + ], + "priority": 15, + "parents": [ + 27763 + ], + "children": [], + "area": 3824532.5529639996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27779, + "strid": "a53ab4a3-0c20-4b73-a718-b1daac75365b", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1991.619, + 2030.401, + 1059.046, + 1025.0340000000003 + ], + "priority": 16, + "parents": [ + 27763 + ], + "children": [], + "area": 4043785.209219, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27780, + "strid": "f19f34d1-1bf6-4a20-bab7-7388c4eecc23", + "image_id": 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"image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3199.233, + 1180.779, + 1335.6589999999997, + 93.55600000000004 + ], + "priority": 22, + "parents": [ + 27766 + ], + "children": [], + "area": 3777587.1425070004, + "iscrowd": 0, + "segmentation": [], + "text": "Accumulation of natural scenes features doesn't change sensitivity\nto Animal features but favors ‘Animal category’ response." + }, + { + "id": 27768, + "strid": "792e9566-b9fb-4434-8441-6f88fc958bc6", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3441.198, + 1931.262, + 934.1299999999997, + 62.95399999999995 + ], + "priority": 23, + "parents": [ + 27791 + ], + "children": [ + 27789, + 27787, + 27788, + 27785, + 27786, + 27784 + ], + "area": 6645854.931875999, + "iscrowd": 0, + "segmentation": [], + "text": "Signal detection theory: definitions" + }, + { + "id": 27784, + "strid": "5d943413-0a40-4e6e-977c-c597187df010", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3170.599, + 2016.889, + 670.4000000000001, + 546.008 + ], + "priority": 24, + "parents": [ + 27768 + ], + "children": [], + "area": 6394746.246511, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27786, + "strid": "955f7ddc-f799-4d3e-92d1-056c66d05549", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3905.149, + 2060.805, + 727.6179999999999, + 293.078 + ], + "priority": 25, + "parents": [ + 27768 + ], + "children": [], + "area": 8047750.584944999, + "iscrowd": 0, + "segmentation": [], + "text": "This theory helps to understand the\nstrategy of decision making under\nconditions of uncertainty.\n\nIn our case, uncertainty is due to the\nspeed of image presentation and\ntransparency manipulation." + }, + { + "id": 27789, + "strid": "0d150540-6efa-43ff-b799-d7c857d3aa46", + "image_id": 201594, + 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"area": 11064448.048164, + "iscrowd": 0, + "segmentation": [], + "text": "D-prime=z(hit rate)-z(false alarm rate)\n\nCriterion=z(1-false alarm rate)\n\nnorm(z(hite rate))\n\n~ norm(z(False alarm rate))" + }, + { + "id": 27788, + "strid": "c420a51d-12e3-4cb3-9e90-f869337d3c35", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3923.99, + 3188.642, + 237.1289999999999, + 40.86400000000003 + ], + "priority": 29, + "parents": [ + 27768 + ], + "children": [], + "area": 12512199.321579998, + "iscrowd": 0, + "segmentation": [], + "text": "Heeger, 1997" + }, + { + "id": 27767, + "strid": "960be0d6-6698-4828-8ee4-424fbb5086d8", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3219.884, + 1343.276, + 308.64400000000023, + 48.45900000000006 + ], + "priority": 30, + "parents": [ + 27791 + ], + "children": [ + 27783 + ], + "area": 4325192.899984, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 27783, + "strid": "aa448911-daea-4fb9-8311-31d1cb709fe9", + "image_id": 201594, + "image_name": "117370.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3198.75, + 1453.103, + 1375.625, + 357.07500000000005 + ], + "priority": 31, + "parents": [ + 27767 + ], + "children": [], + "area": 4648113.22125, + "iscrowd": 0, + "segmentation": [], + "text": "Bar M 2004: Visual objects in context. Nature Neuroscience, 5, 617-629.\n\nFize D, Cauchoix M & Fabre-Thorpe M, 2011: Humans and monkeys share visual\nrepresentations. PNAS 108:7635-7640\n\nHeeger D, 1997. Signal detection theory. Dept. Psych., Stanford Univ., Stanford, CA,\nTeaching Handout\n\nJoubert O. Fize D, Rousselet G & Fabre-Thorpe M, 2008: Early interference of context\ncongruence on object processing in rapid visual categorization of natural scenes, Journal of\nVision, 8 1-18\n\nOliva A, Torralba A, 2007: The role of context in object recognition. TICS, 11, 520-527" + }, + { + "id": 55811, + "strid": "582b8bff-43d7-4fa7-811e-2e6a63b6b3b3", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1293.23, + 75.69, + 89.59999999999991, + 108.27000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 55802, + 55800, + 55810, + 55804, + 55806, + 55808, + 55799, + 55801, + 55805, + 55798, + 55809, + 55803 + ], + "area": 97884.5787, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55798, + "strid": "ba3ab74f-8103-4cb1-97e0-f2fe1786d380", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 57.574, + 34.943, + 1099.735, + 191.00100000000003 + ], + "priority": 1, + "parents": [ + 55811 + ], + "children": [], + "area": 2011.8082819999997, + "iscrowd": 0, + "segmentation": [], + "text": "THE HAEMODYNAMIC AND\nINFLAMMATORY EFFECTS OF\nCLONIDINE IN- OVINE SEVERE SEPSIS" + }, + { + "id": 55799, + "strid": "7d18e399-1cbe-4680-9a0d-2649d8dbb812", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 34.939, + 245.118, + 1218.88, + 163.06599999999997 + ], + "priority": 2, + "parents": [ + 55811 + ], + "children": [], + "area": 8564.177802, + "iscrowd": 0, + "segmentation": [], + "text": "hael Bailey®, Rinaldo Bellomo?, Clive vey\n\nPaolo Calzavacca'*3, Yugeesh Lankadeva', Lindsea Booth’, S\n, Australia\n\n‘Florey Neuroscience Institute: oi versity of Melbourne, Parkville, Melb\n2Department of eee ee Intensive Care, AO Melegnano, Cer ul Naviglio, Italy e\n*Department of Intensiv and Department of Medicine, Austin health, Heidelberg, Australia Ss\n“Veterinary school, Une of Melbourne, Parkville, Melbourne, ralia\n\n5Australia and New 2 ind Intensive Care Research Centre, Monash university, Australia\n\n \n\nJ" + }, + { + "id": 55800, + "strid": "7a0c771d-062e-4439-acfd-459bbefb2b22", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.065, + 430.026, + 555.7269999999999, + 267.045 + ], + "priority": 3, + "parents": [ + 55811 + ], + "children": [], + "area": 15938.91369, + "iscrowd": 0, + "segmentation": [], + "text": "Background and Aims: In sepsis, sympathetic nerve\nactivity (SNA) is differentially increased to individual organs,\nThe increased cardiac sympathetic nerve activity is partly\nresponsible for the increase in heart rate (HR) and cardiac\noutput (CO) opposing the developing hypotension{1] It has\nbeen suggested that inhibition of central sympathetic\noutflow with clonidine would improve. outcome in\nsepsis[2]. Accordingly, we sought to assess the effect of\nthe central alpha,-agonist clonidine on renal function\nand inflammation in an ovine model/of severe sepsis." + }, + { + "id": 55801, + "strid": "261f1441-2428-49a9-8488-0b9955f9b50c", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 32.749, + 739.933, + 557.956, + 75.50800000000004 + ], + "priority": 4, + "parents": [ + 55811 + ], + "children": [], + "area": 24232.065817000002, + "iscrowd": 0, + "segmentation": [], + "text": "Setting and study design: Randomized blind cross over\nanimal study in 12 merino\\ewes in a university-affiliated\nresearch institute in Melbourne." + }, + { + "id": 55802, + "strid": "55b26b23-f114-4c1e-82c3-71d0d4cd0b6d", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 33.001, + 833.735, + 560.082, + 507.9330000000001 + ], + "priority": 5, + "parents": [ + 55811 + ], + "children": [], + "area": 27514.088734999998, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: Animals. had renal and cardiac flow probes\nimplanted to continuously measure CO and renal blood flow\n(RBF). After 24\\hours of baseline data collection, sepsis was\ninduced through a bolus of live Escherichia coli (6.8x10’ CFU/\nKg) and a Continuous infusion (3x10? CFU/Kg/h). After’ 24\nhours,(development sepsis) if heart rate (HR) had increased\natleast 50%, mean arterial pressure (MAP) had decreased at\nleast 10 mmHg and urine output (UO) had decréased at least\nby 25% for the last 8 hours compared.‘to baseline, a\ncontinuous infusion of vehicle (control group, CG, normal\nsaline 1 mL/Kg/h) or a,-agonist (clonidine group, AG, at 1\nmicrog/mL/Kg/min) was started and continued for 8 hours.\nAt 32™ hour of sepsis, the infusion of intervention drug and\nE. coli were discontinued, gentamycin 150 mg i.m. given and\nanimals followed for further 40 hours during recovery. Data\nare mean (standard error). Mixed linear modeling using post-\nhoc pairwise t-test for specific time point comparisons. A p\nvalue of 0.01 was.considered significant (NS: not significant,\np value > 0.01)." + }, + { + "id": 55808, + "strid": "5b749f3e-da0f-4000-a2ca-804813aec39b", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 33.266, + 1521.844, + 547.794, + 462.3029999999999 + ], + "priority": 6, + "parents": [ + 55811 + ], + "children": [ + 55807 + ], + "area": 50625.662504, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55807, + "strid": "61dbc7ec-3811-4fcb-b7f0-bdb3a487d593", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 32.909, + 1395.895, + 545.328, + 106.30700000000002 + ], + "priority": 7, + "parents": [ + 55808 + ], + "children": [], + "area": 45937.508555, + "iscrowd": 0, + "segmentation": [], + "text": "\\:, Hemodynamic and renal findings Conten Fels line,\n\n \n \n\nint sepsis and intervention periods in Cont 5) and\njidine (AG) groups. Data are mean oe . P value\ncnn period\n\nrs to between group comparison for end of ir\n(32 hour). 4»" + }, + { + "id": 55810, + "strid": "4cbe98b1-cec8-4b53-b9ae-c7cfb4d22043", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 636.741, + 432.275, + 783.489, + 604.186 + ], + "priority": 8, + "parents": [ + 55811 + ], + "children": [], + "area": 275247.215775, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55806, + "strid": "0a8acc60-fa6a-47e3-b33a-1466e5f8f058", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1069.15, + 790.202, + 349.1590000000001, + 200.63599999999997 + ], + "priority": 9, + "parents": [ + 55811 + ], + "children": [], + "area": 844844.4683000001, + "iscrowd": 0, + "segmentation": [], + "text": "Hour “by hour changes in Renal Blood Flow,\nin@ Output and Heart Rate during\nintervention in Control (black continuous\nlines) and Clonidine (blue dotted lines)\ntreated animals. Data are mean, error bars\nstandard error. Time 0: average of baseline\nperiod. In rectangle: 8 hours of interventi\nperiod. * indicates ps0.01 for between\ncomparison for average of 4 hours ing\nintervention. RnR." + }, + { + "id": 55805, + "strid": "fa39e1cc-6535-4a55-bcb3-7477740fe7df", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 638.923, + 1044.635, + 824.287, + 132.529 + ], + "priority": 10, + "parents": [ + 55811 + ], + "children": [], + "area": 667441.328105, + "iscrowd": 0, + "segmentation": [], + "text": "Results and discussion: Complete data was collected on 8 animals/group, three\nanimals died/group. Hyperdynamic sepsis with hypotension and acute kidney injury of\nsimilar degree developed in the 2 groups. Table 1 shows the»haemodynamic and renal\nchanges induced by sepsis and by treatment. Figure 1 shows renal effects and interleukine\n(IL) 6 and IL¢20 effects of clonidine." + }, + { + "id": 55804, + "strid": "d58613a2-d666-4561-ac92-ce1cd0a00baa", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 637.912, + 1191.799, + 825.2180000000001, + 79.279 + ], + "priority": 11, + "parents": [ + 55811 + ], + "children": [], + "area": 760262.883688, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions: Clonidine in hyperdynamic sepsis appears safe. It transiently increased\nurine output without affecting renal blood flow or glomerular filtration rate, but the effect\nwas Not sustained. Clonidine increased anti-inflammatory levels of interleukine 10." + }, + { + "id": 55809, + "strid": "c64cf14e-8484-42ef-9312-6561a4b11e37", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 637.822, + 1319.163, + 801.676, + 605.8009999999999 + ], + "priority": 12, + "parents": [ + 55811 + ], + "children": [], + "area": 841391.182986, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55803, + "strid": "91821657-1655-4af0-9311-1fa1391988f4", + "image_id": 202695, + "image_name": "119105.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1121.444, + 1729.131, + 286.05200000000013, + 142.26299999999992 + ], + "priority": 13, + "parents": [ + 55811 + ], + "children": [], + "area": 1939123.585164, + "iscrowd": 0, + "segmentation": [], + "text": "Changes Creatinine Clearance as\nestimate of Glomerular Filtration Rate\n(GFR), Interieukine (IL)-6 and IL-10 ¢\nduring intervention in Control and\nClonidine. Data are mean, error\nstandard error * indicates pg0.01 Yor\nbetween group comparison." + }, + { + "id": 25023, + "strid": "feaceaef-aa9f-471e-9149-e2b0674d3fe4", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 737.72, + 103.53, + 228.82999999999993, + 239.23 + ], + "priority": -1, + "parents": [], + "children": [ + 25006, + 24996, + 25005, + 25002, + 24999, + 25001, + 25004, + 25003, + 24997, + 24995, + 24998, + 25000 + ], + "area": 76376.1516, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24995, + "strid": "3773c2c8-5c38-4b5b-a44c-070711eff5ae", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1083.686, + 17.969, + 3841.852, + 402.188 + ], + "priority": 1, + "parents": [ + 25023 + ], + "children": [], + "area": 19472.753733999998, + "iscrowd": 0, + "segmentation": [], + "text": "Structural, not spectral properties\nunderlie human categorization of natura! scenes" + }, + { + "id": 24996, + "strid": "083c86ff-5cd8-464a-93f9-4efec05821c3", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 693.536, + 439.673, + 4587.313, + 250.79700000000003 + ], + "priority": 2, + "parents": [ + 25023 + ], + "children": [], + "area": 304929.05372799997, + "iscrowd": 0, + "segmentation": [], + "text": "Dirk B. Walther, Dandan Shen\n\nDepartment of Psychology, Center for Cognitive and Brain Sciences, The Ohio State University, bernhardt-walther. 1@osu.edu" + }, + { + "id": 24997, + "strid": "b09d3bc4-b440-4cdc-b1ea-6750f8534dc1", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 37.182, + 735.14, + 445.123, + 64.09799999999996 + ], + "priority": 3, + "parents": [ + 25023 + ], + "children": [ + 25013 + ], + "area": 27333.97548, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 25013, + "strid": "242fac74-8d6a-42d5-93b1-9c90ebe9b730", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 31.461, + 844.626, + 1092.739, + 662.809 + ], + "priority": 4, + "parents": [ + 24997 + ], + "children": [], + "area": 26572.778585999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24998, + "strid": "ae77cb3a-2065-46f5-95e4-466459978a4c", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 35.376, + 1569.505, + 253.4, + 60.28500000000008 + ], + "priority": 5, + "parents": [ + 25023 + ], + "children": [ + 25022, + 25012 + ], + "area": 55522.80888, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 25012, + "strid": "a02dc95d-5fb2-4817-ba3e-fde85750ad93", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 33.451, + 1662.289, + 1067.75, + 611.1119999999999 + ], + "priority": 6, + "parents": [ + 24998 + ], + "children": [], + "area": 55605.229339, + "iscrowd": 0, + "segmentation": [], + "text": "72 color photographs and line drawings for each\nof six categories: beaches, forests, mountains,\ncity streets, highways, offices.\n\nLine drawings allow us to analyze structural\nfeatures.\n\nHumans categorize line drawings the same way\nas photographs of scenes (Walther et al. 2011).\n\nLine drawings were generated by human artists\nby tracing outlines of photographs." + }, + { + "id": 25022, + "strid": "ca298127-349c-4404-abb7-5477615d6f90", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 35.514, + 2328.5, + 1127.402, + 1837.3810000000003 + ], + "priority": 7, + "parents": [ + 24998 + ], + "children": [], + "area": 82694.349, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24999, + "strid": "193823f2-52e0-4e06-8986-9721aee23922", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1231.483, + 735.461, + 862.0980000000002, + 78.53099999999995 + ], + "priority": 8, + "parents": [ + 25023 + ], + "children": [ + 25020 + ], + "area": 905707.7186629999, + "iscrowd": 0, + "segmentation": [], + "text": "Computational Modeling" + }, + { + "id": 25020, + "strid": "72cbcd49-c49d-4352-a836-213afce5987c", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1253.201, + 870.472, + 1709.8689999999997, + 888.27 + ], + "priority": 9, + "parents": [ + 24999 + ], + "children": [], + "area": 1090876.380872, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 25006, + "strid": "4c31803b-c423-40f9-b2f6-257dbafbc782", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1235.866, + 1833.007, + 798.1970000000001, + 75.54500000000007 + ], + "priority": 10, + "parents": [ + 25023 + ], + "children": [ + 25011, + 25019 + ], + "area": 2265351.029062, + "iscrowd": 0, + "segmentation": [], + "text": "Behavioral! Experiment" + }, + { + "id": 25019, + "strid": "5b7a0cc6-3c35-4c27-ba7f-fbaa7c13cf37", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1258.532, + 1911.619, + 543.5150000000001, + 947.9419999999998 + ], + "priority": 11, + "parents": [ + 25006 + ], + "children": [], + "area": 2405833.6833079997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 25011, + "strid": "3262d7a7-c983-486c-8ed5-169609dfda83", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1916.541, + 1940.895, + 974.4550000000002, + 787.2719999999999 + ], + "priority": 12, + "parents": [ + 25006 + ], + "children": [], + "area": 3719804.844195, + "iscrowd": 0, + "segmentation": [], + "text": "Six-alternative forced-choice\nwith perceptual mask.\n\nRandom assignment of keys (s, d, f, j, k, I)\nto scene categories.\n\nPractice key assignment to 90% accuracy\nwith SOA = 250 ms, with feedback.\n\nStaircase SOA to 65% accuracy, with\nfeedback (mean SOA: 26.5 ms).\n\nTest on photographs and line drawings with\nfixed SOA, without feedback.\n\nEach test image only seen once." + }, + { + "id": 25005, + "strid": "378a8d7e-eb6a-489c-a629-877e0d3af8d0", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1234.95, + 2932.658, + 849.3700000000001, + 76.5909999999999 + ], + "priority": 13, + "parents": [ + 25023 + ], + "children": [ + 25021 + ], + "area": 3621685.9971, + "iscrowd": 0, + "segmentation": [], + "text": "Categorization Accuracy" + }, + { + "id": 25021, + "strid": "168d24b8-c673-4b85-8c3a-621cb64fcf39", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1227.537, + 3042.811, + 1748.6610000000003, + 1127.3479999999995 + ], + "priority": 14, + "parents": [ + 25005 + ], + "children": [], + "area": 3735163.0865070005, + "iscrowd": 0, + 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"children": [], + "area": 4022713.2782579996, + "iscrowd": 0, + "segmentation": [], + "text": "If junctions are so important, then destroying\nshould degrade categorization performance:" + }, + { + "id": 25014, + "strid": "aaccd83c-528b-4a4d-be89-4533f8c33f92", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4826.985, + 967.252, + 1147.5519999999997, + 419.039 + ], + "priority": 20, + "parents": [ + 25001 + ], + "children": [], + "area": 4668910.895219999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 25008, + "strid": "c5c27877-69f5-4948-8bc5-4230b5bc1114", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4832.9, + 1407.502, + 1008.1620000000003, + 203.26700000000005 + ], + "priority": 21, + "parents": [ + 25001 + ], + "children": [], + "area": 6802316.4158, + "iscrowd": 0, + "segmentation": [], + "text": "Statistics or orientation, length and curvature\nunaffected by shifting contours.\n\nStatistics of junctions is changed:" + }, + { + "id": 25015, + "strid": "bdf1c9e9-724a-465a-836b-e0f3375af8bf", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4828.219, + 1619.29, + 1141.1009999999997, + 856.683 + ], + "priority": 22, + "parents": [ + 25001 + ], + "children": [], + "area": 7818286.74451, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 25002, + "strid": "1e828509-0acc-4814-a5c6-4c1132aec763", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4834.407, + 2538.686, + 765.3220000000001, + 67.07600000000002 + ], + "priority": 23, + "parents": [ + 25023 + ], + "children": [ + 25016 + ], + "area": 12273041.369202001, + "iscrowd": 0, + "segmentation": [], + "text": "Correlation with GIST" + }, + { + "id": 25016, + "strid": "41105915-16c1-4875-8001-751918a9fe0d", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4826.506, + 2621.609, + 1141.1009999999997, + 757.308 + ], + "priority": 24, + "parents": [ + 25002 + ], + "children": [], + "area": 12653211.568154, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 25003, + "strid": "dd062525-ffaa-462e-850f-8086a1cac255", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4843.958, + 3445.595, + 422.991, + 60.427000000000135 + ], + "priority": 25, + "parents": [ + 25023 + ], + "children": [ + 25009 + ], + "area": 16690317.465009999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 25009, + "strid": "bd5b08cf-dacd-420d-88a0-c5bf2d1fa243", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4860.739, + 3540.631, + 1046.0689999999995, + 388.4609999999998 + ], + "priority": 26, + "parents": [ + 25003 + ], + "children": [], + "area": 17210083.186309, + "iscrowd": 0, + "segmentation": [], + "text": "Although spectral properties contain category-\nspecific information, people rely mostly on\nstructural information (\\V/2-type features).\nCompare to object recognition: Surface properties\nclearly distinguish a cup from a towel. However,\npeople rely mostly on shape to recognize objects." + }, + { + "id": 25004, + "strid": "30333dfe-2167-46be-8961-907e4d9a79c3", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4837.075, + 3964.785, + 234.65999999999985, + 38.621000000000095 + ], + "priority": 27, + "parents": [ + 25023 + ], + "children": [ + 25010 + ], + "area": 19177962.403874997, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 25010, + "strid": "5f84e173-d6d6-4bec-8d2d-ca56c20d3154", + "image_id": 201501, + "image_name": "117218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4836.163, + 4021.054, + 1066.2849999999999, + 160.53700000000026 + ], + "priority": 28, + "parents": [ + 25004 + ], + "children": [], + "area": 19446472.575802, + "iscrowd": 0, + "segmentation": [], + "text": "Biederman | (1987) Psychological review 94(2):115-147.\n\nMarr D & Nishahara HK (1978) Proc. R. Soc. London B. 200:269-294.\n\nOliva A & Torralba A (2001) International Journal of Computer Vision 42:145-175.\n\nWalther DB, Chai B, Caddigan E, Beck DM, & Fei-Fei L (2011) Proc Natl Acad Sci U S A 108(23):9661-9666.\nWalther DB & Shen D (under review)" + }, + { + "id": 162496, + "strid": "b8259b94-f8b3-4e2b-b800-619ebeadecd2", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 3023.96, + 103.89, + 217.32999999999993, + 240.62 + ], + "priority": -1, + "parents": [], + "children": [ + 162494, + 162488, + 162484, + 162486, + 162495, + 162487, + 162485, + 162483, + 162481, + 162489, + 162492, + 162482 + ], + "area": 314159.2044, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162481, + "strid": "269c3fb2-1e6a-4b6a-a2e5-723f7d8bf67d", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 153.596, + 170.988, + 2817.785, + 192.375 + ], + "priority": 1, + "parents": [ + 162496 + ], + "children": [], + "area": 26263.072848, + "iscrowd": 0, + "segmentation": [], + "text": "Identification of complex functional relations among genes through\nassociation rule learning" + }, + { + "id": 162482, + "strid": "02be12cf-aea4-4ab9-b380-f3adb2be106c", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 154.784, + 377.494, + 2930.046, + 178.27999999999997 + ], + "priority": 2, + "parents": [ + 162496 + ], + "children": [], + "area": 58430.031296, + "iscrowd": 0, + "segmentation": [], + "text": "Riccardo Percudani™, Nicola Doniselli’, Alessandro Dal Palu’, Pietro Cravedi'\n‘Department of Life Sciences, Universita di Parma, Italy and Department of Mathematics and Computer Sciences, Universita di Parma, Italy\nEmail: riccardo.percudani@unipr.it" + }, + { + "id": 162483, + "strid": "edfc086d-c3a1-46d1-9ff6-60d205f7156c", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.776, + 648.78, + 1658.492, + 408.3219999999999 + ], + "priority": 3, + "parents": [ + 162496 + ], + "children": [], + "area": 84196.07328, + "iscrowd": 0, + "segmentation": [], + "text": "The analysis of correlated and anti-correlated phylogenetic profiles is a widely used method to predict functional as-\nsociations among genes. As previously pointed out, these methods corresponds to pairwise logic implications between\ngenes of the type A > B or A > not B, respectively, i.e. the presence of gene A in a genome implies the presence of B, or\nthe presence of gene A implies the absence of B. However, for the presence of analogous proteins, alternative pathways,\nand pathway branching points, the evolutionary and functional associations among genes can be far more complex than\npairwise relations (1). No general algorithms have been implemented for the discovery of complex logic implications in-\nvolving three or more genes. Here we describe the adaptation of the widely used Apriori algorithm of association rule\nlearning (2,3) to the identification of complex patterns of gene presence/absence across genomes. As a proof of principle\nof the application of this data mining technique, we report on the identification of a missing gene in purine catabolism\n(PuuD) through the identification of an association rule relating six different genes involved in the pathway." + }, + { + "id": 162484, + "strid": "a8e38729-45ff-4d7b-b278-4e85c3733153", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 130.717, + 1082.514, + 1255.949, + 116.00099999999998 + ], + "priority": 4, + "parents": [ + 162496 + ], + "children": [], + "area": 141502.982538, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162486, + "strid": "05628b19-8819-4078-85e5-622bb257be93", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 351.173, + 1259.411, + 1231.002, + 695.0729999999999 + ], + "priority": 5, + "parents": [ + 162496 + ], + "children": [], + "area": 442271.139103, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162485, + "strid": "bd95b1db-7945-47bb-818e-10711c38c8aa", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 222.954, + 2034.426, + 1484.288, + 364.8330000000001 + ], + "priority": 6, + "parents": [ + 162496 + ], + "children": [], + "area": 453583.414404, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162487, + "strid": "c7b72c3f-2e2e-4555-870e-37fa1ce76339", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 191.081, + 2462.761, + 1597.682, + 78.98199999999997 + ], + "priority": 7, + "parents": [ + 162496 + ], + "children": [], + "area": 470586.83464099996, + "iscrowd": 0, + "segmentation": [], + "text": "Proof of concept\nIdentification of an integral membrane, cytochrome c urate oxidase (PuuD) through association rules learning*" + }, + { + "id": 162495, + "strid": "971819f1-36cc-41a0-9a78-0abbe7412c0b", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 271.658, + 2594.866, + 1598.429, + 827.395 + ], + "priority": 8, + "parents": [ + 162496 + ], + "children": [], + "area": 704916.107828, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162489, + "strid": "e2478b6b-fcba-4a16-a056-3dbee071a8fa", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 170.929, + 3477.63, + 838.153, + 631.375 + ], + "priority": 9, + "parents": [ + 162496 + ], + "children": [ + 162490 + ], + "area": 594427.81827, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162490, + "strid": "24cbc6eb-1460-4d17-b7a5-5d11e2adc864", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 197.326, + 4125.331, + 799.691, + 135.0659999999998 + ], + "priority": 10, + "parents": [ + 162489 + ], + "children": [], + "area": 814035.064906, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Experimental evidence for the urate oxidase activity of Atu2314 (COG3748). Growth\ncurves of wild-type and engineered A. fabrum C58 strains in M9 minimal medium supplemented\nwith (a) urate or (b) ammonia as nitrogen source. (c) Urate utilization by concentrated cell\ncultures. Error bars represent standard deviations obtained from three independent experiments.\n(d) Uox activity of 250 ug of cell-free extracts as monitored by the decrease in absorbance\nat 293 nm; extracts were added (arrows) to 0.1 ml solutions containing 0.11 mM _ urate" + }, + { + "id": 162492, + "strid": "53035562-1a83-4460-8313-0f854ac496a8", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1065.893, + 3526.937, + 706.8989999999999, + 933.6289999999999 + ], + "priority": 11, + "parents": [ + 162496 + ], + "children": [ + 162491 + ], + "area": 3759337.459741, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162491, + "strid": "2ac3a7ad-b0c2-4e57-8c64-a1730d6ee003", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 197.078, + 4284.533, + 826.583, + 181.46200000000044 + ], + "priority": 12, + "parents": [ + 162492 + ], + "children": [], + "area": 844387.1945740001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Sequence ana structure organization of PuuD proteins.. Membrane topoogyor At-\nPuuD. Residues are colored according to the Consurf analysis of the PuuD multiple alignment of\nFig. S7. Topology plots were obtained with the Protter program. 3D homology model of the PuuD\nCyt_c domain. The structural model (GMQE=0.47; QMEAN4=-4.09) is based on the comparison\nof the Cyt c region of AfPuuD (aa 329-410) with the template PDB structure 2dOw. Cartoon rep-\nresentation of the structure colored according to the model confidence from blue (high) to red\n(low); helices are named according to the mitochondrial cytochrome c notation. Stereoview show-\ning the position of the heme binding residues and the invariant Arg in the sequence alignment." + }, + { + "id": 162494, + "strid": "8eff097e-a94e-4bbd-bfc7-24617fee1eec", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 198.771, + 4500.246, + 461.203, + 34.97999999999956 + ], + "priority": 13, + "parents": [ + 162496 + ], + "children": [], + "area": 894518.397666, + "iscrowd": 0, + "segmentation": [], + "text": "*Submitted to Scientific Reports" + }, + { + "id": 162488, + "strid": "47aaf9b9-4a08-4985-92c2-04aed0630ee8", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1936.708, + 561.815, + 1191.857, + 3804.6819999999993 + ], + "priority": 14, + "parents": [ + 162496 + ], + "children": [ + 162493 + ], + "area": 1088071.6050200001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162493, + "strid": "9e1a2654-a341-4cc8-8fc4-65405a521718", + "image_id": 206843, + "image_name": "6523.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1935.073, + 4407.271, + 1108.8, + 92.59600000000046 + ], + "priority": 15, + "parents": [ + 162488 + ], + "children": [], + "area": 8528391.115783, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Map of urate oxidation capacity in complete genomes. The tree represents 1012 distinct species classified\naccording to the NCBI taxonomy. The presence (red) or the absence (blue) of urate degradation genes in complete\ngenomes is shown alongside the organism tree. Figure generated with heatmap.phylo function (R Ape library)." + }, + { + "id": 71267, + "strid": "bf80d890-d43e-451f-93b0-41b3b0334ac9", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 29.08, + 4.03, + 138.45999999999998, + 42.35 + ], + "priority": -1, + "parents": [], + "children": [ + 71254, + 71255, + 71251, + 71252, + 71253, + 71250 + ], + "area": 117.1924, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71250, + "strid": "15a911b9-595c-42b6-bb55-32782c42700c", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 209.565, + 51.853, + 568.6889999999999, + 28.988000000000007 + ], + "priority": 1, + "parents": [ + 71267 + ], + "children": [], + "area": 10866.573945, + "iscrowd": 0, + "segmentation": [], + "text": "Extracellular vesicles for delivery of small RNA" + }, + { + "id": 71251, + "strid": "56da1e22-4c81-483e-83eb-f88f8e0a8f2c", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 212.2, + 112.464, + 563.9449999999999, + 64.30000000000001 + ], + "priority": 2, + "parents": [ + 71267 + ], + "children": [], + "area": 23864.8608, + "iscrowd": 0, + "segmentation": [], + "text": "Pieter Vader’, YiLee’, Imre Mager’, Samir EL Andaloussi*?, and Matthew J.A. Wood?\n\n1. Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK\n2. Departméit of Laboratory Medicine, Karolinskainstitutet, Huddinge, Sweden" + }, + { + "id": 71252, + "strid": "1c799f33-d643-40b7-98d5-43be6f4e0dd2", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 58.247, + 224.468, + 69.377, + 14.789999999999992 + ], + "priority": 3, + "parents": [ + 71267 + ], + "children": [ + 71256 + ], + "area": 13074.587596, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 71256, + "strid": "bf6d7cbf-22f8-4dcf-9041-e239628a6c06", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.373, + 239.891, + 348.045, + 149.07000000000002 + ], + "priority": 4, + "parents": [ + 71252 + ], + "children": [], + "area": 13763.266343, + "iscrowd": 0, + "segmentation": [], + "text": "Siang oF tet pee een Com AMA terrence (RNA hee\nunprecedented therapeutic Potential, however inefficient intracellular delivery\nthe RNALmediating.srfglh-ANA molecules hinders ts clinical. progress\nConsequently, there ja heed for novel, eiginal approaches to overcome the\ndalvery challenges.\n\nExtracellular vesicle (EV), including exosomes and microvesiles, sf Important\nmediators of wtefelular communication. Through transfer of heir molecular\ncontent, inliging RNA, they can induce functional changeé-WY recipient cel\nTherefoy, EVs are increasingly being considered for thefapéuic RNA delivery\nHowefer tealsation of ther potential awaits develonmént of efficient methods\nfor Igading of exogenous RNA. One approach js-te)explit the endogenous\nmatfinery of the cell responsible for small RNA tne into EVs." + }, + { + "id": 71253, + "strid": "5ddd3837-4d6b-4be6-9a3a-8adb8b81cc55", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.709, + 407.861, + 24.200999999999993, + 11.831999999999994 + ], + "priority": 5, + "parents": [ + 71267 + ], + "children": [ + 71257, + 71259 + ], + "area": 23537.250449, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 71257, + "strid": "5e5aa07b-ab81-4a3e-af63-b14fa816c2fa", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.697, + 423.311, + 348.693, + 35.64699999999999 + ], + "priority": 6, + "parents": [ + 71253 + ], + "children": [], + "area": 24423.774767, + "iscrowd": 0, + "segmentation": [], + "text": "Here a Sane To SRE ELNOT LR ec on Of EIEN salerice ine Ey ener\ncells results in their packaging and-l@ase In EVs, and whether EVs ae able to\nfunctionally trensier MIRMAs tereptacat cells (Figure 1)." + }, + { + "id": 71259, + "strid": "16d3a7a2-ec64-48f9-9f40-d84e19ba528e", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 83.621, + 488.112, + 291.733, + 82.01299999999998 + ], + "priority": 7, + "parents": [ + 71253 + ], + "children": [ + 71263 + ], + "area": 40816.413552, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71263, + "strid": "ad300879-f114-43db-bc18-69f571403fe1", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 57.529, + 595.601, + 349.361, + 23.910999999999945 + ], + "priority": 8, + "parents": [ + 71259 + ], + "children": [], + "area": 34264.329929, + "iscrowd": 0, + "segmentation": [], + "text": "eee 2. enreels Pepreeeatelies of cur Eee Ser A being eae\ntransfer experiments." + }, + { + "id": 71254, + "strid": "1843d368-397f-457b-9371-6d2c8a7b672a", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.944, + 637.466, + 53.62599999999999, + 11.976999999999975 + ], + "priority": 9, + "parents": [ + 71267 + ], + "children": [ + 71258 + ], + "area": 36937.329904000006, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 71258, + "strid": "470183da-1da8-45b3-9218-fd2d14656ee9", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.373, + 652.749, + 348.693, + 99.16399999999999 + ], + "priority": 10, + "parents": [ + 71254 + ], + "children": [], + "area": 37450.168377, + "iscrowd": 0, + "segmentation": [], + "text": "In an attempt to load EVS with ang yea, HEK293T cells were transfected with\nLipofectamine2000 according tothe manufacturers instructions. EVs were\nisolated using a newly developed method based on ultrafitration followed by\nliquid chromatography (Leh and characterized by Nanoparticle Tracking Analy\n(NTA and Wester Blofing. miRNA levels were determined using spl RNA\nTaqman RT-qPCR aéiafe, and normalised to splked-n cel-miR-29 (ar culture\nmedium and EVs)or snUS (for cells. mRNA levels in recpisGt tells were\ndetermined usithptaqman RT-qPCR assays, and normalised to GAPDH." + }, + { + "id": 71255, + "strid": "0b0a20cc-4f67-48db-b88b-7c31ba378233", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 58.488, + 769.49, + 136.651, + 12.25 + ], + "priority": 11, + "parents": [ + 71267 + ], + "children": [ + 71262, + 71261, + 71260 + ], + "area": 45005.93112, + "iscrowd": 0, + "segmentation": [], + "text": "Results.and conclusions" + }, + { + "id": 71260, + "strid": "1d1ec801-94d6-410b-9d26-b16a64f7efac", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 59.408, + 796.639, + 324.539, + 115.60000000000002 + ], + "priority": 12, + "parents": [ + 71255 + ], + "children": [ + 71264 + ], + "area": 47326.729712, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71264, + "strid": "2646db54-a674-4353-8aa3-59faf7959950", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 57.815, + 933.668, + 348.666, + 111.41899999999998 + ], + "priority": 13, + "parents": [ + 71260 + ], + "children": [], + "area": 53980.015419999996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. miR-1éga\\@ranstection leads to increased miR-136a splegs@ into the\nculture mediuys, (A) Time-dependent release of miR-146a into) the culture\nmedium aftepstansfection into HEK 293T cells. Cells were tripsected, washed\nand medlyen was replaced with Optimem. Medium was coléced at t= 0, 2,24\nand 43olrs after transfection, and analysed for miR-iR68 content. miR-1A6a\nrele was fast and levelled of after two hours. (fer transfection, medium\nas replaced with Optimem containing O, 3.75 or 75M GW&86S, an inhibitr of\ng-Smase activity. GW4B69 dase dependently deceased mif-146a release\n\n+» pef.01." + }, + { + "id": 71262, + "strid": "ff5260c5-c04d-42e7-9fda-686b9bf0def5", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 430.03, + 223.977, + 331.308, + 494.033 + ], + "priority": 14, + "parents": [ + 71255 + ], + "children": [ + 71266 + ], + "area": 96316.82931, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71266, + "strid": "b73534a0-bc03-4951-a0a5-e636fbfbc84c", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 427.17, + 745.667, + 350.18699999999995, + 123.399 + ], + "priority": 15, + "parents": [ + 71262 + ], + "children": [], + "area": 318526.57239000004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Released mif-\\46e/s Primarily not associated with Evs. (A) Schaspetic\nrepresentation of EV iolation procedure (8) After LC fractionation, four stnct\nfractions (F1-Fé) wore elected. Eluet was monitored by UV absorbance at 280\nnm. (C) Particle cendentration of fractions F1-F4. Concentration as determined\nUsing NTA. Th&mjorty of particles were detected in faétion Fl. (0) Sze\ndistrioutign’o} particles from fraction Fl, as determined)by NTA. Particle size\nranged banween 50-250 nm, peaking at 100 am. (E) The presence of EV marker\nAlo 2€ determined by Western Botting Ale could only be Wetecte in fraction FL\n(Efavi-146a level infractions F1-F4 and 100KD flogstvough. The vast majority\n4a sieased miR-146a wes found not to be EV-assct@hcd." + }, + { + "id": 71261, + "strid": "38f431d9-cb12-47b3-ba5a-0d79ff370568", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 433.154, + 886.072, + 341.722, + 158.94999999999993 + ], + "priority": 16, + "parents": [ + 71255 + ], + "children": [ + 71265 + ], + "area": 383805.631088, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71265, + "strid": "57d92031-0f59-4dd3-84f4-bdf7ec15039b", + "image_id": 203279, + "image_name": "119983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 429.076, + 1067.267, + 349.2339999999999, + 74.32500000000005 + ], + "priority": 17, + "parents": [ + 71261 + ], + "children": [], + "area": 457938.65529200004, + "iscrowd": 0, + "segmentation": [], + "text": "prewre 4. Ev-cesneisted mi-246a can be transissee to recipient cells. (A) Levels\nof mif-146a in untreated or EV-mir146a-teated HEK 2931 cel. Cellular level\nwere & fold higher aftr treatment with EVs eardying miR-146a. (8) Levels of mi\n1A6a target genes BRCAL, IRAKI, ROCK ahQ)TRAFS in untreated EV-siNC treated,\nor EV-mir-146a-teated HEK 2937 calls-No significant ciffeences in mRNA levels\nwere observed." + }, + { + "id": 46091, + "strid": "c6ddbce0-088a-4955-9ff0-341c37834792", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 186.16, + 426.06, + 206.65, + 233.61999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 46077, + 46088, + 46072, + 46074, + 46078, + 46087, + 46081, + 46076, + 46075, + 46073 + ], + "area": 79315.3296, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46072, + "strid": "3aa28e51-d5e7-4f99-aefa-73be83bbecb0", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 649.568, + 459.673, + 2238.973, + 248.548 + ], + "priority": 1, + "parents": [ + 46091 + ], + "children": [], + "area": 298588.871264, + "iscrowd": 0, + "segmentation": [], + "text": "Alexithymia and Male Sexual Dysfunctions:\nwhich correlation?" + }, + { + "id": 46073, + "strid": "a275e535-5071-4c52-8378-2a4e759e2c62", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 493.94, + 737.776, + 2548.769, + 255.562 + ], + "priority": 2, + "parents": [ + 46091 + ], + "children": [], + "area": 364417.07743999996, + "iscrowd": 0, + "segmentation": [], + "text": "Eleuteri S. 1, Giuliani M. 2, Michetti P.M. 3, Rossi R. 2, Simonelli C. 1\n\n1 Faculty of Medicine and Psychology, “Sapienza” University of Rome, 2/nstitute of Clinical Sexology, Rome\n3 Urology Department, “Sapienza” University of Rome" + }, + { + "id": 46074, + "strid": "75caf544-6f87-4906-b456-12e488d71d82", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 826.756, + 1196.793, + 299.351, + 54.98299999999995 + ], + "priority": 3, + "parents": [ + 46091 + ], + "children": [ + 46079 + ], + "area": 989455.7935079999, + "iscrowd": 0, + "segmentation": [], + "text": "OBJECTIVE" + }, + { + "id": 46079, + "strid": "7ea763cd-aad5-4e9b-ad04-a10d244749ec", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.633, + 1288.19, + 1649.873, + 320.66100000000006 + ], + "priority": 4, + "parents": [ + 46074 + ], + "children": [], + "area": 169568.31427000003, + "iscrowd": 0, + "segmentation": [], + "text": "Alexithymia construct characterizes individuals who have difficulty in identifying or\nreporting their specific emotions. Researchers have found high alexithymia levels in\nmen with different sexual problems, including sexual dysfunctions, paraphilias and\ninfertility. The goal of this study was to investigate the presence of alexithymia in male\nsexual dysfunctions (MSD), specifically Erectile Dysfunction (ED), Premature\nEjaculation (PE) and Delayed Ejaculation (DE)." + }, + { + "id": 46075, + "strid": "ffa9d800-c3a9-40a4-80de-e1085da77caf", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 797.47, + 1701.406, + 286.703, + 43.440000000000055 + ], + "priority": 5, + "parents": [ + 46091 + ], + "children": [ + 46080 + ], + "area": 1356820.24282, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 46080, + "strid": "8993d685-c786-452c-b26b-57155e63dbb7", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 110.344, + 1791.135, + 1660.517, + 203.5730000000001 + ], + "priority": 6, + "parents": [ + 46075 + ], + "children": [], + "area": 197641.00043999997, + "iscrowd": 0, + "segmentation": [], + "text": "274 patients with MSD diagnosed by DSM-IV-TR were administered Toronto\nAlexithymia Scale (TAS-20) and ad hoc tools (IIEF, PESI, IELT) to evaluate clinical\nfeatures of sexual symptoms and the personal and relational distress connected to\niaateee" + }, + { + "id": 46081, + "strid": "741531ce-f86d-485d-83d2-d9828a490a3d", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 95.843, + 2227.673, + 1691.226, + 703.8229999999999 + ], + "priority": 7, + "parents": [ + 46091 + ], + "children": [], + "area": 213506.86333899997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46076, + "strid": "c6a02be2-03b4-4c14-a528-d3f6b55792b6", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 840.309, + 3187.374, + 238.87300000000005, + 47.33399999999983 + ], + "priority": 8, + "parents": [ + 46091 + ], + "children": [ + 46083, + 46084, + 46085, + 46082 + ], + "area": 2678379.058566, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 46083, + "strid": "fa63ae49-f4de-4edd-b919-6045e3797e9b", + "image_id": 202301, + "image_name": "118512.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 160.325, + 3350.732, + 1243.47, + 265.99699999999984 + ], + "priority": 9, + "parents": [ + 46076 + ], + "children": [], + "area": 537206.1079, + "iscrowd": 0, + "segmentation": [], + "text": "The mean TAS-20 scores were 58.62 for patients with ED, 52.4 for\nthem presenting PE and 45.46 for the ones with DE. Significant\ndifferences emerged between patients with ED and PE and\nnormative data, with a higher level of alexythimia in the clinical\nsample (p95% de reducdo). Teste do qui-quadrado foi usado para\ncomparar as respostas entre grupos diferentes de pacientes (hemangiomas tipicos vs outros e\n\nmenores de 1 ano vs maiores de 1 ano)." + }, + { + "id": 112259, + "strid": "aab2c3de-3e57-4d83-9a77-fc5c42b15f63", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 717.28, + 3950.609, + 491.9680000000001, + 70.76299999999992 + ], + "priority": 11, + "parents": [ + 112276 + ], + "children": [ + 112268 + ], + "area": 2833692.8235199996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 112268, + "strid": "a0c74d0d-e55d-4729-8f62-cabd7dbc38a5", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 204.163, + 4071.758, + 1514.077, + 542.4390000000003 + ], + "priority": 12, + "parents": [ + 112259 + ], + "children": [], + "area": 831302.328554, + "iscrowd": 0, + "segmentation": [], + "text": "Foram incluidos 69 pacientes, com um tempo médio de seguimento de 11 meses. A\nmédia de idade ao inicio do tratamento, para os pacientes em primeiro tratamento, foi\nde 31 meses, indo de 1 més a 19 anos. A mediana foi de 8 meses. A média de idade ao\ninicio do tratamento para os pacientes com lesdes residuais ou refratarias a terapia\nanterior foi de 3 anos, indo de 2 meses a 16 anos. Um total de 38 pacientes iniciaram o\ntratamento com menos de 1 ano, enquanto 31 iniciaram apdos completarem 1 ano. A\ndose usada foi de 0,5 a 4,0mg/kg/dia — iniciando com 0,5mg/kg/dia para todos na\nprimeira semana, com aumentos semanais até 2,0mg/kg/dia. Para pacientes sem\nresposta inicial nos primeiros 2-3 meses a dose foi aumentada até 4,0mg/kg/dia. O\nintervalo de administragao foi de 8 ou 12h. O tratamento foi contraindicado nas criangas\ncom asma." + }, + { + "id": 112256, + "strid": "837ad6f4-4d25-4a49-a515-c56b863be7ff", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2338.122, + 1248.286, + 493.3449999999998, + 73.63400000000001 + ], + "priority": 13, + "parents": [ + 112276 + ], + "children": [ + 112269, + 112271, + 112263 + ], + "area": 2918644.958892, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 112263, + "strid": "f17a5064-7e24-4852-a445-665bafa8a55a", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1814.515, + 1355.043, + 1535.2590000000002, + 598.654 + ], + "priority": 14, + "parents": [ + 112256 + ], + "children": [], + "area": 2458745.849145, + "iscrowd": 0, + "segmentation": [], + "text": "Cinquenta e oito pacientes foram tratados pela primeira vez; 11 tinham lesdes residuais\nou refratarias a terapia anterior. Resposta (parcial + completa) foi observada em 60\npacientes (87%). Quanto ao sexo: 46 eram do sexo feminino e 23 do sexo masculino (1:2).\nAs lesdes foram classificadas em hemangioma infantil tipico (53), cavernoma (03),\nsindrémicos (04), congénitos e outros (09). A resposta nos hemangiomas infantis tipicos\nfoi de 50 em 53 (94%) e nos demais foi de 10 em 16 (63%) (p=0,3 teste do qui-quadrado).\nA resposta nos pacientes que comecaram o tratamento com menos de 1 ano foi de 37 em\n38 (97%), enquanto que nos que iniciaram apos 1 ano foi de 23 em 31 (74%) (p=0,4 teste\ndo qui-quadrado) (figura 1). Efeitos colaterais foram incomuns e leves, nenhuma crian¢a\nda série descontinuou o tratamento por para-efeitos. Algumas tiveram a dose reduzida\npor efeitos colaterais. A figura 2 ilustra um caso de hemangioma infantil tipico com\nresposta completa ao tratamento." + }, + { + "id": 112269, + "strid": "9b7b84e5-e79a-4110-994d-5382460dc905", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1997.377, + 1981.407, + 1148.9739999999997, + 750.0710000000001 + ], + "priority": 15, + "parents": [ + 112256 + ], + "children": [ + 112270 + ], + "area": 3957616.7694389997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112270, + "strid": "7acc800b-6b82-47e4-bfc4-6c0d795773c1", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1822.206, + 2747.16, + 1509.2680000000003, + 87.40299999999979 + ], + "priority": 16, + "parents": [ + 112269 + ], + "children": [], + "area": 5005891.434959999, + "iscrowd": 0, + "segmentation": [], + "text": "Figura 1: resposta em pacientes com hemangiomas infantis tipicos, outros tipos de\nhemangiomas, pacientes menores de 1 ano e maiores de 1 ano (numero de pacientes)." + }, + { + "id": 112271, + "strid": "33642126-b7b4-418e-9b0b-2b1b1080893f", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1951.341, + 2873.447, + 1259.047, + 694.951 + ], + "priority": 17, + "parents": [ + 112256 + ], + "children": [ + 112272 + ], + "area": 5607074.942427, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112272, + "strid": "6a8c8459-61c8-454c-95c3-8c2f6039c124", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1809.642, + 3584.946, + 1538.262, + 135.57000000000016 + ], + "priority": 18, + "parents": [ + 112271 + ], + "children": [], + "area": 6487468.849332, + "iscrowd": 0, + "segmentation": [], + "text": "Figura 2: Hemangioma infantil no pé direito de lactente jovem, antes de iniciar o tratamento (A)\ne ao final de 1 ano de tratamento com propranolol (B). Ocorreu remissdo completa da lesdo, com\npermanéncia apenas de mancha hipercrémica no dorso do pé e mancha eritematosa na planta." + }, + { + "id": 112260, + "strid": "40a7ff0f-e4aa-4cff-ae7f-514ad9d6ad2d", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2322.909, + 3747.683, + 515.377, + 86.32799999999997 + ], + "priority": 19, + "parents": [ + 112276 + ], + "children": [ + 112273 + ], + "area": 8705526.569847, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 112273, + "strid": "ed87b3f5-b51f-40e0-8c75-73c0b3bd29ed", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1814.91, + 3874.721, + 1533.762, + 246.36500000000024 + ], + "priority": 20, + "parents": [ + 112260 + ], + "children": [], + "area": 7032269.89011, + "iscrowd": 0, + "segmentation": [], + "text": "Propranolol foi eficaz no tratamento de hemangiomas em criancas de todas\netarias, ndo apenas no estagio proliferativo das lesdes (até 1 ano de idade), c\nrazao de resposta. O desfecho variou com o tipo de lesdo e a idade (difere\nestatisticamente significante). Hemangiomas infantis tipicos em criangas c\nano mostraram resposta em quase todos os pacientes." + }, + { + "id": 112261, + "strid": "0f69b15f-bb24-4387-a806-34ba80581b4d", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2324.657, + 4142.116, + 514.2359999999999, + 84.71500000000015 + ], + "priority": 21, + "parents": [ + 112276 + ], + "children": [ + 112275, + 112274 + ], + "area": 9628998.954212, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 112275, + "strid": "385f95af-e409-4d55-941c-2739474a5ae5", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1810.754, + 4267.133, + 1531.364, + 318.5739999999996 + ], + "priority": 22, + "parents": [ + 112261 + ], + "children": [], + "area": 7726728.148281999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112274, + "strid": "69f872d5-8619-41e0-8f40-f42f86b8acf8", + "image_id": 204857, + "image_name": "13298.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2323.606, + 4611.581, + 989.2730000000001, + 53.274999999999636 + ], + "priority": 23, + "parents": [ + 112261 + ], + "children": [], + "area": 10715497.281086002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 141780, + "strid": "155e5af3-8118-4d7d-b2eb-7727311f0833", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 36.8, + 209.06, + 187.74, + 281.6 + ], + "priority": -1, + "parents": [], + "children": [ + 141761, + 141779, + 141758, + 141759, + 141760, + 141754, + 141755, + 141757, + 141756 + ], + "area": 7693.407999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141754, + "strid": "812eeb16-05c9-4572-aaf8-41dbd406c436", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 107.59, + 97.911, + 3090.707, + 96.934 + ], + "priority": 1, + "parents": [ + 141780 + ], + "children": [], + "area": 10534.244490000001, + "iscrowd": 0, + "segmentation": [], + "text": "FoiRegio: analysis and retrieval of regulatory elements linked to genes" + }, + { + "id": 141755, + "strid": "4dcdfe7a-366f-451e-b76e-612fa222f141", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 85.578, + 275.061, + 3131.037, + 320.579 + ], + "priority": 2, + "parents": [ + 141780 + ], + "children": [], + "area": 23539.170258, + "iscrowd": 0, + "segmentation": [], + "text": "Nina Baumgarten??? \", Dennis Hecker?**.\", Sivarajan Karunanithi +2°°\" Florian Schmidt?*?,\nMarkus List® and Marcel H. Schulz?2.34\n\n‘Institute for Cardiovascular Regeneration, Goethe University Hospital, 60590 Frankfurt am Main, Germany, 2Cardio-Pulmonary Institute, Goethe University Hospital, 60590 Frankfurt am Main, Germany, 3German Center for\nCardiovascular Research, Partner site Rhein-Main, 60590 Frankfurt am Main, Germany, 4Cluster of Excellence,Multimodal Computing and Interaction, Saarland Informatics Campus, 66123 Saarbriicken, Germany, °>Genome Institute of\nSingapore, 60 Biopolis Street, Genome, 02-01, 138672, Singapore and °Big Data in BioMedicine Group, Chair of Experimental Bioinformatics, TUM School of Life Sciences, Technical University of Munich, Maximus-von-Imhof-Forum 3,\n\n85354 Freising, German, * Joint first authors" + }, + { + "id": 141756, + "strid": "7acb3b57-cca3-4e7d-98c1-9146d790c975", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 75.984, + 627.748, + 429.863, + 76.83500000000004 + ], + "priority": 3, + "parents": [ + 141780 + ], + "children": [ + 141762 + ], + "area": 47698.804032, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation" + }, + { + "id": 141762, + "strid": "5e03a5f1-2741-4868-b708-0e95a0e2c493", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.162, + 725.53, + 1550.045, + 675.7749999999999 + ], + "priority": 4, + "parents": [ + 141756 + ], + "children": [], + "area": 69042.88586, + "iscrowd": 0, + "segmentation": [], + "text": "A current challenge in genomics Is to interpret non-coding regions and their role in\ntranscriptional regulation of possibly distant target genes. An additional challenge is\nto reliably identify the target genes of the regulatory regions, which is an essential\nstep in understanding their impact on gene expression.\n\nHere we present the EPIREGIO web server, a resource of regulatory elements (REMs).\nREMs are genomic regions that exhibit variations in their chromatin accessibility\nprofile associated with changes in expression of their target genes. EPIREGIO\nincorporates both epigenomic and gene expression data for various human primary\ncell types and tissues, providing an integrated view of REMs in the genome. Our web\nserver allows the analysis of genes and their associated REMs, including the REM’s\nactivity and its estimated cell type-specific contribution to its target gene’s\nexpression. EPIREGIO provides a programmatic access through a REST API and is\nfreely available at httos://epiregio.de/." + }, + { + "id": 141759, + "strid": "fc0829b7-fa60-41dc-9266-0fe953a2babd", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.542, + 1454.513, + 1257.112, + 79.88300000000004 + ], + "priority": 5, + "parents": [ + 141780 + ], + "children": [ + 141767, + 141765, + 141764 + ], + "area": 136058.055046, + "iscrowd": 0, + "segmentation": [], + "text": "STITCHIT is used to predict REMs" + }, + { + "id": 141764, + "strid": "495be399-25c7-439c-9dd7-b45e2b042e98", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 99.399, + 1556.606, + 1424.016, + 198.67100000000005 + ], + "priority": 6, + "parents": [ + 141759 + ], + "children": [], + "area": 154725.079794, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141765, + "strid": "8aa1e48d-daff-414d-8ee3-8e88247eda5f", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 93.817, + 1783.852, + 1459.982, + 554.8999999999999 + ], + "priority": 7, + "parents": [ + 141759 + ], + "children": [ + 141766 + ], + "area": 167355.643084, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141766, + "strid": "14cd2c05-cf3c-470d-8751-57228ae9a1e3", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 96.136, + 2373.781, + 1522.38, + 65.8119999999999 + ], + "priority": 8, + "parents": [ + 141765 + ], + "children": [], + "area": 228205.81021599998, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Idea of STITCHIT. For three samples DNase1-signal, the corresponding gene expression and the predicted\nREMs are shown." + }, + { + "id": 141767, + "strid": "0aca97d4-b063-4ae7-ba36-092e43cdd8b0", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 89.417, + 2492.036, + 1472.183, + 325.1880000000001 + ], + "priority": 9, + "parents": [ + 141759 + ], + "children": [], + "area": 222830.383012, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141761, + "strid": "1c76e8e3-d7fe-4d9b-b4a0-97970f23dd2e", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 98.061, + 2867.851, + 1148.583, + 85.19799999999987 + ], + "priority": 10, + "parents": [ + 141780 + ], + "children": [ + 141773, + 141772, + 141775, + 141776 + ], + "area": 281224.336911, + "iscrowd": 0, + "segmentation": [], + "text": "Details about EpiRegio’s result" + }, + { + "id": 141772, + "strid": "5dfcb2d6-b28f-4ee3-bd1e-be29b45fb27b", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.793, + 3042.876, + 327.17, + 40.24400000000014 + ], + "priority": 11, + "parents": [ + 141761 + ], + "children": [], + "area": 297571.97266800003, + "iscrowd": 0, + "segmentation": [], + "text": "Cluster of REMs:" + }, + { + "id": 141773, + "strid": "c5395d80-d821-4ffe-94d5-f0ad4b2a82f5", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 361.397, + 3047.957, + 1084.951, + 276.62699999999995 + ], + "priority": 12, + "parents": [ + 141761 + ], + "children": [ + 141774 + ], + "area": 1101522.515929, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141774, + "strid": "c78a2e45-4241-4760-8620-5a8c5c30e022", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 94.598, + 3357.47, + 1526.075, + 146.79899999999998 + ], + "priority": 13, + "parents": [ + 141773 + ], + "children": [], + "area": 317609.94706, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Visualization of a Cluster of REMs (CREM). REMs that overlap (by at least 1 bp) or are adjacent (0 bp in\nbetween two REMs) to each other form a CREM. As the REMs of a CREM are known, it is possible to derive the\nregulatory potential of each part of the CREM. In the Figure this is indicated by a REM and a gene having same\ncolour." + }, + { + "id": 141775, + "strid": "190db785-d8e8-4383-a29a-49de93f3d7dd", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.316, + 3548.519, + 1532.226, + 240.82200000000012 + ], + "priority": 14, + "parents": [ + 141761 + ], + "children": [], + "area": 341779.156004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141776, + "strid": "0baa1305-6a83-499c-ab7a-893e7ec406cb", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 93.953, + 3820.403, + 1539.859, + 285.5449999999996 + ], + "priority": 15, + "parents": [ + 141761 + ], + "children": [], + "area": 358938.323059, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141757, + "strid": "89bf9961-fa04-43d5-9cde-cd786c1aecbf", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1709.676, + 637.704, + 1321.8719999999998, + 200.187 + ], + "priority": 16, + "parents": [ + 141780 + ], + "children": [ + 141763 + ], + "area": 1090267.223904, + "iscrowd": 0, + "segmentation": [], + "text": "EpiRegio a resource to study REM-\ngene interactions" + }, + { + "id": 141763, + "strid": "93689910-eb6d-483b-8a61-6468b6eecd32", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1715.194, + 881.207, + 1415.2670000000003, + 401.26200000000006 + ], + "priority": 17, + "parents": [ + 141757 + ], + "children": [], + "area": 1511440.9591579998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141758, + "strid": "333c2e9f-fdbf-4695-9156-90aa487d8f82", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1705.924, + 1441.899, + 1292.8490000000002, + 92.4960000000001 + ], + "priority": 18, + "parents": [ + 141780 + ], + "children": [ + 141771, + 141769, + 141768 + ], + "area": 2459770.1096759997, + "iscrowd": 0, + "segmentation": [], + "text": "EpiRegio allows 3 types of queries" + }, + { + "id": 141768, + "strid": "57e6ca8e-eed8-4651-8705-744323567a89", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1691.344, + 1625.924, + 602.433, + 745.0370000000003 + ], + "priority": 19, + "parents": [ + 141758 + ], + "children": [], + "area": 2749996.801856, + "iscrowd": 0, + "segmentation": [], + "text": "Gene query:\n\nWhich REMs are associated with\na gene of interest?\n\nRegion query:\n\nWhich REMs lie within a given\ngenomic region?\n\nREM query:\n\nTo which genes is a given REM\nlinked to?" + }, + { + "id": 141769, + "strid": "0ef1a6f2-1169-4599-8fb2-a7397177289b", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2340.093, + 1537.713, + 894.7780000000002, + 844.845 + ], + "priority": 20, + "parents": [ + 141758 + ], + "children": [ + 141770 + ], + "area": 3598391.4273089995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141770, + "strid": "1ca9edfd-894b-4a72-b6f1-3e7a47e624c1", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2337.545, + 2387.327, + 886.8469999999998, + 110.7489999999998 + ], + "priority": 21, + "parents": [ + 141769 + ], + "children": [], + "area": 5580484.292215001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Overview of the three possible EpiRegio queries. Users can\neither search for REMs associated to their genes of interest, look\nfor REMs in genomic regions or query REMs by their ID directly." + }, + { + "id": 141771, + "strid": "d8b2595b-23df-40e0-8370-2453faef64b6", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1695.74, + 2541.635, + 1532.2920000000001, + 279.8409999999999 + ], + "priority": 22, + "parents": [ + 141758 + ], + "children": [], + "area": 4309952.1349, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141760, + "strid": "65d8ddbb-585c-4f29-a392-1c03f654e5f1", + "image_id": 206011, + "image_name": "16972.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1702.426, + 2863.935, + 813.71, + 85.13099999999986 + ], + "priority": 23, + "parents": [ + 141780 + ], + "children": [ + 141778, + 141777 + ], + "area": 4875637.4063099995, + "iscrowd": 0, + "segmentation": [], + "text": "Application scenarios" + }, + { + "id": 141777, + "strid": 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Shaiva for help with data collection!\n\nHikosaka, O., Miyauchi, S., & Shimojo, S. (1993). Focal visual attention produces illusory temporal order and motion\nsensation. Vision Research, 33(9), 1219-1240.\n\nNakayama, K., & Mackeben, M. (1989). Sustained and transient components of focal visual attention. Vision Research,\n29(11), 1631-1647.\n\nTse, P. U., & Logothetis, N. K. (2002). The duration of 3-D form analysis in transformational apparent motion. Perception &\nPsychophysics, 64(2), 244-265.\n\nTse, P. U. (2006). Neural correlates of transformational apparent motion. Neurolmage, 31, 766-773." + }, + { + "id": 28462, + "strid": "22d3ea49-dae2-4d95-899f-dc7b2cc5f334", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 9.53, + 31.35, + 99.4, + 164.23000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 28438, + 28431, + 28461, + 28433, + 28442, + 28456, + 28432, + 28441, + 28434, + 28460 + ], + "area": 298.7655, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28431, + "strid": "8682153a-22dc-4776-a8cf-66a244cfa5e2", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 90.1, + 45.443, + 3023.159, + 120.337 + ], + "priority": 1, + "parents": [ + 28462 + ], + "children": [], + "area": 4094.4142999999995, + "iscrowd": 0, + "segmentation": [], + "text": "Efficient natural product biosynthesis pathway assembly using yeast" + }, + { + "id": 28432, + "strid": "82cd5ef0-6a25-4361-9b95-9f8f89495350", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 88.229, + 188.083, + 2572.802, + 198.38999999999996 + ], + "priority": 2, + "parents": [ + 28462 + ], + "children": [], + "area": 16594.375007, + "iscrowd": 0, + "segmentation": [], + "text": "Andy (Yao Zong) Ng’, Alessandra Eustaquio’, Jeffrey Janso*, Dean Deng’, Maddy. Jones’, Estefania Chavez’,\nKevin Vo’, Jing Kang Chen’, Yu Wei Chang’, Matthew Wilder’, Frank Koehn’, and Virginia Cornish’\n* Columbia University in the City of New York, NY ? Pfizer Inc, Groton, CT 3 Hunter College High School, NY" + }, + { + "id": 28433, + "strid": "afe62723-5c58-4570-a36b-f0c2032e9c3e", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 44.076, + 453.271, + 300.106, + 46.170000000000016 + ], + "priority": 3, + "parents": [ + 28462 + ], + "children": [ + 28457 + ], + "area": 19978.372596, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 28457, + "strid": "22e68899-fb9b-47ed-a6cf-6fd72cb6a59b", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 41.053, + 515.644, + 1047.228, + 547.796 + ], + "priority": 4, + "parents": [ + 28433 + ], + "children": [], + "area": 21168.733131999998, + "iscrowd": 0, + "segmentation": [], + "text": "Microbes such as bacteria and yeast are being engineered for the production of\nenergy, food and chemicals\". During this process, biosynthetic pathways and\nother genes need to be transferred into the producer strain. This is often time-\nconsuming and inefficient. Thus, we are developing a simple and general\nmethod to do this in two steps: First, the genes/pathways are assembled in the\nyeast chromosome using Reiterative Recombination (ReRec), a technique\ndeveloped in the Cornish lab?. Next, the genes are transferred onto a shuttle\nvector, which can be extracted from yeast and introduced into the producer\nstrain. To demonstrate our method, we-are collaborating with Pfizer to assemble\na ~100 kilobases (kb) long polyketide biosynthetic pathway in the yeast\n\nchromosome. This will be shuttled into bacteria for production of the compound." + }, + { + "id": 28456, + "strid": "2b2d6111-9cc0-4d51-afb3-762948bc912b", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 42.845, + 1134.831, + 540.438, + 50.83999999999992 + ], + "priority": 5, + "parents": [ + 28462 + ], + "children": [ + 28455, + 28454, + 28453 + ], + "area": 48621.834194999996, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 28455, + "strid": "bfed45c9-8d3d-49d9-a14f-de621b012044", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 30.599, + 1198.101, + 1070.179, + 1161.909 + ], + "priority": 6, + "parents": [ + 28456 + ], + "children": [], + "area": 36660.692499000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28454, + "strid": "1ee4fe62-376b-434f-8fdb-430b0d1e2ea7", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 624.931, + 1203.834, + 439.538, + 439.538 + ], + "priority": 7, + "parents": [ + 28456 + ], + "children": [], + "area": 752313.1854540001, + "iscrowd": 0, + "segmentation": [], + "text": "1) ReRec to assemble genes/\npathways in the yeast\nchromosome, which is more\nstable than assembly on plasmid\nThe marker recycling scheme\nensures that the process can be\nrepeated.\n\nEach.round takes approximately\n\none week?." + }, + { + "id": 28453, + "strid": "82aa0eca-35c4-4559-b80a-1a6c7ead9c7b", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 626.842, + 1890.278, + 450.62199999999996, + 444.8889999999999 + ], + "priority": 8, + "parents": [ + 28456 + ], + "children": [], + "area": 1184905.6420759999, + "iscrowd": 0, + "segmentation": [], + "text": "2) Site-specific recombination to\nrecover the pathway from the\nyeast chromosome onto a shuttle\nvector’.\n\nMiniprep to extract the shuttle\nvector containing the\ngenes/pathway.\n\nTransformation of the vector\n\ninto the producer organism." + }, + { + "id": 28434, + "strid": "aaa6e3d3-62f5-490d-8fdd-3c367c5e1243", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1165.457, + 453.271, + 189.14200000000005, + 42.78800000000001 + ], + "priority": 9, + "parents": [ + 28462 + ], + "children": [ + 28436, + 28444, + 28452, + 28449, + 28445, + 28446, + 28448, + 28435, + 28437, + 28451, + 28447, + 28450 + ], + "area": 528267.8598470001, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 28435, + "strid": "93e002b6-0993-477b-a4ef-a6fdf8c3a838", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1228.519, + 497.665, + 880.7850000000001, + 104.77100000000002 + ], + "priority": 10, + "parents": [ + 28434 + ], + "children": [], + "area": 611390.908135, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28436, + "strid": "9ebb63c8-4e27-4efe-9cc3-208c4005df21", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1156.797, + 606.751, + 568.212, + 341.6700000000001 + ], + "priority": 11, + "parents": [ + 28434 + ], + "children": [], + "area": 701887.736547, + "iscrowd": 0, + "segmentation": [], + "text": "The ~100 kb pathway contains a non-\nribosomal peptide synthetase (NRPS), a\nType I modular polyketidesynthase\n\n(PKS 1-3) and accessory genes (above).\nIt is being assembled separately in 4 yeast\nstrains, thus allowing for parallel\n\nassembly of the four fragments (right)." + }, + { + "id": 28447, + "strid": "a872e090-ab65-4534-a294-e876be5c114f", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1161.167, + 1005.087, + 540.058, + 147.914 + ], + "priority": 12, + "parents": [ + 28434 + ], + "children": [], + "area": 1167073.856529, + "iscrowd": 0, + "segmentation": [], + "text": "During each round of ReRec, either one\nor two ~2 kb pieces can be assembled\n\n(see example below)." + }, + { + "id": 28437, + "strid": "baac7979-ccbe-4ddb-a6d3-e6b0d88e40dd", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1727.112, + 601.895, + 465.2399999999998, + 562.988 + ], + "priority": 13, + "parents": [ + 28434 + ], + "children": [], + "area": 1039540.07724, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28445, + "strid": "cb7ba2bc-d886-4357-af67-f82b8574978f", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1157.727, + 1175.933, + 819.8340000000001, + 94.02299999999991 + ], + "priority": 14, + "parents": [ + 28434 + ], + "children": [], + "area": 1361409.3842910002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28446, + "strid": "fd588d79-9e1a-4dbb-bfa8-a41fccfec413", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1165.754, + 1273.396, + 458.64800000000014, + 153.64699999999993 + ], + "priority": 15, + "parents": [ + 28434 + ], + "children": [], + "area": 1484466.4805839998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28444, + "strid": "4897b01c-df0e-440b-98b5-6a43db932685", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1650.774, + 1272.249, + 559.5509999999999, + 191.4860000000001 + ], + "priority": 16, + "parents": [ + 28434 + ], + "children": [], + "area": 2100195.570726, + "iscrowd": 0, + "segmentation": [], + "text": "After each round of ReRec, check PCRs\nare performed using primers that\namplify regions across assembled pieces\n\n(left). The products are then sequenced." + }, + { + "id": 28448, + "strid": "d5c4aee5-ac50-4729-8fb9-86d6857ba85d", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1158.874, + 1513.04, + 1043.425, + 299.26800000000003 + ], + "priority": 17, + "parents": [ + 28434 + ], + "children": [], + "area": 1753422.71696, + "iscrowd": 0, + "segmentation": [], + "text": "Despite the high sequence similarity between PKS modules, more than | in 6\nyeast colonies will assemble the DNA correctly if one ~2 kb piece is used. If\ntwo ~2 kb pieces are assembled in a round, the frequency decreases to about\n1 in 12 yeast colonies: (For non-repetitive sequences, typically all the yeast\ncolonies will assemble the DNA correctly’).\n\nIn addition, the frequency of point mutations is low (~ 1 in 10 kb)." + }, + { + "id": 28449, + "strid": "7b2d9c70-ac29-4201-b662-7f6f88bcac12", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1160.021, + 1867.345, + 971.1879999999999, + 83.70299999999997 + ], + "priority": 18, + "parents": [ + 28434 + ], + "children": [], + "area": 2166159.414245, + "iscrowd": 0, + "segmentation": [], + "text": "The current progress of assembly for the other three fragments is shown\n\nbelow:" + }, + { + "id": 28450, + "strid": "fce102ea-c6a7-40f8-994a-d49073ade6a8", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1162.314, + 1977.421, + 820.981, + 84.85000000000014 + ], + "priority": 19, + "parents": [ + 28434 + ], + "children": [], + "area": 2298384.1121940003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28451, + "strid": "9e7bd2d5-657d-41e1-8b0f-8f8895594181", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1163.461, + 2110.429, + 992.9739999999999, + 100.90299999999979 + ], + "priority": 20, + "parents": [ + 28434 + ], + "children": [], + "area": 2455401.8347690003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28452, + "strid": "fbb8f6db-d740-4ec6-9b70-3f79aadc4cfd", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1157.727, + 2251.463, + 724.664, + 96.3159999999998 + ], + "priority": 21, + "parents": [ + 28434 + ], + "children": [], + "area": 2606579.5046010003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28438, + "strid": "0a1523e9-399a-4868-8be2-b2ace9cb59ab", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2281.875, + 454.433, + 279.317, + 50.084 + ], + "priority": 22, + "parents": [ + 28462 + ], + "children": [ + 28439 + ], + "area": 1036959.301875, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 28439, + "strid": "cfe24e60-bc39-4d1e-860b-561c03ec1a85", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2279.948, + 518.002, + 831.2080000000001, + 395.8589999999999 + ], + "priority": 23, + "parents": [ + 28438 + ], + "children": [], + "area": 1181017.6238959997, + "iscrowd": 0, + "segmentation": [], + "text": "ReRec is an efficient tool for the de novo assembly of multi-\ngene biosynthetic pathways in the yeast chromosome.\nAlthough ReRee depends on homologous recombination, it\ncan be used to assemble repetitive DNA sequences in the\nyeast chromosome, albeit with lower efficiency.\n\nOverall, our method will enable yeast to serve as a factory for\nDNA assembly, which can be shuttled into other organisms\n\nfor expression." + }, + { + "id": 28441, + "strid": "d7fb14d7-cd80-42ef-a9cc-0d0d17e1acfb", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2281.875, + 970.688, + 302.433, + 51.048 + ], + "priority": 24, + "parents": [ + 28462 + ], + "children": [ + 28440 + ], + "area": 2214988.68, + "iscrowd": 0, + "segmentation": [], + "text": "Future Work" + }, + { + "id": 28440, + "strid": "bbb05f0d-8cc2-4063-8109-caac6a54542c", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2281.875, + 1043.888, + 826.393, + 184.9269999999999 + ], + "priority": 25, + "parents": [ + 28441 + ], + "children": [], + "area": 2382021.9299999997, + "iscrowd": 0, + "segmentation": [], + "text": "ReRec has previously been shown to be able to assemble a\nmock library of at least 10* variants of a three-gene pathway’.\nWe plan to challenge ReRec to build DNA libraries for the\n\nbiosynthesis of novel polyketide. variants>." + }, + { + "id": 28442, + "strid": "5b9973a7-389a-4eca-ab22-c84f0f313006", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2282.838, + 1296.236, + 369.8539999999998, + 52.97399999999993 + ], + "priority": 26, + "parents": [ + 28462 + ], + "children": [ + 28443 + ], + "area": 2959096.7977680005, + "iscrowd": 0, + "segmentation": [], + "text": "Literature cited" + }, + { + "id": 28443, + "strid": "6e7f5146-9a25-43cc-8dbf-72935b73d86f", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2283.48, + 1363.979, + 862.0300000000002, + 345.13300000000004 + ], + "priority": 27, + "parents": [ + 28442 + ], + "children": [], + "area": 3114618.7669200003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28461, + "strid": "ec272e08-7a59-4d47-a8c1-aeae1f009f9e", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2278.463, + 1776.192, + 484.12199999999984, + 59.47399999999993 + ], + "priority": 28, + "parents": [ + 28462 + ], + "children": [ + 28458 + ], + "area": 4046987.752896, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 28458, + "strid": "ecae89a6-1eaa-4e17-8d6f-9851f5fb022c", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2282.031, + 1851.13, + 840.9679999999998, + 196.26600000000008 + ], + "priority": 29, + "parents": [ + 28461 + ], + "children": [], + "area": 4224336.045030001, + "iscrowd": 0, + "segmentation": [], + "text": "This work was made possible by a NIH grant: RO! GM 96064.\nAndy Ng is being supported by a PhD fellowship from the\nAgency for Science, Technology and Research (A*STAR),\n\nSingapore." + }, + { + "id": 28460, + "strid": "9dfe01f2-977d-4f0d-9418-fc17a85a3cb5", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2284.41, + 2104.491, + 472.22699999999986, + 55.90599999999995 + ], + "priority": 30, + "parents": [ + 28462 + ], + "children": [ + 28459 + ], + "area": 4807520.285309999, + "iscrowd": 0, + "segmentation": [], + "text": "Further Information" + }, + { + "id": 28459, + "strid": "6b687890-6914-4a12-ad00-de9019e1e03b", + "image_id": 201622, + "image_name": "117411.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2279.652, + 2168.723, + 549.5430000000001, + 193.88700000000017 + ], + "priority": 31, + "parents": [ + 28460 + ], + "children": [], + "area": 4943933.724396, + "iscrowd": 0, + "segmentation": [], + "text": "Please contact Andy Ng at:\nyn2231@columbia.edu\n\n550W 120th St, NWC Building, #12-06,\nNew York, NY 10027" + }, + { + "id": 8792, + "strid": "7431c9a7-c4ec-40dc-b66e-dd9b0cfbd2ee", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 140.88, + 368.93, + 299.5, + 248.16000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 8768, + 8773, + 8771, + 8769, + 8772, + 8770 + ], + "area": 51974.8584, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8768, + "strid": "37aa1443-432a-40e7-a72f-8ba7cb72e1c2", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 475.042, + 464.089, + 2313.504, + 259.191 + ], + "priority": 1, + "parents": [ + 8792 + ], + "children": [], + "area": 220461.76673799998, + "iscrowd": 0, + "segmentation": [], + "text": "Independent Component Analysis Helps\nClassifying Melanoma Patients" + }, + { + "id": 8769, + "strid": "8a0f3bca-4d0d-4873-a5ab-a9b13441df88", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 319.182, + 760.584, + 2477.9890000000005, + 214.79200000000003 + ], + "priority": 2, + "parents": [ + 8792 + ], + "children": [], + "area": 242764.722288, + "iscrowd": 0, + "segmentation": [], + "text": "Petr V. Nazarov!, Anke Wienecke-Baldacchino2, Gunnar Dittmar!, Stephanie Kreis?, Francisco Azuaje!\n\n1 Proteome and Genome Research Unit, Department of Oncology, Luxembourg Institute of Health, Luxembourg, petr.nazarov@lih.lu\n\n2 Signal Transduction Group, Life Science Research Unit, Faculty of Science, Technology and Communication (FSTC), University of Luxembourg" + }, + { + "id": 8770, + "strid": "38d7db34-ad41-4a7b-8321-3ddbf8b7ddd8", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 131.379, + 1132.518, + 328.13, + 56.9670000000001 + ], + "priority": 3, + "parents": [ + 8792 + ], + "children": [ + 8783 + ], + "area": 148789.082322, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 8783, + "strid": "b2be17c9-05b4-47fb-8b3d-9f187fdf863a", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 92.029, + 1219.414, + 1509.735, + 409.5719999999999 + ], + "priority": 4, + "parents": [ + 8770 + ], + "children": [], + "area": 112221.45100599999, + "iscrowd": 0, + "segmentation": [], + "text": "Cancer samples investigated by high-throughput transcriptomics are often\nhighly heterogeneous. This, in conjunction with sample composition variability,\nlimits diagnostics of patients based on bulk sample transcriptome. Here we\ninvestigated the independent component analysis (ICA) as a feature\nextraction method for sample classification and patient diagnostics (Fig.1).\nIndependent component analysis allows data-driven separation of mixed\nsignals into statistically independent sources that can represent various cell\nsubtypes or biological processes [1]." + }, + { + "id": 8771, + "strid": "ed5f85ce-4b9c-4f75-ba27-3b4fd9a55fc6", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 116.243, + 1675.419, + 510.04400000000004, + 46.13499999999999 + ], + "priority": 5, + "parents": [ + 8792 + ], + "children": [ + 8785, + 8787 + ], + "area": 194755.730817, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 8787, + "strid": "d25b2086-6520-4d7c-a481-86363eddb122", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 86.441, + 1770.441, + 1542.23, + 755.095 + ], + "priority": 6, + "parents": [ + 8771 + ], + "children": [ + 8784 + ], + "area": 153038.690481, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8784, + "strid": "74bca1e2-af42-4ab5-b4fe-637f6e708048", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 118.156, + 2563.356, + 1471.962, + 119.72200000000021 + ], + "priority": 7, + "parents": [ + 8787 + ], + "children": [], + "area": 302875.89153600007, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. General scheme of ICA-based analysis (A) of the gene expression data: ICA followed by\na classifier are trained on the large data set and then applied to the new data set. The detailed\nsteps of ICA analysis are shown in (B)." + }, + { + "id": 8785, + "strid": "908212db-a069-435b-8594-f41184099f2d", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.594, + 2693.605, + 1512.276, + 644.2019999999998 + ], + "priority": 8, + "parents": [ + 8771 + ], + "children": [], + "area": 246718.05636999998, + "iscrowd": 0, + "segmentation": [], + "text": "Processed and normalized RNA-seq data from melanoma patients were\ndownloaded from TCGA Research Network [2]. Genes, lowly expressed in all\nsamples were removed from the consideration.\n\nICA from /fastICA package of R was used to estimate independent components\n(signals, $S) and their weights (mixture matrices, M). Genes with strong\ninvolvement in the components were used to identify their biological basis.\nFunctional annotation was performed by topGO package independently for\npositive and negative genes of each component. The stability of ICA\ndeconvolution was improved by performing multiple runs and building a\nconsensus signal and weight matrices. To classify the samples based on the\ncomponent weights we used support vector machine (SVM) approach\nimplemented in e1071 package." + }, + { + "id": 8772, + "strid": "a0a37043-12f9-48c4-b466-e8b997d59294", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 117.631, + 3387.32, + 567.15, + 45.89399999999978 + ], + "priority": 9, + "parents": [ + 8792 + ], + "children": [ + 8791, + 8788, + 8778, + 8780, + 8774, + 8790, + 8789, + 8775, + 8781 + ], + "area": 398453.83892, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 8774, + "strid": "1042ca89-38b2-4f6e-8ed3-b1c1e3b3562f", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.004, + 3477.906, + 675.46, + 891.6570000000002 + ], + "priority": 10, + "parents": [ + 8772 + ], + "children": [], + "area": 330414.981624, + "iscrowd": 0, + "segmentation": [], + "text": "Several gene expression metrics\nwere investigated and FPKM,\nwhich showed the most promising\nresults, was chosen for the\nsubsequent analysis.\n\nWe optimized the number of\nindependent components by\nminimizing the correlation\nbetween component weights. As\nan additional condition we set a\ngood separation of male and\nfemale patients with at least one\ncomponent. Thus, 39 components\nwere chosen for further analysis\n(Fig. 2). We performed 200 runs\nof ICA to identify the consensus\ndeconvolution." + }, + { + "id": 8790, + "strid": "e63da7ae-fa0b-4eaa-8295-6d9ead5f66dc", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 851.951, + 3469.67, + 762.883, + 678.4660000000003 + ], + "priority": 11, + "parents": [ + 8772 + ], + "children": [ + 8786 + ], + "area": 2955988.8261700002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8786, + "strid": "672a880a-9da1-4ada-b9c9-d9abcdda5c0d", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 841.72, + 4161.889, + 763.202, + 191.5039999999999 + ], + "priority": 12, + "parents": [ + 8790 + ], + "children": [], + "area": 3503145.2090800004, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 2. Average correlation between detected\nIC mixing coefficients and _ original mixing\nproportions (mean for 20 tries). Three metrics of\nRNA-seq gene expression were considered: FPKM,\ncounts and RSEM." + }, + { + "id": 8775, + "strid": "7219c309-c4c0-4806-9508-09efd4166dc8", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1702.251, + 1117.29, + 1505.1589999999999, + 147.72199999999998 + ], + "priority": 13, + "parents": [ + 8772 + ], + "children": [], + "area": 1901908.0197899998, + "iscrowd": 0, + "segmentation": [], + "text": "Biological knowledge. ICA method resulted in both gene signatures and\nclinical predictors (weights). Using them and clinical annotation, each\ncomponent was associated to a biological, technical or clinical factor." + }, + { + "id": 8781, + "strid": "8fc6372d-36d4-4777-aed9-0b9e9fea7bb8", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1698.151, + 1298.655, + 1003.4729999999997, + 607.857 + ], + "priority": 14, + "parents": [ + 8772 + ], + "children": [], + "area": 2205312.286905, + "iscrowd": 0, + "segmentation": [], + "text": "The majority of the components (32/39) were linked\nto biological processes, with the largest groups\nbeing: cell cycle & DNA replication, epidermis\ndevelopment & keratinization, immune response &\nleukocyte activity and developmental processes\n(including neuron development). One component\nwas specifically linked to melanin metabolic\nprocess. In addition, three components (#11, 13,\n26) were linked to patient survival (e.g. in Fig. 3).\nThe same component #13 was negatively linked to\nthe immune response. Thus, high immune response\ncould be linked to better survival." + }, + { + "id": 8789, + "strid": "53efe023-61cc-492a-b5e4-a7e7eba906f5", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2789.21, + 1275.752, + 408.77800000000025, + 515.982 + ], + "priority": 15, + "parents": [ + 8772 + ], + "children": [ + 8782 + ], + "area": 3558340.23592, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8782, + "strid": "06246af5-bc44-48a0-bee1-68042125d065", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2754.85, + 1794.767, + 463.16499999999996, + 156.06600000000003 + ], + "priority": 16, + "parents": [ + 8789 + ], + "children": [], + "area": 4944313.86995, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 3. Kaplan-Meier plot\nshowing the survival linked to\nthe weight of independent\ncomponent #13" + }, + { + "id": 8780, + "strid": "1a71f3b6-d010-407a-8362-bc1838566a06", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.289, + 1969.636, + 1509.4199999999998, + 245.21900000000005 + ], + "priority": 17, + "parents": [ + 8772 + ], + "children": [], + "area": 3346980.788804, + "iscrowd": 0, + "segmentation": [], + "text": "Diagnostics. The data processing scheme, used for the validation of\ndiagnostics ability, is showed in Fig. 4A. We addressed accuracy of the\nmethod (Fig. 4B) using leave-one-out cross-validation (LOOCV) and applied it\nthen to classify a new patient (coded as P6) with an aggressive form of\nmelanoma." + }, + { + "id": 8788, + "strid": "1c3ba159-1adf-42e5-8fd6-8709c4b30f86", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1703.414, + 2221.991, + 1515.0690000000002, + 508.9499999999998 + ], + "priority": 18, + "parents": [ + 8772 + ], + "children": [ + 8779 + ], + "area": 3784970.577274, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8779, + "strid": "ae176d5a-2102-44ec-99c8-c13319bb0d2b", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1691.01, + 2752.156, + 1470.419, + 80.49699999999984 + ], + "priority": 19, + "parents": [ + 8788 + ], + "children": [], + "area": 4653923.31756, + "iscrowd": 0, + "segmentation": [], + "text": "FiGuRE 4. Training and validation scheme used for patient diagnostics (A) and confusion matrixes\nobserved on TCGA data (B). Note that ICA is re-run for each new sample to be classified." + }, + { + "id": 8778, + "strid": "018d1d6b-2234-4607-ba46-29865c9e1a5b", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1691.795, + 2864.06, + 1505.312, + 459.46000000000004 + ], + "priority": 20, + "parents": [ + 8772 + ], + "children": [], + "area": 4845402.3877, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5 demonstrate the position of the patient P6 in the space of independent\ncomponents. Based on the classification, we concluded that this male patient\nprovided primary melanoma sample of keratin subtype (though, the later\nconclusion cannot be validated). Interestingly, the SVM classified this tumour\nas “metastatic”, despite distribution of the values for IC#2 in Fig. 5B. This,\nperhaps is linked to the fact, that the tumour of P6 was very aggressive and\nalready metastasise at the time of treatment. From the high weight of\ncomponent #13 we can conclude that this patient had a poor prognosis, which\nwas true, as the patient died soon after diagnosis." + }, + { + "id": 8791, + "strid": "e28976b7-e7bc-4557-ba46-c9fdc13b7c9f", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1671.761, + 3349.395, + 1478.9389999999999, + 396.1109999999999 + ], + "priority": 21, + "parents": [ + 8772 + ], + "children": [ + 8777 + ], + "area": 5599387.934595, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8777, + "strid": "eb0ae871-182f-4df9-8f87-babda7de7d3f", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1691.963, + 3790.583, + 1514.4199999999998, + 75.96099999999979 + ], + "priority": 22, + "parents": [ + 8791 + ], + "children": [], + "area": 6413526.184429, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 5. The results of classification for the new patient: (A) the new patient (P6) in the space of\nindependent components and his weight coefficients compared to the values from the training cohort." + }, + { + "id": 8773, + "strid": "279ca856-72a0-4b82-a1c4-90fdb9435b86", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1723.05, + 3904.189, + 334.95000000000005, + 45.79100000000017 + ], + "priority": 23, + "parents": [ + 8792 + ], + "children": [ + 8776 + ], + "area": 6727112.85645, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 8776, + "strid": "dca78171-1396-428e-a0ac-7f1e5334c12e", + "image_id": 200850, + "image_name": "11139.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1703.541, + 3996.664, + 1507.943, + 317.18899999999985 + ], + "priority": 24, + "parents": [ + 8773 + ], + "children": [], + "area": 6808480.9872240005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132953, + "strid": "b14c762f-659c-46f3-ae61-13ddc792272a", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 40.47, + 23.07, + 191.57, + 178.8 + ], + "priority": -1, + "parents": [], + "children": [ + 132921, + 132922, + 132927, + 132933, + 132929, + 132930, + 132923, + 132926, + 132928, + 132932, + 132931 + ], + "area": 933.6428999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132921, + "strid": "3827cf3b-335f-4cca-950f-e5e71a3e6633", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 428.149, + 144.499, + 2559.12, + 165.86799999999997 + ], + "priority": 1, + "parents": [ + 132953 + ], + "children": [], + "area": 61867.102351, + "iscrowd": 0, + "segmentation": [], + "text": ") FIQUSA an R package and web-server for analysis of data from\nhydrogen-deuterium exchange mass spectrometry experiments" + }, + { + "id": 132922, + "strid": "a5c6196b-6bbd-4465-bc08-73c727c4dfc7", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 70.05, + 310.473, + 3173.487, + 274.22999999999996 + ], + "priority": 2, + "parents": [ + 132953 + ], + "children": [], + "area": 21748.63365, + "iscrowd": 0, + "segmentation": [], + "text": "Weronika Puchata +*, Michat Burdukiewicz*, Michat Kistowski!, Katarzyna A. Dabrowska?, Aleksandra E. Badaczewska-Dawid °, Mis LaB\n\na Institute of Biochemistry Dominik Cysewski!, Michat Dadlez? IBB PAN\nand Biophysics * m ;\nii Polish Academy of Sciences puchala.weronika@gmail.com\n\n‘Institute of Biochemistry and Biophysics Polish Academy of Sciences, Poland, 2Faculty of Mathematics and Information Science, Warsaw University of Technology, Poland, *Faculty of Chemistry,\nBiological and Chemical Research Center, University of Warsaw, Poland." + }, + { + "id": 132923, + "strid": "f9c4afa9-bb2e-4f90-8829-4fcae9da02f5", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.38, + 628.963, + 165.9, + 31.485000000000014 + ], + "priority": 3, + "parents": [ + 132953 + ], + "children": [ + 132924 + ], + "area": 50556.045939999996, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 132924, + "strid": "0b8d6cc7-7419-4a87-9760-f802826d6212", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 71.762, + 707.444, + 1607.326, + 332.288 + ], + "priority": 4, + "parents": [ + 132923 + ], + "children": [], + "area": 50767.596328, + "iscrowd": 0, + "segmentation": [], + "text": "Hydrogen-deuterium mass spectrometry (HDX-MS) is a staple tool for monitoring dynamics and interactions of proteins.\nDue to the sheer size of the HDX-MS results, the data analysis require a dedicated software suite. However, the\nmajority of existing tools provides only point-and-click interfaces to black-box models or does not offer a complete\nanalytic workflow. We propose HaDeX, a novel tool for processing, analysis and visualisation of HDX-MS experiments.\nHaDeX covers the whole analytic process, including quality control, ISO-based uncertainty and publication-quality\nfigures. The reproducibility of the whole procedure is ensured with advanced reporting functions. It is important to\nus that our analytic methodology is transparent and understandable for the users so it is consulted with international\nexperts and discussed in-depth in the package vignette." + }, + { + "id": 132926, + "strid": "443d594e-75a8-47ad-8ff9-1db0fb197320", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 78.601, + 1079.369, + 249.223, + 38.261999999999944 + ], + "priority": 5, + "parents": [ + 132953 + ], + "children": [ + 132925, + 132947 + ], + "area": 84839.482769, + "iscrowd": 0, + "segmentation": [], + "text": "Main functionality" + }, + { + "id": 132925, + "strid": "d06d7f1c-2ab9-4e94-8c6c-3444c972522a", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 71.11, + 1157.614, + 1607.249, + 168.7059999999999 + ], + "priority": 6, + "parents": [ + 132926 + ], + "children": [], + "area": 82317.93154, + "iscrowd": 0, + "segmentation": [], + "text": "The main audience for HaDeX is HDX-MS practitioners whose area of expertise doesn't include programming and\nadvanced data analysis skills. To help them with their work, HaDeX is also available as a Shiny web server with a wide\nrange of clickable customizable options. To ensure publication-quality figures all the plots are fully editable by the user\nand processed data is easily downloadable in every step." + }, + { + "id": 132947, + "strid": "8a28b77a-e68e-4e31-a019-b5c0c10cf621", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 90.439, + 1351.441, + 1584.967, + 1418.9170000000001 + ], + "priority": 7, + "parents": [ + 132926 + ], + "children": [ + 132943 + ], + "area": 122222.97259899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132943, + "strid": "28ec2038-3c90-4e07-bfa1-57f918c4885c", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 672.911, + 2788.372, + 403.2579999999999, + 32.891000000000076 + ], + "priority": 8, + "parents": [ + 132947 + ], + "children": [], + "area": 1876326.1908919998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Overview of HaDeX app" + }, + { + "id": 132927, + "strid": "f0f2b327-4757-4e78-9bd2-084a8b88f212", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.462, + 2886.047, + 385.913, + 38.01000000000022 + ], + "priority": 9, + "parents": [ + 132953 + ], + "children": [ + 132948, + 132949, + 132950 + ], + "area": 229331.06671400002, + "iscrowd": 0, + "segmentation": [], + "text": "Calculations and uncertainty" + }, + { + "id": 132948, + "strid": "f033ce4b-6376-45e9-97ea-9cc55849be6f", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 69.943, + 2963.691, + 1613.995, + 354.9749999999999 + ], + "priority": 10, + "parents": [ + 132927 + ], + "children": [], + "area": 207289.43961299997, + "iscrowd": 0, + "segmentation": [], + "text": "Comparison Plot\n\nAn important aspect of analysing data is a comparison of peptide deuteration in different states. A relative deuteration\nlevel used by HaDexX is defined by the equation 1.\nDt-—D\np=—t (1)\nDj00 — Do\nThe levels of deuteration along with uncertainty intervals are shown on figure 1. HaDeX provide both experimental\nand theroetical levels of deuteration in two variants: with relative or absolute values." + }, + { + "id": 132949, + "strid": "e049ce3e-8f29-4a9e-911b-50187178a320", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 67.919, + 3346.867, + 1612.331, + 250.39100000000008 + ], + "priority": 11, + "parents": [ + 132927 + ], + "children": [], + "area": 227315.859773, + "iscrowd": 0, + "segmentation": [], + "text": "Woods Plot\n\nWoods plot format shows diference between results of two different states as described by equation 2.\ndiff = Di — D2\n\nDescribed calculations lead to results shown on Woods plot format - figure 1." + }, + { + "id": 132950, + "strid": "b7110f19-a7dc-4ef9-856c-ccb4bae9ca8f", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 69.815, + 3610.502, + 1611.03, + 403.21399999999994 + ], + "priority": 12, + "parents": [ + 132927 + ], + "children": [], + "area": 252067.19713, + "iscrowd": 0, + "segmentation": [], + "text": "Uncertainty of the measurement\n\nThe equation 1 and 2 are functions of multiple variables (each with its own uncertainty), so there is need to use the\nLaw of Propagation of Uncertainty, defined in equation 3:\n\n \n\nThe Law of Propagation of Uncertainty, as described by equation 3 is applied to both 1 and 2. Uncertaintly calculated\nthis way is compatibile with guidelines developed by International Organization for Standardization." + }, + { + "id": 132928, + "strid": "9c314376-a487-4b20-ac04-a8907b1d5028", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 78.695, + 4065.29, + 151.886, + 38.60999999999967 + ], + "priority": 13, + "parents": [ + 132953 + ], + "children": [ + 132951 + ], + "area": 319917.99655, + "iscrowd": 0, + "segmentation": [], + "text": "Availability" + }, + { + "id": 132951, + "strid": "70126599-1a91-4f39-afe0-6e2029b5a58f", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.378, + 4168.225, + 1251.346, + 302.59699999999975 + ], + "priority": 14, + "parents": [ + 132928 + ], + "children": [], + "area": 472585.01405000006, + "iscrowd": 0, + "segmentation": [], + "text": "HaDeX is available as a web server: http: //mslab-ibb.p1/shiny/HaDeX/ pot\nOA\nas the R package: https: //cran.r-project.org/web/packages/HaDeX/index. html\n\nEl\n; oe\nand as a standalone software: https: //sourceforge.net/projects/hadex/ aries" + }, + { + "id": 132930, + "strid": "57200662-c128-4826-b80a-7364aebfcd20", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1736.474, + 628.837, + 348.4559999999999, + 37.831999999999994 + ], + "priority": 15, + "parents": [ + 132953 + ], + "children": [ + 132944, + 132946, + 132945 + ], + "area": 1091959.100738, + "iscrowd": 0, + "segmentation": [], + "text": "Overview of the sequence" + }, + { + "id": 132946, + "strid": "900c4c01-35a4-45ca-9704-e6206f6b3129", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1730.255, + 708.545, + 1509.2600000000002, + 79.80100000000004 + ], + "priority": 16, + "parents": [ + 132930 + ], + "children": [], + "area": 1225963.528975, + "iscrowd": 0, + "segmentation": [], + "text": "The HaDeX provides the tools to view and analyse the results of HDX-MS data. Obtained data is used to show\ninformation in different ways." + }, + { + "id": 132945, + "strid": "1d65383b-33c0-41b5-b3cc-6635a6a68969", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1747.813, + 798.066, + 1474.3580000000002, + 494.69900000000007 + ], + "priority": 17, + "parents": [ + 132930 + ], + "children": [ + 132942 + ], + "area": 1394870.129658, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132942, + "strid": "c00fb16e-dd83-4b19-88ae-327af4ea262a", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2166.943, + 1320.58, + 638.4139999999998, + 34.021999999999935 + ], + "priority": 18, + "parents": [ + 132945 + ], + "children": [], + "area": 2861621.5869400003, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Sequence reconstruction and basic information" + }, + { + "id": 132944, + "strid": "4019c8c4-db21-4635-ab2f-3dff0214f3f9", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1747.341, + 1384.771, + 1474.21, + 751.075 + ], + "priority": 19, + "parents": [ + 132930 + ], + "children": [ + 132941 + ], + "area": 2419667.143911, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132941, + "strid": "aed90856-9d3f-49e0-a4f8-8f922ec70bb2", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2196.967, + 2162.59, + 576.5160000000001, + 34.789999999999964 + ], + "priority": 20, + "parents": [ + 132944 + ], + "children": [], + "area": 4751138.864530001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Sequence coverage shown in two variants" + }, + { + "id": 132931, + "strid": "a460dadb-6494-432e-840c-249514bb9a91", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1736.387, + 2241.209, + 203.78999999999996, + 37.73900000000003 + ], + "priority": 21, + "parents": [ + 132953 + ], + "children": [ + 132939, + 132952 + ], + "area": 3891606.1718829996, + "iscrowd": 0, + "segmentation": [], + "text": "Quality control" + }, + { + "id": 132952, + "strid": "c2e7c5e1-eecd-4d75-acf9-082091342fb5", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1731.164, + 2320.247, + 1510.932, + 82.07299999999987 + ], + "priority": 22, + "parents": [ + 132931 + ], + "children": [], + "area": 4016728.0775079997, + "iscrowd": 0, + "segmentation": [], + "text": "HaDeX provides additional tools for assement of experiments. For example, the quality control function shows\nhow the mean uncertainty per peptide changes with time points of an experiment." + }, + { + "id": 132939, + "strid": "c7c888f9-bde2-427c-a522-ad3507e3140a", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1872.691, + 2418.172, + 1220.2250000000001, + 584.424 + ], + "priority": 23, + "parents": [ + 132931 + ], + "children": [ + 132940 + ], + "area": 4528488.940852, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132940, + "strid": "fadfc415-49c1-4360-a86a-3af405810eb9", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2045.877, + 3062.822, + 880.299, + 31.746999999999844 + ], + "priority": 24, + "parents": [ + 132939 + ], + "children": [], + "area": 6266157.084894001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Plot ilustrating uncertainy change depending on used out parameter" + }, + { + "id": 132933, + "strid": "045d356b-6512-4e78-9b05-eb4ebde0fdea", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1738.614, + 3138.191, + 212.5239999999999, + 38.17000000000007 + ], + "priority": 25, + "parents": [ + 132953 + ], + "children": [ + 132938, + 132936 + ], + "area": 5456102.807274, + "iscrowd": 0, + "segmentation": [], + "text": "Nexo gam Tiel do))" + }, + { + "id": 132936, + "strid": "de83f5fc-116e-4de2-bd79-7f5d3269b8ba", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1724.336, + 3210.11, + 757.135, + 293.922 + ], + "priority": 26, + "parents": [ + 132933 + ], + "children": [], + "area": 5535308.23696, + "iscrowd": 0, + "segmentation": [], + "text": "HaDeX provides report generation - with parameters\nchosen by user so is fully personalizable. Additionaly,\ncalculated data for plots can be downloaded not only in\nreport form but also in csv/pdf file in panel next to\nevery plot. On figure 5 are shown available elements of\nthe report - that can be chosen by user and limited\nstrickly for user needs." + }, + { + "id": 132938, + "strid": "f5a8ae41-e564-4255-9f61-51c7bf2509cd", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2550.181, + 3219.498, + 617.6970000000001, + 217.00999999999976 + ], + "priority": 27, + "parents": [ + 132933 + ], + "children": [ + 132937 + ], + "area": 8210302.629138, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132937, + "strid": "591164a3-1540-46ec-a843-70f781f545f9", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2584.927, + 3462.488, + 562.2179999999998, + 34.44300000000021 + ], + "priority": 28, + "parents": [ + 132938 + ], + "children": [], + "area": 8950278.718376, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Screenshot of HaDeX - reporting page" + }, + { + "id": 132932, + "strid": "18334636-2df3-4633-93ab-3028f27cccd9", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1735.456, + 3527.691, + 260.39699999999993, + 38.71799999999985 + ], + "priority": 29, + "parents": [ + 132953 + ], + "children": [ + 132935 + ], + "area": 6122152.512095999, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 132935, + "strid": "036f52e6-80f8-45d6-8c49-7b34b16c755b", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1728.787, + 3607.466, + 1512.296, + 166.08599999999979 + ], + "priority": 30, + "parents": [ + 132932 + ], + "children": [], + "area": 6236540.323742, + "iscrowd": 0, + "segmentation": [], + "text": "The project is carried out within the TEAM TECH programme of the Foundation for Polish Science co-financed by\nthe European Union under the European Regional Development Fund.(TEAM TECH CORE FACILITY /2016-2/2)\nMass Spectrometry of Biopharmaceuticals-improved methodologies for qualitative, quantitative and structural\ncharacterization of drugs, proteinaceous drug targets and diagnostic molecules”" + }, + { + "id": 132929, + "strid": "68e600b2-a6fd-48a0-9157-bccfbaa0f4b7", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1737.314, + 4009.239, + 171.93700000000013, + 39.17000000000007 + ], + "priority": 31, + "parents": [ + 132953 + ], + "children": [ + 132934 + ], + "area": 6965307.044046001, + "iscrowd": 0, + "segmentation": [], + "text": "Bibliography" + }, + { + "id": 132934, + "strid": "a2010f04-4ee2-4136-b9d4-121df9c67fbb", + "image_id": 205661, + "image_name": "15537.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1760.669, + 4076.531, + 1462.387, + 434.3609999999999 + ], + "priority": 32, + "parents": [ + 132929 + ], + "children": [], + "area": 7177421.759239, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58514, + "strid": "e6879c51-acf3-42ae-9174-b7c1a5f5580d", + "image_id": 202813, + "image_name": "119301.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 236.14, + 389.52, + 179.7, + 119.81 + ], + "priority": -1, + "parents": [], + "children": [ + 58490, + 58501, + 58497, + 58508, + 58513, + 58499, + 58491, + 58493, + 58510, + 58506, + 58492 + ], + "area": 91981.25279999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58490, + "strid": "0a564f11-acae-4822-be9e-b3042609b79f", + "image_id": 202813, + "image_name": "119301.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 962.141, + 20.712, + 2485.022, + 82.071 + ], + "priority": 1, + "parents": [ + 58514 + ], + "children": [], + "area": 19927.864392, + "iscrowd": 0, + "segmentation": [], + "text": "Creating Champions For Open Source Rare Disease Drug Discovery With An App" + }, + { + "id": 58491, + "strid": "f6983f21-55d9-4f28-9e9c-010727a6a36c", + "image_id": 202813, + "image_name": "119301.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 50.509, + 100.763, + 4290.446, + 215.05300000000003 + ], + "priority": 2, + "parents": [ + 58514 + ], + "children": [], + "area": 5089.438367000001, + "iscrowd": 0, + "segmentation": [], + "text": "Sean Ekins?*?4>-%7 Jill Wood?®, Lori Sames* °, Allison Moore? and Alex M. Clark 7°\n\n1Collaborations in Chemistry, 5616 Hilltop Needmore Road, Fuquay Varina, NC27526, USA., Phoenix Nest, P.O. BOX 150057, Bréoklyn NY 11215, USA., 3Hereditary Neuropathy Foundation, 432 ParkAvenue South — 4'* floor, New York, NY 10016, USA., “BioGAN Therapeutics, \\P.O. 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"4388659b-e4fd-4c68-9248-52c5eba52aaf", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 151.845, + 805.55, + 330.0179999999999, + 51.115999999999985 + ], + "priority": 3, + "parents": [ + 127819 + ], + "children": [ + 127810, + 127800, + 127817, + 127816, + 127818, + 127798, + 127811, + 127815, + 127799, + 127814, + 127813, + 127812 + ], + "area": 122318.73975, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 127798, + "strid": "de5b71ef-b241-4392-8e59-bd1dcf90db66", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 152.913, + 922.027, + 2961.451, + 275.961 + ], + "priority": 4, + "parents": [ + 127797 + ], + "children": [], + "area": 140989.91465100003, + "iscrowd": 0, + "segmentation": [], + "text": "Next-generation Sequencing (NGS) allows for sequencing large genetic regions at low cost and is increasingly used in routine clinical diagnostics. The raw sequencing output has to undergo a complex\nbioinformatics analysis process.\n\nAMLVaran is a web-based platform that performs the complete data processing workflow for targeted NGS samples and presents the detected variants in form of an interactive website. It generates\nclinical reports as well, which are adapted to the needs of Acute Myeloid Leukemia (AML) diagnostics.\n\nUsability is a key factor of AMLVaran, since it is aimed to be operated primarily by medical staff. A user study with a first prototype of the software showed that users without a specific training (n=9) had\nproblems with the operation of some features. In several cases, results were misinterpreted because of this." + }, + { + "id": 127818, + "strid": "d570fa63-5ca5-4d68-94c9-2035df896d00", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 436.621, + 1371.21, + 1510.1399999999999, + 89.51199999999994 + ], + "priority": 5, + "parents": [ + 127797 + ], + "children": [], + "area": 598699.08141, + "iscrowd": 0, + "segmentation": [], + "text": "Lessons learned from the first usability study\nWe identified 6 central aspects, which mainly contributed to cases of confusion and misinterpretations:" + }, + { + "id": 127799, + "strid": "c42d176c-0464-488e-b7bb-a71b3d8a95f4", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 438.49, + 1476.409, + 2464.115, + 300.30500000000006 + ], + "priority": 6, + "parents": [ + 127797 + ], + "children": [], + "area": 647390.58241, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127800, + "strid": "f5d7825c-8233-4a0a-8bc7-05d1f6492458", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 153.223, + 1865.003, + 290.401, + 45.027000000000044 + ], + "priority": 7, + "parents": [ + 127797 + ], + "children": [], + "area": 285761.354669, + "iscrowd": 0, + "segmentation": [], + "text": "Improvements" + }, + { + "id": 127811, + "strid": "85686a2d-3e3c-48d0-953d-c65c14b5bee4", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 100.087, + 2000.355, + 516.402, + 162.625 + ], + "priority": 8, + "parents": [ + 127797 + ], + "children": [], + "area": 200209.53088500001, + "iscrowd": 0, + "segmentation": [], + "text": "Structuring into categories\nAnnotations for a variant are grouped\ninto categories, by type of source and\nfunction of information." + }, + { + "id": 127812, + "strid": "a953baf7-6674-4953-9ecf-586c807895f5", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.599, + 2421.646, + 482.80400000000003, + 168.55000000000018 + ], + "priority": 9, + "parents": [ + 127797 + ], + "children": [], + "area": 166122.49395400003, + "iscrowd": 0, + "segmentation": [], + "text": "Explanatory information\nBasic information about the type of\nannotation and the biological\ninterpretation of figures is provided." + }, + { + "id": 127813, + "strid": "eb7e64db-29b7-435b-a15e-5bd39bea242d", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 246.074, + 2856.294, + 405.37600000000003, + 31.909999999999854 + ], + "priority": 10, + "parents": [ + 127797 + ], + "children": [], + "area": 702859.689756, + "iscrowd": 0, + "segmentation": [], + "text": "Nomenclature of variants" + }, + { + "id": 127814, + "strid": "36052558-ec00-4e39-912b-b4575d2752e1", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 244.119, + 2910.155, + 501.552, + 193.17599999999993 + ], + "priority": 11, + "parents": [ + 127797 + ], + "children": [], + "area": 710424.128445, + "iscrowd": 0, + "segmentation": [], + "text": "Variants are given out in genomic\ncoordinates, as well as Codon and\nAmino Acid Changes for all available\ntranscripts (canonical transcript is\nemphasized)." + }, + { + "id": 127810, + "strid": "747a48ff-e2d5-4843-8a9c-96ac06f1bb2f", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 679.048, + 1907.393, + 1894.785, + 1011.3389999999999 + ], + "priority": 12, + "parents": [ + 127797 + ], + "children": [], + "area": 1295211.4018640001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127815, + "strid": "a8d4291d-0402-4796-9f8c-dee7c0bcc701", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1206.37, + 3038.365, + 475.6700000000001, + 164.9029999999998 + ], + "priority": 13, + "parents": [ + 127797 + ], + "children": [], + "area": 3665392.385049999, + "iscrowd": 0, + "segmentation": [], + "text": "Tooltips\n\nExplanations for abbreviations and\nscoring metrics can be invoked by\nmouse-over on €% icon." + }, + { + "id": 127816, + "strid": "8bd41152-2866-4082-8e9d-8c8359daac9a", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2041.306, + 3040.529, + 494.6109999999999, + 205.57900000000018 + ], + "priority": 14, + "parents": [ + 127797 + ], + "children": [], + "area": 6206650.090874, + "iscrowd": 0, + "segmentation": [], + "text": "Contradicting information\n\nVarious sources of information (e.g.\nfunctional prediction tools) are used.\nContradicting results need to be\nmade transparent." + }, + { + "id": 127817, + "strid": "2210ed91-2d43-454a-84bd-9d6f470f1832", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2703.895, + 2562.182, + 480.3249999999998, + 287.48199999999997 + ], + "priority": 15, + "parents": [ + 127797 + ], + "children": [], + "area": 6927871.098889999, + "iscrowd": 0, + "segmentation": [], + "text": "Graphical representations\n\nFor functional prediction, a\ncomparison with the same tool’s\nrange of output for other variants is\ngiven out as graphic. This allows a\nquick estimation of the variant’s\nharmfulness." + }, + { + "id": 127801, + "strid": "589e4cbe-5b68-4c06-a8aa-da3db2f8f586", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 153.767, + 3404.191, + 205.844, + 51.26099999999997 + ], + "priority": 16, + "parents": [ + 127819 + ], + "children": [ + 127806, + 127808, + 127809, + 127805 + ], + "area": 523452.23749699997, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 127805, + "strid": "862f65ca-4f8d-4c74-bc18-f1b4a5b091d0", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 150.237, + 3517.99, + 1092.43, + 257.7979999999998 + ], + "priority": 17, + "parents": [ + 127801 + ], + "children": [], + "area": 528532.26363, + "iscrowd": 0, + "segmentation": [], + "text": "In a follow-up study with the final software (with a different user group and\nnew tasks), 5/6 hotspot mutations were correctly interpreted by all testers\n(n=12). In addition, the testers were able to perform more complex tasks\nwith greater accuracy. It is noticeable, that the perceived difficulty of tasks\nhas greatly decreased in the final version. And the users felt more\nconfident operating the final software than with the prototype." + }, + { + "id": 127808, + "strid": "a6e3b16f-db35-4171-b42b-befcda0b452d", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 158.806, + 3808.325, + 1013.098, + 351.23099999999977 + ], + "priority": 18, + "parents": [ + 127801 + ], + "children": [ + 127803 + ], + "area": 604784.8599500001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127803, + "strid": "571b4f6d-579b-44b6-9663-dad9ec946246", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 173.768, + 4192.061, + 959.5829999999999, + 36.90300000000025 + ], + "priority": 19, + "parents": [ + 127808 + ], + "children": [], + "area": 728446.055848, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Accuracy and perceived difficulty of tasks in user study 1 and 2." + }, + { + "id": 127806, + "strid": "b0d38f31-21be-4493-aaa4-e98f346cfdde", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1393.091, + 3514.142, + 799.9569999999999, + 268.77999999999975 + ], + "priority": 20, + "parents": [ + 127801 + ], + "children": [], + "area": 4895519.592921999, + "iscrowd": 0, + "segmentation": [], + "text": "The perceived user-friendliness of the software,\nevaluated with a standardized SUS questionnaire,\nincreased from a median score of 68 to 80.\n\nThe optimized version was rated with \"good\" or better\n\nby 62% and with “excellent” by 33% of the testers.\nOnly one single user rated it with “poor”." + }, + { + "id": 127809, + "strid": "be4b2d56-262e-4dc1-b975-2baeee42ce19", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1421.766, + 3823.551, + 547.374, + 325.1029999999996 + ], + "priority": 21, + "parents": [ + 127801 + ], + "children": [ + 127804 + ], + "area": 5436194.811066, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127804, + "strid": "559afe0c-6e2e-47d7-b2c2-9c352355b6bf", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1398.514, + 4190.516, + 675.2349999999999, + 36.98999999999978 + ], + "priority": 22, + "parents": [ + 127809 + ], + "children": [], + "area": 5860495.293223999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. SUS rating for prototype vs. final software." + }, + { + "id": 127802, + "strid": "0701abc8-a8eb-4c94-94ac-f95c3b9bf8a9", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2379.078, + 3402.459, + 301.72800000000007, + 51.358000000000175 + ], + "priority": 23, + "parents": [ + 127819 + ], + "children": [ + 127807 + ], + "area": 8094715.352801999, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 127807, + "strid": "a8262f27-3b6a-492a-a185-304fdf6ad445", + "image_id": 205482, + "image_name": "15224.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2378.411, + 3520.979, + 736.9989999999998, + 591.8219999999997 + ], + "priority": 24, + "parents": [ + 127802 + ], + "children": [], + "area": 8374335.184369, + "iscrowd": 0, + "segmentation": [], + "text": "AMLVaran was clearly improved by the presented\nmeasures. Not only the user satisfaction was\nincreased, but also the precision of their\ninterpretation of the software’s output.\n\nThe results demonstrate the benefit of usability\nstudies and show that a good user interface can\ncontribute decisively to the success or failure of a\nsoftware tool.\n\nUnfortunately, many projects end after the\ncompletion of software development and basic\ntechnical validation.\n\nWe want to encourage developers to put more\nemphasis on software usability." + }, + { + "id": 165627, + "strid": "a24b7533-fad0-4043-b0e3-28567bdddd61", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 23.58, + 13.47, + 97.01, + 87.11 + ], + "priority": -1, + "parents": [], + "children": [ + 165614, + 165624, + 165622, + 165610, + 165612, + 165626, + 165625, + 165613, + 165621, + 165615, + 165611, + 165623, + 165609 + ], + "area": 317.6226, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165609, + "strid": "8dab9dd4-2559-4489-b0d9-e52b1880e99a", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 189.608, + 69.656, + 1757.028, + 73.743 + ], + "priority": 1, + "parents": [ + 165627 + ], + "children": [], + "area": 13207.334848000002, + "iscrowd": 0, + "segmentation": [], + "text": "' Cell Toxicity and Effects on the Activation of Cardioprotective Pathways\nin Human Mesenchymal Stromal Cells from Exposure to Different Antifungal Agents of the Echinocandin Class" + }, + { + "id": 165610, + "strid": "9947a78a-f28c-4cbb-9eba-66c79b807b7f", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 398.804, + 160.189, + 1346.9049999999997, + 70.18199999999999 + ], + "priority": 2, + "parents": [ + 165627 + ], + "children": [], + "area": 63884.013955999995, + "iscrowd": 0, + "segmentation": [], + "text": "Klaus Neef, Georg Langebartels, Yeong-Hoon Choi, Thorsten Wahlers\nDepartment of Cardiothoracic Surgery, Heart Centre of the University Hospital of Cologne, Cologne, Germany" + }, + { + "id": 165611, + "strid": "f94a077e-9d6e-4695-a0e8-eb76d32396c8", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 40.891, + 246.383, + 487.17699999999996, + 477.707 + ], + "priority": 3, + "parents": [ + 165627 + ], + "children": [], + "area": 10074.847253, + "iscrowd": 0, + "segmentation": [], + "text": "Objective: Echinocandin class antifungal agents\nhave high clinical significance for cardiovascular\npatients. The approved echinocandins\nanidulafungin (AF), caspofungin (CF) and\nmicafungin (MF) fall into two structural groups of\ncatechol (MF) and non-catechol (AF and CF)\nechinocandins, with similar modes of\npharmacological action. However, recently there\nhave been reports on echinocandin specific cell\ndamage. Aim of this study was to evaluate the\ninfluence of echinocandins on apoptotic\npathways on a cellular level using human\nmesenchymal stromal cells (MSC). Furthermore,\nchanges in expression of genes with implications\nfor cardioprotective effects were analyzed\nquantitatively after exposure to clinically relevant\nconcentration of echinocandine antifungal\nagents." + }, + { + "id": 165612, + "strid": "b58cc524-7e9b-47fc-aadc-618edab8be42", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 565.72, + 246.607, + 487.1969999999999, + 369.2420000000001 + ], + "priority": 4, + "parents": [ + 165627 + ], + "children": [], + "area": 139510.51204, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: Cultures of human bone marrow\nderived MSC were used for investigations on\neffects of echinocandin treatment in vitro after\nvalidation of cell type defining features. Low\npassage number cultures of MSC were treated\nwith antifungal agents (100 g/ml). Effects\nregarding cell toxicity were assessed using a\nmulti-parameter flow cytometric approach\nincluding cell proliferation, apoptosis (annexin V\nbinding) and mitochondrial damage (loss of JC-1\ndye). qPCR was used for the assessment of\nchanges in the expression of genes associated\nwith regulating (Nrf2 and Keap1) and mediating\n(mTOR) cardioprotective effects." + }, + { + "id": 165613, + "strid": "d01a9bfb-cc3a-4b45-a12b-a5df544ebb50", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1088.748, + 246.492, + 487.46399999999994, + 662.504 + ], + "priority": 5, + "parents": [ + 165627 + ], + "children": [], + "area": 268367.672016, + "iscrowd": 0, + "segmentation": [], + "text": "Results: MSC conferred to cell type defining\nfeatures regarding morphology, expression of\nsurface markers and in vitro differentiation\npotential. After 24 hour treatment with\nechinocandines (Fig.1) MSC showed significantly\nhigher rate of apoptosis (Fig.2 A) for AF as\ncompared to MF and CF (12.2+3.3% vs.\n6.141.7% and 7.5+2.7%; both p<0.05). However,\nmitochondrial specific cell damage (Fig. 2 B) was\nsignificantly higher in CF as compared to AF and\nMF (6.840.7% vs. 2.140.4%, p<0.05 and vs.\n1.440.6%; p<0.01). Proliferation (Fig 2 C) was\nsignificantly lower for CF as compared to AF and\nMF (0.30.2 vs. 0.9+0.3 and 1.2+0.3 population\ndoublings per day; both p<0.05). Significant\ndecreases in cardioprotective regulator gene\nexpression (Fig. 3 A and B) were detected in CF\nand AF treated cells (Nrf2: -42.1+8.8% and\n-18.145.7%; both p<0.05 vs. untreated cells;\nKeap1: -12.143.6% and -27.24+4.3%; both p<0.05\nvs. untreated cells). Furthermore, mTOR gene\nexpression (Fig. 3 C) was not significantly\nchanged in MF, but again showed decreased\nexpression for CF and AF (-25.2+6.6% and\n-28.5+3.4%; both p<0.05 vs. untreated cells)." + }, + { + "id": 165622, + "strid": "080d0f1a-0fd6-49cf-b669-7dcd3b4b6bb6", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 507.614, + 705.806, + 555.0029999999999, + 442.163 + ], + "priority": 6, + "parents": [ + 165627 + ], + "children": [ + 165617 + ], + "area": 358277.00688400003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165617, + "strid": "ca4f9d96-708f-4d4b-828b-78e39792bfee", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 554.089, + 634.608, + 498.3539999999999, + 57.61900000000003 + ], + "priority": 7, + "parents": [ + 165622 + ], + "children": [], + "area": 351629.312112, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Human MSC show different effects in terms of cell\nsurvival (density) and morphology after exposure to indicated\nconcentrations (g/ml) of echinocandins. (scales: 100 ym)" + }, + { + "id": 165623, + "strid": "77f1719c-a280-4e8b-a6e2-dac417090194", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 27.061, + 1166.707, + 758.759, + 306.59899999999993 + ], + "priority": 8, + "parents": [ + 165627 + ], + "children": [ + 165616 + ], + "area": 31572.258127000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165616, + "strid": "4d280975-7226-4489-a19c-af1cf0fe0181", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 42.209, + 752.263, + 451.449, + 178.11400000000003 + ], + "priority": 9, + "parents": [ + 165623 + ], + "children": [], + "area": 31752.268967000004, + "iscrowd": 0, + "segmentation": [], + "text": "Echinocandin (100 pg/ml) specific effects on\nhuman MSC from differential analysis of apoptosis (A),\nmitochondrial damage (B) and proliferation using high\nthroughput fluorescence activated cell sorting (FACS).\nApoptosis and mitochondrial damage levels for untreated\ncontrol samples are <1%. Proliferation rate of untreated\ncontrol samples is in the range of 1.5 population doublings/\nday. (n=5; *p<0.05; **p<0.01; two-way ANOVA followed by\nBonferroni test)." + }, + { + "id": 165624, + "strid": "51e62757-33ec-4e19-8533-0c50dbd228ca", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 811.552, + 1167.096, + 761.2869999999999, + 308.1890000000001 + ], + "priority": 10, + "parents": [ + 165627 + ], + "children": [ + 165618 + ], + "area": 947159.092992, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165618, + "strid": "f55c8588-0c38-4be2-81cc-99ad12ca509b", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 42.09, + 965.526, + 452.249, + 178.5100000000001 + ], + "priority": 11, + "parents": [ + 165624 + ], + "children": [], + "area": 40638.98934, + "iscrowd": 0, + "segmentation": [], + "text": "igure 3: Echniocandins have different effects on the\nactivation status of genes with implications for\ncardioprotection. Nrf2 is a master regulator gene acting\ntogether with Keap1 on central cellular functions linked to\ncell viability, survival and repair processes. mTOR is an\ndownstream master regulator for protein synthesis. Data\npresented is based on ACt values (versus GAPDH) from 4\nbiological replicates with triple technical replicates. (“p<0.0!\nStudent's t-test)." + }, + { + "id": 165614, + "strid": "1a69ce53-c4f9-4240-810c-7ce2f8d5633a", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1610.01, + 246.526, + 488.298, + 125.66300000000001 + ], + "priority": 12, + "parents": [ + 165627 + ], + "children": [], + "area": 396909.32526, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion: This study reveals different\nechinocandin agent specific effects on MSC.\nSimilar investigations should be conducted on\nother cell types with relevance for cardiovascular\ndisease." + }, + { + "id": 165615, + "strid": "d291c53b-57bf-4476-b7b2-99a4ae0038c9", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1608.749, + 384.677, + 487.8889999999999, + 209.54200000000003 + ], + "priority": 13, + "parents": [ + 165627 + ], + "children": [], + "area": 618848.739073, + "iscrowd": 0, + "segmentation": [], + "text": "Addendum: We have extended our study to\nechinocandine specific effects on the viability of\nneonatal murine cardiomyocytes in vitro.\nApplying escalating echinocandine\nconcentrations (10 / 30 / 100 ug/ml) and using\nthe Presto Blue viability assay we found\nsignificantly compromised viability for AF as\ncompared to MF and CF (Fig. 4 and 5)." + }, + { + "id": 165626, + "strid": "5b3b7f61-0b48-48f0-a2f1-45845f68756f", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1631.523, + 606.525, + 437.94600000000014, + 385.472 + ], + "priority": 14, + "parents": [ + 165627 + ], + "children": [ + 165619 + ], + "area": 989559.4875749999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165619, + "strid": "d7d00f40-3c9a-4b65-be0a-aa956f40b966", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1089.774, + 944.574, + 491.07400000000007, + 99.46500000000003 + ], + "priority": 15, + "parents": [ + 165626 + ], + "children": [], + "area": 1029372.1862759999, + "iscrowd": 0, + "segmentation": [], + "text": "igure 4: Murine neonatal cardiomyocytes treated for 24h with\n100 um/ml of indicated echinocandins. Representative\nphotomicrographs showing cardiomyocytes stained\nimmunohistochemically for cardiac a-actinine (green). Nuclei were\nstained with DAPI (blue). (scales: 100 um)" + }, + { + "id": 165625, + "strid": "98f1dc20-a7f9-4629-92ba-a3de0a798d70", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1623.698, + 1013.503, + 469.97, + 316.62299999999993 + ], + "priority": 16, + "parents": [ + 165627 + ], + "children": [ + 165620 + ], + "area": 1645622.7940940002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 165620, + "strid": "d4031ada-ef6e-4a10-9790-ba85ae16ab86", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1090.242, + 1055.921, + 490.05899999999997, + 77.38599999999997 + ], + "priority": 17, + "parents": [ + 165625 + ], + "children": [], + "area": 1151209.422882, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Presto Blue viability assay for murine neonatal\ncardiomyocytes for indicated echinocandin concentrations.\n\n100% viability corresponds to untreated control samples.(n=6;\n*p<0.05; **p<0.01; two-way ANOVA followed by Bonferroni test)" + }, + { + "id": 165621, + "strid": "cf5ed431-a274-4f29-8ad9-527137283f71", + "image_id": 206961, + "image_name": "6710.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1608.05, + 1345.379, + 487.7769999999998, + 103.904 + ], + "priority": 18, + "parents": [ + 165627 + ], + "children": [], + "area": 2163436.70095, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements:\n\nWe thank Annalena Henrich for excellent\ntechnical assistance. This work was supported\nby Astellas Pharma GmbH, Germany." + }, + { + "id": 143984, + "strid": "558431d9-fb1b-489f-b5f7-bdf35839e99a", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 50.73, + 71.56, + 154.02, + 84.22999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 143955, + 143983, + 143949, + 143951, + 143952, + 143948, + 143954, + 143953, + 143950 + ], + "area": 3630.2388, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143948, + "strid": "019bc4e4-cb3c-425c-a86a-208ad5e95bb9", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 26.587, + 49.782, + 929.006, + 31.355000000000004 + ], + "priority": 1, + "parents": [ + 143984 + ], + "children": [], + "area": 1323.554034, + "iscrowd": 0, + "segmentation": [], + "text": "Bioconductor packages for analysis of Thermal Proteome Profiling data" + }, + { + "id": 143949, + "strid": "d27eb34d-6b51-49ff-bc55-78adbbf46cf9", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 26.438, + 89.907, + 780.343, + 78.034 + ], + "priority": 2, + "parents": [ + 143984 + ], + "children": [], + "area": 2376.961266, + "iscrowd": 0, + "segmentation": [], + "text": "Nils Kurzawa!*, Dorothee Childs'?, Holger Franken’, Mikhail M. Savitski! & Wolfgang Huber!\n\n‘Genome Biology Unit, European Molecular Biology Laboratory\n2Cellzome GmbH. GlaxoSmithKline" + }, + { + "id": 143950, + "strid": "ad977512-32d2-4cff-bdf1-8160e17e81a5", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 24.182, + 243.551, + 1134.03, + 157.26299999999998 + ], + "priority": 3, + "parents": [ + 143984 + ], + "children": [], + "area": 5889.550281999999, + "iscrowd": 0, + "segmentation": [], + "text": "Thermal proteome profiling (TPP) is a mass spectrometry-based technology which was originally developed to identify drug (off-) targets on a proteome-wide scale.\nThe assay is built on the principle of the cellular thermal shift assay which is that proteins inside living cells may be modulated in their thermal stability by ligand\nbinding. This can be read out by shifts of melting profiles of respective proteins. Soon after TPP was established, a first Bioconductor package TP? was released,\nwhich implemented a method to infer ligand-protein interactions using shifts of melting points. The realization that this procedure lacks sensitivity to detect proteins\nwith e.g. very high thermal stability lead to the development of the \\/PARC package. Further, it was realized that TPP data can also inform on protein-protein\ninteraction (PPI) dynamics. Another Bioconductor package &tpca was thus implemented to accomodate respective analyses. Lastly, the experimental setup of\nTPP experiments was expanded to profile ligand dose and temperature ranges together to improve sensitivity. To accomodate the different data structure and\ndifferent required statistical analysis the package TPP2D was created. Here, the different functionalities of these packages are presented." + }, + { + "id": 143951, + "strid": "4b2443f4-c66c-4112-b5b6-4afe8bcc7f9a", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 18.36, + 419.486, + 436.291, + 31.418000000000006 + ], + "priority": 4, + "parents": [ + 143984 + ], + "children": [ + 143963, + 143965, + 143979, + 143961, + 143957, + 143959, + 143956, + 143958, + 143964, + 143981, + 143982, + 143962 + ], + "area": 7701.76296, + "iscrowd": 0, + "segmentation": [], + "text": "Thermal Proteome Profiling (TPP)" + }, + { + "id": 143982, + "strid": "9dfbc66b-555f-4868-bb6e-0ea9728314a6", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 18.383, + 464.219, + 321.981, + 17.28000000000003 + ], + "priority": 5, + "parents": [ + 143951 + ], + "children": [], + "area": 8533.737877, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 143956, + "strid": "795d8370-0f92-4d1f-9d1a-88d3982e5d42", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 27.283, + 500.212, + 109.046, + 65.87099999999998 + ], + "priority": 6, + "parents": [ + 143951 + ], + "children": [], + "area": 13647.283996, + "iscrowd": 0, + "segmentation": [], + "text": "Grow cells in\npresence and\nabsence of ligand\nin duplicates" + }, + { + "id": 143957, + "strid": "8a73a19c-4090-4d85-9bde-831f1c25daf8", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 157.917, + 496.891, + 97.976, + 66.97800000000001 + ], + "priority": 7, + "parents": [ + 143951 + ], + "children": [], + "area": 78467.536047, + "iscrowd": 0, + "segmentation": [], + "text": "Heat treatment\nand extraction\nof remaining\nsoluble proteins" + }, + { + "id": 143958, + "strid": "61173d61-7500-42d2-8955-f6d6c15e7129", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 301.836, + 496.891, + 100.19, + 66.97800000000001 + ], + "priority": 8, + "parents": [ + 143951 + ], + "children": [], + "area": 149979.59187600002, + "iscrowd": 0, + "segmentation": [], + "text": "TMT labelling of\n\ntryptic peptides\n\nand LC-MS/MS\nanalysis" + }, + { + "id": 143959, + "strid": "4ce04b92-821b-4866-993d-6d615602eff7", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 431.917, + 496.891, + 125.65199999999999, + 66.97800000000001 + ], + "priority": 9, + "parents": [ + 143951 + ], + "children": [], + "area": 214615.670047, + "iscrowd": 0, + "segmentation": [], + "text": "Protein identification\nand quantification\nand melting curve\n\ncomparison" + }, + { + "id": 143981, + "strid": "4304418a-effb-49e6-a85c-8a12a5bed8c2", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 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{ + "id": 143963, + "strid": "7f55b9d8-f178-4215-b2f4-c355c021c48e", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 157.442, + 776.999, + 97.57499999999999, + 66.05100000000004 + ], + "priority": 13, + "parents": [ + 143951 + ], + "children": [], + "area": 122332.27655800001, + "iscrowd": 0, + "segmentation": [], + "text": "Heat treatment\nand extraction\nof remaining\nsoluble proteins" + }, + { + "id": 143964, + "strid": "c1a7055f-7e55-499e-b530-994b923bb79f", + "image_id": 206093, + "image_name": "17405.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 302.353, + 776.294, + 99.07999999999998, + 67.168 + ], + "priority": 14, + "parents": [ + 143951 + ], + "children": [], + "area": 234714.819782, + "iscrowd": 0, + "segmentation": [], + "text": "TMT labelling of\n\ntryptic peptides\nand LC-MS/MS\n\nanalysis" + }, + { + "id": 143965, + "strid": "e92c8089-212f-4423-823a-2b438e52e8c3", + "image_id": 206093, + 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Bernhardt!; NathaliaSelevsek?; Ludovic C. Gillet?; Oliver Rinner';\nPaola Picotti?; Ruedi Aebersold@»tukas Reiter’\n\n‘Biognosys, Zurich, Switzerland\n?Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland\n\n3Institute of Biochemistry, ETH Zurich, Zurich, Switzerland" + }, + { + "id": 77908, + "strid": "a61bb56e-4e0e-4f32-a5db-95bf4687dfbf", + "image_id": 203539, + "image_name": "120438.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 474.157, + 1223.25, + 331.412, + 47.92699999999991 + ], + "priority": 3, + "parents": [ + 77922 + ], + "children": [ + 77909 + ], + "area": 580012.55025, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 77909, + "strid": "9438539a-7ccc-492d-891e-4dd136a6e088", + "image_id": 203539, + "image_name": "120438.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 191.523, + 1285.811, + 819.591, + 1162.892 + ], + "priority": 4, + "parents": [ + 77908 + ], + "children": [], + "area": 246262.38015299998, + "iscrowd": 0, + "segmentation": [], + "text": "It has recently\nbeen shown that\ntargeted analysis of data\nindependently acquired\n\n(DIA) peptide fragment ion\nspectra (SWATH-MS) has the\npotential to combine the scale\nof shotgun proteomics with the\nanalytical accuracy of MRM [1].\nWe have developed the software\nSpectronaut for analysis of high\ncontent datasets which are\ntypically produced in DIA mode.\nSpectronaut adapts algorithms\nof mPrephet [2] providing fast\nand Universitat de Barcelona (UB), Barcelona Spain." + }, + { + "id": 114263, + "strid": "80d5a671-193e-4cfe-94af-4d73fe893261", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1361.39, + 849.349, + 915.9709999999998, + 57.360000000000014 + ], + "priority": 3, + "parents": [ + 114277 + ], + "children": [ + 114275, + 114265, + 114268, + 114266, + 114276, + 114272 + ], + "area": 1156295.2351100002, + "iscrowd": 0, + "segmentation": [], + "text": "Plot and classify the benchmarking results" + }, + { + "id": 114265, + "strid": "513e4a26-1eff-4891-8594-312bb7969dc8", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 89.109, + 846.27, + 1241.191, + 522.175 + ], + "priority": 4, + "parents": [ + 114263 + ], + "children": [], + "area": 75410.27343, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract. Scientific benchmarking provides a mechanism for\nusers to systematically identify the most effective methods for\nthe problem at hand, sets a minimum requirement for new\ntools and resources, and guides the development of more\naccurate inference methods. However, understanding the\nresults of specific scientific benchmark approaches is not a\ntrivial task for end-users who might not have the background\nknowledge to correctly interpret visualized results." + }, + { + "id": 114266, + "strid": "5c8ea603-de7f-4ebb-8ed4-fbb82bca858f", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1356.277, + 931.502, + 1512.4679999999998, + 258.7660000000001 + ], + "priority": 5, + "parents": [ + 114263 + ], + "children": [], + "area": 1263374.738054, + "iscrowd": 0, + "segmentation": [], + "text": "Here we proposed three alternative methods for converting traditional 2D\nplots into a more intuitive classification system for helping non-experts to\ncorrectly understand these results. We have used real data from the Quest\nfor Orthologs initiative to perform the data transformations using ..." + }, + { + "id": 114268, + "strid": "ab334145-60a5-4430-81f5-2c9e031cedf6", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1388.508, + 1205.881, + 710.4930000000002, + 216.32899999999995 + ], + "priority": 6, + "parents": [ + 114263 + ], + "children": [], + "area": 1674375.4155480003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114275, + "strid": "e2a1d584-8b92-40d7-a29e-0e511977214c", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 121.614, + 1459.302, + 3067.271, + 821.1810000000003 + ], + "priority": 7, + "parents": [ + 114263 + ], + "children": [ + 114271 + ], + "area": 177471.55342799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114271, + "strid": "3442c858-f284-4548-940a-feb8cc29e4a1", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 109.104, + 2308.804, + 1148.524, + 298.68499999999995 + ], + "priority": 8, + "parents": [ + 114275 + ], + "children": [], + "area": 251899.751616, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Agreement with Reference Gene Phylogenies (SwissTree) benchmark results, from the\nQuest for Orthologs community ( ), classified using different\nmethods. A) square quartiles - split up the plotting area in four parts according to the values of the\nmetrics. Tools in the top right rectangle display the best performance. B) Diagonal quartiles -\nobtained by assigning a score to each participant according to its distance to the optimal\nperformance corner. Tools in the right triangle display the best performance. C) Clustering -\nK-Means unsupervised learning algorithm to cluster the participant tools and ranked those groups\naccording to the score of clusters’ centroids. Tools in the cluster No. 1 (see red numbers) display the\nbest performance. D) Participants classification using the three methods described on A), B) and C." + }, + { + "id": 114276, + "strid": "d33fa401-772e-401d-a759-92ca1b3e7225", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1362.714, + 2358.992, + 840.6990000000001, + 157.9949999999999 + ], + "priority": 9, + "parents": [ + 114263 + ], + "children": [], + "area": 3214631.424288, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114272, + "strid": "14cb981f-7b62-47ef-9ddd-cb1013e9b52d", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2230.926, + 2283.867, + 954.6120000000001, + 502.80499999999984 + ], + "priority": 10, + "parents": [ + 114263 + ], + "children": [], + "area": 5095138.270842, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114264, + "strid": "6ed65da7-03f5-43d4-855c-65308d726406", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 136.806, + 2777.742, + 485.278, + 44.590999999999894 + ], + "priority": 11, + "parents": [ + 114277 + ], + "children": [ + 114267, + 114274, + 114273 + ], + "area": 380011.77205200004, + "iscrowd": 0, + "segmentation": [], + "text": "Tabular format results" + }, + { + "id": 114267, + "strid": "58031255-1e03-4d26-bedc-23c602f60254", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.509, + 2839.088, + 3040.741, + 219.13099999999986 + ], + "priority": 12, + "parents": [ + 114264 + ], + "children": [], + "area": 376204.711792, + "iscrowd": 0, + "segmentation": [], + "text": "Tables can be used to assist on the transformation of scientific benchmarking results from experts perspective to non-expert perspective. Those\ntransformation can be done for individual benchmarking cases (Figure 2 - D), or can be obtained for all categories considered in the benchmarking campaign\n(Figure 2). Importantly, tools can be classified into different categories depending on the transformation applied (Figure 3). Therefore, it is important to\nclosely work with Scientific communities on the best transformation methods for their results." + }, + { + "id": 114273, + "strid": "9c9f534f-d527-437d-b884-b765b8906e1f", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 91.001, + 3065.71, + 1307.14, + 815.5659999999998 + ], + "priority": 13, + "parents": [ + 114264 + ], + "children": [ + 114269 + ], + "area": 278982.67571000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114269, + "strid": "21b4d802-5ae1-4940-b6be-ce33d75dc8ee", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 131.141, + 3916.479, + 1192.848, + 137.23700000000008 + ], + "priority": 14, + "parents": [ + 114273 + ], + "children": [], + "area": 513610.9725389999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Diagonal quartiles classification results in table format. Swisstree benchmark (see Figure 1) is\nhighlighted in orange and tools which show the best performance for each of the benchmarks are\n\nhighlighted in green. The column on the right assigns a ranking to each of the tools according to their\nperformance across all benchmarking categories." + }, + { + "id": 114274, + "strid": "6b2b4c4d-b1b6-4dda-897f-f7348994c03e", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1527.367, + 3096.549, + 1688.0339999999999, + 760.7089999999998 + ], + "priority": 15, + "parents": [ + 114264 + ], + "children": [ + 114270 + ], + "area": 4729566.756483, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114270, + "strid": "855d24c8-2a4e-45d5-869d-b4bf1b41f0ac", + "image_id": 204938, + "image_name": "13556.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1636.928, + 3917.788, + 1501.8709999999999, + 167.1289999999999 + ], + "priority": 16, + "parents": [ + 114274 + ], + "children": [], + "area": 6413136.875264, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Overall results for all benchmarking categories and transformation methods (squares, diagonals, clusters) with tools\nranking (right columns). Swisstree benchmark (see Figure 1) is highlighted in orange. Colors in the ‘Ranking’ section refer to the\ncomparison among the results obtained using the different methods. Light red means worse results than in the previous\nclassification while dark red means even worse results than in previous classification/s. Conversely, green means _ better results\nthan the previous transformation while light green means even better results than the previous classification/s." + }, + { + "id": 149720, + "strid": "b786fd3e-734c-420a-ab3f-9c6820050006", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2856.15, + 90.44, + 201.13999999999987, + 113.97999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 149717, + 149697, + 149718, + 149719, + 149715, + 149695, + 149692, + 149712, + 149716, + 149693, + 149694, + 149690, + 149691, + 149696 + ], + "area": 258310.206, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149690, + "strid": "285a4d3b-e72b-4a09-9055-19c907c849d7", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 61.364, + 63.248, + 2683.483, + 212.293 + ], + "priority": 1, + "parents": [ + 149720 + ], + "children": [], + "area": 3881.150272, + "iscrowd": 0, + "segmentation": [], + "text": "FAIR-Checker : Checking and Inspecting meta-\ndata for FAIR bioinformatics resources" + }, + { + "id": 149691, + "strid": "21f603e8-e332-4e0b-803b-2296613d9a25", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 59.763, + 326.558, + 2686.608, + 243.918 + ], + "priority": 2, + "parents": [ + 149720 + ], + "children": [], + "area": 19516.085754, + "iscrowd": 0, + "segmentation": [], + "text": "T. Rosnet*°, F. de Lamotte’®, M.-D. Devignes!?, V. Lefort'*, A. Gaignard?*.\n\nNnstitut Francais de Bioinformatique, CNRS UAR 3601, France, 2LIRMM, Univ Montpellier, CNRS, Montpellier, France, >LORIA, Université de\nLorraine, CNRS, Inria, Nancy, France, 4L'institut du thorax, INSERM, CNRS, University of Nantes, Nantes, France, °TAGC/INSERM U1090, Univ\nAix-Marseille, Marseille, France, °>UMR AGAP Institut, Univ Montpellier, CIRAD, INRAE, Institut Agro, F-34398 Montpellier, France" + }, + { + "id": 149712, + "strid": "63c4cb5a-21bd-43bb-8a77-2e3d9ab792d7", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 106.185, + 612.752, + 323.752, + 44.26599999999996 + ], + "priority": 3, + "parents": [ + 149720 + ], + "children": [], + "area": 65065.07111999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149715, + "strid": "211a9e7c-c0ce-4b4f-a94c-8a08a2b480a8", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 487.987, + 612.604, + 285.32199999999995, + 37.63599999999997 + ], + "priority": 4, + "parents": [ + 149720 + ], + "children": [], + "area": 298942.788148, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149716, + "strid": "89de4ef7-8959-48c6-a732-c7dbafcf4468", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 829.808, + 613.075, + 405.58100000000013, + 43.86800000000005 + ], + "priority": 5, + "parents": [ + 149720 + ], + "children": [], + "area": 508734.5396, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149717, + "strid": "05f1dccc-e377-44a4-abf1-6617734c1da9", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1292.559, + 612.748, + 279.6870000000001, + 35.80200000000002 + ], + "priority": 6, + "parents": [ + 149720 + ], + "children": [], + "area": 792012.942132, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149718, + "strid": "a686d6fa-7b57-4311-96cb-d45e9c23dcf9", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1627.562, + 612.47, + 251.0920000000001, + 37.307000000000016 + ], + "priority": 7, + "parents": [ + 149720 + ], + "children": [], + "area": 996832.89814, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149719, + "strid": "447cb720-bc7f-4616-83a1-d4dfa20623d5", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1934.215, + 611.562, + 555.9359999999999, + 46.91399999999999 + ], + "priority": 8, + "parents": [ + 149720 + ], + "children": [], + "area": 1182892.39383, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149692, + "strid": "30b6ed8f-a10b-4e12-b3c5-6896f92b8978", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1461.8, + 765.237, + 389.00199999999995, + 47.783000000000015 + ], + "priority": 9, + "parents": [ + 149720 + ], + "children": [ + 149698 + ], + "area": 1118623.4466, + "iscrowd": 0, + "segmentation": [], + "text": "1. Introduction" + }, + { + "id": 149698, + "strid": "d4355fa7-aa46-4f72-941e-bbefa8ce267d", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.689, + 858.498, + 3153.84, + 333.5319999999999 + ], + "priority": 10, + "parents": [ + 149692 + ], + "children": [], + "area": 66695.851122, + "iscrowd": 0, + "segmentation": [], + "text": "The continuous increase of life science data production raises the importance of better sharing and reusing biological digital resources (datasets, bioinformatics\ntools or workflows, training materials, etc.). This led to an increasing importance of Open Science and Reproducibility, requiring rich and machine-actionable\nmetadata. To that end, FAIR principles [1] have been proposed and are being adopted by large communities. However, assessing how much a resource is\nFAIR is nowadays challenging since answering human-oriented questionnaires is time-consuming and computational evaluations (FAlRMetrics, RDA Maturity\nIndicators) often require technical expertise.\n\nIn this work, we propose a new release of FAIR-Checker, aimed at empowering scientists and developers in FAIRifing their resources." + }, + { + "id": 149693, + "strid": "0dd8f43e-8edd-426f-af37-b44726122182", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1346.357, + 1276.81, + 618.153, + 59.33699999999999 + ], + "priority": 11, + "parents": [ + 149720 + ], + "children": [ + 149714, + 149705 + ], + "area": 1719042.08117, + "iscrowd": 0, + "segmentation": [], + "text": "2. Motivating use cases" + }, + { + "id": 149705, + "strid": "0f418e11-727a-4ac0-b798-b54446242e33", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.102, + 1382.514, + 1830.358, + 444.97399999999993 + ], + "priority": 12, + "parents": [ + 149693 + ], + "children": [], + "area": 106594.594428, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149714, + "strid": "564e1a1d-9602-40d5-bd0b-c3186aaffe62", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1971.415, + 1412.202, + 1266.792, + 390.2560000000001 + ], + "priority": 13, + "parents": [ + 149693 + ], + "children": [], + "area": 2784036.20583, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149694, + "strid": "ea2f8317-8014-4e4e-a196-07b767a1174b", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 685.304, + 1916.193, + 316.948, + 57.22700000000009 + ], + "priority": 14, + "parents": [ + 149720 + ], + "children": [ + 149707, + 149711, + 149699, + 149700, + 149713 + ], + "area": 1313174.727672, + "iscrowd": 0, + "segmentation": [], + "text": "3. Approach" + }, + { + "id": 149699, + "strid": "7e364bdd-ea5b-4372-abe8-fabf01b4e054", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 78.443, + 2059.387, + 921.572, + 496.56399999999985 + ], + "priority": 15, + "parents": [ + 149694 + ], + "children": [], + "area": 161544.49444100002, + "iscrowd": 0, + "segmentation": [], + "text": "A. Check. We propose a web interface? ai-\nmed at empowering scientists to progress in\nthe FAIRification of their resources through a\nglobal assessment and technical recommenda-\ntions. This tool supports an iterative process,\nleveraging the web semantic technologies\n(RDF, SPARQL) and metrics-specific guide-\nlines, with references to the FAIR Cookbook\nand RDMkit initiative." + }, + { + "id": 149711, + "strid": "4b4dabdf-80fb-49a3-ba45-a49535c9a399", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1100.63, + 2069.949, + 478.67599999999993, + 474.01800000000003 + ], + "priority": 16, + "parents": [ + 149694 + ], + "children": [], + "area": 2278247.9678700003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149700, + "strid": "00e7eb4c-e5af-45cc-b7b1-bf60b1141229", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.517, + 2629.212, + 1532.079, + 391.3710000000001 + ], + "priority": 17, + "parents": [ + 149694 + ], + "children": [], + "area": 203808.626604, + "iscrowd": 0, + "segmentation": [], + "text": "B. Inspect. We use semantic technologies to help users in providing fine-\ngrained community-agreed metadata. We assemble a Knowledge Graph from\nembedded RDF, complemented by public SPARQL endpoints. We check that\nused ontology terms are already known in reference registries (LOV, OLS,\nBioPortal). Bioschemas specifications are used to generate SHACL shapes.\nTheir evaluation informs users on missing metadata, required or recommended\nfor specific resources (genes, proteins, training, tools, etc.)." + }, + { + "id": 149707, + "strid": "a2b88dab-99aa-4a1e-a38a-c11d00bd86e6", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 220.339, + 3145.291, + 1249.04, + 604.7159999999999 + ], + "priority": 18, + "parents": [ + 149694 + ], + "children": [], + "area": 693030.273649, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149713, + "strid": "bb522484-6b07-434f-a75f-dc6254beed40", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.267, + 3868.697, + 986.4389999999999, + 41.251000000000204 + ], + "priority": 19, + "parents": [ + 149694 + ], + "children": [], + "area": 507832.249099, + "iscrowd": 0, + "segmentation": [], + "text": "a. https://fair-checker.france-bioinformatique.fr" + }, + { + "id": 149695, + "strid": "9bfdd096-9744-48c4-b34d-7bb4d29c85b2", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2337.034, + 1922.323, + 258.6590000000001, + 47.108999999999924 + ], + "priority": 20, + "parents": [ + 149720 + ], + "children": [ + 149708, + 149703, + 149710, + 149701, + 149702, + 149709 + ], + "area": 4492534.209982, + "iscrowd": 0, + "segmentation": [], + "text": "4. Results" + }, + { + "id": 149701, + "strid": "19db67c1-a6e2-4a66-a139-0d83b945aea3", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1700.388, + 2013.024, + 1528.092, + 105.7840000000001 + ], + "priority": 21, + "parents": [ + 149695 + ], + "children": [], + "area": 3422921.8533119997, + "iscrowd": 0, + "segmentation": [], + "text": "A. Check.\nThe evaluation results are presented to the users as_ follows" + }, + { + "id": 149709, + "strid": "d57e0064-9803-4fec-9bdd-0567732f5129", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1702.956, + 2120.958, + 1521.1250000000002, + 216.13499999999976 + ], + "priority": 22, + "parents": [ + 149695 + ], + "children": [], + "area": 3611898.151848, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149702, + "strid": "21024e77-aedd-4a15-8dec-e3f5aedee53e", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1700.652, + 2488.293, + 620.1959999999999, + 723.8110000000001 + ], + "priority": 23, + "parents": [ + 149695 + ], + "children": [], + "area": 4231720.467036, + "iscrowd": 0, + "segmentation": [], + "text": "After validating more than\n25,000 tool pages from\nBio.tools we plotted the pro-\nportion of tools complying\nwith the FAIR principles. This\nallows to indicate where the\nmetadata quality can be im-\nproved by better annotations.\nOnly 37,9% of the tools have\na Licence. More than 60% of\nthe tool descriptions should\nbe improved by providing a\nLicense." + }, + { + "id": 149710, + "strid": "6b460f4e-a122-4fab-95f4-aa766bfa2f73", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2423.08, + 2396.491, + 714.7799999999997, + 900.8809999999999 + ], + "priority": 24, + "parents": [ + 149695 + ], + "children": [], + "area": 5806889.41228, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149703, + "strid": "f74ebbe1-8c28-4212-8025-6b95a02b9b64", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.746, + 3358.214, + 1532.21, + 164.3739999999998 + ], + "priority": 25, + "parents": [ + 149695 + ], + "children": [], + "area": 5708110.813644, + "iscrowd": 0, + "segmentation": [], + "text": "B. Inspect.\nWe show to the user which properties in the metadata can be added to improve\nthe FAlRness of the resource based on the corresponding Bioschemas profile." + }, + { + "id": 149708, + "strid": "84968cee-4d1a-4e9e-8809-89593292d4f6", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1708.024, + 3571.954, + 1515.989, + 516.105 + ], + "priority": 26, + "parents": [ + 149695 + ], + "children": [], + "area": 6100983.158896, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149697, + "strid": "5485c458-8222-49c5-8dc9-1de1866387ba", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2262.196, + 4181.874, + 408.88599999999997, + 46.501000000000204 + ], + "priority": 27, + "parents": [ + 149720 + ], + "children": [ + 149704 + ], + "area": 9460218.635303998, + "iscrowd": 0, + "segmentation": [], + "text": "5. Future works" + }, + { + "id": 149704, + "strid": "511c6cb3-e96e-4f00-8d90-2a3a67c3ef5a", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1701.278, + 4273.075, + 1530.294, + 334.4859999999999 + ], + "priority": 28, + "parents": [ + 149697 + ], + "children": [], + "area": 7269688.48985, + "iscrowd": 0, + "segmentation": [], + "text": "A publication of this work is currently under review. As future work, we aim (i)\nto support HTTP content-negotiation for web sites not embedding metadata\nin their web pages, (ii) to enhance the matching between a resource type and\nthe corresponding Bioschemas profile, and (iii) to allow the user to annotate\nand complete its missing metadata. In addition, we plan to develop an API\nfor a better scalability and interoperability of FAIR-Checker." + }, + { + "id": 149696, + "strid": "9d13db72-51e5-4bbe-84d4-a2c66abcc748", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 668.869, + 4005.479, + 352.41600000000005, + 46.679999999999836 + ], + "priority": 29, + "parents": [ + 149720 + ], + "children": [ + 149706 + ], + "area": 2679140.733251, + "iscrowd": 0, + "segmentation": [], + "text": "6. References" + }, + { + "id": 149706, + "strid": "036ed3ea-f265-4ad3-ab24-4f7e850e5907", + "image_id": 206315, + "image_name": "20687.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 79.442, + 4105.696, + 1530.068, + 507.97699999999986 + ], + "priority": 30, + "parents": [ + 149696 + ], + "children": [], + "area": 326164.701632, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22810, + "strid": "ca069940-ee06-4b4c-b1b4-975f599dc5e3", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 291.08, + 95.59, + 93.07, + 60.75999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 22802, + 22809, + 22796, + 22789, + 22806, + 22790, + 22795, + 22803, + 22801 + ], + "area": 27824.337199999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22789, + "strid": "757aa29a-f4e9-4bc2-9218-7df4b9e18369", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 498.931, + 129.075, + 556.6599999999999, + 23.701999999999998 + ], + "priority": 1, + "parents": [ + 22810 + ], + "children": [], + "area": 64399.51882499999, + "iscrowd": 0, + "segmentation": [], + "text": "Large Local Analysis of the Unaligned Genome and Its Application" + }, + { + "id": 22790, + "strid": "cf42a763-f14a-4f63-8348-bec022b0effe", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 618.795, + 164.289, + 316.9309999999999, + 13.544000000000011 + ], + "priority": 2, + "parents": [ + 22810 + ], + "children": [], + "area": 101661.21175499998, + "iscrowd": 0, + "segmentation": [], + "text": "LIANPING YANG. XIANGDE ZHANG, TTANMING WANG" + }, + { + "id": 22796, + "strid": "ab9c5542-ffdb-4c90-82b2-dba0af0fa3bc", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 154.294, + 212.152, + 109.01000000000002, + 18.653999999999996 + ], + "priority": 3, + "parents": [ + 22810 + ], + "children": [ + 22793 + ], + "area": 32733.780688, + "iscrowd": 0, + "segmentation": [], + "text": "Thtroduction" + }, + { + "id": 22793, + "strid": "d30a860c-eb83-47c4-8179-247d6f57f491", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 64.522, + 245.962, + 289.139, + 103.76300000000003 + ], + "priority": 4, + "parents": [ + 22796 + ], + "children": [], + "area": 15869.960164, + "iscrowd": 0, + "segmentation": [], + "text": "The approach to defining or extracting the similarity\ninformation between genomes is a major issue for\ncomputational biology because the suitable similarity\ncan be used to obtain phylogenetic infortation,\n\nstructure information, function information, and others." + }, + { + "id": 22795, + "strid": "12ca8c40-6fb6-4d8b-be6c-f1875e3d6212", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 454.509, + 211.569, + 194.702, + 20.98599999999999 + ], + "priority": 5, + "parents": [ + 22810 + ], + "children": [ + 22794 + ], + "area": 96160.014621, + "iscrowd": 0, + "segmentation": [], + "text": "Feature Vector Method" + }, + { + "id": 22794, + "strid": "1aabb9ac-38b7-4aa7-a06a-86a93d580d06", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 392.717, + 245.962, + 320.034, + 103.76300000000003 + ], + "priority": 6, + "parents": [ + 22795 + ], + "children": [], + "area": 96593.45875399999, + "iscrowd": 0, + "segmentation": [], + "text": "Before extracting similarity information between the genomes,\n4 typical Feature Vector method attempts to extract features of\neach gehiome sequence firs. Feature vector are just one kind\nof representation of sequences. The comparison between two\n\nSequences is the one between their repréfentations." + }, + { + "id": 22806, + "strid": "f0f4b2f1-5254-4cbb-8c05-c6d0de50a86b", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 805.504, + 211.626, + 207.80499999999995, + 20.233000000000004 + ], + "priority": 7, + "parents": [ + 22810 + ], + "children": [ + 22805 + ], + "area": 170465.589504, + "iscrowd": 0, + "segmentation": [], + "text": "Relative Feature Method" + }, + { + "id": 22805, + "strid": "7009f892-325f-4601-a10b-3cfba8482e4d", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 757.451, + 244.925, + 306.4390000000001, + 104.957 + ], + "priority": 8, + "parents": [ + 22806 + ], + "children": [], + "area": 185518.686175, + "iscrowd": 0, + "segmentation": [], + "text": "Relative feature means that a feature of ome sequence\ndepends on the compared objects. ‘That is, once the\ncompared object changes, so does the feature. This method\ninvolves putting the sequences together and computing the\n\nsimilarity score, without the help bf the featufe vector," + }, + { + "id": 22809, + "strid": "4da09522-3752-46c3-b5a1-278c2aa8df4d", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1162.946, + 211.586, + 249.89599999999996, + 22.079000000000008 + ], + "priority": 9, + "parents": [ + 22810 + ], + "children": [ + 22808 + ], + "area": 246063.092356, + "iscrowd": 0, + "segmentation": [], + "text": "Large Local Analysis Problem" + }, + { + "id": 22808, + "strid": "8b96dffe-eeb6-4cdd-aafc-d0c77eedcfe7", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1112.766, + 245.708, + 351.26, + 126.95500000000001 + ], + "priority": 10, + "parents": [ + 22809 + ], + "children": [], + "area": 273415.508328, + "iscrowd": 0, + "segmentation": [], + "text": "We take the large local analysis (LLA) problem that the local is\nlarge enough to cover some.re coinbination gene segments in\nconsideration, for which the alignment methods are not suitable.\nThe method, one kind of relative feature method, is based on the\nlongest commoit words and the shortest absent words of the two\n\nsequences." + }, + { + "id": 22803, + "strid": "56451450-923a-4155-98ae-987300532221", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 719.91, + 390.785, + 115.00199999999995, + 20.819000000000017 + ], + "priority": 11, + "parents": [ + 22810 + ], + "children": [ + 22797, + 22804, + 22798, + 22807 + ], + "area": 281330.02935, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 22798, + "strid": "0444dfb5-4adc-4116-8b29-aec0f6384db1", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.816, + 440.082, + 203.446, + 170.21899999999994 + ], + "priority": 12, + "parents": [ + 22803 + ], + "children": [], + "area": 54049.110912000004, + "iscrowd": 0, + "segmentation": [], + "text": "1 jas li), (S, jas ba), «5\n. Higly) where jy< jp <..< jy For\n\ny Oxp our legal distance\nmeasurealthough both re based on the\ncommon! Word, The former measure is under\nthe intuitive asstimption that the longer the\ntotal Jength of the longest common prefixes,\nthe mof®’ similarity the two sequences have.\nHowever, according to the local distance, the\nSum of all the longest common words\nimplies the difference between the\n\nsequences." + }, + { + "id": 22791, + "strid": "a19256bb-0835-4e0c-8c56-1abd582e4ef7", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 738.328, + 690.48, + 297.1399999999999, + 238.97900000000004 + ], + "priority": 20, + "parents": [ + 22801 + ], + "children": [], + "area": 509800.71744, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22792, + "strid": "ab10361e-2583-4497-9e85-419cef1af1f9", + "image_id": 201412, + "image_name": "117075.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1105.146, + 691.056, + 299.443, + 272.37799999999993 + ], + "priority": 21, + "parents": [ + 22801 + ], + "children": [], + "area": 763717.774176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74410, + "strid": "0ac570b0-dd98-4b87-90c9-9ecf664b319c", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 122.25, + 221.11, + 372.56, + 217.32999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 74396, + 74392, + 74394, + 74402, + 74397, + 74395, + 74391, + 74393 + ], + "area": 27030.697500000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74391, + "strid": "d3d2b8eb-2638-4ccc-9a06-65d28e1515cb", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 548.018, + 73.572, + 4521.878, + 224.628 + ], + "priority": 1, + "parents": [ + 74410 + ], + "children": [], + "area": 40318.780296000004, + "iscrowd": 0, + "segmentation": [], + "text": "Nitric Oxide Synthase 3 Deficiency Does Not Prevent the Adverse Effects of Transfusing Stored\nBlood tn Murine Hemorrhagte Shock" + }, + { + "id": 74392, + "strid": "f56928f1-e509-4b6c-a339-719cde00d398", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 591.318, + 347.994, + 4501.603, + 206.21699999999998 + ], + "priority": 2, + "parents": [ + 74410 + ], + "children": [], + "area": 205775.116092, + "iscrowd": 0, + "segmentation": [], + "text": "Binglarw Yu, Ph.D., Liu Han, M.D., Patricio Leyton, M.D., Kenneth D. Bloch, M.D., Warren M. Zapol, M.D.\n\nDepartment of Anesthesia , Critical Care and Pain Medicine, Massachusetts\\General Hospital, Harvard MedicalSchool, Boston, MA 02114 USA" + }, + { + "id": 74393, + "strid": "deb86341-ee22-4586-8e82-eed7245100a7", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 413.029, + 618.643, + 559.017, + 67.149 + ], + "priority": 3, + "parents": [ + 74410 + ], + "children": [ + 74398 + ], + "area": 255517.49964700002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74398, + "strid": "a90d9e38-455a-472a-9e96-520bf38963f7", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 67.269, + 765.72, + 1258.291, + 2069.173 + ], + "priority": 4, + "parents": [ + 74393 + ], + "children": [], + "area": 51509.218680000005, + "iscrowd": 0, + "segmentation": [], + "text": "Blood transfusion is a_ lifesaving\ntreatment f65 hemorrhagic shock.\nDuring prolonged storage, erythrocytes\nundergo functional changes leading to\nhemolysis and release of\noxyhemoglobin, a potent scavenger, of\nnitric oxide (NO). The assogiation\nbetween transfusion of blood stored for\nmore than 14 days and adverse clinical\noutcomes (increased infection, multi-\norgan failure = and-Csmortality) is\ncontroversial. studying mice with\nhemorrhagic shock; we recently found\nthat resuscitation with erythrocytes\nstored for prolonged periods was\nassociated@with worse outcomes than\nresuscitation with fresh erythrocytes.\nTheemechanisms responsible for the\nadverse effects associated (with\ntransfusion of stored erythrocytes are\nincompletely characterized. Mice with a\ncongenital deficiency of endothelial NO\nsynthase (NOS3”) are(protected from\nthe hypertensive response to infusion of\ncell-free hemoglobin:" + }, + { + "id": 74396, + "strid": "11d92149-bb9b-4530-82bd-06c55d4f0530", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 480.256, + 2905.809, + 432.163, + 64.96000000000004 + ], + "priority": 5, + "parents": [ + 74410 + ], + "children": [ + 74399 + ], + "area": 1395532.207104, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74399, + "strid": "e5666d01-13cf-45ce-8f44-804ce651869f", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.394, + 3047.47, + 1253.448, + 572.8809999999999 + ], + "priority": 6, + "parents": [ + 74396 + ], + "children": [], + "area": 208428.66318, + "iscrowd": 0, + "segmentation": [], + "text": "The objective of our study was to\ninvestigate whether NOS3 deficiency\n(NOS3;*) would impact the adverse\neffects (tissue injury, inflammation, and\nmortality) associated with resuscitating\nmice with hemorrhagic shock. using\nfresh or stored erythrocytes." + }, + { + "id": 74397, + "strid": "659276e2-7723-48a7-94fe-2e76d5ee9402", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 179.266, + 3691.445, + 1028.168, + 66.94500000000016 + ], + "priority": 7, + "parents": [ + 74410 + ], + "children": [ + 74400 + ], + "area": 661750.57937, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74400, + "strid": "4fc9c31a-487b-43d3-9755-a2e4aa5a8074", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 64.132, + 3819.159, + 1266.064, + 811.5350000000003 + ], + "priority": 8, + "parents": [ + 74397 + ], + "children": [], + "area": 244930.30498800002, + "iscrowd": 0, + "segmentation": [], + "text": "Wild-type (WT) and“NOS3“ mice were\nsubjected to 90 minutes of hemorrhagic\nshock, followed) by resuscitation with\nleukoreduced,* syngeneic erythrocytes\nstored forless than 24 hours (fresh\nerythrocytes) or stored for 2 weeks\n(stored erythrocytes). Survival rates\\up\nto)7 days, as well as markers of tissue\ninjury and inflammation at 4 hours’ after\ntransfusion were measured." + }, + { + "id": 74394, + "strid": "2c1307ef-cc79-450d-99ff-243b9c2c2f07", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2720.355, + 622.644, + 349.5419999999999, + 65.30600000000004 + ], + "priority": 9, + "parents": [ + 74410 + ], + "children": [ + 74408, + 74409, + 74407 + ], + "area": 1693812.71862, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74407, + "strid": "913471cf-b42b-4573-9aba-fd673baf525e", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1500.783, + 754.344, + 2505.013, + 1305.9470000000001 + ], + "priority": 10, + "parents": [ + 74394 + ], + "children": [ + 74403, + 74404 + ], + "area": 1132106.651352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74403, + "strid": "5f0ea87d-4215-4daa-9227-0274f3f4b630", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2635.437, + 849.107, + 1751.0779999999995, + 352.43399999999997 + ], + "priority": 11, + "parents": [ + 74407 + ], + "children": [], + "area": 2237768.0047589997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Resuscitation with stored erythrocytesbut not fresh erythrocytes\nincreased plasma Hb levels in WT and-NOS3~“ mice. WT: wild-type mice;\nNOS3~: mice with a congenital deficien¢y-of nitric oxide synthase 3; FRBC:\nfresh leukoreduced erythrocytes; SRBCs stored leukoreduced erythrocytes. All\ndata mean+SD. *P<0.05 differs versus*corresponding control, TP<0.001 differs\nversus corresponding FRBC." + }, + { + "id": 74404, + "strid": "3363c1c7-365a-4e89-95a1-24ddcc798562", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1444.892, + 2105.19, + 2982.742, + 293.413 + ], + "priority": 12, + "parents": [ + 74407 + ], + "children": [], + "area": 3041772.18948, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Resuscitation with stored erythrocytes is associated with a reduced survival/rate in WT and NOS3~“ mice. WT (left\npanel) and NOS3~- (right panel) mice were, Subjected to 90 min of hemorrhagic shock afd‘tesuscitated with either fresh erythrocytes\n(stored for <24 h, n=15) or stored efythrocytes (stored for 2 weeks, n=15). WT;ewild-type mice; NOS3’-: mice with a congenital\ndeficiency of nitric oxide synthase=3§-FRBC: fresh leukoreduced erythrocytes; SRBC: stored leukoreduced erythrocytes. Data are\nexpressed as percent survival (%):" + }, + { + "id": 74408, + "strid": "1653342a-5a08-4a77-a35d-b1ffe8d4ba8a", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1639.391, + 2450.307, + 2305.056, + 1139.5 + ], + "priority": 13, + "parents": [ + 74394 + ], + "children": [ + 74405 + ], + "area": 4017011.243037, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74405, + "strid": "146c81b1-47cc-4371-8474-cf45fcf580d2", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1444.621, + 3649.214, + 2980.001, + 231.88900000000012 + ], + "priority": 14, + "parents": [ + 74408 + ], + "children": [], + "area": 5271731.177894, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Resuscitatiom with stored erythrocytes increased plasmaJevels of ALT (A), AST (B), BUN (C), and creatinine (D) in WT\nand NOS3“ mice. ALT: alanine aminotransferase; AST: aspartatexaminotransferase; BUN: blood urea nitrogen; All data mean+SD.\n*P<0.01 differs versus corresponding control, TP<0.01 differs versus corresponding FRBC, +P<0.05 differs versus*tontrol group of WT\n\nand control group of NOS3”- mice." + }, + { + "id": 74409, + "strid": "1d932369-d42d-45e3-9156-358f218e51b2", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1497.0, + 3900.593, + 1103.8649999999998, + 762.3980000000001 + ], + "priority": 15, + "parents": [ + 74394 + ], + "children": [ + 74406 + ], + "area": 5839187.721, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74406, + "strid": "dc6590f3-3914-4da9-9580-3a6d1c02e92c", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2596.627, + 4042.304, + 1803.181, + 352.4380000000001 + ], + "priority": 16, + "parents": [ + 74409 + ], + "children": [], + "area": 10496355.708608, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4 Plasma levels of IL-6 at 4h after resuscitation with either fresh or\nstored erythrocytes were both elevated. IL-6; interleukin-6; WT: wild-type mice;\nNOS3~: mice with a congenital deficiency/ofwnitric oxide synthase 3; FRBC: fresh\nleukoreduced erythrocytes; SRBC: stored leukoreduced erythrocytes. All data\nmean+SD. *P<0.05 differs versus corresponding control, tP<0.01 differs versus\ncorresponding FRBC." + }, + { + "id": 74395, + "strid": "88200944-6800-4ba2-a493-069abe1b1a07", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4709.713, + 621.764, + 567.2569999999996, + 67.98599999999999 + ], + "priority": 17, + "parents": [ + 74410 + ], + "children": [ + 74401 + ], + "area": 2928329.993732, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 74401, + "strid": "ebd07081-40c2-444e-b538-a708e1f83c32", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4475.496, + 763.991, + 1047.995, + 3346.206 + ], + "priority": 18, + "parents": [ + 74395 + ], + "children": [], + "area": 3419238.664536, + "iscrowd": 0, + "segmentation": [], + "text": "After hemorrhagic — shock,\ntransfusion with stored\nerythrocytes increased the\nmortality rate, tissue injury,\nand levels of inflammatory\nmediators more than ¢ did\ntransfusion with fresh\nerythrocytes In both\ngenotypes. Fourchours after\nresuscitation (with — stored\nerythrocytes Nout not fresh\nerythrocytes; significantly\nincreased plasma hemoglobin\nlevels~in both wild-type and\nNOS3* mice. Survival rate\nand markers of tissue injury\nand inflammation did sot\ndiffer when wild-type Cand\nNOS3\" mice were\nresuscitated with stored\nerythrocytes.\n\nOur data suggest that NOS3“\nmice aresnot protected from\nthe . adverse’ effects’. of\nhemorrhagic shock\nresuscitation with stored\nerythrocytes. These findings\nsuggest that the adverse\neffects of transfusing stored\nerythrocytes in mice with\nhemorrhagic sheck are not\nexclusively attributable to\nscavenging of NOS3-\ngeneratedSNO by increased\nplasmahemoglobin levels." + }, + { + "id": 74402, + "strid": "03670d8f-bf24-4fd4-96ec-2ef29644a2ba", + "image_id": 203400, + "image_name": "120159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4498.544, + 4312.745, + 1014.9040000000005, + 113.92100000000028 + ], + "priority": 19, + "parents": [ + 74410 + ], + "children": [], + "area": 19401073.14328, + "iscrowd": 0, + "segmentation": [], + "text": "This study was supported in part by a grant\nfrom the NHLBI (RO1 DK082971) to KDB." + }, + { + "id": 126339, + "strid": "f53a687c-b43e-4944-8e47-1c740722f3f4", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2098.85, + 215.23, + 380.32000000000016, + 186.28 + ], + "priority": -1, + "parents": [], + "children": [ + 126314, + 126312, + 126313, + 126334, + 126319 + ], + "area": 451735.48549999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126312, + "strid": "99e8bab4-284d-4972-9a8b-e60b6e0bb568", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 94.674, + 82.379, + 2729.755, + 86.855 + ], + "priority": 1, + "parents": [ + 126339 + ], + "children": [], + "area": 7799.149446000001, + "iscrowd": 0, + "segmentation": [], + "text": "Gentle and Fast Isolation of Single Cells for Downstream Single Cell Sequencing" + }, + { + "id": 126313, + "strid": "726264ec-2f5e-435a-aca4-66186b728923", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 86.277, + 204.44, + 1774.751, + 131.75899999999996 + ], + "priority": 2, + "parents": [ + 126339 + ], + "children": [], + "area": 17638.46988, + "iscrowd": 0, + "segmentation": [], + "text": "Soohee Cho?, Junyu Lint, Cher-Lynn Soh? and Nandor Roczo?\n1Namocell Inc., Mountain View, CA., USA, ?GeneWorks Pty Ltd, Thebarton, SA, Australia" + }, + { + "id": 126314, + "strid": "e13ea87c-68b9-4952-9887-619aab4c197b", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 92.132, + 384.94, + 287.735, + 42.15100000000001 + ], + "priority": 3, + "parents": [ + 126339 + ], + "children": [ + 126315, + 126316, + 126331, + 126333, + 126317, + 126318 + ], + "area": 35465.29208, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 126315, + "strid": "f040f435-735d-48b9-ba7d-43ff7f93bbaa", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.354, + 449.23, + 1710.968, + 285.68100000000004 + ], + "priority": 4, + "parents": [ + 126314 + ], + "children": [], + "area": 40589.72742, + "iscrowd": 0, + "segmentation": [], + "text": "Single cell sequencing technologies are widely employed for characterizing cellular\nheterogeneity. For applications requiring full-length cDNA coverage with minimal cell input, plate-\nbased single cell sequencing is typically used. Examples may include interests in rare cell\npopulations, primary samples, and clinical samples. Although bulk sequencing platforms are\navailable, such bulk analysis often averages distinct characteristics and masks rare cell profiles of\nbiological importance." + }, + { + "id": 126317, + "strid": "99a9fda2-d1a2-4f41-b6e9-df485da6b7c3", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.276, + 798.004, + 1720.758, + 291.447 + ], + "priority": 5, + "parents": [ + 126314 + ], + "children": [], + "area": 72040.609104, + "iscrowd": 0, + "segmentation": [], + "text": "However, a significantly underestimated step in the plate-based sequencing workflow is the\nisolation of single cells. Traditional cell sorters have been utilized for single cell plating for\nsequencing workflows. However, its high pressure may cause cell death or unwanted alterations in\ngene expression due to the mechanical stress. Similarly, the lengthy process time to initialize and\nsubsequently plate single cells by an individual researcher may lead to similar results as cells further\nincubate in sorting buffer." + }, + { + "id": 126318, + "strid": "4b988988-308a-4d71-a98c-0a88821ff1df", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 88.711, + 1137.511, + 1719.121, + 310.42100000000005 + ], + "priority": 6, + "parents": [ + 126314 + ], + "children": [], + "area": 100909.738321, + "iscrowd": 0, + "segmentation": [], + "text": "In order to observe single cells near a physiologically-relevant state, the speed and pressure of\nsingle cell isolation must be carefully considered. Herein, the Namocell Single Cell Dispenser is used\nfor gentle and fast isolation of single cells for downstream single cell sequencing workflows. The\nNamocell system is a benchtop microfluidics-based personal cell sorter operating at a low pressure\n(< 2 psi). Depending on the model, there are scatter parameters (FSC and SSC) with up to 3 colors\n(FITC, PE, and PerCP) available." + }, + { + "id": 126316, + "strid": "fcd2e985-b497-434e-b2a2-4b2720122f5d", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1831.264, + 440.573, + 1679.1759999999997, + 103.90499999999997 + ], + "priority": 7, + "parents": [ + 126314 + ], + "children": [], + "area": 806805.4742719999, + "iscrowd": 0, + "segmentation": [], + "text": "The advantageous specifications of the Namocell system are compared to traditional cell sorters in\ntable 1." + }, + { + "id": 126331, + "strid": "e7603b85-a1b2-4390-b304-e1dde7c62fc6", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1902.977, + 580.876, + 1562.164, + 438.1120000000001 + ], + "priority": 8, + "parents": [ + 126314 + ], + "children": [ + 126332 + ], + "area": 1105393.667852, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126332, + "strid": "bfd0b101-ece4-416c-a211-716003853c0a", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2051.903, + 1048.068, + 1252.761, + 89.21900000000005 + ], + "priority": 9, + "parents": [ + 126331 + ], + "children": [], + "area": 2150533.873404, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Specifications comparison between Namocell Single Cell Dispenser\nand traditional cell sorter." + }, + { + "id": 126333, + "strid": "a26eda98-1e29-44c3-9988-a263c09a4908", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1846.553, + 1191.477, + 1670.1990000000003, + 210.73700000000008 + ], + "priority": 10, + "parents": [ + 126314 + ], + "children": [], + "area": 2200125.4287810004, + "iscrowd": 0, + "segmentation": [], + "text": "A Namo model was used for two independent workflows: DNA-sequencing (DNA-seq) of\ncancer cells and RNA-sequencing (RNA-seq) of B cells. The Namo model operating at a low\npressure of 2 psi dispensed single target cells directly into a 96-well PCR plate in about 3 minutes —\nfrom system initialization to plate — for downstream single cell sequencing." + }, + { + "id": 126319, + "strid": "af276a0a-bc69-4a79-bf3a-fbb2a017e382", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 94.155, + 1505.296, + 565.889, + 48.669000000000096 + ], + "priority": 11, + "parents": [ + 126339 + ], + "children": [ + 126329, + 126338, + 126328, + 126320, + 126324, + 126326, + 126321, + 126323 + ], + "area": 141731.14488, + "iscrowd": 0, + "segmentation": [], + "text": "Experiments and Results" + }, + { + "id": 126320, + "strid": "58eeb7bf-0086-410a-916b-6c3cc8ccfc75", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 85.098, + 1574.061, + 1728.758, + 343.894 + ], + "priority": 12, + "parents": [ + 126319 + ], + "children": [], + "area": 133949.44297799998, + "iscrowd": 0, + "segmentation": [], + "text": "The Namocell Single Cell Dispenser was used in two independent experiments for DNA-seq\nand RNA-seq workflows (fig. 1). Similarly, single cell suspensions in culture media with respective\nmarkers (fig. 1a) were loaded into a disposable, microfluidics-based cell cartridge (fig. 1b).\nFluorescently-labeled single cells were isolated by a Namo model (fig. 1c) directly into a 96-well PCR\ntube plate (fig. 1d) for downstream single cell sequencing (fig. 1e). Distilled water was used as the\nsheath buffer to lyse single cells in 1 uL droplets that were spun down in the 96-well PCR tube\nplates. The expected sorting efficiency of the Namo model includes 90% single cells (fig. 2)." + }, + { + "id": 126321, + "strid": "b34b7580-d9fc-46cf-9de4-4b31ae87d270", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 238.045, + 1959.301, + 1377.02, + 863.2629999999999 + ], + "priority": 13, + "parents": [ + 126319 + ], + "children": [ + 126322 + ], + "area": 466401.80654499994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126322, + "strid": "198e1200-1899-4399-aaf1-896ef6068b40", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 349.318, + 2838.201, + 1182.631, + 50.639000000000124 + ], + "priority": 14, + "parents": [ + 126321 + ], + "children": [], + "area": 991434.696918, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Plate-based single cell isolation workflow for single cell sequencing." + }, + { + "id": 126323, + "strid": "a8c9a451-9a51-47a6-b491-7cf64938ae64", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 85.501, + 2918.904, + 1717.316, + 202.70699999999988 + ], + "priority": 15, + "parents": [ + 126319 + ], + "children": [], + "area": 249569.210904, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 1 DNA-seq: cancer cells mixed in a white blood cell population was labeled with PE\nanti-CD45 and FITC anti-EpCAM. FITC-positive and PE-negative cells were sorted and dispensed. The\nsingle cells were analyzed with MALBAC® Single Cell WGA Kit (Yikon Genomics) according to\nmanufacturer’s protocol to yield copy number variation (CNV) results (fig. 3)." + }, + { + "id": 126324, + "strid": "51d73068-bf8f-4dc9-be0c-76e10840a089", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 517.753, + 3170.261, + 831.824, + 574.1779999999999 + ], + "priority": 16, + "parents": [ + 126319 + ], + "children": [ + 126325 + ], + "area": 1641412.143533, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126325, + "strid": "2d5b4682-9e10-4e27-9a11-033648b61205", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 366.882, + 3759.548, + 1129.676, + 85.42099999999982 + ], + "priority": 17, + "parents": [ + 126324 + ], + "children": [], + "area": 1379310.4893359998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. The sorting efficiency between a Namocell Single Cell Dispenser\nversus manual limiting dilution." + }, + { + "id": 126328, + "strid": "01f9710c-624d-4707-9600-4f422afadc15", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2138.679, + 1555.078, + 1090.8540000000003, + 292.5 + ], + "priority": 18, + "parents": [ + 126319 + ], + "children": [], + "area": 3325812.661962, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126329, + "strid": "d6b60ee7-5883-49ad-bf84-6429ecce2af0", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2137.743, + 1864.784, + 1091.79, + 295.0050000000001 + ], + "priority": 19, + "parents": [ + 126319 + ], + "children": [ + 126330 + ], + "area": 3986428.942512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126330, + "strid": "0397465e-3fc7-41f9-9d7d-8c0b7b4d07f0", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2160.945, + 2187.167, + 1035.8960000000002, + 42.38200000000006 + ], + "priority": 20, + "parents": [ + 126329 + ], + "children": [], + "area": 4726347.592815001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. DNA-seq analyses between cancer cell versus control cell." + }, + { + "id": 126338, + "strid": "8b2fcf29-19a1-46e6-b457-88aeddcd2084", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1821.191, + 2264.383, + 1702.3569999999997, + 458.71900000000005 + ], + "priority": 21, + "parents": [ + 126319 + ], + "children": [], + "area": 4123873.940153, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 2 RNA-seq: activated primary human memory B cells were stained with PE anti-\nCD27 and CellTracker Green, a live viability dye. PE-positive and FITC-positive cells were selected\nfor dispensing. The cDNA synthesized revealed 97% single cell sorting efficiency, then followed\ngene-specific amplifications of antibody variable domains (fig. 4a, n=8 shown) or whole\ntranscriptome library preparation. After sequencing the reads were assembled and compared to a\nresting memory B cell reference dataset for antibody BCR expression (fig. 4b); changes in B cell\nactivation genes (fig. 4c); and overall gene up and down regulation (fig. 4d). The presence of only\none BCR transcript per well and the VH and VL quality by Sanger sequencing confirmed that only\nsingle cells were dispensed." + }, + { + "id": 126326, + "strid": "66d0ec90-e7bc-4d99-ba32-f61b400228c7", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1868.869, + 2767.983, + 1596.1990000000003, + 1011.962 + ], + "priority": 22, + "parents": [ + 126319 + ], + "children": [ + 126327 + ], + "area": 5172997.621227, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126327, + "strid": "c61ef5dd-1ce6-43e5-952d-ac87eec19b6f", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2373.242, + 3805.722, + 614.0950000000003, + 47.498999999999796 + ], + "priority": 23, + "parents": [ + 126326 + ], + "children": [], + "area": 9031899.290724002, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Single B cell RNA-seq analyses." + }, + { + "id": 126334, + "strid": "8027bb94-d647-4e96-9caa-c6ffee8cf618", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 92.944, + 3929.798, + 251.21799999999996, + 44.8159999999998 + ], + "priority": 24, + "parents": [ + 126339 + ], + "children": [ + 126336, + 126337, + 126335 + ], + "area": 365251.145312, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 126335, + "strid": "cc0886f8-e6a4-4593-83ef-2d870d5c34d1", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.607, + 4004.801, + 1726.547, + 315.145 + ], + "priority": 25, + "parents": [ + 126334 + ], + "children": [], + "area": 318810.193207, + "iscrowd": 0, + "segmentation": [], + "text": "An overlooked and critical step in single cell sequencing is the isolation of single cells. Although\ntraditional cell sorters allow the selection of target cells with initial quality checks (i.e. viability), the\nhigh pressure and time to set up and process cells pose greater challenges including cell death or\neven unwanted changes in gene expression that may cause artificial findings. In order to analyze the\n\nsingle cell genomic profiles near-physiological relevance, the time and pressure of single cell plating\nmust be carefully considered." + }, + { + "id": 126336, + "strid": "01fdae4b-1721-4abd-ba9f-48845b1569b9", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.948, + 4346.958, + 1699.704, + 208.72500000000036 + ], + "priority": 26, + "parents": [ + 126334 + ], + "children": [], + "area": 443163.67418399994, + "iscrowd": 0, + "segmentation": [], + "text": "The Namocell Single Cell Dispenser was used to plate single cells for either DNA-seq or RNA-\nseq workflows. The Namocell system dispensed single cells directly into 96-well PCR plates with low\npressure (less than 2 psi) in about 3 minutes — from system initialization to plate. The sorting\nefficiency of single cells ranged from 90%-97% of a 96-plate. Preliminary target cell selection was" + }, + { + "id": 126337, + "strid": "4bef9f5f-7a1c-4b64-83e2-50ba8fa25f11", + "image_id": 205419, + "image_name": "15104.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1824.012, + 4014.316, + 1699.9819999999997, + 443.3220000000001 + ], + "priority": 27, + "parents": [ + 126334 + ], + "children": [], + "area": 7322160.555791999, + "iscrowd": 0, + "segmentation": [], + "text": "performed with fluorescence labeling prior to downstream single cell sequencing. In addition, the\nuse of culture media for cell suspension may maintain cell viability and current state.\n\nFrom the DNA-seq study, the CNV yield of a single cancer cell was significantly different from a\ncontrol white blood cell (fig. 3). Moreover, the cDNA obtained from dispensed B cells were suitable\nfor both downstream single cell transcriptome library generation and PCR of the full length of\nimmunoglobulin heavy and light chain variable domains (fig. 4). In conclusion, the Namocell Single\nCell Dispenser provides a fast and gentle benchtop sorting and dispensing platform for seamless\ndownstream single cell sequencing." + }, + { + "id": 192557, + "strid": "8c1aca57-a6f7-4024-b06e-a0a40d794a98", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 376.91, + 44.83, + 225.01999999999992, + 91.22000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 192529, + 192531, + 192530, + 192532, + 192528, + 192533, + 192526, + 192527, + 192525 + ], + "area": 16896.8753, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192533, + "strid": "ae9891e3-04d0-443b-a882-1f4e2d6e1823", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 718.278, + 55.752, + 4279.805, + 134.578 + ], + "priority": 1, + "parents": [ + 192557 + ], + "children": [], + "area": 40045.435056, + "iscrowd": 0, + "segmentation": [], + "text": "Contextual Saccade Adaptation as a tool to investigate Sequential Saccades." + }, + { + "id": 192532, + "strid": "e0bab8b7-0f18-4744-bbd1-2032edf6e9ed", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 2010.742, + 212.53, + 1692.3130000000003, + 181.00999999999996 + ], + "priority": 2, + "parents": [ + 192557 + ], + "children": [], + "area": 427342.99726, + "iscrowd": 0, + "segmentation": [], + "text": "Rakesh Nanjappa', Reza Azadi ', Robert M McPeek !\nGraduate Center for Vision Research, SUNY College of Optometry" + }, + { + "id": 192530, + "strid": "65a5ecd9-acf9-4c66-ba78-e0f32aa55a13", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 533.531, + 571.957, + 415.0799999999999, + 54.49400000000003 + ], + "priority": 3, + "parents": [ + 192557 + ], + "children": [ + 192518 + ], + "area": 305156.79016699997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192518, + "strid": "4d0a736a-b99f-43cd-bb26-568c7aac8374", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.536, + 654.044, + 1299.621, + 1028.165 + ], + "priority": 4, + "parents": [ + 192530 + ], + "children": [], + "area": 64446.879584, + "iscrowd": 0, + "segmentation": [], + "text": "The gain of a given saccade vector adapts rapidly in\nresponse to error feedback.\n\nWhen the same saccade is made in two different con-\ntexts, the gain can be simultaneously modulated in\nopposite directions for those contexts, called contex-\ntual saccade adaptation. Visual contexts like target\nmotion direction and speed have been shown to\ninduce contextual saccade adaptation’, and also sep-\narate adaptation mechanisms have been suggested\nfor reactive and scanning saccades’.\n\nIn this study we used single and sequential saccades\nas different contexts to explore the possibility of in-\nducing contextual adaptation, which would suggest\nthat these two types of saccades are processed/exe-\ncuted differently by the oculomotor system." + }, + { + "id": 192531, + "strid": "629f994f-cb04-42d1-b7e2-1dd3bf45ed80", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 205.953, + 1825.012, + 1202.903, + 129.36899999999991 + ], + "priority": 5, + "parents": [ + 192557 + ], + "children": [ + 192519, + 192539, + 192540, + 192538, + 192534 + ], + "area": 375866.696436, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 1 : Single Vs Sequential\nSaccades" + }, + { + "id": 192519, + "strid": "5eedc9f3-abd1-40e0-b9b6-8d27c0ba8925", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 83.156, + 1974.176, + 1438.839, + 176.529 + ], + "priority": 6, + "parents": [ + 192531 + ], + "children": [], + "area": 164164.579456, + "iscrowd": 0, + "segmentation": [], + "text": "Does saccadic gain transfer between interleaved conditions of\nsingle and sequential saccades when the final target is stepped\nin opposite directions?" + }, + { + "id": 192538, + "strid": "c8bf6e6f-0e87-4b4e-b3cb-3a994d92b8b9", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 96.07, + 2175.671, + 1436.044, + 1702.051 + ], + "priority": 7, + "parents": [ + 192531 + ], + "children": [], + "area": 209016.71296999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192534, + "strid": "698001f9-ac5e-4a20-9c23-fbcc8a78d64b", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1643.898, + 593.904, + 1023.9730000000002, + 912.8490000000002 + ], + "priority": 8, + "parents": [ + 192531 + ], + "children": [ + 192554 + ], + "area": 976317.5977919999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192554, + "strid": "8d632ba6-be50-4fc3-8c10-ecd9586281d3", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1591.186, + 1518.968, + 1147.9199999999998, + 262.67899999999986 + ], + "priority": 9, + "parents": [ + 192534 + ], + "children": [], + "area": 2416960.616048, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 : Normalised mean saccadic amplitude for interleaved condi-\ntions of single (target step forward; blue line) and sequential sac-\ncades (step back; red line) for a typical subject across trials. Each\ndot shows individual trial value. Trials within the two dashed lines\nare of adaptation phase." + }, + { + "id": 192540, + "strid": "3eac6e48-58b4-440a-8e7c-037adf562c4a", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1596.456, + 1850.174, + 1147.847, + 657.364 + ], + "priority": 10, + "parents": [ + 192531 + ], + "children": [ + 192555 + ], + "area": 2953721.3833439997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192555, + "strid": "7e75da1f-cbd5-441b-b34e-072a613c1b3f", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1587.081, + 2560.603, + 1140.543, + 220.8040000000001 + ], + "priority": 11, + "parents": [ + 192540 + ], + "children": [], + "area": 4063884.369843, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 : Mean saccadic amplitude difference between baseline and\nadpatation phase of 7 subjects for interleaved conditions of single\n(target-step forward; blue) and sequential saccade (step backward;\nred) across trials. Shaded region shows standard error of the mean." + }, + { + "id": 192539, + "strid": "2f13188f-7920-44e4-861c-dfbf47b717af", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1591.619, + 2857.803, + 1135.1500000000003, + 755.4780000000001 + ], + "priority": 12, + "parents": [ + 192531 + ], + "children": [ + 192556 + ], + "area": 4548533.553056999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192556, + "strid": "27b77e47-27d1-4fcd-837f-1e0579e228a9", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1596.225, + 3625.234, + 1134.188, + 248.4720000000002 + ], + "priority": 13, + "parents": [ + 192539 + ], + "children": [], + "area": 5786689.14165, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 : Each white dash shows individual subject’s mean saccadic\namplitude difference between the two contexts for adaptation (left)\nand post-adaptation phase (right). Colored regions show 95% CIs.\nHorizontal black stripe denotes overall means for all subjects while\nthe gray region around it shows 95% CI." + }, + { + "id": 192529, + "strid": "dda7a582-8039-4fc7-9b62-06d8e386f558", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3356.54, + 568.934, + 472.94900000000007, + 79.18200000000002 + ], + "priority": 14, + "parents": [ + 192557 + ], + "children": [ + 192523, + 192535, + 192536, + 192537 + ], + "area": 1909649.7283599998, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 2" + }, + { + "id": 192523, + "strid": "eb0321d9-5763-4cb1-aa88-febb7f40c216", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2935.457, + 667.548, + 1319.9940000000001, + 136.14300000000003 + ], + "priority": 15, + "parents": [ + 192529 + ], + "children": [], + "area": 1959558.4494359998, + "iscrowd": 0, + "segmentation": [], + "text": "Does adaptation depend on the direction of the previous\nsaccade ?" + }, + { + "id": 192535, + "strid": "c0306f22-4d88-4309-bff0-3c81687c1172", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2858.77, + 842.441, + 470.9340000000002, + 905.4660000000001 + ], + "priority": 16, + "parents": [ + 192529 + ], + "children": [], + "area": 2408345.05757, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192536, + "strid": "93b6da65-0fa1-4eda-8f02-facc56b608f0", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3354.729, + 842.441, + 948.6920000000005, + 698.4379999999999 + ], + "priority": 17, + "parents": [ + 192529 + ], + "children": [ + 192550 + ], + "area": 2826161.253489, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192550, + "strid": "e09daa8d-d042-4df0-9e25-7a73e82aa523", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3386.401, + 1549.731, + 917.0929999999998, + 199.32799999999997 + ], + "priority": 18, + "parents": [ + 192536 + ], + "children": [], + "area": 5248010.608131, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4 : Mean saccadic amplitude difference between\nbaseline and adaptation phase of 5 subjects for inter-\nleaved conditions of left (target-step forward; blue) and\nright (step backward; blue) originating previous sac-\ncades." + }, + { + "id": 192537, + "strid": "5d800e40-8180-4112-9c1f-25813d06d8c8", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2998.521, + 1755.419, + 1234.3740000000003, + 599.925 + ], + "priority": 19, + "parents": [ + 192529 + ], + "children": [ + 192551 + ], + "area": 5263660.7352990005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192551, + "strid": "3812a335-d830-4376-b9e3-a872be6e48ba", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2914.146, + 2357.728, + 1376.5270000000005, + 121.25900000000001 + ], + "priority": 20, + "parents": [ + 192537 + ], + "children": [], + "area": 6870763.620288, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5 : Each individual subject’s mean saccadic amplitude difference between the\ntwo contexts for adaptation (left) and post-adaptation phase (right). Conventions\nsame as Fig. 3" + }, + { + "id": 192528, + "strid": "9644525a-d2e4-4211-90af-ddad85828f6e", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 5000.047, + 573.169, + 450.54699999999957, + 67.95399999999995 + ], + "priority": 21, + "parents": [ + 192557 + ], + "children": [ + 192546, + 192547, + 192545, + 192522 + ], + "area": 2865871.9389429996, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 3" + }, + { + "id": 192522, + "strid": "100fbcd6-2ae5-43d7-9988-c4d2e80cd343", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4608.915, + 676.004, + 1227.4000000000005, + 126.418 + ], + "priority": 22, + "parents": [ + 192528 + ], + "children": [], + "area": 3115644.97566, + "iscrowd": 0, + "segmentation": [], + "text": "Does adaptation depend on the direction of the future\nsaccade 2" + }, + { + "id": 192545, + "strid": "d623b7cb-8a1c-4a75-9177-3aa6457d9d37", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4462.351, + 847.841, + 421.1130000000003, + 886.295 + ], + "priority": 23, + "parents": [ + 192528 + ], + "children": [], + "area": 3783364.134191, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192546, + "strid": "0a9344ba-351d-495a-98f4-74553b2ee4c1", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4935.232, + 851.292, + 964.2870000000003, + 677.1840000000001 + ], + "priority": 24, + "parents": [ + 192528 + ], + "children": [ + 192553 + ], + "area": 4201323.519744, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192553, + "strid": "88b50945-a66f-43ef-959e-0926a2026abf", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4948.514, + 1550.328, + 944.527, + 191.36699999999996 + ], + "priority": 25, + "parents": [ + 192546 + ], + "children": [], + "area": 7671819.812592, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 6 : Mean saccadic amplitude difference between\nbaseline and adaptation phase of 3 subjects for inter-\nleaved conditions of left (target-step forward; blue) and\nright (step back; red) terminating future saccades across\ntrials." + }, + { + "id": 192547, + "strid": "d659eb3e-2a3a-49a8-ab6d-b0fab8258ef2", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4581.619, + 1761.117, + 1144.0690000000004, + 570.4109999999998 + ], + "priority": 26, + "parents": [ + 192528 + ], + "children": [ + 192552 + ], + "area": 8068767.108422999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192552, + "strid": "183917ab-81e5-4c8a-9b6b-2a8586706afb", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4456.96, + 2340.202, + 1369.0240000000003, + 127.904 + ], + "priority": 27, + "parents": [ + 192547 + ], + "children": [], + "area": 10430186.705920001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 7 : Each individual subject’s mean saccadic amplitude difference between the\ntwo contexts for adaptation (left) and post-adaptation phase (right). Conventions\nsame as Fig. 3" + }, + { + "id": 192526, + "strid": "6dcd91cb-4e1d-41e6-afed-b59c25929f07", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3563.731, + 2580.683, + 448.8609999999999, + 66.23199999999997 + ], + "priority": 28, + "parents": [ + 192557 + ], + "children": [ + 192520, + 192543, + 192541, + 192542, + 192544 + ], + "area": 9196860.008273, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 4" + }, + { + "id": 192520, + "strid": "2e3fbab7-1f2b-4e7f-9008-47fe122da5a8", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2880.763, + 2681.633, + 1819.8149999999996, + 131.76299999999992 + ], + "priority": 29, + "parents": [ + 192526 + ], + "children": [], + "area": 7725149.125978999, + "iscrowd": 0, + "segmentation": [], + "text": "Does adaptation depend on the ordinal position of the saccade in the sequence\n(first vs. second) 2" + }, + { + "id": 192541, + "strid": "78ae7f8b-543f-4f93-89e3-33585894f639", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2883.321, + 2841.396, + 335.0790000000002, + 960.3939999999998 + ], + "priority": 30, + "parents": [ + 192526 + ], + "children": [], + "area": 8192656.756116, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192544, + "strid": "72fe189b-aebf-48c7-a86f-b5d858e12615", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3903.28, + 2855.154, + 158.17099999999982, + 30.755999999999858 + ], + "priority": 31, + "parents": [ + 192526 + ], + "children": [], + "area": 11144465.50512, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 192542, + "strid": "34df25dd-8c4c-45a8-ad7f-6444b4d8a936", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3270.361, + 2966.212, + 682.9899999999998, + 559.3209999999999 + ], + "priority": 32, + "parents": [ + 192526 + ], + "children": [ + 192548 + ], + "area": 9700584.042531999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192548, + "strid": "6333a4ba-4661-497a-9330-2dbaa02e687a", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3285.212, + 3565.644, + 657.319, + 280.8539999999998 + ], + "priority": 33, + "parents": [ + 192542 + ], + "children": [], + "area": 11713896.456527999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 8 : Mean saccadic amplitude dif-\nference between baseline and adaptation\nphase of 7 subjects for interleaved con-\nditions of first (target-step forward;\nblue) and second (step backward; red)\nordinal positions of the saccade in the\nsequence." + }, + { + "id": 192543, + "strid": "a117d7f5-c92e-40c4-bac3-b3b422375247", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3980.324, + 2955.655, + 705.4119999999998, + 592.2999999999997 + ], + "priority": 34, + "parents": [ + 192526 + ], + "children": [ + 192549 + ], + "area": 11764464.53222, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192549, + "strid": "0e3183f4-4def-4d2f-9e46-f3798ce0bd1d", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4029.04, + 3565.362, + 656.5330000000004, + 208.8119999999999 + ], + "priority": 35, + "parents": [ + 192543 + ], + "children": [], + "area": 14364986.11248, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 9 : Each individual subject’s mean\nsaccadic amplitude difference between\nthe two contexts for adaptation (left)\nand post-adaptation phase (right). Con-\nventions same as Fig. 3" + }, + { + "id": 192527, + "strid": "e2e1bd61-fb7e-4dbc-81b6-4ebf92f7d1c5", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 5180.948, + 2627.829, + 371.0569999999998, + 61.75500000000011 + ], + "priority": 36, + "parents": [ + 192557 + ], + "children": [ + 192521 + ], + "area": 13614645.401892003, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 192521, + "strid": "24ea348f-f1ae-4dab-9d43-fb9b50abd6a1", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4819.306, + 2727.659, + 1088.6019999999999, + 636.625 + ], + "priority": 37, + "parents": [ + 192527 + ], + "children": [], + "area": 13145423.384653999, + "iscrowd": 0, + "segmentation": [], + "text": "Single and sequential saccades were able to be\nadapted simultaneously in opposite directions.\nWithin a sequence, the direction of a previous\nor future saccade, as well as the ordinal position\nof the adapted saccade in the sequence were\nall successful in inducing contextual adaptation.\n\nThese results suggest that the individual sac-\ncades within a sequence are not planned inde-\npendently, but rather are planned together as a\n“oackage” of two movements." + }, + { + "id": 192525, + "strid": "f7950700-4779-485f-8990-0728def683eb", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 5174.312, + 3425.054, + 384.5640000000003, + 55.126000000000204 + ], + "priority": 38, + "parents": [ + 192557 + ], + "children": [ + 192524 + ], + "area": 17722298.012848, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 192524, + "strid": "ebdb25cb-1cbf-4ff0-a68a-e8ceac5faa05", + "image_id": 208020, + "image_name": "9239.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 4819.281, + 3522.501, + 1116.8580000000002, + 324.645 + ], + "priority": 39, + "parents": [ + 192525 + ], + "children": [], + "area": 16975922.141781002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4287, + "strid": "22663fff-b7e0-4d3a-8561-f8c95cc77ac4", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 4.11, + 3.95, + 26.7, + 27.09 + ], + "priority": -1, + "parents": [], + "children": [ + 4271, + 4269, + 4268, + 4284, + 4270, + 4275, + 4285 + ], + "area": 16.2345, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4268, + "strid": "e8c746a6-1e77-4583-a03b-917ca2bb1f72", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 93.902, + 10.976, + 663.415, + 82.927 + ], + "priority": 1, + "parents": [ + 4287 + ], + "children": [], + "area": 1030.6683520000001, + "iscrowd": 0, + "segmentation": [], + "text": "GENETIC DIVERSITY ANALYSIS, SEQUENCE MOTIF\nCOMPARISON AND HOMOLOGY MODELING OF VPg FROM\nBANANA BRACT MOSAIC VIRUS" + }, + { + "id": 4269, + "strid": "c5a13096-cf9a-4c84-84a3-4c1c7f7300ed", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 193.902, + 107.317, + 462.195, + 57.31699999999999 + ], + "priority": 2, + "parents": [ + 4287 + ], + "children": [], + "area": 20808.980933999996, + "iscrowd": 0, + "segmentation": [], + "text": "Anuradha C and Selvarajan R\nMolecular Virology Lab, ICAR-National Research Centre for Banana\nThogamalai Road, Thayanur Post, Trichy-620102" + }, + { + "id": 4270, + "strid": "9b87e4cc-8072-4e67-8ff5-97dd2916ba2b", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 38.303, + 171.976, + 105.774, + 17.421999999999997 + ], + "priority": 3, + "parents": [ + 4287 + ], + "children": [ + 4272 + ], + "area": 6587.196728, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 4272, + "strid": "8d6e1fb2-2575-46e6-8f80-774be4a82844", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 25.236, + 190.02, + 390.742, + 123.196 + ], + "priority": 4, + "parents": [ + 4270 + ], + "children": [], + "area": 4795.34472, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4271, + "strid": "8e26becc-e8ea-4ba9-abca-9546b1a2376b", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 447.088, + 171.976, + 178.57099999999997, + 14.311000000000007 + ], + "priority": 5, + "parents": [ + 4287 + ], + "children": [ + 4273 + ], + "area": 76888.40588800001, + "iscrowd": 0, + "segmentation": [], + "text": "MATERIALS AND METHODS" + }, + { + "id": 4273, + "strid": "e283df0f-999e-44d7-9739-dc25df0b08b5", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 435.266, + 189.398, + 362.743, + 125.06199999999998 + ], + "priority": 6, + "parents": [ + 4271 + ], + 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"10539.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 32.39, + 543.545, + 530.431, + 78.73199999999997 + ], + "priority": 9, + "parents": [ + 4275 + ], + "children": [ + 4276 + ], + "area": 17605.42255, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4276, + "strid": "e2e66376-21cc-492c-855d-61044711437c", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 31.49, + 510.702, + 528.182, + 30.59299999999996 + ], + "priority": 10, + "parents": [ + 4277 + ], + "children": [], + "area": 16082.00598, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Analysis of evolutionay distance, SNP, Indels and Ks/Ka rat\nVP gene of BBrMV isolate\n\nand percentage sequence identity of" + }, + { + "id": 4281, + "strid": "fed3b0e5-e79d-4640-a101-4796b2359c52", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 34.039, + 644.072, + 556.976, + 151.61599999999999 + ], + "priority": 11, + "parents": [ + 4275 + ], + "children": [ + 4278 + ], + "area": 21923.566808, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4278, + "strid": "44ea7caf-849d-4895-a744-3c35fa02733d", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 33.74, + 624.527, + 471.045, + 16.645999999999958 + ], + "priority": 12, + "parents": [ + 4281 + ], + "children": [], + "area": 21071.54098, + "iscrowd": 0, + "segmentation": [], + "text": "1 Multiple sequence alignment of VPg from different potyviruses including BBrMV isolates" + }, + { + "id": 4280, + "strid": "4e331129-fec3-4167-b027-21a105611904", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 601.163, + 548.444, + 214.60199999999998, + 310.43100000000004 + ], + "priority": 13, + "parents": [ + 4275 + ], + "children": [ + 4279 + ], + "area": 329704.240372, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4279, + "strid": "3d276ae8-4bf1-4e87-921d-59b206fb91c2", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 567.87, + 511.602, + 244.745, + 27.44399999999996 + ], + "priority": 14, + "parents": [ + 4280 + ], + "children": [], + "area": 290523.42774, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: The sequence motifs identified in VPg of\nBanana Bract Mosaic Virus" + }, + { + "id": 4283, + "strid": "1d4c1e91-b1ae-4c5c-89b9-aa6b7057e3a8", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 33.29, + 841.728, + 472.844, + 152.966 + ], + "priority": 15, + "parents": [ + 4275 + ], + "children": [ + 4282 + ], + "area": 28021.125119999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4282, + "strid": "103c49c3-8060-4fc9-a0ca-d833342d49c0", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 33.74, + 798.988, + 545.278, + 41.84100000000001 + ], + "priority": 16, + "parents": [ + 4283 + ], + "children": [], + "area": 26957.855120000004, + "iscrowd": 0, + "segmentation": [], + "text": "23D Structure of BBrMV HC-Pro. (a) Diagram of the BBrMV RNA genome, the domain orgar\nVPs, and the region used for modelling. (b) 3D structural model of BBrMV VPg. (c) 3D model of BBrMY VPg\nshowing the Tyr and Tyr! (blue) are shown as sticks. (d) Ramachandran plot for the BBrMV VPg." + }, + { + "id": 4284, + "strid": "0e426715-7785-4851-bb2c-e22e39b59a23", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 509.833, + 868.972, + 304.58199999999994, + 91.33000000000004 + ], + "priority": 17, + "parents": [ + 4287 + ], + "children": [], + "area": 443030.601676, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4285, + "strid": "179697cd-258f-4f8c-8c20-fdfbd6ce729c", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 35.489, + 1002.142, + 107.226, + 14.996999999999957 + ], + "priority": 18, + "parents": [ + 4287 + ], + "children": [ + 4286 + ], + "area": 35565.017438, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSION" + }, + { + "id": 4286, + "strid": "9cf03668-dd47-4d66-84f4-19861693061d", + "image_id": 200676, + "image_name": "10539.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 24.242, + 1021.638, + 794.822, + 62.23599999999999 + ], + "priority": 19, + "parents": [ + 4285 + ], + "children": [], + "area": 24766.548396000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62806, + "strid": "9de054fe-7d31-411f-af1f-7980e62b5c16", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 272.71, + 64.76, + 433.46999999999997, + 168.57 + ], + "priority": -1, + "parents": [], + "children": [ + 62801, + 62792, + 62800, + 62791, + 62793, + 62802, + 62790, + 62794, + 62795 + ], + "area": 17660.6996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62790, + "strid": "3352923f-7f0a-45db-908b-d30e13488c1a", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 900.375, + 99.049, + 1589.0950000000003, + 381.68000000000006 + ], + "priority": 1, + "parents": [ + 62806 + ], + "children": [], + "area": 89181.243375, + "iscrowd": 0, + "segmentation": [], + "text": "* First HIV VirafLoad after\nImplementation of Viral Load:\nMonitoring¢in Patients on ART" + }, + { + "id": 62791, + "strid": "c2ffcf16-edaf-41f1-9918-a3e397a437f9", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 73.338, + 634.845, + 3232.249, + 304.33400000000006 + ], + "priority": 2, + "parents": [ + 62806 + ], + "children": [], + "area": 46558.26261, + "iscrowd": 0, + "segmentation": [], + "text": "Carol Metcalf,’ Tom Ellman,’ Lucy Anne Parker,? Helen Bygrave*,' Kiran Jobanputra,? Roger Teck,':? Daniela Garone,*\nWalter Kizito,* Dnodho Munyaradzi,° Anthoney Tebulo,? Kelly Khabala,* Sandrina Simons,° Velephi Okello®\n\n1: MSF Southern Africa Medical Unit (SAMU); 2: MSF OCG, Swaziland; 3: MSF OCB, Malawi;\n4: MSF OCB, Kenya; 5: MSF OCB, Zimbabwe; 6: Swaziland National AIDS Programme (SNAP)" + }, + { + "id": 62792, + "strid": "e3b2b720-2353-4eeb-a98b-5da1c78ba0b7", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 139.677, + 1076.769, + 390.918, + 57.0920000000001 + ], + "priority": 3, + "parents": [ + 62806 + ], + "children": [ + 62796 + ], + "area": 150399.863613, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62796, + "strid": "b52eca60-38e6-4f93-90f8-0abe16547552", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 135.236, + 1157.857, + 1465.4830000000002, + 598.2179999999998 + ], + "priority": 4, + "parents": [ + 62792 + ], + "children": [], + "area": 156583.949252, + "iscrowd": 0, + "segmentation": [], + "text": "The World Health Qtganization (WHO) or thaf\npatients taking antiretroviral therapy (ART) for H ave\nroutine viral load . (VL) monitoring to identify p with\npoor adherenée or viral resistance. Several sac rojects\nare assistifg ministries of health with 1 enting VL\nmonit ring? in settings where it has unavailable\npreview y. The purpose of this analy was to identify\nacre associated with a high V, Nin order to identify\nups that should be prioritised for WL testing. ." + }, + { + "id": 62793, + "strid": "3be6bdde-5d56-44b6-a2af-6109880d824a", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 137.776, + 1958.815, + 273.88, + 56.60799999999995 + ], + "priority": 5, + "parents": [ + 62806 + ], + "children": [ + 62797 + ], + "area": 269877.69544000004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 62797, + "strid": "e8b7138d-f493-4728-b7d7-6e05c4a58f66", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.101, + 2038.555, + 1468.194, + 807.0959999999998 + ], + "priority": 6, + "parents": [ + 62793 + ], + "children": [], + "area": 269295.154055, + "iscrowd": 0, + "segmentation": [], + "text": "llected data of 21,909 patients.in\nprogrammes in Kenya, lawi,\nSwaziland, a imbabwe, we did a multivaria nalysis\nof cross-s al data of the first ever VL t esults of\npatients tested between October 2011.and May 2013\naccording to local testing protocols, an easured using\nBioggntric (Swaziland), Rio Merle (Malawi and\nZifibabwe), or Roche (Kenya) anal iS\n\nAdjusted risk ratios (aRR) were d to determine factors\nassociated with a high VL “Gs copies/ml).\n\nThe analysis met the MSFNEREB criteria for an exemption\nfrom full ethics review... \\G \\\n\nUsing retrospectively-\nMSF-supported" + }, + { + "id": 62795, + "strid": "80321e8b-386a-4d78-9b23-03c728e52f81", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1788.319, + 1071.341, + 221.21299999999997, + 50.093000000000075 + ], + "priority": 7, + "parents": [ + 62806 + ], + "children": [ + 62798 + ], + "area": 1915899.4657789997, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 62798, + "strid": "64f88343-21a7-4da7-ba64-2df8f50a9c78", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1780.284, + 1154.708, + 1476.199, + 962.645 + ], + "priority": 8, + "parents": [ + 62795 + ], + "children": [], + "area": 2055708.1770720002, + "iscrowd": 0, + "segmentation": [], + "text": "Of the patients, 6.9% AS ie <15 years, and 5.5%\nsuspected treatment failure. Of those aged 15 to 60 y ;\nthe median time om ART was 33 months, and Ea eee\nfemale.\n\nOverall, 120% had a high VL, ranging fr 10.1% in\nMalawi, td) 14.3% in Zimbabwe (Figurés7). VL was\nunde le or <1,000 copies/ml in 87 * 1,000 — 5,000\ncopiés/ml in 4.4%; and 25,000 coplesitt 8.6%.\n\nOhh of a high VL (Figure 2) w < gher among children\n1=10 years), adolescents (10 — ears) and young adults\n(20 — 25 years) those aged ears; higher among males\nthan females; and higher.@mong patients with suspected\ntreatment failure than having routine monitoring, bat\nthere was no trend by’time on ART. 0;" + }, + { + "id": 62800, + "strid": "3be227c6-629c-49e1-bcea-44c07bdebf11", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1728.935, + 2201.718, + 916.6330000000003, + 688.357 + ], + "priority": 9, + "parents": [ + 62806 + ], + "children": [ + 62799 + ], + "area": 3806627.31033, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62799, + "strid": "b9ec366b-2527-4c5b-8454-10682bc644a2", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2697.175, + 2436.618, + 492.40200000000004, + 155.46000000000004 + ], + "priority": 10, + "parents": [ + 62800 + ], + "children": [], + "area": 6571985.15415, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: A member of staff with the\nform used for reporting viral load\nresults in Zimbabwe.\n\nPhoto courtesy Helen Bygrave" + }, + { + "id": 62801, + "strid": "7775aca9-65e1-4547-89da-16d98c922490", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 270.059, + 2998.382, + 1199.952, + 837.069 + ], + "priority": 11, + "parents": [ + 62806 + ], + "children": [ + 62804 + ], + "area": 809740.0445380001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62804, + "strid": "964580d6-f463-4c4a-9c01-79b115e0e4bd", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 421.668, + 3949.022, + 884.5589999999999, + 77.29899999999998 + ], + "priority": 12, + "parents": [ + 62801 + ], + "children": [], + "area": 1665176.208696, + "iscrowd": 0, + "segmentation": [], + "text": "Mere 2: Total mumber of samples tested and number of sam\nwith a VL =1,000 copies/ml, by country im" + }, + { + "id": 62802, + "strid": "1002266d-2e31-452f-be1d-b069cedf9225", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1803.883, + 3003.426, + 1279.4620000000002, + 918.3110000000001 + ], + "priority": 13, + "parents": [ + 62806 + ], + "children": [ + 62803 + ], + "area": 5417829.103158, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62803, + "strid": "ac78eb3b-0837-4845-965c-278ef5b19e53", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1937.126, + 3949.185, + 1027.41, + 35.55799999999999 + ], + "priority": 14, + "parents": [ + 62802 + ], + "children": [], + "area": 7650068.94231, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Risk @f@ VL =1,000 copies/inl according to patient characteristics" + }, + { + "id": 62794, + "strid": "6f9e244f-10df-4357-909d-41203da15332", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.651, + 4194.883, + 1026.888, + 53.11499999999978 + ], + "priority": 15, + "parents": [ + 62806 + ], + "children": [ + 62805 + ], + "area": 518701.47783299995, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion and Recommendations" + }, + { + "id": 62805, + "strid": "f0ab444e-acf5-4872-9b91-ca7d2985f3f4", + "image_id": 202975, + "image_name": "119530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.915, + 4271.232, + 3140.524, + 262.6859999999997 + ], + "priority": 16, + "parents": [ + 62794 + ], + "children": [], + "area": 520727.24928000005, + "iscrowd": 0, + "segmentation": [], + "text": "Avsubstantial proportion of patients. without suspected treatment failure had a high VL, demonstrating the importance of routine\nVL monitoring. However, pr (ammes phasing-in routine VL monitoring should prioritise testi f those with suspected\n\ntreatment failure or aged oO ears, and should also providecifterventions to improve ART adHerence among patients with a\nhigh VL in order to avert treatment failure. ~y @" + }, + { + "id": 34367, + "strid": "c15e45e8-8995-4915-8a13-bf54844e0460", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2.51, + 152.22, + 38.02, + 67.28 + ], + "priority": -1, + "parents": [], + "children": [ + 34355, + 34364, + 34359, + 34358, + 34357, + 34356 + ], + "area": 382.07219999999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34355, + "strid": "e06cf9c7-4688-4d43-b273-78a37d97a2df", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 38.318, + 33.057, + 751.646, + 113.99399999999999 + ], + "priority": 1, + "parents": [ + 34367 + ], + "children": [], + "area": 1266.678126, + "iscrowd": 0, + "segmentation": [], + "text": "INVESTIGATION OF THE ASSOCIATION\nBETWEEN BLOOD SODIUM AND\nCALCIUM IONS" + }, + { + "id": 34356, + "strid": "18c78941-e15a-4080-84c2-d5271d00299c", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 58.659, + 157.061, + 712.872, + 72.47 + ], + "priority": 2, + "parents": [ + 34367 + ], + "children": [], + "area": 9213.041199000001, + "iscrowd": 0, + "segmentation": [], + "text": "Omer Kurti, Fatih Bulucul, Mustafa Cakar1, Fatih Yesildal2 and Hakan Sarlak1\n\nInternal Medicine, Gulhane Medical Faculty, Ankara, Turkey and 2Clinical Biochemistry, Gulhane Medical\nFaculty, Ankara, Turkey, 06100." + }, + { + "id": 34357, + "strid": "b9b745c6-09f6-4536-b636-6dce3e778c49", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.918, + 259.036, + 65.15699999999998, + 16.269000000000005 + ], + "priority": 3, + "parents": [ + 34367 + ], + "children": [ + 34360 + ], + "area": 32099.223048000003, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives:" + }, + { + "id": 34360, + "strid": "84b5059a-759b-444e-a21f-9aeef247054d", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.574, + 312.249, + 741.939, + 139.55 + ], + "priority": 4, + "parents": [ + 34357 + ], + "children": [], + "area": 14230.435926, + "iscrowd": 0, + "segmentation": [], + "text": "Na+ and Ca++ ions play essential roles in action potentials in certain smooth muscle cells and in neurotransmitter\nfunctions. The Na+/Ca++ exchanger, an ion transport protein, is expressed in the plasma membrane of virtually all\nanimal cells. This ATP-driven Na+-Ca++ exchanger pump on plasma membrane gets out the inner Ca++ ions and\ntakes the outer Na+ ions into the cells. Beyond the endocrine and renal control mechanisms on these ions, there may\nbe further associations between these ions. We aimed to investigate the association between levels of serum Nat\n\nand Ca++ ions." + }, + { + "id": 34358, + "strid": "ba8467d0-5eca-465e-aabb-053965cb13cc", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.869, + 474.897, + 56.488, + 12.692999999999984 + ], + "priority": 5, + "parents": [ + 34367 + ], + "children": [ + 34361 + ], + "area": 58350.119493, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34361, + "strid": "0826d0d3-8849-4f3b-9d27-920d4082f1a5", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 44.913, + 536.875, + 742.673, + 70.52099999999996 + ], + "priority": 6, + "parents": [ + 34358 + ], + "children": [], + "area": 24112.666875, + "iscrowd": 0, + "segmentation": [], + "text": "We recruited 21811 seperate arterial blood gas analysis reports in the study, obtained in different time points\nand mainly from different patients. Reports were taken in a raw digital format from the blood gas analyzer\n\ndevices." + }, + { + "id": 34359, + "strid": "c7979d25-f6ed-4724-a28b-e2fc195772e9", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.971, + 634.062, + 46.483000000000004, + 12.232999999999947 + ], + "priority": 7, + "parents": [ + 34367 + ], + "children": [ + 34362 + ], + "area": 77971.23820200001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34362, + "strid": "12f7551e-9b6b-4753-83c7-98c874477138", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 43.32, + 695.889, + 743.059, + 184.42200000000003 + ], + "priority": 8, + "parents": [ + 34359 + ], + "children": [], + "area": 30145.91148, + "iscrowd": 0, + "segmentation": [], + "text": "4941(22,65%) reports were gathered from biochemistry laboratory, 4430(20,3%) from the internal medicine\nintensive care unit(ICU), 4952(22,7%) from the anaesthesia ICU, 2540(11,6%) from chest diseases\ndepartment and 4948(22,68%) from cardiovascular surgery ICU. Na* ion levels were between 102,6-\n189,5(140,5927,13) meq/L. Ca‘* ion levels were between 0,25-2,18(1,00320,181) mmol/L. There was a\nsignificant negative correlation between serum Ca** and Nations (Spearman's rho, r=-0,241, p<0,001). At\nthe linear regression analysis in the whole group, total Ca** ion levels fell 0,005 mmol/L in any 1 meq/L\n\nincrease in Na* ions (Figure)." + }, + { + "id": 34364, + "strid": "6a73be26-8159-4b99-b350-9a6a7b817f05", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.914, + 923.602, + 72.681, + 12.948999999999955 + ], + "priority": 9, + "parents": [ + 34367 + ], + "children": [ + 34366, + 34363, + 34365 + ], + "area": 114447.218228, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 34363, + "strid": "6139c27b-18ef-449f-9d0c-df1e69ad82c3", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.865, + 976.998, + 370.3, + 140.68200000000002 + ], + "priority": 10, + "parents": [ + 34364 + ], + "children": [], + "area": 44810.01327, + "iscrowd": 0, + "segmentation": [], + "text": "Our results show that the levels of blood Ca** and Na* ions\nhave a significant correlation according to the blood gas\nanalysis reports. The decreasing Na* ions reflect\nincreasing Ca** ions. These data may point to the function\nof the membrane Na‘/Ca‘* exchanger protein and the\n\nneuromuscular funétiohs of these ions." + }, + { + "id": 34365, + "strid": "b01f5ed3-843f-41d4-82bd-0eeb6c057209", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 442.428, + 887.439, + 307.029, + 244.05100000000004 + ], + "priority": 11, + "parents": [ + 34364 + ], + "children": [], + "area": 392627.86189199996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34366, + "strid": "4ecd346f-9914-4d99-9e3f-339664bd5f11", + "image_id": 201850, + "image_name": "117775.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 413.084, + 1136.104, + 364.9959999999999, + 19.7650000000001 + ], + "priority": 12, + "parents": [ + 34364 + ], + "children": [], + "area": 469306.38473600004, + "iscrowd": 0, + "segmentation": [], + "text": "OE ne tee tree, togeritanc and quadratic masopigions batunen bibod levels of Na*and Car ans\nco Jsbtt capevate teed wee are reat" + }, + { + "id": 26903, + "strid": "1bcd53ee-0aa2-4bb6-8248-eb37dab01f1d", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 702.01, + 264.06, + 206.64999999999998, + 152.75 + ], + "priority": -1, + "parents": [], + "children": [ + 26873, + 26865, + 26871, + 26867, + 26870, + 26872, + 26868, + 26869, + 26866 + ], + "area": 185372.7606, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 26865, + "strid": "851aaa07-1b21-47be-85a9-2706f7b91bcb", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 922.038, + 238.638, + 3785.0219999999995, + 133.01199999999997 + ], + "priority": 1, + "parents": [ + 26903 + ], + "children": [], + "area": 220033.304244, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 26866, + "strid": "40b86aab-e22b-4681-b512-1c6096608127", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 857.812, + 475.145, + 3864.6280000000006, + 147.51999999999998 + ], + "priority": 2, + "parents": [ + 26903 + ], + "children": [], + "area": 407585.08274, + "iscrowd": 0, + "segmentation": [], + "text": "R. Andrew Sewell MD, Albert Perrino MD, James Kim MD, Mohini Ranganathan MD, Ashley Schnakenberg BS, Lawrence Rispoli BA, and D. Cyril D’Souza MD\nYale University School of Medicine, New Haven, CT and VA Healthcare System, West Haven, CT" + }, + { + "id": 26867, + "strid": "a9b2d5f7-c573-4c7a-adb7-fd2d00a3722a", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 422.62, + 737.074, + 816.0779999999999, + 81.16700000000003 + ], + "priority": 3, + "parents": [ + 26903 + ], + "children": [ + 26877, + 26874, + 26876, + 26894, + 26875, + 26886 + ], + "area": 311502.21388, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 26874, + "strid": "bc55d017-dafb-4200-ad6f-ccc02cfc72e9", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 178.282, + 844.912, + 1303.255, + 729.5139999999999 + ], + "priority": 4, + "parents": [ + 26867 + ], + "children": [], + "area": 150632.60118400003, + "iscrowd": 0, + "segmentation": [], + "text": "There are six different types of acute pain, each modulated by different\nneurotransmitters and nerve pathways:\n\nPAIN TYPE HOW TESTED\n\nChemical pain Capsaicin injection\n\nThermal pain (cold) Thermodes or the cold pressor test\nThermal pain (hot) Thermodes\n\nElectrical pain Transcutaneous electrical stimulation\nVisceral pain Visceromotor\n\nMechanical pain Pinprick or von Frey esthesiometer\n\nANIMAL STUDIES: Cannabinoids are equipotent with opioids in virtually every pain\nmodel tested (thermal, mechanical, chemical).\n\nHUMAN STUDIES: Most show no effect of cannabinoids on acute pain; some show\nnociception, and others antinociception." + }, + { + "id": 26894, + "strid": "40453782-4f21-48d4-b2cc-bbbc3d888eac", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 172.928, + 1597.931, + 1320.763, + 1124.013 + ], + "priority": 5, + "parents": [ + 26867 + ], + "children": [], + "area": 276327.011968, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 26875, + "strid": 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No significant difference between low and high\ndoses of A?-THC and placebo; possibly even a hyperalgesic effect." + }, + { + "id": 26901, + "strid": "5dfcc33f-6864-45a1-9230-6a3de00188f7", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3337.265, + 2268.479, + 887.7660000000001, + 1028.7350000000001 + ], + "priority": 30, + "parents": [ + 26872 + ], + "children": [], + "area": 7570515.569934999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 26882, + "strid": "5602cbdc-5af8-4e93-80bb-bde6b6635251", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3381.508, + 3346.678, + 841.7889999999998, + 126.3119999999999 + ], + "priority": 31, + "parents": [ + 26872 + ], + "children": [], + "area": 11316818.430424, + "iscrowd": 0, + "segmentation": [], + "text": "Electrical pain: No significant difference in\nelectrical pain threshold or tolerance at any A°-THC\ndose." + }, + { + "id": 26900, + "strid": "421e8d53-e7c7-4e67-8576-1e04ba266799", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4614.942, + 1468.333, + 910.1000000000004, + 587.451 + ], + "priority": 32, + "parents": [ + 26872 + ], + "children": [], + "area": 6776271.631686, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 26881, + "strid": "ba963e97-ba21-4ae0-82cc-ff29ceaa4f6a", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4639.8, + 2070.054, + 879.567, + 135.58100000000013 + ], + "priority": 33, + "parents": [ + 26872 + ], + "children": [], + "area": 9604636.5492, + "iscrowd": 0, + "segmentation": [], + "text": "Heat tolerance: No significant dose-dependent\ndifference between low and high doses of A°-THC and\nplacebo." + }, + { + "id": 26902, + "strid": "53e78cfe-694d-474d-83a4-a7773f779eb9", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4264.08, + 2284.78, + 1261.3510000000006, + 490.9609999999998 + ], + "priority": 34, + "parents": [ + 26872 + ], + "children": [], + "area": 9742484.7024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 26883, + "strid": "39bac1d3-24c6-423c-9780-5147756d2cc6", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4315.318, + 2797.131, + 1202.7330000000002, + 88.1260000000002 + ], + "priority": 35, + "parents": [ + 26872 + ], + "children": [], + "area": 12070509.752658, + "iscrowd": 0, + "segmentation": [], + "text": "Cold tolerance: Pain score (1-10) rated after 10 seconds at three different\ntemperatures. No significant effects of A7-THC at any temperature or dose." + }, + { + "id": 26873, + "strid": "41d00a7a-ff95-4f91-861e-2c1ff11c33ea", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4539.864, + 2955.601, + 754.0879999999997, + 81.76899999999978 + ], + "priority": 36, + "parents": [ + 26903 + ], + "children": [ + 26885, + 26884 + ], + "area": 13418026.578264, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 26884, + "strid": "c5e19881-3e75-4a9a-b0bc-48b1a0f75c3d", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4321.292, + 3063.189, + 1188.759, + 208.5540000000001 + ], + "priority": 37, + "parents": [ + 26873 + ], + "children": [], + "area": 13236934.120188, + "iscrowd": 0, + "segmentation": [], + "text": "The cannabinoid A?-THC had no antinociceptive effects on acute\npain at either psychoactive or subpsychoactive doses using heat,\ncold, electrical, and capsaicin pain models. This implies that acute\npain may not be an indication for medical cannabis." + }, + { + "id": 26885, + "strid": "7126eba8-00fa-4a02-b6db-5793eed0ec9f", + "image_id": 201563, + "image_name": "117311.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4322.642, + 3341.13, + 1187.5959999999995, + 147.36299999999983 + ], + "priority": 38, + "parents": [ + 26873 + ], + "children": [], + "area": 14442508.86546, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements: The authors wish to acknowledge support from the Department of Veterans Affairs,\nand the Schizophrenia and Neuropharmacology Research Group (SNRG). We also thank Angelina\nGenovese, R.N.C., M.B.A.; Michelle San Pedro, R.N.; Elizabeth O’Donnell, R.N.; Sonah Yoo, R.Ph.;\nRachel Galvan, R.Ph.; and Willie Ford of the Neurobiological Studies Unit at the VA Connecticut\nHealthcare System, West Haven Campus for their central contributions to the success of this project." + }, + { + "id": 96154, + "strid": "842044b0-45bc-4cd9-8a5d-ad7da4a70d0c", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 40.32, + 21.12, + 274.56, + 63.36 + ], + "priority": -1, + "parents": [], + "children": [ + 96119, + 96122, + 96118, + 96123, + 96121, + 96120 + ], + "area": 851.5584, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96118, + "strid": "02129d91-c5e4-4a61-8411-7d9891a0aaad", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 976.89, + 110.746, + 3672.6610000000005, + 128.228 + ], + "priority": 1, + "parents": [ + 96154 + ], + "children": [], + "area": 108186.65994, + "iscrowd": 0, + "segmentation": [], + "text": "Fetal Biometry of Pregnant Women in Khartoum State, Central Sudan" + }, + { + "id": 96119, + "strid": "c16a604c-c210-4cde-b30e-98e715e175ac", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1714.614, + 267.4, + 2687.3250000000003, + 192.16899999999998 + ], + "priority": 2, + "parents": [ + 96154 + ], + "children": [], + "area": 458487.78359999997, + "iscrowd": 0, + "segmentation": [], + "text": "Ahmed E. Mokhtar', Wegdan M: Mustafa?, Qurashi M Ali’\n1. Najran University, Faculty of Medicine 2&3. National University, Faculty of Medicine" + }, + { + "id": 96120, + "strid": "d1cddfcd-45de-4089-b226-b627c2bb6da2", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 764.174, + 645.377, + 410.95399999999995, + 75.86599999999999 + ], + "priority": 3, + "parents": [ + 96154 + ], + "children": [ + 96124 + ], + "area": 493180.32359799993, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 96124, + "strid": "55e3339c-5853-44d3-9621-c8bf913370ca", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 141.536, + 747.432, + 1607.407, + 2268.76 + ], + "priority": 4, + "parents": [ + 96120 + ], + "children": [], + "area": 105788.535552, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction: Ultrasonic measurement of fetal Femur\nLength (FL) and BiPartial Diameter (BPL) is a precise tool\nfor estimation of fetal growth and development. Accurate\nestimation of gestational age is vital for efficient obstetric\nplanning and for Detection of fetal malformation.\n\nObjectives: Assist to construct new reference charts\n\nand equations for fetal biometry in ethnic Sudanese\npopulation, and to compare them with existing references\nfrom different international populations.\n\nMethods: This was a cross sectional study done in\n\nKhartoum — Sudan involving 256 of healthy pregnant women\naged between 18-40 years that were examined by ultrasound\nfor FL and BPL. Women selected were with singleton\npregnancy in the third trimester (30-40weeks). Regression\nmodels were used to estimate the mean and standard\ndeviation of both the FL and the BPD at each gestational age.\nResults: The results demonstrate a linear relationship\nbetween the FL and BPD measurements and the gestational\nAge throughout the third trimester (P<0.001). The mean\nBPD values of Sudanese fetuses measured between 30 to 40\nweeks showed that they are lower than the mean BPD values\nof Caucasian fetuses measured during the same period. The\nmean of FL measured between 30 to 40 weeks of Sudanese\nfetuses was higher when compared to Chinese and\nSingaporean fetuses, but was not significantly different when\ncompared to fetuses from European countries." + }, + { + "id": 96121, + "strid": "50603be2-ee63-4838-8d4c-165be3f7a423", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 793.608, + 3117.062, + 311.60400000000004, + 107.80200000000013 + ], + "priority": 5, + "parents": [ + 96154 + ], + "children": [ + 96147, + 96148, + 96126, + 96146, + 96152, + 96142, + 96143, + 96144, + 96127, + 96151, + 96125, + 96145, + 96153, + 96150, + 96149 + ], + "area": 2473725.339696, + "iscrowd": 0, + "segmentation": [], + "text": "Result" + }, + { + "id": 96126, + "strid": "1d2a3001-ad97-419d-8e0a-14f71c1886aa", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 224.165, + 3299.801, + 654.29, + 409.82299999999987 + ], + "priority": 6, + "parents": [ + 96121 + ], + "children": [], + "area": 739699.8911649999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96127, + "strid": "194a68a2-300e-48e7-ac0d-38e04254d964", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1040.826, + 3282.587, + 618.6120000000001, + 443.8359999999998 + ], + "priority": 7, + "parents": [ + 96121 + ], + "children": [], + "area": 3416601.896862, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96125, + "strid": "72109b84-2a85-47df-b5a1-218ef3f65837", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 112.708, + 3845.963, + 1656.406, + 262.80999999999995 + ], + "priority": 8, + "parents": [ + 96121 + ], + "children": [], + "area": 433470.79780400003, + "iscrowd": 0, + "segmentation": [], + "text": "Ultrasound images shown measurement of Femur Lenghth\nand Pi-barital Diamter , at Ahagra Health Center , Khartoum\nCity,Sudan, using Aloka 650 SSD and Aloka 1100 SSD dynamic\n\nimaging scanner." + }, + { + "id": 96142, + "strid": "d8d9b888-1f15-4a91-b119-b651a5047d09", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1897.846, + 673.182, + 703.576, + 414.2639999999999 + ], + "priority": 9, + "parents": [ + 96121 + ], + "children": [ + 96130 + ], + "area": 1277595.765972, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96130, + "strid": "c941d5e9-14ca-4aed-9649-064bbaba2f52", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1879.69, + 1145.78, + 759.2539999999999, + 119.88200000000006 + ], + "priority": 10, + "parents": [ + 96142 + ], + "children": [], + "area": 2153711.2082, + "iscrowd": 0, + "segmentation": [], + "text": "Table (1) Data Analysis of Femur\nLength (Rate of growth per-week)" + }, + { + "id": 96143, + "strid": "1c4cf3e0-c860-4036-a967-41756686cfa0", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2823.167, + 673.615, + 668.864, + 405.10699999999997 + ], + "priority": 11, + "parents": [ + 96121 + ], + "children": [ + 96131 + ], + "area": 1901727.638705, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96131, + "strid": "c323e3e8-0714-47f7-ac1f-cbf04d819fab", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2747.587, + 1138.287, + 802.9609999999998, + 119.88200000000006 + ], + "priority": 12, + "parents": [ + 96143 + ], + "children": [], + "area": 3127542.563469, + "iscrowd": 0, + "segmentation": [], + "text": "Table2:Data Analysis of BiParital\nDiameter (Rate of growth per-week)" + }, + { + "id": 96149, + "strid": "71e8a4ca-03c0-42f4-9961-15c81ad05cad", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2013.384, + 1328.609, + 495.85199999999986, + 352.30500000000006 + ], + "priority": 13, + "parents": [ + 96121 + ], + "children": [ + 96137 + ], + "area": 2675000.102856, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96137, + "strid": "57c3e3ca-44e6-4e18-85a7-1f687b41aa0b", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1873.518, + 1688.023, + 835.2380000000003, + 191.3420000000001 + ], + "priority": 14, + "parents": [ + 96149 + ], + "children": [], + "area": 3162541.474914, + "iscrowd": 0, + "segmentation": [], + "text": "Fig1: Graph showing means of\nFemur length (Diaphyseal Lengths)\nduring third trimester in Sudan" + }, + { + "id": 96148, + "strid": "796086c5-ddd2-4674-87e3-231b5644e324", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2883.295, + 1310.755, + 526.2669999999998, + 379.155 + ], + "priority": 15, + "parents": [ + 96121 + ], + "children": [ + 96136 + ], + "area": 3779293.3377250005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96136, + "strid": "3fe2af68-095e-496d-9952-6b1af1ed8d6c", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2814.876, + 1721.949, + 715.145, + 184.20399999999995 + ], + "priority": 16, + "parents": [ + 96148 + ], + "children": [], + "area": 4847072.913324, + "iscrowd": 0, + "segmentation": [], + "text": "Fig2: Graph showing mean of\nBiParital Diameter during third\ntrimester in Sudan" + }, + { + "id": 96150, + "strid": "33159f52-778d-494f-b29d-e5add1879764", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2052.637, + 1941.71, + 544.4450000000002, + 430.8380000000002 + ], + "priority": 17, + "parents": [ + 96121 + ], + "children": [ + 96138 + ], + "area": 3985625.7892700005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96138, + "strid": "b8986cbf-9ed7-4b4f-8d76-2d86d4ea9da7", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1913.082, + 2356.858, + 736.7010000000002, + 182.81500000000005 + ], + "priority": 18, + "parents": [ + 96150 + ], + "children": [], + "area": 4508862.616356, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3 : Comparison of Sudanese\n(FL)measurement with Nigerian\nmeasurements" + }, + { + "id": 96151, + "strid": "05351ea8-8f26-49a7-af95-9e0b51788bb8", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2894.001, + 1945.295, + 606.8330000000001, + 331.9540000000002 + ], + "priority": 19, + "parents": [ + 96121 + ], + "children": [ + 96139 + ], + "area": 5629685.675295001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96139, + "strid": "4d33cc1e-d972-484a-bc21-25e14c5a885f", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2772.749, + 2329.653, + 763.906, + 183.9029999999998 + ], + "priority": 20, + "parents": [ + 96151 + ], + "children": [], + "area": 6459543.026096999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 4:Comparison of Sudanese\n(FL)measurement with western\nmeasurements" + }, + { + "id": 96153, + "strid": "c46b4b6f-a477-46b7-822f-c1421e839f1a", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2085.019, + 2579.506, + 494.1579999999999, + 341.3919999999998 + ], + "priority": 21, + "parents": [ + 96121 + ], + "children": [ + 96141 + ], + "area": 5378319.020613999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96141, + "strid": "d8e55d73-9614-456f-bf3e-88a496ad44a5", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1900.139, + 2922.412, + 726.8930000000003, + 182.65999999999985 + ], + "priority": 22, + "parents": [ + 96153 + ], + "children": [], + "area": 5552989.015267999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig5:Comparison of Sudanese\nFL) measurement with America\nmeasurements" + }, + { + "id": 96152, + "strid": "9d888094-be88-4411-8265-fb62ff818c92", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2875.618, + 2561.381, + 585.2670000000003, + 320.5340000000001 + ], + "priority": 23, + "parents": [ + 96121 + ], + "children": [ + 96140 + ], + "area": 7365553.3084579995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96140, + "strid": "6d7999a5-605b-4a16-8cb7-66256627fe3a", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2724.624, + 2903.573, + 850.4200000000001, + 187.26899999999978 + ], + "priority": 24, + "parents": [ + 96152 + ], + "children": [], + "area": 7911144.681551999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 6:Comparison of Sudanese (FL)\nmeasurement with Swiss Singapore,\nChinese and Iran measurements" + }, + { + "id": 96144, + "strid": "0d3321e0-4c06-45b3-b3d4-b4d5956384d3", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3883.527, + 646.402, + 592.8540000000003, + 382.0899999999999 + ], + "priority": 25, + "parents": [ + 96121 + ], + "children": [ + 96132 + ], + "area": 2510319.6198540004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96132, + "strid": "a21860f3-20ea-4dab-abda-00da468c3e90", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3639.211, + 1039.634, + 994.0229999999997, + 113.63799999999992 + ], + "priority": 26, + "parents": [ + 96144 + ], + "children": [], + "area": 3783447.4887739997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 7: Comparison of Sudanese BPD\nmeasurement with Australian measurements" + }, + { + "id": 96145, + "strid": "c396fe12-42ee-4ffd-95f6-bbe5da00aa48", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4866.5, + 653.136, + 643.1610000000001, + 360.32500000000005 + ], + "priority": 27, + "parents": [ + 96121 + ], + "children": [ + 96133 + ], + "area": 3178486.344, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96133, + "strid": "375a62d5-5fd7-462f-a0a6-8da04b1c5dbc", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4779.34, + 1018.405, + 739.2730000000001, + 167.33500000000004 + ], + "priority": 28, + "parents": [ + 96145 + ], + "children": [], + "area": 4867303.7527, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 8: Comparison of Sudanese BPD\nmeasurement with British\nmeasurements" + }, + { + "id": 96147, + "strid": "9c1b60a1-c32f-40ef-b9c3-cc1ae8b45ddc", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3862.767, + 1205.549, + 623.308, + 415.31600000000003 + ], + "priority": 29, + "parents": [ + 96121 + ], + "children": [ + 96135 + ], + "area": 4656754.894083, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96135, + "strid": "fc365f02-8e85-4ab7-a564-51c71b88b20f", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3665.464, + 1665.062, + 990.5479999999998, + 108.35500000000002 + ], + "priority": 30, + "parents": [ + 96147 + ], + "children": [], + "area": 6103224.818767999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 9: Comparison of Sudanese & Yemeni\nBPD measurements" + }, + { + "id": 96146, + "strid": "406e28ec-39ee-45be-987d-c23f8f06c9c7", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4827.464, + 1210.29, + 684.3339999999998, + 410.57500000000005 + ], + "priority": 31, + "parents": [ + 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"Conclusions" + }, + { + "id": 96128, + "strid": "a64d8764-54dc-4044-bcfe-beb768fbafc6", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1841.272, + 3293.448, + 1728.7780000000002, + 712.953 + ], + "priority": 34, + "parents": [ + 96122 + ], + "children": [], + "area": 6064133.585856, + "iscrowd": 0, + "segmentation": [], + "text": "Sudanese FL measurements charts were higher than\nSwiss, Singaporean, Chinese and Iranian population in\nthird trimester, and related to Nigerian , Western,\nBritish and America. Sudanese BPD charts is closely\nrelated to Australia, lower than British and Caucasian\nand higher than Yemeni and Chinese. Growth rate of\nFemur Length during (29 — 40) weeks is 24.30m.m. and\nfor bi-parietal diameter is 23.57 mm." + }, + { + "id": 96123, + "strid": "2d3edd61-e447-4a72-bf08-7e6f9572661d", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4418.673, + 1837.157, + 362.4920000000002, + 69.63799999999992 + ], + "priority": 35, + "parents": [ + 96154 + ], + "children": [ + 96129 + ], + "area": 8117796.032660999, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 96129, + "strid": "7b0e8396-b06f-4822-8e20-1d40640ff49a", + "image_id": 204214, + "image_name": "121663.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3653.121, + 1910.602, + 1885.8469999999998, + 2222.4310000000005 + ], + "priority": 36, + "parents": [ + 96123 + ], + "children": [], + "area": 6979660.288842, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89738, + "strid": "31f33475-5e00-4e41-a399-aa0f050a1399", + 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[], + "area": 667537.53096, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 9 themes were identified, of which 3 were grouped as core factors for QoL because of their\nuniversality, and the remaining 6 were labelled as influential variables." + }, + { + "id": 89733, + "strid": "cf2e5242-092c-41d5-a778-cf44bb841362", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1701.376, + 567.246, + 1474.7259999999999, + 529.743 + ], + "priority": 17, + "parents": [ + 89718 + ], + "children": [], + "area": 965098.7304959999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89723, + "strid": "4610f0de-904e-4d80-864b-d80eb88c62c6", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.613, + 1178.137, + 1477.903, + 191.07999999999993 + ], + "priority": 18, + "parents": [ + 89718 + ], + "children": [], + "area": 2002376.960981, + "iscrowd": 0, + "segmentation": [], + "text": "Influential Variables: Alongside the three core factors of QoL, influential variables were\nacknowledged. These variables influenced QoL by reinforcing the core factors. Five variables were\nglobal to both conditions, whilst one variable was only relevant to MS [see Table 2]. The five\nrelevant variables to both conditions were:" + }, + { + "id": 89734, + "strid": "5f20e338-e6c8-4bf5-8ca9-26916aee2ef2", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1699.217, + 1395.805, + 1505.7360000000003, + 898.6920000000002 + ], + "priority": 19, + "parents": [ + 89718 + ], + "children": [], + "area": 2371775.584685, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89737, + "strid": "8aaec21d-067f-441d-8f23-5a619d98ffa2", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1596.215, + 2385.05, + 1679.2720000000002, + 1352.1819999999998 + ], + "priority": 20, + "parents": [ + 89718 + ], + "children": [ + 89726 + ], + "area": 3807052.58575, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89726, + "strid": "568ccb54-9b6f-45fa-9912-0a08a9d55285", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1620.201, + 2347.312, + 597.0680000000002, + 27.833999999999833 + ], + "priority": 21, + "parents": [ + 89737 + ], + "children": [], + "area": 3803117.2497119997, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: Differences between MND and MS" + }, + { + "id": 89721, + "strid": "152b0aff-24a9-425e-b63a-34cac5e126cb", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1687.138, + 3848.089, + 218.654, + 31.45600000000013 + ], + "priority": 22, + "parents": [ + 89738 + ], + "children": [ + 89732 + ], + "area": 6492257.179281999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 89732, + "strid": "d2130e76-fb7e-4515-b252-32c13428f350", + "image_id": 203984, + "image_name": "121267.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1686.764, + 3899.502, + 1512.3679999999997, + 516.7059999999997 + ], + "priority": 23, + "parents": [ + 89721 + ], + "children": [], + "area": 6577539.591527999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 108947, + "strid": "091f2ba9-7de2-429d-881b-fbdcc9f11fd8", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1207.22, + 328.84, + 178.51, + 139.71000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 108919, + 108924, + 108921, + 108920, + 108926, + 108918, + 108927, + 108922, + 108925, + 108923 + ], + "area": 396982.22479999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 108918, + "strid": "549e015a-0869-410c-88a2-321d3ffda809", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 560.165, + 71.399, + 4108.529, + 207.836 + ], + "priority": 1, + "parents": [ + 108947 + ], + "children": [], + "area": 39995.220835, + "iscrowd": 0, + "segmentation": [], + "text": "Does face-drawing experience enhance face processing abilities? Evidence from hidden Markov modeling of\neye movements" + }, + { + "id": 108919, + "strid": "d9d3c503-1d14-49cc-a277-3b29b95bf846", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1760.648, + 288.21, + 1696.622, + 195.173 + ], + "priority": 2, + "parents": [ + 108947 + ], + "children": [], + "area": 507436.36007999995, + "iscrowd": 0, + "segmentation": [], + "text": "Janet H. Hsiao’, H. F. Chan’, T. K. Li’, Antoni B. Chan?\n\n1 Department of Psychology, University of Hong Kong\n2 Department of Computer Science, City University of Hong Kong" + }, + { + "id": 108920, + "strid": "18205fca-2542-40da-813e-9ed56b07048c", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1215.194, + 554.25, + 213.846, + 38.224000000000046 + ], + "priority": 3, + "parents": [ + 108947 + ], + "children": [ + 108931 + ], + "area": 673521.2744999999, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 108931, + "strid": "354c00e7-3842-4bf2-ac81-33c83bbc7181", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 52.488, + 608.661, + 2526.491, + 542.1810000000002 + ], + "priority": 4, + "parents": [ + 108920 + ], + "children": [], + "area": 31947.398567999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 108921, + "strid": "9bebecc6-30c8-4a4a-a790-050280af6a70", + 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], + "priority": 7, + "parents": [ + 108921 + ], + "children": [], + "area": 751843.834016, + "iscrowd": 0, + "segmentation": [], + "text": "Artists adopted eye movement patterns that were more\neye-centered and had better performance than novices.\n\nFace drawing rating was positively correlated with\neye movement similarity to eye-centered pattern\n| and accuracy." + }, + { + "id": 108937, + "strid": "7d0a7ae2-59fb-4b0a-bc96-a8efc32a8cf5", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 808.807, + 1594.48, + 853.3819999999998, + 971.212 + ], + "priority": 8, + "parents": [ + 108921 + ], + "children": [], + "area": 1289626.5853600001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 108941, + "strid": "c76ae119-9f95-4703-8809-8708fc156c7b", + "image_id": 204725, + "image_name": "12905.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1645.021, + 1251.057, + 948.1319999999998, + 959.3810000000001 + 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Urban !, Valerie Wood? and Kim Hammond-Kosack !\n\n‘Rothamsted Research, Harpenden, AL5 2JQ, UK; *University of Cambridge, Cambridge, CB2 1GA, UK" + }, + { + "id": 121670, + "strid": "950435df-895a-4984-aaff-6f5025313903", + "image_id": 205236, + "image_name": "14484.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 168.014, + 844.093, + 436.861, + 79.57899999999995 + ], + "priority": 3, + "parents": [ + 121683 + ], + "children": [ + 121671 + ], + "area": 141819.441302, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 121671, + "strid": "dad0181c-fcbf-4fda-b4e5-64baa777a70a", + "image_id": 205236, + "image_name": "14484.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 160.573, + 969.124, + 1423.028, + 652.963 + ], + "priority": 4, + "parents": [ + 121670 + ], + "children": [], + "area": 155615.148052, + "iscrowd": 0, + "segmentation": [], + "text": "The Canto community curation tool (Rutherford et al, 2014) was developed\nto enable the literature curation of biochemical and phenotype data by the\npublication authors with little or no curation training. We have extended\nCanto to capture pathogen-host interaction phenotypes (i.e. alterations in\npathogenicity and virulence) for PHI-base (www.phi-base.org).\n\nThe changes involved originating the concept of a 'multi-species genotype’\n(metagenotype) to capture changes in pathogenicity observed by alterations\nto pathogen and host genes singly, or in combination, and connect them to\nthe underlying genome-level changes. A second major change was the ability\nto handle multiple species and natural strains simultaneously and\nunambiguously. 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"strid": "eec10f63-74bd-4d77-b361-ff0001aead0f", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 157.226, + 26.316, + 2683.256, + 296.778 + ], + "priority": 1, + "parents": [ + 167680 + ], + "children": [], + "area": 4137.559416, + "iscrowd": 0, + "segmentation": [], + "text": "MiRNA-200b represses TGF-81 induced epithelial-mesenchymal\ntransition in immortalized primary human epithelial cells (BEAS-2B)\ngm | and primary bronchial epithelial cells (PBECs)" + }, + { + "id": 167656, + "strid": "ef0deb7a-962e-481a-978c-356c8be80b0b", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 811.712, + 395.199, + 1370.4479999999999, + 201.949 + ], + "priority": 2, + "parents": [ + 167680 + ], + "children": [], + "area": 320787.770688, + "iscrowd": 0, + "segmentation": [], + "text": "Shameem S Ladak, Chris Ward, Simi Ali\nInstitute of Cellular Medicine,\nUniversity of Newcastle upon Tyne, NE2 4HH, UK" + }, + { + "id": 167657, + "strid": "cc3fd7af-0d4c-4223-8aad-0c9d5b6c7ee3", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 480.105, + 718.268, + 428.866, + 60.70100000000002 + ], + "priority": 3, + "parents": [ + 167680 + ], + "children": [ + 167672, + 167675, + 167666 + ], + "area": 344844.05814000004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167672, + "strid": "72d02cb8-c250-4e9c-a734-6780cd9b2905", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.827, + 826.684, + 1286.218, + 301.36699999999996 + ], + "priority": 4, + "parents": [ + 167657 + ], + "children": [], + "area": 54418.127667999994, + "iscrowd": 0, + "segmentation": [], + "text": "Lung transplants are the ‘last resort’ solution for patients suffering from end\nstage respiratory diseases. However post lung transplant, the long-term graft\nsurvival is limited due to development of Bronchiolitis obliterans syndrome\n(BOS) that is characterized by irreversible airway obstruction due to fibrosis.\nMicroRNAs (miRNAs) have been implicated in lung disorder and epithelial-to-\nmesenchymal-transition (EMT); however their role as a biomarker for the early\nprediction of BOS is still not well established." + }, + { + "id": 167666, + "strid": "902c57aa-71b8-4d75-878b-8727e00296a2", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 349.18, + 1132.114, + 708.018, + 455.00299999999993 + ], + "priority": 5, + "parents": [ + 167657 + ], + "children": [], + "area": 395311.56652, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167675, + "strid": "e5a90f83-9981-4d08-9878-35f631ee94dd", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.551, + 1611.949, + 1259.903, + 118.38000000000011 + ], + "priority": 6, + "parents": [ + 167657 + ], + "children": [], + "area": 107276.817899, + "iscrowd": 0, + "segmentation": [], + "text": "Pathogenesis of BOS- Allogeneic injury leads to activation of cytokines,\nchemokines and growth factors that cause fibroblast proliferation, epithelial\nmesenchymal transition and finally chronic rejection." + }, + { + "id": 167659, + "strid": "dcd71fcf-c9d0-4168-810b-de02eedad5a3", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 610.818, + 1826.545, + 185.303, + 69.49399999999991 + ], + "priority": 7, + "parents": [ + 167680 + ], + "children": [ + 167665 + ], + "area": 1115686.56381, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167665, + "strid": "75522369-5ab7-4670-9c07-abcec6e9a5ad", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 86.323, + 1933.784, + 1219.527, + 315.0129999999999 + ], + "priority": 8, + "parents": [ + 167659 + ], + "children": [], + "area": 166930.03623199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167660, + "strid": "2c86d46f-ea95-461b-b4ba-d0fae30a6330", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 563.285, + 2343.898, + 303.611, + 61.50599999999986 + ], + "priority": 9, + "parents": [ + 167680 + ], + "children": [ + 167676 + ], + "area": 1320282.58493, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167676, + "strid": "90c95d71-0a18-4e1e-a186-617e83a43ff7", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 103.979, + 2459.502, + 1186.175, + 397.0909999999999 + ], + "priority": 10, + "parents": [ + 167660 + ], + "children": [], + "area": 255736.55845799998, + "iscrowd": 0, + "segmentation": [], + "text": "MIRNA profiling using NanoString® nCounter miRNA expression assay kit\nto identify expression of novel miRNAs (in BEAS-2B cells)\n\nExpression of EMT markers ( E-cadherin and Fibronectin) was studied at\nthe mRNA (using quantitative real time PCR- qRT-PCR) and protein level\n(using immunofluorescence and western blot)\n\nExpression of miR-200b target genes - RHOA, SMURF2, ZNF532 and\nZEB2 was studied in miR-200b transfected BEAS-2B cells (with/without\n5ng/ul TGF-B1) using qRT-PCR" + }, + { + "id": 167661, + "strid": "fb57ef80-de97-4c52-9239-b451b24b619d", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 298.943, + 2962.762, + 824.2839999999999, + 80.76699999999983 + ], + "priority": 11, + "parents": [ + 167680 + ], + "children": [ + 167678, + 167679, + 167671, + 167670 + ], + "area": 885696.960566, + "iscrowd": 0, + "segmentation": [], + "text": "miRNA profiling results" + }, + { + "id": 167670, + "strid": "e3108970-6298-43f3-a8ef-f137cc4d36da", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 65.322, + 3100.505, + 731.125, + 512.3800000000001 + ], + "priority": 12, + "parents": [ + 167661 + ], + "children": [], + "area": 202531.18761000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167679, + "strid": "cade7a91-6164-4a4c-a84a-530b843479d2", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 58.754, + 3632.221, + 739.794, + 258.1089999999999 + ], + "priority": 13, + "parents": [ + 167661 + ], + "children": [], + "area": 213407.51263399998, + "iscrowd": 0, + "segmentation": [], + "text": "MiRNA profiling using NanoString\nnCounter Analysis of TGF- 61 stimulated\nBEAS-2B cells: miR-200b expression was\ndownregulated at all times when expression\nwas compared to control and normalised to\nvarious endogenous housekeeping genes." + }, + { + "id": 167671, + "strid": "9749c4b4-df5a-4f77-b352-2554a5111379", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 917.454, + 3107.616, + 362.0719999999999, + 273.9870000000001 + ], + "priority": 14, + "parents": [ + 167661 + ], + "children": [], + "area": 2851094.7296639998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167678, + "strid": "848f0555-865c-498a-b764-a70434918a28", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 832.857, + 3386.613, + 499.3989999999999, + 513.4079999999999 + ], + "priority": 15, + "parents": [ + 167661 + ], + "children": [], + "area": 2820564.343341, + "iscrowd": 0, + "segmentation": [], + "text": "Venn diagram shows the\nintersection analysis of miR-\n200b target genes_ in\nTargetScan, PicTar, Diana-\nMicro T and MiRanda. Seven\nintersecting mRNA | targets\nwere predicted using the\nonline computational tools.\nThe expression profile of\nselective MRNA target genes\nwas then assayed in further\n\nexperiments." + }, + { + "id": 167658, + "strid": "d890524e-7f13-45ca-bae6-dd89842c797c", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1736.444, + 702.495, + 874.7620000000002, + 76.54899999999998 + ], + "priority": 16, + "parents": [ + 167680 + ], + "children": [ + 167668, + 167674, + 167673, + 167667 + ], + "area": 1219843.22778, + "iscrowd": 0, + "segmentation": [], + "text": "EMT markers expression" + }, + { + "id": 167667, + "strid": "67b0cdf3-6a5c-4131-a8da-4502532a2a74", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1446.663, + 838.676, + 1484.5700000000002, + 364.8839999999999 + ], + "priority": 17, + "parents": [ + 167658 + ], + "children": [], + "area": 1213281.538188, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167673, + "strid": "1ff5f3c8-671e-463b-8ca3-35aeb69b7045", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.685, + 1208.343, + 1494.98, + 304.0049999999999 + ], + "priority": 18, + "parents": [ + 167658 + ], + "children": [], + "area": 1752925.064955, + "iscrowd": 0, + "segmentation": [], + "text": "miR-200b mimics restored TGF-81 induced downregulation of E-cadherin (A,C) while\nreducing fibronectin levels (B,D) in the presence of TGF-61. BEAS-2B cells (A,B, n=3)\nand PBECs (C,D, n=3) and were transfected with 30nM miR-200b for 24 hrs followed by\nTGF-B1 (5ng/ml) treatment for 48 hrs. Total RNA was harvested and q-RT-PCR was\nperformed. MiR-200b restored mRNA E-cadherin expression while reducing fibronectin\nlevels when compared with non-specific miRNA in the presence of TGF-81 in BEAS-2B and\nPBECs. (*=ps0.05) (**=ps0.01) (***=ps0.001)" + }, + { + "id": 167668, + "strid": "43ab642d-5d4e-457f-93d1-3fe1f5b51041", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1425.37, + 1542.191, + 1533.487, + 888.9840000000002 + ], + "priority": 19, + "parents": [ + 167658 + ], + "children": [], + "area": 2198192.7856699997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167674, + "strid": "703dab2e-4fd0-47c4-a09d-9ac16970cb2a", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1444.311, + 2439.303, + 1492.704, + 255.77599999999984 + ], + "priority": 20, + "parents": [ + 167658 + ], + "children": [], + "area": 3523112.1552329995, + "iscrowd": 0, + "segmentation": [], + "text": "Overexpression of miR-200b blocks TGF- 81 induced epithelial to mesenchymal\ntransition in BEAS-2B and PBECS: BEAS-2B (A-D, n=3) and PBECS (E-H, n=2) were\ntransfected with negative control and miR-200b mimics. After transfection cells were treated\nwithout or with 5ng/ml TGF- 61 for 48 hrs. Immunofluorescence (A-H) demonstrated that\nmiR-200b transfection blocked TGF- B1-induced E-Cadherin and cytokeratin-19 suppression,\nfibronectin induction and a-SMA expression. (*=ps0.05) (**=ps0.01) (***=ps0.001)" + }, + { + "id": 167662, + "strid": "34ae0536-e991-4fd9-bc1a-bc54c560b3be", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1715.345, + 2824.979, + 945.9069999999999, + 66.99699999999984 + ], + "priority": 21, + "parents": [ + 167680 + ], + "children": [ + 167677, + 167669 + ], + "area": 4845813.602755, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167677, + "strid": "dc8376c1-75d4-4c47-b802-d58466677bc8", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.747, + 2926.558, + 1498.175, + 258.9290000000001 + ], + "priority": 22, + "parents": [ + 167662 + ], + "children": [], + "area": 4245695.238826, + "iscrowd": 0, + "segmentation": [], + "text": "MiR-200b supressed expression of its target genes RHOA, SMURF2, ZNF532 and\nZEB2. BEAS-Z2B cells (A, n=3) and PBECs (B, n=3) were transfected with 30nM miR-200b\nbefore being exposed to 5ng/ml TGF- 81 for 48 hrs. MRNA expression of target genes was\nmeasured using q-RT-PCR. miR-200b reduced expression of both zinc finger binding\nhomologs ZEB2 and ZNF532 in BEAS-2B cells and PBECs. (*=ps0.05) (**=ps0.01)\n(***=p<0.001)" + }, + { + "id": 167669, + "strid": "e2f35113-6b38-4f4a-bc33-d7d73913a1e4", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1701.205, + 3172.525, + 1102.833, + 273.75300000000016 + ], + "priority": 23, + "parents": [ + 167662 + ], + "children": [], + "area": 5397115.392625, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167663, + "strid": "70c2af39-b073-4092-bfc7-30d582f088b1", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1985.507, + 3530.206, + 402.96399999999994, + 64.59400000000005 + ], + "priority": 24, + "parents": [ + 167680 + ], + "children": [ + 167664 + ], + "area": 7009248.7244420005, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 167664, + "strid": "b79cb26d-77e2-41e5-80c6-7bd9a8055916", + "image_id": 207046, + "image_name": "6869.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1458.95, + 3660.761, + 1440.048, + 229.07400000000007 + ], + "priority": 25, + "parents": [ + 167663 + ], + "children": [], + "area": 5340867.26095, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66538, + "strid": "26968e09-f170-49c8-b088-c1c6d3df7227", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 4146.45, + 27.62, + 309.72000000000025, + 219.19 + ], + "priority": -1, + "parents": [], + "children": [ + 66532, + 66537, + 66530, + 66536, + 66534, + 66535, + 66533, + 66531 + ], + "area": 114524.949, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66537, + "strid": "3e86a6b4-bd71-432f-9f65-d541d678dea2", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 486.99, + 149.986, + 2733.1860000000006, + 249.526 + ], + "priority": 1, + "parents": [ + 66538 + ], + "children": [], + "area": 73041.68213999999, + "iscrowd": 0, + "segmentation": [], + "text": "A high-performance pipeline for genome-wide\nnetwork reconstruction from gene expression data" + }, + { + "id": 66536, + "strid": "057d144d-8e13-41aa-b234-536e4941e212", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 208.566, + 409.339, + 3301.78, + 209.637 + ], + "priority": 2, + "parents": [ + 66538 + ], + "children": [], + "area": 85374.197874, + "iscrowd": 0, + "segmentation": [], + "text": "a” Son B. Le’, Alberto Riva?, and David D. Tran‘\n‘Lillian S. Wells Department of Neurosurgery, University of Florida, Gainesville, FL, USA\n“Bioinformatics Core, Interdisciplinary Center for Biotechnology Research (ICBR), University of Florida, Gainesville, FL USA" + }, + { + "id": 66534, + "strid": "4252e046-46c5-4bae-a281-8794a6cbd6f6", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 82.201, + 682.008, + 322.90099999999995, + 54.60000000000002 + ], + "priority": 3, + "parents": [ + 66538 + ], + "children": [ + 66527 + ], + "area": 56061.739607999996, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 66527, + "strid": "1777cf1a-53a0-408b-aa21-fd10a7ce28e9", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 72.512, + 773.961, + 1411.742, + 848.567 + ], + "priority": 4, + "parents": [ + 66534 + ], + "children": [], + "area": 56121.460032, + "iscrowd": 0, + "segmentation": [], + "text": "Understanding the global biological implications of genomic changes requires large-\nscale gene expression profiling, as it provides information on cellular behaviors\ncaused by driver mutations and their interactions with the microenvironment. Gene\nexpression profiles can then be used to infer the global and local regulatory\nnetworks that regulate these behaviors, using reverse engineering tools designed to\nscale up to the complexity of mammalian cells. One example of such tools is\nARACNE [1], a program to reconstruct regulatory networks on the basis of the Mutual\nInformation (MI) between gene expression profiles. ARACNE can be applied to a\nsmall set of genes (e.g., to find all possible targets of a transcription factor) or in\ngenome-wide mode, to identify upstream master regulators in an unbiased way. In this\ncase, its authors recommend running ARACNE on a cluster and employing a\nbootstrap procedure to make the analysis computationally tractable.\n\nWe have developed a computational pipeline called generep to facilitate and\nstreamline the use of ARACNE in this fashion, making it suitable for large-scale work\nin a high-performance computing setting. The pipeline is based on a Python tool called\nAPPLE (ARACNE Processing PipeLine Extensions), and completely automates the\nanalytical steps required to generate a highly reliable regulatory network from gene\nexpression data [2]." + }, + { + "id": 66535, + "strid": "50f94576-6e9e-4606-8ab8-c0dac7f449cc", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 66.223, + 1707.357, + 517.2, + 62.261999999999944 + ], + "priority": 5, + "parents": [ + 66538 + ], + "children": [ + 66523 + ], + "area": 113066.30261099999, + "iscrowd": 0, + "segmentation": [], + "text": "The APPLE toolbox" + }, + { + "id": 66523, + "strid": "411be6cc-df10-4d1f-86f1-f83f408475b7", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.004, + 1821.131, + 1409.611, + 1458.836 + ], + "priority": 6, + "parents": [ + 66535 + ], + "children": [], + "area": 134770.978524, + "iscrowd": 0, + "segmentation": [], + "text": "APPLE is a command-line program providing the following nine commands: random,\nbootstrap, consensus, filter, histogram, extract, convert, stats, translate.\n\nGiven an initial database of expression values, the random command generates a\nnumber of randomized datasets by shuffling the expression values within each row. All\ndatasets (the single real one and the shuffled ones) then undergo a bootstrap\nprocedure, implemented by the bootstrap command, with a user-specified sample size\nand number of bootstrap rounds.\n\nThe bootstrap files are then processed by ARACNe (in parallel when operating in a\ncluster environment), producing one ADJ file for each. An ADJ file consists of one line\nfor each hub gene, and lists all hub-gene connections with the respective MI. The\nresulting ADJ files are combined into a single ADJ file using the consensus command.\nThis command writes an edge to the combined file if it was observed in more than S\nbootstrap files, where S is a user-specified minimum value, and on the basis of its\nFalse Positive rate (FPR). This command also writes two additional files useful for\nsubsequent analysis steps: a counts file (recording the number of edges having each\nsupport level) and a statistics file, that records for each edge its support, FPR, and\nsum of the mutual information of the supporting edges.\n\nUsing the counts and statistics files the user can filter the resulting ADJ file for the real\ndatasets in order to retain only the edges that show support and MI significantly higher\nthan those in the shuffled datasets. This is accomplished using the histogram\ncommand, which produces a histogram of all the MI values in an ADJ file. By\ncomparing the histograms for the real and the shuffled datasets, an optimal MI value\nthat maximizes the separation between the real and the shuffled datasets can be\ndetermined. This MI value can then be used to generate a new ADJ file containing\nonly the edges with an MI value over this threshold, using the filter command. The\nprocess can then be repeated using the sum of the MI values for all edges connected\nto a hub gene.\n\nThe remaining commands provide utilities to print general statistics on one or more\nADJ files (stats), extract the edges for a specified set of genes, translate gene\nidentifiers (e.g., from Ensembl to NCBI identifiers), and convert ADJ files to different\nformats for visualization, including Cytoscape format." + }, + { + "id": 66533, + "strid": "39878db8-a6ae-4b1e-b5d4-0f43a2b2441c", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1569.839, + 677.908, + 563.8450000000003, + 67.66099999999994 + ], + "priority": 7, + "parents": [ + 66538 + ], + "children": [ + 66520, + 66524, + 66519, + 66528 + ], + "area": 1064206.416812, + "iscrowd": 0, + "segmentation": [], + "text": "The generep pipeline" + }, + { + "id": 66528, + "strid": "3e3b5d15-bd82-4747-aca5-8719e1caa7ac", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1573.677, + 775.863, + 1364.177, + 93.22799999999995 + ], + "priority": 8, + "parents": [ + 66533 + ], + "children": [], + "area": 1220957.758251, + "iscrowd": 0, + "segmentation": [], + "text": "The generep pipeline uses APPLE and ARACNe to provide a completely automated\nnetwork reconstruction process starting from expression data." + }, + { + "id": 66519, + "strid": "1954817d-d319-4542-aa7e-d6f99a62fcc5", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1642.794, + 885.876, + 1266.485, + 1080.822 + ], + "priority": 9, + "parents": [ + 66533 + ], + "children": [], + "area": 1455311.777544, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66524, + "strid": "7dd6b3ab-a0c2-445c-853c-64be6a4ed6c9", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1582.064, + 1977.754, + 1376.0490000000002, + 353.52199999999993 + ], + "priority": 10, + "parents": [ + 66533 + ], + "children": [], + "area": 3128933.404256, + "iscrowd": 0, + "segmentation": [], + "text": "Starting from a gene-level or transcript-level expression dataset, the pipeline\ngenerates m randomized datasets. From each dataset (real or randomized), n new\ndatasets are generated through bootstrap. ARACNe is applied to the bootstrap\ndatasets to generate ADU files, which are then combined into a single consensus\nnetwork for each dataset. The distributions of edge support and mutual information in\nthe randomized datasets are used to determine significance thresholds, which are\nthen applied to the real consensus network to filter low-significance edges producing\na final network." + }, + { + "id": 66520, + "strid": "8e3c7b29-d548-46d6-852a-0c6c4ffd0a05", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1603.01, + 2342.445, + 1352.686, + 1005.6730000000002 + ], + "priority": 11, + "parents": [ + 66533 + ], + "children": [ + 66518 + ], + "area": 3754962.7594500002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66518, + "strid": "c6a08060-3bdd-4bd4-9675-75c5af95f605", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2399.549, + 3216.87, + 573.2420000000002, + 92.0949999999998 + ], + "priority": 12, + "parents": [ + 66520 + ], + "children": [], + "area": 7719037.191629999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure1. Network of the top 200 hubs\nfrom the TCGA breast cancer dataset." + }, + { + "id": 66532, + "strid": "25852d60-863f-49b7-b9ab-b3c8ff76594e", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3051.944, + 676.297, + 201.37300000000005, + 59.605999999999995 + ], + "priority": 13, + "parents": [ + 66538 + ], + "children": [ + 66526, + 66521 + ], + "area": 2064020.571368, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 66526, + "strid": "c0437298-93c4-4cff-b0a3-b5b86a9cbb86", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3047.612, + 782.941, + 1373.812, + 709.281 + ], + "priority": 14, + "parents": [ + 66532 + ], + "children": [], + "area": 2386100.386892, + "iscrowd": 0, + "segmentation": [], + "text": "We applied the generep pipeline to the publicly available gene expression datasets\nfor breast cancer (1,222 RNA-seq profiles) from the Cancer Genome Atlas (TCGA)\n[3] to establish reference gene networks in this cancer type. The results of each\nfiltration step are shown in Table 1.\n\nIn the final network, we recovered 16,825 nodes with 387,055 edges. The network of\nthe top 200 hubs (genes with the highest number of connections) is shown in Figure\n1. These top hubs form 3 major clusters. The biggest cluster includes well known\nplayers in breast cancer tumorigenesis such as Androgen Receptor (AR), Estrogen\nReceptor 1 (ESR1), GATA-binding protein 3 (GATA3, mutated in 10% of breast\ncancer cases), FOXA1 (involved in ESR1-mediated transcription), and genes\npreviously implicated in histone modifications such as ARID2, EZH2, TRIP13. The\nsecond largest cluster also contains genes involved in chromatin organization such\nas DNMT1, HSF4, ARID4A, DMAP1, BRCA2.\n\nThe top 200 hubs also contain poorly characterized hubs such as ZNF593, ZFH524,\nZBTB48, ZNF770 that could serve as potential targets for future studies." + }, + { + "id": 66521, + "strid": "bdee7155-22a4-4e82-b60d-49f9944e1ba5", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3032.934, + 1512.18, + 1415.25, + 691.6490000000001 + ], + "priority": 15, + "parents": [ + 66532 + ], + "children": [ + 66522 + ], + "area": 4586342.136120001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 66522, + "strid": "8dbf2605-eab0-423c-91aa-ff6f185c5694", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3108.114, + 2207.588, + 1249.855, + 54.50500000000011 + ], + "priority": 16, + "parents": [ + 66521 + ], + "children": [], + "area": 6861435.169032001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Number of edges recovered and false positive rate after each filtration step." + }, + { + "id": 66531, + "strid": "9b639f2d-a442-451b-8e1c-f26e02ef7196", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3054.582, + 2283.047, + 337.05700000000024, + 60.5329999999999 + ], + "priority": 17, + "parents": [ + 66538 + ], + "children": [ + 66525 + ], + "area": 6973754.271354, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 66525, + "strid": "45ade0ca-b606-44e1-8d82-1f3c0067406f", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3038.662, + 2393.925, + 1384.9990000000003, + 337.8589999999999 + ], + "priority": 18, + "parents": [ + 66531 + ], + "children": [], + "area": 7274328.92835, + "iscrowd": 0, + "segmentation": [], + "text": "We have developed a pipeline that automates the use of ARACNE on large scale\ndatasets, taking advantage of high-performance computing resources. The pipeline\nimplements multiple filtration steps to recover the maximum number of significant\nedges with quantification of false positive rate.\n\nThe pipeline has been applied to the several real datasets from The Cancer Genome\nAtlas (TCGA), yielding networks containing previously characterized regulatory genes\nas well as potential novel target genes." + }, + { + "id": 66530, + "strid": "bdb1b85c-0a66-4921-bde2-15ad9faafadd", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3047.703, + 2775.562, + 297.15999999999985, + 57.78099999999995 + ], + "priority": 19, + "parents": [ + 66538 + ], + "children": [ + 66529 + ], + "area": 8459088.634086, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 66529, + "strid": "d6ffb299-2e44-47cc-8b78-9637b281b3ae", + "image_id": 203110, + "image_name": "11973.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3053.206, + 2885.622, + 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"Taxon-wide curation of homology relations\nbetween anatomical structures" + }, + { + "id": 57287, + "strid": "5a094e92-f1ff-46e1-999f-fff697dd0d46", + "image_id": 202759, + "image_name": "119198.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 169.423, + 411.138, + 1776.351, + 230.42299999999994 + ], + "priority": 2, + "parents": [ + 57309 + ], + "children": [], + "area": 69656.233374, + "iscrowd": 0, + "segmentation": [], + "text": "Anne Niknejad*:?, Marc Robinson-Rechavi'2, Frederic Bastian’\n\n1 Department of Ecology and Evolution, University of Lausanne, Switzerland\n2 Swiss Institute of Bioinformatics, Lausanne, Switzerland" + }, + { + "id": 57288, + "strid": "7f040ade-0dd1-4e2b-8837-dc61fa030cd2", + "image_id": 202759, + "image_name": "119198.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 178.104, + 735.172, + 2611.199, + 73.11400000000003 + ], + "priority": 3, + "parents": [ + 57309 + ], + "children": [ + 57290, + 57291, + 57289 + 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58099, + "strid": "3204b92c-84c0-45da-84a5-27c4e5e029c9", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 20.25, + 137.313, + 785.457, + 76.725 + ], + "priority": 1, + "parents": [ + 58118 + ], + "children": [], + "area": 2780.58825, + "iscrowd": 0, + "segmentation": [], + "text": "No simian plasmodium detected in populations living in the\nequatorial rainy forest of the Democratic Republic of Congo" + }, + { + "id": 58100, + "strid": "25973b0f-2945-4e54-ac19-09a5d9a241c9", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 52.65, + 226.949, + 737.16, + 98.368 + ], + "priority": 2, + "parents": [ + 58118 + ], + "children": [], + "area": 11948.86485, + "iscrowd": 0, + "segmentation": [], + "text": "Dieudonné Mvumbi Makaba*, Raph:\nHippolit\n\n \n\n| Boreux, Thierry Bobanga Lengu, Jean-Marie Kayembe Ntumba, Georges Mvumbi Lelo,\nituakibanza Nani-Tuma, Pierrette Melin, Patrick De Mol & Marie-Pierre Hayette\n\n \n\n“Biochemistry and Molecular Biology Unit, Department of Basic Scien«\nClinical Microbiology, University Hospital of Liege, Belgium\ncontact: didimvumbi@gmail.com\n\n \n\nSchool of Medicine, University of Kinshasa, DR Congo!" + }, + { + "id": 58101, + "strid": "fb0b7838-657e-4ffa-842b-04970827a442", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 65.481, + 346.214, + 119.78199999999998, + 22.954000000000008 + ], + "priority": 3, + "parents": [ + 58118 + ], + "children": [ + 58102 + ], + "area": 22670.438933999998, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 58102, + "strid": "9826283c-4a01-4c77-8c0f-e80c2355335c", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.33, + 383.718, + 464.80300000000005, + 123.55200000000002 + ], + "priority": 4, + "parents": [ + 58101 + ], + "children": [], + "area": 25068.29694, + "iscrowd": 0, + "segmentation": [], + "text": "(thas long been accepted that four species of Pasmodium (P. falciparum, P. vive, P. malariae and P.\novale) were responsible for malaria in humans. But quite recently a fifth species, P. knowles, has\nbeen identified as naturally infecting humans\". Indeed, known for decades as naturally parastizing the\nmonkey Macaca fascculris, P. knowiesi has long been confused, in terms ofits evolutionary stage,\nwith P. malariae or P. foliparum, which it resembles morphologically and it was nat possible to\nproperly eifferentate them until the advent of molecular biology’ To date, P. knowles! has only been\nidentified in Southeast Asia anda similar phenomenon of natural transmission of simian plasmodium\nto humans has not been reported elsewhere. We therefore conducted this study to investigate the\npossible transmission of simian plosmodhum to humans in populations living near the rainforest of the" + }, + { + "id": 58105, + "strid": "8b19a363-e132-436d-96ec-4769e4e99afa", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 65.236, + 515.782, + 76.759, + 19.69799999999998 + ], + "priority": 5, + "parents": [ + 58118 + ], + "children": [ + 58106 + ], + "area": 33647.554552, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 58106, + "strid": "cff5b295-4902-4d2d-996a-18e8892bada3", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 64.827, + 550.13, + 448.972, + 68.36800000000005 + ], + "priority": 6, + "parents": [ + 58105 + ], + "children": [], + "area": 35663.27751, + "iscrowd": 0, + "segmentation": [], + "text": "Three villages (Wenji-Secli, Bongonde, Bolenge) in the Province of Equateur (North-western of,\nDRC) were selected because oftheir geographical location. Blood samples spotted on fiter paper\nwere collected from 100 people randomly selected in each village. Two successive RT- PCR were\nperformed. A first one using a single probe able to detect all Plasmodium spo\" and a second using\nfour species-specific probes for the diagnosis of the four conventional human P&smodium" + }, + { + "id": 58107, + "strid": "a108a49c-6033-447c-9acf-5393310a62b1", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 66.637, + 638.37, + 62.31100000000001, + 18.36099999999999 + ], + "priority": 7, + "parents": [ + 58118 + ], + "children": [ + 58108 + ], + "area": 42539.06169, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 58108, + "strid": "b2695f60-79b4-434e-ab53-3cc7ca2474c6", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.399, + 675.24, + 392.899, + 26.623000000000047 + ], + "priority": 8, + "parents": [ + 58107 + ], + "children": [], + "area": 44160.02076, + "iscrowd": 0, + "segmentation": [], + "text": ">. falciparum wes carrectly Identified In 46.3 % of samples. No other species of human\nplasmodium or not has been identified." + }, + { + "id": 58109, + "strid": "b2581906-2975-4ead-b398-6f0364187f7b", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 66.624, + 721.193, + 94.447, + 20.239000000000033 + ], + "priority": 9, + "parents": [ + 58118 + ], + "children": [ + 58111, + 58110 + ], + "area": 48048.762431999996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 58110, + "strid": "3a0238bc-91eb-477f-b209-e9ec90917081", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.888, + 763.95, + 437.523, + 39.77499999999998 + ], + "priority": 10, + "parents": [ + 58109 + ], + "children": [], + "area": 50335.13760000001, + "iscrowd": 0, + "segmentation": [], + "text": "This preliminary study did not detect the presence of simiay/pasmodiun in human paputations\niving in the rainforest of the DRC. Studies with larger samples and with more advanced\ntechniques should still be conducted." + }, + { + "id": 58111, + "strid": "1fd022f8-0a09-4fd1-86e7-d31b830510ef", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.325, + 832.573, + 357.973, + 12.237999999999943 + ], + "priority": 11, + "parents": [ + 58109 + ], + "children": [], + "area": 55220.404225, + "iscrowd": 0, + "segmentation": [], + "text": "Keywords: Malaria, simian plasmodium, Democratic Republic of Congo, RT-PCR" + }, + { + "id": 58103, + "strid": "8ccaac30-b7eb-4c80-b498-3d2c335c5901", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 531.884, + 338.307, + 259.023, + 260.4169999999999 + ], + "priority": 12, + "parents": [ + 58118 + ], + "children": [ + 58104 + ], + "area": 179940.080388, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58104, + "strid": "1636e17a-6805-45dc-aafe-c33dde9f62d6", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 536.397, + 599.415, + 86.399, + 11.825000000000045 + ], + "priority": 13, + "parents": [ + 58103 + ], + "children": [], + "area": 321524.407755, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Study sites" + }, + { + "id": 58117, + "strid": "0497db60-09cf-4ccd-a8ef-db15bab2d2d0", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 533.0, + 620.987, + 257.981, + 156.947 + ], + "priority": 14, + "parents": [ + 58118 + ], + "children": [ + 58116 + ], + "area": 330986.071, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58116, + "strid": "6edf0f17-e948-47ea-9555-8b4e63b1f712", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 536.327, + 783.9, + 186.577, + 12.309999999999945 + ], + "priority": 15, + "parents": [ + 58117 + ], + "children": [], + "area": 420426.7353, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. P. falciparum prevalence by village" + }, + { + "id": 58114, + "strid": "283ef637-d787-4bea-bf03-d721e4b8a202", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 530.961, + 796.99, + 260.97900000000004, + 202.24800000000005 + ], + "priority": 16, + "parents": [ + 58118 + ], + "children": [ + 58115 + ], + "area": 423170.60739, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58115, + "strid": "450b4ed7-e817-47cb-aa26-a1edd6903e50", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 534.141, + 1002.589, + 123.06100000000004, + 11.120999999999981 + ], + "priority": 17, + "parents": [ + 58114 + ], + "children": [], + "area": 535523.891049, + "iscrowd": 0, + "segmentation": [], + "text": "Image 1. Macaca fascicularis”" + }, + { + "id": 58112, + "strid": "39a19143-d7c9-4f4b-99e2-77da61390352", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.096, + 871.403, + 97.007, + 19.66999999999996 + ], + "priority": 18, + "parents": [ + 58118 + ], + "children": [ + 58113 + ], + "area": 54982.043688, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 58113, + "strid": "2e918397-d42a-44e7-96e7-01ef85ee9807", + "image_id": 202795, + "image_name": "119259.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 83.659, + 907.166, + 424.238, + 97.00699999999995 + ], + "priority": 19, + "parents": [ + 58112 + ], + "children": [], + "area": 75892.60039400001, + "iscrowd": 0, + "segmentation": [], + "text": "Singh Bet al, A large focus of naturally acquired Plasmodium knowles! infections in human beings. Lancet\nIndra Vtblingam and efery Hi: Simian Malaria Parasites: Special Emphasis on Plasmodium koowe\nand Ther napheles Vectors in Southeast ASA. In Anopheles mosquitoes ~ New insights nto malaria\nects. sie by Sve Mangui; 2013:978-553.\n\nRougemont M eta. Detection of four Plasmodium spedes in blood trom humans by 285 NA gene\n‘bun bated and specerspactie rel tne PCR assays. 1 Clin Miroble 200, 42:5636-36,\n\nCrops L et al. Validation of a fourcprimer resitime PCR 2s a diagnostic teol for single and ried" + }, + { + "id": 24448, + "strid": "2515b496-c67a-4a95-8bb4-736e2dbdcaf0", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 33.5, + 108.45, + 46.56999999999999, + 395.84000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 24427, + 24445, + 24447, + 24431, + 24443, + 24424, + 24435, + 24425, + 24434, + 24441 + ], + "area": 3633.0750000000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24424, + "strid": "a95f1b6f-c1fe-4446-9d3d-b12053acc95e", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 104.16, + 44.596, + 3335.865, + 380.483 + ], + "priority": 1, + "parents": [ + 24448 + ], + "children": [], + "area": 4645.11936, + "iscrowd": 0, + "segmentation": [], + "text": "Ancestral Genome Reconstructions As A Tool For Rapid\nAssessment Of Gene Family Origins, Duplication History &\nRelocalizations Within Vertebrate Genomes" + }, + { + "id": 24447, + "strid": "e6b2fdf1-c11d-42be-85e0-4b944521e51b", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1174.401, + 493.76, + 1217.715, + 153.79399999999998 + ], + "priority": 2, + "parents": [ + 24448 + ], + "children": [], + "area": 579872.23776, + "iscrowd": 0, + "segmentation": [], + "text": "Sara V. Good and Sergey Yegorov\nUniversity of Winnipeg, MB, Canada" + }, + { + "id": 24427, + "strid": "82632f81-9518-4e25-9b68-fdacd623b85b", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.946, + 687.583, + 305.48199999999997, + 58.99000000000001 + ], + "priority": 3, + "parents": [ + 24448 + ], + "children": [ + 24428, + 24432 + ], + "area": 68721.170518, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 24428, + "strid": "8bc61c92-407c-409a-b36c-b381193e88ee", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 99.946, + 778.175, + 1571.653, + 301.269 + ], + "priority": 4, + "parents": [ + 24427 + ], + "children": [], + "area": 77775.47855, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24432, + "strid": "06cd4336-d2ec-4fdf-9b93-f45b9de01ed0", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 333.798, + 1142.647, + 1221.929, + 821.642 + ], + "priority": 5, + "parents": [ + 24427 + ], + "children": [ + 24433 + ], + "area": 381413.283306, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24433, + "strid": "df12fc85-44b8-4566-b553-0b5d3a67b9be", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 87.306, + 2027.492, + 1641.177, + 139.0469999999998 + ], + "priority": 6, + "parents": [ + 24432 + ], + "children": [], + "area": 177012.216552, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1: AGRs are informative about the origin of gene families and which gene family members diversified during the two rounds (2R)\nof whole genome duplication (WGD) that occurred in early vertebrate evolution; two models are particularly useful: 1- Nakatani et al.\n(“N’), which reconstructs the 500 MY old ancestor of all vertebrates before 2R; and 2- Putnam et al. (“P”) which reconstructs the 770\nMY old common ancestor of amphioxus and olfactores (tunicates + vertebrates)." + }, + { + "id": 24435, + "strid": "4dbb019d-ad34-483d-97fa-992c2d88a0af", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.567, + 2256.829, + 255.822, + 58.68899999999985 + ], + "priority": 7, + "parents": [ + 24448 + ], + "children": [ + 24436 + ], + "area": 240503.496043, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 24436, + "strid": "92041114-96fc-44a1-9027-35a9febd6830", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.034, + 2335.08, + 1622.216, + 219.70600000000013 + ], + "priority": 8, + "parents": [ + 24435 + ], + "children": [], + "area": 224247.07272, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24434, + "strid": "dbf29bcb-0f46-4526-8fae-4b83e0301a42", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.567, + 2640.563, + 185.09499999999997, + 54.17399999999998 + ], + "priority": 9, + "parents": [ + 24448 + ], + "children": [ + 24437, + 24438 + ], + "area": 281396.877221, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 24437, + "strid": "8b188be3-44cc-4157-842d-ff67b594e099", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.072, + 2721.824, + 1568.042, + 93.30000000000018 + ], + "priority": 10, + "parents": [ + 24434 + ], + "children": [], + "area": 294152.96332800004, + "iscrowd": 0, + "segmentation": [], + "text": "We reconstructed the duplication history of RLN/INSL and RXFP genes using Nakatani et al.'s AGR model\n(Fig 2)" + }, + { + "id": 24438, + "strid": "dead323b-39d3-4738-9ccb-894fd8e9968c", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 100.548, + 2860.771, + 1795.774, + 1296.6690000000003 + ], + "priority": 11, + "parents": [ + 24434 + ], + "children": [ + 24439 + ], + "area": 287644.80250800005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24439, + "strid": "bf69c726-fd05-4c9c-8729-24cda3bcca6b", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 88.724, + 4258.837, + 1848.801, + 103.90599999999995 + ], + "priority": 12, + "parents": [ + 24438 + ], + "children": [], + "area": 377861.053988, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2. Duplication history of vertebrate RLN/INSL and RXFP genes. Diversification was driven primarily by whole genome duplications (WGD, 2R and\n3R). Linkage relationships of genes have changed over time and in different lineages. In the vertebrate ancestor, the ancestral peptide gene was co-\nlocalized with one of the ancestral receptors." + }, + { + "id": 24425, + "strid": "bd323efa-17c3-4b29-9eeb-c7c06ce7655a", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1873.85, + 681.263, + 225.42500000000018, + 52.66899999999998 + ], + "priority": 13, + "parents": [ + 24448 + ], + "children": [ + 24429, + 24426 + ], + "area": 1276584.67255, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 24426, + "strid": "3cbc33dc-59ff-4bde-b8a2-11b6cd7eefa3", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1869.636, + 761.321, + 1588.507, + 92.69799999999998 + ], + "priority": 14, + "parents": [ + 24425 + ], + "children": [], + "area": 1423393.149156, + "iscrowd": 0, + "segmentation": [], + "text": "The principle of using AGRs is simple: extant gene family members can be traced backwards in time on the\nlinkage groups of ancestral genomes, replete with chromosomal fission and fusion events (Fig 3)." + }, + { + "id": 24429, + "strid": "02604502-a36e-4bcf-bc21-298d0ba1dc4c", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2175.118, + 906.688, + 1068.134, + 798.467 + ], + "priority": 15, + "parents": [ + 24425 + ], + "children": [ + 24430 + ], + "area": 1972153.389184, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24430, + "strid": "3dfe8a18-c34b-4461-a701-ca7733ecfb6d", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2101.381, + 1719.903, + 1211.395, + 204.35699999999997 + ], + "priority": 16, + "parents": [ + 24429 + ], + "children": [], + "area": 3614171.4860429997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3. Principle of ancestral gene “tracing” using focal genes and AGRs. RLN3 and INSL3 linked\nin modern humans are shown to trace back to different ancestral chromosomes in the\ngnathostome ancestor (GA), but ultimately eminent from a single locus in the vertebrate ancestor\n(VA). Hence, these genes are ohnologs and not the product of a local duplication as previously\nproposed.\n\nGAC: Gnathostome Ancestor Chromosome; VAC: Vertebrate Ancestor Chromosome" + }, + { + "id": 24431, + "strid": "82f8e0cd-a59b-4626-ab2b-7a9f20a876d1", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2526.949, + 1981.142, + 356.0450000000001, + 50.5630000000001 + ], + "priority": 17, + "parents": [ + 24448 + ], + "children": [ + 24446 + ], + "area": 5006244.795758001, + "iscrowd": 0, + "segmentation": [], + "text": "Workflow Scheme" + }, + { + "id": 24446, + "strid": "12bcdd5d-1a36-4560-a354-7dbd960eb4ef", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2116.589, + 2068.517, + 1220.2579999999998, + 1407.5900000000001 + ], + "priority": 18, + "parents": [ + 24431 + ], + "children": [], + "area": 4378200.328512999, + "iscrowd": 0, + "segmentation": [] + }, 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4208.164, + 116.44599999999991, + 48.626000000000204 + ], + "priority": 21, + "parents": [ + 24448 + ], + "children": [ + 24440 + ], + "area": 8761915.052172, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 24440, + "strid": "35980ab0-cf48-4c6f-91c5-b3b4c7ae02db", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2075.725, + 4287.501, + 1357.681, + 124.1239999999998 + ], + "priority": 22, + "parents": [ + 24441 + ], + "children": [], + "area": 8899673.013225, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24443, + "strid": "19c8aa0f-0022-4546-8ed5-9a8f82af3619", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1738.688, + 4529.643, + 445.6089999999999, + 51.8149999999996 + ], + "priority": 23, + "parents": [ + 24448 + ], + "children": [ + 24442 + ], + "area": 7875635.928384, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 24442, + "strid": "f4d348e6-d211-410e-9c1b-42a7df40ec90", + "image_id": 201481, + "image_name": "117189.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1737.393, + 4608.661, + 1033.71, + 84.19999999999982 + ], + "priority": 24, + "parents": [ + 24443 + ], + "children": [], + "area": 8007055.360773, + "iscrowd": 0, + "segmentation": [], + "text": "This research was funded by NSERC to SVG and Manitoba Graduate\nStudent Award to SY." + }, + { + "id": 170804, + "strid": "cac10cf1-a003-4d72-95de-3a1a14c9303f", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2906.94, + 66.19, + 215.29999999999973, + 161.22 + ], + "priority": -1, + "parents": [], + "children": [ + 170773, + 170767, + 170770, + 170772, + 170768, + 170774, + 170775, + 170769, + 170771 + ], + "area": 192410.3586, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170767, + "strid": 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Left barcode highlights genes with multiple SNVs shown\nin the legend, in this case revealing known cancer genes." + }, + { + "id": 170794, + "strid": "41b555f3-0dbb-4a24-8b5c-55c4d3dea6d4", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2210.533, + 1872.204, + 767.2759999999998, + 160.83400000000006 + ], + "priority": 16, + "parents": [ + 170771 + ], + "children": [], + "area": 4138568.724732, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170772, + "strid": "028debe2-6834-46be-aca1-59da3f006f99", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 15.19, + 2284.634, + 64.134, + 446.7959999999998 + ], + "priority": 17, + "parents": [ + 170804 + ], + "children": [ + 170783, + 170795, + 170782, + 170797, + 170796 + ], + "area": 34703.59046, + "iscrowd": 0, + "segmentation": [], + "text": "LTD Pelee ele) ip" + }, + { + "id": 170782, + "strid": "72715ace-b84c-4dac-846e-0f58f3640492", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 117.903, + 2112.639, + 862.481, + 699.7380000000003 + ], + "priority": 18, + "parents": [ + 170772 + ], + "children": [], + "area": 249086.47601700004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170796, + "strid": "fac68e52-a106-4063-8e08-e22827a80bbc", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.139, + 2823.469, + 800.078, + 73.75199999999995 + ], + "priority": 19, + "parents": [ + 170772 + ], + "children": [], + "area": 353326.087191, + "iscrowd": 0, + "segmentation": [], + "text": "Clonality heatmap: Clonality (colour) of mutations (y-axis)\nover samples (x-axis). Left barcode shows assigned clone." + }, + { + "id": 170797, + "strid": "63f3744e-6fce-4033-aacf-60f6547495ab", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1015.671, + 2116.591, + 821.4010000000001, + 528.9900000000002 + ], + "priority": 20, + "parents": [ + 170772 + ], + "children": [], + "area": 2149760.097561, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170795, + "strid": "d70d70a0-b1a5-4a64-8147-a51d15e969b0", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1018.382, + 2750.499, + 858.842, + 154.88400000000001 + ], + "priority": 21, + "parents": [ + 170772 + ], + "children": [], + "area": 2801058.672618, + "iscrowd": 0, + "segmentation": [], + "text": "Story plots: Clonality (y-axis) of somatic mutations (dimmed\nlines) over sample (x-axis), grouped by clone (panel). Consensus\nclonality of clones shown as opaque line. Bottom right panel\nshows consensus clonality of all clones for this individual." + }, + { + "id": 170783, + "strid": "a12d78ed-a214-441c-b613-e4b28e11ee10", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1893.651, + 2112.45, + 1200.7949999999998, + 802.027 + ], + "priority": 22, + "parents": [ + 170772 + ], + "children": [], + "area": 4000243.05495, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170773, + "strid": "de37cf18-7d0c-4b09-a72a-2c4964613889", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 18.287, + 3235.476, + 64.44399999999999, + 620.049 + ], + "priority": 23, + "parents": [ + 170804 + ], + "children": [ + 170778, + 170800, + 170779, + 170781, + 170803, + 170799, + 170780, + 170798, + 170802, + 170801 + ], + "area": 59167.149612, + "iscrowd": 0, + "segmentation": [], + "text": "s}ubiybiy wu wobly" + }, + { + "id": 170798, + "strid": "c8ae3336-8c21-4d21-b8c4-9255b7ed96a8", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.173, + 2985.818, + 916.6119999999999, + 249.4960000000001 + ], + "priority": 24, + "parents": [ + 170773 + ], + "children": [], + "area": 385687.06851400004, + "iscrowd": 0, + "segmentation": [], + "text": "Coverage analysis with limma'-voom*: Each\nsample is compared to the pool of normal samples.\nRead counts are corrected for GC bias (from PCR),\n\nMA (from fragment length) and sex. Limma LFC and\nvariance estimates are used for CNA calling." + }, + { + "id": 170781, + "strid": "f7ccfa0a-461f-4d51-a8e5-4a3ca9364d71", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 117.753, + 3272.516, + 954.8349999999999, + 241.19700000000012 + ], + "priority": 25, + "parents": [ + 170773 + ], + "children": [], + "area": 385348.576548, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170799, + "strid": "46e3e643-14ba-40d1-823d-758b7d8770ce", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.743, + 3538.205, + 929.962, + 155.12699999999995 + ], + "priority": 26, + "parents": [ + 170773 + ], + "children": [], + "area": 459057.33131499996, + "iscrowd": 0, + "segmentation": [], + "text": "Coverage (left y-axis) as function of GC content (left x-axis) and LFC\ncompared to normals (right y-axis) as function of log geometric\nmean (x-axis). The counts are corrected by the orange loess fit. Exons\nare weighted by count over all samples, shown as point size." + }, + { + "id": 170800, + "strid": "6c7b95f0-5f54-4f36-8d95-7f337fdb5914", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.989, + 3753.736, + 913.8209999999999, + 250.88700000000017 + ], + "priority": 27, + "parents": [ + 170773 + ], + "children": [], + "area": 484190.652904, + "iscrowd": 0, + "segmentation": [], + "text": "CNA from heterozygous SNP frequency:\n\nA CNA call requires that the SNPs are consistent with\nthe call, not only significantly deviating from germline\ncopy number. This allows robust allele specific CNA\ncalls even when no matched normals are available." + }, + { + "id": 170803, + "strid": "15ba047a-8592-4956-9de9-bf6f6064dc76", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1101.562, + 2994.087, + 1030.241, + 325.701 + ], + "priority": 28, + "parents": [ + 170773 + ], + "children": [], + "area": 3298172.463894, + "iscrowd": 0, + "segmentation": [], + "text": "Uncertainty propagation: Propagates\n\nconfidence intervals throughout analysis: from .bam to\ncoverage LFC, variant frequency and clonality.\n\nCoverage LFC (x-axis) and SNP frequency (y-axis) of CNA regions (dots) with\nerror bars (crosses) compared to expected values from CNAs with increasing\n\nclonality (thickening lines). Used for CNA calls and ploidy. The LFC and\nfrequency errors are propagated to the clonality error of the call." + }, + { + "id": 170802, + "strid": "3042cb6f-d450-474d-a47c-223fc226001e", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1108.688, + 3362.896, + 885.184, + 148.2449999999999 + ], + "priority": 29, + "parents": [ + 170773 + ], + "children": [], + "area": 3728402.4404480006, + "iscrowd": 0, + "segmentation": [], + "text": "Allele sensitive: Checks if the same allele is lost/\ngained between samples. AAB vs ABB. Called in the\nclonal tracking of chr 7 gain above." + }, + { + "id": 170779, + "strid": "bcd423c1-e02c-4366-9ad2-55b6035cecdf", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1115.906, + 3522.289, + 405.08899999999994, + 405.08899999999994 + ], + "priority": 30, + "parents": [ + 170773 + ], + "children": [], + "area": 3930543.428834, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170780, + "strid": "ca83c519-4685-42bf-8201-6564a39d7000", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1559.966, + 3523.314, + 402.0129999999999, + 404.06399999999985 + ], + "priority": 31, + "parents": [ + 170773 + ], + "children": [], + "area": 5496250.047323999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170801, + "strid": "01e79d46-c880-45b0-9bf1-d940a7d3cf88", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1108.356, + 3945.841, + 912.5249999999999, + 152.19399999999996 + ], + "priority": 32, + "parents": [ + 170773 + ], + "children": [], + "area": 4373396.547396, + "iscrowd": 0, + "segmentation": [], + "text": "The SNV frequencies on chromosome 7. Left plot shows that\nP4.FL.2005 and P4.FL.2006 have gained the same allele (AAB). Right\n\nplot shows that P4.DLBCL.2008 has gained the opposite allele of\nchromsome 7 (ABB)." + }, + { + "id": 170778, + "strid": "63526192-1c85-424a-bd89-ba0d9836cdcc", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2194.242, + 2976.912, + 794.116, + 361.37199999999984 + ], + "priority": 33, + "parents": [ + 170773 + ], + "children": [], + "area": 6532065.340704001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170774, + "strid": "b34f1290-34b3-495d-8dfc-ba02aca53fa8", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2388.273, + 3385.331, + 492.78099999999995, + 56.47499999999991 + ], + "priority": 34, + "parents": [ + 170804 + ], + "children": [ + 170777 + ], + "area": 8085094.623363, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 170777, + "strid": "91776a6f-9b01-4cf5-acb7-5e2730e6fd00", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2199.501, + 3475.279, + 854.9569999999999, + 202.21099999999979 + ], + "priority": 35, + "parents": [ + 170774 + ], + "children": [], + "area": 7643879.635779001, + "iscrowd": 0, + "segmentation": [], + "text": "Data provided through the courtesy of McCorrmack lab, Leukemia\nFoundation and Netherlands Cancer Institute.\n\nThe public code is (more) reliable thanks to the beta testers\nChristophe Lefevre, Jan Schroder and Aliaksei Holik." + }, + { + "id": 170775, + "strid": "d37c178d-8255-4382-a019-2512d942cce6", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2498.682, + 3788.368, + 269.22699999999986, + 45.77500000000009 + ], + "priority": 36, + "parents": [ + 170804 + ], + "children": [ + 170776 + ], + "area": 9465926.930976, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 170776, + "strid": "423d4285-ad7a-436c-8472-89b26c032b25", + "image_id": 207167, + "image_name": "7044.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2199.359, + 3882.199, + 698.672, + 194.79599999999982 + ], + "priority": 37, + "parents": [ + 170775 + ], + "children": [], + "area": 8538349.310441, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71742, + "strid": "4ce5699b-dc3d-407b-a665-b54e04d9c828", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 30.86, + 23.22, + 114.67999999999999, + 355.49 + ], + "priority": -1, + "parents": [], + "children": [ + 71719, + 71724, + 71721, + 71741, + 71722, + 71720, + 71718, + 71723 + ], + "area": 716.5691999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71718, + "strid": "cd8350a0-d998-4231-852a-ffa3a678aa07", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 499.809, + 116.829, + 2349.646, + 240.233 + ], + "priority": 1, + "parents": [ + 71742 + ], + "children": [], + "area": 58392.185661, + "iscrowd": 0, + "segmentation": [], + "text": "Sigmoid function parameter stability in anatomically\ninformed priors for dynamic causal models = *" + }, + { + "id": 71719, + "strid": "f963812f-e2fe-43ec-841c-e3952cfc7311", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 149.996, + 390.779, + 3032.413, + 448.856 + ], + "priority": 2, + "parents": [ + 71742 + ], + "children": [], + "area": 58615.286884, + "iscrowd": 0, + "segmentation": [], + "text": "René Labounek’, Martin CFI close ele Fousek>”, Michal Mikl?, Martin SEW I(ocs) eae Milan Brazdil’, ieee\n\nth F , :\neral MN Llu a) Mele eal mele .\n\nFor 37 subjects, the masks were calculated auto-\nmatically based on distance map from the fMRI\nSPM (distance < 4mm), tractography was per-\nformed with 1° and 2\" level tracking (described\nin Labounek and Jan 2014), absolute probabili-\nties were used in effective connectivity estima-\ntion with DCM12 version (variances <0,0.0156>).\nOptimal models were selected based on Bayesi-\nan model selection (Stephan et al. 2009a)." + }, + { + "id": 71721, + "strid": "4856c28c-d2a2-40c2-868e-9962c694757c", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1176.47, + 1041.414, + 208.60799999999995, + 57.01099999999997 + ], + "priority": 7, + "parents": [ + 71742 + ], + "children": [ + 71729, + 71737, + 71738, + 71740, + 71739 + ], + "area": 1225192.32858, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 71729, + "strid": "c47283b1-7db5-4d9e-8fb0-e62260981a69", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1171.19, + 1124.006, + 964.2080000000001, + 854.0130000000001 + ], + "priority": 8, + "parents": [ + 71721 + ], + "children": [], + "area": 1316424.5871400002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71739, + "strid": "81527bf2-ecf5-4e69-bb2d-8453a8d01bb5", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1186.399, + 2087.097, + 937.2759999999998, + 338.7739999999999 + ], + "priority": 9, + "parents": [ + 71721 + ], + "children": [ + 71734 + ], + "area": 2476129.793703, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71734, + "strid": "7fa24981-cc83-46f4-a955-0996f6409ec4", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1174.09, + 2439.14, + 953.3109999999999, + 235.95600000000013 + ], + "priority": 10, + "parents": [ + 71739 + ], + "children": [], + "area": 2863769.8825999997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Log-evidence of setted models for different\nprior variances in DCM8 estimations and 11 subjects\n(model 1-41: decreasing sigmoid; 42-62: increasing sig-\nmoid; 63: global variance 1/6; 64: glob. variance 0.0405\n(Stephan et al. 2009b); 65: glob. variance 1.333 (SPM8))" + }, + { + "id": 71738, + "strid": "fc716ab0-31af-4892-b908-e9be779970a6", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1592.928, + 2681.364, + 542.039, + 371.24000000000024 + ], + "priority": 11, + "parents": [ + 71721 + ], + "children": [ + 71735 + ], + "area": 4271219.793792, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71735, + "strid": "214e4ba0-f338-4d15-8629-153a46e6bf5c", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1171.719, + 2716.597, + 396.02700000000004, + 324.88499999999976 + ], + "priority": 12, + "parents": [ + 71738 + ], + "children": [], + "area": 3183088.3202430005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Sigmoid func-\ntion of the model with\nthe best data fit for 37\nsubjects (sigmoid pa-\nrameters:a=-2, B = 10,\nsee Stephan et al.\n2009b)" + }, + { + "id": 71737, + "strid": "9711c7f3-92d1-4860-9fb6-0a20b1721274", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1193.457, + 3061.638, + 928.807, + 731.1880000000001 + ], + "priority": 13, + "parents": [ + 71721 + ], + "children": [ + 71736 + ], + "area": 3653933.3025660003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71736, + "strid": "18d6d2b5-df41-4896-9f8c-050d1a8ad896", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1170.533, + 3814.564, + 960.4259999999999, + 183.78499999999985 + ], + "priority": 14, + "parents": [ + 71737 + ], + "children": [], + "area": 4465073.042611999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Gamma distributed probabilities of anatomical\nconnections for 37 subjects (right part: 1* level tracking;\nleft part: 2\" level tracking; details about 1% and 2\" level\ntracking see in Labounek and Jan 2014)" + }, + { + "id": 71740, + "strid": "46f315c9-fec4-447d-a28d-f5023088403c", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2216.838, + 1036.896, + 954.2150000000001, + 718.4840000000002 + ], + "priority": 15, + "parents": [ + 71721 + ], + "children": [ + 71733 + ], + "area": 2298630.4548480003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71733, + "strid": "c959c9d7-59b5-474a-ae86-7fec5b2f2189", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2194.038, + 1770.399, + 995.9969999999998, + 235.71900000000005 + ], + "priority": 16, + "parents": [ + 71740 + ], + "children": [], + "area": 3884322.6811619997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Log-evidence of setted models for different pri-\nors in DCM12 estimations and 37 subjects (model 1-40: 1*\nlevel tracking; 41-117: 2\" level tracking; 118-176: 2™ level\ntracking with elimination property (variance=0 if gamma\np.d.f. is a hyperbole, see Figure 3); 177: classic DCM)" + }, + { + "id": 71724, + "strid": "7f431afc-8fc6-4056-9f22-c3df65b2d9fc", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2198.124, + 2091.195, + 351.52300000000014, + 56.40099999999984 + ], + "priority": 17, + "parents": [ + 71742 + ], + "children": [ + 71728 + ], + "area": 4596705.91818, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 71728, + "strid": "a9f92f4e-1021-42f4-af32-3f872f6b59f6", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2196.956, + 2174.926, + 990.5819999999999, + 791.922 + ], + "priority": 18, + "parents": [ + 71724 + ], + "children": [], + "area": 4778216.725256, + "iscrowd": 0, + "segmentation": [], + "text": "Results showed that anatomical connectivity\ncan increase model evidence in effective con-\nnectivity estimation also for motor task. It\nseems that sigmoid function should be increas-\ning. Alternatively, it might be possible to opti-\nmize prior variances based on two parameters\ndescribing gamma distributed dMRI data. The\nused methodology has limitations because indi-\nrect anatomical connections were not detected.\nIt could be a reason why best model fit gives\nnon-zero variance to zero probability of anatom-\nical connection. In the future work, we will de-\ntect indirect connections, use post-hoc selection\non best data fit and use other task data." + }, + { + "id": 71741, + "strid": "3f869e43-5e39-4756-8766-70f0f28649d2", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 117.442, + 4120.824, + 580.08, + 73.14800000000014 + ], + "priority": 19, + "parents": [ + 71742 + ], + "children": [ + 71732, + 71731, + 71730 + ], + "area": 483957.81220799993, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 71730, + "strid": "7831955c-303d-4dd9-b132-f3d853602b01", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.916, + 4225.465, + 991.415, + 389.03600000000006 + ], + "priority": 20, + "parents": [ + 71741 + ], + "children": [], + "area": 498249.93094, + "iscrowd": 0, + "segmentation": [], + "text": "The research was supported by Grant Agency of Czech Repub-\nlic by the grant no. P103/12/0552 and by foundation “Nadani\nJosefa, Marie a Zdenky Hlavkovych. The funding is highly\nacknowledged.\n\nData were provided [in part] by the Human Connectome Pro-\nject, WU-Minn Consortium (Principal Investigators: David Van\nEssen and Kamil Ugurbil; 1U54MH091657) funded by the 16" + }, + { + "id": 71731, + "strid": "240ebe58-ffd3-47a4-abea-7ac89cbdd8d9", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1165.107, + 4113.914, + 998.3869999999997, + 508.9539999999997 + ], + "priority": 21, + "parents": [ + 71741 + ], + "children": [], + "area": 4793149.998798, + "iscrowd": 0, + "segmentation": [], + "text": "NIH Institutes and Centers that support the NIH Blueprint for\nNeuroscience Research; and by the McDonnell Center for\nSystems Neuroscience at Washington University.\n\nAccess to computing and storage facilities owned by parties\nand projects contributing to the National Grid Infrastructure\nMetaCentrum, provided under the programme \"Projects of\nLarge Infrastructure for Research, Development, and Innova-\n\ntions\" (LM2010005), is greatly appreciated.\nAccess to the CERIT-SC computing and storage facilities provid-" + }, + { + "id": 71732, + "strid": "d0212d62-38a4-4ade-a2a9-0226159e8495", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2191.382, + 4112.519, + 992.81, + 221.70899999999983 + ], + "priority": 22, + "parents": [ + 71741 + ], + "children": [], + "area": 9012100.111258, + "iscrowd": 0, + "segmentation": [], + "text": "ed under the programme Center CERIT Scientific Cloud, part of\nthe Operational Program Research and Development for In-\nnovations, reg. no. CZ. 1.05/3.2.00/08.0144, is greatly ap-\npreciated." + }, + { + "id": 71723, + "strid": "0cbcda2d-d5bd-4ef0-af64-4915166e1325", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2200.747, + 3071.0, + 321.355, + 57.71300000000019 + ], + "priority": 23, + "parents": [ + 71742 + ], + "children": [ + 71727 + ], + "area": 6758494.037, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 71727, + "strid": "9c7f055d-e62b-4627-8898-481d0a010ce6", + "image_id": 203297, + "image_name": "120012.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2198.316, + 3153.262, + 989.2219999999998, + 840.906 + ], + "priority": 24, + "parents": [ + 71723 + ], + "children": [], + "area": 6931866.306791999, + "iscrowd": 0, + "segmentation": [], + "text": "Behrens T.E.J., et al. (2007), ‘Probabilistic diffusion tractography\nwith multiple fibre orientations: What can we gain?', Neuroimage,\nvol. 34, no. 1, pp. 144-55.\n\nFriston K.J., Harrison L., Penny W. (2003), ‘Dynamic causal model-\nling', Neuroimage, vol. 19, no. 4, pp. 1273-302.\n\nFriston K.J., et al. (1994), ‘Statistical Parametric Maps in Functional\nImaging?: A General Linear Approach’, Hum Brain Mapping, vol. 2,\nno. 4, pp. 189-210.\n\nGlasser M.F., et al. (2013), 'The minimal preprocessing pipelines\nfor the Human Connectome Project', Neuroimage,vol.80,pp.105-24.\nJbabdi S., et al. (2012), ‘Model-based analysis of multishell diffu-\nsion MR data for tractography: how to get over fitting problems’,\nMagnetic Resonance in Medicine, vol. 68, no. 6, pp. 1846-55.\nLabounek R., Jan J. (2014), Brain: Anatomical connectivity for\neffective connectivity optimization. In: 20th conference EEICT\n2014. 3. Brno, pp. 237-241. ISBN: 978-80-214-4924- 4.\n\nStephan K.E., et al. (2009a), 'Bayesian model selection for group\nstudies', Neuroimage, vol. 46, no. 4, pp. 1004-17.\n\nStephan K.E., et al. (2009b), 'Tractography-based priors for dynam-\nic causal models', Neuroimage, vol. 47, no. 4, pp. 1628-38." + }, + { + "id": 152793, + "strid": "b3ab4e62-8087-4a44-8ead-99b2a8a46e2d", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 72.68, + 22.39, + 261.48, + 113.98 + ], + "priority": -1, + "parents": [], + "children": [ + 152775, + 152779, + 152774, + 152780, + 152776, + 152792, + 152791, + 152777, + 152778 + ], + "area": 1627.3052000000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152774, + "strid": "25c3523f-cd16-42a6-8dc4-f8eabeb8ee8f", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 264.764, + 185.813, + 2773.068, + 236.52800000000002 + ], + "priority": 1, + "parents": [ + 152793 + ], + "children": [], + "area": 49196.593132, + "iscrowd": 0, + "segmentation": [], + "text": "A crowdsourcing database for the copy-number\nvariation of the Spanish population" + }, + { + "id": 152775, + "strid": "920e29cc-33db-42d5-bd1c-33533dab6aa4", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 170.084, + 441.361, + 2960.354, + 302.3059999999999 + ], + "priority": 2, + "parents": [ + 152793 + ], + "children": [], + "area": 75068.444324, + "iscrowd": 0, + "segmentation": [], + "text": "Daniel Lépez-Lépez':*?, Gema Roldan, Rosario Carmona??, Gerrit Bostelmannt, Jose Luis Fernandez-Rueda!, Virginia\nAquino’, Maria Pefia-Chilet?:?, Rubén Garcfa’, Rocio Nufiez*, Guillermo Pita‘, Anna Gonzalez* and Joaquin Dopazo!235\n1Computational Medicine Platform, Andalusian Public Foundation Progress and Health (FPS), *Computational Systems Medicine, Institute of Biomedicine of Seville (IBiS),\n\n3Centro de Investigacién Biomédica en Red en Enfermedades Raras (CIBERER), “Human Genotyping Unit, Spanish National Cancer Research Centre (CNIO), SFPS-ELIXIR-ES,\nAndalusian Public Foundation Progress and Health (FPS)" + }, + { + "id": 152776, + "strid": "f0844385-237e-4483-ab2f-295d6a0eaac1", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 286.108, + 930.917, + 331.517, + 46.263000000000034 + ], + "priority": 3, + "parents": [ + 152793 + ], + "children": [ + 152781 + ], + "area": 266342.801036, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation" + }, + { + "id": 152781, + "strid": "604ed421-ad3f-4a69-9c4c-5193a027d2a8", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.572, + 1051.228, + 708.845, + 693.6010000000001 + ], + "priority": 4, + "parents": [ + 152776 + ], + "children": [], + "area": 106775.33041600001, + "iscrowd": 0, + "segmentation": [], + "text": "Despite being a very common type\nof genetic variation, the distribu-\ntion of copy-number variations in\nthe population is still poorly un-\nderstood. The knowledge of the\ngenetic variability, especially at\nthe level of the local popula-\ntion, is a critical factor for dis-\ntinguishing pathogenic from non-\npathogenic variation in the discov-\nery of new disease variants." + }, + { + "id": 152777, + "strid": "25f9ef7c-e899-4a9d-a0e4-0b69a2ab7040", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1939.536, + 948.249, + 223.78200000000015, + 51.13499999999999 + ], + "priority": 5, + "parents": [ + 152793 + ], + "children": [ + 152786 + ], + "area": 1839163.0724640002, + "iscrowd": 0, + "segmentation": [], + "text": "1Pyat bhi" + }, + { + "id": 152786, + "strid": "5f8c80d4-c8d5-4e12-af3b-84516b1960d2", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 930.45, + 1064.186, + 2242.709, + 488.625 + ], + "priority": 6, + "parents": [ + 152777 + ], + "children": [], + "area": 990171.8637, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152778, + "strid": "65abd30d-ba95-4085-8be7-5d2f9bf6f7e6", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 732.184, + 1831.21, + 238.909, + 51.27099999999996 + ], + "priority": 7, + "parents": [ + 152793 + ], + "children": [ + 152787 + ], + "area": 1340782.66264, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 152787, + "strid": "d6b94457-0eee-4bb6-a67e-8f6445e1788f", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 103.056, + 1976.328, + 1508.228, + 1193.9360000000001 + ], + "priority": 8, + "parents": [ + 152778 + ], + "children": [], + "area": 203672.458368, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152779, + "strid": "e1d97d98-a188-4b13-adfb-603328e8adf4", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2242.685, + 1831.185, + 423.50199999999995, + 51.09400000000005 + ], + "priority": 9, + "parents": [ + 152793 + ], + "children": [ + 152782, + 152790 + ], + "area": 4106771.1317249998, + "iscrowd": 0, + "segmentation": [], + "text": "Web interface" + }, + { + "id": 152790, + "strid": "75ce7965-11a0-4623-b7e3-c2cbca9c26a9", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1696.3, + 1973.46, + 1506.0850000000003, + 802.797 + ], + "priority": 10, + "parents": [ + 152779 + ], + "children": [], + "area": 3347580.198, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152782, + "strid": "bb38ed20-3fe7-47fc-ba70-0fb914b521f7", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1703.266, + 2796.283, + 1507.058, + 251.85199999999986 + ], + "priority": 11, + "parents": [ + 152779 + ], + "children": [], + "area": 4762813.7602780005, + "iscrowd": 0, + "segmentation": [], + "text": "(A) Genome browser panel consisting of an embedded Integrative Genomics Viewer\npreloaded with the Spanish CNV database and other useful tracks. (B) Search and\nselection panel, which provides several filters for specifying the genomic region and the\ndata to be shown. (C) Filtering status panel, which shows information about the active\n\nfilters." + }, + { + "id": 152780, + "strid": "aeec0df3-e331-48bb-b6c7-d50693ab4574", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 143.73, + 3250.258, + 1017.356, + 60.72499999999991 + ], + "priority": 12, + "parents": [ + 152793 + ], + "children": [ + 152783, + 152788 + ], + "area": 467159.58233999996, + "iscrowd": 0, + "segmentation": [], + "text": "Comparison with other databases" + }, + { + "id": 152783, + "strid": "bf10f8dc-d0ed-464a-85fb-3dbdca33e1ee", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.761, + 3371.87, + 1055.303, + 376.97199999999975 + ], + "priority": 13, + "parents": [ + 152780 + ], + "children": [], + "area": 424049.74306999997, + "iscrowd": 0, + "segmentation": [], + "text": "Most SPACNACS CNVs overlap to a greater or\nlesser extent with some CNVs from both, 1000\ngenomes or Gnomad projects. Interestingly, a re-\nmarkable amount of SPACNACS CNVs do not\noverlap with any other CNV, which would play a\ncrucial role in CNVs prioritization processes." + }, + { + "id": 152788, + "strid": "3f3c31dd-b18e-4be0-9be6-0cbeba4021e3", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 307.739, + 3767.84, + 702.137, + 389.02199999999993 + ], + "priority": 14, + "parents": [ + 152780 + ], + "children": [], + "area": 1159511.31376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152791, + "strid": "3ef0fe9b-0bcc-4765-9683-63d4e9704805", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1658.788, + 3248.738, + 336.2660000000001, + 62.998999999999796 + ], + "priority": 15, + "parents": [ + 152793 + ], + "children": [ + 152789, + 152784 + ], + "area": 5388967.609544, + "iscrowd": 0, + "segmentation": [], + "text": "Case study" + }, + { + "id": 152784, + "strid": "cc947dea-a2ef-42e0-888f-08d70f97fe10", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1300.433, + 3373.743, + 1059.6080000000002, + 377.88099999999986 + ], + "priority": 16, + "parents": [ + 152791 + ], + "children": [], + "area": 4387326.730719, + "iscrowd": 0, + "segmentation": [], + "text": "A 5,58% of the pharmacogenomic relevant\ngenes reported in the clinical annotations from\nPharmGKB database, showed a minor allele fre-\nquency (MAF) higher than 5% in SPACNACS, sug-\ngesting a relevant role of this kind of variation in the\npharmacogenomics field." + }, + { + "id": 152789, + "strid": "81a4fc19-216d-4da0-abf3-466973a41406", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1484.292, + 3775.43, + 697.393, + 385.2260000000001 + ], + "priority": 17, + "parents": [ + 152791 + ], + "children": [], + "area": 5603840.5455599995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 152792, + "strid": "19c0680b-541c-42c5-bcf4-3e509b6e2a62", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2717.712, + 3250.023, + 218.92500000000018, + 50.36799999999994 + ], + "priority": 18, + "parents": [ + 152793 + ], + "children": [ + 152785 + ], + "area": 8832626.507376, + "iscrowd": 0, + "segmentation": [], + "text": "Beacon" + }, + { + "id": 152785, + "strid": "b06154d9-1cac-43e2-96ea-570c4b60dbc4", + "image_id": 206448, + "image_name": "21468.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2475.927, + 3376.795, + 705.1120000000001, + 618.0070000000001 + ], + "priority": 19, + "parents": [ + 152792 + ], + "children": [], + "area": 8360697.913965001, + "iscrowd": 0, + "segmentation": [], + "text": "SPACNACS implements a Beacon\n(version 1.0), a standard proto-\ncol used to query the database\nto check whether a specific re-\ngion is involved in a CNV. The\nBeacon is an initiative of the\nGlobal Alliance for Genomics and\nHealth (GA4GH) that allows ge-\nnomic data sharing across fed-\nerated networks." + }, + { + "id": 44301, + "strid": "c79af04f-48a3-46d5-a492-873a469192ec", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 90.04, + 223.96, + 273.83, + 282.39 + ], + "priority": -1, + "parents": [], + "children": [ + 44282, + 44295, + 44278, + 44290, + 44280, + 44291, + 44281, + 44279 + ], + "area": 20165.3584, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44279, + "strid": "b0e46a81-55ac-4641-8d50-b400b9d34338", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 447.67, + 89.598, + 2844.156, + 115.03600000000002 + ], + "priority": 1, + "parents": [ + 44301 + ], + "children": [], + "area": 40110.33666, + "iscrowd": 0, + "segmentation": [], + "text": "Identifying Perceptual Features of Procedural Textures" + }, + { + "id": 44278, + "strid": "fc306006-3503-4ee0-8fad-b3a1506ca89c", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 439.042, + 212.314, + 2337.738, + 206.68699999999998 + ], + "priority": 2, + "parents": [ + 44301 + ], + "children": [], + "area": 93214.763188, + "iscrowd": 0, + "segmentation": [], + "text": "Jun Liu’, Janyu Dong’, Lin Qi’ , Mike Chantler\n‘Department of Computer Science and Technology, Ocean University of China, China\n2School-of Mathematical and Computef)Science, Heriot-Watt University, United Kingdom" + }, + { + "id": 44281, + "strid": "150eb948-ca62-49bf-bdcc-89429bb527f7", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.426, + 641.728, + 390.546, + 58.67399999999998 + ], + "priority": 3, + "parents": [ + 44301 + ], + "children": [ + 44283 + ], + "area": 54820.25612799999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 44283, + "strid": "47bc4f08-4342-411c-90e1-a76043221a4c", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 63.423, + 764.576, + 1554.85, + 412.548 + ], + "priority": 4, + "parents": [ + 44281 + ], + "children": [], + "area": 48491.703648, + "iscrowd": 0, + "segmentation": [], + "text": "Procedural texture is widely used in many research and application\nfields. Procedural texture models have the advantage that different\ntextures can be efficiently generated by varying a set of input\nparameters to mathematical models. Identifying perceptual texture\nfeatures is important for texture generation, browsing and retrieval.\nThis work focused on investigating perceptual features of procedural\ntextures." + }, + { + "id": 44282, + "strid": "8abc7622-b393-4835-8c0f-f8fe57e76f83", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.925, + 1228.464, + 269.532, + 66.00800000000004 + ], + "priority": 5, + "parents": [ + 44301 + ], + "children": [ + 44297, + 44300, + 44299, + 44298 + ], + "area": 98184.9852, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 44300, + "strid": "b5408c78-0807-4c88-954e-82afd386b507", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 56.089, + 1325.642, + 1543.848, + 298.86799999999994 + ], + "priority": 6, + "parents": [ + 44282 + ], + "children": [], + "area": 74353.934138, + "iscrowd": 0, + "segmentation": [], + "text": "Texture samples\nFour hundred and fifty samples were generated using 23\ngeneration methods. Each rendered texture was printed on 4*4 inch\nphotographic paper with a resolution of 128 pixels per inch for\npsychophysical experiments." + }, + { + "id": 44299, + "strid": "015bcc72-ea4b-4061-a5da-1de46f79314a", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.922, + 1631.845, + 1547.515, + 234.69399999999996 + ], + "priority": 7, + "parents": [ + 44282 + ], + "children": [], + "area": 94519.72609, + "iscrowd": 0, + "segmentation": [], + "text": "subjects\nTwenty and forty observers participated in the free grouping and\nrating tasks respectively, including males and females aged from 23\nto 35." + }, + { + "id": 44298, + "strid": "6d79b23e-b8e0-4c7f-93c7-ca6355edb8f0", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.922, + 1875.707, + 1547.515, + 841.5989999999999 + ], + "priority": 8, + "parents": [ + 44282 + ], + "children": [], + "area": 108644.700854, + "iscrowd": 0, + "segmentation": [], + "text": "Procedure\nExperiment | - Free grouping\nObservers were asked to group the 450 samples. The samples are\nrandomly located on a flat surface so that the observer is able to view\nall of them at the same time. Then the observer is asked to make\ngroups of textures which are perceived similar. There is no restriction\non the number of textures that place in any group. Singleton is not\nallowed to be a group.\nExperiment Il - Rating\nThe samples were divided into fifteen groups. The order of the\nimages in each group was randomized using Latin Squares. The\nobserver needed to go through all the textures in a group and check\nevery image carefully. Then they rated each sample in the 12 texture\ndescription dimensions proposed by [1] using 9-point Likert scales." + }, + { + "id": 44297, + "strid": "ee242218-162a-4e3e-84e3-e044159f9a1e", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 145.933, + 2733.808, + 1312.821, + 1085.4610000000002 + ], + "priority": 9, + "parents": [ + 44282 + ], + "children": [ + 44296 + ], + "area": 398952.80286399997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44296, + "strid": "0df86265-bc4b-4ba5-b714-4000b89d72a4", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 153.267, + 3830.27, + 639.9089999999999, + 47.672000000000025 + ], + "priority": 10, + "parents": [ + 44297 + ], + "children": [], + "area": 587053.99209, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.1 Samples used in Experiments..." + }, + { + "id": 44280, + "strid": "b867da2d-e307-41e1-86fe-8f454edca984", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1742.954, + 639.895, + 225.52600000000007, + 58.67399999999998 + ], + "priority": 11, + "parents": [ + 44301 + ], + "children": [ + 44284, + 44285, + 44287, + 44288 + ], + "area": 1115307.54983, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 44284, + "strid": "63379e7d-9454-4c81-bc90-a776c052872b", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1673.279, + 735.239, + 1556.683, + 236.52800000000002 + ], + "priority": 12, + "parents": [ + 44280 + ], + "children": [], + "area": 1230259.978681, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment | - Free grouping\n\nA similarity matrix of 23 methods was created from grouping tasks.\nHierarchical cluster analysis (HCA) was applied to the matrix and\nthese methods were clustered into 10 classes." + }, + { + "id": 44285, + "strid": "6a2351c6-14d8-4f6b-a23f-d395ddfad0f5", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1737.453, + 984.602, + 1219.31, + 742.5869999999999 + ], + "priority": 13, + "parents": [ + 44280 + ], + "children": [ + 44286 + ], + "area": 1710699.6987059999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44286, + "strid": "a4af05fb-13f5-45a7-b070-2a370987dfd4", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1700.782, + 1741.858, + 1562.184, + 462.05399999999986 + ], + "priority": 14, + "parents": [ + 44285 + ], + "children": [], + "area": 2962520.7329559997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.2 The Dendrogram of Procedural Texture Generation Methods (Cellular\nAutomaton(forest fire model), Cellular Automaton(surface tension model), Cellular\nAutomaton(excitable media model), Cellular[2], Folding_Texton, Folding_Cellular,\nFolding_Fractal, Folding_Perlin, Fractal(one-over-fBeta-noise), Fractal(Fourier spetral\nsynthesis)[3], Fusion cellular&texton, Fusion perlin&cellular, Fusion perlin&texton[4],\nIslamic Patterns[5], Matrix Transformation[6], Perlin Noise[7], Reaction Diffusion[8],\nTexton Addition, Texton Probability Map, Texion Random Grid, Texton Random Work,\nTexton Regular[9], Wavelet Noise[10]) generated from the Similarity Matrix Based on the\nGrouping Data. The Dashed Red Line Shows the Threshold We Used to Produce the 10\nClasses." + }, + { + "id": 44287, + "strid": "f2b2e0c6-b03f-403a-aa97-0208f16dd09a", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1680.613, + 2222.247, + 1551.182, + 480.3899999999999 + ], + "priority": 15, + "parents": [ + 44280 + ], + "children": [], + "area": 3734737.197411, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment II - Rating\n\nWe trained a support vector machine model for prediction based on\nthe HCA results with the 12-dimensional features. For all texture\ngeneration methods, the accuracy for predicting a given sample\nbelonging to a certain class was 59.22% for the leave-one-out test.\nHowever, when we selected five near-regular texture generation\nmethods based on the rating data, the prediction accuracy was raised\nto 91%." + }, + { + "id": 44288, + "strid": "a5e5a974-7e56-421a-b265-84350bcb7904", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1664.111, + 2717.306, + 1492.5089999999998, + 746.2550000000001 + ], + "priority": 16, + "parents": [ + 44280 + ], + "children": [ + 44289 + ], + "area": 4521898.804966, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44289, + "strid": "4be28941-3e99-48d8-950a-39fcf85888bf", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2681.731, + 3106.018, + 573.9009999999998, + 370.37699999999995 + ], + "priority": 17, + "parents": [ + 44288 + ], + "children": [], + "area": 8329504.757158001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.3 The Perceptual Scales of\nthe Twelve Texture Description\nFeatures of the Five Regular\nTexture Generation Methods.\nThese Methods Were Selected\nfrom All 23 Methods with a\nThreshold of the Regularity\nabove 4." + }, + { + "id": 44290, + "strid": "fbce6255-9c09-419c-84d8-69145043f4fc", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1737.453, + 3513.066, + 344.7069999999999, + 67.8409999999999 + ], + "priority": 18, + "parents": [ + 44301 + ], + "children": [ + 44293 + ], + "area": 6103787.060897999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 44293, + "strid": "88fa4dab-1c66-43e2-9a27-14084028588f", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1678.78, + 3623.079, + 1551.182, + 232.86099999999988 + ], + "priority": 19, + "parents": [ + 44290 + ], + "children": [], + "area": 6082352.56362, + "iscrowd": 0, + "segmentation": [], + "text": "These results indicated that the 12 perceptual features could be used\nto discriminate near-regular texture classes as human perceived;\nhowever, they are not good enough for discriminating random\ntextures classes." + }, + { + "id": 44291, + "strid": "5a8844d8-f732-4763-8e2f-fa4fcd957d7d", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2447.037, + 3918.28, + 608.7379999999998, + 73.3420000000001 + ], + "priority": 20, + "parents": [ + 44301 + ], + "children": [ + 44292 + ], + "area": 9588176.136359999, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 44292, + "strid": "cfa009f7-9817-4aef-9074-7236ab3faa81", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2381.029, + 4033.794, + 876.4360000000001, + 337.3729999999996 + ], + "priority": 21, + "parents": [ + 44291 + ], + "children": [], + "area": 9604580.494026, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by a grant from\nNational Natural Science Foundation of\nChina. NSFC Project No. 61271405 and\nthe Ph.D. Program Foundation of\nMinistry of Education of China\n20120132110018." + }, + { + "id": 44295, + "strid": "97f45e47-51e4-49f8-9dbc-2d300d91ba2d", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 116.596, + 3914.613, + 355.709, + 64.17399999999998 + ], + "priority": 22, + "parents": [ + 44301 + ], + "children": [ + 44294 + ], + "area": 456428.217348, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 44294, + "strid": "dc711490-15ae-4ee2-85a8-4682f44d2c8a", + "image_id": 202233, + "image_name": "118375.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 41.42, + 4009.958, + 2284.602, + 533.5629999999996 + ], + "priority": 23, + "parents": [ + 44295 + ], + "children": [], + "area": 166092.46036, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189648, + "strid": "0dba2a5f-1414-4f89-9b7a-e17e1d3b23bf", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 123.11, + 546.18, + 348.65, + 469.34000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 189629, + 189630, + 189628, + 189626, + 189631, + 189627, + 189632 + ], + "area": 67240.21979999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189626, + "strid": "26ff7ebc-23d1-4543-91af-3b914b04e39e", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 265.864, + 160.198, + 4189.696, + 479.759 + ], + "priority": 1, + "parents": [ + 189648 + ], + "children": [], + "area": 42590.881072, + "iscrowd": 0, + "segmentation": [], + "text": "Comparison of Capillary and Venous Plasma Drug Concentrations\nafter Repeated Administration of Aripiprazole, Olanzapine,\nRisperidone, Paliperidone or Quetiapine" + }, + { + "id": 189627, + "strid": "cf172852-21aa-4614-ab57-21ca7fce99b4", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 179.448, + 669.755, + 4359.549, + 277.12800000000004 + ], + "priority": 2, + "parents": [ + 189648 + ], + "children": [], + "area": 120186.19524, + "iscrowd": 0, + "segmentation": [], + "text": "Bart Remmerie’, Marc De Meulder’, Jay Ariyawansa’, Adam Savitz*\n\nClinical Pharmacology, Janssen Research & Development, Beerse, Belgium; 7PDM-Bioanalysis, Janssen Research & Development, Beerse, Belgium;\n3Biostatistics, Janssen Research & Development, Raritan, NJ; *Neurosciences, Janssen Research & Development, Titusville, NJ" + }, + { + "id": 189628, + "strid": "268ddc37-fef3-4a3c-909d-c32fffa3a7e6", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 100.11, + 1095.748, + 484.227, + 50.47900000000004 + ], + "priority": 3, + "parents": [ + 189648 + ], + "children": [ + 189633 + ], + "area": 109695.33228, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 189633, + "strid": "341e0e86-4d36-4b06-9a5c-bcfe505257be", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 81.476, + 1179.401, + 1469.3869999999997, + 749.242 + ], + "priority": 4, + "parents": [ + 189628 + ], + "children": [], + "area": 96092.875876, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189629, + "strid": "8f57a80b-3c7e-4709-901b-c674c9ca4f63", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.458, + 1988.819, + 362.683, + 48.28099999999995 + ], + "priority": 5, + "parents": [ + 189648 + ], + "children": [ + 189635 + ], + "area": 197803.96010199998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 189635, + "strid": "19eda92f-7639-4306-b31e-74fb60c1f545", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 80.373, + 2068.991, + 1473.582, + 293.2550000000001 + ], + "priority": 6, + "parents": [ + 189629 + ], + "children": [], + "area": 166291.013643, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189630, + "strid": "a6adef5f-4a44-43c6-adbd-4fb108b60552", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 101.44, + 2421.944, + 312.802, + 49.690000000000055 + ], + "priority": 7, + "parents": [ + 189648 + ], + "children": [ + 189638, + 189643, + 189637, + 189634, + 189636, + 189639 + ], + "area": 245681.99936, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 189636, + "strid": "47de11bc-00be-4404-97b7-cfc7b01c73eb", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 79.171, + 2502.949, + 1473.128, + 192.27599999999984 + ], + "priority": 8, + "parents": [ + 189630 + ], + "children": [], + "area": 198160.97527900003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189637, + "strid": "59ec042f-5451-4a15-820d-f670b69539d8", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 76.212, + 2720.369, + 1476.086, + 659.654 + ], + "priority": 9, + "parents": [ + 189630 + ], + "children": [], + "area": 207324.762228, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189638, + "strid": "660c6b51-799e-4c18-82d3-9ec76153106f", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 74.733, + 3403.687, + 1473.128, + 507.3119999999999 + ], + "priority": 10, + "parents": [ + 189630 + ], + "children": [], + "area": 254367.740571, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189639, + "strid": "45adc123-a10c-4897-b3e2-1f08b8c982ce", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.691, + 3937.622, + 1474.607, + 681.8390000000004 + ], + "priority": 11, + "parents": [ + 189630 + ], + "children": [], + "area": 305917.790802, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189634, + "strid": "0e685927-5604-44d3-b6b3-0bb277d2447b", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1622.393, + 1086.049, + 1481.511, + 510.40599999999995 + ], + "priority": 12, + "parents": [ + 189630 + ], + "children": [], + "area": 1761998.295257, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 189643, + "strid": "53183ab5-7bad-4c5d-9de3-96cb253cdf22", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1627.27, + 1619.389, + 1472.4010000000003, + 248.462 + ], + "priority": 13, + "parents": [ + 189630 + ], + "children": [], + "area": 2635183.13803, + "iscrowd": 0, + "segmentation": [], + "text": "Pharmacokinetics\n\nComparison of capillary and venous plasma concentrations was performed in 2072\nsamples obtained from 179 patients. Capillary and venous concentrations of parent drug\nand metabolites were: 2462 concentration records each, calculated sums of parent drugs\nand metabolites: 1036 records each." + }, + { + "id": 189631, + "strid": "f1279013-ee63-4c73-a53b-20d6ca3c8869", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1651.041, + 1921.895, + 256.4559999999999, + 49.47700000000009 + ], + "priority": 14, + "parents": [ + 189648 + ], + "children": [ + 189644, + 189641, + 189640, + 189645 + ], + "area": 3173127.4426949997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 189641, + "strid": "6650bc96-9978-4413-8a84-f004565fa204", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1630.107, + 2004.089, + 1057.6419999999998, + 39.10500000000002 + ], + "priority": 15, + "parents": [ + 189631 + ], + "children": [], + "area": 3266879.507523, + "iscrowd": 0, + 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+ ], + "children": [], + "area": 3517826.2980210003, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Scatter plots of log-transformed capillary vs. venous plasma\nconcentrations with regression line for parent drugs and metabolites of\naripiprazole, olanzapine, paliperidone, quetiapine and risperidone" + }, + { + "id": 189632, + "strid": "a7c830de-0cd4-4cf2-ac7d-d397d8597e59", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1646.223, + 4111.812, + 404.60699999999997, + 47.659999999999854 + ], + "priority": 21, + "parents": [ + 189648 + ], + "children": [ + 189642 + ], + "area": 6768959.486075999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 189642, + "strid": "85bec387-9845-406e-bbed-90ff5a9cb001", + "image_id": 207900, + "image_name": "9055.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1646.33, + 4195.339, + 2981.2620000000006, + 245.72000000000025 + ], + "priority": 22, + "parents": [ + 189632 + ], + "children": [], + "area": 6906912.45587, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160546, + "strid": "d73b70b0-b24d-4d4c-8eab-290d7a3860a1", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 276.07, + 80.44, + 247.65000000000003, + 158.49 + ], + "priority": -1, + "parents": [], + "children": [ + 160529, + 160532, + 160533, + 160527, + 160528, + 160530, + 160526, + 160531, + 160525 + ], + "area": 22207.070799999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160525, + "strid": "4158a10f-91ea-4029-b59d-06a040c5349b", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 640.576, + 53.788, + 2026.868, + 228.325 + ], + "priority": 1, + "parents": [ + 160546 + ], + "children": [], + "area": 34455.301888, + "iscrowd": 0, + "segmentation": [], + "text": "Power gain: how normalization affects reproducibility\nand biological insight of RNA-seq studies in\nNeuroscience" + }, + { + "id": 160526, + "strid": "45e8fc83-29dd-42f7-ae34-03c9eb6b1192", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 164.285, + 304.168, + 2977.077, + 224.37700000000007 + ], + "priority": 2, + "parents": [ + 160546 + ], + "children": [], + "area": 49970.23988, + "iscrowd": 0, + "segmentation": [], + "text": "Davide Risso!*, Lucia Peixoto”, Shane G. Poplawski’, Mathieu E. Wimmer’, Terence P. Speed*, Marcelo A. Wood” and Ted Abel?\n\n! Division of Biostatistics, School of Public Health, University of California, Berkeley, U.S.A. 2 Department of Biology, University of Pennsylvania, U.S.A. ° Present address: College of Medical Sciences, Washington State\nUniversity, Spokane, U.S.A. 4 Bioinformatics Division, The Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia. ° Department of Neurobiology and Behavior, University of California Irvine, U.S.A.\n\n* Travel funding to ISMB/ECCB 2015 was generously provided by ISMB/ECCB 2015." + }, + { + "id": 160527, + "strid": "102fb456-9613-485f-83d7-c5b2b5a2f53a", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 108.229, + 611.006, + 255.161, + 68.601 + ], + "priority": 3, + "parents": [ + 160546 + ], + "children": [ + 160534 + ], + "area": 66128.568374, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 160534, + "strid": "93f7130c-601d-4eb2-8493-aed3692e3965", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.959, + 739.596, + 1527.776, + 384.6890000000001 + ], + "priority": 4, + "parents": [ + 160527 + ], + "children": [], + "area": 56918.568564, + "iscrowd": 0, + "segmentation": [], + "text": "Despite the fact that a variety of factors or “batch effects” can contribute unwanted variation to the data,\ncommonly used RNA-seq normalization methods only correct for sequencing depth.\n\nThe study of gene expression is particularly problematic when it is influenced simultaneously by a variety of\nbiological factors in addition to the one of interest.\n\nUsing examples from experimental neuroscience, we show that batch effects often dominate the signal of interest;\nand that the choice of normalization method affects the power and reproducibility of the results.\n\nWe focus on one particular method, RUVSeq [1] and show that it is able to increase power and biological insight of\n\nthe results." + }, + { + "id": 160529, + "strid": "19b8b0d9-d888-40cf-aa98-8bb5660005cd", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.61, + 1189.205, + 1445.901, + 157.84500000000003 + ], + "priority": 5, + "parents": [ + 160546 + ], + "children": [ + 160535, + 160536 + ], + "area": 126781.14504999999, + "iscrowd": 0, + "segmentation": [], + "text": "Unwanted variation dominates the signal in RNA-seq\nstudies in experimental neuroscience" + }, + { + "id": 160535, + "strid": "7f020fb2-6bb1-4f33-86fd-26830af8fbf9", + "image_id": 206769, + "image_name": "6407.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 104.755, + 1418.834, + 1487.627, + 997.863 + ], + "priority": 6, + "parents": [ + 160529 + ], + "children": [], + "area": 148629.95567, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160536, + "strid": "74f70709-ee7c-4504-a24e-3985857eccc9", + "image_id": 206769, + "image_name": "6407.png", 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+ "id": 79217, + "strid": "2fa6d731-7518-40ed-8e2e-a42da6165c0b", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 846.196, + 414.968, + 1789.4900000000002, + 226.23100000000005 + ], + "priority": 2, + "parents": [ + 79240 + ], + "children": [], + "area": 351144.261728, + "iscrowd": 0, + "segmentation": [], + "text": "Miray Erbey'?’, Sencer Melih Deniz*, Tamer Demiralp'\n\n' Max Planck Institute for Human Development — LIFE, Berlin, Germany\n? Department of Neuroscience, Institute for Experimental Medical Research, Istanbul University, Turkey\n5 Biomedical Engineering Institute, Bofazici University, Istanbul, Turkey" + }, + { + "id": 79218, + "strid": "a9a3a097-5ea9-4e6d-873d-f6d22e8ef63f", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1428.651, + 679.779, + 457.6769999999999, + 50.565000000000055 + ], + "priority": 3, + "parents": [ + 79240 + ], + "children": [ + 79224 + ], + "area": 971166.948129, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 79224, + "strid": "7ba53525-2548-480d-a23c-194439790306", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.429, + 769.104, + 3122.517, + 297.2740000000001 + ], + "priority": 4, + "parents": [ + 79218 + ], + "children": [], + "area": 74933.033616, + "iscrowd": 0, + "segmentation": [], + "text": "Although there are numerous studies\\about the effect of perceptional and cognitive processes on EEG frequency bands, the effects of emotional stimuli\non EEG frequency bands are less‘investigated. Moreover, previous researchon emotion has mostly focused on the bi-dimensional aspect of emotion\nwhich consists of valence andarousal (1). Although these dimensions are’able to explain various emotions, they don’t’ necessarily capture subjective\nliking. We used film segments to induce different emotions and investigated whether emotional stimuli varying in valence, arousal and subjective liking\nof the scene have differential effects on specific EEG frequency bands," + }, + { + "id": 79219, + "strid": "bf0d2183-32ac-45f9-b376-7c7847c1da92", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1537.19, + 1090.04, + 250.97199999999998, + 47.230999999999995 + ], + "priority": 5, + "parents": [ + 79240 + ], + "children": [ + 79225, + 79227, + 79236, + 79226, + 79228 + ], + "area": 1675598.5876, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 79225, + "strid": "f5166f65-a4c9-46c2-8ed0-20050d3a94c7", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.506, + 1168.496, + 1556.72, + 183.81099999999992 + ], + "priority": 6, + "parents": [ + 79219 + ], + "children": [], + "area": 124451.83497600001, + "iscrowd": 0, + "segmentation": [], + "text": "Participants: 11 female (age=24.81 + 3.89) and 10 maler(age= 24.10 +\n3.87) healthy volunteers without any neurological and psychiatric disorders\nparticipatedun the study. Paradigm:" + }, + { + "id": 79236, + "strid": "23972f14-f391-480c-8688-5e2b68ae09c7", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 91.043, + 1398.907, + 732.084, + 543.344 + ], + "priority": 7, + "parents": [ + 79219 + ], + "children": [], + "area": 127360.690001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 79226, + "strid": "d4bdef9a-e1ae-43f7-9b96-b925a7895bec", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 830.404, + 1356.846, + 835.0920000000001, + 730.7049999999999 + ], + "priority": 8, + "parents": [ + 79219 + ], + "children": [], + "area": 1126730.345784, + "iscrowd": 0, + "segmentation": [], + "text": "EEG recordings “were collected on 25\nchannels from 21 participants during\nwatching film-segments that consisted of\nemotionalh, scenes chosen from popular\nTurkish movies. 8 film segments (4\npositive/4 negative) ranging from 2 to 4\nminutes were presented in a random\norder. After presentation of each film\nsegment, subjects were asked to -give\nratings according to the emotional walence\n(positive or negative), arousal (high or\nlow) and subject’s liking of the scene on a\n7 point Likert Scale." + }, + { + "id": 79227, + "strid": "a81ee437-9e74-43f3-8f32-b685ee56d373", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.968, + 2130.667, + 1565.797, + 297.2739999999999 + ], + "priority": 9, + "parents": [ + 79219 + ], + "children": [], + "area": 217259.852656, + "iscrowd": 0, + "segmentation": [], + "text": "EEG Recording: 32 channel system (BrainAmp, Brain Products, Germany)\naccording-to_International 10/20 extended system wasvused, and data were\ncollected*on 25 channels (Oz, O1, O2, Pz, P3, P4,P7; P8, Cz, C3, C4, T7,\nT8, Fz, F3, F4, FC3, FC4, FT7, FT8, F7, F8,.FP1, FP2) with a sampling\nratesof 1000 Hz and with a band pass filter of 0,1 — 250 Hz." + }, + { + "id": 79228, + "strid": "1247fff7-7341-4443-b218-7800ce6942a7", + "image_id": 203590, + "image_name": "120523.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1715.852, + 1169.901, + 1504.7430000000002, + 1140.039 + ], + "priority": 10, + "parents": [ + 79219 + ], + "children": [], + "area": 2007376.9706520003, + "iscrowd": 0, + "segmentation": [], + "text": "Data Analysis: Eye artifacts were removed by using independent\ncomponent analysis (ICA), and remaining artifacts were manually\nrejected. Artifact-free) EEGs were later divided into 2-second.segments\nwith 50% of overlap, and 50 segments were selected randomly from each\nfilm segment.R5-resistance to five and more\nantibiotics. CONS: Coagulase negative Staphylococcus." + }, + { + "id": 60747, + "strid": "c8fab297-9d3f-4b5f-a04c-a5b0cb2eec18", + "image_id": 202898, + "image_name": "119414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1582.674, + 4714.6, + 307.2180000000001, + 39.45899999999983 + ], + "priority": 24, + "parents": [ + 60759 + ], + "children": [ + 60748 + ], + "area": 7461674.8404, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 60748, + "strid": "1a03b481-e640-41d5-9f68-3cd32c38714b", + "image_id": 202898, + "image_name": "119414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1584.083, + 4769.561, + 332.58400000000006, + 36.64099999999962 + ], + "priority": 25, + "parents": [ + 60747 + ], + "children": [], + "area": 7555380.497563, + "iscrowd": 0, + "segmentation": [], + "text": "Available on request." + }, + { + "id": 60746, + "strid": "450bf28d-6e4d-4548-94a3-2783afefc48e", + "image_id": 202898, + "image_name": "119414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1585.492, + 4847.07, + 505.923, + 45.09599999999955 + ], + "priority": 26, + "parents": [ + 60759 + ], + "children": [ + 60749 + ], + "area": 7684990.708439999, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENT" + }, + { + "id": 60749, + "strid": "d650ef4c-3421-441a-9b84-9c64324770ae", + "image_id": 202898, + "image_name": "119414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1583.367, + 4899.577, + 1862.2540000000001, + 41.95300000000043 + ], + "priority": 27, + "parents": [ + 60746 + ], + "children": [], + "area": 7757828.535759, + "iscrowd": 0, + "segmentation": [], + "text": "We wish to appreciate staff members of LAUTECH hospital and all the patients involved in this study for their support." + }, + { + "id": 35275, + "strid": "ede12f30-882f-42d9-8a2e-3a18f2932483", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 164.55, + 436.64, + 288.97999999999996, + 337.15 + ], + "priority": -1, + "parents": [], + "children": [ + 35248, + 35267, + 35249, + 35247, + 35254, + 35265 + ], + "area": 71849.11200000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35247, + "strid": "d6228ea6-a0e7-4662-9fbd-f2be8c1ef0cd", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 511.033, + 93.286, + 2717.319, + 378.476 + ], + "priority": 1, + "parents": [ + 35275 + ], + "children": [], + "area": 47672.224438000005, + "iscrowd": 0, + "segmentation": [], + "text": "Vitamin D dependent rickets type 1\n(VDDR-1): two years after discontinuation\nof treatment." + }, + { + "id": 35248, + "strid": "f2c3d216-421f-41dd-ba61-d2ee75a7e3e5", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 594.886, + 492.159, + 2545.079, + 269.692 + ], + "priority": 2, + "parents": [ + 35275 + ], + "children": [], + "area": 292778.498874, + "iscrowd": 0, + "segmentation": [], + "text": "Victoria Kougia, Stella Seitanidou, Asterios Kampouras, Filotas Talidis,\n\nKonstantinos Kollios, Emmanuel Roilides\n3rd Department of Pediatrics, Aristotle University, Hippokration Hospital, Thessaloniki, Greece" + }, + { + "id": 35249, + "strid": "92da9b01-55d4-471a-8781-2087c515fe9a", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 154.039, + 887.964, + 380.596, + 51.686000000000035 + ], + "priority": 3, + "parents": [ + 35275 + ], + "children": [ + 35250 + ], + "area": 136781.086596, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 35250, + "strid": "ea63ff89-fa30-484e-a261-e6edbe3d0ea6", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 152.131, + 953.03, + 991.1240000000001, + 259.0809999999999 + ], + "priority": 4, + "parents": [ + 35249 + ], + "children": [], + "area": 144985.40693, + "iscrowd": 0, + "segmentation": [], + "text": "Vitamin D dependent rickets type 1 (VDDR-1) is an autosomal reces-\nsive disorder caused by 1a hydroxylase enzyme deficiency, that leads\nto low or undetectable levels of 1,25 dihydroxyvitamin D despite normal\nlevels of 25-hydroxyvitamin D levels. Additional laboratory findings in-\nclude hypocalcemia and increased levels of parathyroid hormone. Clin-\nically it presents as early onset rickets and severe hypotonia." + }, + { + "id": 35254, + "strid": "41b4eb7f-acbf-4f7a-9a9d-fb4b7dce8914", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 156.966, + 1300.927, + 320.41, + 52.44200000000001 + ], + "priority": 5, + "parents": [ + 35275 + ], + "children": [ + 35260, + 35259, + 35273, + 35252, + 35263, + 35255, + 35269, + 35251, + 35253, + 35262, + 35272, + 35258, + 35256, + 35257, + 35274 + ], + "area": 204201.307482, + "iscrowd": 0, + "segmentation": [], + "text": "Case Report" + }, + { + "id": 35255, + "strid": "4791342d-e4d9-4408-98f2-d33f663802a2", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.32, + 1357.187, + 994.3390000000002, + 62.14599999999996 + ], + "priority": 6, + "parents": [ + 35254 + ], + "children": [], + "area": 210798.28483999998, + "iscrowd": 0, + "segmentation": [], + "text": "A6 year old Caucasian girl was referred to our Clinic for a 6 month history of hypotonia\nand genu valgum." + }, + { + "id": 35256, + "strid": "2ad3276e-1475-4242-b1c7-5885bfe2237a", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 151.256, + 1455.137, + 996.927, + 165.933 + ], + "priority": 7, + "parents": [ + 35254 + ], + "children": [], + "area": 220098.202072, + "iscrowd": 0, + "segmentation": [], + "text": "Past medical history:\n\n9 months of age: Rickets was diagnosed based on typical laboratory and radiological\nfindings. Severe hypophosphatemia and generalized aminoaciduria were identified\n\nthen. The levels of 25-hydroxyvitamin D were normal." + }, + { + "id": 35257, + "strid": "7e5d0194-cd98-47a8-9034-1355a673123c", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 206.294, + 1667.089, + 884.5370000000001, + 246.414 + ], + "priority": 8, + "parents": [ + 35254 + ], + "children": [], + "area": 343910.458166, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35258, + "strid": "460c9b25-9dc0-4ce1-bfd2-d6cc636b204f", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.263, + 1984.187, + 992.5269999999999, + 68.721 + ], + "priority": 9, + "parents": [ + 35254 + ], + "children": [], + "area": 306086.639181, + "iscrowd": 0, + "segmentation": [], + "text": "She was started on 1-a hydroxyvitamin D with prompt clinical and laboratory improve-\nment." + }, + { + "id": 35259, + "strid": "d8b5f876-5a12-48f7-ade4-143a2971dc23", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 205.617, + 2094.635, + 887.4550000000002, + 133.98599999999988 + ], + "priority": 10, + "parents": [ + 35254 + ], + "children": [], + "area": 430692.564795, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35260, + "strid": "2e82ac92-96cf-4c7f-919e-3c149a6a2bc6", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 153.172, + 2301.25, + 1000.2, + 270.35599999999977 + ], + "priority": 11, + "parents": [ + 35254 + ], + "children": [], + "area": 352487.065, + "iscrowd": 0, + "segmentation": [], + "text": "9 months to 4 years: Under medication, the biochemical findings normalized and the\nchild remained asymptomatic.\n\n4 years to 6 years: Clinical improvement under medication misled the parents into\ndiscontinuing treatment for two years\n\nAt6 years first evaluation in our Clinic revealed genu valgum, short stature and gen-\neralized hypotonia" + }, + { + "id": 35272, + "strid": "ecda1a10-6b0b-4476-bbdf-8191c4ce928b", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 205.973, + 2613.988, + 886.9950000000001, + 1177.973 + ], + "priority": 12, + "parents": [ + 35254 + ], + "children": [ + 35271 + ], + "area": 538410.950324, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35271, + "strid": "d575002e-2b9d-40a3-b79e-7f9580a34ab8", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 152.338, + 3866.977, + 276.06600000000003, + 33.86700000000019 + ], + "priority": 13, + "parents": [ + 35272 + ], + "children": [], + "area": 589087.542226, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Genu valgum" + }, + { + "id": 35273, + "strid": "b3f59c38-c3fb-4530-91f7-47c2e03a47b5", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.968, + 3972.135, + 1007.2230000000001, + 167.36300000000028 + ], + "priority": 14, + "parents": [ + 35254 + ], + "children": [], + "area": 591721.00668, + "iscrowd": 0, + "segmentation": [], + "text": "Laboratory findings\n\nWorkup revealed hypocalcemia, hypophosphatemia, marked elevation of alkaline\nphosphatase and parathormone, with normal levels of 25-hydroxyvitamin D and low\nlevels of 1,25 dihydroxyvitamin D." + }, + { + "id": 35274, + "strid": "f5cf0c2f-3142-4d60-9c87-1c6d930bf910", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 206.784, + 4185.143, + 885.504, + 289.08200000000033 + ], + "priority": 15, + "parents": [ + 35254 + ], + "children": [], + "area": 865420.610112, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35251, + "strid": "40553836-8695-41c2-8097-74697341302d", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1276.786, + 912.384, + 995.681, + 175.3209999999999 + ], + "priority": 16, + "parents": [ + 35254 + ], + "children": [], + "area": 1164919.117824, + "iscrowd": 0, + "segmentation": [], + "text": "Diagnosis and treatment\n\nBased on these findings and the fact that she had previously responded well to 1-a\nhydroxyvitamin D, VDDR-1 was diagnosed and the girl was restarted on 1-a hydrox-\nyvitamin D." + }, + { + "id": 35252, + "strid": "d74249e7-f3b7-448f-9f2e-87b6a2a0e923", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1278.255, + 1114.732, + 992.5219999999999, + 112.81899999999996 + ], + "priority": 17, + "parents": [ + 35254 + ], + "children": [], + "area": 1424911.75266, + "iscrowd": 0, + "segmentation": [], + "text": "Genetic testing\n\nTo confirm the diagnosis molecular testing was performed with the results still pending." + }, + { + "id": 35253, + "strid": "736da309-e75f-4e9c-bb62-101baea9cc20", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1278.099, + 1257.169, + 990.068, + 131.51 + ], + "priority": 18, + "parents": [ + 35254 + ], + "children": [], + "area": 1606786.441731, + "iscrowd": 0, + "segmentation": [], + "text": "Clinical course\n\nUpon the first days clinical improvent was observed. Biochemical and radiographic\nimprovement was achieved within 3 and 6 months respectively (fig 4)." + }, + { + "id": 35262, + "strid": "15034d74-c47a-4996-96ec-37462b60b937", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1328.039, + 1434.04, + 886.9559999999999, + 1075.9210000000003 + ], + "priority": 19, + "parents": [ + 35254 + ], + "children": [ + 35261 + ], + "area": 1904461.0475599999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35261, + "strid": "11381ca7-9c21-44c4-aeae-8cd235b534c0", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1275.586, + 2583.012, + 571.0620000000001, + 40.86299999999983 + ], + "priority": 20, + "parents": [ + 35262 + ], + "children": [], + "area": 3294853.945032, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Cupping, fraying splaying of the wrists" + }, + { + "id": 35269, + "strid": "f27076ee-ea0f-4b20-89c6-e44735ed30b0", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1327.989, + 2701.001, + 886.9650000000001, + 1366.9769999999999 + ], + "priority": 21, + "parents": [ + 35254 + ], + "children": [ + 35270 + ], + "area": 3586899.6169890002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35270, + "strid": "16164c6a-638e-4785-8167-c5a57bc7d1f6", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1271.762, + 4140.093, + 838.55, + 37.422999999999774 + ], + "priority": 22, + "parents": [ + 35269 + ], + "children": [], + "area": 5265212.953865999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Cupping, fraying, splaying of the knees. Fracture of the fibula" + }, + { + "id": 35263, + "strid": "f3ac6d9d-33cd-4bbc-92ce-40c9b9fb16b1", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2449.976, + 884.983, + 887.002, + 662.037 + ], + "priority": 23, + "parents": [ + 35254 + ], + "children": [ + 35264 + ], + "area": 2168187.110408, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35264, + "strid": "b9dd8ed3-b572-4bc9-b099-3f0c4d38403b", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2397.245, + 1619.848, + 624.7380000000003, + 36.42000000000007 + ], + "priority": 24, + "parents": [ + 35263 + ], + "children": [], + "area": 3883172.51876, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Radiographic improvement within 3 months" + }, + { + "id": 35265, + "strid": "8481df83-9c21-44dc-8b51-56e7c27a1091", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2396.942, + 1858.174, + 326.32400000000007, + 60.513999999999896 + ], + "priority": 25, + "parents": [ + 35275 + ], + "children": [ + 35266 + ], + "area": 4453935.303908, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 35266, + "strid": "6e6e8530-9042-40f1-b149-b0bb0cc595d2", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2397.3, + 1924.144, + 1025.371, + 339.7769999999998 + ], + "priority": 26, + "parents": [ + 35265 + ], + "children": [], + "area": 4612750.4112, + "iscrowd": 0, + "segmentation": [], + "text": "Clinical and radiological findings of VDDR-1 are indistinguishable from\nthose of other forms of rickets. Distinction between the two can be\nbased on characteristic biochemical findings. Normal levels of 25-hy-\ndroxyvitamin D exclude nutritional rickets, while low serum calcium\ncombined with elevated PTH excludes hypophosphatemic rickets.\n\nPatients with VDDR-1 should receive life long replacement treatment\nwith 1-a hydroxyvitamin D or calcitriol." + }, + { + "id": 35267, + "strid": "907584f9-ae20-419b-8f62-8fc96989860e", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2398.177, + 2354.196, + 364.06500000000005, + 50.39899999999989 + ], + "priority": 27, + "parents": [ + 35275 + ], + "children": [ + 35268 + ], + "area": 5645778.700692, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 35268, + "strid": "56568f8d-2b58-4860-9a1c-87c34daf3553", + "image_id": 201891, + "image_name": "117838.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2397.733, + 2417.026, + 1002.4189999999999, + 680.0239999999999 + ], + "priority": 28, + "parents": [ + 35267 + ], + "children": [], + "area": 5795383.002058, + "iscrowd": 0, + "segmentation": [], + "text": "Typical biochemical (Ca, P, ALP) and radiological findings are the di-\nagnostic hallmark of rickets\n\n25-hydroxyvitamin D measurement should be the first step in differen-\ntiating vitamin D deficiency causes (normal values exclude dietary in-\nsufficiency / or nutritional causes).\n\nRadiological findings of rickets combined with normal 25-hydroxyvita-\nmin D values point towards the diagnosis of VDDR.\n\nHypocalcemia and hypophosphatemia combined with high parathor-\nmone, low 1,25 dihydroxyvitamin D and normal 25-hydroxyvitamin D\nlevels are the typical biochemical findings in VDDR-1\n\nGeneralized aminoaciduria, hypotonia and low phosphate in an infant\npoint towards the diagnosis of VDDR-1" + }, + { + "id": 18939, + "strid": "527af00b-1040-447b-9111-13a71f272f6e", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 160.61, + 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Alterriative Perspectives" + }, + { + "id": 18924, + "strid": "fccd91aa-1bb6-4f92-bf7e-9222ef059ed7", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3665.472, + 722.778, + 935.2760000000003, + 79.62400000000002 + ], + "priority": 41, + "parents": [ + 18893 + ], + "children": [], + "area": 2649322.5212160004, + "iscrowd": 0, + "segmentation": [], + "text": "Cancer as attractor states in a Hopfield energy landscape\n(Si Huang et al. 2009; Koulakov and Lazebnik, 2012)" + }, + { + "id": 18932, + "strid": "9a095f65-3883-432c-9f06-c53347d501c2", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3711.58, + 848.607, + 920.991, + 582.375 + ], + "priority": 42, + "parents": [ + 18893 + ], + "children": [], + "area": 3149672.76906, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18923, + "strid": "a4afa81f-75f1-4ea1-b64b-70782c3f41bc", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3667.886, + 1465.095, + 970.7739999999999, + 221.34899999999993 + ], + "priority": 43, + "parents": [ + 18893 + ], + "children": [], + "area": 5373801.43917, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18922, + "strid": "93fda6f1-8170-4b8f-9e87-54d923268f7a", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3667.642, + 1759.768, + 967.5420000000004, + 176.981 + ], + "priority": 44, + "parents": [ + 18893 + ], + "children": [], + "area": 6454199.027056, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18895, + "strid": "331c5123-1f0e-489c-87c3-6fc86cc63058", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3883.828, + 1966.763, + 563.4900000000002, + 40.567999999999984 + ], + "priority": 45, + "parents": [ + 18939 + ], + "children": [ + 18906, + 18921 + ], + "area": 7638569.208764, + "iscrowd": 0, + "segmentation": [], + "text": "5. Conclusions and Future Work" + }, + { + "id": 18921, + "strid": "8fba57b4-923f-406a-91ed-ece98b1ebdb6", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3649.395, + 2046.276, + 1003.7680000000005, + 479.52600000000007 + ], + "priority": 46, + "parents": [ + 18895 + ], + "children": [], + "area": 7467669.40302, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18906, + "strid": "c8188341-3221-4e21-bd5c-635160c9436b", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3727.371, + 2568.443, + 905.6239999999998, + 161.50700000000006 + ], + "priority": 47, + "parents": [ + 18895 + ], + "children": [], + "area": 9573539.953353, + "iscrowd": 0, + "segmentation": [], + "text": "MIN VERTEX FLIP (Prediction): Given H=(V,E) and a\nsatisfying assignment B(H), can we find a subset L < E on the\ntoggle of which H reaches a new SATISFIED state using the\nminimum number of vertex flips in V." + }, + { + "id": 18903, + "strid": "6e5c32f2-17c2-4f42-8ce5-dfb1bdcce710", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4062.445, + 2771.98, + 200.20199999999977, + 42.278999999999996 + ], + "priority": 48, + "parents": [ + 18939 + ], + "children": [ + 18920 + ], + "area": 11261016.291100001, + "iscrowd": 0, + "segmentation": [], + "text": "CRASS" + }, + { + "id": 18920, + "strid": "ef4a6dcd-b95e-403f-870a-da00bf98c6d6", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3664.753, + 2844.971, + 1019.1709999999998, + 452.55700000000024 + ], + "priority": 49, + "parents": [ + 18903 + ], + "children": [], + "area": 10426116.007163001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18904, + "strid": "39a1061d-be5b-4cb2-a4eb-9d59668c890c", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3773.604, + 3335.396, + 777.1200000000003, + 48.903999999999996 + ], + "priority": 50, + "parents": [ + 18939 + ], + "children": [ + 18905 + ], + "area": 12586463.687184, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements and Contact Information" + }, + { + "id": 18905, + "strid": "0c61f85b-db1b-4cb9-b3d5-d048070fbe3c", + "image_id": 201246, + "image_name": "116809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3665.862, + 3404.931, + 986.491, + 113.0909999999999 + ], + "priority": 51, + "parents": [ + 18904 + ], + "children": [], + "area": 12482007.165522, + "iscrowd": 0, + "segmentation": [], + "text": "Institute for Molecular Bioscience, The University of Queensland, Brisbane, Australia.\nNHMRC project grant to Professor Mark Ragan and Dr Peter Simpson.\n\nContact: Dr Sriganesh Srihari — sriganesh.m.s@gmail.com" + }, + { + "id": 34173, + "strid": "1068b71a-cb0a-4595-bf36-567cb1ba50fe", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 325.13, + 232.43, + 154.88, + 211.2 + ], + "priority": -1, + "parents": [], + "children": [ + 34138, + 34157, + 34158, + 34171, + 34137, + 34136, + 34140, + 34141, + 34139, + 34159 + ], + "area": 75569.9659, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34136, + "strid": "d41599a7-75d0-4faf-8e1d-9aaae8d307f1", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 514.851, + 87.345, + 2633.242, + 99.32300000000001 + ], + "priority": 1, + "parents": [ + 34173 + ], + "children": [], + "area": 44969.660595, + "iscrowd": 0, + "segmentation": [], + "text": "Assessment of Bone Density in MPS IV (Morquio Syndrome)" + }, + { + "id": 34137, + "strid": "15264fae-1080-4869-b698-1a535d44366a", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 514.939, + 210.038, + 2705.632, + 229.59299999999996 + ], + "priority": 2, + "parents": [ + 34173 + ], + "children": [], + "area": 108156.757682, + "iscrowd": 0, + "segmentation": [], + "text": "Heidi H. Kecskemethy! 2; Shunji Tomatsu'; Kristen Ruhnke'; H. Theodore Harcke?*\n12Departments of Biomedical Research and Medical Imaging, Nemours/Alfred |. duPont Hospital for\nChildren, Wilmington, DE; Thomas Jefferson University, Philadelphia, PA" + }, + { + "id": 34138, + "strid": "a8c9b1b2-1ef2-4146-a06d-871adf8e5d4b", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 419.604, + 511.611, + 360.3550000000001, + 42.423 + ], + "priority": 3, + "parents": [ + 34173 + ], + "children": [ + 34149 + ], + "area": 214674.02204399998, + "iscrowd": 0, + "segmentation": [], + "text": "NPFRODUCTION" + }, + { + "id": 34149, + "strid": "6a020fe3-8705-46d8-96d0-9fff6cdfd62b", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 107.437, + 618.98, + 926.2199999999999, + 895.2350000000001 + ], + "priority": 4, + "parents": [ + 34138 + ], + "children": [], + "area": 66501.35426000001, + "iscrowd": 0, + "segmentation": [], + "text": "Mucopolysaccharidosis IV (MPS IV; Morquio\ndisease) is an autosomal recessive lysosomal\nstorage disorder caused by an enzyme defect.\nPatients with MPS IV have a wide spectrum of\nclinical manifestations, including growth\nimpairment and progressive chondrodysplasia\nfrequently resulting in limited to no ambulation.\nFew studies exist examining bone density in\nchildren with MPS in general'*, and only one\nexists examining bone in Morquio.'\n\nIt is well documented that impaired or lack of\nambulation corresponds with low bone mineral\ndensity (BMD) in populations with physical\ndisabilities such as cerebral palsy, spina bifida\nand muscular dystrophy.>\"'$ There is also a\ndemonstrated relationship between ambulation\nand fracture. *?" + }, + { + "id": 34139, + "strid": "55f056c1-0664-4f9f-81b7-2042f32aec33", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 447.721, + 1612.098, + 303.25199999999995, + 42.61200000000008 + ], + "priority": 5, + "parents": [ + 34173 + ], + "children": [ + 34152 + ], + "area": 721770.128658, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34152, + "strid": "1c4ef5c2-eb92-4de6-94d5-a06d3db57000", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 108.982, + 1703.956, + 950.001, + 413.4770000000001 + ], + "priority": 6, + "parents": [ + 34139 + ], + "children": [], + "area": 185700.53279199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34157, + "strid": "ff70617d-7425-4148-a225-d6e1feeaa11e", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 479.264, + 2213.223, + 240.25099999999998, + 40.5630000000001 + ], + "priority": 7, + "parents": [ + 34173 + ], + "children": [ + 34168 + ], + "area": 1060718.107872, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34168, + "strid": "6fb1200d-901f-4a50-929d-dca8a4d72582", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.057, + 2303.913, + 990.0629999999999, + 575.4630000000002 + ], + "priority": 8, + "parents": [ + 34157 + ], + "children": [], + "area": 244346.10104100002, + "iscrowd": 0, + "segmentation": [], + "text": "In this prospective cross-sectional study, BMD of\nthe whole body (WB), lumbar spine (LS), and\nlateral distal femur (LDF) were acquired by DXA\non a group of children with MPS IV(A) or MPS\nIV(B). Functional abilities, medical history, Tanner\nscore, and laboratory results were reviewed.\nRadiologic images of the lateral spine, including\nx-rays and IVA by DXA were used to aid in correct\nregion of interest placement on the LS DXA and\nin interpretation. Age and gender-matched norms\nwere used to calculate Z-scores." + }, + { + "id": 34158, + "strid": "9a037e31-8205-4050-a5ca-3cf32268c956", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 490.464, + 2954.447, + 218.17299999999994, + 42.039999999999964 + ], + "priority": 9, + "parents": [ + 34173 + ], + "children": [ + 34170 + ], + "area": 1449049.893408, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34170, + "strid": "4f02f682-17db-4266-a76a-ff6c7966436f", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.459, + 3043.863, + 978.0819999999999, + 948.2959999999998 + ], + "priority": 10, + "parents": [ + 34158 + ], + "children": [], + "area": 324046.611117, + "iscrowd": 0, + "segmentation": [], + "text": "Ten children (8 female) with a mean age of 11.8\nyears (range 3.3 to 18 years) participated in the\nstudy. Both subtypes of Morquio (A and B) were\nrepresented. While every subject was\nweightbearing, half were full-time ambulators.\nWhole body could be obtained on only four\nsubjects due to respiratory compromise caused\nby the position, to presence of hardware, or to\npositioning difficulties (Table 1).\n\nMean WB Z-score was -2.2 (range -0.6 to -4).\nMean LS BMD Z-score was -3.5 (range -0.8 to -\n6.9) with seven subjects exhibiting low BMD\n(Figure 1). LDF BMD Z-scores at all regions were\nlow, with mean Z-scores of -2.6, -2.5, and -2.8 at\nregions 1, 2, and 3, respectively. Only one\nfracture was reported and was due to trauma to\nthe hand." + }, + { + "id": 34140, + "strid": "b69a34df-219e-4185-89d8-be7d026ae135", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1591.065, + 511.966, + 216.87200000000007, + 41.78200000000004 + ], + "priority": 11, + "parents": [ + 34173 + ], + "children": [ + 34166, + 34147, + 34148, + 34161, + 34160, + 34145, + 34164, + 34165, + 34146, + 34151 + ], + "area": 814571.18379, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34145, + "strid": "b5773c1e-768d-4420-bad8-5801ca712eb3", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1125.863, + 684.821, + 582.4199999999998, + 518.063 + ], + "priority": 12, + "parents": [ + 34140 + ], + "children": [ + 34142 + ], + "area": 771014.625523, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34142, + "strid": "19318cb2-3bd7-4bd8-b58e-3e3aaf6dea53", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1159.351, + 620.072, + 461.36300000000006, + 42.22199999999998 + ], + "priority": 13, + "parents": [ + 34145 + ], + "children": [], + "area": 718881.0932720001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. LS BMD Z-score" + }, + { + "id": 34146, + "strid": "18144dd9-a16d-4be5-9e9d-45ba651a1bf5", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1733.833, + 702.032, + 548.2860000000001, + 501.852 + ], + "priority": 14, + "parents": [ + 34140 + ], + "children": [ + 34144 + ], + "area": 1217206.248656, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34144, + "strid": "f19a3532-6bdb-46a5-83fa-1aa418c10d61", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1692.255, + 619.963, + 549.594, + 42.551000000000045 + ], + "priority": 15, + "parents": [ + 34146 + ], + "children": [], + "area": 1049135.486565, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. LDF R2 BMD Z-score" + }, + { + "id": 34147, + "strid": "17b4f9f9-2a54-40a1-87c5-a7b6198f2365", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1197.294, + 1320.105, + 315.2149999999999, + 638.9079999999999 + ], + "priority": 16, + "parents": [ + 34140 + ], + "children": [ + 34143 + ], + "area": 1580553.7958700003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34143, + "strid": "548890c4-4430-4504-ac37-72ccfe3bdee4", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1200.138, + 1259.738, + 640.345, + 43.621000000000095 + ], + "priority": 17, + "parents": [ + 34147 + ], + "children": [], + "area": 1511859.4438439999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Lateral Images of Patient 3" + }, + { + "id": 34151, + "strid": "bf1f35a0-1bf3-4593-bbf2-4e0607f0e569", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1539.183, + 1341.488, + 227.52099999999996, + 545.0150000000001 + ], + "priority": 18, + "parents": [ + 34140 + ], + "children": [], + "area": 2064795.524304, + "iscrowd": 0, + "segmentation": [], + "text": "Note shape of\nvertebrae:\nsharp-angled\nkyphosis\ncentered on L2\nwith a\nhypoplastic\nvertebral body.\nVertebral bodies\nare dysplastic\nwith anterior\nwedging and\nbeaking. Note\ncervical spine\nfusion." + }, + { + "id": 34148, + "strid": "57eb7402-785d-406a-8147-ada34e44f322", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1798.578, + 1322.147, + 372.5529999999999, + 645.2840000000001 + ], + "priority": 19, + "parents": [ + 34140 + ], + "children": [], + "area": 2377984.506966, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34160, + "strid": "f7423423-e37d-4cb0-95e5-b65435aaac2d", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1259.442, + 2130.044, + 369.5329999999999, + 667.047 + ], + "priority": 20, + "parents": [ + 34140 + ], + "children": [ + 34153 + ], + "area": 2682666.8754479997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34153, + "strid": "b6c7e8c7-f1d4-4dc0-a66b-a621f75ecd74", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1208.155, + 2017.833, + 884.0339999999999, + 91.97800000000007 + ], + "priority": 21, + "parents": [ + 34160 + ], + "children": [], + "area": 2437855.028115, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Patient 3 Spine Images: X-Ray and DXA.\nNote shapes of vertebrae" + }, + { + "id": 34161, + "strid": "cd4500c2-3c9e-4712-9da1-77127c012fa8", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1744.292, + 2141.589, + 446.2550000000001, + 661.0529999999999 + ], + "priority": 22, + "parents": [ + 34140 + ], + "children": [], + "area": 3735556.5599879995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34164, + "strid": "4567488f-7b54-4f54-b5bd-51cf19353d83", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1216.831, + 2962.249, + 373.69100000000003, + 609.9520000000002 + ], + "priority": 23, + "parents": [ + 34140 + ], + "children": [ + 34155 + ], + "area": 3604556.4129189993, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34155, + "strid": "63c7aa72-627e-4c54-8c8b-316e79311fac", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1159.467, + 2894.968, + 503.5319999999999, + 42.471000000000004 + ], + "priority": 24, + "parents": [ + 34164 + ], + "children": [], + "area": 3356619.862056, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Patient 3 LDF DXA" + }, + { + "id": 34165, + "strid": "a71c8ecc-e832-4e3e-9386-ce7983a9bdc2", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1772.021, + 2990.929, + 354.53700000000003, + 585.9360000000001 + ], + "priority": 25, + "parents": [ + 34140 + ], + "children": [ + 34156 + ], + "area": 5299988.997509, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34156, + "strid": "defeef1d-7039-4de1-ba9f-cd63d4270308", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1743.511, + 2894.934, + 476.1999999999998, + 42.50799999999981 + ], + "priority": 26, + "parents": [ + 34165 + ], + "children": [], + "area": 5047349.273274, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6. Patient 8 LS DXA" + }, + { + "id": 34166, + "strid": "15d5707d-f2b2-443f-9457-0793939a9ffc", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1180.912, + 3705.862, + 1216.032, + 469.52499999999964 + ], + "priority": 27, + "parents": [ + 34140 + ], + "children": [ + 34167 + ], + "area": 4376296.906144001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34167, + "strid": "ba99c2f7-582e-4261-9684-56d2e8a29e2e", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1191.06, + 3635.166, + 374.923, + 36.985999999999876 + ], + "priority": 28, + "parents": [ + 34166 + ], + "children": [], + "area": 4329700.81596, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34141, + "strid": "e4312abe-f67f-4f91-94e8-898e4342c5d8", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2653.324, + 512.005, + 294.0619999999999, + 42.20799999999997 + ], + "priority": 29, + "parents": [ + 34173 + ], + "children": [ + 34163, + 34150, + 34162 + ], + "area": 1358515.15462, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34150, + "strid": "3119ddb1-883c-4c36-bc26-d542e4badfe5", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2303.922, + 603.514, + 981.116, + 1481.4179999999997 + ], + "priority": 30, + "parents": [ + 34141 + ], + "children": [], + "area": 1390449.181908, + "iscrowd": 0, + "segmentation": [], + "text": "No apparent effect on BMD was seen with\ndegree of ambulation or age (Fig. 1,2). Every\npatient was weightbearing to some degree. While\nLDF measurements on average are below\nnormal, there was variability by regions within\npatients (Fig. 5) and between patients. Despite\nthe overall low mean BMD seen in this group of\npatients, only one traumatic fracture was\nobserved. The low BMD could be related to the\nknown problems interpreting bones of patients\nwith short stature and atypical bone morphology\nin this skeletal dysplasia.\n\nThe anatomic features of this condition create\ntechnical difficulties with region placement on WB\nand LS. Technical issues encountered with this\nmetabolic condition included kyphosis at the\nthoracolumbar junction and wedge configuration\nof the vertebrae (Fig. 3,7); the extent of\nabnormality was not always apparent on the AP\nview (Fig. 4). Lateral views of the spine were\nneeded for correct identification of vertebrae (Fig.\n3,7). LS BMD was uniformly lower in patients\nwith T12-L1 overlap. The utility of LS DXA is\nquestionable in this population because the\nmorphologic changes in the bone limit the\naccuracy of the areal based measurement of\nDXA." + }, + { + "id": 34162, + "strid": "16cb5640-b357-45d9-bdd0-9ab52fc00748", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2337.197, + 2305.67, + 401.28099999999995, + 627.1610000000001 + ], + "priority": 31, + "parents": [ + 34141 + ], + "children": [ + 34154 + ], + "area": 5388805.006990001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34154, + "strid": "7339204c-c7b4-45f7-ac43-71b74a297535", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2314.566, + 2151.645, + 916.5349999999999, + 136.7779999999998 + ], + "priority": 32, + "parents": [ + 34162 + ], + "children": [], + "area": 4980124.36107, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7. Thoracolumbar kyphoscoliosis in Patient 8.\nThere is severe platyspondyly with anterior wedging.\nNote upper thoracic spinal fusion." + }, + { + "id": 34163, + "strid": "9078ed59-e3ac-43c0-862b-6816418f6f4d", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2771.689, + 2304.813, + 445.03200000000015, + 628.018 + ], + "priority": 33, + "parents": [ + 34141 + ], + "children": [], + "area": 6388224.839157, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34159, + "strid": "be9c779c-0318-455c-8ce3-b25d5d8a55a2", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2623.591, + 2996.03, + 354.83100000000013, + 43.30000000000018 + ], + "priority": 34, + "parents": [ + 34173 + ], + "children": [ + 34169 + ], + "area": 7860357.34373, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34169, + "strid": "acf6c6c0-88f7-41dd-bf97-fedd447d7c72", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2307.111, + 3070.196, + 913.2440000000001, + 421.84000000000015 + ], + "priority": 35, + "parents": [ + 34159 + ], + "children": [], + "area": 7083282.963756, + "iscrowd": 0, + "segmentation": [], + "text": "Children with Morquio syndrome, on average,\nexhibited low BMD at all body sites measured.\nDespite the low BMD and skeletal dysplasia,\nfractures were not reported. WB DXA was not\nwell tolerated or feasible. Anatomical\nabnormalities of the spine and technical\nlimitations of DXA make assessment of the LS\nchallenging." + }, + { + "id": 34171, + "strid": "c7f1a23a-bdbc-4b96-9a98-f24ddffd74b1", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2709.3, + 3562.307, + 323.06399999999985, + 42.539000000000215 + ], + "priority": 36, + "parents": [ + 34173 + ], + "children": [ + 34172 + ], + "area": 9651358.3551, + "iscrowd": 0, + "segmentation": [], + "text": "m\n(Op)" + }, + { + "id": 34172, + "strid": "f7c2f7bc-c318-491e-893a-50a3445df614", + "image_id": 201841, + "image_name": "117763.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2449.814, + 3639.524, + 837.9859999999999, + 599.4879999999998 + ], + "priority": 37, + "parents": [ + 34171 + ], + "children": [], + "area": 8916156.848536, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44757, + "strid": "eaf476a1-26f8-4968-8011-1df7768a1b1d", + 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+ "iscrowd": 0, + "segmentation": [], + "text": "Harriet Dashnow”, Joseph Romano’, Thomas Abeel? and Alicia Oshlack\n1. Life Science Computation Centre, Victorian Life Sciences Computation Initiative, Carlton, VIC, Australia\n2. Murdoch Childrens\\Research Institute, Parkville, VIC, Australia\n3. Broad Institute of MIT and Harvard, Cambridge, MA, USA" + }, + { + "id": 87448, + "strid": "90ed5f94-b182-47a8-b363-403b5503572c", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 698.098, + 400.504, + 492.7249999999999, + 61.148000000000025 + ], + "priority": 3, + "parents": [ + 87478 + ], + "children": [ + 87455, + 87457 + ], + "area": 279591.041392, + "iscrowd": 0, + "segmentation": [], + "text": "Microsatellites" + }, + { + "id": 87457, + "strid": "b3c40d0d-6a00-4bc3-a80a-bfda65c45a01", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 321.674, + 520.86, + 1247.583, + 365.98300000000006 + ], + "priority": 4, + "parents": [ + 87448 + ], + "children": [], + "area": 167547.11964, + "iscrowd": 0, + "segmentation": [], + "text": "Microsatellites are short (2-6bp) DNA sequences repeated in tandem (Figure\n1). Approximately 3% of the human genome consists of microsatellites. Most\nmicrosatellites are simple, consisting of a single type of repeat unit. Compound\nmicrosatellites consist of two or more adjacent simple microsatellites.\nMicrosatellites have been implicated in a range of functions such as DNA\nreplication and repair, chromatin organisation and regulation of gene\nexpression. In bacteria, microsatellites have long been used in population\nstudies, but have not been more extensively investigated in next-gen data." + }, + { + "id": 87455, + "strid": "2d3cc3f4-9296-4fad-9d7f-46f505785198", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 344.908, + 909.755, + 1140.431, + 380.00699999999995 + ], + "priority": 5, + "parents": [ + 87448 + ], + "children": [ + 87456 + ], + "area": 313781.77754000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87456, + "strid": "e7e65633-a79b-4641-9a8a-0287ccfb1a45", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 323.977, + 1314.216, + 1086.786, + 36.218000000000075 + ], + "priority": 6, + "parents": [ + 87455 + ], + "children": [], + "area": 425775.75703199994, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Microsatellites consist of a variable number of repeat units." + }, + { + "id": 87449, + "strid": "4efc4220-2a24-4430-a4ab-97a3d24d41f1", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1909.824, + 400.139, + 950.3290000000002, + 75.64800000000002 + ], + "priority": 7, + "parents": [ + 87478 + ], + "children": [ + 87469, + 87468 + ], + "area": 764195.0655360001, + "iscrowd": 0, + "segmentation": [], + "text": "Mycobacterium tuberculosis" + }, + { + "id": 87468, + "strid": "fc0e65d3-c8a3-40f2-9625-517ffa1c0a6e", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1768.252, + 522.771, + 1191.7580000000003, + 522.326 + ], + "priority": 8, + "parents": [ + 87449 + ], + "children": [], + "area": 924390.8662919999, + "iscrowd": 0, + "segmentation": [], + "text": "Mycobacterium losis is a bacterial pathogen, the causal agent of OC\ntuberculosis (a.k nsumption). There are currently ~12 million 25\naffected wor e and considerable concern about multiple dru ant\nstrains. we\n\n \n \n \n \n\nVN ble numbers of tandem repeats)\nas been used in M. tuberculosis to S&S\noutbreaks and study evolution. <\n\nTraditionally, 24 standard loci have been\n\nwe using PCR and gel electrophoresis. This <\nmethod is expensive, time consuming and ey\nlacks resolution." + }, + { + "id": 87469, + "strid": "07d23d9c-2d6b-4f33-8a38-eb8082aac64c", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1763.902, + 1107.711, + 1208.2820000000002, + 222.19900000000007 + ], + "priority": 9, + "parents": [ + 87449 + ], + "children": [], + "area": 1953893.6483220002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87450, + "strid": "77619c4d-2c56-4d66-83a9-0edd9506967b", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 270.26, + 1491.897, + 1097.609, + 175.2729999999999 + ], + "priority": 10, + "parents": [ + 87478 + ], + "children": [ + 87460, + 87459, + 87458 + ], + "area": 403200.08322, + "iscrowd": 0, + "segmentation": [], + "text": "Finding Microsatellites-in the\nM. tuberculosis Gnome" + }, + { + "id": 87458, + "strid": "0247f458-cfcc-4918-930e-cd185da80137", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 266.309, + 1712.884, + 1245.547, + 181.3789999999999 + ], + "priority": 11, + "parents": [ + 87450 + ], + "children": [], + "area": 456156.42515600007, + "iscrowd": 0, + "segmentation": [], + "text": "We predicted the positions of microsatellite loci in the M. tuberculosis\ngenome using Tandem Repeats Finder’ (TRF) . TRF was run with low\nstringency for detection. These predictions were further filtered using the\nfollowing criteria:" + }, + { + "id": 87459, + "strid": "f7ad7f91-582a-4fcf-91f5-d80eb6848ee7", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 268.118, + 1900.727, + 1270.394, + 226.43299999999977 + ], + "priority": 12, + "parents": [ + 87450 + ], + "children": [], + "area": 509619.12178600003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87460, + "strid": "6918b802-2fc0-4c17-8428-4c0402b5e652", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 265.729, + 2180.685, + 1311.841, + 128.45600000000013 + ], + "priority": 13, + "parents": [ + 87450 + ], + "children": [], + "area": 579471.2443649999, + "iscrowd": 0, + "segmentation": [], + "text": "In some,cases a TRF prediction did not match the criteriaybut‘a substring of\nthe sequence did. In these cases the longest substring tomatch the criteria\nwas taken to be the microsatellite locus." + }, + { + "id": 87451, + "strid": "5521488b-00c0-4384-87fa-0bbd88ef31a2", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 291.331, + 2366.344, + 692.471, + 68.96000000000004 + ], + "priority": 14, + "parents": [ + 87478 + ], + "children": [ + 87463, + 87462, + 87461 + ], + "area": 689389.3638640001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 87461, + "strid": "7511d1a4-2441-4b28-bfbb-747761909af6", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 270.752, + 2473.888, + 803.232, + 453.6709999999998 + ], + "priority": 15, + "parents": [ + 87451 + ], + "children": [], + "area": 669810.123776, + "iscrowd": 0, + "segmentation": [], + "text": "Of the 7056 microsatellites predicted by ARF,\n6676 remained after the filtering processsThe\nrepeat motifs tend to be-GC ich (Figure 2).\nMost of the-microsatellites have 3bp repeat\nunits (Figure 3A), consistent with)in-frame\nexpansions. All predicted microsatellites are\nless than 40bp in length, with most being less\nthan 20bp (Figure 3B).This means that they\nare amenable to being genotyped using 100bp\nreads." + }, + { + "id": 87463, + "strid": "25c84224-e5a7-4c29-b22b-a0810978ade9", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1178.616, + 2380.588, + 386.41200000000003, + 414.096 + ], + "priority": 16, + "parents": [ + 87451 + ], + "children": [ + 87464 + ], + "area": 2805799.1062080003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87464, + "strid": "2af86bf5-3b08-4d5d-9300-466abe96e4e4", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1137.274, + 2840.318, + 547.2860000000001, + 72.95200000000023 + ], + "priority": 17, + "parents": [ + 87463 + ], + "children": [], + "area": 3230219.8131319997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Word cloud,of\\most\ncommon predicted repeat unit motifs." + }, + { + "id": 87462, + "strid": "54e7f4b0-8947-479e-ba46-d8692407c905", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 237.712, + 2974.869, + 1401.509, + 553.462 + ], + "priority": 18, + "parents": [ + 87451 + ], + "children": [ + 87465 + ], + "area": 707162.059728, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87465, + "strid": "b6791b84-8aab-4d27-9e72-a2993518fbb3", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 253.13, + 3553.194, + 1318.7109999999998, + 34.46799999999985 + ], + "priority": 19, + "parents": [ + 87462 + ], + "children": [], + "area": 899419.99722, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: A Repeat unit lengths and.B total lengths of predicted microsatellite sequences." + }, + { + "id": 87452, + "strid": "d663606c-759b-4fe0-833b-12440bc71a14", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 249.862, + 3623.145, + 657.183, + 66.00199999999995 + ], + "priority": 20, + "parents": [ + 87478 + ], + "children": [ + 87466 + ], + "area": 905286.25599, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 87466, + "strid": "b02c5d3e-e4b7-48d0-bd5c-f8a290379551", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 234.089, + 3722.651, + 1207.868, + 365.7489999999998 + ], + "priority": 21, + "parents": [ + 87452 + ], + "children": [], + "area": 871431.6499389999, + "iscrowd": 0, + "segmentation": [], + "text": "Although a number:of.steps have been performed to reduce the\nnumber of false positive microsatellite genotypes, there is room for\nimprovement..One strategy is to perform local realignment of reads\naround the microsatellite loci to ensure indels are called consistently.\nAnother is‘to develop a score for microsatellite genotypesy taking into\nconsideration mapping qualities.\n\nThe analysis of more strains may reveal variation at additional loci anc\ngive us the power to detect trends in microsatellite variation." + }, + { + "id": 87453, + "strid": "8e4d2374-31de-4f1c-b0f5-5f90a5e2dad4", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1694.699, + 1489.843, + 1121.2239999999997, + 174.02800000000002 + ], + "priority": 22, + "parents": [ + 87478 + ], + "children": [ + 87470 + ], + "area": 2524835.442257, + "iscrowd": 0, + "segmentation": [], + "text": "eee Microsateltes i\nM. tuberculosis Xx@" + }, + { + "id": 87470, + "strid": "011d3531-0b3d-4fc2-8ec3-707cdc0571ef", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1696.62, + 1697.581, + 1329.638, + 414.77600000000007 + ], + "priority": 23, + "parents": [ + 87453 + ], + "children": [], + "area": 2880149.8762199995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87454, + "strid": "d1b23e21-7618-4ca4-9d5b-f6f1bb2f6e2f", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1697.212, + 2160.978, + 886.902, + 67.07700000000023 + ], + "priority": 24, + "parents": [ + 87478 + ], + "children": [ + 87472, + 87475, + 87474, + 87471 + ], + "area": 3667637.7933360003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 87471, + "strid": "cf0e51af-aae5-4ab0-b5d4-e2a693ee5b97", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1692.953, + 2259.108, + 1354.855, + 410.3800000000001 + ], + "priority": 25, + "parents": [ + 87454 + ], + "children": [], + "area": 3824563.665924, + "iscrowd": 0, + "segmentation": [], + "text": "A microsatellite was said to be variable if the genotype differed between,any\ntwo of the 160 strains. Of the 6676 loci genotyped, 1102 loci were observed to\nhave variablesmicrosatellites. Because genotypes are only called-at loci\ncovered by.5°or more reads, many loci had genotypes missingxin some strains.\nTo reduce the false positive rate, only loci with one or fewer missing genotypes\nwere considered further. 453 loci matched this criterion.\n\nMost strains had less than 20 loci that differed fromthe reference genome\n(Figure 4)." + }, + { + "id": 87472, + "strid": "69d76379-d952-497f-8a85-31990e5f9f03", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1925.685, + 2697.421, + 836.2260000000001, + 410.5250000000001 + ], + "priority": 26, + "parents": [ + 87454 + ], + "children": [ + 87473 + ], + "area": 5194383.158384999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87473, + "strid": "2655f501-4830-4bfd-aedb-62014eece5ac", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1934.608, + 3136.499, + 930.3610000000001, + 34.51299999999992 + ], + "priority": 27, + "parents": [ + 87472 + ], + "children": [], + "area": 6067896.057391999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure’4:; Number of loci per strain that vary fromthe reference" + }, + { + "id": 87474, + "strid": "d0b193c0-c2a7-4504-9686-cb0355ca915e", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1695.685, + 3203.929, + 1366.351, + 313.134 + ], + "priority": 28, + "parents": [ + 87454 + ], + "children": [], + "area": 5432854.346365, + "iscrowd": 0, + "segmentation": [], + "text": "The variable loci Were subdivided by repeat unit size. None ofthe.sbp loci were\nvariable. Only four each of the 4bp and 6bp loci were variable. For the 1bp loci\nthere is approximately equal variation across allele lengths¢ For the.2bp and\n3bp loci (for which we have the most data points) we observe a trend:towards\nmore. variability for longer loci (e.g. Figure 5). This is Consistent with the\nobservation that DNA polymerase is more likely to.slip on longer\nmicrosatellites?." + }, + { + "id": 87475, + "strid": "cd3b2bd6-231e-4d7c-9213-dac543186c80", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1617.579, + 3539.35, + 1467.5910000000001, + 502.55600000000004 + ], + "priority": 29, + "parents": [ + 87454 + ], + "children": [ + 87476 + ], + "area": 5725178.23365, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87476, + "strid": "efdbe939-e512-4701-a7fe-dc31b481ac14", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1634.023, + 4049.557, + 1430.3819999999998, + 72.92000000000007 + ], + "priority": 30, + "parents": [ + 87475 + ], + "children": [], + "area": 6617069.277810999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Variation,relative to the reference allele in microsatellite loci with 3bp repeat units.\nEach tick on the x-axis. is a locus. The y axis shows genotype calls relative to the reference allele." + }, + { + "id": 87467, + "strid": "afe2d91f-cde8-4b62-af0a-384cab42e83d", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 209.642, + 4172.008, + 189.562, + 29.811999999999898 + ], + "priority": 31, + "parents": [ + 87478 + ], + "children": [ + 87477 + ], + "area": 874628.1011359999, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 87477, + "strid": "4649313a-61b9-4b8a-8d1f-ad0f7bac78ac", + "image_id": 203899, + "image_name": "121123.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 208.747, + 4212.4, + 2735.018, + 114.9930000000004 + ], + "priority": 32, + "parents": [ + 87467 + ], + "children": [], + "area": 879325.8628, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117236, + "strid": "89775290-7785-4bd6-b9ec-02063966dee0", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 86.88, + 836.62, + 442.51, + 140.79999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 117219, + 117228, + 117230, + 117223, + 117221, + 117217, + 117218 + ], + "area": 72685.5456, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117217, + "strid": "e5458e1f-3781-456e-9741-7b97db1a5b47", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 73.882, + 1097.931, + 3456.57, + 78.19599999999991 + ], + "priority": 1, + "parents": [ + 117236 + ], + "children": [], + "area": 81117.33814200001, + "iscrowd": 0, + "segmentation": [], + "text": "Non-intertwined Strands of Plasmid DNA Contradict the Watson & Crick Model of DNA Structure" + }, + { + "id": 117218, + "strid": "2bfdd1a3-d4cf-4ff2-85b3-569710f52bc0", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 73.855, + 1199.987, + 2765.744, + 153.13999999999987 + ], + "priority": 2, + "parents": [ + 117236 + ], + "children": [], + "area": 88625.039885, + "iscrowd": 0, + "segmentation": [], + "text": "Pawan Kumar\nDepartment of Preventive Oncology, Dr. B. R. Ambedkar Cancer Hospital, All India Institute of Medical Sciences, Ansari Nagar, New Delhi-110029, India.\nE-mail: pksbio30@gmail.com" + }, + { + "id": 117219, + "strid": "f102b6a4-db2a-4e9f-bae1-5745f1843b36", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 58.38, + 1443.441, + 289.892, + 35.79500000000007 + ], + "priority": 3, + "parents": [ + 117236 + ], + "children": [ + 117220 + ], + "area": 84268.08558, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 117220, + "strid": "0354a29a-cfc3-4c5c-8408-73af51472ec4", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 56.048, + 1513.26, + 1086.873, + 1097.9399999999998 + ], + "priority": 4, + "parents": [ + 117219 + ], + "children": [], + "area": 84815.19648, + "iscrowd": 0, + "segmentation": [], + "text": "DNA is the genetic material in all organisms except some viruses. It was first isolated\nby Friedrich Miescher in 1869. As the role of DNA in defining the phenotype of an\norganism was established by Frederick Griffith (1928), Avery, McCarty, and MacLeod\n(1944), and Harshey and Chase (1952), next problem before contemporary\nresearchers was the structure of DNA. The currently accepted model of DNA\nstructure was proposed by James Watson and Francis Crick in 1953.\n\nAccording to Watson and Crick, a DNA molecule consists of two antiparallel\npolynucleotide chains, intertwined with each other in a right-handed helix. Although\nthe Watson and Crick model is accepted universally, independent studies validating\nthis model are wanting. In the present study, the Watson and Crick model of DNA\nstructure was examined with the help of plasmid DNA. Since plasmid is a closed\ncircular double-stranded DNA molecule, it was hypothesized that two strands of\nplasmid DNA would not fall apart, if it follows the Watson and Crick Model.\n\nTo test this hypothesis, pUC19 and pBR322 plasmids were denatured with sodium\nhydroxide (NaOH) and analyzed by agarose gel electrophoresis. It was observed that\naddition of NaOH resulted in new bands of pUC19 and pBR322 DNA with higher\nelectrophoretic mobilities. DNA corresponding to higher electrophoretic mobility\nband of pUC19 (hmP19) was found to be single-stranded and circular, suggesting the\ndissociation of two strands of pUC19 plasmid. Interestingly, neutralization of NaOH\nresulted in the formation of native double-stranded pUC19 plasmid. hmP19\nextracted from agarose gel also formed native pUC19, which was digestible with\nHind III. Development of ampicillin resistance in transformed Escherichia coli\nconfirmed the functionality of pUC19 plasmid formed by gel-extracted hmP19. These\nfindings show that two strands of a DNA molecule are not intertwined with each\nother and contradict the Watson and Crick Model of DNA structure." + }, + { + "id": 117221, + "strid": "6f0b3dbf-535d-4c9f-a738-32ce0cc1ae9f", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.589, + 2690.786, + 475.239, + 36.96799999999985 + ], + "priority": 5, + "parents": [ + 117236 + ], + "children": [ + 117222 + ], + "area": 154959.674954, + "iscrowd": 0, + "segmentation": [], + "text": "Material and Methods" + }, + { + "id": 117222, + "strid": "26f1a5c5-39ab-43c6-9d74-ada8a5b09cd2", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 55.749, + 2752.023, + 1083.129, + 974.7200000000003 + ], + "priority": 6, + "parents": [ + 117221 + ], + "children": [], + "area": 153422.530227, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117223, + "strid": "b7663601-6743-4416-9a1f-ebda0d21f18a", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1209.562, + 1442.553, + 197.47399999999993, + 37.61400000000003 + ], + "priority": 7, + "parents": [ + 117236 + ], + "children": [ + 117224, + 117234, + 117226, + 117232 + ], + "area": 1744857.291786, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 117224, + "strid": "1fea1a51-6681-4290-a649-2bfb62536e3a", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1228.286, + 1593.309, + 1030.004, + 480.2389999999998 + ], + "priority": 8, + "parents": [ + 117223 + ], + "children": [ + 117225 + ], + "area": 1957039.138374, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117225, + "strid": "974d01d5-90a1-4e52-bb6f-aee4cb324f72", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1253.111, + 2128.576, + 955.644, + 253.1170000000002 + ], + "priority": 9, + "parents": [ + 117224 + ], + "children": [], + "area": 2667341.9999360004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Plasmid DNA is denatured by NaOH into higher\nelectrophoretic mobility DNA. Approx. 5 pg plasmid DNA was added\nwith the equal volume (5 wl) of NaOH solution of indicated\nconcentration (normality, N) and run on 1% agarose gel. A distinct\nband of higher electrophoretic mobility DNA was observed in plasmid\nDNA added with 0.5 N NaOH. A, pUC19 plasmid; B, pBR322\nplasmid." + }, + { + "id": 117232, + "strid": "149fd739-2e04-4c9d-9e3a-904ba2e09751", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2601.116, + 1442.044, + 697.819, + 713.0989999999999 + ], + "priority": 10, + "parents": [ + 117223 + ], + "children": [ + 117233 + ], + "area": 3750923.721104, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117233, + "strid": "c9958536-2f0a-47eb-8130-0ce877e7c219", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2336.268, + 2206.272, + 1185.346, + 288.97199999999975 + ], + "priority": 11, + "parents": [ + 117232 + ], + "children": [], + "area": 5154442.672896, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Higher electrophoretic mobility pUC19 (hmP19) DNA is single-stranded and\ncircular. Denatured plasmid DNA was digested with DNA modifying enzymes and\nanalyzed by gel electrophoresis. Native pUC19, but not hmP19 DNA was degraded by\nHind III, which acts on double-stranded DNA (A). SI nuclease, which recognizes\nsingle-stranded DNA, degraded hmP19 DNA, but not native pUC19 (B). Exonuclease I\n(Exo I) and alkaline phosphatase (AP), which eliminate single-stranded linear DNA,\ndigested neither of native pUC19 or hmP19 DNA (€). PCR primers, used as controls,\nwere degraded by exo I and AP (data not shown)." + }, + { + "id": 117226, + "strid": "0b9644ab-5f21-402b-8722-7e1e7b6675b5", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1227.283, + 2501.794, + 1003.4259999999999, + 318.97800000000007 + ], + "priority": 12, + "parents": [ + 117223 + ], + "children": [ + 117227 + ], + "area": 3070409.2457019994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117227, + "strid": "3b21002a-5451-433f-806a-4abfe41bed56", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1246.34, + 2885.452, + 948.7729999999999, + 361.03600000000006 + ], + "priority": 13, + "parents": [ + 117226 + ], + "children": [], + "area": 3596254.24568, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. hmP19 readily formed native double-stranded pUC19\nplasmid. pUC19 plasmid was denatured using NaOH, which was\nsubsequently neutralized by adding hydrochloric acid (HCI) of\nindicated molarity (M). After 10 min, samples were run on agarose\ngel. The ratio of native plasmid in pUC19 solution was increased with\nneutralization of NaOH with 0.25 M HCl (A). hmP19 was extracted\nfrom agarose gel. Approx. 5 pg of extracted hmP19 DNA was run on\n1% gel. Band patterns in gel electrophoresis showed the formation of\nnative double-stranded pUC19 plasmid by extracted hmP19 DNA\n(B)." + }, + { + "id": 117234, + "strid": "ccc49048-5c72-43c1-9121-e239f90e960e", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2337.192, + 2587.422, + 1147.558, + 375.5880000000002 + ], + "priority": 14, + "parents": [ + 117223 + ], + "children": [ + 117235 + ], + "area": 6047301.999024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117235, + "strid": "cc36919e-f847-4b8a-af8b-6e66fffeb7df", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2338.772, + 3003.07, + 1178.192, + 218.8739999999998 + ], + "priority": 15, + "parents": [ + 117234 + ], + "children": [], + "area": 7023496.030040001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4.. Re-formed pUC19 is functionally active. Extracted hmP19 DNA was digested\nwith Hind II. Degradation of re-formed pUC19 (formed by hmP19) by Hind II\nconfirmed its structural similarity to native double-stranded DNA (A). E. coli strain\nDH5-alpha was transformed with hmP19 by heat shock method. hmP19-transformed\n(B), but not non-transformed (€) bacteria formed colonies on ampicillin-nutrient agar\nplates, confirming the functionality of pUC19 plasmid formed by hm19 DNA." + }, + { + "id": 117228, + "strid": "18c9a8ff-facb-401c-bc50-6524f43404f4", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1207.922, + 3331.356, + 276.29600000000005, + 37.659999999999854 + ], + "priority": 16, + "parents": [ + 117236 + ], + "children": [ + 117229 + ], + "area": 4024018.2022320004, + "iscrowd": 0, + "segmentation": [], + "text": "4. Conclusion" + }, + { + "id": 117229, + "strid": "305e56d4-c01c-4e71-ba0f-b8b98d7f82da", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1207.669, + 3402.327, + 2350.8460000000005, + 127.82499999999982 + ], + "priority": 17, + "parents": [ + 117228 + ], + "children": [], + "area": 4108884.8457630007, + "iscrowd": 0, + "segmentation": [], + "text": "The present study demonstrates that two strands of plasmid DNA can be dissociated into single-stranded circular DNA molecules. Interestingly, these single-stranded circular DNA\nmolecules can re-associate to form a double-stranded plasmid with structural and functional properties same as those of the native plasmid. These findings show that two strands\nof DNA are not intertwined (but are held together parallel to each other by non-covalent interactions) and contradict the Watson and Crick model of DNA structure." + }, + { + "id": 117230, + "strid": "847d2929-3b7b-4af4-842b-4269bcd5ee8f", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1210.497, + 3623.596, + 436.77099999999996, + 43.76499999999987 + ], + "priority": 18, + "parents": [ + 117236 + ], + "children": [ + 117231 + ], + "area": 4386352.087212, + "iscrowd": 0, + "segmentation": [], + "text": "5. Acknowledgements" + }, + { + "id": 117231, + "strid": "747c9b2d-b59b-4152-9667-ec1e5c96cbb3", + "image_id": 205063, + "image_name": "14011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1206.863, + 3689.24, + 2078.794, + 31.639000000000124 + ], + "priority": 19, + "parents": [ + 117230 + ], + "children": [], + "area": 4452407.25412, + "iscrowd": 0, + "segmentation": [], + "text": "The author is thankful to Dr. Ashok Sharma, Dept. of Biochemistry, and Dr. GK Rath, Dr. B.R. Ambedkar Cancer Hospital, AIIMS, New Delhi for their valuable support." + }, + { + "id": 20068, + "strid": "e152a96d-9f7d-42e1-957a-083046b1ba43", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2552.5, + 63.09, + 209.55999999999995, + 194.04 + ], + "priority": -1, + "parents": [], + "children": [ + 20070, + 20069, + 20084, + 20071, + 20086, + 20075, + 20079, + 20076, + 20072, + 20081 + ], + "area": 161037.225, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20069, + "strid": "b7543b5f-a6ed-4b05-b692-475801ab0947", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 136.507, + 104.124, + 2377.109, + 360.42099999999994 + ], + "priority": 1, + "parents": [ + 20068 + ], + "children": [], + "area": 14213.654868, + "iscrowd": 0, + "segmentation": [], + "text": "How to analyze raw sequencing data from\nmicrobiota?\nUsing ASaiM!" + }, + { + "id": 20070, + "strid": "8bb47c9e-36f1-45e7-8102-5a091175a4e3", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 931.589, + 503.92, + 2311.804, + 140.71800000000002 + ], + "priority": 2, + "parents": [ + 20068 + ], + "children": [], + "area": 469446.32888000004, + "iscrowd": 0, + "segmentation": [], + "text": "Bérénice Batut! (berenice.batut@gmail.com), Clamence Defois’, Kévin Gravouil,\nJean-Francois Brugére?, Eric Peyretaillade* and Pierre Peyret?" + }, + { + "id": 20071, + "strid": "f5941a14-afc0-4b84-a6d7-409ec632353a", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.513, + 853.367, + 1362.561, + 610.7720000000002 + ], + "priority": 3, + "parents": [ + 20068 + ], + "children": [], + "area": 58466.733271000005, + "iscrowd": 0, + "segmentation": [], + "text": "New generation of sequencing platforms coupled to\nnumerous bioinformatics tools has led to rapid technological\nprogress in metagenomics, metatranscriptomics and\ncomplex microbial community studies. Nevertheless, a\ncombination of different bioinformatics tools remains\nnecessary for efficient extraction of useful information in\nmicrobiota studies. Modular, accessible, sharable and user-\nfriendly tools would greatly improve such studies.\n\nWe therefore developed ASaiM, an open-source Galaxy-\nbased framework dedicated to microbiota data analyses." + }, + { + "id": 20075, + "strid": "7cf2cda8-c0d5-45e1-8315-2fd7384c53bd", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1530.204, + 742.541, + 1704.3259999999998, + 831.9130000000001 + ], + "priority": 4, + "parents": [ + 20068 + ], + "children": [], + "area": 1136239.208364, + "iscrowd": 0, + "segmentation": [], + "text": "ASaiM provides an expertly selected collection of tools to explore\nand visualize taxonomic and functional information from raw amplicon,\nmetagenomic or metatranscriptomic sequences. To help the analyses,\nseveral (customizable) workflows are included. The available\nworkflows are supported by tutorials and Galaxy interactive tours to\nguide the users through the analyses. Furthermore, an effort on\ndocumentation of ASaiM, its tools and workflows has been made\n(http://asaim.readthedocs.io/). ASaiM is implemented as Galaxy Docker\nflavour and the associated source code is available under Apache 2\nlicense at http://github.com/ASaiM/framework.\n\nBased on the Galaxy framework, ASaiM offers sophisticated analyses to\nscientists without command-line knowledge. ASaiM provides a powerful\nframework to easily and quickly explore microbiota data in a reproducible\nand transparent environment." + }, + { + "id": 20072, + "strid": "b2a63735-ab57-47af-8384-d403987253fe", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 115.69, + 1751.334, + 1559.65, + 65.62999999999988 + ], + "priority": 5, + "parents": [ + 20068 + ], + "children": [ + 20078, + 20080 + ], + "area": 202611.83046, + "iscrowd": 0, + "segmentation": [], + "text": "A framework built on the shoulders of giants" + }, + { + "id": 20078, + "strid": "16570e08-52c8-41af-8421-3a26e4a1c59d", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 274.034, + 1829.487, + 2920.447, + 50.93100000000004 + ], + "priority": 6, + "parents": [ + 20072 + ], + "children": [], + "area": 501341.640558, + "iscrowd": 0, + "segmentation": [], + "text": "To develop a modular, accessible, redistributable, sharable and user-friendly framework for scientists working with microbiota data" + }, + { + "id": 20080, + "strid": "fe5a7723-7129-4f57-8d6d-a05519113849", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 238.087, + 1928.915, + 2822.489, + 312.2249999999999 + ], + "priority": 7, + "parents": [ + 20072 + ], + "children": [], + "area": 459249.585605, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20076, + "strid": "ec9288ff-1268-472a-bdba-1409bd18b585", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 282.486, + 2401.65, + 1100.243, + 141.35899999999992 + ], + "priority": 8, + "parents": [ + 20068 + ], + "children": [ + 20083, + 20073, + 20085, + 20082 + ], + "area": 678432.5019, + "iscrowd": 0, + "segmentation": [], + "text": "With a comprehensive set of\nmicrobiota related tools" + }, + { + "id": 20073, + "strid": "e9e80753-5e3b-4c7f-a72c-4b946cb8d051", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 98.546, + 2633.2, + 613.562, + 1545.478 + ], + "priority": 9, + "parents": [ + 20076 + ], + "children": [], + "area": 259491.3272, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20082, + "strid": "b2c8849d-2ea9-4aa8-8057-9d2b4473f166", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 586.749, + 2881.45, + 766.942, + 266.63200000000006 + ], + "priority": 10, + "parents": [ + 20076 + ], + "children": [], + "area": 1690687.9060499999, + "iscrowd": 0, + "segmentation": [], + "text": "EBISearch, ENASearch, SRA Tools\nSee documentation for the full list\nSee documentation for the full list\nSAM Tools\n\nBIOM-Format tools" + }, + { + "id": 20083, + "strid": "5ad1061b-dac6-4145-9538-7333a034ccbd", + "image_id": 201295, + "image_name": "11689.png", + "category_id": 3, + 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Churyukanov\"’ , N.A. Krupina®, M.L. Kukushkin?, V.V. Alekseev', N.N. Yakhno! ros\n\n« 'The A. Ya.Kozhevnikov Clinic of Nervous Diseases, Chair of Nervous Diseases, The |.M. Sechenov First Moscow State Medical University, :\n2Laboratory of Fundamental and Applied Problems of Pain, Institute of General Pa Glogy and Pathophysiology of Russian Academy of Medical Sciences, Mosco eres\n_SLaboratory of General Pathology of Nervous System, Institute of General Pathology and Pathophysiology of Russian Academy of Medical Sciences, Moscow, Russia" + }, + { + "id": 47113, + "strid": "72dcc2b3-58cd-4abc-b176-b5fb88aa8609", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 73.039, + 810.834, + 284.46, + 34.275999999999954 + ], + "priority": 3, + "parents": [ + 47144 + ], + "children": [ + 47118 + ], + "area": 59222.504526, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47118, + "strid": "e3484bdf-f98a-4b1b-8176-9df322e424fc", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 70.03, + 867.263, + 1263.079, + 769.869 + ], + "priority": 4, + "parents": [ + 47113 + ], + "children": [], + "area": 60734.427890000006, + "iscrowd": 0, + "segmentation": [], + "text": "Pain has a significant impact on the quality of life of patients with multiple\nsclerosis (MS). According to various data pain occurs in 50-85% of MS\npatients, where 25-30% of patients suffer from central neuropathic pain\n(CNP) [Archibald et al., 1994; Ehde et al., 2003; Moulin et al., 1989;\nOsterberg et al., 2005; Svedsen et al, 2003]. Only patients with lesions\naffecting spinothalamic pathways develop CNP in MS [Osterberg et al.,\n2010]. However, it is unknown, why in many cases signs of lesions may\noccur without causing pain. It is suggested that involvement of\nsomatosensory system in pathological process of CNP formation is\nrather ambiguous than a sufficient condition. At the same time, we know,\nthat patients with neuropathic pain have EEG changes, which are\nthought to occur due to development of thalamocortical disrhythmia. At\npresent we have no data on the features of the brain electrical activity in\nMS patients with CNP." + }, + { + "id": 47116, + "strid": "d1ae8fc7-f052-4185-a3e3-c6e827bd0003", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.917, + 1706.145, + 76.876, + 34.6099999999999 + ], + "priority": 5, + "parents": [ + 47144 + ], + "children": [ + 47119 + ], + "area": 138056.134965, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47119, + "strid": "e646338b-cc97-4db4-a743-398eef25da1d", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.801, + 1771.984, + 1249.446, + 98.55099999999993 + ], + "priority": 6, + "parents": [ + 47116 + ], + "children": [], + "area": 143178.079184, + "iscrowd": 0, + "segmentation": [], + "text": "To study background EEG changes in multiple sclerosis patients\nwith and without central neuropathic pain." + }, + { + "id": 47117, + "strid": "d30574ab-81ed-4dcb-bfb3-36e0768bddc2", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 82.374, + 1933.725, + 204.75699999999998, + 34.02500000000009 + ], + "priority": 7, + "parents": [ + 47144 + ], + "children": [ + 47120 + ], + "area": 159288.66314999998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47120, + "strid": "f4d6066e-449b-4de3-91be-268790e198ea", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.809, + 1994.918, + 1249.59, + 1048.117 + ], + "priority": 8, + "parents": [ + 47117 + ], + "children": [], + "area": 155222.574662, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47121, + "strid": "160474d9-9845-49e2-98b9-d2677cb471d0", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 82.567, + 3121.735, + 195.43099999999998, + 33.84700000000021 + ], + "priority": 9, + "parents": [ + 47144 + ], + "children": [ + 47122, + 47123 + ], + "area": 257752.293745, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47122, + "strid": "e1cc928f-5454-43ea-b3a9-7362f0878001", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.763, + 3181.137, + 1256.35, + 362.7130000000002 + ], + "priority": 10, + "parents": [ + 47121 + ], + "children": [], + "area": 247374.75653100002, + "iscrowd": 0, + "segmentation": [], + "text": "All participants signed informed consent after complete explanation of\nthe study and the protocol was approved by local ethics committees of\nthe participating Institute and the Medical University (in accordance with\nthe Declaration of Helsinki).\n\n3 groups were examined: group | — MS patients with CNP (n=12), group\nIl - MS patients without pain (n=12) and group II! — healthy control\n(n=12). During EEG registration group | patients were not in pain." + }, + { + "id": 47123, + "strid": "e4e8d7ac-447a-4635-a6ba-6f947c58267b", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 67.51, + 3594.727, + 1269.387, + 527.0479999999998 + ], + "priority": 11, + "parents": [ + 47121 + ], + "children": [], + "area": 242680.01977, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47114, + "strid": "44acae80-c57e-4243-82e9-3e3a18d6c167", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1405.554, + 807.06, + 249.615, + 37.14599999999996 + ], + "priority": 12, + "parents": [ + 47144 + ], + "children": [ + 47129 + ], + "area": 1134366.41124, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47129, + "strid": "3e2a6dba-7a0c-4629-8f5d-765250dc70f4", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1394.108, + 863.333, + 2246.5599999999995, + 245.00699999999995 + ], + "priority": 13, + "parents": [ + 47114 + ], + "children": [], + "area": 1203579.441964, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47115, + "strid": "2e62b7a7-f1f0-403c-8853-eb2d24879cf9", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1413.489, + 1174.161, + 249.49, + 35.721000000000004 + ], + "priority": 14, + "parents": [ + 47144 + ], + "children": [ + 47128, + 47127, + 47126, + 47124, + 47125 + ], + "area": 1659663.657729, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47127, + "strid": "de0a3210-d88f-4232-a030-bf45fe315f07", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1409.095, + 1244.466, + 2188.0999999999995, + 344.924 + ], + "priority": 15, + "parents": [ + 47115 + ], + "children": [], + "area": 1753570.81827, + "iscrowd": 0, + "segmentation": [], + "text": "Statistically significant differences in absolute spectral power between the groups were identified in the three\nfrequency ranges - theta, beta1 and beta2. Group | was increased for the theta-band of the spectrum in the mid-\ntemporal right hemisphere region (T4) compared to the control group, for the beta1-band - in the temporal lobes of the\nright hemisphere (T6, T4, F8), for the beta2-band - in the occipital derivation in the right hemisphere (O2), parietal (P3\nand P4), mid-temporal (T3 and T4), and postero-temporal (T5 and T6) lobes of both hemispheres as compared to both\ncontrol and group II, and in the left occipital (01) and right fronto-temporal (F8) lobes comparing to the control." + }, + { + "id": 47128, + "strid": "9657fe60-88b0-4f60-9a55-0f828cd80ea2", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2046.603, + 1625.737, + 903.4499999999998, + 42.24000000000001 + ], + "priority": 16, + "parents": [ + 47115 + ], + "children": [], + "area": 3327238.2214110005, + "iscrowd": 0, + "segmentation": [], + "text": "The topographical power distribution maps (pV?)" + }, + { + "id": 47126, + "strid": "dadf92a3-3902-4359-944f-698dcaae912d", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2035.398, + 1699.942, + 930.238, + 1181.199 + ], + "priority": 17, + "parents": [ + 47115 + ], + "children": [], + "area": 3460058.546916, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47125, + "strid": "8346356a-c451-4411-a02a-69bf437d6451", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1533.067, + 2913.503, + 1995.444, + 929.9230000000002 + ], + "priority": 18, + "parents": [ + 47115 + ], + "children": [], + "area": 4466595.303701, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47124, + "strid": "04843479-e06f-47d4-a5dc-4e2453fbb13a", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1439.376, + 3916.932, + 1819.7609999999997, + 174.8449999999998 + ], + "priority": 19, + "parents": [ + 47115 + ], + "children": [], + "area": 5637937.914431999, + "iscrowd": 0, + "segmentation": [], + "text": "Vertical: power spectral density (mkV?); Horizontal: 5-, 6-, a-, B1-, B2- spectral bands;\n*p<0,05; **p<0,01 — compared with control; +p<0,05; ++p<0,01 — compared with “CNP+” group (post hoc Duncan test)\n“Control” — control group: “CNP+” — MS patients with CNP: “CNP -” — MS patients without CNP" + }, + { + "id": 47130, + "strid": "bf56892d-9552-4a3c-b9b9-10eb932bf66b", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3737.377, + 807.862, + 248.4960000000001, + 36.513000000000034 + ], + "priority": 20, + "parents": [ + 47144 + ], + "children": [ + 47133, + 47132 + ], + "area": 3019284.857974, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47133, + "strid": "7e87630d-8f19-458c-8250-9c493016b9d1", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3733.48, + 872.803, + 1686.3319999999999, + 155.34900000000005 + ], + "priority": 21, + "parents": [ + 47130 + ], + "children": [], + "area": 3258592.54444, + "iscrowd": 0, + "segmentation": [], + "text": "In patients of group | we revealed a positive correlation between absolute spectral power in\nthe beta-2-band in the occipital derivatives of both hemispheres and pain intensity\naccording to VAS." + }, + { + "id": 47132, + "strid": "6acdcc8a-8465-465b-b032-173494964f06", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3776.522, + 1048.777, + 1596.9929999999995, + 215.10799999999995 + ], + "priority": 22, + "parents": [ + 47130 + ], + "children": [], + "area": 3960729.413594, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47131, + "strid": "4ff2c366-d294-450c-9383-9394bb79dca0", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3734.347, + 1357.189, + 248.13900000000012, + 35.05600000000004 + ], + "priority": 23, + "parents": [ + 47144 + ], + "children": [ + 47135, + 47134 + ], + "area": 5068214.670583, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47134, + "strid": "39087fd5-dd0a-4144-b689-284975f983c0", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3731.515, + 1421.97, + 1684.5850000000005, + 264.5799999999999 + ], + "priority": 24, + "parents": [ + 47131 + ], + "children": [], + "area": 5306102.38455, + "iscrowd": 0, + "segmentation": [], + "text": "With respect to relative spectral power, statistically significant differences between the\ngroups were revealed in the theta- and alpha-bands. In MS patients with CNP relative\npowers for the alpha-band were lower than in the control group in the right occipital and\n\nparietal lobes, while for the theta-band relative powers were higher than in control in the\nfrontopolar lobes." + }, + { + "id": 47135, + "strid": "5a0d05e5-0de2-4a55-94b7-08ef09bab6f6", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4057.004, + 1737.932, + 1032.8720000000003, + 634.644 + ], + "priority": 25, + "parents": [ + 47131 + ], + "children": [], + "area": 7050797.075728, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47136, + "strid": "213cc03e-701d-4ead-8872-dfea9cf6468a", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3733.617, + 2483.344, + 248.19799999999987, + 36.02500000000009 + ], + "priority": 26, + "parents": [ + 47144 + ], + "children": [ + 47139 + ], + "area": 9271855.375248, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47139, + "strid": "31dcddf1-bddc-40b6-9be1-2f050ad82d70", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3732.792, + 2547.95, + 1711.6799999999998, + 265.3539999999998 + ], + "priority": 27, + "parents": [ + 47136 + ], + "children": [], + "area": 9510967.3764, + "iscrowd": 0, + "segmentation": [], + "text": "In the delta-band, MS patients with CNP showed increased peak frequencies in the central\nand frontal lobes (C3, C4, F3 and F4) as compared to control, while MS patients without\nCNP, on the contrary, showed decreased peak frequency in the left postero-temporal lobe\n(T5). In the beta2-band, peak frequencies in the left hemisphere (01, P3, T5, and F7) were\nhigher in group | than in the healthy control." + }, + { + "id": 47137, + "strid": "c107920c-98cd-4bf0-9bef-f1118e637c0d", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3733.888, + 2879.901, + 248.10500000000002, + 36.202000000000226 + ], + "priority": 28, + "parents": [ + 47144 + ], + "children": [ + 47140 + ], + "area": 10753227.785087999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47140, + "strid": "49a00f65-fc0d-495c-8eaf-348bc7a8eb88", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3720.346, + 2934.547, + 1685.3659999999995, + 236.43600000000015 + ], + "priority": 29, + "parents": [ + 47137 + ], + "children": [], + "area": 10917530.193262, + "iscrowd": 0, + "segmentation": [], + "text": "In group | the inter-hemispheric coherence between mid temporal left-right electrodes (T3-\nT4) was higher than in control in the beta1- and beta2-bands while in group II - only in the\nbeta2-band. The intra-hemispheric coherence between right central and mid-temporal\nelectrodes (C4-T4) in the high frequency bands was higher in MS patients with than without\nCNP." + }, + { + "id": 47138, + "strid": "e67ee97c-e3e4-40aa-be10-f24786f82b2f", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3736.381, + 3241.907, + 291.645, + 36.766999999999825 + ], + "priority": 30, + "parents": [ + 47144 + ], + "children": [ + 47141 + ], + "area": 12112999.718567, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47141, + "strid": "412a907f-70a0-4fb7-b8bd-49664c38f000", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3742.147, + 3296.202, + 1685.205, + 265.52199999999993 + ], + "priority": 31, + "parents": [ + 47138 + ], + "children": [], + "area": 12334872.425694, + "iscrowd": 0, + "segmentation": [], + "text": "The difference between spectral EEG patterns in MS patients with and without CNP\ncould represent specific CNS changes related to central pain in MS patients. Data\nobtained and results of our previous studies in patients with brain—gut dysregulation\nand CNP believe the increase of spectral power in the beta-bands to be a marker of\nCNS pathology that cause disorders including CNP." + }, + { + "id": 47142, + "strid": "2294a9ec-2196-468a-a989-4944c87cca48", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3735.484, + 3650.786, + 287.1100000000001, + 38.608000000000175 + ], + "priority": 32, + "parents": [ + 47144 + ], + "children": [ + 47143 + ], + "area": 13637452.690424, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47143, + "strid": "9bd55d5d-e0a7-45af-a5b1-3129eb306916", + "image_id": 202345, + "image_name": "118579.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3733.721, + 3714.138, + 1710.815, + 419.91600000000017 + ], + "priority": 33, + "parents": [ + 47142 + ], + "children": [], + "area": 13867555.047497999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47733, + "strid": "3a14cc71-d619-43dc-a7b3-429cc45adf80", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 103.18, + 231.95, + 240.82, + 252.86 + ], + "priority": -1, + "parents": [], + "children": [ + 47708, + 47721, + 47707, + 47710, + 47709, + 47706 + ], + "area": 23932.601, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47706, + "strid": "00596b96-14c8-4eb6-b102-baaa5b2025ec", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 546.151, + 192.423, + 3865.83, + 141.168 + ], + "priority": 1, + "parents": [ + 47733 + ], + "children": [], + "area": 105092.01387299999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47707, + "strid": "3148dbbd-97c6-4655-986c-e5d1d71b9c72", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1574.66, + 461.314, + 1812.4310000000003, + 217.18099999999998 + ], + "priority": 2, + "parents": [ + 47733 + ], + "children": [], + "area": 726412.7032400001, + "iscrowd": 0, + "segmentation": [], + "text": "A-M. Schneider, B. Klasen, C. Schiessl, R. Thoma\n\nAlgesiologikum — Centres for Pain Medicine, Munich, Germany" + }, + { + "id": 47708, + "strid": "60a2df11-6f83-4144-a840-c5e5adb6c831", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 78.852, + 795.558, + 443.533, + 79.168 + ], + "priority": 3, + "parents": [ + 47733 + ], + "children": [ + 47711 + ], + "area": 62731.339416, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 47711, + "strid": "7dfbc31f-a4b1-461c-97fb-591aeda0a52c", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.281, + 892.499, + 1673.664, + 687.3979999999999 + ], + "priority": 4, + "parents": [ + 47708 + ], + "children": [], + "area": 68080.71621900001, + "iscrowd": 0, + "segmentation": [], + "text": "The Algesiologikum group is engaged in the treatment of\npatients suffering from chronic pain in three urban (Munich)\nand one rural (Vilsbiburg) in-patient pain medicine centres.\nPatients in so-called “open groups” take part in the multimodal\npain therapy (MM PT) as intensive as possible. The aim of this\nstudy is to evaluate the relation between pain characteristics,\npsychological variables and the dosage of MM PT, because up to\nnow little is known about the relation between the above\nmentioned parameters." + }, + { + "id": 47710, + "strid": "269d320f-8164-45a9-b64d-b0400da27d35", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.294, + 1654.979, + 320.425, + 74.02199999999993 + ], + "priority": 5, + "parents": [ + 47733 + ], + "children": [ + 47712 + ], + "area": 132884.883826, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 47712, + "strid": "867355a0-6f65-485f-b06a-b6113e8dd0d3", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 78.58, + 1754.62, + 1671.365, + 625.3249999999998 + ], + "priority": 6, + "parents": [ + 47710 + ], + "children": [], + "area": 137878.0396, + "iscrowd": 0, + "segmentation": [], + "text": "Pain characteristics (actual, mean and worst pain) are measured\nwith a Numeric Rating Scale (NRS=0-10)!.\n\nThe severity of pain is described with Mainz Pain Staging\nSystem (MPSS)4 and Chronic Pain Grade (CPG)5.\n\nPsychological data is serveyed with Hospital Anxiety and\nDepression Scale (HADS)®, General Well-being (FW7)? and\nQuality of pain (SBL)3.\n\nDRG-Data were collected by so-called §21-data-sets." + }, + { + "id": 47709, + "strid": "5d129c62-eb88-42a7-8f8e-998171b5f51a", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.607, + 2456.032, + 273.289, + 76.56800000000021 + ], + "priority": 7, + "parents": [ + 47733 + ], + "children": [ + 47720, + 47731, + 47713, + 47717, + 47730, + 47716, + 47729, + 47726, + 47714, + 47719, + 47732, + 47718, + 47715, + 47728, + 47727 + ], + "area": 195517.339424, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 47713, + "strid": "7d53a3a8-d797-4308-893f-6cf26c7f5c80", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.879, + 2556.301, + 1669.066, + 467.3600000000001 + ], + "priority": 8, + "parents": [ + 47709 + ], + "children": [], + "area": 206751.068579, + "iscrowd": 0, + "segmentation": [], + "text": "Patient sample included 510 patients in 2012 within most\ncommonly ICD-10-Diagnoses (F45.41: 30.8%; M53.1: 6.1%;\nM54.4: 34.5%; M54.5: 13.7%; M79.10: 5.3%; M79.70: 4.9%;\nMo96.1: 4.7%). The average duration of the treatment was\n15 + 5.16 days (Range=7—50 days; Mode=11 days)." + }, + { + "id": 47728, + "strid": "7874b323-14cd-4f28-a4fc-b0287bdcd537", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 76.354, + 3109.808, + 1675.976, + 405.9920000000002 + ], + "priority": 9, + "parents": [ + 47709 + ], + "children": [ + 47724 + ], + "area": 237446.280032, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47724, + "strid": "8c42e30d-a0b8-4ad7-b816-5dab202da949", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 77.896, + 3546.17, + 1148.773, + 48.55799999999999 + ], + "priority": 10, + "parents": [ + 47728 + ], + "children": [], + "area": 276232.45832000003, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Therapy Units: one unit 4 30 minutes (N=526)" + }, + { + "id": 47727, + "strid": "f462287a-f7fd-42ba-9f99-5a0eff39117b", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 74.797, + 3657.896, + 1678.029, + 559.0939999999996 + ], + "priority": 11, + "parents": [ + 47709 + ], + "children": [ + 47723 + ], + "area": 273599.647112, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47723, + "strid": "058f44e5-bc51-46da-a714-488da9fdd0e5", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 79.424, + 4252.547, + 499.509, + 49.590000000000146 + ], + "priority": 12, + "parents": [ + 47727 + ], + "children": [], + "area": 337754.292928, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: Pain intensity I" + }, + { + "id": 47718, + "strid": "b836e911-eb23-4bb4-b7cd-24b839d55056", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2016.299, + 796.27, + 1663.4830000000002, + 287.374 + ], + "priority": 13, + "parents": [ + 47709 + ], + "children": [], + "area": 1605518.4047299998, + "iscrowd": 0, + "segmentation": [], + "text": "Pain intensity were split into 3 groups (slight pain: NRS=o0-5;\nmoderate pain: NRS=6-8 and severe pain: NRS=9-10) to find\nout if the pain intensity has an influence on the number of MM\nTUs." + }, + { + "id": 47729, + "strid": "23c52e8f-81a9-4b5f-858f-f785054083aa", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2005.942, + 1116.719, + 1677.926, + 399.10199999999986 + ], + "priority": 14, + "parents": [ + 47709 + ], + "children": [ + 47725 + ], + "area": 2240073.544298, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47725, + "strid": "3b041de2-ebc1-4082-a4b4-401820271f6d", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2006.758, + 1549.929, + 764.479, + 51.855999999999995 + ], + "priority": 15, + "parents": [ + 47729 + ], + "children": [], + "area": 3110332.4201820004, + "iscrowd": 0, + "segmentation": [], + "text": "Table 3: Pain intensity II: NRS: 0-10" + }, + { + "id": 47717, + "strid": "1fe6c0d7-62ad-43b7-b3ad-c4e84b87d133", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2037.319, + 1653.464, + 1646.076, + 377.0340000000001 + ], + "priority": 16, + "parents": [ + 47709 + ], + "children": [], + "area": 3368633.623016, + "iscrowd": 0, + "segmentation": [], + "text": "No significant correlations were found between the number of\nTUs and actual pain (T=.002; p>.05), mean pain (r=-.029;\np>.05) and worst pain (rT=.015; p>.05). The distribution of MM\nTUs over the categories of pain intensity was not different\n(Kruskal-Wallis-Test: p>.05)." + }, + { + "id": 47716, + "strid": "07130f5b-775f-40de-8187-5d3897079eb2", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2007.432, + 2076.478, + 1673.664, + 519.5720000000001 + ], + "priority": 17, + "parents": [ + 47709 + ], + "children": [], + "area": 4168388.384496, + "iscrowd": 0, + "segmentation": [], + "text": "Days off work: Patients had 57+36.80 (N=398; Mode=90) days\noff work during 3 months before MM PT commenced.\nSignificant correlations were found between days off work and\nnumber of MM TUs (r=.166; p>.o1**). The distribution of MM\nTUs over the categories of ,,0-21“ (24.6%), ,,22-56% (21.6%) and\n»57-92° (53.8%) days off work was different (Kruskal-Wallis-\nTest: p<.0o01***)," + }, + { + "id": 47731, + "strid": "9274ab86-0648-417d-a1c5-cd64f106cae7", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2003.935, + 2654.445, + 936.866, + 799.5250000000001 + ], + "priority": 18, + "parents": [ + 47709 + ], + "children": [], + "area": 5319335.241075, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47715, + "strid": "854b3186-dc2e-4247-9d83-b0b6a5277cc2", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2747.706, + 2784.567, + 933.3890000000001, + 618.4279999999999 + ], + "priority": 19, + "parents": [ + 47709 + ], + "children": [], + "area": 7651171.453302001, + "iscrowd": 0, + "segmentation": [], + "text": "Nearly all patients have an MPSS-\nScore of 2 or 3.\n\nThere is no significant correlation\nbetween MPSS and number of MM\nTUs (p=-.048; p>.05). The\ndistribution of MM TUs over the\ngrades of MPSS is not different\n(Kruskal-Wallis-Test: p>.05)." + }, + { + "id": 47732, + "strid": "40282992-1090-4210-b5d4-d8d8a3542372", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2005.427, + 3505.928, + 727.2790000000002, + 801.9970000000003 + ], + "priority": 20, + "parents": [ + 47709 + ], + "children": [], + "area": 7030882.671255999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47714, + "strid": "801f5fcb-198e-4a10-94e7-4cb5df7f67ad", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2747.706, + 3614.502, + 931.0909999999999, + 687.3979999999997 + ], + "priority": 21, + "parents": [ + 47709 + ], + "children": [], + "area": 9931588.832412, + "iscrowd": 0, + "segmentation": [], + "text": "More than 60% of all patients show\na CPG4. 36% show a CPG3 or CPG2\nand just 2.5% show a CPG1.\nSignificant correlations were found\nbetween CPG and number of MM\nTUs (p=.228; p<.oo1***). The\ndistribution of MM TUs over the\ngrades of CPG is different (Kruskal-\nWallis-Test: p<.oo1***)," + }, + { + "id": 47730, + "strid": "29b6c50d-007b-4bde-ac2c-7d0b5d6e83c2", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3949.418, + 795.949, + 1682.248, + 553.438 + ], + "priority": 22, + "parents": [ + 47709 + ], + "children": [ + 47722 + ], + "area": 3143535.307682, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47722, + "strid": "32054e81-b299-4678-a120-7221241455b6", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3958.173, + 1372.475, + 612.6940000000004, + 52.24499999999989 + ], + "priority": 23, + "parents": [ + 47730 + ], + "children": [], + "area": 5432493.488174999, + "iscrowd": 0, + "segmentation": [], + "text": "Table 4: Psychometric Scores" + }, + { + "id": 47726, + "strid": "02dd04f0-c42a-4cb4-804a-67f5d1913207", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3957.511, + 1473.354, + 1668.0549999999998, + 775.4799999999998 + ], + "priority": 24, + "parents": [ + 47709 + ], + "children": [], + "area": 5830814.661894, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47720, + "strid": "bc3881d6-53c8-4d40-abac-d272c54a04a3", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3955.661, + 2293.349, + 1674.978, + 301.058 + ], + "priority": 25, + "parents": [ + 47709 + ], + "children": [], + "area": 9071711.198689, + "iscrowd": 0, + "segmentation": [], + "text": "General well-being (FW7) (N=401): There is no correlation\nbetween FW7 and the number of MM TUs (r=-.026; p>.05).\nPatients with a worse FW7 don‘t receive a significant higher\nnumber of MM TUs (F=.000; p>.05; T=-1.154; df=399; p>.05)." + }, + { + "id": 47719, + "strid": "71fa6347-93d2-4330-acf3-24fe1f5b9bf9", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3955.661, + 2638.198, + 1674.978, + 377.6909999999998 + ], + "priority": 26, + "parents": [ + 47709 + ], + "children": [], + "area": 10435816.938878, + "iscrowd": 0, + "segmentation": [], + "text": "Quality of pain (SBL) (N=311): There is no correlation between\nSBL and the number of MM TUs (r=-.065; p>.05). Patients\nwith a higher affective pain experience don‘t receive a\nsignificant higher number of MM TUs (F=.593; p>.05;\nT=-1.073; df=309; p>.O5)." + }, + { + "id": 47721, + "strid": "548f33ea-1313-4f30-b46e-6d213435ec83", + "image_id": 202368, + "image_name": "118605.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3951.51, + 3094.604, + 1676.3909999999996, + 624.6660000000002 + ], + "priority": 27, + "parents": [ + 47733 + ], + "children": [], + "area": 12228358.65204, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion\n\nWe found weak significant correlations between dosage of MM\nPT with CPG and anxiety.\n\nSurprisingly no correlations were found between depression,\ngeneral well-being and quality of life with the number of MM\nTUs.\n\nFurther questions about patient assignment to the right dossage\nof MM PT arise throughout the presented results." + }, + { + "id": 9879, + "strid": "ba8a95b9-8de0-41bc-b940-c4f6e7f7bec6", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 23.63, + 21.91, + 81.09, + 86.88000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 9900, + 9883, + 9881, + 9890, + 9880, + 9882, + 9903, + 9897, + 9894, + 9887, + 9904 + ], + "area": 517.7333, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9880, + "strid": "6c3a8a41-117c-44a7-9568-5d18ba6890ce", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 666.202, + 24.401, + 2868.031, + 65.001 + ], + "priority": 1, + "parents": [ + 9879 + ], + "children": [], + "area": 16255.995002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9881, + "strid": "0444ab0d-ff55-41ff-bf55-a184660d15cb", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 337.889, + 107.705, + 3522.07, + 250.60900000000004 + ], + "priority": 2, + "parents": [ + 9879 + ], + "children": [], + "area": 36392.334745, + "iscrowd": 0, + "segmentation": [], + "text": "Timothy J. Griffin’, Matthew C. Chambers?, James E. Johnson?, Thomas McGowan2, Thomas G. Doak?, Jeremy Fischer’, Praveen Kumar?®, and Pratik Jagtap?*\n, ‘University of Minnesota, Minneapolis, MN; ?Minnesota Supercomputing Institute, Minneapolis, MN; ?National Center for Genome Analysis Support, Indiana\nUniversity, Bloomington, IN; *UITS Research Technologies, Indiana University, Bloomington, IN; °Biomedical Informatics and Computational Biology, University of\nMinnesota, Minneapolis, MN" + }, + { + "id": 9882, + "strid": "93ff0bcb-7dd0-4e8c-9a98-ac2ec6f64fe8", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 24.885, + 399.591, + 1770.043, + 587.576 + ], + "priority": 3, + "parents": [ + 9879 + ], + "children": [], + "area": 9943.822035000001, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction. The Galaxy platform (Nucleic Acids Res. 44(W1):W3-W10) has proven a\npowerful solution to meet the multi-faceted requirements of multi-omic informatics. The\ncollaborative Galaxy for proteomics project (Galaxy-P, galaxyp.org) has demonstrated Galaxy’s\nvalue in integrating genomic and MS-based proteomic software for next generation\napplications such as proteogenomic and metaproteomic analysis (see\nz.umn.edu/galaxypreferences). To date, the tools and workflows developed have been most\nreadily available to other users of Galaxy who are operating local instances of the platform. To\nincrease accessibility, the Galaxy-P team has partnered with Jetstream, a cloud-based\ncyberinfrastructure aimed at supporting research computing needs. Here we describe the\nprocess of utilizing the Jetstream resource, as well as details on the multi-omic tools that are\nbeing made available on this scalable and extensible infrastructure." + }, + { + "id": 9903, + "strid": "3408a005-9594-42a9-a2f0-87d79639d1ab", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 35.974, + 1006.554, + 1748.029, + 589.3350000000002 + ], + "priority": 4, + "parents": [ + 9879 + ], + "children": [], + "area": 36209.773596, + "iscrowd": 0, + "segmentation": [], + "text": "Results. Working with the Jetstream team (see below for more information), initial work has\nfocused on two main multi-omic applications, proteogenomics and metaproteomics. For both\nof these research areas, we have developed “gateway” Galaxy instances supported by cloud-\nbased, cyberinfrastructure maintained by the Jetstream resource. The proteogenomics\nresource (see top right) offers workflows for carrying out core operations required for\nintegrative analysis of RNA-Seq and mass spectrometry (MS)-based proteomics data. The\nmetaproteomics resource (see middle right) offers tools for integrating metagenomics-guided\ndata on bacterial community composition with MS-based proteomics data, as well as\ntaxonomic and functional annotation tools, to better understand the functional dynamics of\ncomplex communities. We have also generated an educational gateway (see lower right),\nwhich serves as an instance for training researchers via workshops and other venues." + }, + { + "id": 9904, + "strid": "1aa0d4bc-d752-406c-a076-ea320f900fe7", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 27.65, + 1612.537, + 1749.694, + 322.96900000000005 + ], + "priority": 5, + "parents": [ + 9879 + ], + "children": [], + "area": 44586.648049999996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions. Jetstream provides a powerful cyberinfrastructure resource, accessible to all\nresearchers, and supporting Galaxy-based multi-omic platforms such as those being developed\nby the Galaxy-P project. The resource provides scalable infrastructure needed to support big\ndata applications in multi-omics. In addition to those gateways described here we anticipate\nJetstream to provide access for more application areas in the future (e.g. metabolomics, data-\nindependent acquisition)." + }, + { + "id": 9883, + "strid": "9d1a1c12-371d-4ce5-94e1-e15060ad3087", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 682.432, + 2152.202, + 439.99, + 50.26099999999997 + ], + "priority": 6, + "parents": [ + 9879 + ], + "children": [ + 9886, + 9905, + 9906 + ], + "area": 1468731.5152640003, + "iscrowd": 0, + "segmentation": [], + "text": "What is Jetstream?" + }, + { + "id": 9886, + "strid": "8cb7ba16-dc48-4ac6-9b17-d3468bec8253", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 35.989, + 2224.514, + 1741.858, + 428.68600000000015 + ], + "priority": 7, + "parents": [ + 9883 + ], + "children": [], + "area": 80058.034346, + "iscrowd": 0, + "segmentation": [], + "text": "Background. Jetstream (Proceedings of the 2015 XSEDE Conference: Scientific Advancements\nEnabled by Enhanced Cyberinfrastructure. ACM: 2792774. 1-8.) is a cloud-based\ncyberinfrastructure resource, supported primarily through a grant from the National Science\nFoundation (ACI-1445604). Development and maintenance of the resource is led by the\nIndiana University Pervasive Technology Institute. The resource offers the opportunity for\nresearchers to create remote virtual machines, accessible via the web from their own computer\nworkstation, but with orders of magnitude more computing power. More information on\nJetstream is available at jetstream-cloud.org" + }, + { + "id": 9905, + "strid": "5e8d559e-e840-4932-b26f-06913ad47907", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 32.188, + 2668.674, + 1742.701, + 341.0 + ], + "priority": 8, + "parents": [ + 9883 + ], + "children": [], + "area": 85899.278712, + "iscrowd": 0, + "segmentation": [], + "text": "Accessing Jetstream. Resources are accessed through a web interface, based on the\nAtmosphere cloud computing environment customized to support science and engineering\napplications. The operating software environment is based on OpenStack.\n\nJetstream is supported by the Extreme Science and Engineering Discovery Environment (XSEDE)\ndigital resource (www.xsede.org). U.S.-based researchers and collaborators can request an\nallocation, free of charge, on Jetstream through XSEDE." + }, + { + "id": 9906, + "strid": "a326b5e3-d864-4906-a8a6-f6b0e51c1efc", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 31.617, + 3022.148, + 1748.939, + 503.72699999999986 + ], + "priority": 9, + "parents": [ + 9883 + ], + "children": [], + "area": 95551.253316, + "iscrowd": 0, + "segmentation": [], + "text": "Services and capabilities. Jetstream offers pre-configured images with many popular software\npackages used in science and engineering. The popular Galaxy bioinformatics platform is one\nfeatured image. The resource also offers science “gateways” which include pre-configured\nvirtual machines of workflow engines such as Galaxy, which can be deployed as persistently\naccessible web services and made publically available to any researcher through a URL.\n\nVirtual machines can be configured to meet compute and storage needs of different\napplications. For the gateways described here, the VMs are utilizing the large capacity\nconfigurations (e.g. 44 CPUs, 120GB RAM and 4 TB storage). Extra volumes of storage can be\nadded if additional storage is required." + }, + { + "id": 9887, + "strid": "5a104a0c-ae8c-47da-a24d-8d10693b050e", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2669.403, + 391.279, + 1359.4469999999997, + 57.764999999999986 + ], + "priority": 10, + "parents": [ + 9879 + ], + "children": [ + 9889, + 9888, + 9884 + ], + "area": 1044481.336437, + "iscrowd": 0, + "segmentation": [], + "text": "Proteogenomics gateway (tiny.cc/galaxyp-proteogenomics)" + }, + { + "id": 9889, + "strid": "3ad27459-1f6b-404d-9a8b-dc57ca0e60de", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2563.473, + 465.215, + 1566.7849999999999, + 322.99899999999997 + ], + "priority": 11, + "parents": [ + 9887 + ], + "children": [], + "area": 1192566.091695, + "iscrowd": 0, + "segmentation": [], + "text": "We have established a Galaxy-based gateway on Jetstream which offers tools and\nworkflows (see below) for the core operations of proteogenomics: 1) Generation of\nprotein sequence database from RNA-Seq data (reference proteins and selected\nvariants); 2) Matching MS/MS spectra to sequences and confirming novelty of\nputative variants. This gateway provides instructions on how to use this resource,\nemphasizing cancer research applications of proteogenomics." + }, + { + "id": 9884, + "strid": "20b40413-702d-4d1e-8383-79e7017a28dc", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1836.674, + 385.019, + 668.7690000000002, + 417.256 + ], + "priority": 12, + "parents": [ + 9887 + ], + "children": [], + "area": 707154.386806, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9888, + "strid": "b9232974-f4d7-4cd5-b941-fc8a3b02c9f0", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2115.745, + 794.256, + 1820.274, + 500.95400000000006 + ], + "priority": 13, + "parents": [ + 9887 + ], + "children": [], + "area": 1680443.1607199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9890, + "strid": "5ace8cbe-4876-4c75-be23-8d205bb9c6e9", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2246.104, + 1331.376, + 1471.158, + 55.31700000000001 + ], + "priority": 14, + "parents": [ + 9879 + ], + "children": [ + 9893, + 9891, + 9895, + 9892 + ], + "area": 2990408.9591039997, + "iscrowd": 0, + "segmentation": [], + "text": "Metaproteomics gateway (z.umn.edu/metaproteomicsgateway)" + }, + { + "id": 9893, + "strid": "47006b4f-3435-434d-9a9c-089bd72c70cb", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1857.349, + 1406.85, + 1078.847, + 371.01199999999994 + ], + "priority": 15, + "parents": [ + 9890 + ], + "children": [], + "area": 2613011.44065, + "iscrowd": 0, + "segmentation": [], + "text": "Metaproteomics utilizes metagenomics data (e.g. 16sRNA,\nwhole genome sequencing) coupled with MS-based\nproteomics from the same sample, to characterize proteins\nexpressed by the community. Metaproteomics analysis can\nbe used to capture the functional signature from bacterial\ncommunities contained in a host sample (e.g. humans) or\nfrom environmental samples. Our Galaxy-based gateway" + }, + { + "id": 9895, + "strid": "4f98ed85-3b8a-419c-b398-2746e68d406d", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1861.99, + 1781.829, + 402.28300000000013, + 257.10300000000007 + ], + "priority": 16, + "parents": [ + 9890 + ], + "children": [], + "area": 3317747.77971, + "iscrowd": 0, + "segmentation": [], + "text": "provides instructions\non using our\nmetaproteomics\nworkflows and how to\nvisualize the results." + }, + { + "id": 9892, + "strid": "a8b8ff12-fcff-4ec6-b997-16e5b56b0a00", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2281.781, + 1781.668, + 662.4949999999999, + 420.2259999999999 + ], + "priority": 17, + "parents": [ + 9890 + ], + "children": [], + "area": 4065376.1907079997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9891, + "strid": "8c0aa146-bb78-47bf-aa6e-f94beeab3a29", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2976.315, + 1415.131, + 1187.1460000000002, + 769.6719999999998 + ], + "priority": 18, + "parents": [ + 9890 + ], + "children": [], + "area": 4211875.622265, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9894, + "strid": "ad85e572-d5ee-4927-a0d2-abc3e26f003d", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2794.573, + 2247.654, + 472.8380000000002, + 56.085999999999785 + ], + "priority": 19, + "parents": [ + 9879 + ], + "children": [ + 9899, + 9898, + 9901, + 9896 + ], + "area": 6281233.181741999, + "iscrowd": 0, + "segmentation": [], + "text": "Educational gateway" + }, + { + "id": 9899, + "strid": "df53bd45-f8ab-4569-8d6b-a96e6d1eb2a5", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2499.885, + 2330.344, + 1063.306, + 366.828 + ], + "priority": 20, + "parents": [ + 9894 + ], + "children": [], + "area": 5825592.01044, + "iscrowd": 0, + "segmentation": [], + "text": "Jetstream also allows for special allocations focusing on\neducational activities. Since its inception, the Galaxy-P\nteam has been active in conducting hands-on, training\nworkshops for researchers interested in using\nbioinformatics tools for multi-omic applications.\nJetstream offers an ideal resource for such training\nworkshops, providing required computing power to" + }, + { + "id": 9901, + "strid": "9ad85015-2833-4aed-9362-14e66feda0f2", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2956.527, + 2698.917, + 607.04, + 416.65700000000015 + ], + "priority": 21, + "parents": [ + 9894 + ], + "children": [], + "area": 7979420.981259, + "iscrowd": 0, + "segmentation": [], + "text": "enable simultaneous use of a\nsingle Galaxy instance by dozens\nof researchers. This provides the\nnecessary infrastructure for\ninteractive and hands-on training\nactivities for researchers seeking\nto learn about the use of these\ntools." + }, + { + "id": 9896, + "strid": "2b50b032-36b1-4674-b57e-79ccebcc7a2c", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1831.613, + 2249.565, + 664.5109999999997, + 416.8220000000001 + ], + "priority": 22, + "parents": [ + 9894 + ], + "children": [], + "area": 4120332.498345, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9898, + "strid": "9da17e3f-5f90-4fd5-923c-f31f1c8c2c50", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1834.807, + 2697.72, + 1116.4750000000001, + 435.451 + ], + "priority": 23, + "parents": [ + 9894 + ], + "children": [], + "area": 4949795.540039999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9897, + "strid": "4738a0cf-2e5f-4f97-9a3d-d858a066e883", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2563.529, + 3171.905, + 285.74000000000024, + 41.034999999999854 + ], + "priority": 24, + "parents": [ + 9879 + ], + "children": [ + 9885 + ], + "area": 8131270.452745001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9885, + "strid": "4f9201e6-8012-4bc1-b1b2-9e2b4eb66b1d", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1835.7, + 3234.617, + 1743.4369999999997, + 330.2080000000001 + ], + "priority": 25, + "parents": [ + 9897 + ], + "children": [], + "area": 5937786.4269, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9900, + "strid": "eca57fb3-718e-4c47-bed9-c5002d90410a", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3717.222, + 2248.447, + 343.172, + 38.38000000000011 + ], + "priority": 26, + "parents": [ + 9879 + ], + "children": [ + 9902 + ], + "area": 8357976.6542340005, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 9902, + "strid": "f7f7f9f4-9043-49ef-b256-c2e46a554ff9", + "image_id": 200899, + "image_name": "11274.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3625.583, + 2294.424, + 527.4990000000003, + 836.319 + ], + "priority": 27, + "parents": [ + 9900 + ], + "children": [], + "area": 8318624.649192, + "iscrowd": 0, + "segmentation": [], + "text": "We thank Subina Mehta for\nhelp in testing and\ndocumenting the Jetstream\ngateways. We thank the\n\nGalaxy development\ncommunity and core Galaxy\nteam for continued\n\ninnovation and improvement\nof the framework. We also\nacknowledge NSF — grant\n1458524, and NIH grant\n1U24CA199347 for funding\nsupport to the Galaxy-P team\nat the University of\nMinnesota, and NSF grant\nACI-1445604 to the Jetstream\nteam." + }, + { + "id": 4071, + "strid": "292ccc37-6da5-4cff-9bae-1619e282087a", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 71.35, + 418.74, + 297.87, + 132.39 + ], + "priority": -1, + "parents": [], + "children": [ + 4053, + 4060, + 4070, + 4044, + 4054, + 4058, + 4068, + 4048, + 4043, + 4062, + 4064, + 4067, + 4061, + 4056, + 4049, + 4051, + 4063, + 4065, + 4066, + 4057, + 4042, + 4059, + 4055, + 4052, + 4047, + 4050, + 4069, + 4046 + ], + "area": 29877.099, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4042, + "strid": "ba12a3e1-a684-4740-ae8e-343a52b0ccd0", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 492.217, + 118.372, + 2004.7939999999999, + 218.56799999999998 + ], + "priority": 1, + "parents": [ + 4071 + ], + "children": [], + "area": 58264.710724, + "iscrowd": 0, + "segmentation": [], + "text": "Comprehensive Gene Ontology annotation\nof ciliary genes in the laboratory mouse |" + }, + { + "id": 4043, + "strid": "43c27604-70b8-4ae2-a77a-3261ee1aae16", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 356.564, + 344.588, + 2283.952, + 42.19799999999998 + ], + "priority": 2, + "parents": [ + 4071 + ], + "children": [], + "area": 122867.67563200001, + "iscrowd": 0, + "segmentation": [], + "text": "Karen R. Christie’ 2, Paola Roncaglia~ *, Teunis J. P. van Dam” ’, Toby J. Gibson®, Jane Lomax? ’, and Judith A. Blake” ¢" + }, + { + "id": 4044, + "strid": "8a8f343b-da10-46ec-bd61-7e0d21355c0f", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 482.246, + 503.998, + 230.73199999999997, + 33.63799999999998 + ], + "priority": 3, + "parents": [ + 4071 + ], + "children": [ + 4045 + ], + "area": 243051.019508, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 4045, + "strid": "6a33e7ba-7713-4874-81a8-49e596559092", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.415, + 582.98, + 1093.263, + 1235.606 + ], + "priority": 4, + "parents": [ + 4044 + ], + "children": [], + "area": 27059.0167, + "iscrowd": 0, + "segmentation": [], + "text": "Interest in primary cilia has increased dramatically over the last ten years\nas it has become clear that ciliopathies are an underlying cause of\nnumerous human diseases including some types of retinitis pigmentosa\nand polycystic kidney disease. Once thought to be restricted to a few cell\ntypes, it is now clear that primary cilia are found on almost all vertebrate\ncells and are critical to Sonic hedgehog (Shh) signaling. Mouse models\nplay a key role in developing our understanding of the role of primary cilia\nin control of Shh signaling in development throughout the embryo and in\nongoing maintenance of structures such as photoreceptors.\n\nTo maximize the utility of the wealth of experimental data generated by\nthese mouse ciliopathy models, we have engaged in a project to\ncomprehensively annotate experimentally characterized ciliary genes of\nthe laboratory mouse using Gene Ontology (GO) terms to describe their\nmolecular functions, biological roles, and cellular locations, using the\nSYSCILIA gold standard of known human ciliary components as a starting\npoint. However, experimental annotations of mouse genes may allow\nadditional genes to be added to the SYSCILIA gold standard list. We have\nalso updated the Gene Ontology to add new terms and clarify existing\nterms to represent recent advances in our understanding of ciliary biology.\nThese improvements to the representation of cilia within GO greatly\nimproves our ability to make informative annotations for ciliary genes.\nComprehensive GO annotation of ciliary genes in the mouse will be a\ngreat resource to those doing high-throughput studies or comparative\ngenomic analysis across species.\n\nKRC, PR, and JAB were funded by NIH NHGRI grant U41 HG 002273 to\nthe Gene Ontology Consortium. TJPvD and TJG were funded by EU\nFP7/2009 (SYSCILIA grant agreement no: 241955). TJPvD was also\nfunded by the Virgo consortium (FES0908) and by the Utrecht\nBioinformatics Center. TJG and JL were supported by EMBL core funding." + }, + { + "id": 4056, + "strid": "c5492f2a-c31d-4f8a-bbba-6a2177c495ae", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1317.286, + 481.518, + 1539.998, + 128.20099999999996 + ], + "priority": 5, + "parents": [ + 4071 + ], + "children": [], + "area": 634296.920148, + "iscrowd": 0, + "segmentation": [], + "text": "Identification of the mouse equivalents of the\nhuman genes in SYSCILIA Gold Standard version 1" + }, + { + "id": 4046, + "strid": "a9a573bb-636f-4752-99ed-dbe9a9034f76", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1200.949, + 658.085, + 1149.397, + 391.144 + ], + "priority": 6, + "parents": [ + 4071 + ], + "children": [], + "area": 790326.522665, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4057, + "strid": "6d3e8db3-7be4-40ab-a43c-9ff6ee2bb49b", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2433.659, + 748.205, + 513.7670000000003, + 33.472999999999956 + ], + "priority": 7, + "parents": [ + 4071 + ], + "children": [], + "area": 1820875.8320950002, + "iscrowd": 0, + "segmentation": [], + "text": "302 unique human gene Ensembl IDs" + }, + { + "id": 4063, + "strid": "3cb803c6-dcfb-45d5-a2c9-601a63a77e0f", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2486.839, + 847.751, + 412.8800000000001, + 28.001999999999953 + ], + "priority": 8, + "parents": [ + 4071 + ], + "children": [], + "area": 2108220.249089, + "iscrowd": 0, + "segmentation": [], + "text": "ID Mapping at http:/Awww.uniprot.org/" + }, + { + "id": 4058, + "strid": "2a5dbfc3-7b0f-4833-abef-f895f1b1d40a", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2300.247, + 960.727, + 641.3250000000003, + 63.048 + ], + "priority": 9, + "parents": [ + 4071 + ], + "children": [], + "area": 2209909.3995689997, + "iscrowd": 0, + "segmentation": [], + "text": "302 UniProtKB IDs for human proteins\n\n(301 Reviewed records + 1 additional Unreviewed record)" + }, + { + "id": 4065, + "strid": "7e135b65-aa80-43a2-85b6-ce9daaafbbac", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1847.733, + 1075.312, + 457.0899999999999, + 57.256000000000085 + ], + "priority": 10, + "parents": [ + 4071 + ], + "children": [], + "area": 1986889.4676959997, + "iscrowd": 0, + "segmentation": [], + "text": "Identification of mouse homologs with\nMouseMine - http://www.mousemine.org/" + }, + { + "id": 4062, + "strid": "491002ad-ca74-4b00-84fa-7c85391f224c", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1216.743, + 1191.374, + 742.9580000000001, + 122.58400000000006 + ], + "priority": 11, + "parents": [ + 4071 + ], + "children": [], + "area": 1449595.974882, + "iscrowd": 0, + "segmentation": [], + "text": "297 mouse genes with 1:1 homology with human gene\n263 — both Panther and HomoloGene\n29 — HomoloGene only\n4 — Panther only" + }, + { + "id": 4061, + "strid": "8df8f7a1-2b99-4089-932f-d1a341e0ea79", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1267.688, + 1375.563, + 780.3959999999997, + 148.25 + ], + "priority": 12, + "parents": [ + 4071 + ], + "children": [], + "area": 1743784.7083440002, + "iscrowd": 0, + "segmentation": [], + "text": "11 mouse genes with 2 or more homologs to human gene\n(by a combination of Panther and HomoloGene)\n4-2 mouse to 1 human\n3-3 mouse to 2 human\n- 4—4 mouse to 1 human |" + }, + { + "id": 4064, + "strid": "f8fd281a-2442-47a7-9a7f-e398865aec2b", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2460.627, + 1146.46, + 456.36299999999983, + 56.49800000000005 + ], + "priority": 13, + "parents": [ + 4071 + ], + "children": [], + "area": 2821010.43042, + "iscrowd": 0, + "segmentation": [], + "text": "Additional research for human gene\nwith no mouse homologs via MouseMine" + }, + { + "id": 4059, + "strid": "2ebe2160-87e6-46e7-9574-8202f49a46c8", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2127.103, + 1287.285, + 804.9850000000001, + 152.46800000000007 + ], + "priority": 14, + "parents": [ + 4071 + ], + "children": [], + "area": 2738187.7853550003, + "iscrowd": 0, + "segmentation": [], + "text": "No clear mouse homolog to 1 human gene (SLC47A2)\n2 human genes in the same Panther family (PTHR11206)\nonly HSSLC47A2 on SysCilia list\n2 mouse genes in cluster with HsSLC47A1\nboth added to candidate list as not clear which, if either, is equivalent" + }, + { + "id": 4060, + "strid": "dc6729ff-4a2e-41e8-aa40-6ec4793c95cd", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1792.112, + 1624.519, + 575.9960000000001, + 33.024000000000115 + ], + "priority": 15, + "parents": [ + 4071 + ], + "children": [], + "area": 2911319.994128, + "iscrowd": 0, + "segmentation": [], + "text": "310 mouse genes on cilia candidate list" + }, + { + "id": 4048, + "strid": "3f0daaa0-94ff-4fe7-a9ed-ac298dd422b0", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.336, + 1949.061, + 1327.399, + 132.89599999999996 + ], + "priority": 16, + "parents": [ + 4071 + ], + "children": [], + "area": 103955.11749599999, + "iscrowd": 0, + "segmentation": [], + "text": "improvements in the Gene Ontology to\nbetter represent ciliary structure & biology" + }, + { + "id": 4049, + "strid": "c17d1abb-aa83-45b3-8056-2148f0e530a2", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.304, + 2152.609, + 581.193, + 637.7379999999998 + ], + "priority": 17, + "parents": [ + 4071 + ], + "children": [], + "area": 166405.286136, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4050, + "strid": "60d5b7de-d0c1-41d2-bb15-edef4439a05a", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 48.743, + 2919.01, + 642.298, + 251.6329999999998 + ], + "priority": 18, + "parents": [ + 4071 + ], + "children": [], + "area": 142281.30443000002, + "iscrowd": 0, + "segmentation": [], + "text": "Systematic classification of axonemal types\nFor the cellular component branch of GO, we\nbased our main classifications on two\ncharacteristics: 1) the structural aspects of\naxonemal configuration (9+2 or 9+0) and 2)\nmotility, producing four categories, and still\nallowing annotation of atypical structures." + }, + { + "id": 4053, + "strid": "e36c0509-4281-4bfb-aa9d-b91ce156c5de", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 36.479, + 3180.263, + 686.149, + 215.00300000000016 + ], + "priority": 19, + "parents": [ + 4071 + ], + "children": [], + "area": 116012.813977, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4054, + "strid": "b69fed8c-ee10-4f93-866f-7155eb67136c", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 55.333, + 3419.199, + 663.909, + 206.54199999999992 + ], + "priority": 20, + "parents": [ + 4071 + ], + "children": [], + "area": 189194.538267, + "iscrowd": 0, + "segmentation": [], + "text": "Details of the Gene Ontology term ‘cilium’ and its\ndescendants. The term ‘cilium’ itself is highlighted in light\nblue. Dark blue arrows and “I” indicate is_a relationships.\n‘motile cilium’ is in bold to denote presence of a computable\ndefinition [PMID:20152934]. Obtained with the Graph Editor\nfunction of the OBO-Edit ontology editing tool [PMID:\n17545183]." + }, + { + "id": 4052, + "strid": "76d30ec2-ff35-42a7-89e6-5c01f3e3d8d8", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 668.016, + 2097.171, + 745.484, + 771.9470000000001 + ], + "priority": 21, + "parents": [ + 4071 + ], + "children": [], + "area": 1400943.782736, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4055, + "strid": "bed1dad3-f147-4248-bee9-083825fc8e35", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 759.194, + 2871.506, + 605.0410000000002, + 205.65599999999995 + ], + "priority": 22, + "parents": [ + 4071 + ], + "children": [], + "area": 2180030.1261639996, + "iscrowd": 0, + "segmentation": [], + "text": "Schematic representation of the cilium\nComponents in bold indicate new terms in GO;\ncomponents in italics indicate pre-existing GO terms\nthat were modified to improve them. A, schematic\noverview of a cilium. B, cross-section of a cilium with a\n9+2 axoneme. *’Daughter centriole’ is a new synonym\nof ‘ciliary basal body’." + }, + { + "id": 4051, + "strid": "cd45f43f-0dbc-48b1-8aad-a7b02e11ad1c", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 744.031, + 3116.756, + 662.7550000000001, + 658.2570000000001 + ], + "priority": 23, + "parents": [ + 4071 + ], + "children": [], + "area": 2318963.0834359997, + "iscrowd": 0, + "segmentation": [], + "text": "Summary:\n\nBefore: 85 ciliary GO terms\nOur work: 48 existing ciliary GO terms improved\n7 ciliary terms merged into others\n69 new ciliary GO terms\n\n10 new or improved non-ciliary terms\nto clarify distinction between\nbacterial flagella, archaeal flagella,\nand eukaryotic cilia/flagella\n\n5 new non-ciliary terms to clarify\ndistinction between types of sperm\nmotility, e.g. flagellar vs. amoeboid\n\n4 other improved non-ciliary terms\n\nCurrent: 180 ciliary GO terms" + }, + { + "id": 4066, + "strid": "3ac40650-9cb1-49aa-9d92-db6296a49d03", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1460.912, + 1745.909, + 1444.818, + 129.1210000000001 + ], + "priority": 24, + "parents": [ + 4071 + ], + "children": [], + "area": 2550619.409008, + "iscrowd": 0, + "segmentation": [], + "text": "Prioritizing curation of mouse genes by paucity\nof annotations and availability of literature" + }, + { + "id": 4047, + "strid": "8d615c31-233d-4a4d-9b7f-9d94aa9d532d", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1469.539, + 1879.274, + 1452.0160000000003, + 1289.0059999999999 + ], + "priority": 25, + "parents": [ + 4071 + ], + "children": [], + "area": 2761666.434686, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4068, + "strid": "9f734d3f-d349-4805-84dd-f38d9717cbb2", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.044, + 3135.499, + 81.03600000000006, + 29.07900000000018 + ], + "priority": 26, + "parents": [ + 4071 + ], + "children": [], + "area": 4546611.511956, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 4067, + "strid": "96671ee5-e6a6-46c8-b64f-73a836894dcc", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1478.817, + 3173.663, + 1368.661, + 130.13099999999986 + ], + "priority": 27, + "parents": [ + 4071 + ], + "children": [], + "area": 4693266.796671, + "iscrowd": 0, + "segmentation": [], + "text": "To maximize the our annotation effort, we are focusing on mouse genes that are not currently annotated or only\npartially annotated with ciliary terms in the Cellular Component (CC) or Biological Process (BP) sections of the\nontology, based on the availability of literature for each gene. However, we will make additional annotations for\npreviously annotated genes when we come across supporting experimental data." + }, + { + "id": 4070, + "strid": "77010d28-2fc9-41f7-8167-e003429222f4", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.592, + 3324.931, + 1511.063, + 325.69799999999987 + ], + "priority": 28, + "parents": [ + 4071 + ], + "children": [], + "area": 4823118.309152001, + "iscrowd": 0, + "segmentation": [], + "text": "Priorities: 134 Genes Completed (July 2013 — December 2016):\n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n{| 30 genes — no ciliary annotations; ciliary literature available 12 genes (40%)\n73 genes — no ciliary annotations; other literature available 42 genes (58%)\n\n33 genes — some ciliary annotations; ciliary literature available Q9genes (27%)\n\n| | 19 genes — some ciliary annotations; other literature available 4genes (21%)\n109 genes — no literature available 47 genes (43%)\n46 genes — already annotated with ciliary terms 20 genes (43%)" + }, + { + "id": 4069, + "strid": "a373ee44-6dbe-4f5a-8dca-036b821f953f", + "image_id": 200667, + "image_name": "10502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1450.175, + 3667.054, + 1499.894, + 170.51800000000003 + ], + "priority": 29, + "parents": [ + 4071 + ], + "children": [], + "area": 5317870.03445, + "iscrowd": 0, + "segmentation": [], + "text": "Summary: Our goal is to achieve comprehensive annotation of these ciliary genes based on experimental data from the\nlaboratory mouse. In our work so far, we have greatly improved the level of annotation of ciliary genes. This includes\nsome genes without any previous experimental annotations, in some cases due to publication of new papers providing\ninitial characterizations of these genes. This improved level of annotation of ciliary processes will be very helpful to\nthose conducting large scale experiments or bioinformatic analyses." + }, + { + "id": 47416, + "strid": "f124ceaa-bd07-4f88-aba1-1179a786339c", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 188.21, + 30.25, + 56.44, + 54.739999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 47404, + 47401, + 47399, + 47403, + 47405, + 47415, + 47406, + 47400, + 47408, + 47402 + ], + "area": 5693.3525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47399, + "strid": "9bf832f5-dc82-48a7-8888-fc7b19abcb20", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 274.108, + 27.486, + 748.5030000000002, + 66.51 + ], + "priority": 1, + "parents": [ + 47416 + ], + "children": [], + "area": 7534.132488, + "iscrowd": 0, + "segmentation": [], + "text": "Physiotherapy for Ratients with Chronic Neck Pains\nASystematic Review of Randomized Gontrolled-Trials" + }, + { + "id": 47400, + "strid": "6324ff2a-1217-4d48-8d0c-f0d054065db5", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 193.41, + 108.1, + 911.533, + 59.18699999999998 + ], + "priority": 2, + "parents": [ + 47416 + ], + "children": [], + "area": 20907.621, + "iscrowd": 0, + "segmentation": [], + "text": "— Pia Damgaard*?, OT Sra a ae eae eget\nTee ete cri ar en stitute of Sports Scigfi€stand @rhical Biomechanics, University of Sout ba Pee\nBsrren carson nrc Am RET i Ce te See, to meet enone\nar’ . a\n\nfener" + }, + { + "id": 47401, + "strid": "ef852abc-1f7d-4149-8679-9479ac7ca9e7", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 284.704, + 220.766, + 82.25999999999999, + 15.448000000000008 + ], + "priority": 3, + "parents": [ + 47416 + ], + "children": [ + 47409 + ], + "area": 62852.963264, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 47409, + "strid": "b1013ae1-7a50-431c-a6ad-75c122d2b48d", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.304, + 253.895, + 527.231, + 160.866 + ], + "priority": 4, + "parents": [ + 47401 + ], + "children": [], + "area": 15818.67408, + "iscrowd": 0, + "segmentation": [], + "text": "Chronic Ts pal™@Eisommon and costly. The gifect of physiotherapy on this cogitionts,\nunclear. The 12-month prevalence of pain typically ranges between 30% and 50%; the 12-\nmonth prevalence of activity limiting pain is 1.7% to 11.5%. he annual incidence of neck pain\nassociated with whiplash varies greatly. Although 50% of whiplash victims recover in three to six\nmonths, 30% to 40% have persisting mild to moderate pain and 10% to 20% retain more severe\npain.\n\nNeck pain calls for an evidence-based, costeffective rehabilitation treatment\n\nFormer reviews have not covered the majority of commonly used physiotherapy modalities.\nClinicians and policy makers need evidence from research to inform and guide clinical practice\nand policy. Patients and researchers also need such information to support shared decisions\nand to set priorities for fuflire research." + }, + { + "id": 47408, + "strid": "007f26d9-b9cd-4c3e-8cfa-db5e34463001", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 93.091, + 449.058, + 487.818, + 313.3589999999999 + ], + "priority": 5, + "parents": [ + 47416 + ], + "children": [ + 47407 + ], + "area": 41803.258277999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47407, + "strid": "6d3ac483-8305-49a0-be1b-5a96e227784a", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 109.612, + 781.984, + 417.19900000000007, + 14.399000000000001 + ], + "priority": 6, + "parents": [ + 47408 + ], + "children": [], + "area": 85714.830208, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Flow diagram,of the Selection process of the included studies" + }, + { + "id": 47402, + "strid": "c7f3d645-6834-4524-99fd-3ddb1774b6ba", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 862.355, + 218.835, + 28.13900000000001, + 12.413000000000011 + ], + "priority": 7, + "parents": [ + 47416 + ], + "children": [ + 47410 + ], + "area": 188713.456425, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 47410, + "strid": "e404c532-3ad1-4550-8102-87c8eb443cea", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 651.329, + 235.224, + 444.845, + 28.71999999999997 + ], + "priority": 8, + "parents": [ + 47402 + ], + "children": [], + "area": 153208.21269599997, + "iscrowd": 0, + "segmentation": [], + "text": "The aim was to carry out'a systematic review and judge the quality of evidence of\ncommonly used phydietherapy intevehitions for patients with chrofiletiieck pall:" + }, + { + "id": 47403, + "strid": "ae72b155-5f6b-4e66-88ae-d850a42c9ae0", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 848.569, + 305.643, + 58.754999999999995, + 13.211999999999989 + ], + "priority": 9, + "parents": [ + 47416 + ], + "children": [ + 47411 + ], + "area": 259359.17486699997, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 47411, + "strid": "bb8f1488-3c5e-4f6f-8a5f-faa6e31b60d5", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 657.697, + 322.028, + 435.6450000000001, + 88.56 + ], + "priority": 10, + "parents": [ + 47403 + ], + "children": [], + "area": 211796.84951600002, + "iscrowd": 0, + "segmentation": [], + "text": "The following bibliographic databases were searched: Medline, EMBASE,\nCINAHL, Cochrane Library, and PEDro, as well as www-scirus.com, all up to\nJanuary 2012. Selection criteria were: randomised, placebo or active-treatment\ncontrolled trials concerning physiotherapy interventions for patients with chronic\nneck pain (> three months). Data regarding publication status, trial design,\npatient characteristics, treatment regimens, and/outcomes were extracted." + }, + { + "id": 47404, + "strid": "af63e84b-1a3f-41dd-ae77-3d90ebc33c2d", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 853.668, + 430.817, + 51.446000000000026, + 12.939000000000021 + ], + "priority": 11, + "parents": [ + 47416 + ], + "children": [ + 47412 + ], + "area": 367774.686756, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 47412, + "strid": "ad530663-64a3-4597-b5db-29be04688784", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 659.546, + 446.388, + 432.693, + 43.56099999999998 + ], + "priority": 12, + "parents": [ + 47404 + ], + "children": [], + "area": 294413.419848, + "iscrowd": 0, + "segmentation": [], + "text": "In total, 42 trials met the criteria involving 3919 patients with chronic neck pain.\nOut of these, 23 were unclear, or at high risk of bias. 19 were at low risk of bias,\nand eight of these@ound efieé¥'Gn pain of a physiotherapy intervention." + }, + { + "id": 47406, + "strid": "8ccfd019-9413-4f9a-ad5b-c17e94b1b6b6", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 747.579, + 516.173, + 93.707, + 14.883000000000038 + ], + "priority": 13, + "parents": [ + 47416 + ], + "children": [ + 47413 + ], + "area": 385880.09516699996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 47413, + "strid": "7924a765-1849-41e8-b254-22c1054ab6bc", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 651.42, + 551.391, + 286.597, + 161.50099999999998 + ], + "priority": 14, + "parents": [ + 47406 + ], + "children": [], + "area": 359187.1252199999, + "iscrowd": 0, + "segmentation": [], + "text": "Only exercise therapy, focusing on strength\neen men cae ee\nphysiotherapy, cognitive-behaioral\nfh ene ea ure MU tay Meg\ntherapy, and to some exterttiglso TENS,\nBee eet eng Ass cd\neeu Cie oe aetna\nPE ee acne ee)\ntherapy at a specific patient subgroup, is not\na" + }, + { + "id": 47415, + "strid": "f18f440b-fa0c-48c4-b801-a702879b241d", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 965.11, + 511.863, + 146.14099999999996, + 216.50600000000003 + ], + "priority": 15, + "parents": [ + 47416 + ], + "children": [], + "area": 494004.09993, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 47405, + "strid": "aa1bf0f1-4c6b-4dca-90cc-12623969653f", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 842.664, + 737.56, + 68.65300000000002, + 12.653999999999996 + ], + "priority": 16, + "parents": [ + 47416 + ], + "children": [ + 47414 + ], + "area": 621515.25984, + "iscrowd": 0, + "segmentation": [], + "text": "Reference" + }, + { + "id": 47414, + "strid": "4374a1cf-1cae-4fa2-b3f0-9bd768beae5d", + "image_id": 202356, + "image_name": "118592.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 660.777, + 753.521, + 434.8699999999999, + 58.027000000000044 + ], + "priority": 17, + "parents": [ + 47405 + ], + "children": [], + "area": 497909.345817, + "iscrowd": 0, + "segmentation": [], + "text": "P Damgaard, EM Bartels, | Ris, R Christensen, B Juul-Kristensen. Evidence of\n\nPhysiotherapy Interventions for Patients with Chronic Neck Pain: A Systematic\n\nReview of Randomised Controlled Trials. Hindawi Publishing Corporation ISRN\nPain Volume 2013, Article ID 567175." + }, + { + "id": 36969, + "strid": "75344601-9130-4bee-96f8-653835292474", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 177.44, + 500.03, + 194.04000000000002, + 263.9 + ], + "priority": -1, + "parents": [], + "children": [ + 36965, + 36961, + 36955, + 36941, + 36964, + 36938, + 36939, + 36967, + 36966, + 36962 + ], + "area": 88725.3232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36938, + "strid": "1585736f-ed79-4a2a-ae87-e7c9b2b04581", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 526.093, + 560.067, + 2242.172, + 242.28600000000006 + ], + "priority": 1, + "parents": [ + 36969 + ], + "children": [], + "area": 294647.328231, + "iscrowd": 0, + "segmentation": [], + "text": "A Linear Program to Infer Signal Transduction Networks\nusing Perturbation Data" + }, + { + "id": 36939, + "strid": "99ce1ffb-3852-451b-adb3-6601c206bdaf", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 53.841, + 835.205, + 1521.474, + 139.62199999999996 + ], + "priority": 2, + "parents": [ + 36969 + ], + "children": [], + "area": 44968.272405, + "iscrowd": 0, + "segmentation": [], + "text": "Beitina Knapp\" and Lars Kaderali!\n\n| Institute for Medical Informatics and Biometry, Medical Faculty Carl Gustav Carus, Dresden University of Technology\n2 Institute of Computational Biology, German Research Center for Environmental Health (GmbH), Helmholtz Center Munich" + }, + { + "id": 36941, + "strid": "19a07e49-1b6c-4210-a202-c0f7113e5678", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 76.133, + 1085.704, + 149.59500000000003, + 39.59899999999993 + ], + "priority": 3, + "parents": [ + 36969 + ], + "children": [ + 36940 + ], + "area": 82657.902632, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract:" + }, + { + "id": 36940, + "strid": "0e1d2191-4650-441c-bfac-ea921e69c9bd", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.667, + 1129.703, + 1280.361, + 991.4369999999999 + ], + "priority": 4, + "parents": [ + 36941 + ], + "children": [], + "area": 84351.533901, + "iscrowd": 0, + "segmentation": [], + "text": "Recent biological and technological advances in the field of perturbation\nexperiments such as RNA interference (RNAi) enable the knockdown of\nindividual genes in a high-content high-throughput manner. Thereby, a detailed\nquantification of perturbation effecis on specific phenotypes can be assessed\nusing multiparametric imaging. This allows to elucidate the gene function\neasily, whereas the spatial and temporal placement of the genes in the\nunderlying networks is still a challenging task.\n\nWe propose methodologies which use individual cell measurements for the\ndata analysis and statistical scoring of RNAi data. This results in an increased\nsensitivity and specificity of the identified hits in comparison to already existing\nmethods. Furthermore, we present a network inference method for perturbation\ndata which is based on a linear program and thus, can be solved efficiently\neven for large-scale data. Based on simulated data we show an improved\nperformance of our approach over state-of-the art methods in terms of\nsensitivity and specificity, but also in terms of a significantly reduced\ncomputation time. Using our approach on real data studying the intracellular\nsignaling of human primary naive CD4+ T-cells and ErbB signaling in\ntrastuzumab resistant breast cancer cells we can recover already known\ninteractions and additionally new ones. The interactions inferred with our\napproach for the ErbB data predict an important role of negative and positive\nfeedback in controlling the cell cycle progression which needs to be validated\nfurther." + }, + { + "id": 36967, + "strid": "0ffb041b-fb67-41b5-a666-f98ba54b7469", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1412.594, + 1675.731, + 389.5319999999999, + 46.424999999999955 + ], + "priority": 5, + "parents": [ + 36969 + ], + "children": [ + 36948, + 36944, + 36943, + 36946, + 36942, + 36947, + 36945 + ], + "area": 2367127.556214, + "iscrowd": 0, + "segmentation": [], + "text": "RNAi data analysis:" + }, + { + "id": 36944, + "strid": "8d76ec35-50e5-44c6-9910-2530efffd851", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1414.038, + 1727.319, + 452.8409999999999, + 188.49299999999994 + ], + "priority": 6, + "parents": [ + 36967 + ], + 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"category_id": 5, + "category_name": "Section", + "bbox": [ + 2366.544, + 3793.168, + 497.259, + 49.50599999999986 + ], + "priority": 28, + "parents": [ + 36969 + ], + "children": [ + 36960 + ], + "area": 8976698.971392, + "iscrowd": 0, + "segmentation": [], + "text": "Summary network inference:" + }, + { + "id": 36960, + "strid": "4fb0bea6-bc48-4052-a4cd-f3bfc24b5c6c", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2362.144, + 3851.475, + 837.1979999999999, + 267.3309999999997 + ], + "priority": 29, + "parents": [ + 36961 + ], + "children": [], + "area": 9097738.562399998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36964, + "strid": "01c15976-2d7c-412a-8509-ae43bb226bc6", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2397.242, + 4245.742, + 295.9119999999998, + 38.314000000000306 + ], + "priority": 30, + "parents": [ + 36969 + ], + "children": [ + 36963 + ], + "area": 10178071.043564001, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 36963, + "strid": "61be8aaf-b153-4a79-a064-8ff5cdea0bb8", + "image_id": 201959, + "image_name": "117937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2372.787, + 4287.317, + 855.1289999999999, + 288.5749999999998 + ], + "priority": 31, + "parents": [ + 36964 + ], + "children": [], + "area": 10172890.042479, + "iscrowd": 0, + "segmentation": [], + "text": "We acknowledge Ilka Rebhan, Anih Kumar, Petr Matula,\nJohanna Mazur, Narsis Kiani, Mar¢o Binder, Holger Erfle, Karl\nRohr, Roland Eils and Ralf Bartenschlager. Furthermore, we\nacknowledge funding from_the German Ministry of Education\nand Research (BMBF) via’ the ForSys/ViroQuant programs\n(grant number 0313923)\\ and the European Union seventh\nframework program¢via, the PathoSys project (grant number\n260429)." + }, + { + "id": 99077, + "strid": "b26392ff-b62e-4dab-9c05-b13cd74c3c86", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 114.92, + 674.47, + 248.37, + 294.94999999999993 + ], + "priority": -1, + "parents": [], + "children": [ + 99056, + 99059, + 99055, + 99060, + 99054, + 99058, + 99057 + ], + "area": 77510.09240000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99054, + "strid": "c37d3ef1-7368-4b5c-a1c3-06b8da8d87df", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 486.127, + 97.74, + 2574.607, + 271.168 + ], + "priority": 1, + "parents": [ + 99077 + ], + "children": [], + "area": 47514.05298, + "iscrowd": 0, + "segmentation": [], + "text": "New regression models:for long-term cognitive\nchange in Donepezil.treated Alzheimer patients" + }, + { + "id": 99055, + "strid": "be4a4f6d-dc80-4a59-82e4-04db56cdee07", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 98.744, + 377.787, + 3344.873, + 207.253 + ], + "priority": 2, + "parents": [ + 99077 + ], + "children": [], + "area": 37304.199528, + "iscrowd": 0, + "segmentation": [], + "text": "a ed Wattmo C2, WallinA K?, Eriksson S*, Andreasen N‘, Minthon L? ee\nClinical Memory*Research Unit, Department of Clinical’ Sciences, Malmo, Lund University:°Department of Geriatrics, Geriatric Clinic,\nUmea University Hospital. ‘Karolinska Institute, NEUROTEC, Karolinska University Hospital, Huddinge, Stockholm" + }, + { + "id": 99056, + "strid": "f5ea8e0b-a001-4b0a-ad39-ef9d5eb09643", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1585.609, + 654.468, + 373.991, + 60.947 + ], + "priority": 3, + "parents": [ + 99077 + ], + "children": [ + 99068 + ], + "area": 1037730.3510119999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 99068, + "strid": "acd3cee8-bd85-4cc4-9e8d-369930656531", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 405.814, + 730.805, + 2726.457, + 286.692 + ], + "priority": 4, + "parents": [ + 99056 + ], + "children": [], + "area": 296570.90027, + "iscrowd": 0, + "segmentation": [], + "text": "There is considerably heterogeneity in the raw observations of the rate of change. Analyses of the rates of progression in donepezil treated pa-\ntients showed that the rate of change of ADAS-cog and MMSE scores depends strongly on the current score for the time interval examined. The\nmeasured rate of change indicated more rapid improvement for the more severely affected patients. Both quadratic and cubic functions adequa-\n\ntely characterize progression of Alzheimer’s disease. However, the regression models showed a slower cognitive deterioration in donepezil treated\npatients compared to earlier studies of untreated patients." + }, + { + "id": 99057, + "strid": "c858c6f8-c78c-4c6c-802a-0fd8987d7350", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 135.232, + 1173.842, + 387.942, + 59.827 + ], + "priority": 5, + "parents": [ + 99077 + ], + "children": [ + 99061 + ], + "area": 158741.00134400002, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 99061, + "strid": "2c44fff0-0dae-4f6e-b90a-1bfe8aa3d7c1", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.052, + 1250.467, + 1288.15, + 568.9189999999999 + ], + "priority": 6, + "parents": [ + 99057 + ], + "children": [], + "area": 163876.201284, + "iscrowd": 0, + "segmentation": [], + "text": "The Swedish Alzheimer Treatment Study (SATS) was started in or-\nder to describe the long-term effects of cholinesterase inhibitor tre-\natment in patients with Alzheimer’s Disease (AD) in a routine clinical\nsetting. Donepezil was the first of the second-generation inhibitors\nof acetylcolinesterase (ChEI) to get approval in Sweden 1997. Since\nplacebo controlled long term studies in AD treatment are no longer\nconsidered ethical, the problem with non-treated groups for compa-\nrison exists. Whether it would be feasible for future assessment of\nnew drugs for AD treatment without placebo groups to compare\nthem with ChE]." + }, + { + "id": 99059, + "strid": "6bef9932-2118-40e8-a54e-5e63714bc07c", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 133.265, + 1896.707, + 306.546, + 77.59400000000005 + ], + "priority": 7, + "parents": [ + 99077 + ], + "children": [ + 99062 + ], + "area": 252764.658355, + "iscrowd": 0, + "segmentation": [], + "text": "Objective" + }, + { + "id": 99062, + "strid": "7a958909-a7d4-41d3-a6ad-140846b59af8", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.052, + 1976.163, + 1284.918, + 226.2750000000001 + ], + "priority": 8, + "parents": [ + 99059 + ], + "children": [], + "area": 258980.113476, + "iscrowd": 0, + "segmentation": [], + "text": "To calculate regression models, which show the development of cog-\nnitive function in donepezil treated patients. In addition, to analyse\nhow the patients’ baseline scores have an impact on the change in\ncognition after 6 months of treatment." + }, + { + "id": 99060, + "strid": "6daf120e-ccd3-44fb-a0cd-27b8b766eefc", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 131.349, + 2274.142, + 702.182, + 70.88900000000012 + ], + "priority": 9, + "parents": [ + 99077 + ], + "children": [ + 99064, + 99063, + 99071 + ], + "area": 298706.27755799994, + "iscrowd": 0, + "segmentation": [], + "text": "Methods and Subjects" + }, + { + "id": 99063, + "strid": "b717bbca-4a22-4d69-996f-b8ba91f5ec28", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.668, + 2347.9, + 1284.9179999999997, + 347.49299999999994 + ], + "priority": 10, + "parents": [ + 99060 + ], + "children": [], + "area": 311491.19720000005, + "iscrowd": 0, + "segmentation": [], + "text": "SATS is a descriptive, prospective, longitudinal, multicentre study.\n435 outpatients with the clinical diagnosis of AD received treatment\nwith donepezil for a period of three years. Among the primary effi-\ncacy parameters assessed were MMSE and ADAS cognitive subscale.\nPatients were assessed at baseline, at 2 months (not ADAS-cog) and\nevery 6 months during the study." + }, + { + "id": 99071, + "strid": "9daf22dd-2964-4985-becd-860791666812", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 176.723, + 2787.606, + 1200.0, + 638.1889999999999 + ], + "priority": 11, + "parents": [ + 99060 + ], + "children": [], + "area": 492634.0951380001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99064, + "strid": "4344eb94-824b-485a-acc4-8c52a5070922", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.052, + 3514.831, + 1288.15, + 575.384 + ], + "priority": 12, + "parents": [ + 99060 + ], + "children": [], + "area": 460625.63221199997, + "iscrowd": 0, + "segmentation": [], + "text": "To simplify comparisons, change of score in this poster is calculated\nso that all positive values indicate improvement and all negative values\nindicate worsening. We computed the difference between baseline i.e.\nstart of donepezil treatment and the 6 months score and then cal-\nculated a mean for every possible baseline score. To avoid using test\nscores that had reached a floor, we truncated each patient’s record by\ncensoring data points after the ADAS-cog score first reached 70 or\nthe MMSE score first reached zero. We have only 4 patients with ba-\nseline ADAS-cog scores above 45 and 6 patients with MMSE scores\nbelow 12." + }, + { + "id": 99058, + "strid": "3d27d822-8aa6-4ad1-9c47-a7fa170d7cd7", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1596.187, + 1188.456, + 220.49, + 60.56400000000008 + ], + "priority": 13, + "parents": [ + 99077 + ], + "children": [ + 99066, + 99073, + 99072, + 99070, + 99069, + 99076, + 99074, + 99067, + 99065, + 99075 + ], + "area": 1896998.0172719997, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 99067, + "strid": "7f33f492-4061-4ab9-b0dc-d0f48b5c77f6", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1591.063, + 1267.63, + 1797.114, + 223.1959999999999 + ], + "priority": 14, + "parents": [ + 99058 + ], + "children": [], + "area": 2016879.1906900003, + "iscrowd": 0, + "segmentation": [], + "text": "There was a significant quadratic and cubic component between baseline scores on ADAS cog\not MMSE versus 6 months mean cognitive change. Linear and several nonlinear models were\nalso tested but these models were not significant. Here we present the cubic models which have\nmost of the variation explained by the model, i.e. the best fit." + }, + { + "id": 99069, + "strid": "48754256-b846-410d-ad8f-ac47ef1fb3d0", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1563.512, + 1529.519, + 1761.4509999999998, + 743.2180000000001 + ], + "priority": 15, + "parents": [ + 99058 + ], + "children": [], + "area": 2391421.310728, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99072, + "strid": "a564fe5c-cefb-4d73-a609-652d4b473a82", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1563.724, + 2291.871, + 792.758, + 206.50199999999995 + ], + "priority": 16, + "parents": [ + 99058 + ], + "children": [], + "area": 3583853.687604, + "iscrowd": 0, + "segmentation": [], + "text": "R= 0,39, R=0,62, p=0,0002\nY=b, + (b, *x;) + (b, * x7) + (b, * x?)\n*Y = -1,897 + (0,156 * x,) + (-0,008 * x”) + (0,0001 * x3)\n\nWhere x is the baseline score on the scale at time 0 for patient i" + }, + { + "id": 99073, + "strid": "d3343eea-11a5-4f62-b765-28af114d073c", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2517.484, + 2291.871, + 763.0080000000003, + 152.2510000000002 + ], + "priority": 17, + "parents": [ + 99058 + ], + "children": [], + "area": 5769748.572564, + "iscrowd": 0, + "segmentation": [], + "text": "R?=0,48, R=0,70, p=0,0069\nY=b, + (&, *x) + (b, * x?) + (b, * x?)\nAY = 9,211 + (1,293 * x) + (0,067 * x2) + (0,001 * x3" + }, + { + "id": 99066, + "strid": "f0990457-6989-423d-88f3-9a41f544d43a", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1560.277, + 2528.856, + 1822.1279999999997, + 572.4470000000001 + ], + "priority": 18, + "parents": [ + 99058 + ], + "children": [], + "area": 3945715.8531120005, + "iscrowd": 0, + "segmentation": [], + "text": "The first 6 months rate of cognitive change in donepezil treated patients was strongly dependent\nof the baseline scores. The predicted mean rate of change with 95 % confidence intervals showed\nmore rapid improvement for the more severely affected patients with 30 and above on the ADAS\ncognitive subscale or 17 and below on the MMSE scale. This indicates a different slope and cog-\nnitive development compared to earlier studies of untreated patients.\n\nFor patients with at least 3 assessments each we predicted a longitudinal regression model for the\ndependent variable ADAS-cog score (330 patients, 1402 observation points), and for the variable\nMMSE score (390 patients, 1955 observation points) at different intervals. Several different linear\nand non-linear models were tested but these models showed the best fit." + }, + { + "id": 99070, + "strid": "266b6733-706b-4288-9726-614625188386", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1558.482, + 3135.771, + 1839.538, + 526.7109999999998 + ], + "priority": 19, + "parents": [ + 99058 + ], + "children": [], + "area": 4887042.6596220005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99074, + "strid": "e302447b-0007-4c25-95bb-a1e2012d4ab9", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1557.931, + 3670.96, + 726.3589999999999, + 207.82499999999982 + ], + "priority": 20, + "parents": [ + 99058 + ], + "children": [], + "area": 5719102.383760001, + "iscrowd": 0, + "segmentation": [], + "text": "R°=0,63, R=0,79, p<0,000\nY=b, + ,*t) + b,*x)\nAY = -3,967 +.(0,288 * t) + (1,124 * x)\n\n(all coefficients were significant at the p<0,000 level)" + }, + { + "id": 99075, + "strid": "073ed751-6003-4435-94e4-ee8ed68623e0", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2514.75, + 3673.017, + 876.5700000000002, + 193.42200000000003 + ], + "priority": 21, + "parents": [ + 99058 + ], + "children": [], + "area": 9236719.50075, + "iscrowd": 0, + "segmentation": [], + "text": "R?= 0,56, R=0,75, p<0,000\n\nY=b, + ©, *t) +b, *x,)+ (, * ty )\n\n“Y = 4,913 + (-0,377 * t) + (0,827 * x) + (0,01 * tx, )\n(all coefficients were significant at the p<0,000 level)" + }, + { + "id": 99076, + "strid": "202680e0-8895-4307-ac3b-4f2e2b0d68c3", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1570.628, + 3887.317, + 1783.956, + 35.715999999999894 + ], + "priority": 22, + "parents": [ + 99058 + ], + "children": [], + "area": 6105528.925075999, + "iscrowd": 0, + "segmentation": [], + "text": "Where t is the time in months between the first score (baseline) and the actual visit, and x is the baseline score on the scale at time 0 for patient i" + }, + { + "id": 99065, + "strid": "3acdfd3c-dd00-4459-bda1-4d40b3b0ab7c", + "image_id": 204335, + "image_name": "121899.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1564.125, + 3988.186, + 1835.549, + 467.68700000000035 + ], + "priority": 23, + "parents": [ + 99058 + ], + "children": [], + "area": 6238021.427250001, + "iscrowd": 0, + "segmentation": [], + "text": "The left figure shows a comparison between the treated patients’ predicted mean ADAS-cog sco-\nres from our regression model with 95% confidence intervals, and the mean predicted scores from\nthe Stern equation calculated from untreated patients. Our model shows a favourable effect on\ncognition in donepezil treated patients with significant differences between the ADAS mean scores\nfrom 6 months and onwards (p<0,000). The right figure shows the mean predicted MMSE score\nwith 95% confidence intervals from our multiple non-linear regression model calculated from do-\nnepezil treated patients. The shadow area shows the decline of 2-4 MMSE points/year based on\nhistorical untreated patients." + }, + { + "id": 92130, + "strid": "cda75e0f-7d0e-4dd6-a791-557d64660994", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 128.19, + 90.54, + 290.45, + 193.63 + ], + "priority": -1, + "parents": [], + "children": [ + 92081, + 92075, + 92077, + 92076, + 92078, + 92082, + 92080, + 92079, + 92074 + ], + "area": 11606.322600000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92074, + "strid": "d36a8694-89c4-4ee1-90d1-820d1073d94b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 208.506, + 360.58, + 3005.676, + 215.151 + ], + "priority": 1, + "parents": [ + 92130 + ], + "children": [], + "area": 75183.09348, + "iscrowd": 0, + "segmentation": [], + "text": "Efficacy of Eculizumab in Atypical Hemolytic Uremic Syndrome\n(aHUS) Patients With or Without Dialysis at Baseline" + }, + { + "id": 92075, + "strid": "c1323d6d-bee5-4cd0-9197-fb51009e3908", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 159.491, + 624.729, + 3096.936, + 382.595 + ], + "priority": 2, + "parents": [ + 92130 + ], + "children": [], + "area": 99638.65293900002, + "iscrowd": 0, + "segmentation": [], + "text": "Christophe Legendre’, Sunil Babu’, David Cohen’, Yahsou Delmas’, Richard Furman®, Osama Gaber®,\nLarry Greenbaum’, Maryvonne Hourmant®, Therese Jungraithmayr®, Yvon Lebranchu”,\nMagdalena Riedl®, Neil Sheerin\", Camille L. Bedrosian’?, Chantal Loirat'*\n\n1Université Paris Descartes, H6pital Necker, Paris, France; 2Fort Wayne Medical Oncology and Hematology, Fort Wayne, IN, USA; *Columbia University Medical Center, New York, NY, USA;\n\n4CHU Pellegrin, Bordeaux, France; *Weill Cornell Medical College, New York, NY, USA; ®Methodist Hospital, Houston, TX, USA; 7Emory University School of Medicine, Atlanta, GA, USA;\n8CHU Hotel Dieu-Nantes, Nantes, France; °University of Innsbruck, Innsbruck, Austria; ‘University Hospital, Frangois Rabelais University, Tours, France;\n\n“Newcastle University, Newcastle upon Tyne, UK; '2Alexion Pharmaceuticals, Inc., Cheshire, CT, USA; Assistance Publique-H6pitaux de Paris, H6pital Robert Debré, Paris, France." + }, + { + "id": 92076, + "strid": "b09d59e5-bac7-4482-abc1-8dcf5f34084a", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 143.692, + 1223.937, + 321.499, + 33.861000000000104 + ], + "priority": 3, + "parents": [ + 92130 + ], + "children": [ + 92083 + ], + "area": 175869.955404, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 92083, + "strid": "ed83eaad-42f9-470c-839c-dc8824d370d4", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 127.636, + 1279.312, + 971.271, + 781.96 + ], + "priority": 4, + "parents": [ + 92076 + ], + "children": [], + "area": 163286.26643199997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92077, + "strid": "dabd5bb5-fe38-4c72-9d80-c75061a308b7", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 142.4, + 2119.366, + 234.14200000000002, + 35.32999999999993 + ], + "priority": 5, + "parents": [ + 92130 + ], + "children": [ + 92087, + 92084, + 92086 + ], + "area": 301797.7184, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 92084, + "strid": "7e7edc89-5356-4f49-99b8-9e0426b1a97d", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 128.326, + 2175.772, + 869.793, + 57.28699999999981 + ], + "priority": 6, + "parents": [ + 92077 + ], + "children": [], + "area": 279208.11767199996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92086, + "strid": "fecdf9fe-89e1-4b56-b908-0e92ea3292b5", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 127.646, + 2327.984, + 989.96, + 819.732 + ], + "priority": 7, + "parents": [ + 92077 + ], + "children": [ + 92085 + ], + "area": 297157.84566399996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92085, + "strid": "5449894e-ef0c-43a3-bf16-02467f827f9b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 127.972, + 2268.628, + 934.5260000000001, + 57.97200000000021 + ], + "priority": 8, + "parents": [ + 92086 + ], + "children": [], + "area": 290320.862416, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Eculizumab Therapy in Atypical HemolyticQremic Syndrome (aHUS):\nMultinational, Multicenter Clinical Program" + }, + { + "id": 92087, + "strid": "19019713-122b-4cee-aa97-ac13a66ce783", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.312, + 3153.224, + 791.145, + 16.95400000000018 + ], + "priority": 9, + "parents": [ + 92077 + ], + "children": [], + "area": 404596.4778880001, + "iscrowd": 0, + "segmentation": [], + "text": "STEC, Shiga toxin-producing Escherichia coli;\n\n \n\n‘MA, thrombotic microangiopathy; ULN, upper limit of normal." + }, + { + "id": 92078, + "strid": "6d381a04-a659-47ed-9581-31608a930e15", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 144.427, + 3246.045, + 210.884, + 34.5590000000002 + ], + "priority": 10, + "parents": [ + 92130 + ], + "children": [ + 92088, + 92126, + 92127 + ], + "area": 468816.541215, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 92127, + "strid": "0650d5d2-9a97-4d38-8bf6-26f7f9534f21", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 126.25, + 3306.802, + 965.6019999999999, + 194.39499999999998 + ], + "priority": 11, + "parents": [ + 92078 + ], + "children": [], + "area": 417483.7525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92126, + "strid": "ccc10069-3bfb-4535-91c0-41ba885ab2d6", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 125.445, + 3520.877, + 937.4100000000001, + 102.73399999999992 + ], + "priority": 12, + "parents": [ + 92078 + ], + "children": [], + "area": 441676.41526499996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92088, + "strid": "9e37c9b7-7510-40db-bc0d-0114f3968391", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 127.096, + 3643.296, + 941.163, + 239.89100000000008 + ], + "priority": 13, + "parents": [ + 92078 + ], + "children": [], + "area": 463048.34841599996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92079, + "strid": "8a24ce03-0dd6-4264-ab34-ed6fd25401da", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 143.638, + 3939.072, + 192.86299999999997, + 35.21300000000019 + ], + "priority": 14, + "parents": [ + 92130 + ], + "children": [ + 92099, + 92101, + 92118, + 92112, + 92117, + 92106, + 92128, + 92129, + 92095, + 92110, + 92091, + 92107, + 92098, + 92092, + 92109, + 92120, + 92114, + 92121, + 92094, + 92113, + 92102, + 92125, + 92116, + 92104, + 92096, + 92089 + ], + "area": 565800.4239360001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 92125, + "strid": "9107f46b-019d-4cba-a66b-324e1bdba973", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 126.855, + 3997.971, + 962.262, + 57.70600000000013 + ], + "priority": 15, + "parents": [ + 92079 + ], + "children": [], + "area": 507162.611205, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92089, + "strid": "f0441817-81c7-42cc-a0c8-d6b411f15516", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 126.778, + 4071.251, + 989.3019999999999, + 133.2430000000004 + ], + "priority": 16, + "parents": [ + 92079 + ], + "children": [], + "area": 516145.05927800003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92091, + "strid": "bf27219f-1ecf-40b1-a94f-c73e940c2a77", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 127.192, + 4286.519, + 990.124, + 538.7290000000003 + ], + "priority": 17, + "parents": [ + 92079 + ], + "children": [ + 92090 + ], + "area": 545210.924648, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92090, + "strid": "46458714-e19a-4bc2-bf3f-e1ad7def8533", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 126.739, + 4255.331, + 502.10699999999997, + 20.89099999999962 + ], + "priority": 18, + "parents": [ + 92091 + ], + "children": [], + "area": 539316.395609, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Patients’ Baseline Characteristics" + }, + { + "id": 92128, + "strid": "11d842fb-db7c-486c-b86c-f63e24517038", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.928, + 4838.369, + 888.096, + 66.78200000000015 + ], + "priority": 19, + "parents": [ + 92079 + ], + "children": [], + "area": 609286.131432, + "iscrowd": 0, + "segmentation": [], + "text": "“For patients on dialysis, eGFR was calculated with the creatinine value immediately prior to dialysis or a fixed value of,\n10 mL/min/1.73 m2.\n\neGFR, estimated glomerular filtration rate; SD, standard deviation." + }, + { + "id": 92092, + "strid": "b4e3a941-d264-491e-be37-058f56c73264", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 125.186, + 4934.751, + 962.3189999999998, + 203.10599999999977 + ], + "priority": 20, + "parents": [ + 92079 + ], + "children": [], + "area": 617761.7386860001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92094, + "strid": "504bd4e3-1973-4e2f-9cbe-915786b11627", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 126.945, + 5233.459, + 990.444, + 594.3140000000003 + ], + "priority": 21, + "parents": [ + 92079 + ], + "children": [ + 92093 + ], + "area": 664361.452755, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92093, + "strid": "cc9cda15-761b-4277-981c-2d7a8d9671f9", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 130.109, + 5206.412, + 761.759, + 24.840000000000146 + ], + "priority": 22, + "parents": [ + 92094 + ], + "children": [], + "area": 677401.0589080001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Effect of Eculizumab on Terminal Gomplement Activity" + }, + { + "id": 92095, + "strid": "6f76fe66-c8ee-4603-80a6-21c62e9fd092", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.706, + 5835.436, + 937.2599999999999, + 64.30400000000009 + ], + "priority": 23, + "parents": [ + 92079 + ], + "children": [], + "area": 751055.6258159999, + "iscrowd": 0, + "segmentation": [], + "text": "Based on a pharmacodynamic assay that quantified the complement activity in serum by measuring the degree of hemolysis; the\nmeasure of hemolysis is the amount of hemoglobin released as determined via spectrophotometer.\nSE, standard error." + }, + { + "id": 92096, + "strid": "c37253ee-10c8-4ba5-b0a9-0d2337b39b1c", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1215.105, + 1210.639, + 988.2339999999999, + 102.92699999999991 + ], + "priority": 24, + "parents": [ + 92079 + ], + "children": [], + "area": 1471053.502095, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92098, + "strid": "26f07d6a-3dc8-43c7-ba24-fde736ab582b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.846, + 1408.821, + 989.6379999999999, + 593.855 + ], + "priority": 25, + "parents": [ + 92079 + ], + "children": [ + 92097 + ], + "area": 1711500.556566, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92097, + "strid": "3f6efa65-c635-4869-ad4b-a7928d8fcf34", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1215.281, + 1381.429, + 665.5639999999999, + 26.123000000000047 + ], + "priority": 26, + "parents": [ + 92098 + ], + "children": [], + "area": 1678824.416549, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Patients Achieving Hematologic Normalization" + }, + { + "id": 92099, + "strid": "a8b8ab57-2d4a-4485-a8be-392e9558082d", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1213.221, + 2087.631, + 908.2150000000001, + 58.664999999999964 + ], + "priority": 27, + "parents": [ + 92079 + ], + "children": [], + "area": 2532757.769451, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92101, + "strid": "3bad92c2-3f4b-4154-bb85-35b71c3efa0d", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.219, + 2221.373, + 990.4650000000001, + 594.5120000000002 + ], + "priority": 28, + "parents": [ + 92079 + ], + "children": [ + 92100 + ], + "area": 2697233.302687, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92100, + "strid": "2b368eae-215e-4203-af81-c3fd6392e37b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1216.518, + 2193.589, + 982.625, + 25.259000000000015 + ], + "priority": 29, + "parents": [ + 92101 + ], + "children": [], + "area": 2668540.503102, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Patients Achieving Thrombotic Miefoangiopathy (TMA) Event-free Status" + }, + { + "id": 92102, + "strid": "e6483d8d-ff3d-4853-8ceb-f9e81c3f86db", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1214.478, + 2900.205, + 964.944, + 87.33800000000019 + ], + "priority": 30, + "parents": [ + 92079 + ], + "children": [], + "area": 3522235.16799, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92104, + "strid": "e373aab4-9bae-4b08-a651-c65b3e699675", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.39, + 3083.566, + 990.6400000000001, + 677.3829999999998 + ], + "priority": 31, + "parents": [ + 92079 + ], + "children": [ + 92103 + ], + "area": 3744651.71474, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92103, + "strid": "e59466e2-f7b9-42cd-b9f4-fcb42ec332ba", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1216.556, + 3024.434, + 851.0929999999998, + 57.76000000000022 + ], + "priority": 32, + "parents": [ + 92104 + ], + "children": [], + "area": 3679393.3293040004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5a. Mean Change in Estimated Glomerular Filtration,Rate (eGFR)\nFrom Baseline in Patients Without Dialysis N%" + }, + { + "id": 92106, + "strid": "019b1f74-a837-4857-a77f-a0d9e125396a", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.604, + 3877.284, + 990.1629999999998, + 672.4990000000003 + ], + "priority": 33, + "parents": [ + 92079 + ], + "children": [ + 92105 + ], + "area": 4709364.655536001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92105, + "strid": "e2de5a0f-ef4f-4ece-ac83-395825b1e1b2", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1212.865, + 3818.404, + 853.8210000000001, + 57.9340000000002 + ], + "priority": 34, + "parents": [ + 92106 + ], + "children": [], + "area": 4631208.56746, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5b. Mean Change in Estimated Glomerular Filtration Rate (eGFR)\nFrom Baseline in Patients With Dialysis" + }, + { + "id": 92107, + "strid": "0afb6724-a235-4a6a-9975-0ffbf000aa12", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1215.982, + 4579.658, + 923.3209999999999, + 121.33799999999974 + ], + "priority": 35, + "parents": [ + 92079 + ], + "children": [], + "area": 5568781.694156, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92109, + "strid": "6200ea67-8284-4dd9-b233-d12fa573221b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1214.394, + 4802.898, + 990.1380000000001, + 261.46900000000005 + ], + "priority": 36, + "parents": [ + 92079 + ], + "children": [ + 92108 + ], + "area": 5832610.513812, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92108, + "strid": "84305e4d-f4ef-4caa-9ec0-6611a062b301", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1214.707, + 4738.711, + 953.1220000000001, + 58.65899999999965 + ], + "priority": 37, + "parents": [ + 92109 + ], + "children": [], + "area": 5756145.422677001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2. Efficacy Outcomes at Median 104 Weeks in Eculizumab-tr d Patients\nWith or Without Dialysis at Baseline" + }, + { + "id": 92129, + "strid": "71580b09-c69b-4f2e-a5b5-2dbd9c83b0f1", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1212.024, + 5070.704, + 816.829, + 120.22800000000007 + ], + "priority": 38, + "parents": [ + 92079 + ], + "children": [], + "area": 6145814.9448959995, + "iscrowd": 0, + "segmentation": [], + "text": "“P-values are based on a pairwise t-test at each visit.\n'CKD stage analysis includes individual eGFR values and evidence of retal damage as assessed by proteinuria.\n‘Categorical measure based on urinalysis.\n\nSEvaluable patients.\n\nCKD, chronic kidney disease; eGFR, estimated glométular filtration rate; SD, standard deviation." + }, + { + "id": 92110, + "strid": "4d0bb863-f07b-480c-9fde-1f35e6eb90fa", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1214.778, + 5232.91, + 974.1209999999999, + 187.38799999999992 + ], + "priority": 39, + "parents": [ + 92079 + ], + "children": [], + "area": 6356823.94398, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92112, + "strid": "6277fe02-6dd4-40de-a8d2-51200919ff95", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.055, + 5515.383, + 990.6520000000003, + 728.3469999999998 + ], + "priority": 40, + "parents": [ + 92079 + ], + "children": [ + 92111 + ], + "area": 6695978.308065, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92111, + "strid": "8e6cc0cd-e3c1-4f16-b584-ddefe9374a1e", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1216.167, + 5455.072, + 927.6410000000001, + 58.712000000000444 + ], + "priority": 41, + "parents": [ + 92112 + ], + "children": [], + "area": 6634278.549024, + "iscrowd": 0, + "segmentation": [], + "text": "Figure impact of Long-term Eculizumab Treatment on the Quality of Life of\nPatie! ithout Dialysis" + }, + { + "id": 92113, + "strid": "a43d02d7-f457-4dc2-9754-04698a0c72c5", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1216.196, + 6249.618, + 290.48299999999995, + 16.159999999999854 + ], + "priority": 42, + "parents": [ + 92079 + ], + "children": [], + "area": 7600760.413128, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 92114, + "strid": "c302b470-5f63-4773-aa58-a45cc9b85d1b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2330.217, + 1210.136, + 940.509, + 57.111000000000104 + ], + "priority": 43, + "parents": [ + 92079 + ], + "children": [], + "area": 2819879.479512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92116, + "strid": "3f5a09ef-30f5-4605-8b60-efc0c843f4d1", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2301.109, + 1363.225, + 990.2570000000001, + 732.219 + ], + "priority": 44, + "parents": [ + 92079 + ], + "children": [ + 92115 + ], + "area": 3136929.3165249997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92115, + "strid": "e3c74ac4-5cdc-40fb-8cc4-e6aaa554bc0b", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2302.539, + 1304.356, + 927.6790000000001, + 57.778999999999996 + ], + "priority": 45, + "parents": [ + 92116 + ], + "children": [], + "area": 3003330.559884, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6b. Impact of Lo: pr eoulizumab Treatment on the Quality of Life of\nPatients With Dialysis /" + }, + { + "id": 92117, + "strid": "8941b107-5e09-4345-aed9-1a04edbde352", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2301.824, + 2101.422, + 290.3539999999998, + 16.440000000000055 + ], + "priority": 46, + "parents": [ + 92079 + ], + "children": [], + "area": 4837103.593728, + "iscrowd": 0, + "segmentation": [], + "text": "Bars represent 95% confidence interval." + }, + { + "id": 92118, + "strid": "deafb968-dc0c-4964-b421-7e918201eba6", + "image_id": 204071, + "image_name": "121408.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2302.127, + 2191.558, + 985.2170000000001, + 269.01900000000023 + ], + "priority": 47, + "parents": [ + 92079 + ], + "children": [], + "area": 5045244.843866, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 92120, + "strid": "cf4f2bbb-9d10-4ce9-8b8e-d0b9b45e8f62", + "image_id": 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We implemented our model in Python 3.6 utilizing\nseveral Python libraries including Seikit-earn, FuzzyWuzzy, and pandas.\nOur model consisted ofthe following steps: data processing and\nrepresentation, searching for the nearest neighbors, and final selection\nand ranking of the matches." + }, + { + "id": 144898, + "strid": "998fe3b9-c96e-4ebe-8dbf-3e35dfc59e8d", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 22.32, + 319.356, + 126.017, + 14.641999999999996 + ], + "priority": 6, + "parents": [ + 144916 + ], + "children": [ + 144902, + 144912 + ], + "area": 7128.02592, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 144902, + "strid": "f8b9df04-1493-4cae-a16d-832de253e5c0", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 21.45, + 341.435, + 332.513, + 24.173000000000002 + ], + "priority": 7, + "parents": [ + 144898 + ], + "children": [], + "area": 7323.78075, + "iscrowd": 0, + "segmentation": [], + "text": "We Inferred 2 pleces of Infarmation far each calumn In the input data file\n(the query)." + }, + { + "id": 144912, + "strid": "ab830952-4e5d-4407-98cf-9fd6a1a60c63", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 21.607, + 368.615, + 337.321, + 120.89999999999998 + ], + "priority": 8, + "parents": [ + 144898 + ], + "children": [], + "area": 7964.664305, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144899, + "strid": "9e51db47-b267-4fd3-b0ec-d5171dbef2e5", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 45.806, + 509.493, + 291.55, + 12.420000000000016 + ], + "priority": 9, + "parents": [ + 144916 + ], + "children": [ + 144914, + 144913 + ], + "area": 23337.836357999997, + "iscrowd": 0, + "segmentation": [], + "text": "Term Frequency — Inverse Document Frequency (TF-IDF)" + }, + { + "id": 144913, + "strid": "7a140ef6-b2a2-46c2-8275-51e928d2453b", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 22.296, + 528.387, + 337.989, + 96.75199999999995 + ], + "priority": 10, + "parents": [ + 144899 + ], + "children": [], + "area": 11780.916551999999, + "iscrowd": 0, + "segmentation": [], + "text": "TF @,d) * IDF (¢) : Maseures how relevant a term £ is to a document d in\nset of documents\n\nHof timest appears ind\n“Total ¥ of termsind —\nTotal # of documents\n\nTe ea=\n\n \n\nFe" + }, + { + "id": 144914, + "strid": "0fc43789-19d7-4c94-bb39-9bb33d1ec5ef", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 21.463, + 640.756, + 306.889, + 24.253000000000043 + ], + "priority": 11, + "parents": [ + 144899 + ], + "children": [], + "area": 13752.546028, + "iscrowd": 0, + "segmentation": [], + "text": "FOP TORS MPORTIRERSON SEROWE C-REE 9 COMRTEOUTIOE CO CP RAGS RCRD\nAutomation DREAM Challenge:" + }, + { + "id": 144896, + "strid": "5dcc2a2f-a423-46cc-bb74-cfcbdac40283", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 387.821, + 112.312, + 135.35800000000006, + 14.400000000000006 + ], + "priority": 12, + "parents": [ + 144916 + ], + "children": [ + 144903, + 144915, + 144907, + 144911 + ], + "area": 43556.952152000005, + "iscrowd": 0, + "segmentation": [], + "text": "Data Representation:" + }, + { + "id": 144903, + "strid": "4e861004-d452-4c9d-820d-c40a142c557a", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 385.932, + 133.627, + 450.0319999999999, + 132.26799999999997 + ], + "priority": 13, + "parents": [ + 144896 + ], + "children": [], + "area": 51570.935364000004, + "iscrowd": 0, + "segmentation": [], + "text": "We tized Sclict-leem’s Thidivectortzer class stong with two custorn N-gram enelyser Ranctions to\nvectorize the data. The custom n-gram functions performed both text cleaning/pre-processing\nsteps (e8., adding or removing spaces, removing punctuation, transforming the string to lower or\ntitle case) along with splitting the string into chunks of length 2(bigrams)\n\nFor the metadata, we fit the ThidfVectorizer separately to select caDSR feds (including twice to the\nCDE_LONG_NAME). To form the query, we it the column header, observed values and inferred\ndatatype tothe corresponding caDSR TF-IDF vectors, applying the same analyzer function. Then we\nused Scikt- learns ColumnTransformer clas to concatenate the TF-IDF vectors into a single feature\nspace." + }, + { + "id": 144915, + "strid": "88df5d1f-b331-4abb-9624-1497ace0996b", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 386.344, + 283.67, + 444.6499999999999, + 120.66699999999997 + ], + "priority": 14, + "parents": [ + 144896 + ], + "children": [], + "area": 109594.20248, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144907, + "strid": "cbf02535-4f44-4f62-a76a-2c149a85c99b", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 394.894, + 421.216, + 435.826, + 25.487000000000023 + ], + "priority": 15, + "parents": [ + 144896 + ], + "children": [], + "area": 166335.671104, + "iscrowd": 0, + "segmentation": [], + "text": "Tels table shows the fields Hom the calleh and input flee used te construct the TEIDE matrix and\n‘vectors passed into the Nearest Neighbor function." + }, + { + "id": 144911, + "strid": "42202180-84b3-4930-8059-ace03914925e", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 387.566, + 453.287, + 448.959, + 245.19699999999995 + ], + "priority": 16, + "parents": [ + 144896 + ], + "children": [], + "area": 175678.62944199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144905, + "strid": "99cee1e9-0e1f-4a50-91af-004a26372dad", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 862.598, + 112.241, + 46.861999999999966, + 11.405000000000001 + ], + "priority": 17, + "parents": [ + 144916 + ], + "children": [ + 144904 + ], + "area": 96818.86211799999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 144904, + "strid": "4c385b4b-74d8-4034-8b5c-99c0460795ad", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 861.953, + 133.198, + 448.068, + 111.774 + ], + "priority": 18, + "parents": [ + 144905 + ], + "children": [], + "area": 114810.41569400001, + "iscrowd": 0, + "segmentation": [], + "text": "The metadata TF-IDF matris and query wechors were passed to Sciidt-leam’s Newest Melghbor class\nwhich, for each query vector, returned the 15 nearest neighbor COEs and their associated distance\nValue Domain: f any ofthe 15 returned CDEs were enumerated, the FuszyWuzzy library was\nutlized to perform an addtional value domain search to help rank the matches, Fuzz/Wuzzy uses\nLevenshtein Distance to campare the observed values to the permissible values. The Levenshtein\nDistance scores forall the observed values were then averaged together to create 2 total score for\nthe column." + }, + { + "id": 144906, + "strid": "0d938e3c-2c33-4a93-893b-fca1f5964c0a", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 861.686, + 274.137, + 55.960000000000036, + 14.822000000000003 + ], + "priority": 19, + "parents": [ + 144916 + ], + "children": [ + 144910 + ], + "area": 236220.01498200002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 144910, + "strid": "2c4cd0db-f6f3-46d3-bfbe-f06e7f605801", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 855.778, + 284.722, + 467.1569999999999, + 301.1859999999999 + ], + "priority": 20, + "parents": [ + 144906 + ], + "children": [], + "area": 243658.82371599998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144908, + "strid": "aa0ca969-faa9-4c69-b53b-ed9c57b2df1e", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 862.789, + 604.361, + 133.303, + 15.909999999999968 + ], + "priority": 21, + "parents": [ + 144916 + ], + "children": [ + 144909 + ], + "area": 521436.02282899996, + "iscrowd": 0, + "segmentation": [], + "text": "End-to-End Learning:" + }, + { + "id": 144909, + "strid": "e5b32cec-0169-4c98-9e91-1cbd7c7e8eb8", + "image_id": 206128, + "image_name": "18127.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 862.254, + 627.821, + 448.294, + 69.47500000000002 + ], + "priority": 22, + "parents": [ + 144908 + ], + "children": [], + "area": 541341.168534, + "iscrowd": 0, + "segmentation": [], + "text": "We menusiy tested diferent persmeter settings ageinst the provided reel Gate test Mes. In our\ntesting we found that some parameter settings worked well for one subset ofthe test datasets and\npoorly forthe others, while a different setting would work less wel fora diferent (sometimes\noverlapping, sometimes distinct subset ofthe datasets but also less poorly forthe ather datasets.\nBecause of this, we focused on trying to maximize the average score across all the test datasets." + }, + { + "id": 131972, + "strid": "33f7c62b-20fe-4a9e-bf71-72165232b622", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 41.99, + 20.87, + 336.21999999999997, + 52.53 + ], + "priority": -1, + "parents": [], + "children": [ + 131948, + 131949, + 131952, + 131950, + 131946, + 131951, + 131947, + 131945 + ], + "area": 876.3313, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131945, + "strid": "78635f87-fa13-43b7-acc6-ee8666f5c1d0", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 77.852, + 118.11, + 3844.31, + 348.107 + ], + "priority": 1, + "parents": [ + 131972 + ], + "children": [], + "area": 9195.09972, + "iscrowd": 0, + "segmentation": [], + "text": "Testing Darwin’s naturalization conundrum based on taxonomic,\nphylogenetic and functional dimensions of vascular plant diversity" + }, + { + "id": 131946, + "strid": "63857081-887d-42dc-9c45-f6a27d655c1c", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 93.119, + 554.734, + 3302.918, + 149.08000000000004 + ], + "priority": 2, + "parents": [ + 131972 + ], + "children": [], + "area": 51656.275346, + "iscrowd": 0, + "segmentation": [], + "text": "Jesus N. Pinto-Ledezma! Fabricio Villalobos? Peter Reich! Daniel Larkin! & Jeannine Cavender-Bares'\n| University of Minnesota Twin Cities, MN, USA 2Instituto de Ecologia A.C.,Veracruz, Mexico contact: jesuspintoledezma@gmail.com" + }, + { + "id": 131947, + "strid": "dfc786b1-2aa8-42c7-ba2c-3053841174b1", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 84.275, + 805.523, + 406.80500000000006, + 91.731 + ], + "priority": 3, + "parents": [ + 131972 + ], + "children": [ + 131954 + ], + "area": 67885.450825, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 131954, + "strid": "c86210bd-86df-4adc-9bd8-6adc9ae2a030", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.646, + 932.726, + 1552.713, + 569.5099999999999 + ], + "priority": 4, + "parents": [ + 131947 + ], + "children": [], + "area": 85480.606996, + "iscrowd": 0, + "segmentation": [], + "text": "Different historical and ecological mechanisms are thought to determine the\nsuccess of nonnative species in native recipient communities (e.g., dispersal\ndynamics, adaptation, biotic interactions). Charles Darwin posited two\ncompeting hypotheses the explain the success of nonnative species based on\nthe relatedness to incumbent natives: coexistence between them should be\n(i) more likely with greater relatedness (due to trait similarity that\ncorrelates with better matching with the environment), or (ii) less likely\n(due to biotic interference). The paradox raised by the opposing predictions\nof these two hypotheses has been termed ‘Darwin naturalization\nconundrum’ (DNC)." + }, + { + "id": 131948, + "strid": "97fe38c5-f299-4b54-b76e-7487e021c790", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.244, + 1606.177, + 446.995, + 71.375 + ], + "priority": 5, + "parents": [ + 131972 + ], + "children": [ + 131955, + 131957, + 131956 + ], + "area": 128886.06718799999, + "iscrowd": 0, + "segmentation": [], + "text": "Aims & Data" + }, + { + "id": 131955, + "strid": "c2ff860b-b342-4413-89a6-b8511362d741", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.769, + 1731.716, + 1629.214, + 398.3090000000002 + ], + "priority": 6, + "parents": [ + 131948 + ], + "children": [], + "area": 134673.821604, + "iscrowd": 0, + "segmentation": [], + "text": "Using plant communities over a long time span and across an experimental fire\ngradient at Cedar Creek Ecosystem Science Reserve we evaluate the DNC by\ncompletely incorporating taxonomic, phylogenetic and functional information\n(A) Describing the phylogenetic and functional structure of co-occurring species\nwith a focal species —we call this approach ‘focal-species’\n\n(B) Testing multiple predictions for explaining the variation in focal nonnatives\nrelatedness across environmental gradients" + }, + { + "id": 131956, + "strid": "d2fa7162-2602-4c3b-b032-ee1d8137f7e3", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 82.174, + 2181.042, + 1601.316, + 297.4090000000001 + ], + "priority": 7, + "parents": [ + 131948 + ], + "children": [], + "area": 179224.945308, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131957, + "strid": "2fd10233-97a0-4ca1-ad32-1b34ca3e1d00", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 121.224, + 2514.954, + 1112.388, + 659.165 + ], + "priority": 8, + "parents": [ + 131948 + ], + "children": [ + 131958 + ], + "area": 304872.78369600006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131958, + "strid": "dce5b6ad-ec3c-4a67-b540-d55ce8ed82cb", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 269.094, + 3222.489, + 760.838, + 163.79199999999992 + ], + "priority": 9, + "parents": [ + 131957 + ], + "children": [], + "area": 867152.4549659999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2 Relative abundance of the 26 focal\nnonnative species at Cedar Creek\nEcosystem Science Reserve, MN, USA" + }, + { + "id": 131952, + "strid": "c93bf140-174c-4373-9cba-ca14c651f1de", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1824.784, + 805.935, + 302.3890000000001, + 78.543 + ], + "priority": 10, + "parents": [ + 131972 + ], + "children": [ + 131953, + 131966, + 131967, + 131970 + ], + "area": 1470657.29304, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 131953, + "strid": "f0efb96e-b118-4575-81ae-29e83387ef71", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1826.536, + 924.006, + 1266.5609999999997, + 170.15199999999993 + ], + "priority": 11, + "parents": [ + 131952 + ], + "children": [], + "area": 1687730.223216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131966, + "strid": "182abf16-0d4d-420f-b643-68eeebacaa3c", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1766.61, + 1115.05, + 1513.5650000000003, + 642.002 + ], + "priority": 12, + "parents": [ + 131952 + ], + "children": [ + 131960 + ], + "area": 1969858.4804999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131960, + "strid": "a216b25e-fe83-494a-8697-c2ed82b61736", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1843.981, + 1776.454, + 1309.235, + 165.1969999999999 + ], + "priority": 13, + "parents": [ + 131966 + ], + "children": [], + "area": 3275747.423374, + "iscrowd": 0, + "segmentation": [], + "text": "Fig | Conceptual framework to estimate focal-species structure and\npredictions of changes in the phylogenetic and functional structure\nacross environmental gradients" + }, + { + "id": 131967, + "strid": "65eabca6-0561-403e-acee-57e8a82bffe4", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1885.102, + 1979.216, + 1409.055, + 80.98000000000002 + ], + "priority": 14, + "parents": [ + 131952 + ], + "children": [], + "area": 3731024.040032, + "iscrowd": 0, + "segmentation": [], + "text": "Patterns of focal species relatedness/similarity (A)" + }, + { + "id": 131970, + "strid": "9c46f2e2-d309-4275-a6a4-8438435049cc", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2059.834, + 2083.647, + 1285.725, + 1363.179 + ], + "priority": 15, + "parents": [ + 131952 + ], + "children": [ + 131959 + ], + "area": 4291966.934598, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131959, + "strid": "cc471be0-3d52-4905-83e3-b718b6a903bb", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1410.902, + 2836.54, + 620.442, + 381.28099999999995 + ], + "priority": 16, + "parents": [ + 131970 + ], + "children": [], + "area": 4002079.95908, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3 Patterns focal species\nphylogenetic relatedness and\nfunctional similarity for the 26\nnonnative species at Cedar\nCreek. Darker and lighter\ncolors correspond to clustering\nand overdispersion, respectively" + }, + { + "id": 131951, + "strid": "fae603dd-a224-4524-a06f-37f71a93d1d0", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3448.377, + 802.774, + 390.5189999999998, + 75.73199999999997 + ], + "priority": 17, + "parents": [ + 131972 + ], + "children": [ + 131965, + 131964, + 131969, + 131968 + ], + "area": 2768267.397798, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 131968, + "strid": "18b3067c-c53c-4463-8ab3-fb3e9a5cbdfb", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3461.757, + 930.573, + 2044.7000000000003, + 791.726 + ], + "priority": 18, + "parents": [ + 131951 + ], + "children": [], + "area": 3221417.596761, + "iscrowd": 0, + "segmentation": [], + "text": "Among the 243 species recorded in all permanent plots at Cedar Creek Ecosystem Science Reserve,\n26 species were classified as nonnative species. Overall, we found that co-occurrence patterns of\nthe 26 nonnative species within local communities did not follow a general tendency\nof phylogenetic clustering or overdispersion—in other words they were not found to occur\nmore with closely or distantly related native species—instead, we found that co-occurrence patterns\ndepended on species-level evolutionary history and functional traits that regulated the colonization\nand persistence of nonnatives within native communities. Moreover, our findings provided insights\nfor understanding nonnative species coexistence in recipient communities across environmental\ngradients and at multiple temporal and spatial scales in a highly diverse region of North America.\nFinally, the integration of multiple dimensions of biodiversity within a single framework—‘focal\nspecies —can enhance our ability to produce reliable information of species co-occurrence at\ndifferent spatial and temporal scales, enabling monitoring the changes of both individual and\nmultiple species, and thus contributing to the develop of resource management plans and the\ndecision making facing a changing World." + }, + { + "id": 131969, + "strid": "51846bcd-2044-4161-9775-a361007b0c99", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3452.83, + 1807.166, + 1369.6010000000006, + 80.76099999999997 + ], + "priority": 19, + "parents": [ + 131951 + ], + "children": [], + "area": 6239836.97978, + "iscrowd": 0, + "segmentation": [], + "text": "Changes of focal species across fire gradients (B)" + }, + { + "id": 131965, + "strid": "a5dd84d9-9539-4673-a287-125e3da769cc", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3478.911, + 1956.664, + 822.0730000000003, + 790.7079999999999 + ], + "priority": 20, + "parents": [ + 131951 + ], + "children": [ + 131961 + ], + "area": 6807059.912904, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131961, + "strid": "ae648164-f398-4614-8063-f02f67a2cf81", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3476.863, + 2815.325, + 855.2769999999996, + 163.2869999999998 + ], + "priority": 21, + "parents": [ + 131965 + ], + "children": [], + "area": 9788499.325474998, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 4 Marginal effect plots of changes in focal\nco-occurrence for the taxonomic dimension\nacross fire regimes in the study site" + }, + { + "id": 131964, + "strid": "a31236f6-2df2-4ab8-ba3e-da1b7b95236e", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4407.885, + 1955.492, + 1077.9830000000002, + 792.0490000000002 + ], + "priority": 22, + "parents": [ + 131951 + ], + "children": [ + 131962 + ], + "area": 8619583.85442, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131962, + "strid": "c237b6b9-d016-42b8-a589-d49e3cd44d54", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4473.573, + 2811.928, + 1009.6939999999995, + 274.59900000000016 + ], + "priority": 23, + "parents": [ + 131964 + ], + "children": [], + "area": 12579365.178744, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 5 Marginal effect plots for the changes of\nphylogenetic structure (phylogenetic dimension) and\nfunctional structure (functional dimension) of focal\nnonnatives species in recipient communities across\nfire regimes" + }, + { + "id": 131949, + "strid": "fbfc6338-4df3-4f2d-97ea-759ee3e36b4b", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 76.57, + 3471.289, + 671.587, + 90.875 + ], + "priority": 24, + "parents": [ + 131972 + ], + "children": [ + 131971 + ], + "area": 265796.59872999997, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 131971, + "strid": "07aefa05-d40f-46c9-b660-8172dab64b8d", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 777.54, + 3497.727, + 3214.945, + 53.48999999999978 + ], + "priority": 25, + "parents": [ + 131949 + ], + "children": [], + "area": 2719622.65158, + "iscrowd": 0, + "segmentation": [], + "text": "Funding: Grand Challenges in Biology Postdoctoral Program, College of Biological Sciences, University of Minnesota. To AK Schweiger for helping with poster design #helmus" + }, + { + "id": 131950, + "strid": "4829bfd7-e973-4e9e-ae20-70dfd79e1979", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3465.729, + 3104.961, + 381.37699999999995, + 77.16600000000017 + ], + "priority": 26, + "parents": [ + 131972 + ], + "children": [ + 131963 + ], + "area": 10760953.381568998, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 131963, + "strid": "f9551404-3af8-46d1-9f9d-1f85aad81a6a", + "image_id": 205623, + "image_name": "15444.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3500.798, + 3236.903, + 1763.5230000000001, + 149.19700000000012 + ], + "priority": 27, + "parents": [ + 131950 + ], + "children": [], + "area": 11331743.548593998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50777, + "strid": "b8381228-a81f-43c3-b5c2-0957113c25ef", + "image_id": 202496, + "image_name": "118776.png", 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Simionescu'?, Marius Harpa?, Radu Deac?, Horatiu Suciu?, Simona Gurzu?, Lucian Harceaga?, Husam Al Hussein?, Terezia Preda?, lonela Movileanu?, Loredana Harpa?,\nHamida Al Hussein?, Oana Moldovan?, Zoltan Pavai?, Imre Egyed?, Carmen Sircuta?, Dan Nistor?, Klara Branzaniuc?, Azamfirei Leonard?, Minodora Dobreanu?,\n\nAlina Scridon?, Olah Peter?, Nicoleta Suciu2, Ovidiu Cotoi?, Megan Casco’, Margarita Portilla’, Leslie N. Sierad?, Agneta Simionescu™\n'Biocompatibility and Tissue Regeneration Laboratories (BTRL) and ‘Cardiovascular Tissue Engineering and Regenerative Medicine Laboratory (CTERM), Department of Bioengineering, Clemson University, Clemson, South Carolina, USA;\nTissue Engineering and Regenerative Medicine Laboratory (TERMLab), Department of Anatomy, University of Medicine and Pharmacy, Targu Mures, Romania; *Aptus Bioreactors LLC, Clemson, SC" + }, + { + "id": 123298, + "strid": "991cac32-40e4-4d82-9051-263569f723c3", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 385.128, + 587.574, + 315.857, + 70.481 + ], + "priority": 3, + "parents": [ + 123315 + ], + "children": [ + 123314, + 123299 + ], + "area": 226291.19947199998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 123299, + "strid": "073e35ee-d1d6-4468-b3be-7ea2fa037351", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.25, + 681.548, + 1014.528, + 1124.425 + ], + "priority": 4, + "parents": [ + 123298 + ], + "children": [], + "area": 24706.115, + "iscrowd": 0, + "segmentation": [], + "text": "The aim of this study was to evaluate the regenerative\npotential of acellular valve scaffolds seeded with autologous\nadipose-derived stem cells (ASCs). Fully acellular porcine aortic\nand pulmonary root scaffolds were prepared by perfusion\ndecellularization and validated for matrix integrity and\nhemodynamics using previously published protocols. For in\nvitro testing, human ASCs were injected within the valve cusp\ninterstitium and roots tested in our pulsatile bioreactors in\nphysiologic conditions for up to 2 weeks. For in vivo studies,\nwe isolated autologous ASCs from juvenile sheep, validated\ntheir differentiation plasticity in vitro and then injected them\nwithin the valve scaffold cusps before implantation as valved\nconduits (n=6 per group) in the right ventricular outflow track\n(RVOT) of juvenile sheep, with follow-up of up to 6 months.\nUnseeded valves served as implanted controls. Acellular valve\nroots showed excellent preservation of the matrix fibers and\nsuitable hemodynamics. Non-ASC-seeded valves were free of\ninflammation, calcification or thrombosis. However, ASC-\nseeded valves exhibited limited cell viability in vitro and after\nin vivo implantation, pointing to their vulnerability to\nimmediate exposure to valve-specific mechanical forces.\nOngoing studies focus on gentle, progressive mechanical\nconditioning of ASC-seeded valves in bioreactors for improved\nviability before implantation." + }, + { + "id": 123314, + "strid": "2df89837-e6b9-4e76-bc0b-e2bd48a087c4", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 41.283, + 1814.505, + 1006.8459999999999, + 281.96399999999994 + ], + "priority": 5, + "parents": [ + 123298 + ], + "children": [], + "area": 74908.20991500001, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments: This work was supported by a grant from\n\n \n\nthe Competitiveness Operational Programme 2014-2020,\n“Tissue engineering technologies for cardiac valve\nregeneration, VALVE-REGEN”, ID P_37_673, MySMIS code:\n103431, contract 50/05.09.2016, the Dempsey Professorship\nAward, NIH grants 5P20GM103444-07 and R56HL130950-01." + }, + { + "id": 123313, + "strid": "889d4339-705a-41e5-8f8b-35a5b5610191", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 136.403, + 2161.365, + 814.019, + 79.61499999999978 + ], + "priority": 6, + "parents": [ + 123315 + ], + "children": [ + 123312 + ], + "area": 294816.67009499995, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 123312, + "strid": "5863b588-ebd0-4c8f-a8ea-b4be04adf710", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 42.165, + 2271.851, + 1005.7450000000001, + 653.165 + ], + "priority": 7, + "parents": [ + 123313 + ], + "children": [], + "area": 95792.597415, + "iscrowd": 0, + "segmentation": [], + "text": "Refer to Translational Scenario — to be read clockwise:\nJuvenile sheep were acclimated at the animal facility (1);\nadipose tissue was collected from each sheep (2) and adipose-\nderived stem cells (ASCs) were isolated using a collagenase\nprocedure and maintained in cell culture (3-4). ASCs were\ntested for plasticity by evaluation of their osteogenic (OS),\nchondrogenic (CH) and adipogenic potential (AD) using kits.\nPorcine valves were decellularized in a perfusion system (5),\nseeded internally by injection with ASCs and conditioned in\nbioreactors (6). Seeded valves were mounted in decellularized\npericardial conduits using sutures (7) and implanted as RV-PA\nshunts as autologous implants, i.e. in the same animal from\nwhich the ASCs were isolated (8). Animals were followed for 6\nmonths and explants analyzed by histopathology." + }, + { + "id": 123297, + "strid": "cfd9017c-2d70-4349-919f-b6c585ab1a47", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1609.401, + 579.743, + 809.2210000000002, + 86.14300000000003 + ], + "priority": 8, + "parents": [ + 123315 + ], + "children": [ + 123296 + ], + "area": 933038.9639430001, + "iscrowd": 0, + "segmentation": [], + "text": "Translational Scenario" + }, + { + "id": 123296, + "strid": "d2ad8a44-b87c-4a7e-b8e2-6bda6c363cb0", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1082.102, + 681.548, + 1861.209, + 1085.923 + ], + "priority": 9, + "parents": [ + 123297 + ], + "children": [], + "area": 737504.453896, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123300, + "strid": "f926ce17-9a03-4f4b-a3ad-c5db2126b389", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1729.479, + 1817.069, + 545.5719999999999, + 75.70100000000002 + ], + "priority": 10, + "parents": [ + 123315 + ], + "children": [ + 123306, + 123307, + 123309, + 123308 + ], + "area": 3142582.677051, + "iscrowd": 0, + "segmentation": [], + "text": "In vitro Results" + }, + { + "id": 123306, + "strid": "2378f035-f012-4111-84cb-c9d3205e4d42", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1083.174, + 1940.31, + 996.672, + 547.9099999999999 + ], + "priority": 11, + "parents": [ + 123300 + ], + "children": [], + "area": 2101693.34394, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123307, + "strid": "2acbff92-156e-405e-991c-44a8ba057628", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2096.79, + 1933.26, + 845.317, + 823.9159999999999 + ], + "priority": 12, + "parents": [ + 123300 + ], + "children": [], + "area": 4053640.2354, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123308, + "strid": "b7992d8d-c712-4a63-9065-dd840c13c519", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1086.384, + 2511.345, + 986.7669999999998, + 274.3290000000002 + ], + "priority": 13, + "parents": [ + 123300 + ], + "children": [], + "area": 2728285.02648, + "iscrowd": 0, + "segmentation": [], + "text": "(left) Pressurized perfusion for 16 days (D16) was required\nfor full decellularization of porcine aortic roots, as seen by\nDAPI staining and DNA electrophoresis (red bands). Imm,\nimmersion decell.\n\n(middle) Acellular valves exhibited excellent hemodynamics\nin the valve bioreactor as measured by video analysis" + }, + { + "id": 123309, + "strid": "8ec7ff40-e245-4e50-8c7b-3c59d46cfbbb", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1090.479, + 2793.863, + 1831.5919999999999, + 135.11799999999994 + ], + "priority": 14, + "parents": [ + 123300 + ], + "children": [], + "area": 3046648.930377, + "iscrowd": 0, + "segmentation": [], + "text": "(right) external (top) and internal (bottom) seeding of valve scaffolds with autologous adult stem cells yielded\npartial coverage as seen by Live/Dead stain and SEM and internal islands of adult stem cells. Internal seeding was\nmore efficient when performed with cells suspended in fibrin hydrogel scaffold (left panel, red on Trichome stain)." + }, + { + "id": 123304, + "strid": "ac0ec854-c759-479f-9c02-517916e97a86", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3187.676, + 578.078, + 531.2649999999999, + 75.43600000000004 + ], + "priority": 15, + "parents": [ + 123315 + ], + "children": [ + 123305, + 123303, + 123302, + 123301 + ], + "area": 1842725.3667279999, + "iscrowd": 0, + "segmentation": [], + "text": "In vivo Results" + }, + { + "id": 123305, + "strid": "4538bb76-bed4-4e09-8fc4-798cfb2ab70e", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2969.392, + 693.641, + 946.969, + 656.458 + ], + "priority": 16, + "parents": [ + 123304 + ], + "children": [], + "area": 2059692.0362719998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123303, + "strid": "7465510c-8fc4-4d1c-a89c-83de5de0e9c8", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2981.911, + 1362.297, + 939.2649999999999, + 280.88099999999986 + ], + "priority": 17, + "parents": [ + 123304 + ], + "children": [], + "area": 4062248.4095670003, + "iscrowd": 0, + "segmentation": [], + "text": "(A) Echocardiography showed good valve function in the\nfirst 5-7 weeks. (B) After 10 weeks we noted progressive\nautologous fibrous tissue overgrowth with full coverage\nand enclosure of the cusps. This was only in the ASC-\nseeded valves (B-C). Non-cell seeded valves revealed lack\nof fibrous overgrowth and perfectly intact leaflets (D)." + }, + { + "id": 123301, + "strid": "efb50eaf-a853-4485-9760-fbbed3b46eb0", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2977.417, + 1647.671, + 939.2649999999999, + 471.87900000000013 + ], + "priority": 18, + "parents": [ + 123304 + ], + "children": [], + "area": 4905803.645807, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123302, + "strid": "6032c4c5-5457-4c19-8a11-e9cd28b409c1", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2984.158, + 2128.539, + 932.5230000000001, + 231.4459999999999 + ], + "priority": 19, + "parents": [ + 123304 + ], + "children": [], + "area": 6351896.685162, + "iscrowd": 0, + "segmentation": [], + "text": "(A-D) Histology analysis of valves shows the fibrous tissue\novergrowth (Fib) covering the cusps from the base\ntowards the tip of the cusps. (E-H) complete lack of tissue\novergrowth in non-cell seeded valves. H&E stain, scale\nbars are shown in the lower right corner." + }, + { + "id": 123311, + "strid": "e98a87f7-4676-4f15-983f-dc341476886f", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3219.602, + 2430.82, + 457.2159999999999, + 76.42999999999984 + ], + "priority": 20, + "parents": [ + 123315 + ], + "children": [ + 123310 + ], + "area": 7826272.93364, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 123310, + "strid": "5d3605bb-932c-4080-b3f5-fc4da0ab4126", + "image_id": 205303, + "image_name": "14640.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2983.488, + 2545.465, + 940.3629999999998, + 376.6909999999998 + ], + "priority": 21, + "parents": [ + 123311 + ], + "children": [], + "area": 7594364.28192, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 183413, + "strid": "72be64cf-a326-41e3-b899-13def2246a01", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 47.2, + 287.93, + 366.08, + 112.63999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 183404, + 183402, + 183412, + 183401, + 183403, + 183400, + 183399 + ], + "area": 13590.296, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 183399, + "strid": "5de23aaf-99e9-4291-8c69-2692c91a40e8", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 578.014, + 185.775, + 2383.814, + 227.28899999999996 + ], + "priority": 1, + "parents": [ + 183413 + ], + "children": [], + "area": 107380.55085, + "iscrowd": 0, + "segmentation": [], + "text": "el\n\nSplenic Infarction, A Rare Complication Of Infectious\nMononucleosis In A Patient With No Significant Comorbidity:" + }, + { + "id": 183400, + "strid": "63f8ec87-178b-480e-9e56-c12f3e960411", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 171.856, + 534.663, + 2780.9620000000004, + 196.17100000000005 + ], + "priority": 2, + "parents": [ + 183413 + ], + "children": [], + "area": 91885.044528, + "iscrowd": 0, + "segmentation": [], + "text": "Dr Aadil Bashir Rather (MD), Dr Ajaz Nabi Koul (MD, FRCP), Dr Gh. Nabi Dhobi (MD), Dr Fayaz Ahmad Bhat (MD).\nDepartment of Medicine, Division of Infectious Disease, SKIMS,Kashmit, India." + }, + { + "id": 183412, + "strid": "5d118e6a-2580-4a7b-8c36-f713521e505e", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 83.54, + 17.59, + 1014.712, + 249.319 + ], + "priority": 3, + "parents": [ + 183413 + ], + "children": [], + "area": 1469.4686000000002, + "iscrowd": 0, + "segmentation": [], + "text": "» aD Hyderabad\n1 Enlenie Ii" + }, + { + "id": 183401, + "strid": "204b2d84-1b42-4b10-82f1-534077428014", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.596, + 816.892, + 466.722, + 86.99000000000001 + ], + "priority": 4, + "parents": [ + 183413 + ], + "children": [ + 183405 + ], + "area": 49500.387632, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183405, + "strid": "ee0a18f4-8984-4e31-95de-a46786fd267c", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.959, + 966.814, + 1651.822, + 822.5379999999999 + ], + "priority": 5, + "parents": [ + 183401 + ], + "children": [], + "area": 58936.014626000004, + "iscrowd": 0, + "segmentation": [], + "text": "We report a case of a 32-y-old male with no underlying\ncomorbities, diagnosed as infectious mononucleosis (EBV\nrelated) with splenomegaly. The illness was complicated by\nsplenic infarct in second week which was documented by\nabdominal CT scan. The common causes were excluded\nincluding extensive work up for hypercoagulable states. Thus\nimplying infectious mononucleosis may cause splenic\ninfarction in patients without other comorbidities, exact\netiology of which needs to be studied ." + }, + { + "id": 183402, + "strid": "46a6e8a3-f0cc-4a6d-ac74-41ca4a90f017", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.233, + 1848.568, + 684.274, + 83.96499999999992 + ], + "priority": 6, + "parents": [ + 183413 + ], + "children": [ + 183406 + ], + "area": 116890.500344, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183406, + "strid": "3c792eb8-c760-4b78-82cb-8021359bd706", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.676, + 1991.801, + 1651.102, + 1372.4969999999998 + ], + "priority": 7, + "parents": [ + 183402 + ], + "children": [], + "area": 124838.11947599999, + "iscrowd": 0, + "segmentation": [], + "text": "Infectious mononucleosis is commonly caused by an Epstein\nBarr virus (EBV) infection. The clinical syndrome usually\npresents with the classic triad of pharyngitis, fever, and\nlymphadenopathy. Hepatosplenomegaly is also common.\nRT-PCR and measurement of EBV-VL may provide useful tools\nfor the early diagnosis of infectious mononucleosis in cases\nwith inconclusive serological results. Antiviral agents may\nprovide a useful treatment option in patients with severe\ninfectious mononucleosis.Spontaneous splenic rupture is a\nrare but potentially fatal one.\n\nSplenic infarction represents a very rare complication of\ninfectious mononucleosis, encountered mostly in patients with\nunderlying comorbidities. This case report is about a patient of\nsplenic infarction in infectious mononucleosis in an otherwise\nhealthy individual." + }, + { + "id": 183403, + "strid": "5595d0cb-f4fd-48a4-a086-dfc79c95ab69", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.725, + 3417.278, + 617.053, + 85.47600000000011 + ], + "priority": 8, + "parents": [ + 183413 + ], + "children": [ + 183409, + 183408, + 183411, + 183407 + ], + "area": 217766.04055, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183407, + "strid": "a6c4d4f0-af99-429d-8d4b-cffb5c1bb992", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 59.27, + 3561.816, + 1688.862, + 1375.1590000000006 + ], + "priority": 9, + "parents": [ + 183403 + ], + "children": [], + "area": 211108.83432, + "iscrowd": 0, + "segmentation": [], + "text": "A32yr old male was admitted to our department due to high-\ngrade fever and upper respiratory tract Infection for 10 days\nCervical lymphadenopathy and hepatosplenomegaly was also\nfound during the physical examination and on abdominal\nultrasound. Routine laboratory results showed a white blood\ncell count of 13.10 x 10.3mm’ with 67% lymphocytes, including\n10% of atypical lymphocytes, and elevated levels of aspartate\naminotransferase, alanine aminotransferase (AST 234 IU/I and\nALT 334 IU/I, with a normal range of 10 — 44 IU/I), and lactate\ndehydrogenase (LDH 800 IU/I, with a normal range of 240 —\n480 IU/l). Serologic viral screening for hepatitis B and C viruses\n(HBV, HCV), human immunodeficiency virus (HIV),\ncytomegalovirus (CMV), and EBVdetected EBV viral capsid\nantigen immunoglobulin M (VCA-IgM) antibodies at high\ntiters. A monospot test was also positive. Cultures were sterile." + }, + { + "id": 183408, + "strid": "3d2a5bee-a484-4239-8f6d-329d197b13b8", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1830.606, + 820.579, + 1655.6429999999998, + 1463.046 + ], + "priority": 10, + "parents": [ + 183403 + ], + "children": [], + "area": 1502156.840874, + "iscrowd": 0, + "segmentation": [], + "text": "Bone marrow aspiration revealed normal erythroid\nmaturation with normal myelo/megakaryopoisis with\nsignificant atypical lymphocytes suggestive of viral insult.\n\nOn tenth day of illness patient complained of acute left\nupper quadrant pain. Ultrasound examination revealed a\nhypoechogenic area (5.1 x 3.2cm) in the enlarged spleen.\nAbdominal CT scan was carried out and showed a splenic\ninfarct (size 9.6 x 6.4cm) (Figurel). Other causes of splenic\ninfarction were excluded, based on the history,clinical\nexamination, peripheral blood smear, negative Coombs '\ntests, negative thrombophilic screen (activated protein C\nresistance, protein C and S levels, lupus anticoagulant,\nanticardiolipin, and anti- a 2 glycoprotein | antibodies),\ncardiac\nEchocardiography, vasculitic profile ANA, C- ANCA , P-ANCA\nand bone marrow aspiration and biopsy." + }, + { + "id": 183411, + "strid": "5f79ba0a-bfba-4e86-9b95-eceefeb13e94", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1842.811, + 2280.347, + 1636.802, + 1144.341 + ], + "priority": 11, + "parents": [ + 183403 + ], + "children": [], + "area": 4202248.535417, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 183409, + "strid": "5882a48c-74f5-4243-8526-64125368a3ff", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1834.524, + 3454.169, + 1644.458, + 532.3310000000001 + ], + "priority": 12, + "parents": [ + 183403 + ], + "children": [], + "area": 6336755.930555999, + "iscrowd": 0, + "segmentation": [], + "text": "The patient was managed symptomatically and regular\nmonitoring of CBC , LFT /LDH. The patient showed subjective\nimprovement with biochemical parameter improvement. On\nfollow up after one month CBC/LFT were normal with repeat\nUSG revealing 2.1 x 2.2 cm infarct with reduction in spleen\nsize." + }, + { + "id": 183404, + "strid": "13ac99b8-8170-4509-af18-6ba8853363e9", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1830.919, + 4078.391, + 421.0820000000001, + 86.4010000000003 + ], + "priority": 13, + "parents": [ + 183413 + ], + "children": [ + 183410 + ], + "area": 7467203.571329, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183410, + "strid": "ac84fefc-5b96-40c2-90f7-22f56d9399b0", + "image_id": 207656, + "image_name": "8554.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1828.505, + 4237.078, + 1654.989, + 443.9830000000002 + ], + "priority": 14, + "parents": [ + 183404 + ], + "children": [], + "area": 7747518.308390001, + "iscrowd": 0, + "segmentation": [], + "text": "Infectious mononucleosis is an uncommon cause of splenic\ninfarction, however it needs to be considered in differential\ndiagonosis of a suspected case of infectious mononucleosis\npatient with clinical and radiological possibility of splenic\ninfarct." + }, + { + "id": 17942, + "strid": "1d626c3f-f612-43ee-84fd-400316056e00", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 48.17, + 20.97, + 98.55, + 43.55 + ], + "priority": -1, + "parents": [], + "children": [ + 17925, + 17926, + 17924, + 17927, + 17923 + ], + "area": 1010.1249, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17923, + "strid": "4077fe7d-9ffe-4a14-86cb-08642752c45a", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 218.666, + 34.566, + 927.9590000000001, + 170.306 + ], + "priority": 1, + "parents": [ + 17942 + ], + "children": [], + "area": 7558.408956, + "iscrowd": 0, + "segmentation": [], + "text": "IL-1 receptor antagonist (Anakinra) successful\ntreatment for malignancy associated hemophagocytie\nsyndrome (MAHS) in the immediate pre transplant\nperiod in a childwith JMML" + }, + { + "id": 17924, + "strid": "8b00885c-261b-40be-8a75-6935b16ae5bb", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 201.171, + 229.917, + 955.8499999999999, + 127.01000000000002 + ], + "priority": 2, + "parents": [ + 17942 + ], + "children": [], + "area": 46252.632807, + "iscrowd": 0, + "segmentation": [], + "text": "L.M.Ball} C.L. Vermont, P.C.E,. Hissink Muller, R.G.M.:Bredius,\nW.J.WKollen, D Bresters, F.J>Smiers, R ten Cate, AC Lankester.\n\nDepartnient of Pediatric Stem Cell Transplantation, Leiden University Medical Centre, Leiden, The Netherlands." + }, + { + "id": 17925, + "strid": "d1418e76-519d-460f-a011-6b689e60e078", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 16.459, + 406.029, + 162.782, + 23.896000000000015 + ], + "priority": 3, + "parents": [ + 17942 + ], + "children": [ + 17928 + ], + "area": 6682.831311, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 17928, + "strid": "f1895977-5760-4061-a88c-213b0219d76e", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.797, + 435.337, + 437.189, + 245.65300000000002 + ], + "priority": 4, + "parents": [ + 17925 + ], + "children": [], + "area": 6441.681589, + "iscrowd": 0, + "segmentation": [], + "text": "Malignancy asscclated (pprophagocytosis (MAHS)inpalts the:\ntreatment of the underlying malignancy and is associated with a high\nfatality rate retard withthe histiocytic disorders namefp)\nacquired hemophagocytic Iymphohistiocytosis (HLH) (see figure 2)\nImmune dysregulation in cytotoxic T and natural killer cell Rea\nresul ation and proliferation of histiocytes with rolled\nhemiophagocytosis (see figure 4) and hypereytokiner a syndrome\neredltizelby eter Repetoeplensenseganetion Ion\ndysfunction, and hyperferritinemia (see figure\nTreatmentis aimed at controlling the MAHS as well as addressing the\nunderlying malignancy. 2\nMAHS has been described as a corhgliSstion of JMML.12" + }, + { + "id": 17926, + "strid": "8b9ef628-3eea-4eba-91b6-0f7a1725744d", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 20.986, + 727.266, + 157.818, + 30.248000000000047 + ], + "priority": 5, + "parents": [ + 17942 + ], + "children": [ + 17929, + 17934, + 17932, + 17936, + 17933, + 17935 + ], + "area": 15262.404276, + "iscrowd": 0, + "segmentation": [], + "text": "Case report" + }, + { + "id": 17929, + "strid": "05b0f5d2-bb9a-4080-aac0-2ef67f2a4e2b", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.409, + 768.714, + 419.789, + 536.4700000000001 + ], + "priority": 6, + "parents": [ + 17926 + ], + "children": [], + "area": 19532.254026000002, + "iscrowd": 0, + "segmentation": [], + "text": "A'S month old boy with JMML (IKRAS mutation) was refereed for\n10/10 pee donor stem cell transplantation.\n\nTwo months after diagnosis he developed acute MAHS, requi\nadmission to the intensive care unit. He was stabilized wit\nmes ILH 2004 regimen (see fig) of weekly opote high\ndos\n\ndose steroids and 6MP.\nOn admission to our unit he was severely neut jc but without\nclinical or laboratory signs of MAHS. Despite continuing MAHS\ndirected treatment, he developed a wc of symptoms\nduring the second day of ATG infusion. He was severely unwell with\nsigns of raised intracranial pres: yaar by bulging\nfontanel and persistent few evident infection.\nLaboratory parameters were CRP >100, ferritine >2000 ugll, and\ndocumented severe thrombocytopenia with a normal fibrinogen. MRI\n\nof the brain revealed no acute intracranial bleed.\nIL 4 receptor antagonist Anakinra was administered at a dose of Q\n\n \n\n3mg/kg/d for 2 consecutive days with dramatic improvement in al\nparameters within 72 hours. oo\n\nHe pr led with standard conditioning (Busulphan,\n\\osphamide, Melphalan, ATG) with Cyclosporine-A an short\n.e Methotrexate for GVHD prophylaxis. His ppm\nperiod was relatively uncomplicated with grad oie no VOD\nor acute GVHD. At day + 20 hamattota@ aftment was\n\n \n \n\ndocumented\nHe remains clinically well with stable laboratory parameters and full\ndonor chimerism engraftment." + }, + { + "id": 17932, + "strid": "437a2f4b-ffb3-48e5-be2b-6794d3f08711", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 8.649, + 1317.337, + 447.078, + 234.1020000000001 + ], + "priority": 7, + "parents": [ + 17926 + ], + "children": [ + 17937 + ], + "area": 11393.647712999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17937, + "strid": "06bc4d20-852c-49bf-874a-007377984974", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 19.235, + 1558.486, + 113.373, + 10.178000000000111 + ], + "priority": 8, + "parents": [ + 17932 + ], + "children": [], + "area": 29977.47821, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1: HLH-2004 protocol" + }, + { + "id": 17933, + "strid": "5d82cc22-0181-4cb3-97a5-00472bb372db", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 494.617, + 396.604, + 295.886, + 324.787 + ], + "priority": 9, + "parents": [ + 17926 + ], + "children": [ + 17940 + ], + "area": 196167.080668, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17940, + "strid": "60db3d91-9216-439c-bce6-e5aecc27226e", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 491.485, + 738.491, + 69.22500000000002, + 26.49000000000001 + ], + "priority": 10, + "parents": [ + 17933 + ], + "children": [], + "area": 362957.249135, + "iscrowd": 0, + "segmentation": [], + "text": "igure 2:\nCauses of HLH" + }, + { + "id": 17934, + "strid": "16dbe9c8-5f8f-4047-912b-d50f26883987", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 813.211, + 399.356, + 341.98900000000003, + 324.78700000000003 + ], + "priority": 11, + "parents": [ + 17926 + ], + "children": [ + 17939 + ], + "area": 324760.692116, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17939, + "strid": "6f824455-6334-4aa7-828a-49702861469d", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 828.723, + 737.772, + 239.34500000000003, + 28.982999999999947 + ], + "priority": 12, + "parents": [ + 17934 + ], + "children": [], + "area": 611408.625156, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3:\n\nClinical findings at diagnosis of hemophagocytosis" + }, + { + "id": 17935, + "strid": "66d0240b-3c7b-467b-ad29-85252f38992f", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 860.522, + 802.84, + 95.14099999999996, + 87.769 + ], + "priority": 13, + "parents": [ + 17926 + ], + "children": [ + 17941 + ], + "area": 690861.4824800001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17941, + "strid": "2e28e76d-dec0-45e7-a47b-d5e1d82f9633", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 491.001, + 809.734, + 304.05099999999993, + 75.524 + ], + "priority": 14, + "parents": [ + 17935 + ], + "children": [], + "area": 397580.203734, + "iscrowd": 0, + "segmentation": [], + "text": "ure 4: Bone marrow and hemaph\n\n \n \n\nPhagecyiosis by macrophages of enthe\n\nond their precursors in bone marrow and aher cue. Non-specific\nphenomenon found in several cond as hemolytic anemia,\nfophagc\n\nmalignant disease, infections, and | jocytic syndrome." + }, + { + "id": 17936, + "strid": "cb05e616-5ce8-4637-be31-e4d178f84b6f", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 474.105, + 945.142, + 354.586, + 220.5920000000001 + ], + "priority": 15, + "parents": [ + 17926 + ], + "children": [ + 17938 + ], + "area": 448096.54791, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17938, + "strid": "3a649f6e-c58d-4005-b9c2-9f0006cefac9", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 837.138, + 952.341, + 319.7499999999999, + 208.49200000000008 + ], + "priority": 16, + "parents": [ + 17936 + ], + "children": [], + "area": 797240.8400580001, + "iscrowd": 0, + "segmentation": [], + "text": "representation ofthe structure and function of Ankinra\n\n \n\n \n\ninra is an interleukin-1(IL-1) receptor antagonist Anakinra block :\nng yo ny igi corey ig\ntng as pn en, wich sein\ncet\n11s pod haere bry srl 24a\nie eg eee inc meee Fae\naap\nener oe\nny a ates pe pay rr ts\nmbna Re al fag\n\nmethionine residue at its amin therton," + }, + { + "id": 17927, + "strid": "4dfe89bb-7be8-45c8-bc02-3e744481c386", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 476.762, + 1209.354, + 152.29300000000006, + 25.1579999999999 + ], + "priority": 17, + "parents": [ + 17942 + ], + "children": [ + 17931, + 17930 + ], + "area": 576574.0317480001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 17930, + "strid": "a93f4be3-1443-4f55-928b-d7deca189557", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 479.383, + 1258.438, + 414.37600000000003, + 250.827 + ], + "priority": 18, + "parents": [ + 17927 + ], + "children": [], + "area": 603273.783754, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17931, + "strid": "187155ad-57bf-4a95-8df5-5d794071fb60", + "image_id": 201207, + "image_name": "116760.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 914.447, + 1320.971, + 219.572, + 181.70100000000002 + ], + "priority": 19, + "parents": [ + 17927 + ], + "children": [], + "area": 1207957.968037, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139222, + "strid": "a552f189-7e50-4849-a31b-f902fdc100df", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2906.55, + 99.7, + 274.5799999999999, + 217.10000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 139210, + 139214, + 139213, + 139209, + 139211, + 139212 + ], + "area": 289783.03500000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139209, + "strid": "db2c083f-76a3-440c-8932-621c3cc30419", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 97.888, + 117.455, + 2113.266, + 347.18 + ], + "priority": 1, + "parents": [ + 139222 + ], + "children": [], + "area": 11497.43504, + "iscrowd": 0, + "segmentation": [], + "text": "eDGAR and PhenPath resour e\njoin the eee eta it" + }, + { + "id": 139210, + "strid": "7bd58058-f7c8-4388-bd51-1d864b1f4b2b", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 125.661, + 502.372, + 1833.669, + 207.37899999999996 + ], + "priority": 2, + "parents": [ + 139222 + ], + "children": [], + "area": 63128.567892, + "iscrowd": 0, + "segmentation": [], + "text": "Giulia Babbi*, Leyla Garcia”, Alasdair Gray?, Pier Luigi Martelli*, Rita Casadio”*\n\n*Biocomputing Group (FaBiT), University of Bologna, Italy 3 Heriot-Watt University, Edinburgh, UK\n*ZB MED Information Centre for Life Sciences, Germany + IBIOM (CNR), Bari, Italy" + }, + { + "id": 139211, + "strid": "65d511e9-a12d-47a9-b14a-20f62c00a782", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.154, + 793.951, + 3069.108, + 350.82899999999995 + ], + "priority": 3, + "parents": [ + 139222 + ], + "children": [], + "area": 78723.417454, + "iscrowd": 0, + "segmentation": [], + "text": "Modern sequencing technologies allow dissecting the genetic component of phenotypic traits, particularly in relation to diseases.\nThe number of known associations between genes and diseases or phenotypes is increasing; however, the information is still\nsparse among different resources. To support this type of research, we recently developed eDGAR (edgar.biocomp.unibo.it) and\nPhenPath (phenpath.biocomp.unibo.it). To make resources fully exploitable, we marked them up with Bioschemas markup; an\nextension of the Schema.org vocabulary for the life sciences." + }, + { + "id": 139212, + "strid": "4ed4278c-7b16-40ce-8848-7cb3c6c859a1", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.122, + 1219.858, + 261.73, + 69.98700000000008 + ], + "priority": 4, + "parents": [ + 139222 + ], + "children": [ + 139220, + 139215 + ], + "area": 129453.770676, + "iscrowd": 0, + "segmentation": [], + "text": "eDGAR" + }, + { + "id": 139215, + "strid": "77438f52-b91d-4026-93cf-be2487f36d82", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.948, + 1324.277, + 1357.615, + 960.6959999999999 + ], + "priority": 5, + "parents": [ + 139212 + ], + "children": [], + "area": 135007.391596, + "iscrowd": 0, + "segmentation": [], + "text": "eDGAR is a database collecting and organizing data on\ngene/disease associations as derived from OMIM,\nHumsavar and ClinVar. eDGAR lists 2672 diseases\nrelated to 3658 different genes, for a total of 5729\ngene-disease associations. eDGAR provides analysis on\nthe sets of genes involved in the same disease, in terms\nof physical, functional, and regulatory interactions, as\nderived from PDB, BIOGRID, STRING, CORUM, and\nTRRUST. Moreover, eDGAR exploits the network-based\nenrichment algorithm NET-GE\n(net-ge.biocomp.unibo.it/enrich) to provide a functional\ncharacterization of these gene sets in terms of Gene\nOntology terms and Pathways from KEGG and\nReactome." + }, + { + "id": 139220, + "strid": "8f5655ae-a34e-4fe8-9c5d-6485c1ca1992", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1647.903, + 1145.995, + 1573.485, + 946.201 + ], + "priority": 6, + "parents": [ + 139212 + ], + "children": [], + "area": 1888488.5984849997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139213, + "strid": "27af70f8-93e8-477b-95dd-ba0cb5fde751", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 110.572, + 2365.138, + 340.838, + 69.32299999999987 + ], + "priority": 7, + "parents": [ + 139222 + ], + "children": [ + 139217, + 139221 + ], + "area": 261518.038936, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 139217, + "strid": "4aebdcf5-263b-4ee5-bfef-f0ac5cc62816", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 105.594, + 2468.713, + 1359.712, + 542.3679999999999 + ], + "priority": 8, + "parents": [ + 139213 + ], + "children": [], + "area": 260681.28052200002, + "iscrowd": 0, + "segmentation": [], + "text": "PhenPath extends the analysis to phenotypes associated\nwith different diseases following the Human Phenotype\nOntology and of the OMIM Clinical Synopsys. With our\nresource, researchers and physicians can easily\nassociate genes to more than 7,137 phenotypes to\n6,838 biological pathways/processes for a deeper\nunderstanding of molecular mechanisms and possible\ncures." + }, + { + "id": 139221, + "strid": "831a5771-870d-41d2-9d04-4fa21f9702aa", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 126.339, + 3069.329, + 1594.204, + 1016.5949999999998 + ], + "priority": 9, + "parents": [ + 139213 + ], + "children": [], + "area": 387775.95653100003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139214, + "strid": "bdbd65ae-2e2c-4b0c-8475-1b953df90f77", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1807.299, + 2203.854, + 642.3409999999999, + 71.48300000000017 + ], + "priority": 10, + "parents": [ + 139222 + ], + "children": [ + 139218, + 139219, + 139216 + ], + "area": 3983023.1303459997, + "iscrowd": 0, + "segmentation": [], + "text": "Bioschemas markup" + }, + { + "id": 139216, + "strid": "f751c103-b636-4df0-ac3e-3bb4600ddcc1", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1803.066, + 2297.958, + 1351.72, + 561.7739999999999 + ], + "priority": 11, + "parents": [ + 139214 + ], + "children": [], + "area": 4143369.939228, + "iscrowd": 0, + "segmentation": [], + "text": "The inclusion of Bioschemas markup enables data\ninteroperability and findability, allowing search engines\nand other resources to index and retrieve relevant\ninformation, improving the FAIRness of the data and\nanalyses they provide\n\nBoth resources have been endowed with Bioschemas\n\nmarkup conforming with profiles for different entities. In\nparticular:" + }, + { + "id": 139219, + "strid": "0f34f561-1798-4852-be0c-40df11432422", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1796.021, + 2884.236, + 1296.47, + 280.80200000000013 + ], + "priority": 12, + "parents": [ + 139214 + ], + "children": [], + "area": 5180148.4249559995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139218, + "strid": "3406f945-cbed-4406-8d66-44676a2bbf77", + "image_id": 205905, + "image_name": "16560.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1798.662, + 3264.661, + 1356.334, + 768.1700000000001 + ], + "priority": 13, + "parents": [ + 139214 + ], + "children": [], + "area": 5872021.683582, + "iscrowd": 0, + "segmentation": [], + "text": "The latest versions of the Bioschemas profiles have been\nadopted; in particular, this work represents the first\nadoption of the Phenotype profile. The profile for\nPhenotype was developed in a preliminary draft form in\n2018, and its further developments are now a topic for\nthe Bioschemas community, particularly in relation to\nthe Schema.org type MedicalSignOrSymptom.\n\nThis implementation provides a test for the efficacy and\nthe completeness of the current profile and will help the\ndefinition of the requirements for its improvement,\nfollowing the community needs and suggestions." + }, + { + "id": 12269, + "strid": "d5cf0a73-465f-4151-908f-27202f6f8723", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 120.07, + 461.77, + 308.42, + 227.97000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 12270, + 12277, + 12272, + 12289, + 12295, + 12285, + 12293, + 12281, + 12271, + 12291 + ], + "area": 55444.7239, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 12270, + "strid": "0bfa83cd-4915-472a-9f74-dee9b9097345", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 459.13, + 51.495, + 2221.305, + 273.573 + ], + "priority": 1, + "parents": [ + 12269 + ], + "children": [], + "area": 23642.89935, + "iscrowd": 0, + "segmentation": [], + "text": "Niosome, a novel drug delivery system, for improving\n\ntherapeutic efficacy of curcumin (review)" + }, + { + "id": 12271, + "strid": "6741363e-7064-4b99-84d5-a45bcff32230", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 526.182, + 424.756, + 2093.768, + 199.19899999999996 + ], + "priority": 2, + "parents": [ + 12269 + ], + "children": [], + "area": 223498.96159199998, + "iscrowd": 0, + "segmentation": [], + "text": "Zaynab Sadeghi Ghadi* !, Pedram Ebrahimnejad !\n\n' Pharmacy school, Mazandaran University of Medical Sciences, Sari, Iran." + }, + { + "id": 12272, + "strid": "7015082d-8f1a-48b5-8365-b4220c3cf527", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 70.664, + 774.397, + 284.451, + 50.870000000000005 + ], + "priority": 3, + "parents": [ + 12269 + ], + "children": [ + 12274 + ], + "area": 54721.989608, + "iscrowd": 0, + "segmentation": [], + "text": "1. Objective:" + }, + { + "id": 12274, + "strid": "9e0c49e2-b407-49c1-b31e-1cbe31f6b77d", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.336, + 860.319, + 874.173, + 140.22000000000003 + ], + "priority": 4, + "parents": [ + 12272 + ], + "children": [], + "area": 57070.121183999996, + "iscrowd": 0, + "segmentation": [], + "text": "Review trials that studied niosome as a\n\ncarrier to improve delivery of curcumin." + }, + { + "id": 12277, + "strid": "d4af5215-62af-4f85-bd56-e27e3c0396b8", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 40.736, + 1232.697, + 750.08, + 51.64200000000005 + ], + "priority": 5, + "parents": [ + 12269 + ], + "children": [ + 12278 + ], + "area": 50215.144991999994, + "iscrowd": 0, + "segmentation": [], + "text": "2. Introduction and Background:" + }, + { + "id": 12278, + "strid": "d4a32d82-8728-4ffe-bcf6-3c0d9ac44cf0", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 39.849, + 1407.209, + 1008.728, + 926.941 + ], + "priority": 6, + "parents": [ + 12277 + ], + "children": [], + "area": 56075.871440999996, + "iscrowd": 0, + "segmentation": [], + "text": "Curcumin is a natural hydrophobic compound\nthat is known as a health promoting agent and\nhas outstanding benefits in the prevention and\ntreatment of wide variety of human diseases\n(1). On the other hand its poor water solubility\nand instability caused some troubles including\npoor bioavailability and insufficient clinical\nefficacies (2). To overcome these deficiencies\nmany novel delivery systems were used. One\nof these promising approaches is\n\nencapsulating curcumin in noisome (3)." + }, + { + "id": 12281, + "strid": "288e8714-8da6-4d86-acfc-fed3376dd127", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 65.389, + 2623.676, + 271.495, + 42.759000000000015 + ], + "priority": 7, + "parents": [ + 12269 + ], + "children": [ + 12282 + ], + "area": 171559.54996399998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 12282, + "strid": "03dd656e-3c95-471c-973d-4d1ecc50e8e0", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.519, + 2798.398, + 999.81, + 393.5830000000001 + ], + "priority": 8, + "parents": [ + 12281 + ], + "children": [], + "area": 183348.238562, + "iscrowd": 0, + "segmentation": [], + "text": "The following databases were searched:\nMedline and Embase (2010 to December\n2016). Additionally, references lists in review\narticles, guidelines, and in the retrieved trials\n\nwere checked." + }, + { + "id": 12285, + "strid": "cb21ec66-8509-4fdc-827f-06ee9a8b187d", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.47, + 3523.592, + 245.15, + 42.58699999999999 + ], + "priority": 9, + "parents": [ + 12269 + ], + "children": [ + 12287, + 12286, + 12283 + ], + "area": 170788.50424, + "iscrowd": 0, + "segmentation": [], + "text": "4. Results:" + }, + { + "id": 12286, + "strid": "b49aa5a7-cbd2-468f-93db-344bf279cb4f", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.709, + 3611.669, + 1019.4579999999999, + 1004.54 + ], + "priority": 10, + "parents": [ + 12285 + ], + "children": [], + "area": 165085.77832100002, + "iscrowd": 0, + "segmentation": [], + "text": "Nine trials were included in this review. One of\nthem was a comparative study that used\ntween 20 to prepare niosomes and micelles\nfrom curcumin, its evidences showed that\nniosomes suppress curcumin degradation\nbetter than micelles. (reference 4 - figure 1,2).\nTwo trials showed that skin permeation and\nhalf-life of the curcumin enhanced when\nformulated in niosome system, this conclusion\nsupported by three similar trials that co-\nencapsulated curcumin with other antioxidants\n\nin niosomes and solutions." + }, + { + "id": 12283, + "strid": "785d09e4-afde-484e-b8e1-b1f6d888e38f", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1216.996, + 2949.983, + 748.002, + 547.0129999999999 + ], + "priority": 11, + "parents": [ + 12285 + ], + "children": [ + 12284 + ], + "area": 3590117.5110680005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 12284, + "strid": "4b880395-ebc7-478a-8f9d-9c44aa0e948e", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1224.914, + 3511.728, + 729.6099999999999, + 133.66499999999996 + ], + "priority": 12, + "parents": [ + 12283 + ], + "children": [], + "area": 4301564.791392, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.1.Fluorescence decays of curcumin in\nTween-20 micelles and TW-20/cholesterol\nniosomes (reference 4)." + }, + { + "id": 12287, + "strid": "82d45eb4-8dcd-428f-a72e-874ada8647a9", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1214.803, + 4011.157, + 702.1789999999999, + 490.91299999999956 + ], + "priority": 13, + "parents": [ + 12285 + ], + "children": [ + 12288 + ], + "area": 4872765.557071, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 12288, + "strid": "34cfc32a-a013-471a-a529-b9e9f1677769", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1227.155, + 4512.734, + 688.4280000000001, + 173.3109999999997 + ], + "priority": 14, + "parents": [ + 12287 + ], + "children": [], + "area": 5537824.091770001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Arrhenius plots of In(knr) of\ncurcumin in TW-20 micelles\nand niosomes versus 1/T(reference 4)." + }, + { + "id": 12289, + "strid": "661d3d0d-080e-42dd-adde-d7593404dd78", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2042.735, + 914.082, + 244.57399999999984, + 39.22199999999998 + ], + "priority": 15, + "parents": [ + 12269 + ], + "children": [ + 12290, + 12279, + 12275 + ], + "area": 1867227.29427, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 12290, + "strid": "fafe09e6-87b5-43bc-a8b3-b0d18730a467", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2041.447, + 1086.44, + 1008.6409999999998, + 577.1089999999999 + ], + "priority": 16, + "parents": [ + 12289 + ], + "children": [], + "area": 2217909.67868, + "iscrowd": 0, + "segmentation": [], + "text": "the anti-aging property of curcumin was\nstudied by preparing niosomes and liposomes,\naccording to this trial, niosomes of curcumin\nhad better efficacy (reference 5 - figure 3).\n\nIN the field of the cancer therapy, two trials\nsupported delivery enhancement of curcumin\n\nby preparing noisomes(reference 6,7-figure 4)." + }, + { + "id": 12275, + "strid": "2f46cbf5-f518-4ea3-af85-83750e45c927", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1069.988, + 779.965, + 877.0510000000002, + 714.275 + ], + "priority": 17, + "parents": [ + 12289 + ], + "children": [ + 12276 + ], + "area": 834553.1904200001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 12276, + "strid": "52fba562-0e81-4925-a553-f2d612b2421e", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1124.876, + 1503.446, + 760.021, + 184.125 + ], + "priority": 18, + "parents": [ + 12275 + ], + "children": [], + "area": 1691190.3226959999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. Photomicrograph of mice skin\nexposed to UV and treated with gel\ncontaining niosomes (A), liposomes (B),\ncurcumin (C) (reference 5)." + }, + { + "id": 12279, + "strid": "69c9c0e9-e60c-4a52-b0ab-61a0a7efd99e", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1134.023, + 1930.984, + 780.617, + 462.11400000000003 + ], + "priority": 19, + "parents": [ + 12289 + ], + "children": [ + 12280 + ], + "area": 2189780.268632, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 12280, + "strid": "3af4990d-4ebc-402f-9f03-438d768fccf7", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1151.115, + 2417.415, + 762.769, + 229.23799999999983 + ], + "priority": 20, + "parents": [ + 12279 + ], + "children": [], + "area": 2782722.667725, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. Microscopy of DMBA treated mice\nskin showing tumor cells with keratinous\npearl (left), niosome treated mice skin\nshowing intact epithelial layer with\nhyperkeratosis (right)(reference 6)." + }, + { + "id": 12291, + "strid": "f0260bcb-0da9-463d-b8eb-9573f9a08578", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2043.029, + 1989.034, + 732.7440000000001, + 44.565000000000055 + ], + "priority": 21, + "parents": [ + 12269 + ], + "children": [ + 12292 + ], + "area": 4063654.143986, + "iscrowd": 0, + "segmentation": [], + "text": "5. Discussion and Conclusions:" + }, + { + "id": 12292, + "strid": "63c4912a-26fe-4df6-891f-965c4ac72a28", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2040.432, + 2162.928, + 1011.3410000000001, + 577.6199999999999 + ], + "priority": 22, + "parents": [ + 12291 + ], + "children": [], + "area": 4413307.504896, + "iscrowd": 0, + "segmentation": [], + "text": "Niosome seems to be a potential delivery\nsystem to improve water solubility of\ncurcumin, half-life and clinical efficacy. This\ndelivery system also seems to suppress the\nlevel of degradation of curcumin. Noisome\ncan also promote skin permeation of the\n\ncurcumin and enhanced its bioavailability." + }, + { + "id": 12293, + "strid": "0a7d7207-5b58-42e9-80de-4f77c3b9e31c", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2071.769, + 2880.255, + 314.99800000000005, + 49.5920000000001 + ], + "priority": 23, + "parents": [ + 12269 + ], + "children": [ + 12294 + ], + "area": 5967223.021094999, + "iscrowd": 0, + "segmentation": [], + "text": "6. Key words:" + }, + { + "id": 12294, + "strid": "e0caa7a7-5d5e-4097-9b1b-ab392d5edbd3", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2072.138, + 3015.105, + 941.8490000000002, + 138.19000000000005 + ], + "priority": 24, + "parents": [ + 12293 + ], + "children": [], + "area": 6247713.64449, + "iscrowd": 0, + "segmentation": [], + "text": "Noisome, Curcumin, Anti-aging property,\n\nSkin permeation." + }, + { + "id": 12295, + "strid": "7afc8957-1a91-489e-9877-b0b85c21c3cc", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2009.222, + 3255.608, + 334.99, + 42.57400000000007 + ], + "priority": 25, + "parents": [ + 12269 + ], + "children": [ + 12273 + ], + "area": 6541239.216976, + "iscrowd": 0, + "segmentation": [], + "text": "7. References:" + }, + { + "id": 12273, + "strid": "c44e665a-c3ab-41eb-b9e6-5e9d86c0f952", + "image_id": 200996, + "image_name": "11430.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2009.213, + 3333.63, + 1102.4000000000003, + 1233.2510000000002 + ], + "priority": 26, + "parents": [ + 12295 + ], + "children": [], + "area": 6697972.73319, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31301, + "strid": "99d2e0a7-a409-400b-a359-20ecd8708a46", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 243.63, + 180.63, + 150.09000000000003, + 155.10000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 31266, + 31263, + 31265, + 31262, + 31267, + 31264, + 31260, + 31259, + 31261, + 31258 + ], + "area": 44006.8869, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31258, + "strid": "e4c01cff-d029-48ce-9c09-02d7e9eec9f0", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 491.265, + 227.292, + 3822.2820000000006, + 230.81300000000002 + ], + "priority": 1, + "parents": [ + 31301 + ], + "children": [], + "area": 111660.60438, + "iscrowd": 0, + "segmentation": [], + "text": "Crack Cocaine‘Use is Associated with Decreased White Matter Integrity\nin Women with HIV" + }, + { + "id": 31259, + "strid": "455a6534-5ddc-45e2-96b9-e0b3aa65fb46", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 302.117, + 486.449, + 4202.051, + 198.92799999999994 + ], + "priority": 2, + "parents": [ + 31301 + ], + "children": [], + "area": 146964.512533, + "iscrowd": 0, + "segmentation": [], + "text": "Vanessa Grauzas', Deborah Little, Leah Rubin’, Rhoda Jamadar,, Lillian Soong’, Erin Sundermann!, Kathleen Weber’, Mardge Cohen®;- Pauline M. Maki!\n\n1) University of Illinois at Chicagov2) Center of Excellence for Research on Returning-War Veterans, Waco TX; 3) Texas A&M Health Science Center College of Medicine, 4) CORE Center.at Stroger Hospital; 5)\nRush University and Stroger Hospital" + }, + { + "id": 31260, + "strid": "51ba2fba-eda2-47c4-be75-64800deb98ae", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 404.253, + 814.283, + 438.396, + 63.624000000000024 + ], + "priority": 3, + "parents": [ + 31301 + ], + "children": [ + 31272 + ], + "area": 329176.345599, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31272, + "strid": "e8eda8b2-a22d-455d-b7c3-6705ad8a23ca", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 128.012, + 947.678, + 979.588, + 344.898 + ], + "priority": 4, + "parents": [ + 31260 + ], + "children": [], + "area": 121314.156136, + "iscrowd": 0, + 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"segmentation": [], + "text": "" + }, + { + "id": 31288, + "strid": "052cda7b-4dfc-45af-b753-b0f3ac4242b8", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2267.213, + 1101.081, + 1323.3399999999997, + 589.539 + ], + "priority": 25, + "parents": [ + 31262 + ], + "children": [ + 31293 + ], + "area": 2496385.157253, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31293, + "strid": "9804ac72-9304-4e28-8e47-d1fe4e4ed5f5", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2262.042, + 1702.729, + 941.9940000000001, + 33.664999999999964 + ], + "priority": 26, + "parents": [ + 31288 + ], + "children": [], + "area": 3851644.512618, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Main effect of hemisphere on FA in the cingulum (p < 0.001)" + }, + { + "id": 31269, + "strid": "675809d2-f177-4828-860e-7c520701bcf3", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2599.472, + 1843.561, + 680.1259999999997, + 43.878999999999905 + ], + "priority": 27, + "parents": [ + 31262 + ], + "children": [], + "area": 4792285.199792, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31289, + "strid": "9e7ee89f-0705-45c6-bfe6-691cda7e7746", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2270.527, + 1958.56, + 1321.109, + 606.9569999999999 + ], + "priority": 28, + "parents": [ + 31262 + ], + "children": [ + 31294 + ], + "area": 4446963.36112, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31294, + "strid": "04e5b2ed-9908-4a91-aefd-80c6063f0a8b", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2280.018, + 2599.909, + 1302.6080000000002, + 70.30000000000018 + ], + "priority": 29, + "parents": [ + 31289 + ], + "children": [], + "area": 5927839.318362, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Main effect of hemisphere (p < 0.05) and ‘group x hemisphere interaction (p < 0.05) on\nLD in the R uncinate; Main effect of hemisphere*on bD in the cingulum (p < 0.001)" + }, + { + "id": 31270, + "strid": "152a273d-a50c-47e6-9fcf-e8eb1789c7fc", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2689.764, + 2796.886, + 495.8600000000001, + 41.70600000000013 + ], + "priority": 30, + "parents": [ + 31262 + ], + "children": [], + "area": 7522963.274904001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31290, + "strid": "ab2d5354-605e-4b01-b606-040bf7b827ee", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2277.594, + 2896.572, + 1317.8869999999997, + 587.8530000000001 + ], + "priority": 31, + "parents": [ + 31262 + ], + "children": [ + 31295 + ], + "area": 6597215.0077680005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31295, + "strid": "7692c050-2cc7-49ed-adbc-c3eecac3fc44", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2283.226, + 3493.365, + 957.6150000000002, + 33.552999999999884 + ], + "priority": 32, + "parents": [ + 31290 + ], + "children": [], + "area": 7976141.795489999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Main effect of hemisphere on RD in the cingulum\\(p= 0.001)" + }, + { + "id": 31263, + "strid": "a80bd0fb-2b67-43c7-8d06-27f8f2fd6adc", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4034.378, + 813.223, + 273.9090000000001, + 65.73800000000006 + ], + "priority": 33, + "parents": [ + 31301 + ], + "children": [ + 31292, + 31291 + ], + "area": 3280848.980294, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31291, + "strid": "ad534f83-cdbc-47b8-8b8f-f8795f6d72d6", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3620.715, + 939.617, + 1146.6990000000005, + 457.884 + ], + "priority": 34, + "parents": [ + 31263 + ], + "children": [ + 31296 + ], + "area": 3402085.366155, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31296, + "strid": "9a11ca1f-9d6c-43cf-87fc-0481ea584d32", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3649.949, + 1411.729, + 1061.462, + 107.5440000000001 + ], + "priority": 35, + "parents": [ + 31291 + ], + "children": [], + "area": 5152738.851821001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Radial diffusivity in the R uncinate fasciculus correlated with percent\ncorrect on the recognition task (R= -0.376, p < 0.05) and number of semantic\nclusters during the free recall task (R= -0.405, add p < 0.05)" + }, + { + "id": 31292, + "strid": "af1403db-4312-40c7-939e-75404ab34d1c", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3623.916, + 1550.676, + 1145.2439999999997, + 458.7339999999999 + ], + "priority": 36, + "parents": [ + 31263 + ], + "children": [ + 31297 + ], + "area": 5619519.567216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31297, + "strid": "87d172ed-eed9-4d5a-8746-2c198a98f6c1", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3641.872, + 2034.87, + 1089.444, + 71.3449999999998 + ], + "priority": 37, + "parents": [ + 31292 + ], + "children": [], + "area": 7410736.07664, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Mean diffusivity in the R uncinate fasciculus correlated.with,immediate\nrecall on the HVLT (R = -0.405,p < 0.05) and HVLT Trial 1 (R ==.398, p <0.05)" + }, + { + "id": 31265, + "strid": "d1263fa2-196d-4b4f-a9a3-045fb7d1b18f", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3984.388, + 2195.159, + 400.72000000000025, + 64.41800000000012 + ], + "priority": 38, + "parents": [ + 31301 + ], + "children": [ + 31298 + ], + "area": 8746365.177692, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 31298, + "strid": "2e70975e-8a1e-4e84-8d00-a3e0af7e7c9b", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3680.927, + 2331.229, + 1004.6399999999999, + 254.308 + ], + "priority": 39, + "parents": [ + 31265 + ], + "children": [], + "area": 8581083.769283, + "iscrowd": 0, + "segmentation": [], + "text": "In HIV-infected women, crack cocaine us@,.was associated with decreased\nwhite matter integrity in the right uncinate fasciculus, a white matter tract\nthat connects the prefrontal cortex to the hippocampus\n\nCorrelations with behavioral data suggest that white matter alterations in\nthe tract might prevent effeCtive'recruitment of prefrontal cortex during\nencoding of words" + }, + { + "id": 31267, + "strid": "32afe9cc-8584-4598-bac1-b8d7cf704920", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3837.227, + 3137.014, + 709.5420000000004, + 79.60199999999986 + ], + "priority": 40, + "parents": [ + 31301 + ], + "children": [ + 31300 + ], + "area": 12037434.820178, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 31300, + "strid": "7963158e-a7ed-4c1a-88af-e615949f0fb2", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3651.294, + 3270.939, + 1112.87, + 268.5300000000002 + ], + "priority": 41, + "parents": [ + 31267 + ], + "children": [], + "area": 11943159.945066, + "iscrowd": 0, + "segmentation": [], + "text": "V. Grauzas’ effort on this project was supported by the,National'Institute on Drug Abuse\n(1F31DA028573). The WIHS is funded by the National Instituté of Allergy and Infectious Diseases\n(UO1-Al-35004, UO1-Al-31834, UO1-Al-34994, VOTA3 4989, UO1-Al-34993, and UO1-Al-42590)\nand by the Eunice Kennedy Shriver National Institute of Child Health and Human Development\n(UO1-HD-32632). The study is co- funded by the,National Cancer Institute, the National Institute on\nDrug Abuse, and the National Institute on/Deafness and Other Communication Disorders. Funding is\nalso provided by the National Center for Research Resources (UCSF-CTSI Grant Number UL1\nRR0O24131). The contents of this publicationyare solely the responsibility of the authors and do not\nnecessarily represent the official views of the National Institutes of Health." + }, + { + "id": 31266, + "strid": "88821755-1088-443b-86ef-cf81220c07ce", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3991.752, + 2658.139, + 406.1029999999996, + 65.23700000000008 + ], + "priority": 42, + "parents": [ + 31301 + ], + "children": [ + 31299 + ], + "area": 10610631.669528, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 31299, + "strid": "7517ff32-15d6-4a6a-8e25-cd2e35ce5e91", + "image_id": 201727, + "image_name": "117579.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3688.921, + 2797.288, + 983.9329999999995, + 264.35199999999986 + ], + "priority": 43, + "parents": [ + 31266 + ], + "children": [], + "area": 10318974.446247999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86289, + "strid": "057617a4-eac6-4758-896d-914e63330696", + "image_id": 203858, + "image_name": "121052.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 633.5, + 203.04, + 272.21000000000004, + 278.01 + ], + "priority": -1, + "parents": [], + "children": [ + 86263, + 86272, + 86267, + 86274, + 86259, + 86275, + 86262, + 86271, + 86284, + 86260, + 86276, + 86273 + ], + "area": 128625.84, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86259, + "strid": "6e77594b-2eaa-4067-8818-69b438b14a05", + "image_id": 203858, + "image_name": "121052.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 571.105, + 53.126, + 3836.967, + 97.77099999999999 + ], + "priority": 1, + "parents": [ + 86289 + ], + "children": [], + "area": 30340.52423, + "iscrowd": 0, + "segmentation": [], + "text": "Stocking30 mm VAS after 12 months. Predefined risk\nfactors for postoperative pain included: age, surgery type\n(mastectomy vs. lumpectomy), axillary lymph node\ndissection, reoperation, baseline sum of electric and\npressure thresholds, change in sum of electric and\npressure thresholds at day 5 vs. preoperatively , baseline\nconditioned pain modulation, VAS pain at rest and on\nmovement at day 5. Risk factors were analyzed using\nunivariate logistic regression and risk factors associated\nwith study outcome in univariate models were included in\na multivariable logistic regression model." + }, + { + "id": 171992, + "strid": "005d2191-9f72-4a18-986c-bace69a21711", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2607.799, + 863.21, + 229.4119999999998, + 51.071000000000026 + ], + "priority": 8, + "parents": [ + 172007 + ], + "children": [ + 172003 + ], + "area": 2251078.17479, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 172003, + "strid": "e5d8d6ff-4624-40f1-b9db-7a3a7e171327", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1220.77, + 975.429, + 3033.2140000000004, + 1008.1149999999999 + ], + "priority": 9, + "parents": [ + 171992 + ], + "children": [], + "area": 1190774.46033, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171993, + "strid": "19dd2efb-afff-4a17-8dc1-c7b94de18f6c", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2484.581, + 2018.378, + 507.4630000000002, + 64.85200000000009 + ], + "priority": 10, + "parents": [ + 172007 + ], + "children": [ + 172006, + 172004, + 172005 + ], + "area": 5014823.629618, + "iscrowd": 0, + "segmentation": [], + "text": "Probability Plots" + }, + { + "id": 172004, + "strid": "edbd4908-2265-4429-b2d3-d855d2e74282", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1152.774, + 2137.275, + 3062.778, + 940.1190000000001 + ], + "priority": 11, + "parents": [ + 171993 + ], + "children": [], + "area": 2463795.0508499998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 172005, + "strid": "4a37e527-66ef-4e63-a8e1-ac6d4ed3ad1f", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1270.183, + 3109.371, + 1277.565, + 107.0920000000001 + ], + "priority": 12, + "parents": [ + 171993 + ], + "children": [], + "area": 3949470.184893, + "iscrowd": 0, + "segmentation": [], + "text": "Probability of chronic pain at 12 months postoperatively based on pain on movement at\npostoperative day 5. Pain on movement at postoperative day 5 was independently associated\nwith chronic pain in the multivariate analysis (p=0.01)." + }, + { + "id": 172006, + "strid": "910a52fa-70d8-4ea8-86ec-3743ab2bccc5", + "image_id": 207212, + "image_name": "7121.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2916.954, + 3109.371, + 1304.7149999999997, + 107.0920000000001 + ], + "priority": 13, + "parents": [ + 171993 + ], + "children": [], + "area": 9069892.175934, + "iscrowd": 0, + "segmentation": [], + "text": "Probability of chronic pain at 12 months postoperatively based on changes in pressure tolerance\nthresholds at postoperative day 5. 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"Variable selection (Enrichment Analysis)" + }, + { + "id": 136415, + "strid": "db9ec157-8250-4c45-a600-59bb52df525a", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 203.525, + 4013.378, + 1335.049, + 593.5530000000003 + ], + "priority": 22, + "parents": [ + 136397 + ], + "children": [], + "area": 816822.75745, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136418, + "strid": "976da4a2-5440-4d8b-971b-5fba382f155b", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 222.079, + 4433.603, + 574.0720000000001, + 113.5630000000001 + ], + "priority": 23, + "parents": [ + 136397 + ], + "children": [], + "area": 984610.1206370001, + "iscrowd": 0, + "segmentation": [], + "text": "Association between\nSucciivibrionaceae and CH," + }, + { + "id": 136398, + "strid": "ad9d51c1-09cf-4394-a156-c345d3421728", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1776.435, + 3304.152, + 554.2460000000001, + 80.9699999999998 + ], + "priority": 24, + "parents": [ + 136419 + ], + "children": [ + 136406, + 136407, + 136408 + ], + "area": 5869611.25812, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 136406, + "strid": "7eedbd5f-22c4-4904-af0e-7002de60e392", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1788.632, + 3451.748, + 1695.835, + 228.7460000000001 + ], + "priority": 25, + "parents": [ + 136398 + ], + "children": [], + "area": 6173906.928736, + "iscrowd": 0, + "segmentation": [], + "text": "We developed an R package to integrate heterogeneous\ndatasets that combines multivariate techniques with\ncluster, variable selection and network analysis." + }, + { + "id": 136407, + "strid": "3297d837-a17a-4cb5-8c76-c987cc8e4145", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1787.435, + 3790.675, + 1693.4389999999999, + 150.9000000000001 + ], + "priority": 26, + "parents": [ + 136398 + ], + "children": [], + "area": 6775585.168625, + "iscrowd": 0, + "segmentation": [], + "text": "Our results suggested the usefulness of Link-HD to\nintegrate heterogeneous datasets." + }, + { + "id": 136408, + "strid": "f2e7bd98-baf1-40f4-9b72-c4cb2d08702c", + "image_id": 205789, + "image_name": "15937.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1786.237, + 4051.757, + 1694.6369999999997, + 231.14100000000008 + ], + "priority": 27, + "parents": [ + 136398 + ], + "children": [], + "area": 7237398.268409001, + "iscrowd": 0, + "segmentation": [], + "text": "Applied to rumen microbiome, the consensus space\ninferred by Link-HD reproduce the Ruminontypes cluster\nand it association with CH, emission." + }, + { + "id": 50646, + "strid": "991da8da-f60b-4e38-b1a9-0e4f838359bd", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 163.64, + 138.22, + 352.0, + 232.32000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 50627, + 50630, + 50625, + 50629, + 50623, + 50624, + 50626, + 50628 + ], + "area": 22618.320799999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50623, + "strid": "73362bc6-5f82-43ed-8cba-7dad74b815de", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 574.897, + 88.369, + 3479.465, + 266.81999999999994 + ], + "priority": 1, + "parents": [ + 50646 + ], + "children": [], + "area": 50803.072993, + "iscrowd": 0, + "segmentation": [], + "text": "EVALUATION OF A GROUP BASED COGNITIVE BEHAVIOURAL THERAPY PROGRAMME\nFOR MENSTRUAL PAIN MANAGEMENT IN YOUNG WOMEN WITH INTELLECTUAL\nDISABILITIES : A MIXED METHODS MATCHED CONTROLLED CLINICAL TRIAL" + }, + { + "id": 50624, + "strid": "5bdcb99b-a44e-4e90-95d0-42b857d4b0ff", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 523.982, + 393.844, + 3166.604, + 175.59600000000006 + ], + "priority": 2, + "parents": [ + 50646 + ], + "children": [], + "area": 206367.16680799998, + "iscrowd": 0, + "segmentation": [], + "text": "| Department of Psychology, City Uni\n\n \n\n4 Centre for Pain Research, Natio\n\nSusan Kennedy !* Ronan Conway * Car" + }, + { + "id": 50625, + "strid": "fbe1ec6f-2a4d-4bf7-8a5e-3784a35fb668", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 461.102, + 674.524, + 378.42600000000004, + 69.55899999999997 + ], + "priority": 3, + "parents": [ + 50646 + ], + "children": [ + 50631 + ], + "area": 311024.36544799997, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 50631, + "strid": "ae1e2522-4022-4d02-831a-ef87d756ace1", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 243.989, + 763.686, + 840.712, + 2185.994 + ], + "priority": 4, + "parents": [ + 50625 + ], + "children": [], + "area": 186330.983454, + "iscrowd": 0, + "segmentation": [], + "text": "Menstrual pain is a type of intermittent\nchronic pain and is believed to be\nexperienced by 50% of women in the general\npopulation (Eden, 1992). Kyrkou (2005)\nexamined how menstrual pain presents in\nwomen with intellectual disabilities as there\nis anecdotal evidence of an increase in this\ntype of pain in this population, but little\nresearch has been conducted. Results\nsuggested that women with Down Syndrome\nand Autistic Spectrum Disorder (ASD)\nappeared to have a higher rate of menstrual\npain than women in the general population\n(62.5% of the women with Autism, 75% of\nthe women with Down Syndrome and 100%\nof the women with Aspergers Syndrome\nexperienced menstrual pain).\n\nGiven the significant personal, social and\neconomic impact of chronic pain, much\nresearch attention has been directed towards\nidentification of pain and pain management\noptions. However, pain management\nprogrammes are not routinely offered to\npeople with an_ intellectual disability.\nMcManus & McGuire (2010) developed such\na programme, for carers working with people\nwith intellectual disabilities and chronic pain.\n“Feeling Better” is a modularised programme\nwhich uses cognitive behavioural principles\nto teach individuals with _ intellectual\ndisabilities a range of strategies to manage\nchronic pain more effectively.\n\nThis study developed a cognitive behavioural\ntherapy based menstrual pain management\nprogramme from the Feeling Better manual,\nusing a participative research process\ninvolving young women with intellectual\ndisabilities, and their parents. Analysis of the\nelements of the programme that “work” and\nare most successful with this population is an\ninnovative approach which can yield valuable\ninformation." + }, + { + "id": 50627, + "strid": "dab9b5a7-b2d4-4892-9176-fa7b47dac16a", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2404.24, + 653.999, + 558.2089999999998, + 70.16599999999994 + ], + "priority": 5, + "parents": [ + 50646 + ], + "children": [ + 50632 + ], + "area": 1572370.55576, + "iscrowd": 0, + "segmentation": [], + "text": "Aims of the Study" + }, + { + "id": 50632, + "strid": "308d7f55-3d46-4cfd-b251-318cfd3d7771", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1451.732, + 754.356, + 2347.203, + 153.394 + ], + "priority": 6, + "parents": [ + 50627 + ], + "children": [], + "area": 1095122.744592, + "iscrowd": 0, + "segmentation": [], + "text": "The aims of the study are to develop and evaluate a theory-based cognitive behaviour therapy (CBT) programme for menstrual\npain management in young women with intellectual disabilities. Process evaluation will also be conducted to examine which\nelements of the programme are most successful in promoting change." + }, + { + "id": 50626, + "strid": "699874b0-96ac-466d-824e-7529a4c9f0e4", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1519.783, + 971.269, + 226.5340000000001, + 53.875999999999976 + ], + "priority": 7, + "parents": [ + 50646 + ], + "children": [ + 50634, + 50633, + 50635 + ], + "area": 1476118.114627, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50633, + "strid": "3c7e8399-91cb-405a-884e-84073c7d8052", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1156.523, + 1058.197, + 1087.691, + 868.8 + ], + "priority": 8, + "parents": [ + 50626 + ], + "children": [], + "area": 1223829.1690309998, + "iscrowd": 0, + "segmentation": [], + "text": "Protocol\n\nParticipants were assigned to one of two treatment\nconditions — intervention and control. Participants in the\nintervention condition (N = 12) attended a 12 week\nmenstrual pain management programme. Topics covered\nincluded deep breathing, relaxation, visualisation,\ndistraction techniques, exercise, linking thoughts and\nfeelings and challenging negative thoughts. Those in the\ncontrol condition (N = 12) received treatment as usual.\nParticipants’ scores on key pain variables were assessed\nat five time-points throughout the study: pre-intervention\n(T1), 5 weeks (T2), 9 weeks (T3), post-intervention (T4)\nand 3 month follow-up (T5). T2 and T3 correspond to the\ncompletion of behavioural and cognitive elements of the\nprogramme. Key variables assessed included pain\nknowledge, pain coping, pain impact and pain self-efficacy." + }, + { + "id": 50634, + "strid": "8cd337f6-dee5-44e4-8613-02aca90376ac", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1156.31, + 1985.951, + 1088.5170000000003, + 945.46 + ], + "priority": 9, + "parents": [ + 50626 + ], + "children": [], + "area": 2296375.00081, + "iscrowd": 0, + "segmentation": [], + "text": "Measures\n\nThe primary outcome measures are pain management\nknowledge and pain coping strategies used in everyday\nsituations. The Pain Knowledge Questionnaire\n(McManus, Treacy & McGuire, 2013) assesses knowledge\nof pain coping strategies taught during the intervention\nprogramme, using a seven item multiple choice\nquestionnaire. Pain coping is measured via the Pain\nCoping Scenarios Questionnaire (McManus, Treacy &\nMcGuire, 2013). The Pain Coping Scenarios\nQuestionnaire consists of four items which ask\nparticipants how they would cope with pain in four\nhypothetical but commonly occurring situations i.e. during\nthe night, at school, at home and during an activity. This\nmeasure seeks to determine if participants would\ngeneralise techniques learnt during the intervention\nprogramme to commonly occurring situations in which they\nmay experience menstrual pain. Responses are coded as\nbeing wellness or illness focused." + }, + { + "id": 50635, + "strid": "ddd94866-d740-4c21-b180-5a3edc62ca3a", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2349.249, + 970.191, + 1023.8130000000001, + 393.55999999999995 + ], + "priority": 10, + "parents": [ + 50626 + ], + "children": [], + "area": 2279220.236559, + "iscrowd": 0, + "segmentation": [], + "text": "Participants\n\nParticipants are females aged between 12 and 20\nyears of age with a diagnosis of a Mild or Moderate\nIntellectual Disability. Speech is the primary means by\nwhich participants communicate. Participants are in full\ntime education, have commenced menstruation and\nexperience pain symptoms in the days preceding or\nduring menstruation." + }, + { + "id": 50628, + "strid": "c8a3c9c4-812a-4a32-a019-785c8a81d8b2", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2742.973, + 1388.622, + 232.7510000000002, + 55.43900000000008 + ], + "priority": 11, + "parents": [ + 50646 + ], + "children": [ + 50638, + 50636, + 50642, + 50641, + 50644, + 50643, + 50645 + ], + "area": 3808952.653206, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50645, + "strid": "5f418b51-5fdf-412d-9ff4-4383de0888d9", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2349.942, + 1533.937, + 1030.051, + 717.1489999999999 + ], + "priority": 12, + "parents": [ + 50628 + ], + "children": [ + 50640 + ], + "area": 3604662.981654, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50640, + "strid": "8c663b10-6cef-4b9c-8c80-69bdf980297e", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2350.192, + 1482.54, + 804.9450000000002, + 43.41399999999999 + ], + "priority": 13, + "parents": [ + 50645 + ], + "children": [], + "area": 3484253.64768, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Participant descriptive statistics" + }, + { + "id": 50641, + "strid": "0d7507bd-d7c3-4e59-a15c-7bc1adcf90fc", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2357.909, + 2299.215, + 507.7919999999999, + 44.840000000000146 + ], + "priority": 14, + "parents": [ + 50628 + ], + "children": [], + "area": 5421339.741435001, + "iscrowd": 0, + "segmentation": [], + "text": "Graph 1: Pain Knowledge" + }, + { + "id": 50643, + "strid": "ca50a8bd-4737-44b0-91d4-398250fdd483", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2348.9, + 2384.441, + 1023.9160000000002, + 605.5340000000001 + ], + "priority": 15, + "parents": [ + 50628 + ], + "children": [], + "area": 5600813.4649, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50638, + "strid": "15a73288-24de-46ea-9960-2226b3858c24", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2351.316, + 3032.156, + 1013.7889999999998, + 186.692 + ], + "priority": 16, + "parents": [ + 50628 + ], + "children": [], + "area": 7129556.917295999, + "iscrowd": 0, + "segmentation": [], + "text": "Results to date suggest that participation in the\nmenstrual pain management programme has a\npositive impact in terms of increasing pain knowledge\n\nover time." + }, + { + "id": 50642, + "strid": "dff310bc-683e-4367-9ebf-3e0383bc6416", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3481.784, + 969.487, + 639.2710000000002, + 44.615999999999985 + ], + "priority": 17, + "parents": [ + 50628 + ], + "children": [], + "area": 3375544.324808, + "iscrowd": 0, + "segmentation": [], + "text": "Graph 2: Pain Coping Strategies" + }, + { + "id": 50644, + "strid": "3907a2e9-455f-4651-9792-0ea6a80bf09e", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3478.069, + 1054.832, + 945.2400000000002, + 548.627 + ], + "priority": 18, + "parents": [ + 50628 + ], + "children": [], + "area": 3668778.479408, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50636, + "strid": "1ba1930e-147f-4937-8252-31d9dd01cf16", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3493.564, + 1662.248, + 929.6010000000001, + 208.99800000000005 + ], + "priority": 19, + "parents": [ + 50628 + ], + "children": [], + "area": 5807169.771872, + "iscrowd": 0, + "segmentation": [], + "text": "Over time, participants in the intervention\ncondition used more _ wellness-focused coping\nstrategies to manage pain in everyday situations,\ncompared with those in the control condition." + }, + { + "id": 50629, + "strid": "08e76426-f554-499e-ab86-738efffa5fef", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3769.953, + 1887.502, + 355.2919999999999, + 57.55099999999993 + ], + "priority": 20, + "parents": [ + 50646 + ], + "children": [ + 50637 + ], + "area": 7115793.827405999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 50637, + "strid": "b7a3e368-a2e0-4f0d-8c65-05b5c2d7ebea", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3486.234, + 1980.628, + 941.6749999999997, + 531.568 + ], + "priority": 21, + "parents": [ + 50629 + ], + "children": [], + "area": 6904932.674951999, + "iscrowd": 0, + "segmentation": [], + "text": "Preliminary results suggest that participation in a\ncognitive-behavioural therapy programme for\nmenstrual pain management has a_ beneficial\neffect in increasing knowledge of pain coping\nstrategies and use of wellness focused coping\nstrategies to manage pain in everyday situations.\nResults have implications for personal\ndevelopment training with young women with\nintellectual disabilities, their parents and support\nstaff. SS" + }, + { + "id": 50630, + "strid": "a62f8275-b382-4d49-be38-213d296ecc5f", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3818.901, + 2499.463, + 296.97000000000025, + 48.04399999999987 + ], + "priority": 22, + "parents": [ + 50646 + ], + "children": [ + 50639 + ], + "area": 9545201.750163, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 50639, + "strid": "ed40e394-4bd0-49b3-a97a-8ce2ef58de4e", + "image_id": 202491, + "image_name": "118770.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3496.245, + 2585.501, + 921.8050000000003, + 687.8869999999997 + ], + "priority": 23, + "parents": [ + 50630 + ], + "children": [], + "area": 9039544.943745, + "iscrowd": 0, + "segmentation": [], + "text": "McManus Sj¢McGuire BE. Feeling better: a cognitive\nbehavioural pain management programme for people with\nan intellectual disability. Brighton, UK: Pavilion Publishing;\n2010!\n\nEden‘J.A. Dysmenorrhoea and premenstrual syndrome. In;\nHacker FN, Moore JG, editors. Essentials of Obstetrics‘and\nGynaecology. Philadelphia, PA: WB Saunders; 1992.\\pp.\n332-337.\n\nKyrkou M. Health issues and quality of life in\\womén with\nintellectual disability. Journal of Intellectual Disability\nResearch 2005; 49(10):770-772.\n\nMcManus S, Treacy M, McGuire BE. Cognitive behavioural\ntherapy for chronic pain in peoplé?with an intellectual\ndisability using the Feeling Better, programme: a case\nseries. Journal of Intellectual DiSability Research 2013. doi:\n10.1111 /jir.12018." + }, + { + "id": 195074, + "strid": "bfdf3b8a-fa94-4303-9ec3-d32b993d42ce", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 37.97, + 39.13, + 63.86, + 185.18 + ], + "priority": -1, + "parents": [], + "children": [ + 195067, + 195066, + 195068, + 195070, + 195064, + 195065, + 195069, + 195071 + ], + "area": 1485.7661, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195064, + "strid": "8154e531-d5ae-4339-a9e1-eacb92a09e28", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 121.991, + 54.05, + 3047.984, + 211.101 + ], + "priority": 1, + "parents": [ + 195074 + ], + "children": [], + "area": 6593.61355, + "iscrowd": 0, + "segmentation": [], + "text": "POINT-OF-CARE ULTRASOUND (PoCUS) IN A JOHANNESBURG\n—— EMERGENCY DEPARTMENT" + }, + { + "id": 195065, + "strid": "718cf3d3-cf67-4f7c-aa9b-cd1ce7fa7e68", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 475.211, + 316.404, + 2244.3369999999995, + 117.19299999999998 + ], + "priority": 2, + "parents": [ + 195074 + ], + "children": [], + "area": 150358.661244, + "iscrowd": 0, + "segmentation": [], + "text": "Tammy Baillie-Stanton (@QuirkyMD), Mike Wells (@docmikewells)\nDivision of Emergency Medicine, University of the Witwatersrand, Johannesburg, South Africa" + }, + { + "id": 195066, + "strid": "a116a480-8e9d-424f-a982-4f032069acf6", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 492.471, + 562.739, + 589.502, + 87.33400000000006 + ], + "priority": 3, + "parents": [ + 195074 + ], + "children": [ + 195059, + 195055 + ], + "area": 277132.63806900004, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 195059, + "strid": "bd281f04-4e8c-477b-b8a7-4851c55f86b8", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.856, + 738.038, + 1266.994, + 973.854 + ], + "priority": 4, + "parents": [ + 195066 + ], + "children": [], + "area": 120931.954528, + "iscrowd": 0, + "segmentation": [], + "text": "Point-of-Care Ultrasound (PoCUS) is an important tool\n\nused in the diagnosis, management and resuscitation of\npatients in the Emergency Department (ED). There are\nmultiple advantages to the use of PoCUS in Emergency\nMedicine (EM) including mobility, safety, repeatability, non-\ninvasiveness and cost effectiveness!4!. PoCUS is the ideal tool\nfor the resource-limited EDs in South Africa (SA).\n\nSpecialist Emergency Physicians (EPs) in SA are required to\nhold a basic Level 1 PoCUS certification, Table 1'2). There are\nclear gaps in training including lung ultrasound and bedside\nechocardiography. Lung ultrasound can help with rapid\ndiagnosis and management of patients in respiratory\ndistress®], Basic bedside echocardiography can assist in\nassessing left and right ventricular function, volume status,\ntamponade physiology , valvular abnormalities and gross\ncardiac pathology\"!; as well as during cardiac arrest!)" + }, + { + "id": 195055, + "strid": "7153f02e-0b45-4e25-8eb8-e892de2f93e8", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 167.605, + 1782.443, + 1264.543, + 172.0440000000001 + ], + "priority": 5, + "parents": [ + 195066 + ], + "children": [], + "area": 298746.359015, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195069, + "strid": "3577fe50-7682-4962-9656-ad1af866ba08", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 605.51, + 2078.68, + 351.793, + 84.72499999999991 + ], + "priority": 6, + "parents": [ + 195074 + ], + "children": [ + 195056, + 195062 + ], + "area": 1258661.5267999999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195056, + "strid": "28f8ec00-0982-413a-8dd5-05c074f668f9", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 138.986, + 2202.128, + 1317.0880000000002, + 537.0219999999999 + ], + "priority": 7, + "parents": [ + 195069 + ], + "children": [], + "area": 306064.962208, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195062, + "strid": "c20a0b17-d21a-4d8b-8996-856b368e2a5e", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 102.571, + 2895.594, + 1402.21, + 997.7440000000001 + ], + "priority": 8, + "parents": [ + 195069 + ], + "children": [ + 195073 + ], + "area": 297003.972174, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195073, + "strid": "c19bdfe6-8032-4b21-a779-0a977146e2ea", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 291.859, + 2824.822, + 1020.317, + 45.85699999999997 + ], + "priority": 9, + "parents": [ + 195062 + ], + "children": [], + "area": 824449.724098, + "iscrowd": 0, + "segmentation": [], + "text": "TABLE 2 - PoCUS EXAMINATIONS PERFORMED" + }, + { + "id": 195071, + "strid": "f62a027b-2560-4e41-8c9f-7496df9d6bee", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 546.076, + 3968.014, + 514.608, + 78.30999999999995 + ], + "priority": 10, + "parents": [ + 195074 + ], + "children": [ + 195057 + ], + "area": 2166837.213064, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195057, + "strid": "51086ab0-f003-424d-881c-41feb4b954e6", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 132.072, + 4120.489, + 1255.522, + 352.14400000000023 + ], + "priority": 11, + "parents": [ + 195071 + ], + "children": [], + "area": 544201.223208, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195067, + "strid": "dbcfa9d9-598c-4f92-b185-b49fe360c573", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2145.014, + 569.829, + 376.3319999999999, + 70.59000000000003 + ], + "priority": 12, + "parents": [ + 195074 + ], + "children": [ + 195063, + 195060 + ], + "area": 1222291.182606, + "iscrowd": 0, + "segmentation": [], + "text": "VME\ntn l@)d)\n\n(dp" + }, + { + "id": 195060, + "strid": "b8d6564c-a03d-410f-9983-3ce180e0bd1f", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1597.43, + 700.669, + 1556.044, + 412.264 + ], + "priority": 13, + "parents": [ + 195067 + ], + "children": [], + "area": 1119269.68067, + "iscrowd": 0, + "segmentation": [], + "text": "This was a prospective observational audit of bedside PoCUS examinations\nperformed in the Helen Joseph Hospital (HJH) ED in Johannesburg over a\none-week period, from 4th until 11th August 2014. Consent from\nparticipating ED patients and staff was obtained prior to study enrollment.\nApproval was obtained from the Human Research Ethics Committee\n(Medical) at the University of the Witwatersrand, Johannesburg (protocol\nM140658)." + }, + { + "id": 195063, + "strid": "c3c17e85-39bd-470b-82da-ddeaaababf8b", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1582.712, + 1274.102, + 1605.652, + 1013.0159999999998 + ], + "priority": 14, + "parents": [ + 195067 + ], + "children": [ + 195072 + ], + "area": 2016536.524624, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195072, + "strid": "b29709c2-da0f-4529-8dc9-58b0c639db4b", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1655.206, + 1207.941, + 1454.322, + 43.565000000000055 + ], + "priority": 15, + "parents": [ + 195063 + ], + "children": [], + "area": 1999391.1908459999, + "iscrowd": 0, + "segmentation": [], + "text": "TABLE 1 - BASIC LEVEL ONE PoCUS MODULES IN SOUTH AFRICA /!" + }, + { + "id": 195068, + "strid": "3bc738f9-1ca4-436a-b7a7-6150aacf0ce3", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2139.769, + 2353.116, + 489.93200000000024, + 79.19999999999982 + ], + "priority": 16, + "parents": [ + 195074 + ], + "children": [ + 195061 + ], + "area": 5035124.670204, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195061, + "strid": "a3452d6d-2846-45f6-a428-642410440d49", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1623.795, + 2505.266, + 1505.415, + 1201.409 + ], + "priority": 17, + "parents": [ + 195068 + ], + "children": [], + "area": 4068038.4044700004, + "iscrowd": 0, + "segmentation": [], + "text": "The PoCUS application most frequently performed was Vaya\nultrasound. The study was performed in winter, increasing the\nlikelihood that patients presented with pneumonia and bronchospasm.\nPneumonia is the second most common natural cause of death\ncountry-wide and in Gauteng'!, This study emphasizes the need for\nfurther training of specialist EPs in lung ultrasound in SA.\n\nBasic echocardiography was ranked second most frequently performed\nPoCUS in this ED. Cardiac conditions are also a very common cause of\nmortality in Gauteng!®l. In SA, the cardiac pathology includes\ncardiovascular disease from hypertension, diabetes, rheumatic heart\ndisease, ischaemic heart disease and cardiomyopathies. This study\nhighlights that specialist EPs should receive further training in basic\nbedside echocardiography.\n\nThe high number of e-FAST investigations performed is a reflection of\nthe prevalence of trauma in Johannesburg. Non-natural deaths remain\nthe leading cause of death in Gautengl®l. e-FAST has become widely\nincorporated in the EM management of trauma cases. This study\nreiterates the importance of e-FAST training for specialist EPs." + }, + { + "id": 195070, + "strid": "7b071f5f-ff21-4dd8-a23d-6ebbe616a0fa", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2125.04, + 3802.034, + 508.9540000000002, + 71.0909999999999 + ], + "priority": 18, + "parents": [ + 195074 + ], + "children": [ + 195058 + ], + "area": 8079474.33136, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195058, + "strid": "122a9c27-f4c3-4e45-bbde-69d9263122e3", + "image_id": 208135, + "image_name": "9434.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1639.43, + 3920.683, + 1490.457, + 550.1180000000004 + ], + "priority": 19, + "parents": [ + 195070 + ], + "children": [], + "area": 6427685.33069, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143442, + "strid": "98e92cac-6cad-4242-8569-687291c789af", + "image_id": 206075, + "image_name": "17337.png", + 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and Behaviour, Radboud University Nijmegen, Nijmegen, The Netherlands\n? Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6) and JARA BRAIN Institute I, Jiilich Research Centre, Jiilich, Germany.\n3 Departamento de Anatom{ia, Histologia y Neurociencia, Facultad de Medicina, Universidad Aut6noma de Madrid, Madrid, Spain" + }, + { + "id": 13559, + "strid": "9c45f5b7-2fb0-470f-bf90-92feda30db25", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 270.253, + 726.873, + 265.33599999999996, + 47.74000000000001 + ], + "priority": 3, + "parents": [ + 13556 + ], + "children": [ + 13560 + ], + "area": 196439.608869, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation" + }, + { + "id": 13560, + "strid": "8badd7e9-8087-4694-b118-031ba649200f", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 268.131, + 806.563, + 959.948, + 1101.4539999999997 + ], + "priority": 4, + "parents": [ + 13559 + ], + "children": [], + "area": 216264.54375299998, + "iscrowd": 0, + "segmentation": [], + "text": "A key aim of the Human Brain Project is to build a\ntissue simulator that covers multiple brain areas. The\nfirst step of this simulator is the tissue builder. It\ngenerates neuronal tissue —in silico— by placing neuron\nmorphologies in a reference brain.\n\nA large public resource of neuron morphologies is the\nNeuroMorpho.Org data base. It collects reconstructed\naxonal and dendritic trees from experimental groups\naround the world.\n\nTo use NeuroMorpho.Org morphologies in the tissue\nbuilder, their position in a reference atlas must be\nknown. However, the only positional information\nprovided is the name of the brain region where the\nsoma resides. Especially for projection neurons, which\nextend beyond a single brain region, this is grossly\ninsufficient.\n\nTo help experimenters with providing atlas coordinates\nfor their data, we present a procedure to register\nreconstructed neurons to a brain atlas. The result is\nstored within the morphology file. The reward for the\nexperimenter is that he can interactively view the\nneuron in 3d together with sections from the atlas." + }, + { + "id": 13563, + "strid": "8b7f9a7f-900e-403d-a2f5-76fdb8312cf1", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 272.054, + 1978.901, + 529.08, + 57.628999999999905 + ], + "priority": 5, + "parents": [ + 13556 + ], + "children": [ + 13570, + 13562, + 13566, + 13565, + 13573, + 13564, + 13561, + 13568, + 13574 + ], + "area": 538367.932654, + "iscrowd": 0, + "segmentation": [], + "text": "Registration pipeline" + }, + { + "id": 13564, + "strid": "96d27007-04d4-4e59-b0b6-0fa8191e4631", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 267.676, + 2081.011, + 960.1500000000001, + 462.0830000000001 + ], + "priority": 6, + "parents": [ + 13563 + ], + "children": [], + "area": 557036.700436, + "iscrowd": 0, + "segmentation": [], + "text": "Step 1. Inspect the reconstructed neuron\n\nFor this purpose we have created a web-based\ninteractive 3d morphology viewer.\n\nThe viewer accepts files in the Neurolucida™ format,\nas well as in the open SWC format.\n\nIt contains a searcheable interface to NeuroMorpho.Org\nand several other morphology resources.\n\nIt can save files to SWC, and the code to convert\nNeurolucida to SWC is released as a Node.js package." + }, + { + "id": 13574, + "strid": "b2da792f-4fb2-410b-9118-5a7b5e2e90df", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 274.636, + 2599.651, + 1060.043, + 52.28600000000006 + ], + "priority": 7, + "parents": [ + 13563 + ], + "children": [], + "area": 713957.752036, + "iscrowd": 0, + "segmentation": [], + "text": "https://neuroinformatics .nl/HBP/morphology-viewer" + }, + { + "id": 13562, + "strid": "1cc62a67-17d3-4b04-bf6d-733783248f4b", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 264.531, + 2658.041, + 2028.0120000000002, + 1063.4859999999999 + ], + "priority": 8, + "parents": [ + 13563 + ], + "children": [], + "area": 703134.2437710001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13565, + "strid": "5f504019-a894-4b30-be66-5be0d3e8d1cb", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1313.799, + 760.738, + 959.8090000000002, + 452.126 + ], + "priority": 9, + "parents": [ + 13563 + ], + "children": [], + "area": 999456.823662, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13566, + "strid": "6166342f-c646-4c41-b77b-55c5c978c1a0", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1329.227, + 1199.999, + 741.2650000000001, + 789.116 + ], + "priority": 10, + "parents": [ + 13563 + ], + "children": [], + "area": 1595071.0707730001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13561, + "strid": "e565924c-873e-4389-a5ff-daafea492941", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1345.932, + 2082.9, + 754.55, + 500.2950000000001 + ], + "priority": 11, + "parents": [ + 13563 + ], + "children": [], + "area": 2803441.7628, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13570, + "strid": "77cc7517-978f-488a-b584-016757556fb7", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2104.932, + 1696.163, + 256.2919999999999, + 879.4079999999999 + ], + "priority": 12, + "parents": [ + 13563 + ], + "children": [], + "area": 3570307.775916, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13568, + "strid": "74267072-d522-4e5e-92b4-9d5e3a0ae459", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2370.138, + 761.047, + 839.2660000000001, + 411.9069999999999 + ], + "priority": 13, + "parents": [ + 13563 + ], + "children": [], + "area": 1803786.414486, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13573, + "strid": "5ed93a00-2184-4895-b6cd-36a6335c6c31", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2399.962, + 1218.831, + 793.8380000000002, + 3240.6679999999997 + ], + "priority": 14, + "parents": [ + 13563 + ], + "children": [], + "area": 2925148.0844219998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 13567, + "strid": "ed7b1279-9d02-4ddf-9db9-50fa8ef28915", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 288.81, + 3826.988, + 686.685, + 60.3130000000001 + ], + "priority": 15, + "parents": [ + 13556 + ], + "children": [ + 13569 + ], + "area": 1105272.40428, + "iscrowd": 0, + "segmentation": [], + "text": "Use case: projection neuron" + }, + { + "id": 13569, + "strid": "6af9373e-0dee-43c7-b82a-45092b1ec129", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 284.392, + 3932.073, + 915.691, + 460.8979999999997 + ], + "priority": 16, + "parents": [ + 13567 + ], + "children": [], + "area": 1118250.1046159999, + "iscrowd": 0, + "segmentation": [], + "text": "Our use-case is a thalamocortical projection neuron that\nspans multiple brain areas, in this case from the lateral\nposterior thalamic nucleus to visual area V1.\n\nThe neuron was transfected in-vivo by direct\nelectroporation with an adeno-associated virus type 2\nDNA construct, which releases GFP throughout the\naxonal and dendritic trees. After sectioning and\ncounterstaining, the neuron was manually traced using\nNeurolucida (Microbrighfield Inc.) and saved in .DAT\nfile format." + }, + { + "id": 13571, + "strid": "6759145b-5b61-470c-b15d-6df46c8ae7b5", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1326.696, + 3812.334, + 439.3989999999999, + 55.01099999999997 + ], + "priority": 17, + "parents": [ + 13556 + ], + "children": [ + 13572 + ], + "area": 5057808.268463999, + "iscrowd": 0, + "segmentation": [], + "text": "SWC+ file format" + }, + { + "id": 13572, + "strid": "89a522c5-99d6-4970-bd94-bc0a8814464e", + "image_id": 201043, + "image_name": "11524.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1320.7, + 3928.147, + 963.2169999999999, + 521.9830000000002 + ], + "priority": 18, + "parents": [ + 13571 + ], + "children": [], + "area": 5187903.7429, + "iscrowd": 0, + "segmentation": [], + "text": "Closed-source morphology formats (Neurolucida) are\nnot suitable for storing additional metadata like anchor\npoints and transformation results. The open SWC\nformat used by NeuroMorpho.Org on the other hand has\nno structured way to store metadata.\n\nWe present SWC+, an extension of SWC in which the\nplain text header is replaced by XML. User-defined\nproperties can be assigned to SWC points or objects\n(defined as connected points of the same type).\nhttps://neuroinformatics .nl/swcPlus" + }, + { + "id": 53060, + "strid": "52f32f8a-77a3-4224-a0a8-f19a84f95217", + "image_id": 202584, + "image_name": "118910.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 4.71, + 11.25, + 22.919999999999998, + 71.05 + ], + "priority": -1, + "parents": [], + "children": [ + 53046, + 53044, + 53050, + 53048, + 53045, + 53043, + 53049, + 53047, + 53051 + ], + "area": 52.9875, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 53043, + "strid": "f0d2584d-d324-49a0-bcbd-39d7219dde58", + "image_id": 202584, + "image_name": "118910.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 39.282, + 30.996, + 935.509, + 76.496 + ], + "priority": 1, + "parents": [ + 53060 + ], + "children": [], + "area": 1217.584872, + "iscrowd": 0, + "segmentation": [], + "text": "Bioinformatics and Systems Biology Masters:\nBridging the Gap between Heterogeneous Student Backgrounds" + }, + { + "id": 53044, + "strid": "04004d9e-2c81-40a9-97d8-36aa4dbceedb", + "image_id": 202584, + "image_name": "118910.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 36.084, + 126.116, + 990.877, + 82.854 + ], + "priority": 2, + "parents": [ + 53060 + ], + "children": [], + "area": 4550.769744, + "iscrowd": 0, + "segmentation": [], + "text": "Sanne Abeln’Douwe Molenaar,”’ K. Wik ead yO Huub | C.J. Hoefsloot; Bas Teusink;; ** and Jaap Heringa’**°\n\nVU University. Amsterdam: 'IBIVU Centre for Integrative Bioinformatics * Dept. of Camputer Science * Dept. of Molecular Physiology\n“University of Amsterdam, Swammerdam | insite for Life Sciences *NBIC Netherlands Bioinformatics Center, Nilraggen, Netherlands\ns.abe ju.nl d.molenaar@vu.nl k.a.feenstra@vu.nlh.c.j.hoefsloot@uva.nl b.teUsinkK@vu.nl j.heringa@vu.nl" + }, + { + "id": 53045, + "strid": "0e887d82-f335-4230-bde2-1da34cf57d26", + "image_id": 202584, + "image_name": "118910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 61.671, + 232.054, + 286.198, + 24.085999999999984 + ], + "priority": 3, + "parents": [ + 53060 + ], + "children": [ + 53056 + ], + "area": 14311.002234, + "iscrowd": 0, + "segmentation": [], + "text": "Heterogeneous Background" + }, + { + "id": 53056, + "strid": "3d0ab034-5592-42df-a78c-978ac224504f", + "image_id": 202584, + "image_name": "118910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 39.079, + 273.334, + 453.382, + 185.887 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273.08500000000004 + ], + "priority": 1, + "parents": [ + 136505 + ], + "children": [], + "area": 15416.246790000001, + "iscrowd": 0, + "segmentation": [], + "text": "Single cell and classic RNA sequencing -\nanalysis and options for data integration" + }, + { + "id": 136483, + "strid": "db25ed6e-ffec-4a4f-8c2d-e1931490460f", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 87.429, + 448.531, + 2211.517, + 309.66800000000006 + ], + "priority": 2, + "parents": [ + 136505 + ], + "children": [], + "area": 39214.616799, + "iscrowd": 0, + "segmentation": [], + "text": "Krzysztof Pastuszak ', Anna Supernat 7, Tomasz Stokowy °\n\n \n\n' Department of Algorithms and System Modeling, Gdansk University of Technology, Poland\n* Laboratory of Translational Oncology, Medical University of Gdansk, Poland\n5’ Department of Clinical Science, University of Bergen, Bergen, Hordaland, Norway" + }, + { + "id": 136484, + "strid": "18c7110e-f303-4235-aeeb-c8183c999780", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.048, + 917.63, + 373.032, + 60.375 + ], + "priority": 3, + "parents": [ + 136505 + ], + "children": [ + 136488 + ], + "area": 52348.95624, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 136488, + "strid": "057d5269-4d5a-4caa-aab1-42f9fc35d03d", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.048, + 1023.286, + 1341.19, + 495.938 + ], + "priority": 4, + "parents": [ + 136484 + ], + "children": [], + "area": 58376.419728, + "iscrowd": 0, + "segmentation": [], + "text": "Single cell RNA-sequencing (scRNA-Seq) allows for separation and\nquantitative analysis of gene expression from separated cells. The method\nallows for unprecedented resolution while compared to classic RNA\nsequencing. Unfortunately, computational analysis of scRNA-Seq is not\nstandardized and requires further development.\n\nFirst, we used Seurat normalization and cell clustering package to identify\ncell types and expression levels in the 10X Genomics dataset consisting of\n5247 peripheral blood mononuclear cells. Next we compared the results to\nclassic GTEx bulk RNA-Seq dataset, which includes expression patterns in\nwhole blood cells from healthy individuals." + }, + { + "id": 136485, + "strid": "ac85961e-f702-49c5-bea8-9eea62e875c3", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.517, + 1605.475, + 547.688, + 79.78099999999995 + ], + "priority": 5, + "parents": [ + 136505 + ], + "children": [ + 136492, + 136494, + 136493, + 136490, + 136491, + 136489 + ], + "area": 101974.955575, + "iscrowd": 0, + "segmentation": [], + "text": "Expression analysis" + }, + { + "id": 136489, + "strid": "62b0e490-eec0-4b86-954a-30930dc4f27a", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 54.892, + 1724.068, + 1354.127, + 401.0629999999999 + ], + "priority": 6, + "parents": [ + 136485 + ], + "children": [], + "area": 94637.540656, + "iscrowd": 0, + "segmentation": [], + "text": "We compared expression of genes from 10x Genomics PBMC dataset [1]\nwith two classic GTEx bulk RNA-Seq datasets, which included whole blood\n[2] and white blood [8] data, respectively.\n\nWe clustered cells from 10x Genomics dataset into 6 groups and precisely\nidentified type of 3 of them (Fig. Il), based on a list of canonical markers\nspecific to particular cell types, eg. CD14 and LYZ for CD14+ monocytes.\nCell types of 3 clusters remained ambiguous and further biological\ninterpretation is needed to interrogate cell clusters." + }, + { + "id": 136490, + "strid": "efe8495d-d5c1-463d-99e6-edca661192d6", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 52.275, + 2142.883, + 1352.897, + 127.03900000000021 + ], + "priority": 7, + "parents": [ + 136485 + ], + "children": [], + "area": 112019.208825, + "iscrowd": 0, + "segmentation": [], + "text": "Figure |\n\nIdentification of cell types - expression of canonical markers for Memory CD4+ T and Naive CD4+ T cells. ILR7\nand CCR7 are canonical markers for Memory CD4+ T cells. IL7R and $100A4 are canonical markers for Naive\nCD4+ T cells. Nature of clusters 1 and 3 is hence ambiguous." + }, + { + "id": 136491, + "strid": "203d141e-f5d3-4b03-89e1-b59b45d1c867", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 40.488, + 2292.186, + 1257.291, + 580.1869999999999 + ], + "priority": 8, + "parents": [ + 136485 + ], + "children": [], + "area": 92806.02676800001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136492, + "strid": "cfa7e007-a5aa-4504-ab54-5e2ff4f680b5", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 55.206, + 2889.087, + 1356.452, + 528.549 + ], + "priority": 9, + "parents": [ + 136485 + ], + "children": [], + "area": 159494.93692200002, + "iscrowd": 0, + "segmentation": [], + "text": "We observed that 12360 genes were expressed in GTEx whole blood\ndataset. 4482 of them displayed expression in a cluster which contained B\nor DC cells. CD8+ T cells expressed 6157 genes in common with GTEx. CD14+\ncells cluster displayed expression of 6989 genes.\n\nTwo ambiguous clusters, which contained naive CD4+ T or memory CD4+\ncells, expressed 2667 and 4289 of genes expressed in GTEx, respectively.\n\nWhite blood GTEx dataset displayed slightly higher number of highly\nexpressed genes in common with 10x Genomics dataset, possibly due to\ninclusion of non-PBMC cells in whole blood dataset, which lowered mean\nexpression of PBMC-specific genes." + }, + { + "id": 136493, + "strid": "b9222f1e-a889-4967-9239-53d13f27e101", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 52.088, + 3458.173, + 1347.097, + 185.538 + ], + "priority": 10, + "parents": [ + 136485 + ], + "children": [], + "area": 180129.315224, + "iscrowd": 0, + "segmentation": [], + "text": "Table |\n\nExpression of genes in common between datasets. Number of genes that displayed high levels of expression\nin brackets. In green — clusters with high number of genes expressed in common with bulk RNA-seq whole\n\nblood and white blood datasets. In red — clusters with low number of genes expressed in coming with bulk\nRNA-seq datasets." + }, + { + "id": 136494, + "strid": "41ab3ec7-c413-4b1a-904b-e6235c51d5ef", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 45.851, + 3709.195, + 1359.5699999999997, + 608.065 + ], + "priority": 11, + "parents": [ + 136485 + ], + "children": [], + "area": 170070.299945, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136487, + "strid": "5e325cba-3394-4730-827b-f5980dc269a2", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1454.301, + 915.473, + 1188.096, + 75.46900000000005 + ], + "priority": 12, + "parents": [ + 136505 + ], + "children": [ + 136504 + ], + "area": 1331373.299373, + "iscrowd": 0, + "segmentation": [], + "text": "Workflow for analysis of scRNA-seq data" + }, + { + "id": 136504, + "strid": "fdc878de-6a27-4b6c-a17a-447519cc3fe4", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1520.083, + 1008.812, + 1373.522, + 433.95899999999995 + ], + "priority": 13, + "parents": [ + 136487 + ], + "children": [], + "area": 1533477.9713960001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136486, + "strid": "3a0d00bf-5908-4b14-a5b9-6f5e526456aa", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1462.926, + 1465.318, + 200.53199999999993, + 69.0 + ], + "priority": 14, + "parents": [ + 136505 + ], + "children": [ + 136503, + 136500, + 136499, + 136502, + 136501 + ], + "area": 2143651.8004679997, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 136503, + "strid": "ae2ebbfe-4f02-4eb6-827b-58e656bedcce", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1471.447, + 1573.859, + 1671.316, + 159.91000000000008 + ], + "priority": 15, + "parents": [ + 136486 + ], + "children": [], + "area": 2315850.103973, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136502, + "strid": "30e075b9-a8ea-4713-984d-51607ab07257", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1472.557, + 1758.306, + 1697.514, + 772.7379999999998 + ], + "priority": 16, + "parents": [ + 136486 + ], + "children": [], + "area": 2589205.8084420003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136501, + "strid": "9e036378-24cf-43f0-ba60-b883ce6042d8", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1488.657, + 2531.714, + 1672.3639999999998, + 129.92799999999988 + ], + "priority": 17, + "parents": [ + 136486 + ], + "children": [], + "area": 3768853.7680979995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure Ill\n\nClusterization based on presented workflow (a) resulted in higher number of cells filtered out due to suspected low quality and more\nclear separation of cells into distinct populations than original analysis proposed by 10x Genomics (b)." + }, + { + "id": 136500, + "strid": "c36904b4-a599-4a96-b889-fea4255a5411", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1477.29, + 2678.677, + 1538.723, + 699.7570000000001 + ], + "priority": 18, + "parents": [ + 136486 + ], + "children": [], + "area": 3957182.7453300003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 136499, + "strid": "d47e2cf0-ed32-45a1-a394-fe6b5f6a8586", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1481.003, + 3395.139, + 1677.932, + 226.44700000000012 + ], + "priority": 19, + "parents": [ + 136486 + ], + "children": [], + "area": 5028211.044417, + "iscrowd": 0, + "segmentation": [], + "text": "In demonstration 10x Genomics analysis, origin of 3 clusters was determined. Clusters 6 and 7\ncontained NK and CD8+T cells, respectively. Cluster 8 represents platelets, which were not\ndetected in our analysis, probably due to more strict filtering of poor quality reads. Other\nclusters seemed to contain a mixture of different cell types, hence their nature remained\nambiguous." + }, + { + "id": 136496, + "strid": "3c166447-0ee3-4a4b-9b3b-fa60bf1e38cf", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1466.228, + 3676.453, + 360.16100000000006, + 65.48399999999992 + ], + "priority": 20, + "parents": [ + 136505 + ], + "children": [ + 136497 + ], + "area": 5390518.329284, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 136497, + "strid": "a7146e27-7e5c-4502-8660-6fe1561fdca0", + "image_id": 205793, + "image_name": "15946.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1466.228, + 3798.066, + 1666.721, + 212.04300000000012 + ], + "priority": 21, + "parents": [ + 136496 + ], + "children": [], + "area": 5568830.715048, + "iscrowd": 0, + "segmentation": [], + "text": "SCRNA-Seq allows for precise and credible analysis of gene expression in single cells. Choice\nof QC, normalization and clusterization algorithms significantly affects detection of\nsubpopulations. 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], + "children": [ + 158937 + ], + "area": 7619398.1237780005, + "iscrowd": 0, + "segmentation": [], + "text": "Questions we answered!" + }, + { + "id": 158937, + "strid": "8c162ef0-79e1-4400-bbfd-b2d2f655747a", + "image_id": 206709, + "image_name": "6308.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2242.923, + 3546.203, + 954.8510000000001, + 806.038 + ], + "priority": 29, + "parents": [ + 158925 + ], + "children": [], + "area": 7953860.271368999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167379, + "strid": "5d3c3552-f447-4a82-82f8-3d0141d7f0ac", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 13.26, + 5.81, + 90.97999999999999, + 68.23 + ], + "priority": -1, + "parents": [], + "children": [ + 167365, + 167366, + 167369, + 167368, + 167363, + 167367, + 167364 + ], + "area": 77.0406, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167363, + "strid": "01835ef0-bc42-4aa5-b94e-d85e860dd7ce", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 75.797, + 88.274, + 1141.92, + 32.376000000000005 + ], + "priority": 1, + "parents": [ + 167379 + ], + "children": [], + "area": 6690.904378, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167364, + "strid": "0cdcf772-ad58-446c-a995-dc8965881ae7", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 75.751, + 137.633, + 1211.8, + 141.63199999999998 + ], + "priority": 2, + "parents": [ + 167379 + ], + "children": [], + "area": 10425.837383000002, + "iscrowd": 0, + "segmentation": [], + "text": "Marques, R.'; Cunha, J.'; Moreira, J.'; Jeronimo, F.'; Cativo, M.C.?; Branco, C.A.\"\n\n' Physical and Rehabilitation Medicine Department, Centro Hospitalar Entre o Douro e Vouga, Santa Maria da Feira,\nPortugal.\n2 Pain Unit Anesthesiology, Centro Hospitalar Entre o Douro e Vouga, Santa Maria da Feira, Portugal." + }, + { + "id": 167365, + "strid": "ed9d0949-afe6-4caa-a325-60988179a550", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 90.905, + 376.104, + 230.943, + 24.451000000000022 + ], + "priority": 3, + "parents": [ + 167379 + ], + "children": [ + 167372 + ], + "area": 34189.73412, + "iscrowd": 0, + "segmentation": [], + "text": "Background and aims" + }, + { + "id": 167372, + "strid": "20fa6818-bc0e-4511-b4f2-cc2b2d24742f", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 89.422, + 430.168, + 608.524, + 264.398 + ], + "priority": 4, + "parents": [ + 167365 + ], + "children": [], + "area": 38466.482896, + "iscrowd": 0, + "segmentation": [], + "text": "Chronic pain remains a significant problem for many patients\nwith spinal cord injury (SCI). According to Model SCI Systems\nthe prevalence of pain ranges from 81% at 1 year after injury\nto 82.7% at 25 years, which can be extremely refractory to\ntreatment.\n\nThe purpose of this work is to report a clinical case of SCI\nwith neuropathic pain, in order to increase the awareness of\nthis situation and enable an improved assessment of this\ndisorder.\n\nKey-words: spinal cord injury; neuropathic pain." + }, + { + "id": 167366, + "strid": "83437dce-e5f2-4635-a047-5e7b4d586e03", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 89.19, + 750.688, + 94.13299999999998, + 20.322000000000003 + ], + "priority": 5, + "parents": [ + 167379 + ], + "children": [ + 167375 + ], + "area": 66953.86271999999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167375, + "strid": "d89c5295-1bf4-4962-a241-89efe118fe18", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.77, + 802.805, + 609.895, + 129.84900000000005 + ], + "priority": 6, + "parents": [ + 167366 + ], + "children": [], + "area": 70462.19484999999, + "iscrowd": 0, + "segmentation": [], + "text": "A literature review was performed in order to assess the\nclinical and therapeutic management of neuropathic pain\nassociated with SCI.\n\nThe authors report a clinical case of a patient with\nneuropathic pain secondary to SCI." + }, + { + "id": 167369, + "strid": "b937b520-6ab1-47ec-8f7d-054d85a665a9", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 89.091, + 989.416, + 134.248, + 25.927999999999997 + ], + "priority": 7, + "parents": [ + 167379 + ], + "children": [ + 167376, + 167373, + 167370 + ], + "area": 88148.060856, + "iscrowd": 0, + "segmentation": [], + "text": "Case Report" + }, + { + "id": 167376, + "strid": "666c8540-6e6b-4746-9b70-525d8815ff9f", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 88.635, + 1041.949, + 609.93, + 239.33799999999997 + ], + "priority": 8, + "parents": [ + 167369 + ], + "children": [], + "area": 92353.14961500002, + "iscrowd": 0, + "segmentation": [], + "text": "The authors present a sixty-six year old male patient with\nincomplete paraplegia secondary to SCI L4-L5 caused by a\nbullet wound in the war 43 years ago. The patient was\nreferred to a Pain Unit Consultation with complaints of severe\nand disabling pain in the lower limbs, particularly in the legs\nand feet, with neuropathic symptoms. Neuropathic pain\nstarted right after the trauma. At the time he had 6/10 at the\nNumeric Pain Scale (NPS), but it’s worsened since 15 years\nago (NPS 10/10; DN4 6/10)." + }, + { + "id": 167373, + "strid": "d70042ba-5af4-46b1-beef-a07259087476", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 758.988, + 387.163, + 609.9390000000001, + 237.43499999999995 + ], + "priority": 9, + "parents": [ + 167369 + ], + "children": [], + "area": 293852.07104400004, + "iscrowd": 0, + "segmentation": [], + "text": "The patient had never done any specific treatment for\nneuropathic pain. He was medicated with acetaminophen\n1000 mg and tramadol 100 mg in SOS.\n\nHe started pharmacological treatment with buprenorphine 35\npg/h transdermal patch and neuromodulation with pregabalin\nin increasing doses (now with 225 mg/day) with good pain\ncontrol (NPS 3-4; 6 in exacerbations) and improvement of\nneuropathic signs, without side effects." + }, + { + "id": 167370, + "strid": "4ceb25a6-d313-4033-ba5a-26cfaffde46b", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 772.12, + 648.38, + 591.707, + 134.68399999999997 + ], + "priority": 10, + "parents": [ + 167369 + ], + "children": [ + 167371 + ], + "area": 500627.1656, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167371, + "strid": "d4772491-0c50-4960-b46f-f6572e3f66ff", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 758.362, + 793.458, + 609.812, + 47.79899999999998 + ], + "priority": 11, + "parents": [ + 167370 + ], + "children": [], + "area": 601728.3957959999, + "iscrowd": 0, + "segmentation": [], + "text": "Table I. Patient's Pain in NPS (0-10) before and after\ntreatment." + }, + { + "id": 167368, + "strid": "c191a393-0f80-4190-b87d-dd9fb277fd16", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 760.171, + 910.471, + 118.21799999999996, + 19.389999999999986 + ], + "priority": 12, + "parents": [ + 167379 + ], + "children": [ + 167374, + 167377 + ], + "area": 692113.6505410001, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 167374, + "strid": "ae935f3c-e0ef-40e0-a1ef-af6da08d9408", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 758.262, + 968.511, + 610.3390000000002, + 316.5450000000001 + ], + "priority": 13, + "parents": [ + 167368 + ], + "children": [], + "area": 734385.0878819999, + "iscrowd": 0, + "segmentation": [], + "text": "The treatment of patients with SCI pain remains challenging\ndespite new available drugs. Pain treatment should always\nbe considered in the context of global management of these\npatients.\n\nTo date few controlled studies have been conducted in SCI\nneuropathic pain.\n\nNeuropathic pain symptoms are characterized by\nspontaneous persistent pain and various abnormally evoked\nresponses, such as allodynia (pain evoked by normally non-\nnoxious stimuli) and hyperalgesia (an increased response to\nnoxious stimuli)." + }, + { + "id": 167377, + "strid": "91987d95-5a56-42d7-b7f1-48dc17892952", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1428.13, + 384.003, + 609.876, + 496.229 + ], + "priority": 14, + "parents": [ + 167368 + ], + "children": [], + "area": 548406.20439, + "iscrowd": 0, + "segmentation": [], + "text": "Neuropathic pain following SCI may be present at or below\nthe level of injury.\n\nSome studies revealed that pregabalin, gabapentin and\namitriptyline can lead to significant reduction in neuropathic\npain following SCI.\n\nA systematic review confirmed the efficacy of pregabalin in\nneuropathic pain associated with SCI (grade A). Pregabalin\n(150-600 mg/d) and gabapentin (1200-3600 mg/d) can be\nconsidered as first line therapy for central pain due to SCI.\nTricyclic antidepressant drugs can also be proposed for first\nline treatment. In patients with a predominant non\nneuropathic component, tramadol (200—400mg BID) can be\nproposed alone or in combination with antiepileptic drugs.\nCannabinoids have been found to relieve other types of\ncentral pain, and opioids relieve peripheral neuropathic\npain and may be used to treat patients with SCI pain." + }, + { + "id": 167367, + "strid": "5a8d3a75-cfec-433d-a8f8-776b8f58f9a0", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1428.094, + 934.882, + 135.30299999999988, + 21.864000000000033 + ], + "priority": 15, + "parents": [ + 167379 + ], + "children": [ + 167378 + ], + "area": 1335099.374908, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 167378, + "strid": "9b1f7bc7-e0e3-4377-88c5-1ef8978133b6", + "image_id": 207034, + "image_name": "6811.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1426.976, + 990.827, + 610.432, + 291.56600000000003 + ], + "priority": 16, + "parents": [ + 167367 + ], + "children": [], + "area": 1413886.3491520002, + "iscrowd": 0, + "segmentation": [], + "text": "This case report shows that, many times, pain associated\nwith SCI is not investigated and valued by clinicians.\nHowever, chronic pain of both neuropathic and nociceptive\ntype is common and contributes to reduced quality of life in\nthese patients. In fact, patients with SCI with neuropathic pain\nusually have other types of pain associated, contributing to a\npoor functional outcome.\n\nNevertheless it’s important not to forget that pharmacological\ntreatment in these patients should be used as part of the\nglobal management of SCI patients including rehabilitation\nand psychological support." + }, + { + "id": 135242, + "strid": "9cb534cf-1653-4652-bee7-f22ac5d3f130", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 187.92, + 133.78, + 257.55000000000007, + 227.84 + ], + "priority": -1, + "parents": [], + "children": [ + 135222, + 135217, + 135223, + 135219, + 135224, + 135220, + 135221, + 135218 + ], + "area": 25139.937599999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135217, + "strid": "c643f3e8-5c9e-410a-bb6a-94a49f33fc5c", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 241.653, + 446.224, + 2822.878, + 108.75299999999999 + ], + "priority": 1, + "parents": [ + 135242 + ], + "children": [], + "area": 107831.36827199999, + "iscrowd": 0, + "segmentation": [], + "text": "Incorporating Practical Anatomy into Team-Based Learning" + }, + { + "id": 135218, + "strid": "07cb4d3b-e945-4c3c-ada8-a9ee3e4728e8", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1309.005, + 601.293, + 716.0990000000002, + 231.976 + ], + "priority": 2, + "parents": [ + 135242 + ], + "children": [], + "area": 787095.5434650001, + "iscrowd": 0, + "segmentation": [], + "text": "Dr. Mohamed A Eladl*\nDr. Akram Jaffar *\nDr. Ayad M Al-Moslih**" + }, + { + "id": 135219, + "strid": "822a4a04-134f-4108-99ef-3029f7434b90", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 139.471, + 1100.736, + 305.576, + 53.48700000000008 + ], + "priority": 3, + "parents": [ + 135242 + ], + "children": [ + 135225 + ], + "area": 153520.75065600002, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 135225, + "strid": "4c625b08-58bc-444f-9c2b-dc483f69217e", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 135.958, + 1170.071, + 1465.954, + 1066.4830000000002 + ], + "priority": 4, + "parents": [ + 135219 + ], + "children": [], + "area": 159080.513018, + "iscrowd": 0, + "segmentation": [], + "text": "Team-based learning (TBL) is a student-centered learning strategy which has been\nadopted in medical education to enhance learning in small groups. TBL consists of\nthree phases. In the first phase, student are provided with objectives and they study\nthe required material independently outside the class. During the second phase, stu-\ndents complete an individual readiness assurance test (iRAT) to assess their basic un-\nderstanding of the facts and concepts related to the objectives for the first phase. This\nis followed by the team readiness assurance test (tRAT), in which pre-assigned teams\nof 5-10 students retake the same test and try to reach to consensus about each an-\nswer. Later, the teams come up with the answer to each question simultaneously and\nany ambiguity is clarified by mutual discussion among the groups and appropriate in-\nstructor feedback. In the third phase, the students work in their teams on assign-\nments that provide them opportunity to apply their knowledge in real world complex\nproblems. All teams work on the same problem simultaneously. The teams may adopt\ndifferent solutions which further enhances the learning experience.\n\nIn spite of its use in many medical disciples, there remains controversy over the effec-\ntiveness of TBL in anatomy education where TBL falls short in adapting to practical\n\nteaching that requires spatial comprehension of the learnt material." + }, + { + "id": 135221, + "strid": "6ddb864c-06d4-454e-a41c-912e77b3e534", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 136.837, + 2312.965, + 388.30600000000004, + 58.61200000000008 + ], + "priority": 5, + "parents": [ + 135242 + ], + "children": [ + 135241 + ], + "area": 316499.191705, + "iscrowd": 0, + "segmentation": [], + "text": "Aim of the work:" + }, + { + "id": 135241, + "strid": "2e1d6e4a-1528-4b8e-a95b-b521d346082c", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 136.199, + 2386.719, + 1465.973, + 237.7159999999999 + ], + "priority": 6, + "parents": [ + 135221 + ], + "children": [], + "area": 325068.741081, + "iscrowd": 0, + "segmentation": [], + "text": "This study aims to describe a novel intervention in the application of traditional TBL\nwhen it comes to anatomy education, by incorporating practical objectives. The study\nalso determines students’ perceptions of the practical-based TBL in comparison with\nthe traditional paper-based TBL in anatomy." + }, + { + "id": 135222, + "strid": "0541d5a9-2e08-48e1-8f16-53e02ecf6832", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 141.164, + 2685.158, + 220.736, + 54.153999999999996 + ], + "priority": 7, + "parents": [ + 135242 + ], + "children": [ + 135237, + 135238, + 135240, + 135234, + 135236, + 135239, + 135235, + 135233 + ], + "area": 379047.64391199994, + "iscrowd": 0, + "segmentation": [], + "text": "Methods:" + }, + { + "id": 135233, + "strid": "7fda6965-acaf-426c-892b-aa7c9122493f", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.327, + 2756.942, + 1463.343, + 1000.672 + ], + "priority": 8, + "parents": [ + 135222 + ], + "children": [], + "area": 381359.516034, + "iscrowd": 0, + "segmentation": [], + "text": "Eighty six second year students medical students at the University of Sharjah during\nthe academic year 2013-2014 participated in this study. Students were subjected to\ntwo formative test setups; one was a conventional paper-based. The second was a\nnovel intervention in the form of model-based and computer-based objective struc-\ntured practical examination (OSPE) that was organized to conform with TBL settings.\nQuestions were selected to cover the same objectives in both tests with nearly the\nsame answers. A briefing session preceded the tests allowing the tutors to explain the\nmethods for the students. Students took each test in two successive formats: individ-\nually (iRAT) and in teams (tRAT). In the OSPE setup, individual students rotated\naround the practical stations in the form of a steeplechase examination during the\niRAT. For the subsequent tRAT, photographs of the stations were projected in the\nclassroom to groups of eight students each. In the conventional paper-based setup,\nmultiple choice questions (MCQs) were projected to students by using a timed Power-\nPoint presentation. The session was concluded by revision of the questions and tu-\ntors’ wrap-up. Students’ perception (N=86) regarding suitability and effectiveness of\n\nthe new approach was sought through a self-administered questionnaire, using a five-" + }, + { + "id": 135234, + "strid": "a6e8c256-0f6c-4171-8233-596778edbf02", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.053, + 3773.754, + 455.384, + 46.251000000000204 + ], + "priority": 9, + "parents": [ + 135222 + ], + "children": [], + "area": 524751.814962, + "iscrowd": 0, + "segmentation": [], + "text": "response Likert-type scale." + }, + { + "id": 135235, + "strid": "aa17fe70-6ab9-47cd-b2b8-2b47457e7c52", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 159.901, + 3849.909, + 428.1789999999999, + 320.413 + ], + "priority": 10, + "parents": [ + 135222 + ], + "children": [], + "area": 615604.2990090001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135236, + "strid": "6036fbf8-6941-4140-a807-1280f2c821be", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 633.703, + 3792.351, + 396.97399999999993, + 387.9569999999999 + ], + "priority": 11, + "parents": [ + 135222 + ], + "children": [], + "area": 2403224.205753, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135237, + "strid": "fda27383-1af1-4e80-a424-03204a66d904", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1108.744, + 3842.388, + 466.529, + 334.0050000000001 + ], + "priority": 12, + "parents": [ + 135222 + ], + "children": [], + "area": 4260224.640671999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135240, + "strid": "a8d3c29c-dbca-4a06-b54d-de2a6e81f2d2", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 189.63, + 4180.37, + 318.744, + 355.27300000000014 + ], + "priority": 13, + "parents": [ + 135222 + ], + "children": [], + "area": 792723.5630999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135239, + "strid": "3a308be0-0748-4a30-a949-e42abcdfed28", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 607.195, + 4186.839, + 447.2289999999999, + 348.22999999999956 + ], + "priority": 14, + "parents": [ + 135222 + ], + "children": [], + "area": 2542227.706605, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135238, + "strid": "4a3a252f-04bc-47af-8888-d95e9b6667fc", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1109.374, + 4199.608, + 446.10699999999997, + 334.64800000000014 + ], + "priority": 15, + "parents": [ + 135222 + ], + "children": [], + "area": 4658935.925392, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135220, + "strid": "ed155182-835e-4e4f-a49f-69d3314112c2", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1667.083, + 1100.188, + 169.75600000000009, + 46.041999999999916 + ], + "priority": 16, + "parents": [ + 135242 + ], + "children": [ + 135229, + 135228, + 135226, + 135227, + 135230 + ], + "area": 1834104.7116040003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 135226, + "strid": "f23f4abe-474e-450c-a81e-d4029d9f2162", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1662.659, + 1160.275, + 1475.156, + 366.18100000000004 + ], + "priority": 17, + "parents": [ + 135220 + ], + "children": [], + "area": 1929141.6712250002, + "iscrowd": 0, + "segmentation": [], + "text": "There was an agreement in students’ perception that the practical-based setup was an\nessential companion to paper-based TBL but not an alternative (k ranged from 0.441\nto 0.822 with significant P-value < 0.0001).\n\nStudents agreed/strongly agreed that both the conventional paper-based and the\nOSPE test were useful educational tools. Table-1 shows a comparison of highest rank-\ning aspects of both tests." + }, + { + "id": 135227, + "strid": "93c97354-4254-4673-8976-02a9c44111c2", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1661.998, + 1543.673, + 1461.6510000000003, + 397.462 + ], + "priority": 18, + "parents": [ + 135220 + ], + "children": [], + "area": 2565581.438654, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135228, + "strid": "822c0a0f-982b-438e-9c25-bad13d25a859", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1666.683, + 1956.889, + 1042.973, + 49.63799999999992 + ], + "priority": 19, + "parents": [ + 135220 + ], + "children": [], + "area": 3261513.629187, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 135229, + "strid": "09367582-d396-489d-b5f6-3f34af42464d", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1998.954, + 2026.621, + 786.78, + 290.6579999999999 + ], + "priority": 20, + "parents": [ + 135220 + ], + "children": [], + "area": 4051122.154434, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135230, + "strid": "203b7413-c718-47f9-9bdb-b5420af57682", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1768.272, + 2382.219, + 1268.1530000000002, + 812.4780000000001 + ], + "priority": 21, + "parents": [ + 135220 + ], + "children": [], + "area": 4212411.155568, + "iscrowd": 0, + "segmentation": [], + "text": "“OSPE TBL is a very good addition to the paper-based questions; the two\nmethods together make the anatomy understanding much easier”\n\n“OSPE TBL allows students to connect different concepts together and in-\n\ncrease the confidence.”\n\n“This method of learning is very beneficial, it focus on the important as-\npects of the practical anatomy and make things much simpler.”\n\n“Seeing actual 3D models accompanied with questions helps much.”\n\n‘A very effective method of learning especially with 3D models & comput-\n\ner images.”" + }, + { + "id": 135223, + "strid": "f5c7704b-25fd-44d6-bdda-34986b842c3a", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1663.302, + 3332.26, + 287.731, + 54.891999999999825 + ], + "priority": 22, + "parents": [ + 135242 + ], + "children": [ + 135231 + ], + "area": 5542554.72252, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 135231, + "strid": "f34aa832-4e3f-4053-979e-42c8c822ed2e", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1664.83, + 3403.294, + 1473.101, + 199.42200000000003 + ], + "priority": 23, + "parents": [ + 135223 + ], + "children": [], + "area": 5665905.950019999, + "iscrowd": 0, + "segmentation": [], + "text": "Practical-based TBL is a valuable learning strategy that can be used in anato-\nmy education to enhance small group learning without jeopardizing the spa-\n\ntial attributes of knowledge acquisition." + }, + { + "id": 135224, + "strid": "a4bd5d08-8fa3-4bb9-a1d2-40be8f853355", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1664.006, + 3663.473, + 500.1099999999999, + 57.40000000000009 + ], + "priority": 24, + "parents": [ + 135242 + ], + "children": [ + 135232 + ], + "area": 6096041.0528380005, + "iscrowd": 0, + "segmentation": [], + "text": "Selected References:" + }, + { + "id": 135232, + "strid": "f5ba1bfb-4972-47f5-8c4f-b697dcb7a380", + "image_id": 205742, + "image_name": "15818.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1662.767, + 3729.366, + 1472.1739999999998, + 466.1970000000001 + ], + "priority": 25, + "parents": [ + 135224 + ], + "children": [], + "area": 6201066.715722, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71169, + "strid": "beea2b9f-a621-4477-9bdf-914b47a6db59", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 9.42, + 179.25, + 175.51000000000002, + 96.52999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 71166, + 71151, + 71152, + 71149, + 71154, + 71150, + 71153, + 71155 + ], + "area": 1688.535, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71149, + "strid": "f14c2387-ea93-4e78-8a4c-8ecfd759b615", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 229.155, + 18.495, + 2043.852, + 224.917 + ], + "priority": 1, + "parents": [ + 71169 + ], + "children": [], + "area": 4238.221725, + "iscrowd": 0, + "segmentation": [], + "text": "“Needle in the Haystack”\nUtilizing newer imaging tools to delineate etiology of neuropsychiatric\nsyndromes a case report" + }, + { + "id": 71150, + "strid": "fc72f9e8-e064-446f-9083-3e631deb4ff9", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 304.917, + 246.935, + 1793.4430000000002, + 57.09300000000002 + ], + "priority": 2, + "parents": [ + 71169 + ], + "children": [], + "area": 75294.679395, + "iscrowd": 0, + "segmentation": [], + "text": "Garima Arora,!? Omar Hasan’2,- Karyn Korsah’, and Paul E. Schulz, MD1:23" + }, + { + "id": 71151, + "strid": "948049a6-f310-49ea-b103-05cfb40b8d29", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 227.555, + 333.704, + 294.282, + 42.47399999999999 + ], + "priority": 3, + "parents": [ + 71169 + ], + "children": [ + 71156 + ], + "area": 75936.01372, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 71156, + "strid": "c4ab9ce5-19e8-435c-9206-f2de94b9d056", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 17.46, + 404.833, + 710.585, + 531.289 + ], + "priority": 4, + "parents": [ + 71151 + ], + "children": [], + "area": 7068.384180000001, + "iscrowd": 0, + "segmentation": [], + "text": "Cognitive dysfunction is the-hallmark of\nneurodegenerative disorders, but can also occur in other\nneuropsychiatric disorders, including major depressive\ndisorder (MDD) with psychosis, bipolar disorder, and\nschizophrenia. Neuropsychological testing (NPT) and\nmagnetic. resonance imaging (MRI) have been mainstays\nforexplicating diagnoses but the diagnostic accuracy has\nonly been about 75%. Newer imaging techniques, such\nas amyloid PET imaging and dopamine/transporter (DAT)\nSPECT scans, are greatly enhancing our accuracy during\n\nlife with regard to neuropsychiatric. disorders." + }, + { + "id": 71155, + "strid": "0e9d5882-159e-4d35-98ea-fa9b82b77d30", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 284.889, + 974.597, + 179.159, + 42.73400000000004 + ], + "priority": 5, + "parents": [ + 71169 + ], + "children": [ + 71164 + ], + "area": 277651.96473300003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 71164, + "strid": "073aa1fb-c2c6-4dd2-9f98-fc9802669d7a", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 19.225, + 1047.645, + 722.655, + 882.1480000000001 + ], + "priority": 6, + "parents": [ + 71155 + ], + "children": [], + "area": 20140.975125, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71152, + "strid": 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"Figure 2: DaT® SPECT Scan" + }, + { + "id": 71163, + "strid": "24dc50e8-e331-42da-828e-ed86fe50b5f6", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 756.135, + 1530.758, + 876.758, + 431.5910000000001 + ], + "priority": 12, + "parents": [ + 71152 + ], + "children": [ + 71161 + ], + "area": 1157459.70033, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71161, + "strid": "0982a7a6-4e31-4dcb-8a10-681f24e6776e", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1017.444, + 1981.121, + 364.37200000000007, + 22.989000000000033 + ], + "priority": 13, + "parents": [ + 71163 + ], + "children": [], + "area": 2015679.674724, + "iscrowd": 0, + "segmentation": [], + "text": "Figufe 3: Amyvid® (Florbetapir) PET Scan" + }, + { + "id": 71153, + "strid": "882d5aa7-f77e-4887-868f-1cb5f4362ad6", + "image_id": 203275, + "image_name": "119978.png", + "category_id": 5, 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The diagnosis can remain elusive after\nemploying traditional diagnostic tools( Novel\nimaging tools greatly enhance our diagnostic\naccuracy during life and can lead to:significant\nchanges in the treatment plan_and prognosis." + }, + { + "id": 53883, + "strid": "0d855daf-3f64-4ba3-8ade-08328bd5748a", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 65.77, + 210.03, + 279.75, + 346.64 + ], + "priority": -1, + "parents": [], + "children": [ + 53875, + 53877, + 53872, + 53869, + 53867, + 53865, + 53871, + 53882, + 53866, + 53868, + 53881, + 53879, + 53880, + 53874, + 53873, + 53876, + 53870, + 53878 + ], + "area": 13813.6731, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 53865, + "strid": "0e5c5c90-8f41-4297-97cd-a1bb78916236", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 46.917, + 12.962, + 2549.211, + 409.662 + ], + "priority": 1, + "parents": [ 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STUDY SYSTEM-" + }, + { + "id": 53868, + "strid": "fd0c8d54-bfa9-4994-9b22-c5c06bf98a8a", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.395, + 1287.288, + 719.182, + 109.51999999999998 + ], + "priority": 4, + "parents": [ + 53883 + ], + "children": [], + "area": 73883.89476000001, + "iscrowd": 0, + "segmentation": [], + "text": "THEY BUILT ONE MODEL FOR THE\nPOLLINATORS UNDER THE Sky---" + }, + { + "id": 53882, + "strid": "2f76a25a-8ed4-41ab-8506-64e4419c1ea5", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 33.019, + 1346.958, + 791.027, + 689.0140000000001 + ], + "priority": 5, + "parents": [ + 53883 + ], + "children": [], + "area": 44475.206202, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 53869, + "strid": "8ebd94d4-bebd-4678-8593-e6ae852e26b1", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": 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"segmentation": [], + "text": "---AND ONE FOR THE\nPESTS DOOMED TO DIE-" + }, + { + "id": 53880, + "strid": "891f0f40-b4f6-4311-8899-eb3105a7fe17", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1801.039, + 1296.031, + 790.9759999999999, + 687.9110000000001 + ], + "priority": 9, + "parents": [ + 53883 + ], + "children": [], + "area": 2334202.3762089997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 53871, + "strid": "a2a9d4b3-eb10-4095-a44b-e6ddd6b7d77e", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.777, + 2069.676, + 476.12600000000003, + 202.2869999999998 + ], + "priority": 10, + "parents": [ + 53883 + ], + "children": [], + "area": 158903.514252, + "iscrowd": 0, + "segmentation": [], + "text": "ALL OF THEM WERE\nGOOD MODELS, BUT\n\nDID NOT EXPLAIN MUCH\nVARIANCE.---" + }, + { + "id": 53872, + "strid": "e52ecfda-2858-4c9b-b58d-23abc9fef4f8", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 330.703, + 2225.146, + 1199.387, + 124.09000000000015 + ], + "priority": 11, + "parents": [ + 53883 + ], + "children": [], + "area": 735862.457638, + "iscrowd": 0, + "segmentation": [], + "text": "---UNTIL THEY JOINED THEM IN ONE SINGLE MODEL- ONE\nGLMM TO FIT THEM ALL AND IN THE LIGHTNESS BIND THEM-" + }, + { + "id": 53874, + "strid": "b1312ad5-9ea0-4bc3-968d-f5776cbccda2", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 439.582, + 2581.965, + 799.0080000000002, + 126.03699999999981 + ], + "priority": 12, + "parents": [ + 53883 + ], + "children": [], + "area": 1134985.3386300001, + "iscrowd": 0, + "segmentation": [], + "text": "TOTAL VARIANCE EXPLAINED (Re? )\nINCREASED UP TO 0-45" + }, + { + "id": 53873, + "strid": "317ef40d-1f07-4f98-90c5-f6036ceb6f61", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1260.337, + 2362.32, + 419.20399999999995, + 369.6619999999998 + ], + "priority": 13, + "parents": [ + 53883 + ], + "children": [], + "area": 2977319.3018400003, + "iscrowd": 0, + "segmentation": [], + "text": "AND THEY ALSO\nFOUND AN\nINTERACTION\nBETWEEN SOIL AND\n\nPESTS SHOWING\nTHAT GOOD SOIL\nCAN COMPENSATE\nFOR PEST DAMAGE" + }, + { + "id": 53879, + "strid": "a90c0658-17ee-441d-8237-f3adfbfe0e02", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1653.061, + 2145.005, + 774.9239999999998, + 674.9409999999998 + ], + "priority": 14, + "parents": [ + 53883 + ], + "children": [], + "area": 3545824.110305, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 53875, + "strid": "e3596ec4-9818-4274-9508-92518fc4bce8", + "image_id": 202620, + "image_name": "118965.png", + "category_id": 3, + "category_name": "Text", + "bbox": 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Sandra Tamm', Paolo d'Onofrio’, Johanna Schwafz?*Goran Kecklund’, Mats Lekander'’, Torbjorn Akerstedt!2, Hakan Fischer?\n\n' Karolinska Institutet, Stockholm, Sweden, &Stockholm University, Stockholm, Sweden" + }, + { + "id": 31194, + "strid": "bc0d9e87-f78e-4aea-8d9e-91135e85fd68", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 88.396, + 352.6, + 263.309, + 42.365999999999985 + ], + "priority": 3, + "parents": [ + 31209 + ], + "children": [ + 31198 + ], + "area": 31168.429600000003, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 31198, + "strid": "d9508ba8-e19e-4ccc-bf64-44392cf7b782", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.683, + 406.999, + 1180.261, + 86.79599999999999 + ], + "priority": 4, + "parents": [ + 31194 + ], + "children": [], + "area": 35686.893317, + "iscrowd": 0, + "segmentation": [], + "text": "These findings provide proof of principle for the detection of facial mimicry by\nEMG during fMRI scanning." + }, + { + "id": 31195, + "strid": "06cd8d8f-998e-4cd5-b258-2fc294bc88e5", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.547, + 543.709, + 258.9649999999999, + 53.04600000000005 + ], + "priority": 5, + "parents": [ + 31209 + ], + "children": [ + 31199 + ], + "area": 46512.673823, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 31199, + "strid": "2a229af6-aa5e-44a6-b5b0-d057570cea3a", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.182, + 596.943, + 1149.504, + 223.88 + ], + "priority": 6, + "parents": [ + 31195 + ], + "children": [], + "area": 49057.969626, + "iscrowd": 0, + "segmentation": [], + "text": "Mimicry of observed emotional expressions occurs automatically and can be\nmeasured using electromyography (EMG)'. MRI pulse sequences cause con-\nsiderable noise in EMG recordings. We investigated whether facial mimicry\ncan be measured by EMG during fMRI scanning. To the best of our knowl-\nedge, this has not been reported before." + }, + { + "id": 31196, + "strid": "145652aa-8aa2-4b97-9ef3-c8ada48e3bcd", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 86.112, + 878.921, + 191.148, + 41.855999999999995 + ], + "priority": 7, + "parents": [ + 31209 + ], + "children": [ + 31200 + ], + "area": 75685.645152, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31200, + "strid": "5fc28b6c-6235-484f-b7c5-8d107f67c99c", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.576, + 932.27, + 1183.124, + 716.9850000000001 + ], + "priority": 8, + "parents": [ + 31196 + ], + "children": [], + "area": 75118.58751999999, + "iscrowd": 0, + "segmentation": [], + "text": "11 healthy volunteers underwent EMG recordings during fMRI scanning. Sub-\njects were shown happy, angry, or neutral facial expressions from the Karolins-\nka Directed Emotional Faces (KDEF) stimulus set”. Pictures were presented in\na block design showing 20 consecutive faces with the same expression for 0.5\n\ns each with an interval of 0.5 s (Fig. 1). Four blocks were shown of each emo-\ntion. EMG was recorded using pre-gelled circular 1 cm-diameter radiotrans-\nlucent electrodes on 3.8 cm circular vinyl backing. Radiotranslucent clip leads\nwere connected through a patch panel connector to Biopac EMG amplifiers in\nthe control room. To remove scanner noise, EMG signals were processed ac-\ncording to a procedure proposed by Heller et al*. A comb band stop filter with\na base frequency corresponding to the number of slices/TR was used. Further-\nmore, a 30-300 Hz band pass filter was applied to exclude electrical activity not\noriginating in muscle, and a 49-51 Hz band stop filter was used to remove line\nfrequency noise. Average rectified EMG signal was calculated for bins of 1 s\nduring each block. A mixed effects model was fitted with condition as random\nvariable and subject as fixed variable." + }, + { + "id": 31197, + "strid": "538c8711-fab4-4914-b497-202ee0bb7206", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.678, + 1707.757, + 152.569, + 42.27399999999989 + ], + "priority": 9, + "parents": [ + 31209 + ], + "children": [ + 31201 + ], + "area": 146317.204246, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 31201, + "strid": "91c85dce-62e6-4e18-8712-d8bd6d63de49", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.791, + 1763.116, + 1175.48, + 175.91100000000006 + ], + "priority": 10, + "parents": [ + 31197 + ], + "children": [], + "area": 144207.02075599998, + "iscrowd": 0, + "segmentation": [], + "text": "EMG activity from the superciliary corrugator muscle was greater when view-\ning angry faces than when viewing happy faces (Fig. 3, p < 0.01). EMG activity\nfrom the major zygomatic muscle was not significantly greater when viewing\nhappy faces than when viewing angry faces (Fig. 2)." + }, + { + "id": 31202, + "strid": "37e0d71b-8c0f-4202-99ac-78157fc6fada", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1400.82, + 482.316, + 1458.2480000000003, + 996.1029999999998 + ], + "priority": 11, + "parents": [ + 31209 + ], + "children": [ + 31208 + ], + "area": 675637.89912, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31208, + "strid": "eef89100-d51c-4dae-8b1c-ec9c7a1e76eb", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1320.413, + 459.895, + 110.50199999999995, + 37.05099999999999 + ], + "priority": 12, + "parents": [ + 31202 + ], + "children": [], + "area": 607251.336635, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1" + }, + { + "id": 31203, + "strid": "b4f5ef83-0f22-4462-9d70-047ff9af197e", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2967.059, + 414.675, + 871.3490000000002, + 856.0550000000001 + ], + "priority": 13, + "parents": [ + 31209 + ], + "children": [ + 31207 + ], + "area": 1230365.1908250002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31207, + "strid": "045aa812-bfc0-4ce2-9c47-fb3a83e3266b", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2961.069, + 353.789, + 114.6239999999998, + 36.66300000000001 + ], + "priority": 14, + "parents": [ + 31203 + ], + "children": [], + "area": 1047593.640441, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2" + }, + { + "id": 31204, + "strid": "491f3b02-79f9-4c23-9cfc-3fc256bd411e", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2974.462, + 1383.148, + 863.9949999999999, + 849.961 + ], + "priority": 15, + "parents": [ + 31209 + ], + "children": [ + 31206 + ], + "area": 4114121.166376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31206, + "strid": "2c5a783c-f67b-45f9-86a1-0c208686708b", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2962.45, + 1320.558, + 112.42299999999977, + 35.30400000000009 + ], + "priority": 16, + "parents": [ + 31204 + ], + "children": [], + "area": 3912087.0470999996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3" + }, + { + "id": 31205, + "strid": "39aad9d2-3be4-46e8-805e-58e6eed38af8", + "image_id": 201724, + "image_name": "117575.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1336.544, + 1689.726, + 1335.0089999999998, + 269.80200000000013 + ], + "priority": 17, + "parents": [ + 31209 + ], + "children": [], + "area": 2258393.1469440004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59228, + "strid": "893c32f7-edfd-4dc8-a53f-20e8273dd364", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 392.16, + 62.65, + 359.04, + 183.04 + ], + "priority": -1, + "parents": [], + "children": [ + 59196, + 59197, + 59199, + 59198, + 59194, + 59195, + 59201, + 59200 + ], + "area": 24568.824, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59194, + "strid": "bd574d4c-af54-484f-b2af-fc993dd788fb", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 805.851, + 54.329, + 2112.422, + 279.345 + ], + "priority": 1, + "parents": [ + 59228 + ], + "children": [], + "area": 43781.078979, + "iscrowd": 0, + "segmentation": [], + "text": "Frequency of ily Papilloma Virus (HPV) a\nexpression 1 ae rront with head and ee to\ncarcinoma (HNSCC) in Concepcion, Chile" + }, + { + "id": 59195, + "strid": "432c37b5-cfac-44e8-aef4-2a366034ffb6", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 714.695, + 358.685, + 2088.933, + 107.94599999999997 + ], + "priority": 2, + "parents": [ + 59228 + ], + "children": [], + "area": 256350.376075, + "iscrowd": 0, + "segmentation": [], + "text": "S.Montenegro', C. Delgado! T. de la Barra *, S. Pineda”, C. Reyes’, P. Villalobos!” C. Palma’, F.Mucientes!;\n'Universidad de Coneepeion, Facultad de Medicina; *Hospital Guillermo Grant.Benavente, Concepcién, Chile" + }, + { + "id": 59196, + "strid": "ae201cad-e772-4aa6-aaa4-e967f3f0b2b6", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 28.932, + 486.672, + 228.585, + 33.83699999999999 + ], + "priority": 3, + "parents": [ + 59228 + ], + "children": [ + 59206 + ], + "area": 14080.394304, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 59206, + "strid": "c6ce9b7f-fee9-4a14-a8e6-5b6743e69fb1", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 28.771, + 539.104, + 3474.697, + 898.2439999999999 + ], + "priority": 4, + "parents": [ + 59196 + ], + "children": [], + "area": 15510.561184000002, + "iscrowd": 0, + "segmentation": [], + "text": "BACKGROUND: Oncogenic HPV (HPV-16, -18) are etidlogically related to a subset of HNSCC that present a.different carcinogenesis compared with HPV-negative tumours. Strong evidence\nsuggests that HPV positive status is an important(@prognostic factor associated with a favorable outcome im¢head and neck cancer and that expression of p16 correlates with the presence of\ntranscriptionally active high-risk HPV. We determined HPV genotype and frequency associated with p16 expression in Chilean patients with HNSCC of various tumour Sites and types and with\nand without the known risk factors of drinking ‘and or smoking.\n\nMETHODS. Retrospective Study (20022008) of 90 patients of 34 to 85 years old, 77% male and 23.%‘female. Archival biopsies histologically confirmed with HNSCC and TNM graded were\nanalysed. : oral cavity(OC) n=51, orephar ynx (OP) n=22 and hypo-phar ynx (HP) n=17. Tumours DI/TI grade: n=55 with 27% lymph node (LN) involvement and no metastasis; TI/TIV\n\nn= 24 with 59% LN compromise ‘and one metastasis. Biopsy Processing. Areas with >60%tumour cells were cut in 3 um sections for IHC and inySyin sections that were deparaffinised,\ndigested and DNA extracted following standard procedure. Only samples with amplifiabl@,DNA were used. HPV Detection. Real time and nested’PCR with consensus GP5/GP6 primer\nsequences (outer) and designed\\génotype specific inners sequences within the L1 ORF geneé*were used. Expression of pl6INK4a. A CINtec®Rochexkit with monoclonal p16 antibody for IHC\nwas used following manufacturing instructions.\n\nRESULTS. HPV Frequency /Genotype according to Tumour Site: OC 73%HPV(30% -16; 49% -18, 19% -35,-45). OP: 64% HPV(29% -1.65.14% -18, 50% -35,-45). HP:59%HPV (30% -16;\n70% - 18). HPV Freqtiency / Genotype according to Tumour Grade: TI/TIL (62% OC, 31%OP and 7%HP):73% HPV (50% -18; 25% 45;.22% -16). TILI/IV(29% OC, 21%OP and 50%HP)\n: 50% HPV (50% -16, 42% -18). HNSCC grouping according to p16 expression and HPV status: HPV pos/ p16 pos.: 34% ( HPV-1'6 and HPV-18); tumour site 55% OC, 26% OP, 19% HP;\nHPV pos./p16 nég. 29% (HPV-18) tumour site 69% OC,15% OP,15% HPs HPVneg. /p16 pos. 16% tumour site 64% oral, 21% OP, J4%HP ; HPV neg./p16 neg. 17% tumour site 33% each site.\nCONCLUSIONS. A high frequency of HPV infection of 68% with 5% p16 overexpression in HNSCC that were most of early stage I and II suggests the oncogenic potential of HPV in the\ndevelopment of this cancer and the need to screen for HPV. Oncogenic’ HPV-18 predominated in OC and HP whereas HPV-16 ‘was present in all anatomic sites. Only 17% of patients did\\\\not\npresented-either HPV infection or p16 expression. , , ," + }, + { + "id": 59197, + "strid": "d04651a6-52e8-44de-a7e8-3a18bf7e90bc", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 27.167, + 1451.45, + 368.726, + 40.61699999999996 + ], + "priority": 5, + "parents": [ + 59228 + ], + "children": [ + 59207 + ], + "area": 39431.54215, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 59207, + "strid": "9adcb0d0-e416-478c-8e75-8baea3066d82", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 26.617, + 1535.696, + 1754.787, + 433.29099999999994 + ], + "priority": 6, + "parents": [ + 59197 + ], + "children": [], + "area": 40875.620431999996, + "iscrowd": 0, + "segmentation": [], + "text": "PV not only causes genital and anal cancers, but also a etof HNSCC that accounts for about 8%\n\nf newly diagnosed cancers worldwide, with an overal earSurvival rate of only 40-50% in patients.\nWhile HPV is an important cause of oropharyngeal ( cancer, being detected in 45-90% of cases, it is\ncurrently unclear whether HPV may also have a role inother head and neck cancers sub-sites. The HPV\nis localized in the transcriptionally active cell lei in cancerous tissues, and not in the surrounding\nbenign tissue . To investigate the associati PV involvement in head and neck carcinogenesis,\nHPV status and p16 expression were ana y PCR-based methods and p16 IHC and correlated to\ntumour site, clinical-pathological aspec alcohol and tobacco exposure in 90 Chilean patients\nHNSCC. ~ 0%\n\n \n \n \n\n_" + }, + { + "id": 59198, + "strid": "4b2f528d-ef7e-4019-a3b0-3c77d63326e5", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 29.47, + 1976.197, + 256.36799999999994, + 38.7829999999999 + ], + "priority": 7, + "parents": [ + 59228 + ], + "children": [ + 59209, + 59210, + 59208 + ], + "area": 58238.52559, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 59208, + "strid": "eae22944-5c77-4cdc-802d-6b6edff42f32", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 20.418, + 2034.064, + 1772.186, + 351.01300000000015 + ], + "priority": 8, + "parents": [ + 59198 + ], + "children": [], + "area": 41531.518752, + "iscrowd": 0, + "segmentation": [], + "text": "Retrospective Study (2002-2008)wAnalysis of 90 archival biopsies from 90 patients , 69-male and 21\nfemale aged from 34 to 85 yeaf§ old. Risk factors regarding smoking and drinking habits were recorded\nfor most patiemtes. Biopsy, Analysis. All biopsies were histologically diagnosed by/a pathologist and\ntumour site, stage and\\carcinoma type were analyzed. HPV Detection Real time and nested PCR\nutilizing consensus “GP5/GP6 primer sequences (outer) and specific HPVgenotype inner sequences\ndesigned within(the L1 ORF gene. To increase sensitivity in PET samples nested/PCR product averaged\n90bp. For real time PCR only specific genotype inner sequences were used." + }, + { + "id": 59209, + "strid": "c45e6c5d-54d6-495a-8303-28272cf42148", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 22.558, + 2412.901, + 1622.363, + 128.41899999999987 + ], + "priority": 9, + "parents": [ + 59198 + ], + "children": [], + "area": 54430.220757999996, + "iscrowd": 0, + "segmentation": [], + "text": "Selectéd pyimer sequences HPV genotypes\nHPV 16 FxS?CATTATGTGCTGCCATATCTACTT-3’/ HPV 18 F: 5’°-TGCTTCTACAGAGTCTCCTGTACCT-3’\nHPY J6R: 5’°-CATATTCCTCECCCATGTCGT-3’/ HPV18R: 5°} AACTGCAAATCATATTCCTCAACA-3’." + }, + { + "id": 59210, + "strid": "bdd3ef71-5ab8-403f-bec1-2faf22f0a6f4", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.012, + 2566.93, + 1764.668, + 670.81 + ], + "priority": 10, + "parents": [ + 59198 + ], + "children": [], + "area": 64204.053159999996, + "iscrowd": 0, + "segmentation": [], + "text": "Real Time PCR: Fast PCR master mix 2X (ABS) was used with 0.6uM primers at a final vol 10ul.\nStep-One real time TC program: 95°C/20s;40 cycles of .95°€/3s, 60°C/30s. CT positive range 15-30\ncycles and a 0.2. fluorescence threshold value.\n\nNested PCR .Outer primers GP5+/GP6+ and inner\\primers sequences of HPV-16 and HPV-18 are\nshown. Master mix: 34mM MgCl2, 0.1uM outerprimers and 0.6 uM inner in a 10ul vol. Target DNA\n3ul in outer reaction, lul PCR product outer fordnner reaction..\n\nTC Program: PCR outer: 95°C/3 min; 20 cycles’ 95°C/20s, 45°C/35s, 72°C/35s, final extension 72°C/7\nmin. PCR inner: 95°C/ 3 min, 30 cycles95°C/25s, 50°C/30s y 72°C/30s final extension 72°C/7 min.\n\nExpression of p16!NS*2, CINtec®Roehe kit with monoclonal p16 antibody (clone E6H4®)¢for\nimmunohistochemistry was used, (following manufacturing instructions. Brown staining of tumorvcell\nnuclei and cytoplasm of tumoral\\cells was interpreted as positive. Cases with p16 immunostai that\nshowed intense diffuse, continuous, and confluent nuclear and cytoplasmic staining of tumourtells were\nconsidered as positive according to previously published criteria." + }, + { + "id": 59199, + "strid": "c71d7165-3824-49eb-b591-cfd7f86e01bf", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 29.135, + 3280.381, + 224.152, + 38.141999999999825 + ], + "priority": 11, + "parents": [ + 59228 + ], + "children": [ + 59226, + 59205, + 59213, + 59203, + 59212, + 59220, + 59211, + 59216, + 59218, + 59219, + 59202, + 59215, + 59227, + 59221, + 59204, + 59222, + 59214, + 59217, + 59225 + ], + "area": 95573.900435, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 59204, + "strid": "4a832086-86e8-4a24-8262-ecccba981253", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.179, + 3358.08, + 1623.853, + 49.60500000000002 + ], + "priority": 12, + "parents": [ + 59199 + ], + "children": [], + "area": 121491.97632, + "iscrowd": 0, + "segmentation": [], + "text": "HPV Status and anatomic site of HN tumours in male and female patients" + }, + { + "id": 59211, + "strid": "a7740e66-33ff-4a76-9b9e-e9169d149ecb", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 23.909, + 3427.907, + 1737.578, + 922.6890000000003 + ], + "priority": 13, + "parents": [ + 59199 + ], + "children": [], + "area": 81957.828463, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59205, + "strid": "17252e48-8040-4461-9511-30782b2d5e4f", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 285.811, + 4389.573, + 1234.579, + 46.858000000000175 + ], + "priority": 14, + "parents": [ + 59199 + ], + "children": [], + "area": 1254588.248703, + "iscrowd": 0, + "segmentation": [], + "text": "HP YV status and P16 expression in Chilean patients with HNSCC" + }, + { + "id": 59212, + "strid": "eaa140f3-fbc4-416f-9c6e-1b378a9cd612", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 36.035, + 4488.241, + 830.218, + 596.7209999999995 + ], + "priority": 15, + "parents": [ + 59199 + ], + "children": [], + "area": 161733.764435, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59213, + "strid": "b948cde7-3c6f-4c27-a201-526af90561d2", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 967.778, + 4491.544, + 766.1200000000001, + 557.3959999999997 + ], + "priority": 16, + "parents": [ + 59199 + ], + "children": [], + "area": 4346817.469232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59202, + "strid": "2bf740d7-75f0-4dc4-8e8c-ff612e57b98e", + "image_id": 202843, + "image_name": "119338.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ 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"iscrowd": 0, + "segmentation": [] + }, + { + "id": 141628, + "strid": "9af68aad-f5f2-4aa4-92ab-ad894dd9a2e2", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 54.27, + 241.01, + 110.32, + 148.94 + ], + "priority": -1, + "parents": [], + "children": [ + 141598, + 141603, + 141597, + 141601, + 141602, + 141600, + 141599, + 141625 + ], + "area": 13079.6127, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141597, + "strid": "33505096-1490-49a1-8028-e03bc8e82979", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 214.732, + 228.9, + 1642.638, + 63.22999999999999 + ], + "priority": 1, + "parents": [ + 141628 + ], + "children": [], + "area": 49152.154800000004, + "iscrowd": 0, + "segmentation": [], + "text": "Automatic Detection of Pulsed Vocalizations" + }, + { + "id": 141598, + "strid": "3e29ce7c-8a8e-4d39-898d-70c0c7e7f0a9", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 220.456, + 326.071, + 1531.636, + 96.47399999999999 + ], + "priority": 2, + "parents": [ + 141628 + ], + "children": [], + "area": 71884.308376, + "iscrowd": 0, + "segmentation": [], + "text": "Detecting anurans in field audio by the freuency and repetition rate of their calls\n\nSam Lapp, Lauren Schicker, Justin Kitzes" + }, + { + "id": 141599, + "strid": "51c7efcf-5f20-422d-bd73-be24a229337b", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 125.235, + 512.259, + 540.15, + 41.09299999999996 + ], + "priority": 3, + "parents": [ + 141628 + ], + "children": [ + 141604 + ], + "area": 64152.755865, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 141604, + "strid": "de1b6a11-44e0-4e73-ae3e-0e8c45acc6a9", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.498, + 628.081, + 925.865, + 677.756 + ], + "priority": 4, + "parents": [ + 141599 + ], + "children": [], + "area": 80079.07133800001, + "iscrowd": 0, + "segmentation": [], + "text": "Many anurans (frogs and toads) produce periodic or\n“pulsed” vocalizations that consist of simple, repeating\nunits. When recorded using a microphone, the pulses\nshow up as spikes in amplitude.\n\nThis pulsing may be slow (one pulse per second) or\nfast (more than 100 pulses per second). Some insects,\nmammals, and birds also produce pulsed vocalizations.\n\nRIBBIT (the Repeat Interval-Based Bioacoustic\nIdentification Tool) is an open-source software tool\n\nfor automatically detecting species that produce pulsed\nvocalizations. The user specifies the typical frequency\nrange and pulse repetition rate of a species. Then,\nRIBBIT quickly searches through audio recordings to find\nmatching vocalizations." + }, + { + "id": 141601, + "strid": "5441e1e3-667e-45b8-8936-f7938f2fb62a", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1291.038, + 621.848, + 601.261, + 49.33699999999999 + ], + "priority": 5, + "parents": [ + 141628 + ], + "children": [ + 141621 + ], + "area": 802829.398224, + "iscrowd": 0, + "segmentation": [], + "text": "Anatomy of a Pulsed Call" + }, + { + "id": 141621, + "strid": "c5b9c1a2-978a-4881-b0dc-4c39f5af6d23", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1194.238, + 723.48, + 807.953, + 582.363 + ], + "priority": 6, + "parents": [ + 141601 + ], + "children": [], + "area": 864007.30824, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141600, + "strid": "9ecf605e-78bf-43e2-96d8-bb24cfdb3d2c", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 129.596, + 1434.683, + 573.214, + 41.55600000000004 + ], + "priority": 7, + "parents": [ + 141628 + ], + "children": [ + 141611, + 141605, + 141614, + 141612, + 141627, + 141608, + 141615, + 141624, + 141609, + 141607, + 141613, + 141622, + 141619, + 141606, + 141610, + 141620 + ], + "area": 185929.178068, + "iscrowd": 0, + "segmentation": [], + "text": "How does RIBBIT work?" + }, + { + "id": 141605, + "strid": "f6f28498-ff34-434e-9af6-fcb5308402cf", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.084, + 1560.3, + 800.531, + 294.6589999999999 + ], + "priority": 8, + "parents": [ + 141600 + ], + "children": [], + "area": 196728.8652, + "iscrowd": 0, + "segmentation": [], + "text": "1. Convert audio to spectrogram\n\nA spectrogram represents the sound with time on\nthe y-axis and frequency on the x-axis. Darker\npixels represent louder sounds. In creating a\nspectrogram, the user must balance a tradeoff\nbetween frequency and time resolution." + }, + { + "id": 141606, + "strid": "53980007-d9e9-4c87-b900-7ad6070ba366", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.371, + 1924.355, + 812.474, + 295.5430000000001 + ], + "priority": 9, + "parents": [ + 141600 + ], + "children": [], + "area": 243182.665705, + "iscrowd": 0, + "segmentation": [], + "text": "2. Select signal and noise frequency ranges\n\nThe user selects two types of frequency ranges.\nThe signal band specifies the typical frequency\nrange for the focal species’ vocalization. The noise\nbands aim to filter out vocalizations of confusion\nspecies that also have repeating calls." + }, + { + "id": 141607, + "strid": "b756dd60-23e6-4b1c-b0a9-e20630d9d90a", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.388, + 2305.729, + 824.787, + 210.44999999999982 + ], + "priority": 10, + "parents": [ + 141600 + ], + "children": [], + "area": 291416.476852, + "iscrowd": 0, + "segmentation": [], + "text": "3. Create an amplitude signal\n\nBy subtracting the contents of the noise band from\nthe signal band, we get an amplitude signal that\nisolates the frequencies of the focal species." + }, + { + "id": 141608, + "strid": "41626fa4-374a-4a4f-9d02-9f5595da072e", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.326, + 2653.324, + 782.755, + 209.74000000000024 + ], + "priority": 11, + "parents": [ + 141600 + ], + "children": [], + "area": 335183.807624, + "iscrowd": 0, + "segmentation": [], + "text": "4. Measure Periodic Fluctuations\n\nThe power spectral density calculates how much\nenergy is occuring in the signal at different\nrepetition intervals." + }, + { + "id": 141609, + "strid": "1f42e75c-98b6-407c-83cf-647b6ba5f274", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.979, + 3001.409, + 783.123, + 252.8209999999999 + ], + "priority": 12, + "parents": [ + 141600 + ], + "children": [], + "area": 381115.913411, + "iscrowd": 0, + "segmentation": [], + "text": "5. Determine the score\n\nThe user selects a range of Pulse Repetition\nIntervals for the focal species. The RIBBIT score\nfor this audio clip is the maximum value of the\npower spectral density inside that range." + }, + { + "id": 141622, + "strid": "0eca08ca-8a90-471c-b0bc-6e6c183f50de", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1006.701, + 1619.796, + 999.903, + 1704.11 + ], + "priority": 13, + "parents": [ + 141600 + ], + "children": [], + "area": 1630650.252996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141610, + "strid": "6f2bfa27-7b76-404c-b075-25dfa5e340f7", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2706.667, + 9.652, + 1273.7639999999997, + 49.912 + ], + "priority": 14, + "parents": [ + 141600 + ], + "children": [], + "area": 26124.749883999997, + "iscrowd": 0, + "segmentation": [], + "text": "RIBBIT in Action: Detecting Chorus Frogs in Montana" + }, + { + "id": 141611, + "strid": "ccf0e7a6-15f2-4dfd-b46b-b11bf4557388", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2355.237, + 138.357, + 1038.946, + 168.042 + ], + "priority": 15, + "parents": [ + 141600 + ], + "children": [], + "area": 325863.525609, + "iscrowd": 0, + "segmentation": [], + "text": "Data Set:\n\nWe collected over three thousand hours of audio from 119 sites\nin the American Prairie Rerserve in Montana using AudioMoth\nautonomous recorders." + }, + { + "id": 141612, + "strid": "72652ac0-69ef-4680-91b9-4f86e7840605", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2355.09, + 375.705, + 1019.808, + 133.23399999999998 + ], + "priority": 16, + "parents": [ + 141600 + ], + "children": [], + "area": 884819.08845, + "iscrowd": 0, + "segmentation": [], + "text": "Focal Species:\n\nThe Boreal Chorus Frog (Pseudacris maculata) has a pulsed call\nwith a pulse repeat interval ranging of 1/15 to 1/30 seconds." + }, + { + "id": 141613, + "strid": "c39718e1-817a-4720-b778-ff1199ac2aab", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2355.765, + 570.709, + 1000.3110000000001, + 177.29899999999998 + ], + "priority": 17, + "parents": [ + 141600 + ], + "children": [], + "area": 1344456.287385, + "iscrowd": 0, + "segmentation": [], + "text": "Chorusing:\n\nThese frogs often vocalize in large groups during the breeding\nseason. The result is a blended sound called a chorus that\nsounds and looks very different from an individual call." + }, + { + "id": 141614, + "strid": "fa6252f2-9ea6-403c-b2ba-1f40e4a43056", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2354.514, + 879.841, + 1002.9850000000001, + 328.14700000000005 + ], + "priority": 18, + "parents": [ + 141600 + ], + "children": [], + "area": 2071597.952274, + "iscrowd": 0, + "segmentation": [], + "text": "Confusion Species Intervention\n\nSome birds in the field data vocalize with the same frequency\nrange and pulse rate as the Boreal Chorus Frog. The frogs\ntend to vocalize continuously while the similar-sounding birds\nare more sporadic. We prioritized continuous vocalizations\n\nby keeping the lowest RIBBIT score of any 10 consecutive\n2-second audio clips." + }, + { + "id": 141615, + "strid": "2c838ebd-7806-4865-b9ca-7960d324743c", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2355.919, + 1313.01, + 1043.931, + 315.71699999999987 + ], + "priority": 19, + "parents": [ + 141600 + ], + "children": [], + "area": 3093345.20619, + "iscrowd": 0, + "segmentation": [], + "text": "Results:\n\nWe labeled 749 1-minute files to test the accuracy of RIBBIT’s\nBoreal Chorus Frog detection. The model successfully detected\nboth individual frogs and choruses, while avoiding false positives\non confusion species. With a threshold score of 0.148 for\nconsidering the frog “present”, the dectector is 90% accurate." + }, + { + "id": 141620, + "strid": "5b12db74-35ab-446b-b8b6-dbc8197d37b2", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3486.51, + 248.304, + 787.8720000000003, + 984.0180000000001 + ], + "priority": 20, + "parents": [ + 141600 + ], + "children": [], + "area": 865714.37904, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141627, + "strid": "8cf515a3-2754-4144-be7a-bd15a50dcef8", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3508.733, + 1418.126, + 758.8680000000004, + 620.7180000000001 + ], + "priority": 21, + "parents": [ + 141600 + ], + "children": [], + "area": 4975825.494358, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141624, + "strid": "9c2812d7-7cb6-4ff4-9e26-20955662d752", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2429.337, + 1731.282, + 695.8800000000001, + 183.02999999999997 + ], + "priority": 22, + "parents": [ + 141600 + ], + "children": [], + "area": 4205867.420034, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141619, + "strid": "4f2818ff-0165-41da-b2a0-ca976c8243c7", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2408.357, + 1979.925, + 839.1599999999999, + 70.65699999999993 + ], + "priority": 23, + "parents": [ + 141600 + ], + "children": [], + "area": 4768366.233225, + "iscrowd": 0, + "segmentation": [], + "text": "confusion matrix showing the number of files in which RIBBIT\ndetected the frog when it was truly present and truly absent" + }, + { + "id": 141602, + "strid": "c577910e-0ce3-4c42-87aa-721a539bdb53", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2448.579, + 2273.57, + 612.6309999999999, + 48.60500000000002 + ], + "priority": 24, + "parents": [ + 141628 + ], + "children": [ + 141616, + 141617, + 141623 + ], + "area": 5567015.757030001, + "iscrowd": 0, + "segmentation": [], + "text": "How can you use RIBBIT?" + }, + { + "id": 141616, + "strid": "df82c131-4130-44d5-8db8-f462620ca475", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2355.421, + 2369.604, + 1006.029, + 126.2840000000001 + ], + "priority": 25, + "parents": [ + 141602 + ], + "children": [], + "area": 5581415.023283999, + "iscrowd": 0, + "segmentation": [], + "text": "RIBBIT is designed to be easy for ecologists to use. An open-\nsource python implementation is available in OpenSoundscape\n\n(opensoundscape.org). All you have to do is" + }, + { + "id": 141623, + "strid": "62d46ef7-a1d3-42c1-b867-4ad77e65336a", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2409.157, + 2519.236, + 873.614, + 160.3510000000001 + ], + "priority": 26, + "parents": [ + 141602 + ], + "children": [], + "area": 6069235.044052, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141617, + "strid": "d2ea8c74-8ced-4712-84be-822452aba831", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2356.616, + 2711.924, + 899.4589999999998, + 81.16100000000006 + ], + "priority": 27, + "parents": [ + 141602 + ], + "children": [], + "area": 6390963.489184, + "iscrowd": 0, + "segmentation": [], + "text": "For more information, check out the documentation and\niPython Notebook example - or get in touch with us." + }, + { + "id": 141603, + "strid": "95323cb9-ae25-4a10-8889-905497937f6e", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3516.889, + 2597.746, + 360.86799999999994, + 48.93600000000015 + ], + "priority": 28, + "parents": [ + 141628 + ], + "children": [ + 141618 + ], + "area": 9135984.332194, + "iscrowd": 0, + "segmentation": [], + "text": "Special Thanks" + }, + { + "id": 141618, + "strid": "aa8c61c0-4b27-4733-aa0d-d8cc24eaa0b3", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3490.905, + 2700.932, + 743.4100000000003, + 308.83100000000013 + ], + "priority": 29, + "parents": [ + 141603 + ], + "children": [], + "area": 9428697.023459999, + "iscrowd": 0, + "segmentation": [], + "text": "Field Data Collection: Hila Shamon\n\nBrainpower: Tessa Rhinehart, Tiger Wu, Barry\nMoore\n\nFunding: University of Pittsburgh Department\nof Biological Sciences; National Science\nFoundation" + }, + { + "id": 141625, + "strid": "1a976256-9e60-444a-8b1d-dbdb211deca0", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2402.311, + 3199.541, + 861.6970000000001, + 50.552000000000135 + ], + "priority": 30, + "parents": [ + 141628 + ], + "children": [ + 141626 + ], + "area": 7686292.539251001, + "iscrowd": 0, + "segmentation": [], + "text": "Interested In joining the Kitzes Lab?" + }, + { + "id": 141626, + "strid": "7cd7396f-357d-4360-ad62-d9b359f1fd13", + "image_id": 206003, + "image_name": "16955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2403.657, + 3273.651, + 1258.033, + 81.71300000000019 + ], + "priority": 31, + "parents": [ + 141625 + ], + "children": [], + "area": 7868734.141707, + "iscrowd": 0, + "segmentation": [], + "text": "Our lab is looking to bring on a new graduate student this year. Learn more on\nour website kitzeslab.org and reach out to Sam or Justin if you're interested." + }, + { + "id": 36088, + "strid": "c04f7ee3-3c80-4363-9a96-fcd4c78afe72", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 26.07, + 252.76, + 391.77, + 140.45 + ], + "priority": -1, + "parents": [], + "children": [ + 36051, + 36068, + 36057, + 36055, + 36050, + 36086, + 36049 + ], + "area": 6589.4532, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36049, + "strid": "74c181d7-6ee6-460e-9eac-2ebc57886c7d", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 751.636, + 41.084, + 2350.834, + 178.868 + ], + "priority": 1, + "parents": [ + 36088 + ], + "children": [], + "area": 30880.213424, + "iscrowd": 0, + "segmentation": [], + "text": "Development of novel methods for investigating copy number\nvariation at the.human salivary amylase7locus" + }, + { + "id": 36050, + "strid": "217eaa49-9fa3-4ea3-8d8d-ecc87a366cc1", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1406.464, + 253.806, + 1034.8069999999998, + 118.50000000000003 + ], + "priority": 2, + "parents": [ + 36088 + ], + "children": [], + "area": 356969.001984, + "iscrowd": 0, + "segmentation": [], + "text": "Sugandha Dhar and John AL Armour\nSchool of Biology, The University of Nottingham" + }, + { + "id": 36051, + "strid": "204f7371-65a2-446d-a603-e1fbd1b49303", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 697.407, + 444.319, + 282.64700000000005, + 49.524 + ], + "priority": 3, + "parents": [ + 36088 + ], + "children": [ + 36053, + 36052 + ], + "area": 309871.18083300005, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 36052, + "strid": "2e4a3ae4-8ffb-474d-b166-2cdc5b417640", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 43.626, + 510.423, + 1607.189, + 833.4489999999998 + ], + "priority": 4, + "parents": [ + 36051 + ], + "children": [], + "area": 22267.713798, + "iscrowd": 0, + "segmentation": [], + "text": "Copy number variations correspond to the changes (>1 kb) in number of copies of DNA\nsequences in comparison to a reference chromosome: Located on chromosome ip 21.1\namylase gene exhibits high copy number variation. In humans, there are two forms of\namylase -salivary (AMY1) and pancreatic (AMY2) which catalyse carbohydrate digestion but\nare expressed in different tissues. Previous investigations reveal that in spite of a 96% AMY1-\nAMY2 sequence similarity’, proviral insertions were responsible for conferring AMY1 tissue\nspecificity. Current research suggests that AMY1 is a copy number variable locus exhibiting 2-\n14° copies per diploid genome and has been positively correlated with high starch diet by\nPerry et al. Previously, two Paralogue Ratio Tests (PRTs) have been constructed taking\nadvantage of the exclusive proviral AMY1 insertions’. As proviral elements are scattered\nthroughout the genome therefore eliciting exclusive amplification from just test and reference\nis theoretically questionable. The main focus of this study was to devise an alternative\nmethod which would combine the strengths of PRTs and Real time PCR considering the\ngenomic complexities of AMY1 locus." + }, + { + "id": 36053, + "strid": "31832d6c-a8fd-4c8d-aac9-a6fafe6023e5", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 58.88, + 1361.414, + 1581.765, + 498.5930000000001 + ], + "priority": 5, + "parents": [ + 36051 + ], + "children": [ + 36054 + ], + "area": 80160.05632, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36054, + "strid": "7a118819-a32f-43cb-89f6-7698cc786c37", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 32.38, + 1887.33, + 1581.619, + 103.19000000000005 + ], + "priority": 6, + "parents": [ + 36053 + ], + "children": [], + "area": 61111.7454, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Structural arrangement of AMY1 locus illustrating 8Kb proviral insertions conferring\n\nAMY1 tissue specificity. Sequence identity extends beyond 28Kb for the three AMY1 copies." + }, + { + "id": 36055, + "strid": "1152ef08-16ef-4046-90d3-f92105387600", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 793.174, + 1997.809, + 136.39999999999998, + 52.2650000000001 + ], + "priority": 7, + "parents": [ + 36088 + ], + "children": [ + 36056 + ], + "area": 1584610.155766, + "iscrowd": 0, + "segmentation": [], + "text": "Aims:" + }, + { + "id": 36056, + "strid": "24445c9a-ce05-4c8d-af22-a24e137eb6f5", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 44.036, + 2061.542, + 1384.395, + 104.24099999999999 + ], + "priority": 8, + "parents": [ + 36055 + ], + "children": [], + "area": 90782.063512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36057, + "strid": "662afc0b-b6c4-4149-b92f-04a59ac0648b", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 766.305, + 2220.487, + 211.23699999999997, + 52.1880000000001 + ], + "priority": 9, + "parents": [ + 36088 + ], + "children": [ + 36065, + 36063, + 36064, + 36062, + 36058, + 36060, + 36066, + 36059 + ], + "area": 1701570.290535, + "iscrowd": 0, + "segmentation": [], + "text": "Methods:" + }, + { + "id": 36058, + "strid": "7da50b29-8494-4198-8781-6fe3ebd7ae11", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 48.074, + 2294.697, + 1513.683, + 220.70899999999983 + ], + "priority": 10, + "parents": [ + 36057 + ], + "children": [], + "area": 110315.263578, + "iscrowd": 0, + "segmentation": [], + "text": "We have developed five assays to investigate AMY1 structural variation. Out of the five\nassays, two comprise the paralogue ratio test (PRT), one is a microsatellite. They are run\non the AB13130 as triplex systems and used as copy number measuring tests. The other\n\ntwo are novel methods run as duplex and are used as copy number validation Tests." + }, + { + "id": 36059, + "strid": "9bd15ddf-cde4-4e50-a7b8-9a6b9b03552d", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 42.993, + 2526.852, + 564.808, + 50.54399999999987 + ], + "priority": 11, + "parents": [ + 36057 + ], + "children": [], + "area": 108636.948036, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36060, + "strid": "68d94238-b45f-416e-a0ca-61f429919f5c", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 84.819, + 2642.593, + 1466.073, + 314.288 + ], + "priority": 12, + "parents": [ + 36057 + ], + "children": [ + 36061 + ], + "area": 224142.095667, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36061, + "strid": "3de52fbb-683f-4ce6-9c53-46085e251421", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 30.318, + 3016.833, + 1602.326, + 110.81800000000021 + ], + "priority": 13, + "parents": [ + 36060 + ], + "children": [], + "area": 91464.342894, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: PRT takes advantage of paralogous in the genome thereby only one pair of carefully\n\ndesigned primers amplify different sized test and reference amplicons." + }, + { + "id": 36062, + "strid": "a5661dc4-04fb-45da-b788-c55bddfeba10", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 48.633, + 3211.041, + 645.522, + 47.29599999999982 + ], + "priority": 14, + "parents": [ + 36057 + ], + "children": [], + "area": 156162.55695300002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36063, + "strid": "5b4dca57-e59c-428e-997a-08af5288b9c0", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.493, + 3269.638, + 1555.078, + 166.8670000000002 + ], + "priority": 15, + "parents": [ + 36057 + ], + "children": [], + "area": 165093.831534, + "iscrowd": 0, + "segmentation": [], + "text": "This assay involves the amplification of microsatellite which vary in their length or number\nand is spatially contained within the AMY1 ERV thus producing allelic ratios specific to AMY1\n\ncopy number." + }, + { + "id": 36064, + "strid": "8776cfb3-4ace-4094-bf0f-1ca91942ae00", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 40.714, + 3505.999, + 689.52, + 46.871000000000095 + ], + "priority": 16, + "parents": [ + 36057 + ], + "children": [], + "area": 142743.24328599998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36065, + "strid": "04c11ed3-84c9-4912-804b-aae31550dfcf", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 39.36, + 3577.996, + 1478.563, + 109.38299999999981 + ], + "priority": 17, + "parents": [ + 36057 + ], + "children": [], + "area": 140829.92256, + "iscrowd": 0, + "segmentation": [], + "text": "nPRT makes use of 2 pairs of 40 bp primers (tailed primers) to amplify 2 regions in the\n\ngenome (Test and reference) which have similar amplification properties." + }, + { + "id": 36066, + "strid": "83e0f4f5-d353-4354-98a4-8bf95987e61a", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 34.566, + 3695.648, + 1551.892, + 609.0069999999996 + ], + "priority": 18, + "parents": [ + 36057 + ], + "children": [ + 36067 + ], + "area": 127743.76876800001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36067, + "strid": "89c6ef58-af14-4a07-8c36-4f9e2307fd08", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 33.986, + 4319.317, + 1607.334, + 224.83899999999994 + ], + "priority": 19, + "parents": [ + 36066 + ], + "children": [], + "area": 146796.307562, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: nPRT eliminates disadvantages of PRT by not relying of paralogous sequences and\nsolves the problems inherent in multiplex PCR. The products generated from the initial 5 cycles\nare extended by the externally added synthetic primers, one of which is fluorescently labelled\n\nwhich aids in capillary electrophoresis as seen in the trace." + }, + { + "id": 36068, + "strid": "97a3f1d8-afd0-4e36-8d25-c28d89ca5309", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2393.622, + 451.832, + 179.33100000000013, + 47.45400000000001 + ], + "priority": 20, + "parents": [ + 36088 + ], + "children": [ + 36079, + 36069, + 36071, + 36081, + 36082, + 36084, + 36070, + 36076, + 36075, + 36072, + 36083, + 36074, + 36078 + ], + "area": 1081515.015504, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 36069, + "strid": "efe14b15-bf57-4155-8619-c092d6407d88", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2050.903, + 526.869, + 862.3809999999999, + 48.22500000000002 + ], + "priority": 21, + "parents": [ + 36068 + ], + "children": [], + "area": 1080557.2127069999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36070, + "strid": "87490084-516d-4180-a7ff-c930e975db91", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.747, + 607.55, + 1562.4600000000003, + 218.59899999999993 + ], + "priority": 22, + "parents": [ + 36068 + ], + "children": [], + "area": 1032681.28985, + "iscrowd": 0, + "segmentation": [], + "text": "We have measured AMY1 copy number in 10 families of CEPH samples which are also part\nof the Hap Map project. This was using the MS assay and 12A PRT. CEPH segregation data\nwas obtained from the CEPH genotype database V. 10 and linkage analysis on chromosome\n1 was performed using the CHROMPIC option of CRIMAP" + }, + { + "id": 36072, + "strid": "3aafcaa6-e804-4074-a834-072c5b9adb89", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2401.428, + 846.025, + 808.4049999999997, + 565.247 + ], + "priority": 23, + "parents": [ + 36068 + ], + "children": [], + "area": 2031668.1236999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36071, + "strid": "aa70a21a-15ba-4e4d-966d-b347c4718b40", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1695.919, + 947.47, + 756.6960000000001, + 1024.729 + ], + "priority": 24, + "parents": [ + 36068 + ], + "children": [ + 36073 + ], + "area": 1606832.3749300002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36073, + "strid": "752adc3e-6a78-476f-be57-9e2dee93cf78", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2405.462, + 1464.312, + 827.3629999999998, + 420.876 + ], + "priority": 25, + "parents": [ + 36071 + ], + "children": [], + "area": 3522346.8721439997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: The presence of variably sized\nmicrosatellite marker within the AMY1 repeat\nblock ensured the development of the MS assay.\nThis microsatellite profiles suggest that this\nmarker is transmitted through generations as\nseen in CEPH family 1416. A strong correlation\nwas observed between 12A and MS assay." + }, + { + "id": 36074, + "strid": "fa1e39b6-4615-4247-bded-770146c3d91d", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1722.546, + 2007.819, + 548.7070000000001, + 42.771999999999935 + ], + "priority": 26, + "parents": [ + 36068 + ], + "children": [], + "area": 3458560.587174, + "iscrowd": 0, + "segmentation": [], + "text": "CEPH family 1416 CEPH collection." + }, + { + "id": 36075, + "strid": "da032e2e-15d6-4414-a5d6-373ba65a46fe", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2169.821, + 2120.249, + 639.1390000000001, + 47.659999999999854 + ], + "priority": 27, + "parents": [ + 36068 + ], + "children": [], + "area": 4600560.8054289995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36076, + "strid": "a8a7cb4e-71c2-42e5-a63f-5442bd4210b0", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1703.233, + 2191.452, + 1532.4950000000001, + 169.6489999999999 + ], + "priority": 28, + "parents": [ + 36068 + ], + "children": [], + "area": 3732553.364316, + "iscrowd": 0, + "segmentation": [], + "text": "Samples were selected from the segregation pattern deduced from the MS assay. The copy\nnumber determined by the MS assay was examined for concordance with the rest of the\n\nmeasurement systems." + }, + { + "id": 36078, + "strid": "4d922123-cd3a-47c1-8d53-fbfed6299468", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1735.563, + 2403.009, + 603.5920000000001, + 235.70400000000018 + ], + "priority": 29, + "parents": [ + 36068 + ], + "children": [ + 36077 + ], + "area": 4170573.5090670004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36077, + "strid": "1b641db6-2ce7-4e11-9ef4-a79bf3a53078", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2368.17, + 2374.938, + 889.3530000000001, + 233.0970000000002 + ], + "priority": 30, + "parents": [ + 36078 + ], + "children": [], + "area": 5624256.92346, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Five fold determination of copy number as\nmeasured by five independent systems. The DNA\nsamples used two independent sources of origin i.e.\nHapMap and CEPH" + }, + { + "id": 36079, + "strid": "d70aec8a-947a-4ece-9a20-44aa9b383569", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2159.533, + 2695.974, + 656.5990000000002, + 49.072999999999865 + ], + "priority": 31, + "parents": [ + 36068 + ], + "children": [], + "area": 5822044.820142, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36081, + "strid": "34f36565-791d-4fb6-9f97-35577761f105", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1704.81, + 2794.669, + 647.3490000000002, + 432.50199999999995 + ], + "priority": 32, + "parents": [ + 36068 + ], + "children": [ + 36080 + ], + "area": 4764379.657889999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36080, + "strid": "04ce6595-680e-4188-b984-8fa6455ff6ad", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2361.677, + 2780.463, + 879.1779999999999, + 353.52199999999993 + ], + "priority": 33, + "parents": [ + 36081 + ], + "children": [], + "area": 6566555.516451001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6:Frequency distribution of the ratio of\nratios deduced from the MS assay representing the\ndeviation from the expected value for 182 ratios.\n90% of the ratios lie within 85% to 115% of the\nexpected value highlighting the accuracy of the\n\nassay." + }, + { + "id": 36082, + "strid": "12a3575a-3be5-4e5d-9573-43d2b62a6e6a", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1748.582, + 3285.468, + 1401.6920000000002, + 50.85500000000002 + ], + "priority": 34, + "parents": [ + 36068 + ], + "children": [], + "area": 5744910.206376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36084, + "strid": "044cb6a7-6e12-41e9-8cf1-208a69df033a", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1763.326, + 3413.56, + 537.9560000000001, + 320.009 + ], + "priority": 35, + "parents": [ + 36068 + ], + "children": [ + 36085 + ], + "area": 6019219.10056, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36085, + "strid": "8f085612-2b98-4f55-be2c-296ef7982e9f", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1699.784, + 3772.998, + 1489.5899999999997, + 104.78900000000021 + ], + "priority": 36, + "parents": [ + 36084 + ], + "children": [], + "area": 6413281.632432001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Capillary trace of NA18999 predicting a copy number of six instead of five as\npredicted by Perry et al." + }, + { + "id": 36083, + "strid": "14b67b0f-ac37-4062-b353-886761d7a460", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2352.349, + 3398.43, + 892.1179999999999, + 284.924 + ], + "priority": 37, + "parents": [ + 36068 + ], + "children": [], + "area": 7994293.412070001, + "iscrowd": 0, + "segmentation": [], + "text": "Our microsatellite measurement assay do not\nconform with the copy number deduced by Perry et\nal. This non conformity amounts to approximately\none to two integer copies more as measured by our\nmeasurement systems." + }, + { + "id": 36086, + "strid": "9384f1cd-d2fb-4934-8854-022b9460a9e7", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2327.323, + 3941.1, + 285.9670000000001, + 50.82499999999982 + ], + "priority": 38, + "parents": [ + 36088 + ], + "children": [ + 36087 + ], + "area": 9172212.675299998, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 36087, + "strid": "2d2ce438-2b93-49cd-b4de-8228150b6e39", + "image_id": 201925, + "image_name": "117884.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1695.363, + 4018.162, + 1548.9730000000002, + 495.2739999999999 + ], + "priority": 39, + "parents": [ + 36086 + ], + "children": [], + "area": 6812243.182806, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80596, + "strid": "ce2b4734-7d1f-4e3b-82e1-5d552aa3a36e", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 906.08, + 16.88, + 781.89, + 127.42000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 80571, + 80573, + 80569, + 80570, + 80566, + 80567, + 80565, + 80572, + 80580, + 80588, + 80568 + ], + "area": 15294.6304, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80565, + "strid": "be2370ce-fe1a-40c7-a1f9-21bbf10cb377", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 892.858, + 208.62, + 2377.589, + 214.937 + ], + "priority": 1, + "parents": [ + 80596 + ], + "children": [], + "area": 186268.03595999998, + "iscrowd": 0, + "segmentation": [], + "text": "JOURNALMAP" + }, + { + "id": 80566, + "strid": "2f55e9ad-8393-4f53-9a31-4615ee918033", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 3469.958, + 83.791, + 753.7919999999999, + 342.423 + ], + "priority": 2, + "parents": [ + 80596 + ], + "children": [], + "area": 290751.250778, + "iscrowd": 0, + "segmentation": [], + "text": "Jason W. Karl, Ph.D.\nJeffrey K.Gillan\n\nRobert S. Unnasch, Ph.D.\nAshley S. Galéra" + }, + { + "id": 80567, + "strid": "c5f92f76-1ab9-4304-8897-f31808db7c46", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 59.46, + 658.652, + 755.438, + 89.44600000000003 + ], + "priority": 3, + "parents": [ + 80596 + ], + "children": [ + 80574, + 80579 + ], + "area": 39163.447920000006, + "iscrowd": 0, + "segmentation": [], + "text": "What is JournalMap?" + }, + { + "id": 80574, + "strid": "3e90646f-e1a9-413c-8716-9fa27fc937ae", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 30.547, + 776.882, + 898.522, + 993.257 + ], + "priority": 4, + "parents": [ + 80567 + ], + "children": [], + "area": 23731.414453999998, + "iscrowd": 0, + "segmentation": [], + "text": "Journa!Map is a scientific\nliterature search engine that\nempowers you to find relevant\nresearch based on location and\nbiophysical attributes as well as\n\ntraditional keyword searches.\nMuch of the published ecological research\naround the world is tied to specific places or only\nrelevant to a specific type of land or environment.\nJournalMap exploits this information to search\nfor literature based on geography to dramatically\nincrease the power of traditional searching. All\narticles in JournalMap are geotagged based on\nlocations reported in the study and plotted ona\nworld map to show you exactly where studies\nwere done.!" + }, + { + "id": 80579, + "strid": "f9922fd9-65ca-4a9f-a4a3-2f455c49a9d6", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 977.174, + 620.031, + 3514.813, + 1281.242 + ], + "priority": 5, + "parents": [ + 80567 + ], + "children": [], + "area": 605878.172394, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80580, + "strid": "faf8cf6a-79ac-47f7-af46-01d8228fc7fb", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4503.185, + 671.796, + 853.2510000000002, + 82.24900000000002 + ], + "priority": 6, + "parents": [ + 80596 + ], + "children": [ + 80581 + ], + "area": 3025221.6702600005, + "iscrowd": 0, + "segmentation": [], + "text": "Location Is everything!" + }, + { + "id": 80581, + "strid": "941c5659-67e5-4e46-9b07-fb2b3d1b1de4", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4510.688, + 774.807, + 1030.0640000000003, + 991.704 + ], + "priority": 7, + "parents": [ + 80580 + ], + "children": [], + "area": 3494912.6372160004, + "iscrowd": 0, + "segmentation": [], + "text": "Visualizing the location of research\ncan open new possibilities for\ndiscovering and applying scientitic\n\nknowledge.\n\nJournalMap makes it possible to search for published\nliterature thematically and geographically to support\nresearch, meta-analyses, identify bias, and limit\nredundancy. Identifying and extracting the myriad\nformats of location information is necessary to geotag\npublished articles. JournalMap uses pattern-recognition\nalgorithms to geotag articles from coordinate values in\nthe text, but the jack of standards for reporting locations\nin studies makes this process challenging to automate for\nplace-names. Common location reporting practices in\njournals and adding location data to article metadata,\nwould make geographic literature searching easier and\nmore universal.2" + }, + { + "id": 80568, + "strid": "eca7fe41-1ad4-4171-a19f-60f6d5c32b19", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 116.694, + 2012.898, + 933.999, + 89.15300000000002 + ], + "priority": 8, + "parents": [ + 80596 + ], + "children": [ + 80575, + 80576 + ], + "area": 234893.119212, + "iscrowd": 0, + "segmentation": [], + "text": "Knowleage Collections" + }, + { + "id": 80575, + "strid": "dbd31b9c-bda1-4485-ab2b-b09500862bb5", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 46.977, + 2102.825, + 967.893, + 700.906 + ], + "priority": 9, + "parents": [ + 80568 + ], + "children": [], + "area": 98784.41002499999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80576, + "strid": "9398206f-e420-4737-97b1-7f5655aafb8c", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.596, + 2847.976, + 897.975, + 202.61799999999994 + ], + "priority": 10, + "parents": [ + 80568 + ], + "children": [], + "area": 292190.945696, + "iscrowd": 0, + "segmentation": [], + "text": "JournalMap can be used to create georeferenced\nbibliogranhies of specific topics like Sage Grouse.\nThis enables easy visualization of where our\nknowledge comes from and identifies data gaps." + }, + { + "id": 80588, + "strid": "4835dfc7-d1f5-4094-a01d-04d087e923d8", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1041.937, + 2154.706, + 404.682, + 35.427999999999884 + ], + "priority": 11, + "parents": [ + 80596 + ], + "children": [ + 80589, + 80595, + 80590, + 80587 + ], + "area": 2245067.905522, + "iscrowd": 0, + "segmentation": [], + "text": "My, Spatial Ecology Articles" + }, + { + "id": 80589, + "strid": "d81c5133-f7d5-43de-a9dc-811adf04e99f", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1038.433, + 2195.654, + 474.75800000000004, + 175.8989999999999 + ], + "priority": 12, + "parents": [ + 80588 + ], + "children": [], + "area": 2280039.570182, + "iscrowd": 0, + "segmentation": [], + "text": "'s a collection of articles | have authored on different applications of spatial\n\nanalysis and land health monitoring techniques in ecology.\n\nMy research athe |amade focuses on the applications of geographic infermation systems (lS), rete\nsensing, muitvaiate and spatial statistics, and eclogica| Informatics to sustainable land management: | ar the\nlead Plon the Landsrape Tealtox and journalMap projects and wark extensively withthe Bureau af Land\nManagemers, Natural Resource Conservation Service and ether federal agencies on the development and\nple Lei cgi im ich" + }, + { + "id": 80590, + "strid": "9f48810c-59aa-47ae-8a8f-ca6c16f0e787", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1568.818, + 2143.284, + 155.6389999999999, + 172.6579999999999 + ], + "priority": 13, + "parents": [ + 80588 + ], + "children": [], + "area": 3362422.518312, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80587, + "strid": "8a7eef26-a195-4acb-b392-2a0b9d388219", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1037.632, + 2408.947, + 724.079, + 296.87300000000005 + ], + "priority": 14, + "parents": [ + 80588 + ], + "children": [], + "area": 2499600.4935040004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80595, + "strid": "c0f046e9-738c-4020-b836-ac1c3137dd89", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1067.717, + 2724.844, + 690.1669999999999, + 255.462 + ], + "priority": 15, + "parents": [ + 80588 + ], + "children": [], + "area": 2909362.261148, + "iscrowd": 0, + "segmentation": [], + "text": "Authors can create a map-based\ngeographic resumes to tout their\nknowledge on specific locations or\necosystems. Unique URLs allow you to\nshare it with anyone on the web." + }, + { + "id": 80569, + "strid": "7fef9109-fad5-4832-81bf-02af31a6cca5", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 217.671, + 3135.559, + 815.488, + 90.02300000000014 + ], + "priority": 16, + "parents": [ + 80596 + ], + "children": [ + 80577, + 80578 + ], + "area": 682520.263089, + "iscrowd": 0, + "segmentation": [], + "text": "Knowledge Transfer" + }, + { + "id": 80577, + "strid": "532dc29f-d85c-42ff-bc99-6e2129d5c9f4", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 45.043, + 3258.983, + 1075.876, + 624.1040000000003 + ], + "priority": 17, + "parents": [ + 80569 + ], + "children": [], + "area": 146794.371269, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80578, + "strid": "03c7b310-94fa-4ccb-8921-b71196769f3a", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1177.176, + 3186.307, + 466.4749999999999, + 735.5950000000003 + ], + "priority": 18, + "parents": [ + 80569 + ], + "children": [], + "area": 3750844.1290319995, + "iscrowd": 0, + "segmentation": [], + "text": "For some topics, there\nhave been few formal\nstudies conducted in\nmany parts of the world.\nHowever, JournalMap\nmakes it easy to find\nresearch from areas with\nsimilar environmental\nfeatures like climate or\nsoils that may be relevant\nto these understudied\nregions to help inform\nconservation and\nrestoration strategies." + }, + { + "id": 80570, + "strid": "cd7fa4e0-65c1-40df-9d9b-96ca9e923648", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2252.094, + 1971.88, + 969.384, + 89.98799999999983 + ], + "priority": 19, + "parents": [ + 80596 + ], + "children": [ + 80592, + 80591 + ], + "area": 4440859.11672, + "iscrowd": 0, + "segmentation": [], + "text": "is ealenerela\n\n \n\nwiowledge" + }, + { + "id": 80591, + "strid": "a136cb08-4245-4c84-966f-b4ee991e0b98", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1826.191, + 2072.619, + 1822.3969999999997, + 1255.429 + ], + "priority": 20, + "parents": [ + 80570 + ], + "children": [], + "area": 3784998.1642290005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80592, + "strid": "59d577c2-7a80-4001-97bc-23c04273b972", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2590.009, + 3297.228, + 960.0639999999999, + 150.17299999999977 + ], + "priority": 21, + "parents": [ + 80570 + ], + "children": [], + "area": 8539850.195052, + "iscrowd": 0, + "segmentation": [], + "text": "JournalMap contains full archives for several journals\nincluding Ecosphere (2010-2014) - revealing journal’s\ngeographic patterns of research and publishing" + }, + { + "id": 80571, + "strid": "5a998c0c-72b4-4cca-876d-44d5417912ef", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2190.669, + 3536.434, + 637.2339999999999, + 89.82600000000002 + ], + "priority": 22, + "parents": [ + 80596 + ], + "children": [ + 80593, + 80594 + ], + "area": 7747156.334346, + "iscrowd": 0, + "segmentation": [], + "text": "Looking Aheaa!" + }, + { + "id": 80594, + "strid": "4920ad8d-c1c5-4179-89bf-1cd989947740", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1824.18, + 3652.274, + 1473.8790000000001, + 45.36900000000014 + ], + "priority": 23, + "parents": [ + 80571 + ], + "children": [], + "area": 6662405.18532, + "iscrowd": 0, + "segmentation": [], + "text": "JournalMap is still in active development. Here is what we have planned:" + }, + { + "id": 80593, + "strid": "794b4714-6625-469a-8f40-bdc4ca053ba3", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1827.282, + 3713.4, + 1685.258, + 396.6560000000004 + ], + "priority": 24, + "parents": [ + 80571 + ], + "children": [], + "area": 6785428.9788, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80572, + "strid": "3f5f94a1-6b3c-4a42-9cfe-b14160ebc37c", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3905.64, + 1907.853, + 778.8089999999997, + 90.41100000000006 + ], + "priority": 25, + "parents": [ + 80596 + ], + "children": [ + 80583, + 80584, + 80582 + ], + "area": 7451386.99092, + "iscrowd": 0, + "segmentation": [], + "text": "Superior Searching" + }, + { + "id": 80582, + "strid": "6c181460-6290-4454-b4ce-b39a3235e508", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3690.53, + 2024.709, + 1876.7999999999997, + 1351.501 + ], + "priority": 26, + "parents": [ + 80572 + ], + "children": [], + "area": 7472249.30577, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80584, + "strid": "8af034f5-bd37-4a9f-8071-30711e59dbb0", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4782.051, + 1974.474, + 749.156, + 574.2190000000003 + ], + "priority": 27, + "parents": [ + 80572 + ], + "children": [], + "area": 9442035.366174001, + "iscrowd": 0, + "segmentation": [], + "text": "Article searching based on keywovrc's or\nplace names results in many commission\nerrors — irrelevant search results outside\nyour area of interest. This map shows the\n\nresult of Web of Science™ search for\nstudies related to the Chihuahuan Desert\n(red polygon). Mapping the results by\nwhere the studies were actually\nconducted (yellow dots) shows that\nthematic searching is poor at identifying\nresults for the specific area." + }, + { + "id": 80583, + "strid": "99899219-6a1b-467f-a584-84eb04bb0b40", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3765.101, + 2950.45, + 768.8480000000004, + 410.82400000000007 + ], + "priority": 28, + "parents": [ + 80572 + ], + "children": [], + "area": 11108742.24545, + "iscrowd": 0, + "segmentation": [], + "text": "Thematic/keyword searching is also prone\nto omission error — failing to find reievant\narticles. In this map, many articles in the\nJournalMap database from the\nChihuahuan Desert were omitted from the\nWeb of Science™ search because they did\nnot use the “Chihuahuan Desert” search\nterm." + }, + { + "id": 80573, + "strid": "94e4efc4-b0c5-4150-a936-de3e7d4e3b04", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3767.845, + 3398.898, + 1113.4870000000005, + 94.5039999999999 + ], + "priority": 29, + "parents": [ + 80596 + ], + "children": [ + 80586, + 80585 + ], + "area": 12806520.83481, + "iscrowd": 0, + "segmentation": [], + "text": "Knowledge Hot/Cold Spots" + }, + { + "id": 80585, + "strid": "00960174-8ebb-4ab8-848b-6dc98021cb88", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3721.684, + 3525.971, + 1306.8730000000005, + 652.1969999999997 + ], + "priority": 30, + "parents": [ + 80573 + ], + "children": [], + "area": 13122549.855164, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 80586, + "strid": "d52a685b-9362-40c7-82fe-5145d7d7a2ec", + "image_id": 203641, + "image_name": "120624.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 5057.567, + 3625.996, + 358.85400000000027, + 468.2330000000002 + ], + "priority": 31, + "parents": [ + 80573 + ], + "children": [], + "area": 18338717.711732, + "iscrowd": 0, + "segmentation": [], + "text": "Mapping literature\nona topic opens up\nopportunities to\nanalyze patterns in\nknowledge\ndistribution over\ntime to identify hot\nspots and\nknowledge gaps." + }, + { + "id": 154282, + "strid": "f644a50e-927b-4df0-a224-f138729e4949", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 86.09, + 96.64, + 221.24999999999997, + 254.78000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 154261, + 154259, + 154262, + 154258, + 154257, + 154260, + 154263 + ], + "area": 8319.7376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154257, + "strid": "f49c6ee1-df16-401f-beeb-035da877784e", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 623.481, + 68.743, + 1961.314, + 296.393 + ], + "priority": 1, + "parents": [ + 154282 + ], + "children": [], + "area": 42859.954383, + "iscrowd": 0, + "segmentation": [], + "text": "OpenEBench 2023 update\n\nbetter support and deeper interactions with\nbenchmarking scientific communities" + }, + { + "id": 154258, + "strid": "5b448feb-abc7-4e5f-a72f-6266f4f1cfc6", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 149.928, + 411.601, + 2657.771, + 212.99199999999996 + ], + "priority": 2, + "parents": [ + 154282 + ], + "children": [], + "area": 61710.514728, + "iscrowd": 0, + "segmentation": [], + "text": "Carles Hernandez-Ferrer'*, Laura Portell-Silva'*, Anna Redondo Guitarte'*, Esther Vendrell'?, Laia Cod6'*, José M. Fernandez!,\nDmitry Repchevsky', Lidia L6pez'?, Alfonso Valencia'’**, Josep LI. Gelpi''?*, and Salvador Capella-Gutierrez'\n\n(1) Spanish National Bioinformatics Institute (INB/ELIXIR-ES), Barcelona, Spain; (2) Barcelona Supercomputing Center (BSC), Barcelona, Spain; (3) Catalan Institution for Research and\nAdvanced Studies (ICREA), Barcelona, Spain; (4) Dept Biochemistry and Molecular Biomedicine, University of Barcelona (UB), Barcelona, Spain" + }, + { + "id": 154263, + "strid": "c82bb9b0-910a-4301-90fd-787684924ef1", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.362, + 723.339, + 3124.092, + 561.5970000000001 + ], + "priority": 3, + "parents": [ + 154282 + ], + "children": [], + "area": 68979.053718, + "iscrowd": 0, + "segmentation": [], + "text": "OpenEBench (https://openebench.bsc.es/) is the ELIXIR platform for supporting community-led benchmarking activities and the\ntechnical monitoring of bioinformatics software. It has been part of the ELIXIR Tools Platform since its inception, contributing to its\ndevelopment and consolidation. OpenEBench collaborates with more than 20 different scientific communities within and beyond ELIXIR.\nThis interaction fosters the development of new components, both at the infrastructure level and extension of the visual interfaces. The\nContinuous Automated Model EvaluatiOn (CAMEO) runs weekly automated benchmarks on predictions of protein structures that are\npublished in OpenEBench. The Intrinsically Disordered Proteins (IDP) has served to bring CAID into OpenEBench evaluating and\nimproving the existing documentation. Our roadmap includes to integrate other relevant platforms, and we expect to work closely with\nAPICURON to visibilize and credit the contributions made by the different members of the communities to the platform." + }, + { + "id": 154259, + "strid": "797f9ca3-7203-41b5-b845-845e90357435", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 152.448, + 1354.033, + 1132.367, + 58.271999999999935 + ], + "priority": 4, + "parents": [ + 154282 + ], + "children": [ + 154277 + ], + "area": 206419.622784, + "iscrowd": 0, + "segmentation": [], + "text": "OpenEBench benchmarking engagement" + }, + { + "id": 154277, + "strid": "6485ea93-dece-4fd3-ba10-ed1bcacc590d", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 147.905, + 1422.426, + 1326.369, + 534.944 + ], + "priority": 5, + "parents": [ + 154259 + ], + "children": [], + "area": 210383.91752999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154260, + "strid": "8b7e3733-88dc-49b6-af4e-92419633702b", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1725.792, + 1354.033, + 507.12400000000025, + 58.271999999999935 + ], + "priority": 6, + "parents": [ + 154282 + ], + "children": [ + 154264, + 154265, + 154278 + ], + "area": 2336779.319136, + "iscrowd": 0, + "segmentation": [], + "text": "Where is my data?" + }, + { + "id": 154264, + "strid": "b23f407a-8119-4aa7-a43f-07ecc91912a4", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1728.131, + 1424.46, + 506.144, + 363.7370000000001 + ], + "priority": 7, + "parents": [ + 154260 + ], + "children": [], + "area": 2461653.4842600003, + "iscrowd": 0, + "segmentation": [], + "text": "OpenEBench uses EUDAT\n(B2SHARE) for long-term\nstorage of scientific\nbenchmarking datasets. With\none click, a user can export\nOpenEBench datasets to\nB2SHARE, which will mint a" + }, + { + "id": 154278, + "strid": "cec9b87e-05d2-498e-bd6f-0a5164fb3db0", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2333.905, + 1349.107, + 774.018, + 446.549 + ], + "priority": 8, + "parents": [ + 154260 + ], + "children": [], + "area": 3148687.572835, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154265, + "strid": "befc1222-8e62-49dc-b0be-95be03fc1b0c", + "image_id": 206514, + "image_name": "22568.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1726.415, + 1796.776, + 1381.1729999999998, + 156.13300000000004 + ], + "priority": 9, + "parents": [ + 154260 + ], + "children": [], + "area": 3101981.03804, + "iscrowd": 0, + "segmentation": [], + "text": "versioned DOI (digital object identifier) for it. 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249.05000000000007 + ], + "priority": -1, + "parents": [], + "children": [ + 173907, + 173911, + 173905, + 173912, + 173906, + 173910 + ], + "area": 57252.1158, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173905, + "strid": "d2699229-41c5-460b-9aeb-0cedebb572db", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 116.954, + 124.942, + 3362.448, + 227.534 + ], + "priority": 1, + "parents": [ + 173916 + ], + "children": [], + "area": 14612.466668, + "iscrowd": 0, + "segmentation": [], + "text": "Consequences of PTSD and Memory Processing on Neural Structures:\nCan Psychotherapy Influence Dendritic Formation?" + }, + { + "id": 173906, + "strid": "49ad3baa-218b-4d19-ae4f-1e5f31bb39f3", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 914.473, + 366.266, + 1776.605, + 367.732 + ], + "priority": 2, + "parents": [ + 173916 + ], + "children": [], + "area": 334940.367818, + "iscrowd": 0, + "segmentation": [], + "text": "Hena Jawaid* & Waliyah Mughis**\nDepartment of Psychiatry, Aga Khan University Hospital, Pakistan\n*M.B, B.S, F.C.P.S, Instructor — hena.jawaid@aku.edu\n** MSc, BSc, Research Specialist — waliyah.mughis @ aku.edu" + }, + { + "id": 173910, + "strid": "ddff5bd4-462b-49ee-bf6d-48e8960f2a61", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 25.328, + 1015.066, + 699.861, + 506.9379999999999 + ], + "priority": 3, + "parents": [ + 173916 + ], + "children": [ + 173913 + ], + "area": 25709.591648, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173913, + "strid": "13d10c2b-3eef-4875-9f59-118abe336654", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 48.967, + 1558.179, + 653.94, + 542.0540000000001 + ], + "priority": 4, + "parents": [ + 173910 + ], + "children": [], + "area": 76299.351093, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1: Photo Courtesy - This 63x\nimage of a hippocampal neuron\nreceiving excitatory contacts won\nfifth place in the 2013 Nikon Small\nWorld Photomicrophotography\nCompetition. It was taken by Dr.\nKieran Boyle of the University of\nGlasgow, Institute of Neuroscience\nand Psychology in Glasgow,\nScotland, UK, using fluorescence\nand confocal microscopy." + }, + { + "id": 173907, + "strid": "679ef714-d4df-40da-8669-eec858cea099", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1653.635, + 775.214, + 298.17899999999986, + 60.30600000000004 + ], + "priority": 5, + "parents": [ + 173916 + ], + "children": [ + 173909, + 173908 + ], + "area": 1281921.0028900001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173908, + "strid": "0670e9fe-78af-4b53-870f-84d7604b0567", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 789.807, + 958.871, + 2022.796, + 2353.253 + ], + "priority": 6, + "parents": [ + 173907 + ], + "children": [], + "area": 757323.027897, + "iscrowd": 0, + "segmentation": [], + "text": "Traumatic events such as assault, abuse, war and violence\ncan impact the human brain both structurally and functionally.\nDendrites in the hippocampus are among some of the affected\nstructures, as emotionally charged memories are stored in\nthem before due processing in the cell bodies. If these\nmemories are not properly processed in the hippocampus,\nindividuals suffering from post-traumatic stress disorder\n(PTSD) experience intrusive thoughts, flashbacks and high\nstress levels as a result of the high emotional charge of such\nmemories. In our paper we postulate that if emotions can be\ndischarged through psychotherapeutic techniques such as\nexposure and memory reprocessing, would there also be a\nstructural or anatomical change in hippocampal neurons, such\nas reformation of aberrant dendritic extensions, or\nimprovement in synaptic conductance between neurons?\nWould a neuroimaging study (using fMRI/PET scans) on cell\nbody growth and dendritic structure indicate any physiological\nchanges as a result of emotional processing through therapy?\nIf emotionally-loaded memories are being stored and carried in\nthe dendrites instead of being typically processed in the\nneuronal cell bodies, can medication-aided psychotherapy,\ncounseling and behavioral techniques for trauma help to\nrestore the structural/anatomical and functional aspects of\nneuronal cell bodies in the hippocampus?" + }, + { + "id": 173909, + "strid": "038dcc73-0ae5-4819-b38f-9a01ca55ce79", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 846.961, + 3385.764, + 1743.907, + 160.08500000000004 + ], + "priority": 7, + "parents": [ + 173907 + ], + "children": [], + "area": 2867610.0632040002, + "iscrowd": 0, + "segmentation": [], + "text": "Keywords: Post-traumatic stress disorder | Hippocampus |\nDendritic formation | Memory processing | Psychotherapy" + }, + { + "id": 173911, + "strid": "c727245c-bc52-4d63-a734-f25bfe982519", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2877.062, + 1826.306, + 630.4160000000002, + 592.1280000000002 + ], + "priority": 8, + "parents": [ + 173916 + ], + "children": [ + 173914 + ], + "area": 5254395.592972, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173914, + "strid": "2bff555c-c96a-4faf-af94-828cd6d8ffa3", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2900.132, + 2456.178, + 587.8740000000003, + 93.03099999999995 + ], + "priority": 9, + "parents": [ + 173911 + ], + "children": [], + "area": 7123240.415496, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2a: Hippocampal neuron\ngrowth cone pathfinding" + }, + { + "id": 173912, + "strid": "b93b5af2-a97f-4de2-9191-096f93dc4053", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2879.453, + 2761.488, + 634.7509999999997, + 595.6309999999999 + ], + "priority": 10, + "parents": [ + 173916 + ], + "children": [ + 173915 + ], + "area": 7951574.906063999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173915, + "strid": "8ad3db7f-e738-4105-af8d-e6599c925cd5", + "image_id": 207288, + "image_name": "7280.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2899.472, + 2555.147, + 587.8740000000003, + 191.9989999999998 + ], + "priority": 11, + "parents": [ + 173912 + ], + "children": [], + "area": 7408577.182384, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2b: Hippocampal neuron\ngrowth cone exploration\n\nPhoto courtesy of\nhttp:/Awww.neuralimages.org/" + }, + { + "id": 56220, + "strid": "e9f9dd6c-6baa-471e-877f-ab2a641a0df6", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 67.63, + 20.12, + 46.540000000000006, + 38.78999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 56197, + 56195, + 56196, + 56191, + 56192, + 56214, + 56190, + 56194, + 56211, + 56193 + ], + "area": 1360.7156, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56190, + "strid": "1b89979b-64d3-482e-9d62-36dee8aaf22e", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 152.565, + 21.003, + 863.825, + 49.23700000000001 + ], + "priority": 1, + "parents": [ + 56220 + ], + "children": [], + "area": 3204.322695, + "iscrowd": 0, + "segmentation": [], + "text": "The fickleness of data: Estimating the effects of different aspects of acupuncture treatment\non heart rate variability (HRV). Initial findings from three pilot studies" + }, + { + "id": 56191, + "strid": "01bf892d-d66d-42a2-b1e4-a79110cbe2f4", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 279.618, + 78.615, + 606.2950000000001, + 19.584999999999994 + ], + "priority": 2, + "parents": [ + 56220 + ], + "children": [], + "area": 21982.16907, + "iscrowd": 0, + "segmentation": [], + "text": "© Tony Steffert (Open University) and David Mayor (University of Hertfordshire)" + }, + { + "id": 56192, + "strid": "69597147-6862-4971-a6f3-6534c6963b1c", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 13.749, + 120.764, + 93.664, + 18.253 + ], + "priority": 3, + "parents": [ + 56220 + ], + "children": [ + 56198 + ], + "area": 1660.384236, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 56198, + "strid": "d51a6772-019b-4e84-9783-bb551965f4cc", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 12.594, + 151.279, + 346.751, + 87.275 + ], + "priority": 4, + "parents": [ + 56192 + ], + "children": [], + "area": 1905.2077259999999, + "iscrowd": 0, + "segmentation": [], + "text": "Heart rate variability (HRV) is a measure of the interplay between\nsympathetic and parasympathetic influences on heart rate.\n\nHigher HRV is usually associated with relaxation and health benefits, lower\nHRV with stress/pathology. MRV is used increasingly in acupuncture research.\nElectroacupuncture (EA) and transcutaneous electrical acupoint simulation\n(TEAS) are frequently used variants of manual acupuncture (MA)," + }, + { + "id": 56193, + "strid": "2e6ca048-369a-4d0c-a9d9-0187e4ce0c17", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 12.673, + 250.416, + 210.645, + 20.442000000000007 + ], + "priority": 5, + "parents": [ + 56220 + ], + "children": [ + 56199 + ], + "area": 3173.521968, + "iscrowd": 0, + "segmentation": [], + "text": "Methods of assessing effect" + }, + { + "id": 56199, + "strid": "2929f425-73ad-4f68-a7de-d28b8a3b4236", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 10.862, + 282.359, + 271.875, + 167.332 + ], + "priority": 6, + "parents": [ + 56193 + ], + "children": [], + "area": 3066.9834579999997, + "iscrowd": 0, + "segmentation": [], + "text": "HRV ali\n\nChanges in HRV values\n\nCorrelations between HRY values\n\nRatios of high or low HRY vals relative to group median\n\nNormalised percentage diference (Dif) beween values\neg. (Valveat 10He)~ (Value 25H)\n\n(Walue at25 Fay xaco\n\nCoefcient of variance (CY).a measre of dispersion\n\nGohen’ d (effect size)\n\nCorrelation ratio et (n)\n\nCounts of significant differences (N)" + }, + { + "id": 56194, + "strid": "6cfeb4ce-3176-4d76-ade8-1bd98382bef5", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 18.254, + 467.129, + 106.839, + 16.668000000000006 + ], + "priority": 7, + "parents": [ + 56220 + ], + "children": [ + 56200, + 56201 + ], + "area": 8526.972766, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 56200, + "strid": "64fd41e8-650c-41da-81c4-7c2425237aab", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 17.181, + 499.957, + 326.018, + 147.13400000000001 + ], + "priority": 8, + "parents": [ + 56194 + ], + "children": [], + "area": 8589.761217000001, + "iscrowd": 0, + "segmentation": [], + "text": "There is excellent correlation between assessment methods.\nThe sum of 72for all factors (~ effec size) = 0.678, suggesting that\n2/3 of factors responsible for variance in outcomes have boon\nidentified\n\n \n\nTe analytical methods employed here are accesible even to those\nwith litle statictical expertise They offer a simple way of aszessing the\ncontribution of diffrent experimental factors to outcomes when\nstatistical significance is elusive and sample sie is small They would ths\nbe very appropriate in acupuncture research, which tends to involve a\nnumber of independent variables in small-scale studies." + }, + { + "id": 56201, + "strid": "a1662cfd-dd57-4a1e-bbca-8d520129ed72", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 17.864, + 660.044, + 323.523, + 133.764 + ], + "priority": 9, + "parents": [ + 56194 + ], + "children": [], + "area": 11791.026016, + "iscrowd": 0, + "segmentation": [], + "text": "Where next?\n\nThe next small-scale ict inthe study will focus on individual\nparticipants, within individual sssions, and with stimulation ata single\nlocation (LI? or ST362) within each session, rather than attempting t>\ncompare the effects of several variables at once. Careful attention vil\nbe paid to the affects of baseline HRV (B) and stimulation Amp, 25 wall\n2s Hz.A mixed models approach and mulkvarite analysis wil szo be\nused to analyse new and existing results, with Bootstrap to ensure a\nsufficiently large sample size," + }, + { + "id": 56211, + "strid": "8abc75f7-291e-4d38-8da1-9ed6359ab8fb", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 389.622, + 119.147, + 170.10700000000003, + 139.39 + ], + "priority": 10, + "parents": [ + 56220 + ], + "children": [], + "area": 46422.292434, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56214, + "strid": "53e73ddc-c6c3-49e2-8302-a7687bdd9e04", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 577.707, + 118.925, + 235.211, + 157.461 + ], + "priority": 11, + "parents": [ + 56220 + ], + "children": [], + "area": 68703.80497499999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56195, + "strid": "6ce12496-2f29-441a-97d1-034164c7ebca", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 535.238, + 286.9, + 95.17100000000005, + 21.000999999999976 + ], + "priority": 12, + "parents": [ + 56220 + ], + "children": [ + 56202 + ], + "area": 153559.78220000002, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 56202, + "strid": "b6e78e93-c35b-4320-8c3a-78735a3d698c", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 369.065, + 308.608, + 426.82800000000003, + 19.363999999999976 + ], + "priority": 13, + "parents": [ + 56195 + ], + "children": [], + "area": 113896.41152, + "iscrowd": 0, + "segmentation": [], + "text": "To assess how treatment factors contribute to changes in HRV" + }, + { + "id": 56197, + "strid": "365bc158-e7fa-4196-9ede-d20be56dc582", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 526.141, + 352.336, + 127.47400000000005, + 15.879000000000019 + ], + "priority": 14, + "parents": [ + 56220 + ], + "children": [ + 56213, + 56203, + 56212, + 56205, + 56204 + ], + "area": 185378.415376, + "iscrowd": 0, + "segmentation": [], + "text": "Some RESULTS" + }, + { + "id": 56203, + "strid": "ee53576a-875f-46e1-9f15-c72c9bb709f5", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 414.998, + 374.23, + 332.10999999999996, + 27.103999999999985 + ], + "priority": 15, + "parents": [ + 56197 + ], + "children": [], + "area": 155304.70154, + "iscrowd": 0, + "segmentation": [], + "text": "Counts of significant differences in 8 HRV measures for main factors over\n‘uring or after) stimulation segments (total possible for each factor: 32)" + }, + { + "id": 56212, + "strid": "54394c4b-8d8d-47f4-a9c4-226a3f8cc4e9", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 389.753, + 407.306, + 388.3500000000001, + 137.54800000000006 + ], + "priority": 16, + "parents": [ + 56197 + ], + "children": [], + "area": 158748.735418, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56204, + "strid": "a2a9bafd-7728-4037-96ea-7752ae785166", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 426.769, + 554.924, + 315.371, + 24.337999999999965 + ], + "priority": 17, + "parents": [ + 56197 + ], + "children": [], + "area": 236824.360556, + "iscrowd": 0, + "segmentation": [], + "text": "‘Thus ID, Baseline HRV and stimulation Amp contribute most to changes in HRV.\n\"This is confirmed by further analysis:" + }, + { + "id": 56213, + "strid": "0e20df63-bf70-4d6d-8a23-e9a093a0cab4", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 401.547, + 588.344, + 371.46299999999997, + 157.37099999999998 + ], + "priority": 18, + "parents": [ + 56197 + ], + "children": [], + "area": 236247.76816800004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56205, + "strid": "d1aeaa03-f386-4b53-a043-104ae2c1fa37", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 391.4, + 753.547, + 382.73400000000004, + 24.090000000000032 + ], + "priority": 19, + "parents": [ + 56197 + ], + "children": [], + "area": 294938.2958, + "iscrowd": 0, + "segmentation": [], + "text": "Results for all Impact assessment methods are greatest for (D, and (apart from Diff) least for Hz.\n“This suggests that the effects of Hz may be masked by those of other factors." + }, + { + "id": 56196, + "strid": "55a7fad9-8a47-4bfa-a5d6-d2209b6fc3d7", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 848.73, + 117.094, + 69.58500000000004, + 15.925999999999988 + ], + "priority": 20, + "parents": [ + 56220 + ], + "children": [ + 56216, + 56217, + 56208, + 56218, + 56219, + 56206, + 56207, + 56215 + ], + "area": 99381.19062, + "iscrowd": 0, + "segmentation": [], + "text": "Protocol!" + }, + { + "id": 56206, + "strid": "8dcfedc8-7708-406c-9de4-c3ced3f0474a", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 848.972, + 149.584, + 289.97299999999996, + 86.642 + ], + "priority": 21, + "parents": [ + 56196 + ], + "children": [], + "area": 126992.627648, + "iscrowd": 0, + "segmentation": [], + "text": "va td\n\nPoints: Lt to LM (L142), ST362, Left or Right LI to ST3E\nParamoters:2.5 Hz or 10 He (256 us'strong but comforzable!\nModalities: manual (MAY), electro (EA), transcutaneous (TEAS)\n\nfloc vials wre ed ech it renga! Loe).\nDe (tverh nec asd naciaein Ale ea" + }, + { + "id": 56215, + "strid": "87b756b3-ce37-45f9-ac0d-143728436a36", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 844.825, + 244.39, + 289.69600000000014, + 121.03700000000003 + ], + "priority": 22, + "parents": [ + 56196 + ], + "children": [], + "area": 206466.78175, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56207, + "strid": "64f289d3-fe1e-40f7-a887-e0aa778cc48c", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 818.759, + 379.945, + 321.0720000000001, + 104.40100000000001 + ], + "priority": 23, + "parents": [ + 56196 + ], + "children": [], + "area": 311083.388255, + "iscrowd": 0, + "segmentation": [], + "text": "Does fickleness account for the effects of frequency (Hz)?\n\nSeveral methods suggest a small, non-significant difference in favour of\n2.5 Hz (e4,Fig 1). Most ofthese can be explained by intrinsic variation.\nFor instance, greatest Diff for Hz was found for SDNN, RI4S SD and\nHffpwr: However (ig 2), both at baseline (horizontal bars) and during\nstimulation (histogram), these were among HRV measures that showed\ngreatest CV: het fae" + }, + { + "id": 56216, + "strid": "0e1f516e-759a-48cd-943e-23388f0bd200", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 830.815, + 485.885, + 156.0, + 94.51099999999997 + ], + "priority": 24, + "parents": [ + 56196 + ], + "children": [], + "area": 403680.54627500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56217, + "strid": "9064cec5-3502-4282-bf4b-ffc4b0ed727c", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 990.516, + 485.601, + 147.45999999999992, + 100.774 + ], + "priority": 25, + "parents": [ + 56196 + ], + "children": [], + "area": 480995.560116, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56208, + "strid": "d8693810-d848-4615-8a8d-7659a1c118e2", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 819.574, + 589.93, + 324.78100000000006, + 79.64999999999998 + ], + "priority": 26, + "parents": [ + 56196 + ], + "children": [], + "area": 483491.28981999995, + "iscrowd": 0, + "segmentation": [], + "text": "In Filot 2, over the 26 misutes of EA stimulation, changes in value\nof 7 out of 8 HRV measures were in opposite directions forthe two\nfrequencies.At 25 Hz, 7 measures increased, but at 10 Hz only 3\nmeasures («9 Fig 3). However, plotting DP against CV for the 8\nmeasures (Fg 4),iis clear that such changes are very closely associated\nwith inherent variability (CV):" + }, + { + "id": 56218, + "strid": "5deda656-64c8-4f07-af78-284d39f94817", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 820.821, + 679.699, + 166.38700000000006, + 106.84100000000001 + ], + "priority": 27, + "parents": [ + 56196 + ], + "children": [ + 56209 + ], + "area": 557911.212879, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56209, + "strid": "0f79ad3a-d1f5-4a26-8695-00a80594f243", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 966.248, + 669.706, + 15.192999999999984, + 7.940000000000055 + ], + "priority": 28, + "parents": [ + 56218 + ], + "children": [], + "area": 647102.0830880001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 56219, + "strid": "c236ee9c-f7a9-4de5-9fe5-89bb361668d6", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 991.682, + 680.441, + 144.40899999999988, + 107.19899999999996 + ], + "priority": 29, + "parents": [ + 56196 + ], + "children": [ + 56210 + ], + "area": 674781.091762, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56210, + "strid": "47c4be8a-e1fd-44fa-8528-2d3088ca243f", + "image_id": 202713, + "image_name": "119134.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 993.391, + 669.64, + 14.730000000000018, + 7.951000000000022 + ], + "priority": 30, + "parents": [ + 56219 + ], + "children": [], + "area": 665214.34924, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 31831, + "strid": "78da59dc-49ee-4aab-a95b-7ed219eda2e4", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 17.08, + 71.25, + 81.09, + 498.1 + ], + "priority": -1, + "parents": [], + "children": [ + 31808, + 31823, + 31829, + 31806, + 31804, + 31805 + ], + "area": 1216.9499999999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31804, + "strid": "69365cee-0e05-411a-9056-350c01e36a18", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 123.802, + 62.699, + 3297.28, + 223.238 + ], + "priority": 1, + "parents": [ + 31831 + ], + "children": [], + "area": 7762.261598, + "iscrowd": 0, + "segmentation": [], + "text": "Preliminary results of GABA dynamics underlying visual stimulation at different\nwy 83: frequencies fa®" + }, + { + "id": 31805, + "strid": "01a7cda3-fbcc-49e5-8bcb-76c235f16e9f", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 693.428, + 322.225, + 2176.72, + 342.201 + ], + "priority": 2, + "parents": [ + 31831 + ], + "children": [], + "area": 223439.8373, + "iscrowd": 0, + "segmentation": [], + "text": "Ricardo C. G. Landim?, Richard A. E. Edden2, Bernd Foerster?*, Thiago B. S. Costa?°,\nElvis L. Silva?>, Li M. Li*>, Roberto J. M. Covolan?>, Gabriela Castellano?>*\n\n1Gleb Wataghin Physics Institute, University of Campinas — UNICAMP, Brazil; 2Russell H. Morgan Dept. of Radiology and Radiological Science, The Johns Hopkins\nUniversity School of Medicine; #Philips Medical Systems, SGo Paulo, Brazil; Neurology Department, Medical Sciences School, UNICAMP, Brazil; >CInAPCe Program\n(Cooperacdo Interinstitucional de Apoio a Pesquisas sobre o Cérebro), SGo Paulo State, Brazil\n\n*Email: gabriela@ifi.unicamp.br" + }, + { + "id": 31806, + "strid": "b0cdc598-9dad-4b40-b3fe-79c3a2bbd2ac", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 390.022, + 742.562, + 370.01500000000004, + 58.50699999999995 + ], + "priority": 3, + "parents": [ + 31831 + ], + "children": [ + 31807 + ], + "area": 289615.516364, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 31807, + "strid": "93d7b32d-c695-402e-9713-15f7ba7b4c8f", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 114.85, + 872.872, + 935.033, + 1880.7730000000001 + ], + "priority": 4, + "parents": [ + 31806 + ], + "children": [], + "area": 100249.3492, + "iscrowd": 0, + "segmentation": [], + "text": "Gamma-aminobutyric acid (GABA) is the main\ninhibitory neurotransmitter in the human brain, where\nits concentration has been pointed as predictor of\nmotor decision speed [1] and orientation\ndiscrimination performance [2], and it has been shown\nrelevant to short-term motor learning behavior and\nlearning-related brain activity [3]. It has also been\nshown that GABA concentration predicts negative\nBOLD-fMRI responses [4], and that resting GABA in the\nvisual cortex is inversely correlated with the BOLD\nmagnitude response to a visual stimulus [5].\n\nOn the other hand, several works have demonstrated a\ndependency between the BOLD signal and the flickering\nfrequency of visual stimuli, with the BOLD response\npeaking at 8Hz [6,7], and then peaking again at higher\nharmonics such as 16Hz and 24Hz [7].\n\nGiven that GABA is present in the brain at millimolar\nlevels, its measurement through Magnetic Resonance\nSpectroscopy (MRS) demands tailored sequences in\norder to isolate GABA signals from the spectrum [8].\nThe MEGA-PRESS sequence has already been used for\nthis purpose by Edden and Barker [9] who performed\nsuch edition in an experiment with phantoms, and in\nanother experiment with healthy volunteers using inner\nvolume saturation (IVS).\n\nIn fact, GABA detection by MEGA-PRESS has been\nshown to achieve excellent reproducibility at the visual\nand sensorimotor cortex [10].\n\nIn the present work, we performed a_ functional\nexperiment, using MRS, to evaluate GABA\nconcentrations in the visual cortex of individuals\nsubjected to visual stimuli flickering at 4Hz, 8Hz and\n16Hz. We hypothesized that GABA concentrations\nshould decrease for the 8Hz stimulus compared to the\n4Hz stimulus, and be the same or also decrease for the\n16Hz stimulus." + }, + { + "id": 31808, + "strid": "314ed750-c59f-4504-a2b3-6c2a80a84798", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 442.664, + 2813.885, + 268.27099999999996, + 56.87699999999995 + ], + "priority": 5, + "parents": [ + 31831 + ], + "children": [ + 31811, + 31815, + 31817, + 31814, + 31820, + 31810, + 31809, + 31819, + 31822, + 31813 + ], + "area": 1245605.5896400001, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 31809, + "strid": "e34e1727-6c9a-4b5a-bf92-50005f23b5d2", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.946, + 2944.758, + 912.4999999999999, + 1082.627 + ], + "priority": 6, + "parents": [ + 31808 + ], + "children": [], + "area": 347322.42706799996, + "iscrowd": 0, + "segmentation": [], + "text": "The MEGA-PRESS experiment used to separate GABA\nconsists of applying 2 editing pulses in an interleaved\nway (i.e., one to odd and the other to even spectra) [9].\nOne pulse targets the resonance of interest and the\nother can be, in principle, applied anywhere in the\nspectrum. Thus, subtraction of odd from even spectra\nshould yield zero everywhere but on the resonance of\ninterest. In our case, the resonance of interest was the\nGABA peak located around 1.9ppm. Although we\ncannot see the effect of the saturating pulse at this\nresonance due to the NAA+NAAG peak, this peak is\ncoupled to another at around 3ppm.\n\nTherefore the result of the experiment should yield a\npeak at around 3ppm.\n\nEleven healthy subjects (mean age 23+9, range 18-32\nyears, 1 woman) participated on the study. The project\nwas approved by the local Ethics Review Board and all\nsubjects gave written consent. GABA spectra were\nmeasured at 3T using the MEGA-PRESS sequence\n(TR/TE = 2000/68ms, 2048 data points, 2000Hz spectral\nwidth, 8 averages and voxel size 3x3x3cm?)." + }, + { + "id": 31810, + "strid": "24d921b9-9795-44d1-955d-846d20f49654", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1334.111, + 778.97, + 893.5150000000001, + 235.07600000000002 + ], + "priority": 7, + "parents": [ + 31808 + ], + "children": [], + "area": 1039232.4456700002, + "iscrowd": 0, + "segmentation": [], + "text": "The fMRS paradigm consisted of 7 blocks of 240s\nduration (15 spectra/block), these being: rest; 4Hz\nstimulus; rest; 8Hz stimulus; rest; 16Hz stimulus; ending\nwith rest (Figure 1), similar to the experiment\nperformed in [11]." + }, + { + "id": 31811, + "strid": "aa372db9-a42d-4998-9365-9c5488ad5c08", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1261.3, + 1060.209, + 1033.102, + 181.375 + ], + "priority": 8, + "parents": [ + 31808 + ], + "children": [ + 31812 + ], + "area": 1337241.6117, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31812, + "strid": "acbf2acf-e2e1-4b75-912a-3adffda96039", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1606.097, + 1274.973, + 345.80899999999997, + 38.162000000000035 + ], + "priority": 9, + "parents": [ + 31811 + ], + "children": [], + "area": 2047730.310381, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Paradigm used." + }, + { + "id": 31813, + "strid": "886c1a6f-f501-479f-af05-00fbffb2ded3", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1340.988, + 1389.51, + 889.4420000000002, + 89.92399999999998 + ], + "priority": 10, + "parents": [ + 31808 + ], + "children": [], + "area": 1863316.23588, + "iscrowd": 0, + "segmentation": [], + "text": "The visual stimulus was a_ black-white — radial\ncheckerboard pattern flickering at the cited frequencies" + }, + { + "id": 31814, + "strid": "88fc8955-84c2-49ce-96b7-b5b6addb84f2", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1345.354, + 1485.19, + 163.01600000000008, + 38.759000000000015 + ], + "priority": 11, + "parents": [ + 31808 + ], + "children": [], + "area": 1998106.3072600001, + "iscrowd": 0, + "segmentation": [], + "text": "(Figure 2)." + }, + { + "id": 31815, + "strid": "1228597c-fe72-4755-b8e0-31126537babf", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1339.566, + 1576.941, + 395.6890000000001, + 303.53300000000013 + ], + "priority": 12, + "parents": [ + 31808 + ], + "children": [ + 31816 + ], + "area": 2112416.547606, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31816, + "strid": "cf30ce6a-4215-4bbb-a2ce-9fecb81a4ad6", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1368.943, + 1909.622, + 340.86400000000003, + 78.35400000000004 + ], + "priority": 13, + "parents": [ + 31815 + ], + "children": [], + "area": 2614163.669546, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Visual stimulus\nused." + }, + { + "id": 31817, + "strid": "33ab08ae-201a-4181-ae0f-79265291f4af", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1869.354, + 1506.816, + 359.2500000000002, + 386.1379999999999 + ], + "priority": 14, + "parents": [ + 31808 + ], + "children": [ + 31818 + ], + "area": 2816772.516864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31818, + "strid": "9460c693-ca08-4180-a8ff-3c297bdcc2b2", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1934.96, + 1929.737, + 245.8670000000002, + 68.16499999999996 + ], + "priority": 15, + "parents": [ + 31817 + ], + "children": [], + "area": 3733963.90552, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. MRS voxel\npositioning." + }, + { + "id": 31819, + "strid": "c701fd8a-c715-4fe4-9062-ce937dab49dd", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1327.571, + 2056.634, + 905.9090000000001, + 618.5929999999998 + ], + "priority": 16, + "parents": [ + 31808 + ], + "children": [], + "area": 2730327.656014, + "iscrowd": 0, + "segmentation": [], + "text": "Before the fMRS scan, T2 images in three orthogonal\nplanes were acquired, followed by an fMRI protocol\nwith the same visual stimulus used for the fMRS\nexperiment. The activation map was superposed on the\nT2 images, and the MRS voxel was positioned on the\noccipital lobe over the activated area (Figure 3). Spectra\nbetween blocks were eliminated to avoid cross-talk. All\nspectra were apodized (3Hz) and frequency and phase\ncorrected. Odd spectra were subtracted from\ncorresponding even spectra resulting in spectra with a\nGABA peak at ~3ppm. Spectra were averaged in 224s-\nblocks resulting on 7 spectra (at 7 time points) for every\nsubject (Figure 4)." + }, + { + "id": 31820, + "strid": "9d5ab44f-1fdc-4328-8c74-e6e06ea6ef80", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1333.229, + 2721.177, + 893.4669999999999, + 524.8939999999998 + ], + "priority": 17, + "parents": [ + 31808 + ], + "children": [ + 31821 + ], + "area": 3627952.0905330004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31821, + "strid": "134f4ead-8545-45dd-bca6-73a33c6ec710", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1381.115, + 3262.281, + 797.0350000000001, + 72.89499999999998 + ], + "priority": 18, + "parents": [ + 31820 + ], + "children": [], + "area": 4505585.223315, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. Spectrum of one subject with the GABA peak at\n~3ppm surrounded with a dotted line." + }, + { + "id": 31822, + "strid": "0ec0a238-d0f4-4954-b5d2-277f860be7bd", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1332.69, + 3382.677, + 899.2359999999999, + 280.4180000000001 + ], + "priority": 19, + "parents": [ + 31808 + ], + "children": [], + "area": 4508059.81113, + "iscrowd": 0, + "segmentation": [], + "text": "The height of the GABA peak was evaluated by\nselecting distant points for baseline estimation. Height\nwas chosen over peak area due to _ better\nreproducibility of the former. Height GABA values for\nthe stimulus blocks were compared with values of the\nrespective preceding rest blocks." + }, + { + "id": 31823, + "strid": "65bc6ee6-572e-4d6d-8a49-2ea66772ad9f", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2842.338, + 744.069, + 216.07000000000016, + 56.263000000000034 + ], + "priority": 20, + "parents": [ + 31831 + ], + "children": [ + 31827, + 31825, + 31824 + ], + "area": 2114895.593322, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 31824, + "strid": "faafdc57-759d-48cd-a488-610689871819", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2503.703, + 889.379, + 895.6619999999998, + 325.5110000000001 + ], + "priority": 21, + "parents": [ + 31823 + ], + "children": [], + "area": 2226740.870437, + "iscrowd": 0, + "segmentation": [], + "text": "Only four (out of 11) subjects followed a pattern of\nGABA decrease (between -10% and -36%) for the 8Hz\nstimulus block (Figure 5), while seven subjects followed\nan inverse pattern: increase between 30% and 209% for\nthe same block (Figure 6), with exception of one\nsubject, whose GABA percentage increase was only\n0.3% for this frequency." + }, + { + "id": 31825, + "strid": "57a5b912-5f7a-42a3-97b5-5fbf696d08d2", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2537.465, + 1272.436, + 823.4769999999999, + 572.317 + ], + "priority": 22, + "parents": [ + 31823 + ], + "children": [ + 31826 + ], + "area": 3228761.81474, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31826, + "strid": "29f2d37e-7b77-45fb-949b-78bd73aeadea", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2532.382, + 1873.276, + 853.1109999999999, + 72.65499999999997 + ], + "priority": 23, + "parents": [ + 31825 + ], + "children": [], + "area": 4743850.423432, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5. Percentage GABA changes for 4 (out of 11) subjects\nthat followed a pattern of GABA decrease at 8 Hz." + }, + { + "id": 31827, + "strid": "fc25ae2f-e7e6-4025-ad60-e11bcb67176a", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2527.748, + 2009.595, + 815.9209999999998, + 591.2699999999998 + ], + "priority": 24, + "parents": [ + 31823 + ], + "children": [ + 31828 + ], + "area": 5079749.74206, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 31828, + "strid": "df2c9c3c-50f1-4073-9a8c-de0052d9bf57", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2516.087, + 2619.811, + 852.3499999999999, + 73.81899999999996 + ], + "priority": 25, + "parents": [ + 31827 + ], + "children": [], + "area": 6591672.399557, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 6. Percentage GABA changes for 7 (out of 11) subjects\nthat followed a pattern of GABA increase at 8 Hz." + }, + { + "id": 31829, + "strid": "5b7ecf1a-db67-4d89-9d6e-a2bb542d6d95", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2779.996, + 2780.974, + 356.105, + 57.18100000000004 + ], + "priority": 26, + "parents": [ + 31831 + ], + "children": [ + 31830 + ], + "area": 7731096.596104001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 31830, + "strid": "0e409a9f-b82e-4fb2-b13d-347735b1f4a8", + "image_id": 201748, + "image_name": "117623.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2506.58, + 2916.707, + 907.846, + 872.7260000000001 + ], + "priority": 27, + "parents": [ + 31829 + ], + "children": [], + "area": 7310959.43206, + "iscrowd": 0, + "segmentation": [], + "text": "The hypothesis of GABA decrease at the 8Hz visual\nstimulus was driven by the fact that the BOLD response\npeaks at that frequency [6,7], together with the fact\nthat GABA is inversely correlated with the BOLD\nmagnitude response [5]. However, less than half of the\nsubjects tested here followed this hypothesis. This may\nbe due to the inherent errors associated to the fMRS\ntechnique such as large intersubject variability and\npoor spatial resolution.\n\nThe evaluation of the height of the GABA peak instead\nof its area may also contribute for some deviations\nfrom the expected result, since the GABA concentration\nis proportional to the area under the peak. Thus,\nalthough height reproducibility is better than area’s, it\nis possible that the results might change if area were\nevaluated instead. Further investigations will follow in\norder to reach sounder conclusions." + }, + { + "id": 63676, + "strid": "d0e3f0b7-7a93-4d87-abf6-14c356fe67a8", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 108.8, + 73, + 162.63, + 376.99 + ], + "priority": -1, + "parents": [], + "children": [ + 63651, + 63652, + 63653, + 63656, + 63655, + 63654 + ], + "area": 7942.4, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63651, + "strid": "d6716911-a5f6-42f5-bc7e-e1f0f9107b30", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 179.35, + 62.066, + 3162.811, + 209.271 + ], + "priority": 1, + "parents": [ + 63676 + ], + "children": [], + "area": 11131.5371, + "iscrowd": 0, + "segmentation": [], + "text": "Stimulation of cytotoxic activity by killer dendritic cells and natural killer\ncells against HPV-positive tumor cells by a HPV vaccine" + }, + { + "id": 63652, + "strid": "f7acdb9a-6623-417e-8e62-2c5b6bd5ca28", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 144.354, + 335.197, + 3235.434, + 420.42099999999994 + ], + "priority": 2, + "parents": [ + 63676 + ], + "children": [], + "area": 48387.027738000004, + "iscrowd": 0, + "segmentation": [], + "text": "Johan MJ Van den Bergh*', Khadija Guerti?, Yannick Willemen', Eva Lion’, Nathalie Cools', Herman Goossens’,\nAlex Vorsters‘*, Viggo FI Van Tendeloo’, Sébastien Anguille', Pierre Van Damme’, Evelien LUM Smits'*\n\n \n\nMedicine , Antwerp University Hospital, Edegem, Belgium, * Laboratory of Medical Microbiology, University of Antwerp, Ne Tea i e-m eae ee Pe CMa\nAntwerp, Belgium, * Centre for the Evaluation of Vaccination, University of Antwerp, Belgium, ° Center for Oncological University of Antwerp\nResearch, University of Antwerp, Belgium\n\n1 Laboratory of Experimental Hematology, University of Antwerp, Antwerp, Belgium, 2 Department of Laboratory Ib Laboratory of Experimental Hematol" + }, + { + "id": 63653, + "strid": "51737de6-ae03-42ad-be7c-b81a59c2f120", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 381.189, + 826.567, + 447.00000000000006, + 66.793 + ], + "priority": 3, + "parents": [ + 63676 + ], + "children": [ + 63657 + ], + "area": 315078.24816300004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 63657, + "strid": "e76923cf-48ff-441e-845f-1e1a3566020d", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 147.562, + 938.355, + 3245.059, + 138.885 + ], + "priority": 4, + "parents": [ + 63653 + ], + "children": [], + "area": 138465.54051000002, + "iscrowd": 0, + "segmentation": [], + "text": "Cervarix™ is approved as a preventive vacciné\\against infection with the human papillomavi PV) strains 16 and 18, which are causally related to the development of cervical cancer.\nWe are the first to investigate the effects ofthis HPV vaccine on interleukin (IL)-15 denaritfeee s (DC) as proxy of a naturally occurring supetep blood DC, and natural killer (NK) cells,\ntwo innate immune cell types that play aMimportant role in antitumor immunity. a, TX |" + }, + { + "id": 63654, + "strid": "5da98204-5aad-40f5-8791-d479d42d95a8", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2325.194, + 1143.132, + 791.8629999999998, + 67.87400000000002 + ], + "priority": 5, + "parents": [ + 63676 + ], + "children": [ + 63658, + 63659 + ], + "area": 2658003.667608, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 63659, + "strid": "610118fc-4901-4a1a-a1da-ac6ed70151ea", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 128.221, + 1312.815, + 1546.413, + 574.922 + ], + "priority": 6, + "parents": [ + 63654 + ], + "children": [], + "area": 168330.45211500002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63658, + "strid": "389cbad9-f437-40c4-ad8f-d739aa5ed01d", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1732.338, + 1279.269, + 1654.294, + 642.3410000000001 + ], + "priority": 7, + "parents": [ + 63654 + ], + "children": [], + "area": 2216126.300922, + "iscrowd": 0, + "segmentation": [], + "text": "DC maturation and DC cytot y markers: DC phenotype and cytokine secretion profile\nwere determined directly aft h stimulation with HPV vaccine Convarixt™h, The cytokine\n\nsecretion was measured by G8irig electrochemiluminescent MSD® technology\n\nDC cytotoxicity: the Killing capacity of DC against tumor cells (TC) determined using a\nflow cytometry-b rotocol. PKH67* TC were cocultured for ance | DC in different ratios\nfollowed by stainingywith annexin V-APC and propidium iodide (P\n\nNK cell acifttion: thawed NK cells were cocultured in at Fat with autologous DC and\nmembr. ained after 4h, 24h, 42h and 72h. \\\n\nGP eytotoncy thawed NK cells were coc eS in a 1:1 ratio with autologous DC for\nollowed by addition of PKH67* TC for 4h (538°1 ratio). Hereafter, cocultures were stained\nwith annexin V-APC and PI. DP. /" + }, + { + "id": 63655, + "strid": "45498380-15ce-4849-a388-78c1348828d7", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 455.238, + 2033.269, + 277.82700000000006, + 65.80100000000016 + ], + "priority": 8, + "parents": [ + 63676 + ], + "children": [ + 63671, + 63674, + 63672, + 63675, + 63664, + 63667, + 63661, + 63663, + 63665, + 63669, + 63673, + 63668, + 63660, + 63670, + 63662 + ], + "area": 925621.313022, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 63660, + "strid": "6dfb0a1b-8af1-494c-a62f-e1e0bb50f8e5", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 110.894, + 2142.631, + 1144.349, + 793.2080000000001 + ], + "priority": 9, + "parents": [ + 63655 + ], + "children": [], + "area": 237604.922114, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63672, + "strid": "eed6c5e1-e3c4-4df6-9343-b1bb2d8a69d9", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 124.591, + 2978.862, + 1127.135, + 161.45100000000002 + ], + "priority": 10, + "parents": [ + 63655 + ], + "children": [], + "area": 371139.395442, + "iscrowd": 0, + "segmentation": [], + "text": "HPV vaccine induces phentypic maturation of IL-15 DC\nMembrane markers by 18h.HPV vaccine-stimulated IL-15 DC (Cer-DC,\nbold-lined histogram) unstimtlated iDC (thin-lined histogram) and isotype-\nmatched controls (dashed-lined histogram)." + }, + { + "id": 63665, + "strid": "d3452cc1-af7e-4919-b9a3-95b4680ac972", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 181.357, + 3292.775, + 959.6110000000001, + 517.4339999999997 + ], + "priority": 11, + "parents": [ + 63655 + ], + "children": [], + "area": 597167.7956750001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63667, + "strid": "e6a6cb1a-194a-47a0-a835-cd6901fcb985", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 187.114, + 3854.463, + 965.183, + 83.29700000000003 + ], + "priority": 12, + "parents": [ + 63655 + ], + "children": [], + "area": 721223.9897820001, + "iscrowd": 0, + "segmentation": [], + "text": "Abbreviations: HPV, human papillomawirus; IFN, interferon; IL, interleukin; Th, T helper; TNF,\ntumor-necrosis factor; VLP, virus-like paftitle\n** ny < 0.01, *** p < 0.001 (compared between HPV vaccine-stimulation and no stimulus)" + }, + { + "id": 63669, + "strid": "a056b209-32d1-464e-8d5f-51810d0692cc", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 130.379, + 3987.925, + 1115.989, + 128.40099999999984 + ], + "priority": 13, + "parents": [ + 63655 + ], + "children": [], + "area": 519941.67357499996, + "iscrowd": 0, + "segmentation": [], + "text": "HPV vaccine inducés pro-inflammatory cytokine secretion\nby IL-15 DC\nCytokine secretion.profile of 18h HPV vaccine-stimulated IL-15 DC" + }, + { + "id": 63661, + "strid": "356f5c78-86c2-49d9-8cec-50ff929e55e7", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1304.954, + 2148.017, + 1015.3150000000003, + 780.4929999999999 + ], + "priority": 14, + "parents": [ + 63655 + ], + "children": [], + "area": 2803063.3762179995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63673, + "strid": "86488751-d0a2-498e-983c-8881eb531e5f", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1332.291, + 2966.251, + 974.7819999999999, + 207.721 + ], + "priority": 15, + "parents": [ + 63655 + ], + "children": [], + "area": 3951909.511041, + "iscrowd": 0, + "segmentation": [], + "text": "HPV vaecine stimulates functional and phenotypic\ncytotOxic properties on IL 15 DC\n\nCytotoxic markers on 18h HPV vaccine-stimulated IL-15 DC (Ger\nDG, bold-lined histogram) unstimulated iDC (thin-lined hist6gram)\narid isotype-matched controls (dashed-lined histogram)(" + }, + { + "id": 63662, + "strid": "57022a33-1449-4d48-84e8-1069fca3be19", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2406.483, + 2144.265, + 1031.1949999999997, + 804.8409999999999 + ], + "priority": 16, + "parents": [ + 63655 + ], + "children": [], + "area": 5160137.269995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63674, + "strid": "be2fdecf-26f4-42fa-aaee-6bf93b5256e4", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2390.104, + 2963.606, + 1040.908, + 249.45600000000013 + ], + "priority": 17, + "parents": [ + 63655 + ], + "children": [], + "area": 7083326.555024, + "iscrowd": 0, + "segmentation": [], + "text": "Phenotypic and functional NK-cell acti RePr by HPV\n\nvaccine-stimulated DC\nA Cer-DC ~ bold-lined histogram, iDC aise histogram,\ni\n\nunstimulated NK cells > grey filled his: isotype controls >\ndashed-lined histogram. B alls ayake> Oem > black bars, iDC\n(+NK cells) > grey bars, NK cells aay white bars" + }, + { + "id": 63675, + "strid": "7b3deafd-3643-49d4-8ec1-3343de3ac88f", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2215.218, + 3262.478, + 319.22299999999996, + 52.827000000000226 + ], + "priority": 18, + "parents": [ + 63655 + ], + "children": [], + "area": 7227099.990204, + "iscrowd": 0, + "segmentation": [], + "text": "TLR4 blocking" + }, + { + "id": 63663, + "strid": "b92b35f2-8692-4b1d-af36-a3d2f93b39f5", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1324.005, + 3330.324, + 956.915, + 632.364 + ], + "priority": 19, + "parents": [ + 63655 + ], + "children": [], + "area": 4409365.62762, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63670, + "strid": "6d8636cc-8fea-4d25-a3a3-6e7d2be4f326", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1328.171, + 3987.952, + 1012.2810000000002, + 128.2430000000004 + ], + "priority": 20, + "parents": [ + 63655 + ], + "children": [], + "area": 5296682.195792001, + "iscrowd": 0, + "segmentation": [], + "text": "The effect of TLR4 blocking on HPV vaccine-induced\nDC phenotypic maturation\nGrey filled histograms > Cer-DC with TLR4 blogker‘CLI095" + }, + { + "id": 63664, + "strid": "c01971a2-0393-44a5-85c0-f3ddadc80a9f", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2432.128, + 3325.369, + 987.5360000000001, + 513.5259999999998 + ], + "priority": 21, + "parents": [ + 63655 + ], + "children": [], + "area": 8087723.055232001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63668, + "strid": "2c5e1369-3c49-44f5-a453-16549593fce5", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2447.282, + 3879.146, + 872.5230000000001, + 77.80000000000018 + ], + "priority": 22, + "parents": [ + 63655 + ], + "children": [], + "area": 9493364.181172, + "iscrowd": 0, + "segmentation": [], + "text": "Abbreviations: CLI095, TLR4 inhibitor ; HPV, human papillomavirus, JEN, interferon; IL,\ninterleukin; Th, T helper ; TLR4, Toll-like receptor 4; LPS, lipopol¥Saceharide\n* p < 0.05, ** p < 0.01, *** p < 0.001 (compared between CLI095, and no CLI095 added)" + }, + { + "id": 63671, + "strid": "66979959-2101-47eb-b92e-9e9fb64762c4", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2431.965, + 3987.362, + 987.406, + 89.95499999999993 + ], + "priority": 23, + "parents": [ + 63655 + ], + "children": [], + "area": 9697124.82633, + "iscrowd": 0, + "segmentation": [], + "text": "The effect of TLR4 blocking eum vaccine-induced\nDC cytokine secretion" + }, + { + "id": 63656, + "strid": "2dccbd15-7863-46ee-b3b0-d0ae3d766ed6", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2448.688, + 4202.018, + 751.8000000000002, + 82.54200000000037 + ], + "priority": 24, + "parents": [ + 63676 + ], + "children": [ + 63666 + ], + "area": 10289431.052384, + "iscrowd": 0, + "segmentation": [], + "text": "Concluding remarks" + }, + { + "id": 63666, + "strid": "e7b76c9c-d21f-44e2-af67-b8b509bfa79d", + "image_id": 203008, + "image_name": "119575.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.786, + 4320.552, + 3274.523, + 184.90300000000025 + ], + "priority": 25, + "parents": [ + 63656 + ], + "children": [], + "area": 603952.681872, + "iscrowd": 0, + "segmentation": [], + "text": "In’ conclusion, we are the first to show tnaie mulation of IL-15 DC (related to the natura (existing CD56*CD7-CD11c*BDCA1* myeloid _D lbset) with the HPV vaccine prompts\nphenotypic activation and cytokine secr and that these effects are partially mediate or TLR4 signaling. Strikingly, HPV vaccinG 3p ulated IL-15 DC exert cytotoxic activity\nagainst HPV16* and HPV18* cervical c r calls, which is synergistically increased WS hese DC are combined with autologous NK.ce\n\ns. Hence, our data identify a novel mode of\naction by which the HPV vaccine might ect against cervical cancer doveloomont \\> CN" + }, + { + "id": 191044, + "strid": "686361f2-f1a7-44e4-95da-0fccbfbb931c", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 366.96, + 56.11, + 183.86000000000007, + 115.58 + ], + "priority": -1, + "parents": [], + "children": [ + 191027, + 191028, + 191025, + 191033, + 191030, + 191032, + 191031, + 191029, + 191026 + ], + "area": 20590.1256, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191025, + "strid": "a90f1649-6fcf-4f04-bb31-ab351c59603f", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 570.896, + 126.966, + 3609.416, + 101.58200000000001 + ], + "priority": 1, + "parents": [ + 191044 + ], + "children": [], + "area": 72484.38153599999, + "iscrowd": 0, + "segmentation": [], + "text": "Measuring the Propagation of Neural Signals Evoked from Colors and Contours" + }, + { + "id": 191026, + "strid": "e0cd670f-ac84-4fda-aec3-a2064d91e0b1", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 960.133, + 259.903, + 2830.8110000000006, + 235.858 + ], + "priority": 2, + "parents": [ + 191044 + ], + "children": [], + "area": 249541.44709900004, + "iscrowd": 0, + "segmentation": [], + "text": "Andrew J Coia & Michael A Crognale\nCognitive Brain Science, Psychology, University of Nevada Reno" + }, + { + "id": 191027, + "strid": "cd5815d2-e4f5-4302-935c-968b4bfb0aa8", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 189.611, + 579.614, + 619.516, + 96.71900000000005 + ], + "priority": 3, + "parents": [ + 191044 + ], + "children": [ + 191043 + ], + "area": 109901.190154, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 191043, + "strid": "c84fc424-ddd1-49fe-b00f-7a307df7259a", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 211.39, + 753.228, + 1166.487, + 524.353 + ], + "priority": 4, + "parents": [ + 191027 + ], + "children": [], + "area": 159224.86691999997, + "iscrowd": 0, + "segmentation": [], + "text": "The watercolor effect demonstrates how the visual\nsystem creates surface coloration from edges\n\nThis illusion can be made with chromatic or\nachromatic contours\n\nThe illusion can be psychophysically matched to\nphysical contrast" + }, + { + "id": 191029, + "strid": "a0102ae0-14dd-4a82-b1db-7e18cffd162f", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 184.823, + 1366.165, + 501.34900000000005, + 99.94700000000012 + ], + "priority": 5, + "parents": [ + 191044 + ], + "children": [ + 191041 + ], + "area": 252498.71379500002, + "iscrowd": 0, + "segmentation": [], + "text": "Questions" + }, + { + "id": 191041, + "strid": "210ac3cc-0148-4aaf-bd9a-85b379e54964", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 211.001, + 1549.945, + 1174.86, + 459.404 + ], + "priority": 6, + "parents": [ + 191029 + ], + "children": [], + "area": 327039.944945, + "iscrowd": 0, + "segmentation": [], + "text": "Is the watercolor illusion caused by feedback from\nhigher to lower visual areas?\n\nAre there differences in neural processing between\nchromatic and achromatic contours, as well as edge\ninduced colors and their physically matched\ncounterparts?" + }, + { + "id": 191031, + "strid": "65cfff6c-72cf-471b-813e-f3d911186923", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 168.47, + 2064.358, + 449.774, + 98.61299999999983 + ], + "priority": 7, + "parents": [ + 191044 + ], + "children": [ + 191042 + ], + "area": 347782.39226000005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 191042, + "strid": "0f5adcb4-00a6-45f9-b890-1c7310730953", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 176.292, + 2302.223, + 1207.783, + 902.9949999999999 + ], + "priority": 8, + "parents": [ + 191031 + ], + "children": [], + "area": 405863.497116, + "iscrowd": 0, + "segmentation": [], + "text": "Heterochromatic Flicker Photometry: To make chromatic stimuli\nisoluminant, participants completed a task where they minimized\nthe flicker of the chromatic contours by adjusting relative\nluminance.\n\nContrast Matching: Each contour combination (control) was\nequated in contrast by participants so black/white and red/green\npatterns were equally visible to blue/yellow.\n\nIllusion Matching: The illusion was matched to a physical color\nwhich lied in between the inducing contour and the background in\ncolor space (2 AFC).\n\nhdEEG Recordings: A 256 channel EEG system was used to record\nelectrical activity from participants while they viewed repeated\npresentations of the illusion, control, and filled control (briefly\npresented and followed by a blank screen)." + }, + { + "id": 191028, + "strid": "77d65f34-0717-4392-a10e-e73787a84170", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1504.645, + 560.92, + 351.61799999999994, + 97.93500000000006 + ], + "priority": 9, + "parents": [ + 191044 + ], + "children": [ + 191024 + ], + "area": 843985.4733999999, + "iscrowd": 0, + "segmentation": [], + "text": "Stimuli" + }, + { + "id": 191024, + "strid": "67acf60b-d04d-404a-b2a0-a4991e5df455", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1502.796, + 750.447, + 1297.9640000000002, + 1213.3049999999998 + ], + "priority": 10, + "parents": [ + 191028 + ], + "children": [ + 191034 + ], + "area": 1127768.749812, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191034, + "strid": "c20d9afc-091a-4b8f-9297-016601593108", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2807.972, + 947.345, + 300.462, + 868.643 + ], + "priority": 11, + "parents": [ + 191024 + ], + "children": [], + "area": 2660118.2343400004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1:\nStimuli used\nin current\nstudy.\nContours\nvarying in\neither\nchromatic or\nachromatic\ncontrast\nalong cone\nopponent\naxes." + }, + { + "id": 191030, + "strid": "fc06c68d-3995-4097-8dc3-4f3e96ebb443", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1494.947, + 2022.608, + 971.76, + 114.79200000000014 + ], + "priority": 12, + "parents": [ + 191044 + ], + "children": [ + 191022, + 191023 + ], + "area": 3023691.761776, + "iscrowd": 0, + "segmentation": [], + "text": "Results (Electrodes)" + }, + { + "id": 191023, + "strid": "77c4faf2-17c9-4c74-a1b8-ad33d71643ec", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1523.074, + 2196.092, + 1584.88, + 359.5949999999998 + ], + "priority": 13, + "parents": [ + 191030 + ], + "children": [ + 191039 + ], + "area": 3344810.6268080003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191039, + "strid": "67589fc9-fa2a-44bf-9f75-6120ef37c3df", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1517.781, + 2593.216, + 1412.107, + 123.029 + ], + "priority": 14, + "parents": [ + 191023 + ], + "children": [], + "area": 3935933.9736959995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Average of ~30 electrodes from back of head for the\nthree conditions of the three color pairs" + }, + { + "id": 191022, + "strid": "a3ebb9e2-5320-4321-88c5-05c02ba836c5", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1543.318, + 2723.613, + 1336.0620000000001, + 449.2919999999999 + ], + "priority": 15, + "parents": [ + 191030 + ], + "children": [ + 191040 + ], + "area": 4203400.967933999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191040, + "strid": "70f43692-1228-4481-974d-a627b48c2354", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1559.282, + 3229.11, + 1290.401, + 123.1289999999999 + ], + "priority": 16, + "parents": [ + 191022 + ], + "children": [], + "area": 5035093.09902, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Average amplitudes and latencies of the above\nwaveforms in figure 2 (error bars +- 1 SEM)" + }, + { + "id": 191033, + "strid": "34e8ee5e-e904-4096-9939-9b3a43de26cd", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3242.486, + 556.359, + 1223.0340000000006, + 109.78399999999999 + ], + "priority": 17, + "parents": [ + 191044 + ], + "children": [ + 191019, + 191020, + 191021 + ], + "area": 1803986.268474, + "iscrowd": 0, + "segmentation": [], + "text": "eee) me] mA dia ay," + }, + { + "id": 191019, + "strid": "87b6801c-2c4e-4988-b572-caa0572a39a0", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3181.494, + 708.581, + 880.0230000000001, + 571.7399999999999 + ], + "priority": 18, + "parents": [ + 191033 + ], + "children": [ + 191035 + ], + "area": 2254346.2000140003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191035, + "strid": "a737d782-3c81-407a-b6fd-6388bc35d8e5", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4073.954, + 761.453, + 451.1479999999997, + 366.29399999999987 + ], + "priority": 19, + "parents": [ + 191019 + ], + "children": [], + "area": 3102124.495162, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Retinotopic\nmaps specific to\nindividuals measured\nusing fMRI were used as\nregions of interest (only\nleft hemisphere ROIs\nshown)" + }, + { + "id": 191020, + "strid": "f23332b9-b7e1-4ea0-a739-2bb571aeff5d", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3221.159, + 1292.105, + 1319.261, + 585.298 + ], + "priority": 20, + "parents": [ + 191033 + ], + "children": [ + 191036 + ], + "area": 4162075.649695, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191036, + "strid": "6ae54554-0c33-4e11-82f5-8aa8759cba75", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3214.223, + 1889.309, + 1255.0529999999999, + 115.99900000000002 + ], + "priority": 21, + "parents": [ + 191020 + ], + "children": [], + "area": 6072660.441907, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Normalized current density estimates for early\nvisual areas and ventral visual areas" + }, + { + "id": 191021, + "strid": "c6adbd25-9e9d-4c1e-8304-c7b4656e2555", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3179.72, + 2027.386, + 1371.7190000000005, + 592.7689999999998 + ], + "priority": 22, + "parents": [ + 191033 + ], + "children": [ + 191037 + ], + "area": 6446519.811919999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 191037, + "strid": "e971657a-32de-48b0-aed4-6e99e84ccdf6", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3209.931, + 2667.131, + 1235.6550000000002, + 120.09900000000016 + ], + "priority": 23, + "parents": [ + 191021 + ], + "children": [], + "area": 8561306.477961, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: Latencies and amplitudes of current densities\nfor different cortical regions." + }, + { + "id": 191032, + "strid": "2879e660-dd8f-4cfe-9273-2724290a688e", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3243.642, + 2828.314, + 590.1379999999999, + 100.154 + ], + "priority": 24, + "parents": [ + 191044 + ], + "children": [ + 191038 + ], + "area": 9174038.079588, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 191038, + "strid": "57b71fd3-dd76-4d44-8dab-3868840a0007", + "image_id": 207960, + "image_name": "9170.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3188.635, + 2987.477, + 1295.031, + 391.0569999999998 + ], + "priority": 25, + "parents": [ + 191032 + ], + "children": [], + "area": 9525973.723895, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20417, + "strid": "da443210-d91c-4772-b179-9899b86bcfa2", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 87.68, + 72.09, + 225.08999999999997, + 279.41999999999996 + ], + "priority": -1, + "parents": [], + "children": [ 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"text": "Mrignayani Kotecha\", Ziying Yin', Temel Kaya Yasar?, Dieter Klatt’,\nThomas J. Royston’, Richard L. Magin™\n\n1 Department of Bioengineering and *Department of Mechanical Engineering, University of Illinois at Chicago, IL\n60607, USA. “mkotecha@uic.edu ,rmagin @uic.edu" + }, + { + "id": 20382, + "strid": "3a800b49-8b1c-44a8-a047-bb37dc5cdeac", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1685.885, + 680.798, + 435.99300000000017, + 61.14499999999998 + ], + "priority": 3, + "parents": [ + 20417 + ], + "children": [ + 20386 + ], + "area": 1147747.13623, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 20386, + "strid": "ca95c7bb-079a-4743-8a92-9e76e7704d35", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.898, + 793.186, + 3661.977, + 493.39 + ], + "priority": 4, + "parents": [ + 20382 + ], + "children": [], + "area": 65753.533028, + "iscrowd": 0, + "segmentation": [], + "text": "Carti ge tissue engineering is a promisin echnology for cartilage restoration and regeneration therapies. Cartilage is cormposed of chondrocytes cells\n(~1%), tissue fluid (~75% of wet weigh an extra cellular matrix (~25%, -main!y proteoglycans and type II collagen). aa to mimic native cartilage,\ntissue engineers focus on producti the ECM components using a acd f approaches to assemble de novo ue from appropriate cell types,\nbiocompatible gels, biodegradable scaffolds and chondrogenic growth f cto . The success of engineered tissue is normally assessed using histology\nand biochemical assays. Unfo una ely, these techniques of visualizing growth can only be performed onc gnetic Resonance Imaging (MRI) i\nemerging as an alternative, non-invasive tracking tool for tissue engineering because it provides a means for the periodic acquisition of quantitative\ninformation (T,, T4,, To, ADC and stiffness) about the development engineered tissue, both pre and post-implantation [1, 2]. We present here recent\nresults for tracking cartilage tissue engineering at the early stages of growth in vitro and in vivo. eS 0 <" + }, + { + "id": 20383, + "strid": "90036cd1-79c8-463b-a612-855851c58d15", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 207.764, + 1329.47, + 917.179, + 74.4380000000001 + ], + "priority": 5, + "parents": [ + 20417 + ], + "children": [ + 20393, + 20397, + 20391, + 20388, + 20392, + 20387, + 20389 + ], + "area": 276216.00508000003, + "iscrowd": 0, + "segmentation": [], + "text": "MR Parametric Map Imaging (MRI)" + }, + { + "id": 20387, + "strid": "0012c8c4-04c9-45bb-a60b-0c40a1197d8b", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.032, + 1447.784, + 1194.571, + 430.22800000000007 + ], + "priority": 6, + "parents": [ + 20383 + ], + "children": [], + "area": 110077.913088, + "iscrowd": 0, + "segmentation": [], + "text": "A. High-Resolution T,, T;, ADC and T,, maps of articular\ncartilage at 11.7 T [3]\n\nHigh resolution multi-parametric MR imaging of articular cartilage (AC) is\nessential to monitcr early stage of proteoglycan (PG) loss resulting from aging\nor degenerative joint diseases. AC is a heterogeneous connective tissue\ncomposed of tiiree distinct zones: superficial zone (SZ), transitional zone {TZ}\nand radiai zone (RZ), each with a unique framework of chondrocytes, tissue\nfluid (water) and structural macromolecules (collagens, PGs and other proteins)\n[1]. Ditierences in the macromolecular composition of each layer provide the\nbasis for multi-parametric MR contrasts." + }, + { + "id": 20388, + "strid": "4d58c90c-ceea-4526-b68b-10c1a2a9dd39", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 81.917, + 1877.358, + 1176.917, + 793.4849999999999 + ], + "priority": 7, + "parents": [ + 20383 + ], + "children": [], + "area": 153787.535286, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20389, + "strid": "dfed031b-d142-4bb0-9d04-9afc622acbde", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.917, + 2679.328, + 1189.76, + 247.52599999999984 + ], + "priority": 8, + "parents": [ + 20383 + ], + "children": [], + "area": 219482.511776, + "iscrowd": 0, + "segmentation": [], + "text": "B. Monitoring the formation of tissue-engineered cartilage\nusing magnetic resonance imaging [4]\n\nCartilage tissue engineering relies on the production of proteogivcans and\ncollagens as a biomarker. In this study, we used MRI to evaluate the scaffold-\nfree chondrocyte pellets over a 3-week period, and observed the distinct\nchanges in histograms of T,, T,, T,,, and apparent diffusion coefficient (ADC)." + }, + { + "id": 20391, + "strid": "aa7e8e95-1705-4238-a385-847491ed53f5", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 88.533, + 2941.643, + 601.302, + 256.8670000000002 + ], + "priority": 9, + "parents": [ + 20383 + ], + "children": [ + 20390 + ], + "area": 260432.479719, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20390, + "strid": "581db51d-a27d-437f-b77c-3ff8074ba37b", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 705.403, + 2942.032, + 532.415, + 272.0450000000001 + ], + "priority": 10, + "parents": [ + 20391 + ], + "children": [], + "area": 2075318.1988960002, + "iscrowd": 0, + "segmentation": [], + "text": "oints: 3, 7, 14 and 21 days\n\ndifferent +i\n\n(TE/TR = 50 ms s, in-plane resolution = 62\nyum, slice thickness = 0.5 mm). Red lines\nindicate ROIs selected. The MR parameters\n(T;, Typ, T;, and ADC) were calculated for\nLogie in ROls. At each time point, 3\n\npret were taken out of the incubator for\naging.\n\nFigure 2: ac s of pellets cultured at" + }, + { + "id": 20392, + "strid": "ef124be7-ba3a-4478-8014-27e86a712385", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 106.047, + 3216.023, + 638.664, + 343.2669999999998 + ], + "priority": 11, + "parents": [ + 20383 + ], + "children": [ + 20395 + ], + "area": 341049.591081, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20395, + "strid": "b14d9f8d-c115-4927-b400-ace9e31b8bff", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 85.031, + 3565.129, + 1157.068, + 126.09799999999996 + ], + "priority": 12, + "parents": [ + 20392 + ], + "children": [], + "area": 303146.483999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: nasear of T, Typ, T; and ADC during development. Acquisition parameters: T, 2\n= 5s, TE =5.5— 371 ms, 64 echoes), T,, (TE/TR = 7.5 ms/5 s, TSL = 10, 20, 40, 80, 120, 2\nspin-lock frequency = 500 Hz), T, (TE = 11.45 ms, TR = 104 ms — 10, 16 steps), and 20 2A EN R\n= 25) a, 8/A = 3/18 ms, b =0, 91, 234, 443, 717, 1057, 1463 s/mm2)." + }, + { + "id": 20393, + "strid": "c438d184-04c1-4170-b8a0-3002829e4981", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 841.62, + 3221.861, + 326.92099999999994, + 226.51000000000022 + ], + "priority": 13, + "parents": [ + 20383 + ], + "children": [ + 20394 + ], + "area": 2711582.65482, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20394, + "strid": "26bc2049-a68d-4f05-af48-1475f9aaf545", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 800.755, + 3456.544, + 409.8190000000001, + 88.73599999999988 + ], + "priority": 14, + "parents": [ + 20393 + ], + "children": [], + "area": 2767844.89072, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Accumulation of\nproteoglycan (PG) and collagen\nin one pellet (n = 1) over 3 weeks." + }, + { + "id": 20397, + "strid": "c826deab-deec-478e-bedb-2353e63eb222", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 86.198, + 3697.065, + 1150.063, + 220.67200000000003 + ], + "priority": 15, + "parents": [ + 20383 + ], + "children": [ + 20396 + ], + "area": 318679.60887, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20396, + "strid": "30aa3b83-25f3-44c2-959b-0c13b13a196c", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 86.198, + 3928.245, + 1131.381, + 65.38400000000001 + ], + "priority": 16, + "parents": [ + 20397 + ], + "children": [], + "area": 338606.86250999995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: (a) Ts, (6) Typ, (c) T; and (d) ADC values of the pellets / center regions were averaged\nat each time point. The values represent mean + SD (n =3). »" + }, + { + "id": 20384, + "strid": "44152cb2-afee-4ab7-a9b6-5370efb4ab30", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1364.208, + 1329.47, + 1087.3229999999999, + 74.4380000000001 + ], + "priority": 17, + "parents": [ + 20417 + ], + "children": [ + 20398, + 20404, + 20401, + 20399, + 20402 + ], + "area": 1813673.6097600001, + "iscrowd": 0, + "segmentation": [], + "text": "Proton and Sodium Spectroscopy (MRS)" + }, + { + "id": 20398, + "strid": "7f7dc5a1-925e-41ee-8cca-a15fa772dd47", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1311.611, + 1449.119, + 1191.2009999999998, + 342.567 + ], + "priority": 18, + "parents": [ + 20384 + ], + "children": [], + "area": 1900680.420709, + "iscrowd": 0, + "segmentation": [], + "text": "C. Water suppressed proton NMR spectroscopy for cartilage\ntissue engineering [5]\n\nMagnetic Resonance Spectroscopy provides near unbiased tool to investigate\nbiochemical changes occurring at the molecular level. In order to mimic native\ncartilage, tissue engineers rely on a variety of approaches ior effective re-\ndifferentiation of chondrocytes and focus on the prociuction of major ECM\ncomponents. We used water suppressed proton spectroscopy to track\nchondrogenic differentiation in pellet culture." + }, + { + "id": 20399, + "strid": "88f7f07d-5724-43e3-aa3e-cd6eaf4091ea", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1324.842, + 1799.975, + 1160.895, + 650.9410000000003 + ], + "priority": 19, + "parents": [ + 20384 + ], + "children": [ + 20400 + ], + "area": 2384682.47895, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20400, + "strid": "2d8ee131-d4b1-484c-aaf7-1808f6efe2d0", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1325.5, + 2456.715, + 1166.6390000000001, + 64.05999999999995 + ], + "priority": 20, + "parents": [ + 20399 + ], + "children": [], + "area": 3256375.7325000004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: Water suppressed 'H NMR spectra of chondrocyte pellets (top pa and HMSCs\ncea\n\nS in biomimetic scaffold (bottom panel). -" + }, + { + "id": 20401, + "strid": "9d79e1ae-4340-4e6b-bde4-c0152cf7bc9b", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1315.821, + 2527.698, + 1190.8670000000002, + 381.3119999999999 + ], + "priority": 21, + "parents": [ + 20384 + ], + "children": [], + "area": 3325998.1100579994, + "iscrowd": 0, + "segmentation": [], + "text": "D. Sodium Relaxation and triple quantum coherence\nspectroscopy as a probe for early stage growth of engineered\ntissue [6]\n\nProteoglycans are negatively charged macromolecu!es, and sodium ions binds\ndirectly to them. This makes sodium spectroscopy and imaging as an attractive\ntool to track the cartilage growth progress. 'n tnis study we used sodium\nrelaxation and triple quantum coherence spectroscopy for characterization of\nbiomimetic scaffolds at the early growin stage for cartilage tissue\nregeneration." + }, + { + "id": 20402, + "strid": "c5a2fe7e-3873-4d9a-a70d-d337dafc72d5", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1318.641, + 2917.178, + 1164.2199999999998, + 376.23199999999997 + ], + "priority": 22, + "parents": [ + 20384 + ], + "children": [ + 20403 + ], + "area": 3846710.515098, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20403, + "strid": "43831747-3811-40cb-93d5-aa1a0c63eaab", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1320.256, + 3305.79, + 1157.7609999999997, + 96.88400000000001 + ], + "priority": 23, + "parents": [ + 20402 + ], + "children": [], + "area": 4364489.08224, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7: 28 ‘T, and T, relaxation times of biomimetic scaffolds at 9.4T. The smaller T, values\nas com arcd t T, values are indicative of sodium ions binding to proteoglycans. The ! ase\nin Tp paveta probably due to increased aggregation of proteoglycans molecules." + }, + { + "id": 20404, + "strid": "df845eb1-1fb7-4e27-8193-d51d60fac1cc", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1322.157, + 3415.062, + 1169.492, + 387.491 + ], + "priority": 24, + "parents": [ + 20384 + ], + "children": [ + 20416 + ], + "area": 4515248.128734, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20416, + "strid": "5af18408-0591-48ac-870c-2637a6b00d30", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1333.394, + 3812.295, + 1147.6589999999999, + 178.38200000000006 + ], + "priority": 25, + "parents": [ + 20404 + ], + "children": [], + "area": 5083291.27923, + "iscrowd": 0, + "segmentation": [], + "text": "in ECM embedded scaffold seeded with HM Ils and chondrocytes embedded in alginate\n\nbeads as a function of growth time f eek period at 9.4T. For comparison, similar\n\nparameters from native human cartil BC thick, 3 mm diameter, from a 72 year old male\n( d\n\nTable 1: The fast and slow relaxation times MSC residual quadrupolar couplings for sodium ions\n\ndonor) explants at 9.4 T field are inclu in the table. The last column in each section gives\nestimated motional parameter Wotc." + }, + { + "id": 20385, + "strid": "b12a462d-1a90-46ee-9d37-df0a2bd8d03a", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2829.584, + 1330.272, + 634.6680000000001, + 69.05500000000006 + ], + "priority": 26, + "parents": [ + 20417 + ], + "children": [ + 20408, + 20412, + 20410, + 20409, + 20405, + 20406 + ], + "area": 3764116.3668479994, + "iscrowd": 0, + "segmentation": [], + "text": "MR Elastography (MRE)" + }, + { + "id": 20405, + "strid": "0779e6dd-6014-4c6e-a49d-4f154a069133", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2547.253, + 1449.305, + 1186.826, + 301.95399999999995 + ], + "priority": 27, + "parents": [ + 20385 + ], + "children": [], + "area": 3691746.509165, + "iscrowd": 0, + "segmentation": [], + "text": "E. Geometric Focusing of high frequency shear waves for non-\ninvasive high resolution microscopic MR Elastography [7]\nMicroscopic Magnetic Resonance Elastograohy (uMRE) provides a non-\ninvasive method to assess the local mechanical properties of gel samples and\nengineered tissues /n vitro. In this stucy, we use UMRE to measure the shear\nstiffness of alginate hydrogel beads, a common scaffolds used in tissue\nengineering for providing mechanica! support for cell growth." + }, + { + "id": 20406, + "strid": "b76ed957-f9c4-4c10-8718-851d6bce5376", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2586.007, + 1754.489, + 1099.6309999999999, + 424.674 + ], + "priority": 28, + "parents": [ + 20385 + ], + "children": [ + 20407 + ], + "area": 4537120.835423, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20407, + "strid": "30904d2e-58a2-48d4-b379-ca6673615cb8", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2555.327, + 2200.154, + 1177.138, + 122.71900000000005 + ], + "priority": 29, + "parents": [ + 20406 + ], + "children": [], + "area": 5622112.920358, + "iscrowd": 0, + "segmentation": [], + "text": "urc 8: Measured shear wave motion and calculated shear stiffness (~1043 a) at 5 kHz for\n\nthree alginate beads suspended in Agarose gel (0.7%). TE = 45 ms, FO 0x10 mm, slice\n\nickness -1 mm matrix size-128x128, 42 MSG cycles and 9 on ctuation cycles were\nused at 11.7T." + }, + { + "id": 20408, + "strid": "5f61c074-bf39-437d-92c7-ae2ae1330e8f", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2545.108, + 2328.461, + 1189.9939999999997, + 304.36400000000003 + ], + "priority": 30, + "parents": [ + 20385 + ], + "children": [], + "area": 5926184.718788, + "iscrowd": 0, + "segmentation": [], + "text": "F. Measurement of In vitro local shear stiffness of alginate\nbeads using microscopic MR Elastography (8]\n\nIn this study, we monitored the change in shear stiffness of alginate beads\nembedded in agarose gel over a period of ~10 hours. During this time, a\ndecrease in bead stiffness couple with the increase in T2 was observed. We\nhypothesized that this change was duc to an osmotic pressure gradient\nbetween the alginate beads and the againse gel ." + }, + { + "id": 20410, + "strid": "d2278159-9461-492c-b832-007042285894", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2558.838, + 2655.709, + 796.3800000000001, + 350.1329999999998 + ], + "priority": 31, + "parents": [ + 20385 + ], + "children": [ + 20411 + ], + "area": 6795529.106142, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20411, + "strid": "b8659423-b2b2-4a1b-bb54-664d31a3c882", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3368.482, + 2682.89, + 326.9209999999998, + 305.9050000000002 + ], + "priority": 32, + "parents": [ + 20410 + ], + "children": [], + "area": 9037266.67298, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 9: Calculated shear\nStiffness and T2 changes\nof the beads over time.\n\nThe experimental\nparameters were: FOV =\n1x1 cm2, in-plane\n\nresolution = 78x78 pm?,\nslice thickness = 0.5 mm,\nnumber of bipolar\ngradients = 23." + }, + { + "id": 20409, + "strid": "f1514d23-495b-4f36-93ab-2b46959490f6", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2545.108, + 3042.457, + 1189.9939999999997, + 272.3249999999998 + ], + "priority": 33, + "parents": [ + 20385 + ], + "children": [], + "area": 7743381.650356, + "iscrowd": 0, + "segmentation": [], + "text": "G. In vivo Nude Mouse MR Elastography [9]\n\nIn this in vivo study at 9.4 T, we are monitoring shear stiffness of matrigel\nimpianted in a mouse model. Further, the sensitivity of vo!umeiric strain,\nmeasured as the divergence of the 3D displacement field induced by harmonic\nwaves, to the state of compression of poro-elastic cartilage is currently being\ninvestigated." + }, + { + "id": 20412, + "strid": "ebe85761-fedc-4a41-ba88-e5055bed4231", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2559.693, + 3345.614, + 1160.6390000000001, + 397.96500000000015 + ], + "priority": 34, + "parents": [ + 20385 + ], + "children": [ + 20413 + ], + "area": 8563744.736502001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20413, + "strid": "08b25259-cf71-4eeb-bafd-83c2769500e3", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2554.151, + 3759.96, + 1162.8559999999998, + 243.87800000000016 + ], + "priority": 35, + "parents": [ + 20412 + ], + "children": [], + "area": 9603505.59396, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 10: : (a) Plastic actuator a n with conic tip pressing lower back of the mouse. After the tip\nof the actuator is positioned, whole mechanical setup is slid into the RF coil along with mouse.\n(b) Anatomical MR ima = mouse to locate/verify the position of actuator. FOV: 4cm x 4cm,\nread resolution: siz hase resolution: 156.25 um, slice thickness: 0.5 mm, TR: 300 msec,\nTE: 10 msec. (c) ropagation image obtained after post-processing of data acquired wit!\nMRE pulse se cre FOV: 4cm x 4cm, read resolution: 312.5 um, phase resolution: 156.25\nslice heres: mm, TR = 312.5 ms, TE = 11.186, frequency: 1kHz, # of motion encoding\n\ngradients = ime steps: 8." + }, + { + "id": 20414, + "strid": "5028bb4e-2c86-40a5-8c98-f6f0f94ff77d", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1368.714, + 4042.927, + 1091.88, + 57.06200000000035 + ], + "priority": 36, + "parents": [ + 20417 + ], + "children": [ + 20415 + ], + "area": 5533610.785878, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCES and ACKNOWLEDMENTS" + }, + { + "id": 20415, + "strid": "9f6649e8-635e-489a-bea6-956503d25e4f", + "image_id": 201304, + "image_name": "116909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 71.892, + 4138.03, + 3675.584, + 449.8090000000002 + ], + "priority": 37, + "parents": [ + 20414 + ], + "children": [], + "area": 297491.25275999994, + "iscrowd": 0, + "segmentation": [], + "text": "[1] W. Li, L. Hong, L. Hu, and R. L. Magi, Tissue Engineering Part C: Methods, vol. 16, pp. 1407-1415 (2010). [2] S. Ravindran, Q. Gao, M. Kotecha, R.L. Magin, S. Karol, A. Bedran-Russo, and A. George; Tissue engineering Part A, vol.\n18, pp. 295-309 (2012). [3]. Z. Yin, M. Kotecha, T. M. Schmid, and R. L. Magin, “High resolution T1p and T2 maps of articular cartilage at 11.7T”, The 11* iniernational conference on Magnetic Resonance Microscopy (!CMRM), Aug 14-\n18 (2011), beijing, China. [4] Z. Yin, T. M. Schmid, L. Madsen, M. Kotecha, and R. L. Magin, “Monitoring the formation of tissue-engineered carti!age in scaffold-free pellet culture using magnetic resonance imaging”, The 20!\nInternational society for magnetic resonance in medicine (ISMRM), May 5-11 (2012), Metbourne, Australia. [5] M. Kotecha, T. M. Schmid, R. L. Magin, “Proton NMR characterization of Chondrocytes re-differentiation in alginate beads\nand pellet culture”, submitted for Biomedical Engineering Society (BMES) annual meeiing, to be held at Atlanta, CA, Oct 24-27, 2012. [6] M. Kotecha, S. Ravindran, A. Vaidyanathan, A. George, R. L. Magin, “Characterization of ECM\nembedded biomimetic scaffolds for cartilage tissue engineering using sodium triple quantum coherencespectroscopy”, The 20\" International society for magnetic resonance in medicine (ISMRM), May 5-11 (2012), Melbourne,\nAustralia. [7] T. K. Yesai, T. J. Royston, and R. L. Magin, “Taking MR Elastography (MRE) to the microscopic (uMRE) level”, IEEE, 1618-1623 (2011). [8] Z. Yin, T. K. Yasar, and R. L. Magin, “measurement of in vitro local shear stiffness\nof alginate beads using microscopic MR Elastography”, submitted for Biomedical Engineering Society (BMES) annual meeting, to be held at Atlanta, CA, Oct 24-27, 2012. [9] T. K. Yasar, D. Klatt, T. J. Royston, and R. L. Magin, work\nin progress.\n\nThis study was supported by NIH/NIBIB grant EB007537. We acknowledge use of Research Resource Center (RRC)’s micro-imaging facility and the NMR facility (Chemistry department) at the University of Illinois at Chicago. We also\nacknowledge use of Lynn S. Florsheim MRIS lab at the University of Chicago for in vivo mouse MRI/MRE. We also wish to thank Articular Engineering( === = ~~~ —__) for providing human explants." + }, + { + "id": 193549, + "strid": "3b9cfc0f-a3a3-48f2-834f-75b9e0cc56a6", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 156.15, + 365.15, + 248.08, + 248.08000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 193535, + 193534, + 193538, + 193537, + 193539, + 193536, + 193533 + ], + "area": 57018.1725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193533, + "strid": "e933066d-50ae-41da-b89d-9de16dc2c272", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 481.421, + 150.162, + 2802.198, + 167.088 + ], + "priority": 1, + "parents": [ + 193549 + ], + "children": [], + "area": 72291.140202, + "iscrowd": 0, + "segmentation": [], + "text": "FACTORS AFFECTING MORTALITY IN MAJOR TRAUMA PATIENTS IN\nTRINIDAD AND TOBAGO—A VIEW FROM THE DEVELOPING WORLD" + }, + { + "id": 193534, + "strid": "69b7d82b-2aff-4adb-84a0-14417045efda", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 145.538, + 464.952, + 3143.576, + 247.293 + ], + "priority": 2, + "parents": [ + 193549 + ], + "children": [], + "area": 67668.18417600001, + "iscrowd": 0, + "segmentation": [], + "text": "Saleem Varachhia’™”, lan Sammy’, Joanne Paul”, Paula Nunes’, Vidya Ramcharitar Maharaj’, Paula Robertson’.\n1. The University of the West Indies, St Augustine\n2. The Southwestern Regional Health Authority of Trinidad and Tobago\n3. The North Central Regional Health Authority of Trinidad and Tobago" + }, + { + "id": 193535, + "strid": "677b25a9-97c5-4c72-8764-ba4bc29b90d0", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 448.717, + 848.454, + 403.115, + 42.374000000000024 + ], + "priority": 3, + "parents": [ + 193549 + ], + "children": [ + 193540 + ], + "area": 380715.733518, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193540, + "strid": "41297aef-358c-4ba0-89af-2e971e1339f9", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.54, + 1039.555, + 1016.961, + 2990.0299999999997 + ], + "priority": 4, + "parents": [ + 193535 + ], + "children": [], + "area": 145059.5047, + "iscrowd": 0, + "segmentation": [], + "text": "Little is known about the characteristics that\ninfluence or impact on mortality rate in major\ntrauma in the developing world. Injuries are a\nneglected epidemic in developing countries, ~\n2“ causing more than five million deaths each\nyear, roughly equal to the number of deaths\nfrom HIV/AIDS, malaria and_ tuberculosis\ncombined. The seminal paper ‘The Global\nburden of disease and risk factors’ estimated\nthat injuries accounted for more than 15% of\nall ill-health in the world in 1990 and forecast\nthis to increase to 20% by 2020. In 2004, ,\ntrauma related deaths were the 5\" leading cause\nof mortality in Trinidad and Tobago and\naccounted for 9.2% of all deaths (18) .\n\nIdentification of factors that influence mortality\nafter trauma has been addressed by many\nresearchers (6 -9). Champion et al and Boyd et\nal originally described the effects of age, injury\nseverity, physiological status and mechanism of\ninjury on mortality in major trauma patients .\nFrom this research, the TRISS methodology for\npredicting mortality rates among populations of\nmajor trauma _ patients was developed.\nSubsequent authors have identified other\nfactors that may impact on trauma mortality,\nincluding gender, comorbidities and _pre-\nexisting medication. However, the degree to\nwhich predictive models for trauma mortality\nare transferrable from one country to another is\nnot clear. Specifically, predictive models\ncreated in the developed world have performed\nvariably when applied to developing countries.\n\nWhile data on the epidemiology, effectiveness\nand economic impact of many health\nconditions (such as infectious and nutritional\ndisorders) are available for developing\ncountries, such information is lacking in\nrelation to injuries and their management. This\nstudy investigated the impact of age, gender, co\nmorbidities , mechanism and pattern of injury\non mortality and assessed the predictive\naccuracy of the TRISS methodology in major\ntrauma patients in Trinidad." + }, + { + "id": 193536, + "strid": "695d994e-a54e-436c-9296-9b31d4b63d34", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1569.437, + 853.271, + 417.35199999999986, + 38.42399999999998 + ], + "priority": 5, + "parents": [ + 193549 + ], + "children": [ + 193541 + ], + "area": 1339155.0784269997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193541, + "strid": "c20c9d17-910b-41fc-9b6f-c8a0a56ea0a6", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1262.34, + 984.526, + 1018.2740000000001, + 725.603 + ], + "priority": 6, + "parents": [ + 193536 + ], + "children": [], + "area": 1242806.55084, + "iscrowd": 0, + "segmentation": [], + "text": "A retrospective single-centre observational\nstudy was performed at the Emergency\nDepartment (ED) of a tertiary centre in\nTrinidad from June 2010 to April 2014. Major\ntrauma patients aged 18 years and older\nadmitted to the ED with an Injury Severity\nScore (ISS) of greater than 15 (CTAS levels 1\nand 2) were included. The impact of age,\ngender, co morbidities, mechanism and pattern\nof injury on mortality were investigated. Using\nTRISS methodology, predicted mortality was\ncalculated and compared to actual mortality." + }, + { + "id": 193537, + "strid": "26c53305-5223-4fdf-9571-f8c6dd6b4c39", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1659.621, + 1833.298, + 225.01, + 38.05899999999997 + ], + "priority": 7, + "parents": [ + 193549 + ], + "children": [ + 193547, + 193548, + 193542 + ], + "area": 3042579.8600580003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193542, + "strid": "d6962fa2-2d04-466f-8c2c-f9b53dd2d269", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1259.219, + 1985.207, + 1024.596, + 1390.8790000000001 + ], + "priority": 8, + "parents": [ + 193537 + ], + "children": [], + "area": 2499810.373333, + "iscrowd": 0, + "segmentation": [], + "text": "Of 323 patients analysed, 284 were male and 24\nwere aged >65 years. The mortality rate for the\nentire cohort of patients was 7.7% (95% CI\n4.8% - 10.7%); with a significantly higher\nmortality among older compared to younger\npatients (37.5% vs. 5.4%; ‘p’< .00/). Younger\npatients were mainly injured by road traffic\naccidents (RTAs) (34.1%); stab wounds\n(30.8%) and gunshot wounds (11.4%), while\nolder patients were injured by falls (66.7%) and\nRTAs (20.8%). Younger patients were more\nlikely to suffer serious chest injuries compared\nto older patients (80.3% vs. 50.0%; ‘p’ = .001),\nbut less likely to suffer serious head injuries\n(13.6% vs. 50.0%, ‘p’< .001). Men were more\nlikely to suffer serious thoracic injuries (81.3%\nvs. 53.8%; ‘p’ = .002) and less likely to suffer\nserious extremity injuries (22.2% vs. 38.5%, ‘p’\n= .044) compared to women. The TRISS model\ndistinguished those with a higher chance of\nsurvival from those with a lower chance of\nsurvival and the discrimination statistic for the\nmodel was 0.94." + }, + { + "id": 193547, + "strid": "69036e4d-d9c9-4f56-8531-e96bc6fb0147", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1282.124, + 3588.644, + 985.5519999999999, + 581.7540000000004 + ], + "priority": 9, + "parents": [ + 193537 + ], + "children": [ + 193544 + ], + "area": 4601086.599855999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193544, + "strid": "39e29438-ad18-4963-89e4-4ddcbe5012cd", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1291.434, + 4217.115, + 976.6809999999998, + 70.72999999999956 + ], + "priority": 10, + "parents": [ + 193547 + ], + "children": [], + "area": 5446125.69291, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Frequency of different mechanisms of injury among elderly and non-\nelderly adults" + }, + { + "id": 193548, + "strid": "b9f59f93-f27f-41d3-af1d-03ac224e3479", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2361.666, + 852.218, + 997.1700000000001, + 623.4729999999998 + ], + "priority": 11, + "parents": [ + 193537 + ], + "children": [ + 193545 + ], + "area": 2012654.275188, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193545, + "strid": "c1c145b8-5a3c-4ae7-a390-642134148201", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2471.811, + 1499.362, + 819.741, + 74.35500000000002 + ], + "priority": 12, + "parents": [ + 193548 + ], + "children": [], + "area": 3706139.4845820004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Bar chart illustrating the number that survived, died\nafter 24 hours and died within 24 hours in each age group" + }, + { + "id": 193538, + "strid": "0f03fd92-a8b4-4003-b9ca-77d0d23c7981", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2722.016, + 1678.927, + 340.7640000000001, + 39.38000000000011 + ], + "priority": 13, + "parents": [ + 193549 + ], + "children": [ + 193543 + ], + "area": 4570066.156832, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193543, + "strid": "011a116d-dab5-4539-b374-9c9b3c09c0d7", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2405.229, + 1834.099, + 964.2710000000002, + 607.4469999999999 + ], + "priority": 14, + "parents": [ + 193538 + ], + "children": [], + "area": 4411428.103670999, + "iscrowd": 0, + "segmentation": [], + "text": "Increased age, blunt trauma, ISS>25 and\nincreasing RTS were factors found to be\nassociated with increased risk of mortality in\nmajor trauma patients in Trinidad and\nTobago. The TRISS model in this study\nwas found to be an excellent discriminator\nbetween those who had a high chance of\nsurvival to those who had a low probability\nof survival. A multi-center trial is required\nfor validation of trauma prediction tools such" + }, + { + "id": 193539, + "strid": "08a8f4f8-b2cf-469f-92c9-68ec7ae92d77", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2763.22, + 2573.092, + 254.7579999999998, + 37.085000000000036 + ], + "priority": 15, + "parents": [ + 193549 + ], + "children": [ + 193546 + ], + "area": 7110019.27624, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193546, + "strid": "0307e79d-682a-4a61-8f87-194e8948c9f1", + "image_id": 208068, + "image_name": "9305.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2400.756, + 2679.497, + 984.4990000000003, + 1647.5350000000003 + ], + "priority": 16, + "parents": [ + 193539 + ], + "children": [], + "area": 6432818.499731999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114129, + "strid": "6f196fca-a119-455c-ab62-4c762d8b38e6", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 100.65, + 365.21, + 243.26000000000002, + 139.0 + ], + "priority": -1, + "parents": [], + "children": [ + 114118, + 114119, + 114121, + 114120, + 114122, + 114123 + ], + "area": 36758.3865, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114118, + "strid": "04a19fd4-e3e5-454e-8eac-bb9800ef96dd", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 456.053, + 103.463, + 4212.137, + 109.93199999999999 + ], + "priority": 1, + "parents": [ + 114129 + ], + "children": [], + "area": 47184.611539, + "iscrowd": 0, + "segmentation": [], + "text": "Higher Prevalence of Cocaine Abuse Among HIV Infected Inpatients in a Psychiatric Hospital" + }, + { + "id": 114119, + "strid": "3b4d0536-d011-4eed-ad1d-63d4bc26a761", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 532.922, + 264.229, + 2277.166, + 196.30699999999996 + ], + "priority": 2, + "parents": [ + 114129 + ], + "children": [], + "area": 140813.447138, + "iscrowd": 0, + "segmentation": [], + "text": "Jane E Hamilton 1, Lokesh R Shahani?, Elmer V Bernstam2, Melissa K Allen?, Scott D Lane?, Salih Selek?\n1. Department of Psychiatry, UTHealth McGovern Medical School, Houston, Tx\n2. School of Biomedical Informatics, UTHealth, Houston, Tx" + }, + { + "id": 114120, + "strid": "ae565202-9561-483c-96e4-b26b14676153", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 137.507, + 634.789, + 435.61600000000004, + 68.61000000000001 + ], + "priority": 3, + "parents": [ + 114129 + ], + "children": [ + 114124 + ], + "area": 87287.931023, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 114124, + "strid": "52c9f4fc-1f94-4720-970c-ea87f752af39", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 131.167, + 740.113, + 2120.12, + 795.5620000000001 + ], + "priority": 4, + "parents": [ + 114120 + ], + "children": [], + "area": 97078.40187100001, + "iscrowd": 0, + "segmentation": [], + "text": "Substance use is associated with poor health outcomes among\npatients living with HIV infection (PLWH).\n\nPLWH are also at risk to develop psychiatric manifestations such as\ndementia, mood, and psychotic disorders, either due to the primary\ndisease process of HIV or secondary infection.\n\nOur aim in this study is to compare substance abuse rates between\nHIV infected and uninfected inpatients admitted to a psychiatric\nhospital." + }, + { + "id": 114122, + "strid": "69989bfc-1335-457e-b8cb-cc648247a848", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.37, + 1645.182, + 305.93, + 71.47900000000004 + ], + "priority": 5, + "parents": [ + 114129 + ], + "children": [ + 114128, + 114125 + ], + "area": 153610.64334, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 114125, + "strid": "ae69842c-861b-4668-b8ad-037e7c98e2dc", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.135, + 1751.043, + 2152.493, + 444.5559999999998 + ], + "priority": 6, + "parents": [ + 114122 + ], + "children": [], + "area": 157830.260805, + "iscrowd": 0, + "segmentation": [], + "text": "Inpatient records of UTHealth Harris County Psychiatric Center\nbetween 2012-2013 were reviewed (HSC-MS-14-0274).\n\nHIV infected patients were identified using ICD-9 codes and\nsociodemographic and clinical variables were tabulated including\nadmitting diagnosis." + }, + { + "id": 114128, + "strid": "d3e68bdc-06c3-4e81-ae84-8a4cdd675b03", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 85.759, + 2283.658, + 2018.8669999999997, + 1190.243 + ], + "priority": 7, + "parents": [ + 114122 + ], + "children": [], + "area": 195844.22642199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114121, + "strid": "0a34d25d-a5af-43f3-945d-d5a071044c31", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2481.634, + 632.014, + 271.0329999999999, + 71.74400000000003 + ], + "priority": 8, + "parents": [ + 114129 + ], + "children": [ + 114126 + ], + "area": 1568427.430876, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 114126, + "strid": "9cb0bbd4-50c3-4659-8727-2577fc9ed288", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2470.653, + 721.581, + 2189.9640000000004, + 1162.966 + ], + "priority": 9, + "parents": [ + 114121 + ], + "children": [], + "area": 1782776.2623929998, + "iscrowd": 0, + "segmentation": [], + "text": "Of 15969 inpatients, 133 (0.83%) were HIV infected based upon ICD-9\ncode.\n\nMajority (66.2 %) were males and the mean admit age for HIV infected\npatients was 39.72 (+ 9.42) years, significantly greater than HIV\nuninfected patients 33.42 (+ 13.39) years [t=-5.415, p<0.0001].\n\nMean length of stay for HIV infected patients was 7.23 (+ 7.6) days and\nwas significantly lower than HIV uninfected patients 9.12 (+ 9.21) days\n[t=2.843, p=0.005].\n\nThere was a significant difference between HIV infected (40.3 %) and\nuninfected patients (12.3 %) in their cocaine use (X2=51.174,\np<0.0001).\n\nCocaine abuse appears to be higher in admitted HIV infected inpatients\nthan other cohort studies (12.5%)." + }, + { + "id": 114123, + "strid": "c5764892-af4d-4963-bf07-40f42e2481ae", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2430.345, + 1907.556, + 448.07000000000016, + 67.47399999999993 + ], + "priority": 10, + "parents": [ + 114129 + ], + "children": [ + 114127 + ], + "area": 4636019.1868199995, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 114127, + "strid": "e171dd54-21d9-4ff6-a84b-2a6446486628", + "image_id": 204930, + "image_name": "13535.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2424.513, + 2005.803, + 2256.5019999999995, + 448.4069999999999 + ], + "priority": 11, + "parents": 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160719, + "strid": "ce3f0b86-0c78-406a-bcef-7afe2492c74c", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 539.878, + 796.079, + 2203.704, + 136.97699999999998 + ], + "priority": 2, + "parents": [ + 160736 + ], + "children": [], + "area": 429785.538362, + "iscrowd": 0, + "segmentation": [], + "text": "Jin Luo, Jaswinder Chahal\nDepartment of Life Sciences, University of Roehampton, London SW15 4JD, U.K." + }, + { + "id": 160720, + "strid": "8ba44f7b-057e-4698-99cb-dc2fbb901b24", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 112.207, + 1080.779, + 528.097, + 92.77299999999991 + ], + "priority": 3, + "parents": [ + 160736 + ], + "children": [ + 160724 + ], + "area": 121270.96925299999, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 160724, + "strid": "d7b3c437-cd19-4924-b6e1-e435eb673154", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 172.304, + 1215.044, + 1428.078, + 547.2909999999999 + ], + "priority": 4, + "parents": [ + 160720 + ], + "children": [], + "area": 209356.94137600003, + "iscrowd": 0, + "segmentation": [], + "text": "Physical activity has been widely recommended as an effective\nintervention for the conservation of musculoskeletal health. However,\nthe effectiveness of this intervention is largely dependent on the\nextent to which mechanical loading is applied to bone and muscle.\nTherefore it is essential to objectively assess the mechanical loading\ninduced by physical activity. Our latest research has developed a\nnovel method that can objectively assess loading intensity of physical\nactivity in natural environment [1]. The aim of this study was to\ninvestigate the difference in loading intensity of physical activity\nbetween middle-aged men and women by using this method." + }, + { + "id": 160721, + "strid": "52377034-ac24-4f67-9444-c26052a4ae68", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 114.775, + 1920.252, + 370.472, + 90.93100000000004 + ], + "priority": 5, + "parents": [ + 160736 + ], + "children": [ + 160725 + ], + "area": 220396.9233, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 160725, + "strid": "5f3b48a4-6c86-47f1-964b-68d2a269b1b0", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 155.573, + 2059.01, + 1443.923, + 1681.116 + ], + "priority": 6, + "parents": [ + 160721 + ], + "children": [], + "area": 320326.36273000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160722, + "strid": 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1316.856, + 105.0340000000001 + ], + "priority": 9, + "parents": [ + 160722 + ], + "children": [], + "area": 2038852.667025, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160734, + "strid": "14729bd5-1735-475b-bf94-918cf2686fa3", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1800.697, + 1467.648, + 1329.0109999999997, + 495.36300000000006 + ], + "priority": 10, + "parents": [ + 160722 + ], + "children": [ + 160728 + ], + "area": 2642789.3506559995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160728, + "strid": "5793fff8-6a72-475e-b509-c27777905b43", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1823.399, + 1312.53, + 1294.67, + 109.58899999999994 + ], + "priority": 11, + "parents": [ + 160734 + ], + "children": [], + "area": 2393265.88947, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Duration of physical activity (median value) at different\nintensity categories in the two groups" + }, + { + "id": 160727, + "strid": "7afd6cb4-693f-4974-bac0-9a6ac141f046", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1741.79, + 2035.414, + 1452.5519999999997, + 214.45900000000006 + ], + "priority": 12, + "parents": [ + 160722 + ], + "children": [], + "area": 3545263.7510599997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160733, + "strid": "fded6389-f4e0-47ea-b394-82bdadd20f53", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1736.859, + 2444.774, + 1443.661, + 1019.2509999999997 + ], + "priority": 13, + "parents": [ + 160722 + ], + "children": [ + 160729 + ], + "area": 4246227.724866, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 160729, + "strid": "903f6a95-0aa2-496d-bf07-979b28bc3455", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1765.328, + 2297.539, + 1414.683, + 116.89600000000019 + ], + "priority": 14, + "parents": [ + 160733 + ], + "children": [], + "area": 4055909.927792, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: Loading dose at different intensity categories (median value)\nfor three frequency bands in the two groups" + }, + { + "id": 160723, + "strid": "e0efb936-f941-4a09-9640-848cfb6900d5", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1708.691, + 3607.835, + 543.8569999999997, + 96.98599999999988 + ], + "priority": 15, + "parents": [ + 160736 + ], + "children": [ + 160731 + ], + "area": 6164675.193985, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 160731, + "strid": "5ead7d9e-5fb3-4ca7-a613-933683992d8b", + "image_id": 206777, + "image_name": "6416.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1748.466, + 3746.485, + 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Kidwell!\n'University of Chicago, 2Oregon State University" + }, + { + "id": 40907, + "strid": "ed3087f6-0eda-4ad3-870e-43434e5c2c70", + "image_id": 202108, + "image_name": "118144.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.972, + 629.222, + 1392.128, + 76.61099999999999 + ], + "priority": 3, + "parents": [ + 40935 + ], + "children": [ + 40915 + ], + "area": 50320.14178399999, + "iscrowd": 0, + "segmentation": [], + "text": "Historical baselines: challenging but necessary" + }, + { + "id": 40915, + "strid": "530ebd16-b236-437b-a6ec-bf4faf8c7fe5", + "image_id": 202108, + "image_name": "118144.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 84.649, + 767.479, + 2043.641, + 475.22800000000007 + ], + "priority": 4, + "parents": [ + 40907 + ], + "children": [], + "area": 64966.329871, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40908, + "strid": "acb5bf65-94c0-416d-818b-b7302b63530b", + "image_id": 202108, + "image_name": 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"category_name": "List", + "bbox": [ + 4183.366, + 2621.421, + 1777.7979999999998, + 309.4859999999999 + ], + "priority": 27, + "parents": [ + 40912 + ], + "children": [], + "area": 10966363.483086, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40911, + "strid": "61e5bece-20dc-4f7b-bac0-5073550d33e0", + "image_id": 202108, + "image_name": "118144.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4196.592, + 2964.643, + 1200.9769999999999, + 73.12199999999984 + ], + "priority": 28, + "parents": [ + 40935 + ], + "children": [ + 40930, + 40931 + ], + "area": 12441397.096655998, + "iscrowd": 0, + "segmentation": [], + "text": "Fuiure Work: RADs over space and time" + }, + { + "id": 40930, + "strid": "6af49f1b-f6d1-4e09-939c-07f92905f6d8", + "image_id": 202108, + "image_name": "118144.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4249.476, + 3039.032, + 1749.634, + 1022.3519999999999 + ], + "priority": 29, + "parents": [ + 40911 + ], + "children": [], + "area": 12914293.547232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40931, + "strid": "f124385d-9175-4025-849d-15d18a41d2e3", + "image_id": 202108, + "image_name": "118144.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4212.949, + 3114.022, + 653.777, + 399.33399999999983 + ], + "priority": 30, + "parents": [ + 40911 + ], + "children": [], + "area": 13119215.870877998, + "iscrowd": 0, + "segmentation": [], + "text": "|. Do RADs of healthy communities vary\nover temporal and spatial scales?\n\nll. Can we separate natural variability in\nRADs from that of RADs negatively\nimpacted by human-related changes?\n\nIll. Do RADs of death assemblages mirror\npatterns of live assemblage RADs? What\nadditional insight do they provide?" + }, + { + "id": 124917, + "strid": "f44f6f3a-fe18-403a-bc18-96cda2eea941", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 64.72, + 566.94, + 192.19000000000003, + 317.8499999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 124899, + 124900, + 124901, + 124898, + 124904, + 124910 + ], + "area": 36692.3568, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124898, + "strid": "a8dd6946-41a3-4aa6-bb22-f1a4e21442cc", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 324.462, + 471.855, + 2656.18, + 236.88099999999997 + ], + "priority": 1, + "parents": [ + 124917 + ], + "children": [], + "area": 153099.01701, + "iscrowd": 0, + "segmentation": [], + "text": "Serotonin Transporter Binding is increased in Patients with Tourette Syndrome with\ncomorbid Obsessive Compulsive Disorder\nMuller-Vahl KR', Szejko N'2:3, Wilke F*, Jakubovski E', Geworski L*, Bengel F°, Berding G®" + }, + { + "id": 124899, + "strid": "452b37d2-f1c8-436a-afa0-74c5e5829e07", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 319.797, + 736.694, + 2656.368, + 166.16599999999994 + ], + "priority": 2, + "parents": [ + 124917 + ], + "children": [], + "area": 235592.531118, + "iscrowd": 0, + "segmentation": [], + "text": "'Clinic of Psychiatry, Socialpsychiatry and Psychotherapy, Hannover Medical School, Hannover, Germany, @Department of Neurology,\nMedical University of Warsaw, Warsaw, Poland, Department of Bioethics, Medical University of Warsaw, Warsaw, Poland, Department\nof Medical Physics and Radiation Protection, Department of Nuclear Medicine, Hannover Medical School, Hannover, Germany" + }, + { + "id": 124900, + "strid": "8b195142-0f6d-4712-919f-daebbed34249", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 155.969, + 955.442, + 291.258, + 49.398000000000025 + ], + "priority": 3, + "parents": [ + 124917 + ], + "children": [ + 124902 + ], + "area": 149019.33329799998, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 124902, + "strid": "29f1935c-ca11-4911-970d-eef1f92d8c93", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.439, + 1009.665, + 1425.919, + 471.5799999999999 + ], + "priority": 4, + "parents": [ + 124900 + ], + "children": [], + "area": 155931.652935, + "iscrowd": 0, + "segmentation": [], + "text": "While the importance of the serotonergic system in psychiatric\ndisorders such as obsessive compulsive disorder (OCD) is well\nestablished, its role in Tourette syndrome (TS) is still uncertain. So far,\ndata from only 3 imaging studies in a small number of patients are\navailable suggesting a reduced availability of serotonin transporters\n(SERT) in different brain areas. Since in patients with “pure OCD”, most\nstudies also demonstrated reduced brain SERT binding capacity, until\ntoday it is unclear, whether in TS alterations in SERT availability are\nrelated to tics or to comorbid OCB/OCD." + }, + { + "id": 124901, + "strid": "ddaefcfe-4025-4831-bc32-2830bcb65d18", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 165.029, + 1544.269, + 206.11699999999996, + 48.55300000000011 + ], + "priority": 5, + "parents": [ + 124917 + ], + "children": [ + 124903 + ], + "area": 254849.168801, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 124903, + "strid": "7738fb65-9b08-4e7e-bc21-f4f829103aa3", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.357, + 1601.46, + 1415.016, + 902.0520000000001 + ], + "priority": 6, + "parents": [ + 124901 + ], + "children": [], + "area": 261609.70122000002, + "iscrowd": 0, + "segmentation": [], + "text": "We investigated SERT binding in TS patients with (TS+OCD) and\nwithout OCD (TS-OCD) compared to both healthy controls (HC) and\npatients with OCD using the selective, high affinity SERT imaging\nligand ['23]]2-((2-((dimethylamino)methyl)phenyl)thio)-5-\niodophenylamine (['23IIADAM) and single-photon emission computed\ntomography (SPECT). In addition, we investigated the influence of\ntreatment with the selective serotonin reuptake inhibitor (SSRI)\nescitalopram on binding capacities.\n\nWe included 33 adult subjects (10 HC, 10 TS-OCD, 8 TS+OCD and 5\nOCD). After baseline data acquisition, all patients suffering from OCD\n(TS+OCD and OCD) received oral treatment with escitalopram\n(starting dose: 10 mg/day, up-titration to a maximum dose of 30\nmg/day, followed by a maintenance phase). In patients with TS+OCD\nand OCD investigations including ['?7IJADAM SPECT were repeated\nafter 12-16 weeks treatment with escitalopram. Demographic and\nclinical data at baseline and after treatment with escitalopram are\nsummarized in Table 1." + }, + { + "id": 124904, + "strid": "ee578167-8181-4889-bc2c-9609c54299f4", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 168.987, + 2559.056, + 169.009, + 45.96399999999994 + ], + "priority": 7, + "parents": [ + 124917 + ], + "children": [ + 124907, + 124909, + 124914, + 124912, + 124915, + 124905 + ], + "area": 432447.196272, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 124905, + "strid": "7d003f20-e645-4361-a575-4d9b3f6f964a", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 167.706, + 2613.436, + 1399.718, + 370.9119999999998 + ], + "priority": 8, + "parents": [ + 124904 + ], + "children": [ + 124906 + ], + "area": 438288.897816, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124906, + "strid": "009f3f6b-a055-4f45-9a76-f12873a714c5", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 164.676, + 3054.532, + 1367.599, + 163.0659999999998 + ], + "priority": 9, + "parents": [ + 124905 + ], + "children": [], + "area": 503008.111632, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Example of [123IJADAM uptake in a patient with TS + OCD. In each figure, three\nperpendicular cross-sections before (a) and after (b) treatment with escitalopram are\ndisplayed illustrating a significant reduction of SERT binding after treatment. Prominent\ndisplacement of tracer uptake in the brainstem is evident." + }, + { + "id": 124907, + "strid": "71c52e3c-efcf-4a9e-8d0e-ab83e644e820", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 191.116, + 3268.095, + 1345.247, + 663.123 + ], + "priority": 10, + "parents": [ + 124904 + ], + "children": [ + 124908 + ], + "area": 624585.24402, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124908, + "strid": "161e9142-0e30-4804-8210-dbbfe308b729", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 161.479, + 3970.219, + 701.227, + 406.8710000000001 + ], + "priority": 11, + "parents": [ + 124907 + ], + "children": [], + "area": 641106.993901, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Results of SPM analysis (glass\nbrain display of SPM-analysis, threshold for\nstatistical inferences: uncorrected p <0.001) in\npatients with TS+OCD (n=8) are shown.\nRegions with significantly reduced SERT\nbinding ([123IJADAM uptake) after treatment\nwith escitalopram are illustrated as compared\nto the untreated state. Extended reductions of\nSERT binding are visible in brainstem,\nhypothalamus, and striatum." + }, + { + "id": 124909, + "strid": "71bafda0-0ba7-4175-9d1b-e15bdb4fe97e", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 923.659, + 3977.168, + 617.6929999999999, + 563.288 + ], + "priority": 12, + "parents": [ + 124904 + ], + "children": [], + "area": 3673547.0177120003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124915, + "strid": "ba3afa02-f6fc-4369-88bb-7e2a9e442867", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1789.192, + 1104.955, + 1271.199, + 1155.522 + ], + "priority": 13, + "parents": [ + 124904 + ], + "children": [ + 124916 + ], + "area": 1976976.64636, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124916, + "strid": "35d957b0-3774-4eaa-9424-b23ff56e01d9", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1734.691, + 950.64, + 1395.236, + 108.76200000000006 + ], + "priority": 14, + "parents": [ + 124915 + ], + "children": [], + "area": 1649066.65224, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Demographic and clinical data at baseline and - in patients\nwith TS+OCD and OCD - after treatment with escitalopram" + }, + { + "id": 124914, + "strid": "fe297158-bdba-4d77-90f1-52ac21dfc4bf", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1785.158, + 2291.937, + 1263.5610000000001, + 173.26800000000003 + ], + "priority": 15, + "parents": [ + 124904 + ], + "children": [], + "area": 4091469.6710459995, + "iscrowd": 0, + "segmentation": [], + "text": "YGTSS=Yale Global Tic Severity Scale (range, 0-50), Y-BOCS=Yale-Brown Obsessive Compulsive\nScale (range, 0-40), BDI=Beck’s Depression Inventory (range, 0-63), STAI-X1=State-Trait Anxiety\nInventory (X1=state, range, 20-80), SCL-90-GSI=Symptom Check List 90 Revised, Global Severity\nIndex, TS-OCD=Tourette syndrome without obsessive compulsive behavior, TS+OCD=Tourette\nsyndrome with obsessive compulsive disorder, OCD=obsessive compulsive disorder" + }, + { + "id": 124912, + "strid": "470c4f86-c484-4f46-86df-5fab49a8c21b", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1957.991, + 2725.021, + 932.011, + 948.9940000000001 + ], + "priority": 16, + "parents": [ + 124904 + ], + "children": [ + 124913 + ], + "area": 5335566.5928110005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 124913, + "strid": "4fbffb7c-e432-4163-a857-3dd9621980be", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1784.749, + 2544.83, + 1381.7390000000003, + 160.66699999999992 + ], + "priority": 17, + "parents": [ + 124912 + ], + "children": [], + "area": 4541882.79767, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: Comparison of SERT binding (at baseline) between different\npatient groups (TS-OCD, TS+OCD, OCD) and healthy controls (HC),\nrespectively, using different procedures of quantification." + }, + { + "id": 124910, + "strid": "8b9cf6b9-fa6a-4bed-824f-7c1f25ba0b09", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1769.807, + 3921.434, + 265.01800000000003, + 42.50700000000006 + ], + "priority": 18, + "parents": [ + 124917 + ], + "children": [ + 124911 + ], + "area": 6940181.343238001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 124911, + "strid": "9edf28fa-c53a-4080-b1ac-34fa670aa01d", + "image_id": 205363, + "image_name": "14905.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1768.407, + 3972.695, + 1433.166, + 321.9779999999996 + ], + "priority": 19, + "parents": [ + 124910 + ], + "children": [], + "area": 7025341.646865, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43245, + "strid": "fe476072-f447-4149-b66e-3d7a059ddc2c", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 16.73, + 38.29, + 41.31, + 48.49 + ], + "priority": -1, + "parents": [], + "children": [ + 43242, + 43240, + 43234, + 43238, + 43239, + 43235, + 43244, + 43233, + 43237, + 43236, + 43229, + 43232, + 43228, + 43227 + ], + "area": 640.5917, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43227, + "strid": "e623bb54-72e6-4b37-a3c1-c89a7d13dcf6", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 72.427, + 31.429, + 588.004, + 20.374 + ], + "priority": 1, + "parents": [ + 43245 + ], + "children": [], + "area": 2276.308183, + "iscrowd": 0, + "segmentation": [], + "text": "Effects of different stimulus onset asynchronies on visual attention shifts" + }, + { + "id": 43228, + "strid": "330639b7-2c02-4aae-8aaf-13f0ab00dfa6", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 73.558, + 65.385, + 592.532, + 18.676000000000002 + ], + "priority": 2, + "parents": [ + 43245 + ], + "children": [], + "area": 4809.589830000001, + "iscrowd": 0, + "segmentation": [], + "text": "Yuri Hashimoto (The University of Shimane) & Narisuke Utsuki (Nara Sangyo University)" + }, + { + "id": 43229, + "strid": "3a4e6e27-3cbf-47ec-8c68-31e2ac352709", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 39.037, + 114.055, + 119.412, + 13.581999999999994 + ], + "priority": 3, + "parents": [ + 43245 + ], + "children": [ + 43230 + ], + "area": 4452.365035, + "iscrowd": 0, + "segmentation": [], + "text": "Previous Studies" + }, + { + "id": 43230, + "strid": "6c7868d6-2e27-4fec-8a0a-ad7b59cc12a2", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.905, + 131.033, + 305.60400000000004, + 144.879 + ], + "priority": 4, + "parents": [ + 43229 + ], + "children": [], + "area": 4966.805864999999, + "iscrowd": 0, + "segmentation": [], + "text": "A directional visual stimulus (e.g. an eye gaze, an\narrow, and a letter/ character) has been said to\ntrigger an automatic shift of visual attention\n( Friesen & Kingstone, 1998; Driver et al., 1999;\nHashimoto, 2004; Hashimoto & Utsuki, 2005,\n2003). However, in a study, gaze and arrow cues\ndid not trigger rapid reflexive shifts of attention\n(Green et al., 2013)." + }, + { + "id": 43234, + "strid": "6969dc36-c860-48c7-b47a-61bc80d16141", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 59.976, + 292.324, + 272.78, + 102.43400000000003 + ], + "priority": 5, + "parents": [ + 43245 + ], + "children": [], + "area": 17532.424224000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43232, + "strid": "c39ecc89-12d9-4443-b4d8-43277925e9e4", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 389.915, + 114.055, + 53.76400000000001, + 14.147999999999996 + ], + "priority": 6, + "parents": [ + 43245 + ], + "children": [ + 43231 + ], + "area": 44471.755325000006, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 43231, + "strid": "f0757387-1bca-4015-99c9-e5412dbd2fba", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 387.085, + 131.599, + 296.54900000000004, + 91.68099999999998 + ], + "priority": 7, + "parents": [ + 43232 + ], + "children": [], + "area": 50939.998915, + "iscrowd": 0, + "segmentation": [], + "text": "Task: Localization task\nParticipants (12 female students; age averaged\n21.3 years) were instructed to respond to the\nlocation of target “T” (either left or right on the\nLCD) as quickly and accurately as possible." + }, + { + "id": 43233, + "strid": "b98ca3c0-3831-4e03-a1b9-23667b8140c6", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 378.596, + 235.164, + 313.52700000000004, + 160.72500000000002 + ], + "priority": 8, + "parents": [ + 43245 + ], + "children": [], + "area": 89032.149744, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43235, + "strid": "a9d239ad-0916-4d7a-b268-27300675a884", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 58.278, + 407.208, + 617.433, + 71.30799999999999 + ], + "priority": 9, + "parents": [ + 43245 + ], + "children": [], + "area": 23731.267824000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43236, + "strid": "1e95f6ab-1d9f-4eec-8767-de3a6cbc08a1", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 55.449, + 479.647, + 636.674, + 54.329999999999984 + ], + "priority": 10, + "parents": [ + 43245 + ], + "children": [], + "area": 26595.946503, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43237, + "strid": "64ebab45-301f-408a-ab9f-911ca224d551", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 58.278, + 534.543, + 432.373, + 18.676000000000045 + ], + "priority": 11, + "parents": [ + 43245 + ], + "children": [], + "area": 31152.096954, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43238, + "strid": "3f661169-037a-420c-af9d-6ad2760b3ed5", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 41.866, + 562.84, + 323.714, + 168.64800000000002 + ], + "priority": 12, + "parents": [ + 43245 + ], + "children": [], + "area": 23563.85944, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43240, + "strid": "9750627a-e0f5-4186-9da9-064edabef682", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.755, + 736.581, + 315.675, + 28.44399999999996 + ], + "priority": 13, + "parents": [ + 43245 + ], + "children": [], + "area": 45487.559655000005, + "iscrowd": 0, + "segmentation": [], + "text": "Mean response time gains for cuss. Of . Arrows, LRE: English\nletters Land R, LRC: Chinese characters, EG : Eye Gaze" + }, + { + "id": 43239, + "strid": "7bb7de6e-0a99-472a-8841-b816bdc6eaec", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 378.03, + 561.708, + 346.9169999999999, + 199.20799999999997 + ], + "priority": 14, + "parents": [ + 43245 + ], + "children": [], + "area": 212342.47523999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 43242, + "strid": "f6f340bd-218d-4896-a6e9-c207c5761528", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.382, + 778.194, + 68.339, + 14.322000000000003 + ], + "priority": 15, + "parents": [ + 43245 + ], + "children": [ + 43241 + ], + "area": 39206.970107999994, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 43241, + "strid": "86f168f2-1d4b-4e84-bf7c-a60e7787c713", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.699, + 795.79, + 341.693, + 272.9459999999999 + ], + "priority": 16, + "parents": [ + 43242 + ], + "children": [], + "area": 37162.59721, + "iscrowd": 0, + "segmentation": [], + "text": "The gains were primarily caused by the interference\neffect, as responses were significantly delayed in the\ninvalid trials. The pattern observed for arrow stimulus\nis consistent with cue-target conflict explanation by\nGreen et al.(2013). Response time gains (cueing\neffects) , observed in the arrow cue condition,\n\nis likely due to the obstructive effect caused by\nincongruent information. The results also indicates\n‘that congruent information may not quicken.\n\ncorrect responses. For eye gaze stimuli, the RT gain\nwas greatest at a SOA of 200 ms, consistent with\nprevious studies. Chinese characters and English\ncapital letters did not show a significant RT gain. RT\ngains for arrows and eye gaze were greatest at the\nshorter SOAs." + }, + { + "id": 43244, + "strid": "de2f9d5e-5888-4879-bf2e-a584be17876c", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 412.021, + 790.073, + 52.19599999999997, + 9.991999999999962 + ], + "priority": 17, + "parents": [ + 43245 + ], + "children": [ + 43243 + ], + "area": 325526.667533, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 43243, + "strid": "8e1c8597-e67c-4c45-b06e-c897d797f5f8", + "image_id": 202193, + "image_name": "118317.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 409.262, + 801.519, + 302.8179999999999, + 238.5719999999999 + ], + "priority": 18, + "parents": [ + 43244 + ], + "children": [], + "area": 328031.268978, + "iscrowd": 0, + "segmentation": [], + "text": "Crier, J. ot ol. (2999). Gaze perception trigagly vellexive:\nvisuospatial orienting. Visual Cognitin. 6, 308-540,\n\nFriesen, CK. and Kingstone, A (1998).The eyes have it! Reflexive\norienting is triggered by nonpredictive gaze. Psychonomic Bulletin\n& Reviews. 5, 490-495,\n\nGreen, JJ. et al. (2013). Resolving conflicting views: Gaze and\narrow cues do not trigger rapid reflexive shifts of atention. Visual\nCognition, 21.61.71\n\nHashimoto, V (2004): Spatial Attention to the Gaze Direction of\n(Own-and Other-race Faces. Cross-Cultural Studies Review, 11, 53-\n64\n\nHashimoto, ¥, & Utsuk,N. (2005). Visual orienting responses to\nhhuman gaze and arrow cue. The Jepanese Journal of Ergonomics,\n41(6) 337-348.\n\nHashimoto, Y, & Utsuk,N. (2008). Effects of Native Language on\nVisual Attention Shifts Presented atthe 117° Annual Convention\ncof the American Psychological Assocation in Toronto, Ontario,\n‘Canada." + }, + { + "id": 62491, + "strid": "185c17d6-62f5-4b55-a7dd-e479fea44202", + "image_id": 202962, + "image_name": "119512.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 79.63, + 43.44, + 45.56, + 45.56 + ], + "priority": -1, + "parents": [], + "children": [ + 62467, + 62477, + 62485, + 62474, + 62471, + 62487, + 62469, + 62489, + 62468, + 62482 + ], + "area": 3459.1271999999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 62467, + "strid": "5bcf44ec-2273-4fa0-9268-fe51b2eeed13", + "image_id": 202962, + "image_name": "119512.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 182.189, + 20.182, + 740.279, + 43.081 + ], + "priority": 1, + "parents": [ + 62491 + ], + "children": [], + "area": 3676.938398, + "iscrowd": 0, + "segmentation": [], + "text": "Prediction of Pediatric Unipolar Depression and Characterization of Brain Maturation Trajectories\nUsing Multiple Neuromorphometric Measurements" + }, + { + "id": 62468, + "strid": "b941e792-ffa1-40b1-b8b3-63f56374a7a2", + "image_id": 202962, + "image_name": "119512.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 184.047, + 64.779, + 735.552, + 29.474000000000004 + ], + "priority": 2, + "parents": [ + 62491 + ], + "children": [], + "area": 11922.380613, + "iscrowd": 0, + "segmentation": [], + "text": "Mor-du Wu, Haling £iy Wu, Benson Mang), Marsal Sanchappuiihaker Selveral, Giovanna B. 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"segmentation": [], + "text": "Noman Naseer!, Keum-Shik Hong!?, M. Jawad Khan!and M. Raheel Bhutta!\n\n1Department of Cogno-Mechatronics Engineering. Pusan National University. Koréa\n£ 5\n*School of Mechanical Engineering, Pusan National University, Korea\nEmail: noman‘@pusan.ac. kr, kshong(@pusan.ac.kr, fawad‘@pusan.ac.kr, cogno/apusan.ac. kr\nee Sf ba ha bet §" + }, + { + "id": 72087, + "strid": "88c6aa80-c7d5-4bc6-a754-13b8767af83e", + "image_id": 203312, + "image_name": "120033.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.017, + 821.533, + 485.29299999999995, + 71.89499999999998 + ], + "priority": 3, + "parents": [ + 72111 + ], + "children": [ + 72103 + ], + "area": 65736.606061, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 72103, + "strid": "403b9db4-706c-4c61-9ca0-f987062cfc1c", + "image_id": 203312, + "image_name": "120033.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 89.389, + 906.29, + 1428.199, + 791.278 + ], + "priority": 4, + "parents": [ + 72087 + ], + "children": [], + "area": 81012.35681, + "iscrowd": 0, + "segmentation": [], + "text": "The goal of a brain-computer mterface (BCI) system is to translate alser’s\nthoughts into control commands) to communicate with or control of.exfernal\ndevices. A typical BCI syStem gets user’s brain signals, preproeesses these\nsignals and classifies them to generate control commands before,the application\ninterface,\n\nAlthough the feasibility of a two-class BCI basedeon ‘activities from two\nintentionally-generated cognitive tasks has been shown before (Coyle et al.\n2007, Hu.etal. 2012, Naseer and Hong 2013, Naseer et al. 2013), no work on\nthe classification of three intentionally-generated cognitive tasks has been\nreported yet.\n\nTh this research we classified three different brain activities from the prefrontal\nand primary motor cortices for the development of a three-class brain-computer\ninterface." + }, + { + "id": 72088, + "strid": "bc68e684-febf-4fe9-b151-9054946b41e3", + "image_id": 203312, + "image_name": "120033.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 71.572, + 1782.721, + 298.035, + 68.77700000000004 + ], + "priority": 5, + "parents": [ + 72111 + ], + "children": [ + 72098, + 72101, + 72106, + 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For processing of smallRNA-Seq data it is necessary to modify this analysis\npipeline because the resulting reads correspond, at least in theory directly to a small RNA. An additional common problem is that the number of\nannotated small non-coding RNAs is very low for certain species including pig and cattle which makes it very difficult to annotate smallRNA data in such\nspecies. Our workflow is mainly based on basic Galaxy tools and some own in-house scripts. The idea is to use well annotated related species\ninformation such as human to improve the annotation (mapping with BLASTn-short) of each sequence found in smallRNA-Seq results. The collection of\nBLAST databases contain sequences from mirBASE (precursor and mature mircoRNAs), sequences from NCBI and Ensembl, mostly non-coding RNAs\nbut also protein-coding transcripts, as well as tRNA and piRNA cluster sequences. Finally, all BLAST results have to be filtered and joined by removing\nall duplicated hits. 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Clare Morgan and Tobias Sargeant from\nThe Walter and Eliza Hall Institute for their role in\ninitiating the project." + }, + { + "id": 10344, + "strid": "5aef117d-f080-4ed6-ad7c-933e46b8b0e8", + "image_id": 200916, + "image_name": "11305.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1394.643, + 4428.685, + 1129.0550000000003, + 233.2449999999999 + ], + "priority": 38, + "parents": [ + 10342 + ], + "children": [], + "area": 6176434.534455, + "iscrowd": 0, + "segmentation": [], + "text": "Disclosure\n\nM. 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Xpert machines in\npublic sector in India" + }, + { + "id": 135301, + "strid": "ac82ce7f-99b4-4447-82e1-0f2f4c2949e9", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2238.841, + 1383.389, + 901.127, + 489.45000000000005 + ], + "priority": 8, + "parents": [ + 135286 + ], + "children": [ + 135294 + ], + "area": 3097188.0121489996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135294, + "strid": "125b2a8e-2af9-40a6-b9ea-7049647f323c", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2242.586, + 1897.224, + 655.8830000000003, + 31.180000000000064 + ], + "priority": 9, + "parents": [ + 135301 + ], + "children": [], + "area": 4254687.981264, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. 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Diagnostic algorithm in the intervention" + }, + { + "id": 135299, + "strid": "5538d1d6-acc2-4098-a15e-58866c3f82b7", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2240.49, + 2151.85, + 952.931, + 1050.091 + ], + "priority": 15, + "parents": [ + 135287 + ], + "children": [], + "area": 4821198.4065, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135288, + "strid": "ea9143a5-3596-45a3-8a42-a802b2c9b123", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.816, + 3325.092, + 163.67300000000003, + 43.471000000000004 + ], + "priority": 16, + "parents": [ + 135306 + ], + "children": [ + 135303 + ], + "area": 311946.83107200003, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 135303, + "strid": "e1d8d223-88b5-4325-baf1-35462fe05440", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 71.635, + 3413.962, + 1473.957, + 611.5619999999999 + ], + "priority": 17, + "parents": [ + 135288 + ], + "children": [ + 135296 + ], + "area": 244559.16787, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135296, + "strid": "12843f39-4273-442c-975d-3c58f5331cb6", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 78.674, + 4054.385, + 946.9480000000001, + 35.840999999999894 + ], + "priority": 18, + "parents": [ + 135303 + ], + "children": [], + "area": 318974.68549000006, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. 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We thank\nDr. Moses Anandraj at DTRC, Darbhanga for helping with the data." + }, + { + "id": 135290, + "strid": "d92df72d-e367-4818-a79e-ebba7dcb67d2", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 95.546, + 4135.782, + 255.32100000000003, + 42.761999999999716 + ], + "priority": 22, + "parents": [ + 135306 + ], + "children": [ + 135304 + ], + "area": 395157.42697200004, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 135304, + "strid": "72a4dab0-fbfb-41fc-90ee-0cec000115ba", + "image_id": 205745, + "image_name": "15841.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 88.205, + 4217.966, + 1454.919, + 227.625 + ], + "priority": 23, + "parents": [ + 135290 + ], + "children": [], + "area": 372045.69103000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18243, + "strid": "0722b9a1-188c-4b76-be3d-bddfcdf0dbdd", + "image_id": 201217, + "image_name": "116774.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 11.19, + 14.63, + 59.400000000000006, + 61.37 + ], + "priority": -1, + "parents": [], + "children": [ + 18227, + 18224, + 18229, + 18228, + 18225, + 18230, + 18226 + ], + "area": 163.7097, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18224, + "strid": "2ad0c098-f8ef-4b02-bbe2-c36cf66bd1b1", + "image_id": 201217, + "image_name": "116774.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 98.184, + 22.085, + 690.258, + 86.886 + ], + "priority": 1, + "parents": [ + 18243 + ], + "children": [], + "area": 2168.3936400000002, + "iscrowd": 0, + "segmentation": [], + "text": "Ss ‘stematic analysis of chemokines and chemokine receptorsin\ng lymphocyte infiltration in ovarian cancer we\n\nFrom microarray te ‘ein expression and serum leve" + }, + { + "id": 18225, + "strid": "6f8f779d-bacb-4d69-b109-f364a00a042c", + "image_id": 201217, + "image_name": "116774.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 172.396, + 135.087, + 551.534, + 71.85500000000002 + ], + "priority": 2, + "parents": [ + 18243 + ], + "children": [], + "area": 23288.458451999995, + "iscrowd": 0, + "segmentation": [], + "text": "Marloes J.M. Gooden’, Ninke Leffers', Rudolf S.N. Fehrmann'*?, Klaske A. ten Hoor', Toos Daemen*,\nAte GJ. van der Zee\", Geertruida H. de Bock’, Annemiek ME. Walenkamp2, Hans W. Nijman*\n\nDepsrtmefts of Gynecological Oncology, Melcal Oncology, Genetics, Medial Microbiology\nEpidemiology®: University Medical Center Groningen, University of Groningen, Groningen, The Netherlands." + }, + { + "id": 18226, + "strid": "db890c4d-d6e9-4c47-aa0b-b4875375dc2f", + "image_id": 201217, + "image_name": "116774.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 211.303, + 238.47, + 102.68600000000004, + 11.319999999999993 + ], + "priority": 3, + "parents": [ + 18243 + ], + "children": [ + 18231 + ], + "area": 50389.42641, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 18231, + "strid": "e8a9d00f-20df-4199-a9d6-4dbdce83b84c", + "image_id": 201217, + "image_name": "116774.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 92.834, + 267.985, + 340.549, + 110.14699999999999 + ], + "priority": 4, + "parents": [ + 18226 + ], + "children": [], + "area": 24878.11949, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 18227, 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"strid": "0bcce408-0a13-4b7a-ad8f-8c5d05a66218", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 293.15, + 93.7, + 340.55000000000007, + 249.34000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 117440, + 117426, + 117433, + 117443, + 117435, + 117434, + 117427 + ], + "area": 27468.155, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117426, + "strid": "d2a06a21-5f79-4b64-b4cb-c810c1d3c610", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 916.844, + 137.975, + 4429.108, + 357.2149999999999 + ], + "priority": 1, + "parents": [ + 117446 + ], + "children": [], + "area": 126501.5509, + "iscrowd": 0, + "segmentation": [], + "text": "peaks2maps: reconstructing unthresholded statistical maps\nfrom peak coordinates using deep neural networks" + }, + { + "id": 117427, + "strid": "ef4f6d0c-2d79-45a5-a12d-6eb3a7608c74", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 2140.182, + 524.076, + 1964.505, + 196.77800000000002 + ], + "priority": 2, + "parents": [ + 117446 + ], + "children": [], + "area": 1121618.021832, + "iscrowd": 0, + "segmentation": [], + "text": "Krzysztof J. Gorgolewski', Tal Yarkoni?, Russell A. Poldrack'\n\n1 - Department of Psychology, Stanford University; 2 - Deparment of Psychology, University of Texas Austin\nkrzsztof.gorgolewski@gmail.com" + }, + { + "id": 117435, + "strid": "190fde21-ce9b-4099-86b2-bf836e2586d9", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.876, + 895.626, + 556.407, + 96.15700000000004 + ], + "priority": 3, + "parents": [ + 117446 + ], + "children": [ + 117428, + 117437, + 117436 + ], + "area": 54522.12837599999, + "iscrowd": 0, + "segmentation": [], + "text": "The problem" + }, + { + "id": 117428, + "strid": "e0fe48c8-c396-4721-a86f-6e7e5b10ea4c", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.974, + 1062.186, + 1853.696, + 751.7439999999999 + ], + "priority": 4, + "parents": [ + 117435 + ], + "children": [], + "area": 50957.31116399999, + "iscrowd": 0, + "segmentation": [], + "text": "Meta analysis is a way of statistically evaluating if results\nacross multiple studies are consistent.\n\nIn brain mapping meta analysis looks at consistency of brain\npatterns reported in the literature.\n\nMost papers only report locations of peak coordinates\ninstead of a full brain pattern.\n\nCan we train a model reconstructing brain patterns\n(unthresholded maps) from just coordinates of peaks?" + }, + { + "id": 117436, + "strid": "8c43b508-1451-4a1f-a303-7b47df6285fd", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 70.718, + 1960.895, + 1822.729, + 972.4760000000001 + ], + "priority": 5, + "parents": [ + 117435 + ], + "children": [], + "area": 138670.57261, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117437, + "strid": "b3e7e069-a7aa-487d-bcdf-c0bb77c5e2d2", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.899, + 2959.097, + 1786.6280000000002, + 169.11299999999983 + ], + "priority": 6, + "parents": [ + 117435 + ], + "children": [], + "area": 337038.18920300005, + "iscrowd": 0, + "segmentation": [], + "text": "Data reduction problem. Through statistical inference otherwise known as thresholding, brain patterns\nare reduced to a set of regions or groups of voxels. Coordinates in a standardized space of peaks in\nthose regions are then reported in the literature. peaks2maps is a model that reverses this process\n\nreconstructing maps from peak coordinates." + }, + { + "id": 117440, + "strid": "96189ff2-a312-4f9e-93ec-ee64c24d5ab2", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.354, + 3281.855, + 462.14000000000004, + 79.30200000000013 + ], + "priority": 7, + "parents": [ + 117446 + ], + "children": [ + 117438, + 117439 + ], + "area": 198073.07667, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 117439, + "strid": "600694b8-bffd-4039-a187-0fea11e96ffa", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 101.384, + 3495.182, + 1823.838, + 583.469 + ], + "priority": 8, + "parents": [ + 117440 + ], + "children": [], + "area": 354355.53188799997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117438, + "strid": "606660d1-5f76-44f1-b188-fa5986b062d7", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.892, + 4149.98, + 1801.618, + 161.3729999999996 + ], + "priority": 9, + "parents": [ + 117440 + ], + "children": [], + "area": 489249.4421599999, + "iscrowd": 0, + "segmentation": [], + "text": "Model architecture. 10 layer U-Net 3D autoencoder with skip connections [1] was used to reconstruct\nunthresholded 3D maps (downsampled to 32x32x32) from a binary representation of the peak locations\nimplemented via one hot encoding. Batch normalization was used to improve training speed and dropout\n(at 20% level) was used to avoid overfitting." + }, + { + "id": 117434, + "strid": "e344d81d-5f70-43c1-98e4-d272e8bcdd08", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2140.836, + 892.097, + 370.047, + 99.59699999999998 + ], + "priority": 10, + "parents": [ + 117446 + ], + "children": [ + 117442, + 117441, + 117430, + 117445, + 117429 + ], + "area": 1909833.3730919997, + "iscrowd": 0, + "segmentation": [], + "text": "Training" + }, + { + "id": 117429, + "strid": "cfeb2525-b57a-4039-83d3-642b2a44fa06", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2175.094, + 1078.758, + 1873.4859999999999, + 1395.157 + ], + "priority": 11, + "parents": [ + 117434 + ], + "children": [], + "area": 2346400.0532520004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117430, + "strid": "a173bb68-f32f-4799-8b9e-93fec15bade3", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3615.209, + 1429.487, + 414.49800000000005, + 382.61400000000003 + ], + "priority": 12, + "parents": [ + 117434 + ], + "children": [], + "area": 5167894.267783, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117445, + "strid": "708820bc-7d2e-4698-93f2-f01b968828d9", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2213.158, + 2491.586, + 1802.864, + 203.34299999999985 + ], + "priority": 13, + "parents": [ + 117434 + ], + "children": [], + "area": 5514273.488588, + "iscrowd": 0, + "segmentation": [], + "text": "Data preprocessing pipeline. All training and evaluation data was obtained from the NeuroVault.org [2]\nrepository. 15,359 maps survived data exclusion and 825 were set aside as validation set. Data\naugumentation in a form of intensity inversion was performed. All maps were resampled to 32x32x32\nprior to training. Intensity of the maps was normalized so max(abs(x)) == 1. Maps with no supratrheshold\nvoxels were excluded." + }, + { + "id": 117442, + "strid": "7db9b928-8a71-421a-9fe0-935f8dc97288", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2169.327, + 2779.879, + 1857.009, + 1360.8609999999999 + ], + "priority": 14, + "parents": [ + 117434 + ], + "children": [], + "area": 6030466.571433, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117441, + "strid": "9ecd6129-5dc3-405a-92a8-75179ba3b214", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2207.668, + 4161.087, + 1772.3319999999999, + 161.03399999999965 + ], + "priority": 15, + "parents": [ + 117434 + ], + "children": [], + "area": 9186298.615116002, + "iscrowd": 0, + "segmentation": [], + "text": "Training dynamics. Training was performed on a Titan Xp with batch size of 40 images and Adam\noptimizer. The loss function quickly converged, showing only minimal improvements with more training,\nbut also no signs of overfitting. Spatial correlation with original image was high even after excluding\nimmediate vicinity of the peaks (masked correlation)." + }, + { + "id": 117433, + "strid": "e9f5670c-0a04-49af-a72f-f974c318443a", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4232.242, + 896.284, + 471.3800000000001, + 79.03599999999994 + ], + "priority": 16, + "parents": [ + 117446 + ], + "children": [ + 117432, + 117431 + ], + "area": 3793290.788728, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 117431, + "strid": "87655aad-58f7-44bd-8d28-dae77f5c28a8", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4298.406, + 1059.599, + 1789.121, + 195.49700000000007 + ], + "priority": 17, + "parents": [ + 117433 + ], + "children": [], + "area": 4554586.699194, + "iscrowd": 0, + "segmentation": [], + "text": "Advanced evaluation. To check if the model is learning something more than an average map we\nperformed a permutation test. We compared the distribution of pairwise correlation between original and\nreconstructed maps to a null distribution where each reconstructed map was correlated with a random\n\noriginal maps. Best and worst reconstructions (along original images and ALE [3] reconstructions) are\nshown below." + }, + { + "id": 117432, + "strid": "56f88d5d-7268-4e75-895e-50af9293b78a", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4274.155, + 1270.065, + 1828.0429999999997, + 2354.137 + ], + "priority": 18, + "parents": [ + 117433 + ], + "children": [], + "area": 5428454.670075, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117443, + "strid": "672e157d-b82b-40e3-8865-64104337f60a", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4230.602, + 3745.612, + 481.4859999999999, + 75.39800000000014 + ], + "priority": 19, + "parents": [ + 117446 + ], + "children": [ + 117444 + ], + "area": 15846193.618424, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 117444, + "strid": "12f78445-ddfe-418e-a015-ec6f7ef6b8a8", + "image_id": 205072, + "image_name": "14049.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 4216.509, + 3868.769, + 1927.7919999999995, + 462.846 + ], + "priority": 20, + "parents": [ + 117443 + ], + "children": [], + "area": 16312699.307420999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 176449, + "strid": "b5fb2615-006d-4099-853c-f4bea0edae35", + "image_id": 207386, + "image_name": "7999.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 26.53, + 56.64, + 102.16999999999999, + 325.66 + ], + "priority": -1, + "parents": [], + "children": [ + 176429, + 176448, + 176430, + 176444, + 176428, + 176446, + 176445 + ], + "area": 1502.6592, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 176428, + "strid": "4c2d657a-8655-4f3e-901a-aa164d7fb399", + "image_id": 207386, + "image_name": "7999.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 415.531, + 68.93, + 2335.962, + 162.516 + ], + "priority": 1, + "parents": [ + 176449 + ], + "children": [], + "area": 28642.551830000004, + "iscrowd": 0, + "segmentation": [], + "text": "Identification and isolation of high avidity tumor-specific CD8 T cells by\nassessement of pMHC-TCR binding parameters with soluble pMHC complexes" + }, + { + "id": 176446, + "strid": "9ed04f04-c23c-45d3-929c-1f80b62d6e9e", + "image_id": 207386, + "image_name": "7999.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 320.54, + 270.499, + 2533.005, + 93.92500000000001 + ], + "priority": 2, + "parents": [ + 176449 + ], + "children": [], + "area": 86705.74946, + "iscrowd": 0, + "segmentation": [], + "text": "J. Schmidt!, M. Hebeisen2, P. Guillaume?, M. Magnin?, N. Rufer2 and I. Luescher? UNI\n1Ludwig Center of the University of Lausanne, Epalinges, Switzerland. *Department of Oncology, Lausanne Univrsity Hospital, Lausanne, Switzerland. ?TCMetrix Ltd, Epalinges, Switzerland" + }, + { + "id": 176445, + "strid": "5f7e0302-62fa-484b-a4c1-a9a398ca53df", + "image_id": 207386, + "image_name": "7999.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 157.853, + 391.993, + 224.808, + 46.238 + ], + "priority": 3, + "parents": [ + 176449 + ], + "children": [ + 176431 + ], + "area": 61877.271029, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 176431, + "strid": "73ec31ab-28d5-4dd6-8cb6-f10c0594eb44", + "image_id": 207386, + "image_name": "7999.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 160.992, + 445.615, + 1491.33, + 194.64300000000003 + ], + "priority": 4, + "parents": [ + 176445 + ], + "children": [], + "area": 71740.45008, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 176448, + "strid": 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Biotechnology Center, Technische Universitat Dresden, Dresden, Germany\n2 Department of Molecular Biology and Genetics, Bilkent University, Ankara, Turkey\n— 3 Department of Computer Engineering, Middle East Technical University, Ankara, Turkey\n\n— 4 Computer Engineering Department, Bilkent University,/Ankara, Turkey\n\nden" + }, + { + "id": 41119, + "strid": "704cc96b-d183-4c84-99cb-95fd15a48906", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 439.211, + 951.113, + 292.20000000000005, + 46.69200000000001 + ], + "priority": 3, + "parents": [ + 41143 + ], + "children": [ + 41125 + ], + "area": 417739.29184300004, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 41125, + "strid": "195a5bb4-c26a-43e3-b0c7-f8a3845b9836", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.011, + 1049.917, + 952.643, + 476.9859999999999 + ], + "priority": 4, + "parents": [ + 41119 + ], + "children": [], + "area": 113402.58508699998, + "iscrowd": 0, + "segmentation": [], + "text": "Determination of cell signaling behavior is crucial to\nunderstand the physiological response to a specific\nstimulus or against a drug treatment. Current\napproaches for large-scale data analysis do not\neffectively benefit from topological information brought\nby signaling pathways.\n\nWe present a model- and data-driven hybrid approach,\nSITSFlow algorithm, that quantitatively evaluates the\nactivity of cyclic cell signaling pathways by utilizing\ntranscriptome and ChIP-seq data." + }, + { + "id": 41120, + "strid": "cc75a673-8144-4178-86bc-5a0d38be15cb", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 375.951, + 1703.774, + 416.352, + 51.641000000000076 + ], + "priority": 5, + "parents": [ + 41143 + ], + "children": [ + 41126, + 41137 + ], + "area": 640535.539074, + "iscrowd": 0, + "segmentation": [], + "text": "Pathway Scoring" + }, + { + "id": 41126, + "strid": "15d0457d-331f-4c21-b44b-2a84d32e711c", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.011, + 1800.605, + 953.971, + 130.20800000000008 + ], + "priority": 6, + "parents": [ + 41120 + ], + "children": [], + "area": 194485.146655, + "iscrowd": 0, + "segmentation": [], + "text": "SiITSFlow algorithm was developed to assess the\nbiological activity of the processes in KEGG pathways\n[1]. The main steps of the algorithm are:" + }, + { + "id": 41137, + "strid": "2d56d118-f4c0-4875-bfe0-e5133eb2dff7", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 106.884, + 1972.607, + 957.258, + 548.8919999999998 + ], + "priority": 7, + "parents": [ + 41120 + ], + "children": [], + "area": 210840.12658799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41121, + "strid": "ac394315-53cf-45c8-866f-462b50691752", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 434.846, + 2669.077, + 299.499, + 51.1869999999999 + ], + "priority": 8, + "parents": [ + 41143 + ], + "children": [ + 41127 + ], + "area": 1160637.457142, + "iscrowd": 0, + "segmentation": [], + "text": "Experiments" + }, + { + "id": 41127, + "strid": "0c0f57cb-426d-4225-b664-530f6ed4204a", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.683, + 2763.876, + 952.643, + 608.5219999999999 + ], + "priority": 9, + "parents": [ + 41121 + ], + "children": [], + "area": 294858.58330800006, + "iscrowd": 0, + "segmentation": [], + "text": "SITSFlow is applied on 30 KEGG signaling pathways\nand user-generated PI3K/AKT pathway by using two\ncancer gene expression and ChIP-seq data sets.\n\nEstradiol-treated MCF7 data contains the gene\nexpression and ChIP-seq samples for wild-type and\nestradiol treatment.\n\nKRas mutation data contains the gene expression\nsamples for Colo/741 cell line transfected by KRas-\nG12D or Kras-G12V mutant proteins.\n\nGoal : Identify significant cellular processes affected\nby the given data." + }, + { + "id": 41122, + "strid": "f6ef6dcb-887b-44b1-86d9-55c580945f18", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 447.916, + 3509.853, + 271.18299999999994, + 41.38500000000022 + ], + "priority": 10, + "parents": [ + 41143 + ], + "children": [ + 41128 + ], + "area": 1572119.316348, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 41128, + "strid": "fd6dcf5a-e40b-40dd-81ba-45f43a579365", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.683, + 3606.241, + 957.9570000000001, + 562.0190000000002 + ], + "priority": 11, + "parents": [ + 41122 + ], + "children": [], + "area": 384724.608603, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluation of signaling pathways revealed a good\ncorrelation with expected cellular behavior on both\nKEGG and manually generated pathways. The\nalgorithm also predicted gene-level and global impacts\nof single or multiple gene knockouts. This in silico tool\nmay suggest hypotheses about how a drug of interest\nacts on the molecular cellular pathways and it may\npredict the synergistic effects of different inhibitors.\n\nSiTSFlow is implemented as Cytoscape plug-in to\nmake the algorithm publicly available for molecular\nbiologists. The plug-in allows interactive visualization\nand analysis of various pathways." + }, + { + "id": 41132, + "strid": "86a6deb2-0c63-4626-be3d-e89f58e80e15", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1931.143, + 940.177, + 430.52599999999984, + 46.56499999999994 + ], + "priority": 12, + "parents": [ + 41143 + ], + "children": [], + "area": 1815616.232311, + "iscrowd": 0, + "segmentation": [], + "text": "Method Overview" + }, + { + "id": 41140, + "strid": "ca94b530-46e3-4d17-993c-2f27c2e8f48c", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1251.058, + 1052.953, + 1918.8069999999998, + 456.8589999999999 + ], + "priority": 13, + "parents": [ + 41143 + ], + "children": [], + "area": 1317305.274274, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41124, + "strid": "e9af0fd6-bf8f-430e-bf4a-801db0dc714a", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2118.653, + 1705.239, + 178.79399999999987, + 38.83899999999994 + ], + "priority": 14, + "parents": [ + 41143 + ], + "children": [ + 41135, + 41134, + 41141, + 41138, + 41142, + 41131, + 41130, + 41139, + 41133, + 41129 + ], + "area": 3612809.7230669996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 41130, + "strid": "74f027f6-7191-48de-9473-30a645e2d488", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1304.502, + 1890.79, + 786.344, + 202.23500000000013 + ], + "priority": 15, + "parents": [ + 41124 + ], + "children": [], + "area": 2466539.33658, + "iscrowd": 0, + "segmentation": [], + "text": "Estradiol-treated MCF7 data\n\nER receptor clearly activates Apoptosis, Proliferation,\nSurvival and Cell cycle processes and the results are\ncorrelated with the previous studies." + }, + { + "id": 41138, + "strid": "9e18ba80-34fc-4c2d-abb1-2ca75d533ecd", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1321.848, + 2208.391, + 773.6979999999999, + 1032.172 + ], + "priority": 16, + "parents": [ + 41124 + ], + "children": [], + "area": 2919157.226568, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41131, + "strid": "f9f3db50-2826-4bca-aed3-c1c838f5ec33", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2277.264, + 1896.439, + 842.835, + 194.327 + ], + "priority": 17, + "parents": [ + 41124 + ], + "children": [], + "area": 4318692.262896, + "iscrowd": 0, + "segmentation": [], + "text": "Plug-in enables visualization and computation of activity\nscore of nodes for manually curated and imported KEGG\npathways. User would upload any type of gene scores." + }, + { + "id": 41139, + "strid": "cd4b0f1e-a2c7-4ecf-8daa-2e80057c025d", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2243.738, + 2204.945, + 921.8899999999999, + 754.7440000000001 + ], + "priority": 18, + "parents": [ + 41124 + ], + "children": [], + "area": 4947318.88441, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41133, + "strid": "ed427f35-3afd-4e3e-ac63-d739c1522cc5", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2350.579, + 2977.077, + 662.2570000000001, + 62.521000000000186 + ], + "priority": 19, + "parents": [ + 41124 + ], + "children": [], + "area": 6997854.677583001, + "iscrowd": 0, + "segmentation": [], + "text": "Plug-in Screenshot: The Jak-STAT pathway scored\nby Estradiol-treated MCF7 data" + }, + { + "id": 41129, + "strid": "7c1fb612-516f-42c2-be92-d99f773d4eee", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1585.471, + 3347.154, + 1232.9879999999998, + 200.6260000000002 + ], + "priority": 20, + "parents": [ + 41124 + ], + "children": [], + "area": 5306815.599534, + "iscrowd": 0, + "segmentation": [], + "text": "The activity score of Apoptosis is reduced in the p53-knockout pathway (B) that is\nconfirming the key role of p53 in Apoptosis pathway. Cell cycle activity is increased,\nso it is also related with the G12D mutation of KRas." + }, + { + "id": 41141, + "strid": "54a2be2e-5238-465f-9f3c-234c3e9198ad", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1255.211, + 3665.355, + 922.0240000000001, + 708.1309999999999 + ], + "priority": 21, + "parents": [ + 41124 + ], + "children": [], + "area": 4600793.9149050005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41135, + "strid": "66ef6464-b76b-43b6-a4f0-d304f83d466c", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1292.962, + 4383.177, + 852.123, + 35.878999999999905 + ], + "priority": 22, + "parents": [ + 41124 + ], + "children": [], + "area": 5667281.300274, + "iscrowd": 0, + "segmentation": [], + "text": "(A) Activity scores of PISK/AKT pathway with KRas (G12D) mutation" + }, + { + "id": 41142, + "strid": "f509f796-f19b-4e44-96a3-f1fa9ce204af", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2229.151, + 3659.125, + 922.0239999999999, + 714.3609999999999 + ], + "priority": 23, + "parents": [ + 41124 + ], + "children": [], + "area": 8156742.152875, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41134, + "strid": "daff46fa-7141-4cd7-bd6e-87f96a98d1ec", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2345.186, + 4382.069, + 696.194, + 36.33299999999963 + ], + "priority": 24, + "parents": [ + 41124 + ], + "children": [], + "area": 10276766.869834002, + "iscrowd": 0, + "segmentation": [], + "text": "(B) Activity scores after in silico p53-knockout operation" + }, + { + "id": 41123, + "strid": "d45103af-2378-4ae1-ba80-8258aa12426b", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 480.722, + 4300.302, + 208.37200000000007, + 33.340000000000146 + ], + "priority": 25, + "parents": [ + 41143 + ], + "children": [ + 41136 + ], + "area": 2067249.7780439998, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 41136, + "strid": "87b4dbe7-9d8c-411a-99a3-634682f18beb", + "image_id": 202116, + "image_name": "118169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.525, + 4372.567, + 953.4140000000001, + 91.52800000000025 + ], + "priority": 26, + "parents": [ + 41123 + ], + "children": [], + "area": 474532.833675, + "iscrowd": 0, + "segmentation": [], + "text": "1. Isik Z. et al. A signal transduction score flow algorithm for cyclic cellular\npathway analysis, which combines transcriptome and ChIP-seq data,\nMolecular BioSystems, 8, 3224-3231, 2012." + }, + { + "id": 139016, + "strid": "ba40e707-ca5a-425e-9997-6b4d99e3095e", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2926.71, + 61.38, + 242.6500000000001, + 204.34000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 139001, + 138999, + 138998, + 139000, + 139015, + 139002, + 139003, + 138997, + 139009 + ], + "area": 179641.4598, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138997, + "strid": "f1696316-7074-4bc2-b16c-36b0d6cf9472", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 82.239, + 73.822, + 1817.74, + 440.106 + ], + "priority": 1, + "parents": [ + 139016 + ], + "children": [], + "area": 6071.047458000001, + "iscrowd": 0, + "segmentation": [], + "text": "a alm ar1enam ye ela\nInfrastructure sits" + }, + { + "id": 138998, + "strid": "5c98229c-7365-4717-9d2d-3c56c8b6375e", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 103.574, + 615.091, + 2730.224, + 66.14499999999998 + ], + "priority": 2, + "parents": [ + 139016 + ], + "children": [], + "area": 63707.435234, + "iscrowd": 0, + "segmentation": [], + "text": "Matthijs Brouwer, Evangelia Papoutsoglou, Patrick Hendrickx, Luiz Bonino, Ben Schaap, Richard Visser, Richard Finkers" + }, + { + "id": 138999, + "strid": "8cf051ec-4780-464e-85ec-8c373e2c6bc9", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.09, + 791.348, + 3039.933, + 293.22800000000007 + ], + "priority": 3, + "parents": [ + 139016 + ], + "children": [], + "area": 78414.67332, + "iscrowd": 0, + "segmentation": [], + "text": "Connecting agricultural data is a promising strategy to take advantage of the huge amount of information collected\nnowadays by modern farming equipment. Combined with the already available meteorological information, satellite\nimages or specific knowledge on crops, analysis of this data has the potential to be a valuable addition to the results from\nthe more traditional experiments and methodologies in this field." + }, + { + "id": 139000, + "strid": "ef245df7-40b7-4d69-bcf6-7e1a875fe5d6", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 166.137, + 1207.801, + 169.902, + 67.94700000000012 + ], + "priority": 4, + "parents": [ + 139016 + ], + "children": [ + 139012, + 139004 + ], + "area": 200660.434737, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 139004, + "strid": "b7650df8-c724-435d-be2a-9c12cd5851c4", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 159.478, + 1311.231, + 1274.465, + 131.09100000000012 + ], + "priority": 5, + "parents": [ + 139000 + ], + "children": [], + "area": 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proposed Farm Data Train (FDT) infrastructure\nwill be built upon the concepts and principles from the\nalready existing Personal Health Train (PHT)\ninfrastructure." + }, + { + "id": 139013, + "strid": "406bf453-5dd7-4684-a9b6-5a3da64d7c00", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1871.452, + 1689.019, + 1320.097, + 503.914 + ], + "priority": 13, + "parents": [ + 139003 + ], + "children": [], + "area": 3160917.985588, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139002, + "strid": "7c30d6b0-c566-496a-860e-232a061e73dc", + "image_id": 205895, + "image_name": "16548.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2090.547, + 2350.704, + 461.8510000000001, + 68.7510000000002 + ], + "priority": 14, + "parents": [ + 139016 + ], + "children": [ + 139007, + 139010 + ], + "area": 4914257.195088, + "iscrowd": 0, + "segmentation": [], + "text": "Data stations" + }, + { + "id": 139010, + 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"children": [], + "area": 26829.694704, + "iscrowd": 0, + "segmentation": [], + "text": "Trends in PhD Career Outcomes Tracking" + }, + { + "id": 7758, + "strid": "ee5036b8-cf10-41c6-a96e-401e6190bf9f", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 65.818, + 210.323, + 3060.632, + 153.297 + ], + "priority": 2, + "parents": [ + 7777 + ], + "children": [], + "area": 13843.039214, + "iscrowd": 0, + "segmentation": [], + "text": "Authors: Jacquelyn Brinkman & Jens Locher - University of British Columbia; Adriana Bankston\n- Future of Research; Shilpa Gadwal - ASM; Melanie Sinche & Heather Morgan - Co-Chairs" + }, + { + "id": 7759, + "strid": "df174dc8-3af4-48b8-ae5f-10058df3deba", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 176.266, + 488.368, + 881.937, + 166.00500000000005 + ], + "priority": 3, + "parents": [ + 7777 + ], + "children": [ + 7763, + 7770, + 7762 + ], + "area": 86082.67388799999, + "iscrowd": 0, + "segmentation": [], + "text": "PhD Outcomes from GCC\nMembership Survey" + }, + { + "id": 7762, + "strid": "284b7f4e-2a3e-4844-ab20-d18a0f26a5b6", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.857, + 679.318, + 1110.403, + 274.9649999999999 + ], + "priority": 4, + "parents": [ + 7759 + ], + "children": [], + "area": 45417.163526, + "iscrowd": 0, + "segmentation": [], + "text": "Responses: universities (91.2%), independent research\ninstitute/hospital (4.7%), professional society (2.8%),\ngovernment agency (0.5%), other (0.93%) - 215 total\n\nPopulation data: Responses (%) - 66 of 215 (31%)." + }, + { + "id": 7770, + "strid": "b8f9cc02-97e2-4b36-9829-e6cf320dd7a7", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 101.793, + 963.774, + 1039.0929999999998, + 588.389 + ], + "priority": 5, + "parents": [ + 7759 + ], + "children": [], + "area": 98105.446782, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 7763, + "strid": "cd516e84-3aba-4442-840b-bf45758c66c3", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 71.785, + 1565.524, + 1090.44, + 743.7469999999998 + ], + "priority": 6, + "parents": [ + 7759 + ], + "children": [], + "area": 112381.14033999998, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: LinkedIn/alumni databases (83.3%), direct\nsurveys (80.3%), reports from academic departments\n(51.5%), training grant data (24.2%), other (10.6%).\nData sources: graduate school (60.6%), career center\n(53%), individual programs (40.9%), postdoc office\n(25.8%), Dean’s office (25.8%), institutional research\noffice (19.7%), other (13.6%).\n\nTiming of data collection: graduation/end of postdoc\n(86.4%), 1 year out (37.9%), 5 years out (33.3%), 10\nyears out (21.2%), other (21.2%).\n\n_ Note: Some responses included multiple options." + }, + { + "id": 7760, + "strid": "18a49f4d-2135-4f52-8057-a6d54444dc19", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1388.949, + 486.42, + 832.9900000000002, + 67.87200000000001 + ], + "priority": 7, + "parents": [ + 7777 + ], + "children": [ + 7772, + 7776, + 7775, + 7764, + 7771, + 7774 + ], + "area": 675612.57258, + "iscrowd": 0, + "segmentation": [], + "text": "National PhD Outcomes" + }, + { + "id": 7764, + "strid": "2b4136f2-73f9-4ed8-b628-12ed25a1a5ac", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1284.707, + 601.104, + 1034.7, + 276.898 + ], + "priority": 8, + "parents": [ + 7760 + ], + "children": [], + "area": 772242.5165280001, + "iscrowd": 0, + "segmentation": [], + "text": "Sample organizations that track outcomes: NSF,\nCGS, MLA, AHA, Legion Project.\n\nChallenges: What “should” a PhD outcome be -\nABD, postdoc, tenure-track, alt-a? When is it\nachieved - first destination or later?" + }, + { + "id": 7771, + "strid": "b41cd6dd-29f6-402c-9ecf-771fef70a790", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1270.774, + 904.891, + 1058.3849999999998, + 684.023 + ], + "priority": 9, + "parents": [ + 7760 + ], + "children": [], + "area": 1149911.9556339998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 7774, + "strid": "5d24481b-4b57-4e57-9ac0-9d6b6b6ec00a", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1398.694, + 1596.966, + 804.7829999999999, + 43.68599999999992 + ], + "priority": 10, + "parents": [ + 7760 + ], + "children": [], + "area": 2233666.762404, + "iscrowd": 0, + "segmentation": [], + "text": "Career Outcomes of History PhDs (2004-2013)" + }, + { + "id": 7775, + "strid": "835b5582-6443-412e-a584-d96202de7b7d", + "image_id": 200808, + "image_name": "11016.png", + 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Quality assurance, program design,\ntransparency, enrollment management\n\nDesign: 1) Survey 2) Manual research\n\nTiming: PhD graduates from 2005-2013\n\nResults: Outcomes for 91% of 3805 alumni; shared\nwithin & beyond UBC" + }, + { + "id": 7766, + "strid": "95115401-e89f-486d-bd7b-bc72fcef2ab2", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2444.398, + 998.676, + 524.7110000000002, + 611.5080000000002 + ], + "priority": 16, + "parents": [ + 7761 + ], + "children": [], + "area": 2441161.6170480005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 7767, + "strid": "cc2c4f72-479e-41bc-a895-270803fc8dc2", + "image_id": 200808, + "image_name": "11016.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2992.269, + 1007.655, + 537.433, + 642.9550000000002 + ], + "priority": 17, + "parents": [ + 7761 + ], + "children": [], + "area": 3015174.8191949995, + "iscrowd": 0, + "segmentation": [] + }, + { + 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"segmentation": [], + "text": "The Benefits of Ecotherapy Interventions\non Mental Health Conditions" + }, + { + "id": 34505, + "strid": "d462967e-fd3f-41f0-a0fd-a50ba700dbe1", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 45.983, + 885.509, + 347.251, + 46.44799999999998 + ], + "priority": 2, + "parents": [ + 34520 + ], + "children": [], + "area": 40718.360347, + "iscrowd": 0, + "segmentation": [], + "text": "-opohabetal\nPaul iy, Lancashire care NHS Foundation Trust (pau bby Olancashrecare. nhs)\nfay Wis, Lacestre care Ns Founaton Tst (soy wsglencatwecate H)\nSarah Bodell, University of Salford (s.j.bodeli@salford.acuk)" + }, + { + "id": 34515, + "strid": "1c5670f6-505b-4814-8870-9a741cc00d14", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 150.892, + 97.518, + 454.18799999999993, + 29.805999999999997 + ], + "priority": 3, + "parents": [ + 34520 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services and Pennine\nLancashire Community Farm, a voluntary)\ncomnmunityfeith sector (VCFS) organization,\nworked in partnership to deliver a care farm,\nproject (Hine, Peacock and Pretty, 2007),\n\nThis pilot project was funded by the former\nEast Lancashire PCT and enabled mental health\nservice users to experience farming and rural\nactivities 05 part of their personal recovery\njourneys. The aim of the project was to\nprovide socially inclusive activities in the\nnatural environment, maximizing the\n\nholistic benefits that can be gained\n\nfrom such nature based\n\ninterventions. (Mind, 2007)" + }, + { + "id": 34507, + "strid": "26c32ce6-0ddd-4773-998e-abbc2cbfa0f7", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 401.851, + 149.677, + 69.32600000000002, + 18.979000000000013 + ], + "priority": 6, + "parents": [ + 34520 + ], + "children": [ + 34518 + ], + "area": 60147.852127, + "iscrowd": 0, + "segmentation": [], + "text": "Stage 2" + }, + { + "id": 34518, + "strid": "5216e973-799d-400c-b9ad-a462b5d46501", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 402.478, + 174.335, + 215.68, + 193.20700000000002 + ], + "priority": 7, + "parents": [ + 34507 + ], + "children": [], + "area": 70166.00213000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34509, + "strid": "89d8b31e-b59e-4bb2-8f4c-8b2c3b2a4fb0", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 45.4, + 409.705, + 71.15099999999998, + 19.208000000000027 + ], + "priority": 8, + "parents": [ + 34520 + ], + "children": [ + 34511, + 34519 + ], + "area": 18600.607, + "iscrowd": 0, + "segmentation": [], + "text": "Stage 4" + }, + { + "id": 34511, + "strid": "f56893a7-a313-43db-943f-192e6ca94a00", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.084, + 411.324, + 225.337, + 25.161 + ], + "priority": 9, + "parents": [ + 34509 + ], + "children": [], + "area": 52272.699216, + "iscrowd": 0, + "segmentation": [], + "text": "Comnaiy Restart > Branch Ont retreats:\nAverage WEMWBS - By diagnosés'classification" + }, + { + "id": 34519, + "strid": "6003c481-6210-4aa8-bf7e-260d6ce85d33", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 28.046, + 444.408, + 375.627, + 313.8380000000001 + ], + "priority": 10, + "parents": [ + 34509 + ], + "children": [], + "area": 12463.866768, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34508, + "strid": "811b1ca6-4e3a-403b-847d-446a21362ffd", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 401.368, + 409.513, + 68.668, + 19.218000000000018 + ], + "priority": 11, + "parents": [ + 34520 + ], + "children": [ + 34514 + ], + "area": 164365.41378399997, + "iscrowd": 0, + "segmentation": [], + "text": "Stage 3" + }, + { + "id": 34514, + "strid": "271e3a7f-1ad8-4789-9547-8255dd8ba1a3", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 482.149, + 477.857, + 207.769, + 146.676 + ], + "priority": 12, + "parents": [ + 34508 + ], + "children": [], + "area": 230398.274693, + "iscrowd": 0, + "segmentation": [], + "text": "(Saal Ae esleatesbagee!\nnding received from Ecorninds.\n\nUnit costs developed for interventions:\n\nPre ecotherapy mental wellbeing assessed\nusing WEMWBS\n\nOngoing voluntcering opportunites beyond:\nfunded sessions" + }, + { + "id": 34510, + "strid": "cd349708-120b-4447-a880-4142254046ad", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 405.544, + 766.559, + 71.0, + 18.897000000000048 + ], + "priority": 13, + "parents": [ + 34520 + ], + "children": [ + 34516, + 34517 + ], + "area": 310873.40309599997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34516, + "strid": "0dbc3169-eadc-44ec-bb35-29f03e761dd0", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 404.231, + 788.228, + 146.087, + 138.89700000000005 + ], + "priority": 14, + "parents": [ + 34510 + ], + "children": [], + "area": 318626.192668, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34517, + "strid": "94e25fdc-befd-48b5-95ab-2ad1ce8ce6e6", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 548.457, + 789.386, + 149.78700000000003, + 139.69499999999994 + ], + "priority": 15, + "parents": [ + 34510 + ], + "children": [], + "area": 432944.277402, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34513, + "strid": "eba970fe-0e94-41b0-a273-f79bce16158c", + "image_id": 201858, + "image_name": "117785.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.785, + 763.442, + 313.376, + 119.23299999999995 + ], + "priority": 16, + "parents": [ + 34520 + ], + "children": [], + "area": 34954.19197, + "iscrowd": 0, + "segmentation": [], + "text": "References\nBurn, G W (1990) Noture guided trop: br inteyraive\nstatis for heath and wellbeing, Piadeghia: Bruner/Maze\nFriel F, (2008) Social prescribing for mental health: a guide to\ncommissioning and delivery. United Kingdom. CSIP Nortnest.\n\nHine R, Peacock Pretty} (2007) Care faring Inthe UK: Contests,\nDenies ad links with therapedtc commutes. Iterator Jul\nOf Therapeutic Communities 29, (3)\n\nMind (2007) Ecotherapy: The green agenda for mental health. London: Mind." + }, + { + "id": 131006, + "strid": "5fa15114-8e7c-4095-a250-f9e6475fdd73", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2346.09, + 89.94, + 308.4200000000001, + 201.14 + ], + "priority": -1, + "parents": [], + "children": [ + 130993, + 130988, + 130989, + 130994, + 130987, + 130991, + 130986, + 130992, + 130990 + ], + "area": 211007.3346, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 130986, + "strid": "1770f2d5-c9ce-430d-a7db-07a62b652e78", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 122.564, + 372.641, + 3075.604, + 255.42400000000004 + ], + "priority": 1, + "parents": [ + 131006 + ], + "children": [], + "area": 45672.371524, + "iscrowd": 0, + "segmentation": [], + "text": "DEVELOPMENT AND VALIDATION OF A BIOINFORMATICS PIPELINE FOR\nROUTINE ANALYSIS OF WHOLE GENOME SEQUENCING DATA FOR TYPING OF\nLISTERIA MONOCYTOGENES" + }, + { + "id": 130987, + "strid": "2a2c3203-e553-4dad-92db-31f0dc320fa2", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 131.772, + 684.725, + 2843.282, + 303.251 + ], + "priority": 2, + "parents": [ + 131006 + ], + "children": [], + "area": 90227.5827, + "iscrowd": 0, + "segmentation": [], + "text": "Qiang Fu', Bert Bogaerts', Raf Winand', Julien Van Braekel', Wesley Mattheus?, Pieter-Jan Ceyssens?, Bavo\nVerhaegen®, Sigrid C. J. De Keersmaecker', Nancy H. C. Roosens', and Kevin Vanneste'\n\n1 Transversal activities in Applied Genomics, Sciensano, Brussels (1050), Belgium\n\n2 Bacterial Diseases, Sciensano, Brussels (1050), Belgium\n\n3 Foodborne Pathogens, Sciensano, Brussels (1050), Belgium" + }, + { + "id": 130988, + "strid": "ce3c0654-5612-4d00-b60e-a16808fe40f1", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 83.201, + 1063.045, + 200.35100000000003, + 41.256000000000085 + ], + "priority": 3, + "parents": [ + 131006 + ], + "children": [ + 130996 + ], + "area": 88446.407045, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 130996, + "strid": "75c74111-e6e1-4b8c-8b90-1abad4f2b930", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.853, + 1129.295, + 3123.591, + 345.7359999999999 + ], + "priority": 4, + "parents": [ + 130988 + ], + "children": [], + "area": 93565.478635, + "iscrowd": 0, + "segmentation": [], + "text": "The use of whole-genome sequencing (WGS) for routine molecular typing and pathogen characterization in public health remains a substantial challenge due to the\nrequired bioinformatics resources and expertise. Moreover, national reference centers and laboratories, working under a quality system, require extensive validation to\ndemonstrate that employed methods generate high-quality results, but a harmonized framework to guide the validation of WGS analysis is still lacking. We present a\nbioinformatics workflow developed in-house for typing of Listeria monocytogenes isolates, which performs automated data processing and quality control, and conducts\nmultiple bioinformatics assays such as sequence typing (species confirmation, classic MLST (Multi Local Sequence Typing), and core genome MLST), gene\ncharacterization (antimicrobial resistance, virulence, and metal and detergent resistance), and plasmid replicon characterization. Using a well-characterized dataset of\n131 samples, the conducted assays are validated against commonly used bioinformatics tools to evaluate its performance." + }, + { + "id": 130989, + "strid": "25fa67ab-49ee-4fc1-8eb2-36372e303e01", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 88.384, + 1546.721, + 483.491, + 52.10799999999995 + ], + "priority": 5, + "parents": [ + 131006 + ], + "children": [ + 131001, + 131000 + ], + "area": 136705.388864, + "iscrowd": 0, + "segmentation": [], + "text": "Pipeline architecture" + }, + { + "id": 131001, + "strid": "829461f0-2bbe-4346-b0ab-24025cba3d7b", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 112.721, + 1541.82, + 3081.429, + 984.3390000000002 + ], + "priority": 6, + "parents": [ + 130989 + ], + "children": [], + "area": 173795.49222, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131000, + "strid": "9774be7e-d4d1-4728-8dae-a4d33b7047cb", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 86.5, + 2535.762, + 3163.447, + 276.183 + ], + "priority": 7, + "parents": [ + 130989 + ], + "children": [], + "area": 219343.413, + "iscrowd": 0, + "segmentation": [], + "text": "Experts from the Belgian NRC Listeria can access and execute the workflow through an in-house instance of the Galaxy Workflow Management system. The workflow first generates basic quality reports before\ntrimming the reads. Afterwards, a set of quality metrics are evaluated to determine if data quality is sufficient to run the pipeline. The trimmed reads are used as input for de novo assembly using SPAdes. Then prfA\nand prs gene typing, and classic 7 gene MLST typing, are performed to confirm the species identification. Serogrouping and core genome MLST are determined based on the public PUubMLST typing schemas.\nAntimicrobial resistance genes are identified using BLASTn or SRST2 against widely used resistance gene databases such as ResFinder, ARG-ANNOT, and CARD. Virulence factors are characterized against the\nVirulenceFinder and PubMLST Virulence loci databases. Metal and Detergent resistance are discerned against the corresponding PubMLST databases. And potential plasmid(s) are identified based on the\nPlasmidFinder database. Databases are automatically updated weekly. An HTML report containing a complete and interactive overview of the biologically relevant information is then generated together with a\nsummary in TSV format." + }, + { + "id": 130990, + "strid": "7c70f65b-41d5-458f-9019-ffd668738c9a", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 59.805, + 2880.195, + 472.608, + 49.87699999999995 + ], + "priority": 8, + "parents": [ + 131006 + ], + "children": [ + 131002, + 130997 + ], + "area": 172250.06197500002, + "iscrowd": 0, + "segmentation": [], + "text": "Validation dataset(s)" + }, + { + "id": 131002, + "strid": "5229e3a9-c3a0-4556-b430-990cc72cfe8f", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 125.113, + 3017.951, + 409.23499999999996, + 415.9459999999999 + ], + "priority": 9, + "parents": [ + 130990 + ], + "children": [], + "area": 377584.903463, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 130997, + "strid": "94813acd-e459-44bf-bdbe-0a3295c9261a", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.611, + 3539.694, + 544.701, + 669.5890000000004 + ], + "priority": 10, + "parents": [ + 130990 + ], + "children": [], + "area": 164988.677034, + "iscrowd": 0, + "segmentation": [], + "text": "We validated our pipeline using two\nvalidation datasets. The first one\ncontains 100 in-house sequenced\nsamples covering a broad spectrum\nof species diversity, including 4 out\nof the 5 major serogroups: Ila, IIb,\nllc, and IVb. 98 out of 100 samples\nhad its serogroup determined using\nclassic multiplex PCR, allowing\ncomparison against the ‘classical’\nmolecular biology methods. The\nsecond dataset consists out of 31\nsamples of the atypical serogroup\n\\Vb-v1 from publically available\nreference data provided by the\nGlobal Microbial Identifier (GMI)\nconsortium." + }, + { + "id": 130991, + "strid": "7fe67887-e54e-40e4-93e1-24106a8b540f", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 658.178, + 2879.653, + 434.74300000000005, + 50.74800000000005 + ], + "priority": 11, + "parents": [ + 131006 + ], + "children": [ + 131005, + 130998 + ], + "area": 1895324.2522339998, + "iscrowd": 0, + "segmentation": [], + "text": "Validation strategy" + }, + { + "id": 131005, + "strid": "67849ffb-1489-4275-8368-8a779f8d3dd6", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 623.741, + 2970.911, + 1543.3199999999997, + 989.6309999999999 + ], + "priority": 12, + "parents": [ + 130991 + ], + "children": [], + "area": 1853078.998051, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 130998, + "strid": "faa9bae1-469d-4081-8896-ed357b62a07a", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 625.606, + 4002.84, + 1552.133, + 156.02599999999984 + ], + "priority": 13, + "parents": [ + 130991 + ], + "children": [], + "area": 2504200.72104, + "iscrowd": 0, + "segmentation": [], + "text": "The pipeline was validated by comparing results of the different bioinformatics assays against the\nreference results obtained either from commonly used bioinformatics tools (‘tool reference’) or based on\nclassical molecular methods (‘database reference’), by formulating specific definitions and formulae that\nallow to interpret WGS results in the context of traditionally employed performance metrics." + }, + { + "id": 130992, + "strid": "df98d5db-0a6d-4448-81d7-98dda4e65488", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2225.541, + 2879.863, + 972.0239999999999, + 49.53200000000015 + ], + "priority": 14, + "parents": [ + 131006 + ], + "children": [ + 131003 + ], + "area": 6409253.180883, + "iscrowd": 0, + "segmentation": [], + "text": "Validation performance (in-house dataset)" + }, + { + "id": 131003, + "strid": "e5485406-ba06-4d41-b946-62646c9ef1af", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2196.391, + 2956.663, + 1100.127, + 530.8089999999997 + ], + "priority": 15, + "parents": [ + 130992 + ], + "children": [], + "area": 6493988.003233001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 130993, + "strid": "e7154074-cd1e-4ee1-ba14-894eea33c13c", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2223.666, + 3511.403, + 861.877, + 49.903999999999996 + ], + "priority": 16, + "parents": [ + 131006 + ], + "children": [ + 131004, + 130999 + ], + "area": 7808187.463398, + "iscrowd": 0, + "segmentation": [], + "text": "Validation performance (GMI dataset)" + }, + { + "id": 131004, + "strid": "5594900f-4adb-4103-a6da-d0f19ffc81f0", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2196.651, + 3573.912, + 1101.9650000000001, + 387.453 + ], + "priority": 17, + "parents": [ + 130993 + ], + "children": [], + "area": 7850637.368711999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 130999, + "strid": "1d8504e3-30c4-454b-a932-4106f4775ee8", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2233.66, + 4001.823, + 1025.194, + 191.721 + ], + "priority": 18, + "parents": [ + 130993 + ], + "children": [], + "area": 8938711.96218, + "iscrowd": 0, + "segmentation": [], + "text": "We demonstrate high performance, with values for all performance\nmetrics >97%, >97%, and 100% for the resistance gene, virulence\ngene, and plasmid characterization assays, respectively; >97% for\nsequence typing; and >99% for serogrouping determination, over\nboth validation datasets." + }, + { + "id": 130994, + "strid": "cb52c417-d1bb-41b7-b012-7368dedd3f61", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 101.677, + 4290.229, + 262.448, + 42.80799999999999 + ], + "priority": 19, + "parents": [ + 131006 + ], + "children": [ + 130995 + ], + "area": 436217.6140330001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 130995, + "strid": "7d7f6f6c-6f1d-4919-80f9-eb48c85893fd", + "image_id": 205589, + "image_name": "15373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.91, + 4357.481, + 2911.173, + 154.04200000000037 + ], + "priority": 20, + "parents": [ + 130994 + ], + "children": [], + "area": 435355.92670999997, + "iscrowd": 0, + "segmentation": [], + "text": "We demonstrate high performance for a bioinformatics pipeline for routine pathogen typing and characterization for L. monocytogenes isolates\nbased on WGS data meant to replace classical molecular methods, showcasing the added value and feasibility of employing WGS with the aim of\nbeing integrated into routine use in an applied public health setting." + }, + { + "id": 9621, + "strid": "25b2f1d8-1356-4e49-ae36-360034a05906", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 13.57, + 159.72, + 285.24, + 260.78999999999996 + ], + "priority": -1, + "parents": [], + "children": [ + 9616, + 9618, + 9625, + 9631, + 9622, + 9628, + 9634, + 9617 + ], + "area": 2167.4004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9616, + "strid": "73b47bfd-dc42-4a57-8ecc-02a9400aca87", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 365.403, + 70.783, + 2921.142, + 189.11 + ], + "priority": 1, + "parents": [ + 9621 + ], + "children": [], + "area": 25864.320549000004, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluation of Physiological Noise Cleaning Methods at High-Resolution\nsoo Across Cortical Depth" + }, + { + "id": 9617, + "strid": "4d340371-4070-43a1-a39b-0ca9d97717aa", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 530.371, + 296.106, + 2540.911, + 297.74700000000007 + ], + "priority": 2, + "parents": [ + 9621 + ], + "children": [], + "area": 157046.03532599998, + "iscrowd": 0, + "segmentation": [], + "text": "; Andrew Hall’, Laurentius Huber’, Daniel A Handwerker’,\nJavier Gonzalez-Castillo’, Natasha Topolski’, David Jangraw’, Peter A Bandettini*\n\n1. Section on Functional Imaging Methods, NIH/NIMH, Bethesda, MD, United States\n2. Section on Functional Imaging Methods, NIH/NIMH 3. NIH/NIMH" + }, + { + "id": 9618, + "strid": "bd69be59-32bb-453c-89eb-9bfd2999e4b0", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1192.255, + 692.431, + 820.817, + 82.48400000000004 + ], + "priority": 3, + "parents": [ + 9621 + ], + "children": [ + 9619, + 9640 + ], + "area": 825554.3219050001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9619, + "strid": "f2131f40-af2a-4e19-b1d3-bf2192a33027", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.117, + 823.772, + 1640.351, + 673.814 + ], + "priority": 4, + "parents": [ + 9618 + ], + "children": [], + "area": 29752.173324, + "iscrowd": 0, + "segmentation": [], + "text": "Resting-state {MRI has proven a valuable tool in the mapping of functional\nbrain connectivity (Bandettini 2014). Sub-millimeter, layer-dependent {MRI\nresting-state can provide additional information about directional connectivity\ne.g. feed-forward vs feed-back (Polimeni 2010) connectivity or afferent vs. effer-\nent connectiviy (Huber 2016).\n\nHere we seek to characterize respiratory and cardiac induced signal fluctuations\nacross cortical depths and their impact on layer-dependent resting state {MRI\nstudies. Furthermore, it was the goal of this experiment to determine whether\ntraditional methods (Glover 2000) of physiological noise cleaning are able to im-\nprove our ability to discern layer-dependent and/or layer-scale directional activ-\n\nity." + }, + { + "id": 9640, + "strid": "7766ba8a-6527-4028-8f41-9742d5ae2b2c", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1720.587, + 820.419, + 1846.8049999999998, + 687.089 + ], + "priority": 5, + "parents": [ + 9618 + ], + "children": [], + "area": 1411602.265953, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9622, + "strid": "acd1136f-d17f-418b-be96-f18f1ce76439", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 528.404, + 1582.011, + 544.9859999999999, + 75.75999999999999 + ], + "priority": 6, + "parents": [ + 9621 + ], + "children": [ + 9623 + ], + "area": 835940.940444, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9623, + "strid": "a8dcb287-8278-482c-b178-d835d6ada0e1", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.322, + 1712.986, + 1513.321, + 990.47 + ], + "priority": 7, + "parents": [ + 9622 + ], + "children": [], + "area": 77635.95149200001, + "iscrowd": 0, + "segmentation": [], + "text": "14 healthy volunteers were scanned on a 7T Siemens scanner, with a 32\nchannel NOVA Medical head coil at 0.71-0.78 mm‘# resolution in plane, and\n0.78-1.8 mm slices aligned perpendicular to cortical surface (Huber 2016)\nwith a 3D-EPI reaout (Poser 2010). Here, we present examples from the first\nparticipants. Physiological signals were concurrently acquired with a\nrespiratory belt and pulse oximeter. Physiological noise regressors were\ngenerated from Biopac® traces. Voxel maps of the effects of respiratory and\ncardiac regressors were generated with AFNI/FSL.\n\nThe effect of cardiac and respiratory induced signal fluctuations was\ninvestigated in the sensory-motor system. Beta values corresponding to the\npremotor seed region are mapped. Finally, profiles of these Beta values are\ngenerated across cortical layers in M1. To test the effect of different\nphysiological noise correction methods, a resting-state analysis is conducted\nwith a seed in the premotor region, which is believed to have afferent\nfunctional connectivity to the upper layers in M1 (Weiler 2008).\n\nDetails of the analysis pipeline may be found at the following site:\n\nhttps://github.com/andrew-r-hall/OHBM2017" + }, + { + "id": 9634, + "strid": "f0257ec7-462d-4740-8947-f085e4b173fe", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2400.508, + 1549.241, + 440.3699999999999, + 77.94200000000001 + ], + "priority": 8, + "parents": [ + 9621 + ], + "children": [ + 9635, + 9630, + 9638, + 9636, + 9637, + 9643, + 9642, + 9620, + 9639, + 9627, + 9624, + 9641, + 9633 + ], + "area": 3718965.414428, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9642, + "strid": "526ebd7b-aed1-4b9a-ad86-438cd405425e", + "image_id": 200888, + "image_name": "11231.png", + 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+ "segmentation": [], + "text": "respiration" + }, + { + "id": 9638, + "strid": "3d52b147-d48b-41a1-bb32-d46e9940ad34", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2174.233, + 1770.461, + 465.0210000000002, + 480.28700000000003 + ], + "priority": 12, + "parents": [ + 9634 + ], + "children": [], + "area": 3849394.7314130003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9633, + "strid": "b16efb7a-4b1b-4cd8-9232-4aadbc828055", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2672.369, + 1676.753, + 909.1390000000001, + 616.5049999999999 + ], + "priority": 13, + "parents": [ + 9634 + ], + "children": [], + "area": 4480902.737857, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9641, + "strid": "b39b3a24-51be-49ad-99c3-eb62484872da", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1641.881, + 2303.97, + 1786.4749999999997, + 216.98599999999988 + ], + "priority": 14, + "parents": [ + 9634 + ], + "children": [], + "area": 3782844.56757, + "iscrowd": 0, + "segmentation": [], + "text": "Cardiac and respiratory signal fluctuations have local effects on the {MRI time courses.\nThe largest effect occurs at the cortical surface.\n\nsignal and noise charateristics in M1" + }, + { + "id": 9630, + "strid": "1f1a4c17-e812-46dd-a09f-e6db583e499c", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1653.08, + 2541.504, + 1890.616, + 430.73099999999977 + ], + "priority": 15, + "parents": [ + 9634 + ], + "children": [], + "area": 4201309.43232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9639, + "strid": "4d93a276-e9b2-41fd-ab2d-53522ec0b341", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1667.28, + 3092.681, + 864.3770000000002, + 50.31899999999996 + ], + "priority": 16, + "parents": [ + 9634 + ], + "children": [], + "area": 5156365.17768, + "iscrowd": 0, + "segmentation": [], + "text": "directional connectivity from premotor to M1" + }, + { + "id": 9637, + "strid": "ce997b01-0c2b-4a15-8377-6e07ea821094", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1859.613, + 3155.301, + 91.69299999999998, + 39.13700000000017 + ], + "priority": 17, + "parents": [ + 9634 + ], + "children": [], + "area": 5867638.758513, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9620, + "strid": "0be6a59e-941e-4eef-9bd7-1a97d0c8007a", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1641.835, + 3211.932, + 419.81500000000005, + 491.6260000000002 + ], + "priority": 18, + "parents": [ + 9634 + ], + "children": [], + "area": 5273462.37522, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9635, + "strid": "56754ec9-ca36-4fa4-9635-4b8ae170d04b", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2056.418, + 3155.301, + 620.607, + 50.31899999999996 + ], + "priority": 19, + "parents": [ + 9634 + ], + "children": [], + "area": 6488617.771818, + "iscrowd": 0, + "segmentation": [], + "text": "correlations with pre-motor area" + }, + { + "id": 9624, + "strid": "56308ac1-e2a2-44e1-a848-424ec36140c1", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2134.842, + 3210.552, + 469.5300000000002, + 494.3879999999999 + ], + "priority": 20, + "parents": [ + 9634 + ], + "children": [], + "area": 6854021.252784001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9627, + "strid": "776fdfc9-3046-4822-80f5-9f7d8b5e6eb9", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2742.47, + 3106.979, + 832.7260000000001, + 591.056 + ], + "priority": 21, + "parents": [ + 9634 + ], + "children": [], + "area": 8520796.698129999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9631, + "strid": "32fbfc58-8566-420f-ae4c-6f87edfbcf1e", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2234.762, + 3766.87, + 763.5210000000002, + 78.27700000000004 + ], + "priority": 22, + "parents": [ + 9621 + ], + "children": [ + 9632 + ], + "area": 8418057.934940001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9632, + "strid": "d5a875fd-7687-42f8-b9be-6a0dc1c6c27e", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1621.237, + 3901.962, + 1896.2529999999997, + 405.0250000000001 + ], + "priority": 23, + "parents": [ + 9631 + ], + "children": [], + "area": 6326005.166994, + "iscrowd": 0, + "segmentation": [], + "text": "Here, we characterize the effect of cardiac and respiratory induced physiological noise in\nlayer-dependent resting-state {MRI. The results presented here show that there is only\nsignificant physiological noise in few local areas. In those areas, the effect of physiological\nnoise is strongest in superficial laminae.\n\nCorrecting for physiologocal noise has a limited effect on layer-dependent resting-state\nconnectivity results in the image noise dominated regime.\n\nOnly if big draining veins are present in seed and target regions, they may cause a significant\nbias across cortical depth." + }, + { + "id": 9625, + "strid": "5eb8be56-a31c-49fb-ad27-4cac554230a1", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 400.58, + 2957.139, + 799.6220000000001, + 52.13000000000011 + ], + "priority": 24, + "parents": [ + 9621 + ], + "children": [ + 9626 + ], + "area": 1184570.74062, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENTS" + }, + { + "id": 9626, + "strid": "49368e24-0353-4fc0-938c-dc64d1ac89e1", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 32.434, + 3032.999, + 1507.797, + 456.57400000000007 + ], + "priority": 25, + "parents": [ + 9625 + ], + "children": [], + "area": 98372.28956599999, + "iscrowd": 0, + "segmentation": [], + "text": "We thank Benedikt Poser and Dimo Ivanov for rthe 3D-EPI sequence used\nhere. We acknowledge Rick Reynolds for help with best applicability of\nRETROICOR in afni_proc.py. We thank Chatie Chang for helpful\ndiscussions. The work was supported by the NIMH Intramural Research\nProgram. We thank the two amazing volunteers who participated in this study.\nThe research was supported by the NIMH Intramural Research Program\n(#ZIA-MH002783). The study was approved under NIH Combined\nNeuroscience Institutional Review Board protocol #93-M- 0170\nClinical Trials.gov identifier: NCT00001360)." + }, + { + "id": 9628, + "strid": "d0e4d48a-5cb8-408b-84f1-1566b141b995", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 571.653, + 3767.183, + 459.99599999999987, + 53.23999999999978 + ], + "priority": 26, + "parents": [ + 9621 + ], + "children": [ + 9629 + ], + "area": 2153521.4634990003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9629, + "strid": "0932a3f7-c0fe-4a83-a38d-cb1e0b6aaafc", + "image_id": 200888, + "image_name": "11231.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.958, + 3832.003, + 1285.034, + 447.36799999999994 + ], + "priority": 27, + "parents": [ + 9628 + ], + "children": [], + "area": 145455.169874, + "iscrowd": 0, + "segmentation": [], + "text": "Bandettini Brain Connect. 2014, 4:487-498;\n\nDuvernoy et al., Brain Research, 1981, 7: 519- 579;\n\nGlover et al. , Magnetic Resonance i in Medicine, 2000, 99:45 12:\nHuber et al., Neurolmage, 2015, 107:23-33;\n\nHuber et al., NeuroImage, 2017, 10.1016/j.neuroimage.2016.11.039;\nMao et al., Neuron, 2011, 72: 111-123;\n\nPolimeni et al., ISMRM, 2010, #353;\n\nPolimeni et al., ISMRM, 2015, #355;\n\nPoser et al., Neurolmage, 2010, 51:261-266;\n\nWeiler et al., Nat Neurosci, 2008, 1 1:360-366" + }, + { + "id": 149050, + "strid": "e4254acd-67f3-4a91-b132-f3c828a2d64c", + "image_id": 206287, + "image_name": "20581.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 79.88, + 2.78, + 509.56000000000006, + 67.03999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 149030, + 149045, + 149034, + 149031, + 149035, + 149029, + 149048, + 149042, + 149044, + 149040, + 149039, + 149049, + 149047, + 149043, + 149032, + 149041, + 149038, + 149033, + 149028, + 149037, + 149036, + 149046 + ], + "area": 222.06639999999996, + 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Fiebig?, D Schiler*, [ D Cee Seton yyorn\n1Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, eae r. 3, 06466 Seeland, Germany R J ) Ps\n2Forschungszentrum Julich (FZJ), IBG-4 Bioinformatics, Wilhelm-Johnen- STeICRCE Tela cl Germany yi Bd | Lf" + }, + { + "id": 149030, + "strid": "817c237c-6074-43ce-999a-12f0d0cb22fa", + "image_id": 206287, + "image_name": "20581.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 114.926, + 769.95, + 2405.729, + 593.117 + ], + "priority": 3, + "parents": [ + 149050 + ], + "children": [], + "area": 88487.2737, + "iscrowd": 0, + "segmentation": [], + "text": "The Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), as one of the\nworld's largest plant germplasm collections, combines the conservation, research and\nexploitation of crop genetic diversity through innovative research approaches and the\naccompaniment of all phases of the research data life cycle.\n\nIPK supports the outreach and coordination of research data management programs for\nplants at European and national level, including the National Research Data\nInfrastructure Germany (NFDI), the German Network for Bioinformatics Infrastructure\nServices (de.NBI) and the ELIXIR Plant Sciences Community." + }, + { + "id": 149031, + "strid": "35f44c87-219e-422a-8188-f078de624a50", + "image_id": 206287, + "image_name": "20581.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2606.111, + 802.24, + 520.3110000000001, + 679.5130000000001 + ], + "priority": 4, + "parents": [ + 149050 + ], + "children": [], + "area": 2090726.4886399999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 149038, + "strid": "57976b45-acb4-486e-bff3-419249cf3a0b", + "image_id": 206287, + "image_name": "20581.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 256.368, + 1411.015, + 821.191, + 43.468000000000075 + ], + "priority": 5, + "parents": [ + 149050 + ], + "children": [], + "area": 361739.09352, + 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Systems and Computing Engineering Departament. Universidad de los Andes. Bogota, Colombia\n2. Department of Entomology and Plant Pathology, University of Arkansas, Fayetteville, AR, United States\n3. Department of Biological Sciences, Universidad de los Andes, Bogota, Colombia.\n4. Research Group on Computational Biology and Microbial Ecology, Department of Biological Sciences, Universidad de los Andes,\nBogota, Colombia.\n5. Max Planck Tandem Group in Computational Biology, Universidad de los Andes, Bogota, Colombia\n\n| Ja.duitama@uniandes.edu.co" + }, + { + "id": 153222, + "strid": "a1fcbc82-244f-4096-bef9-aee44e852fca", + "image_id": 206470, + "image_name": "21499.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 658.513, + 858.933, + 435.9920000000001, + 67.57100000000003 + ], + "priority": 3, + "parents": [ + 153243 + ], + "children": [ + 153229 + ], + "area": 565618.546629, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 153229, + "strid": "187824ab-c6c5-4c5e-bb08-d18446b39983", + "image_id": 206470, + "image_name": "21499.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.09, + 993.07, + 1556.294, + 699.3469999999999 + ], + "priority": 4, + "parents": [ + 153222 + ], + "children": [], + "area": 100389.44630000001, + "iscrowd": 0, + "segmentation": [], + "text": "Producing de-novo genome assemblies for complex genomes is possible thanks to long-\nread DNA sequencing technologies. However, maximizing the quality of assemblies\nbased on long reads is a challenging task that requires the development of specialized\ndata analysis techniques. Most of the commonly used tools to assemble long-read\ndatasets implement the overlap-layout-consensus (OLC) algorithm. In this work we\nintroduce a new software implementation for genome assembly from long-read\nsequencing data. It includes new algorithmic approaches to build overlap-layout-\nconsensus (OLC) assembly graphs, and to identify layout paths. Benchmark experiments\non PacBio HiFi and Nanopore data from organisms of different species including\nEscherichia coli, yeast, Drosophila melanogaster, rice, maize, and human show that our\nalgorithms are competitive and, in some cases, more accurate, compared to previous\nsolutions. These algorithms are implemented as part of the Next Generation Sequencing\nExperience Platform (NGSEP), allowing a tight integration with genome comparison and\ndetection of genomic variants within a single easy-to-use tool for analysis of both short\nand long read DNA sequencing data." + }, + { + "id": 153223, + "strid": "3b141fe9-9204-4774-9d98-8c4517c10ebe", + "image_id": 206470, + "image_name": "21499.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 208.041, + 1743.788, + 1330.5, + 78.83199999999988 + ], + "priority": 5, + "parents": [ + 153243 + ], + "children": [ + 153236, + 153233 + ], + "area": 362779.399308, + "iscrowd": 0, + "segmentation": [], + "text": "Algorithm for OLC genome assembly" + }, + { + "id": 153233, + "strid": "0a400d00-e230-4f01-b4d6-b9d492c5b653", + "image_id": 206470, + "image_name": "21499.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 109.075, + 1875.624, + 1544.652, + 372.9649999999999 + ], + "priority": 6, + 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"area": 13484.747168000002, + "iscrowd": 0, + "segmentation": [], + "text": "Sophie A. Bradley, Susan W. Robinson and Joern R. Steinert,\n\nMRC Toxicology Unit, Leicester, UK" + }, + { + "id": 74328, + "strid": "8ebb6224-d68d-4333-8198-60aa17c970d8", + "image_id": 203397, + "image_name": "120149.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.774, + 205.315, + 629.525, + 834.019 + ], + "priority": 3, + "parents": [ + 74331 + ], + "children": [], + "area": 20074.46881, + "iscrowd": 0, + "segmentation": [], + "text": "Abnormal nitric oxide (NO) signalling is implicated-imseveral neurodegenerative diseases\nbut its exact contribution to neuronal death remains elusive due to great complexity of\ndownstream.nitrergic targets. Several NO-mediated mechanisms are associated with\nneuronal degeneration (Nakamura & Lipton, 2008; Steinert et al., 2010). Elevated NO can\nlead to formation of cytotoxic peroxynitrite which in turn can directly médulate a wide\nrange of protein functions via nitration of tyrosine-residues (3-Nitratyrosination [3-NT]).\nToxic NO signalling can further alter protein functioning in a progess known as S-\nhitrosylation. To date, little is known as to what extent NO-mediated post-translational\nmodifications contribute-fo\\or exacerbate neuronal dysfunction. We use glutamatergic\nsynapses as a model system to identify novel nitrergic signalling pathways to correlate:\nprotein modifications with functional changes.\n\nHere we investigate the effects of NO on synapti¢ function which may involveS-nitrosylation\nor 3-NT signalling. The Drosophila neuromuscular junction was used as a model to\ncharacterise NO-mediated effects empléying immunohistochemical and two-electrode-\nvoltage-clamp (TEVC) analyses. Electfophysiological recordings were carried out in HL-3\nsolution in 1.5mM Ca** using sharpelectrodes (20-30 MQ). Data dénote meansSEM (n-\nfiumber) with *p<0.05 indicating statistical significance using unpaired Student's t-test.\nConfocal analysis indicated elevated levels of S-nitroso-cysteine and 3-Nitrotyrosine at\nsynapses following NO-dorior exposure. TEVC data showed little NO effects on miniature:\nexcitatory junctional current (mEJCs) amplitudes or frequencies but induced a reduction in\nmEJC decay kinetics\\(t; Ctrl: 6.140.1ms (49) vs NO:5.5#0.2ms* (24)). Furthermorecevoked\nEJC amplitudes (Ctrl: 10145nA (18) vs NO: 4846nA* (5)) and quantal content (QG/Ctrl: 11946\n(18) vs NO: 7547* (5)) were strongly reduced following NO exposure for >35imin indicative\nfor a reduction in release probability (pw)..An increased paired-pulse-rati@ at various\ninterspike-intervals under NO conditions Confirmed a reduction in py (20ms: 1.140.0 vs\n1.3£0.1*; 40ms: 1.00.0 vs 1.340.1*(7-11)). Cumulative postsynaptic current analysis\n(800ms SOHz train) further showéd a reduced number of release-ready vesicles following\nNO exposure (382445 (7) vs 154:44* (5)) which was also confiémed by fluctuation analysis.\n\nTogether, our data suggest that NO can induce 3-NT or $-nitrosylation of proteins involved\nin synaptic signalling possibly leading to protein modifications as detected by changes in\nsynaptic physiology: This data extends our understanding of NO signalling, potentially\nleading to the idéntification of putative targets for therapeutic intervention(s).i0 disease.\n\nNakamura T & Lipton SA. (2008). Emerging roles of S-nitrosylation in proteif-misfolding and\nneurodegenerative diseases, Antioxidants & redox signaling 10,87-101.\n\nSteinert JR, Chernova T & ForsytheID. (2010). Nitric oxide signalingin brain function, dysfunction,\nand dementia. The Neuroscientist : a review journal bringing neurobiology, neurology and\npsychiatry 16, 435252." + }, + { + "id": 93, + "strid": "101e14fc-ae1f-4611-9f92-ad276aec65f0", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 25.72, + 24.8, + 51.620000000000005, + 53.68000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 113, + 89, + 96, + 116, + 100, + 102, + 92, + 104, + 110, + 88, + 101, + 108, + 114, + 97, + 98, + 105, + 87, + 94 + ], + "area": 637.856, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87, + "strid": "baf1140c-681d-42e0-b529-b93a51bcb5bd", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 103.773, + 76.773, + 3108.019, + 107.957 + ], + "priority": 1, + "parents": [ + 93 + ], + "children": [], + "area": 7966.964528999999, + "iscrowd": 0, + "segmentation": [], + "text": "Novel Trial Design in a Clinical Study of Diaphragm Pacing (DPS) for ALS" + }, + { + "id": 88, + "strid": "56445540-81ca-4c28-abc5-66fcc6aab506", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 146.733, + 217.79, + 3016.763, + 427.17600000000004 + ], + "priority": 2, + "parents": [ + 93 + ], + "children": [], + "area": 31956.98007, + "iscrowd": 0, + "segmentation": [], + "text": "Robert G. Miller+2, David L. Ennist?, Liberty Jenkins, Jeff Thompson‘, Michael Fritz*+, Dan H. Moore?\n\n1Forbes Norris ALS/MDA Research Center, San Francisco, CA\n*Stanford University, Department of Neurology and Neurological Sciences\n3Origent Data Sciences, Vienna, VA, USA\nORIGENT 4Synapse Biomedical, Oberlin, OH, USA Oct" + }, + { + "id": 89, + "strid": "db9f69f6-afb5-477b-a1bc-77d3e9b59247", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 685.882, + 793.301, + 337.33299999999997, + 51.20600000000002 + ], + "priority": 3, + "parents": [ + 93 + ], + "children": [ + 90, + 107 + ], + "area": 544110.876482, + "iscrowd": 0, + "segmentation": [], + "text": "BACKGROUND" + }, + { + "id": 90, + "strid": "6a8dce84-bb50-4f40-914d-7ea213274519", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 94.492, + 855.744, + 1519.165, + 204.64800000000002 + ], + "priority": 4, + "parents": [ + 89 + ], + "children": [], + "area": 80860.962048, + "iscrowd": 0, + "segmentation": [], + "text": "NeuRx DPS was FDA approved in 2011 for persons with ALS (PALS). Results from an open label post-\napproval study showed a survival advantage for DPS patients compared to matched placebo groups from\nother US trials. However, results from two randomized European trials suggested DPS could be harmful in\npatients not on NIV. To learn more about the value of DPS, particularly in relation to NIV, we developed a\nprotocol (PARADIGM study) with novel design and control groups." + }, + { + "id": 107, + "strid": "659eea25-eea4-493c-ad8d-ce835fed4669", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 171.561, + 1121.899, + 1393.404, + 995.8250000000003 + ], + "priority": 5, + "parents": [ + 89 + ], + "children": [], + "area": 192474.114339, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94, + "strid": "747a5537-1bb2-4b11-8807-f877b2a7f70f", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 719.687, + 2204.234, + 276.254, + 50.92399999999998 + ], + "priority": 6, + "parents": [ + 93 + ], + "children": [ + 95 + ], + "area": 1586358.554758, + "iscrowd": 0, + "segmentation": [], + "text": "OBJECTIVES" + }, + { + "id": 95, + "strid": "bb0ef1bb-cecb-4438-9db3-dcad1bb37a24", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 94.658, + 2263.701, + 1519.857, + 116.29599999999982 + ], + "priority": 7, + "parents": [ + 94 + ], + "children": [], + "area": 214277.409258, + "iscrowd": 0, + "segmentation": [], + "text": "To further examine the impact of DPS upon survival of PALS already stabilized on noninvasive ventilation\n(NIV). Survival of those who elect to receive DPS will be compared to that for concurrent controls, historical\ncontrols, and virtual controls." + }, + { + "id": 98, + "strid": "3b147cb9-b865-4576-bebc-f93dee9c64c7", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 734.472, + 2379.995, + 240.47399999999993, + 47.146999999999935 + ], + "priority": 8, + "parents": [ + 93 + ], + "children": [ + 115, + 99, + 91 + ], + "area": 1748039.68764, + "iscrowd": 0, + "segmentation": [], + "text": "METHODS" + }, + { + "id": 99, + "strid": "97ac5a21-7a9d-40e8-91a0-04e4f9380c8d", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.244, + 2439.521, + 1526.302, + 162.1790000000001 + ], + "priority": 9, + "parents": [ + 98 + ], + "children": [], + "area": 222591.65412400002, + "iscrowd": 0, + "segmentation": [], + "text": "Enroll 106 PALS who are using NIV and meet FDA-approved DPS indications of chronic hypoventilation and\nstimulatable diaphragm. PALS who decline DPS will be monitored as concurrent controls. All PALS will be\nfollowed until death, tracheostomy or 2-year follow-up. Other measures of ALS progression and adverse\n\nevents will also be monitored." + }, + { + "id": 115, + "strid": "f21973ef-2ed2-4715-a767-eac314616b51", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 405.201, + 2628.195, + 877.685, + 112.71099999999979 + ], + "priority": 10, + "parents": [ + 98 + ], + "children": [], + "area": 1064947.2421950002, + "iscrowd": 0, + "segmentation": [], + "text": "Study Design\n\nProspective, non-randomized, open-label, interventional study" + }, + { + "id": 91, + "strid": "98a562b8-bc20-4329-a8a2-b82768161c62", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 104.552, + 2755.485, + 1481.103, + 444.43499999999995 + ], + "priority": 11, + "parents": [ + 98 + ], + "children": [], + "area": 288091.46772, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102, + "strid": "0887da2e-6aa0-4426-bd9c-d07e630f91bf", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 666.202, + 3261.958, + 365.539, + 53.827999999999975 + ], + "priority": 12, + "parents": [ + 93 + ], + "children": [ + 103, + 106 + ], + "area": 2173122.943516, + "iscrowd": 0, + "segmentation": [], + "text": "ANALYTIC PLAN" + }, + { + "id": 103, + "strid": "111a1211-91f1-488f-a71f-ca1d85a20a49", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 91.888, + 3326.206, + 1525.501, + 593.5590000000002 + ], + "priority": 13, + "parents": [ + 102 + ], + "children": [], + "area": 305638.41692800005, + "iscrowd": 0, + "segmentation": [], + "text": "For the primary outcome of death or tracheostomy, a log-rank test will be used to compare survival post\nenrollment among those who elected versus refused DPS. We will also test whether DPS treatment or\nrefusal predicts survival in a Cox Proportional Hazards model that includes other covariates suspected to\ninfluence survival.\n\nSecondary tests will be to compare DPS treated survival with that for a matched group of historical controls\nassembled from the PRO-ACT database; and to compare observed survival with survival predicted for a\nvirtual set of patients whose baseline characteristics match those who selected DPS. Survival predictions\nfor the virtual controls will be based on baseline values and 3-month slopes for FVC and ALSFRS-R. The\nprediction model will first be validated using the outcomes of the patients who refused DPS, the null\nhypothesis being that the patients who refused DPS will not differ significantly from their predictions.\nOnce validated, the model will be applied to the DPS implanted cohort to determine whether the DPS\nimplanted patients differed significantly from their predicted survival and ALSFRS-R outcomes. Results from\nthe three control populations will be compared to determine which is the most efficient in terms of sample\nsize and power." + }, + { + "id": 106, + "strid": "a03a43e8-54cd-4954-9ccb-1a6dcb95501f", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 105.969, + 3966.118, + 1482.553, + 390.99299999999994 + ], + "priority": 14, + "parents": [ + 102 + ], + "children": [], + "area": 420285.55834199995, + "iscrowd": 0, + "segmentation": [], + "text": "Virtual Controls\n\nRandom forest (RF) and gradient boosting machine models (GBM) will be used to predict ALSFRS-R\nprogression and survival at time points up to two years into the future. The RF and GBM models have been\ntrained using the Pooled Resource Open-Access ALS Clinical Trials (PRO-ACT) Database. PRO-ACT, first\nreleased in 2012, was recently (Dec, 2015) updated and now contains over 10,700 de-identified ALS patient\nrecords derived from 23 phase 2 and 3 ALS clinical trials . The RF progression model to predict function as\nreflected by the ALSFRS-R score was trained on 3,594 records in PRO-ACT containing complete records for\nALSFRS-R and either FVC or SVC. The GBM model to predict log-likelihood of survival was trained using\n5,737 records (including 1,737 deaths) containing ALSFRS or ALSFRS-R and FVC." + }, + { + "id": 105, + "strid": "ada09d2f-473c-4b39-a23b-c2f8c968194b", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 593.199, + 4403.683, + 535.535, + 50.97900000000027 + ], + "priority": 15, + "parents": [ + 93 + ], + "children": [ + 109 + ], + "area": 2612260.351917, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENTS" + }, + { + "id": 109, + "strid": "69b247d7-67e3-48eb-a8fb-714b74907a54", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.878, + 4476.742, + 1517.198, + 77.8109999999997 + ], + "priority": 16, + "parents": [ + 105 + ], + "children": [], + "area": 460558.263476, + "iscrowd": 0, + "segmentation": [], + "text": "Data used in the preparation of this presentation were obtained from the publicly available Pooled\nResource Open-Access ALS Clinical Trials Database." + }, + { + "id": 116, + "strid": "87f1c4a6-eb4d-4faf-be9e-edf3efe489fd", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1837.909, + 835.235, + 1234.9140000000002, + 184.414 + ], + "priority": 17, + "parents": [ + 93 + ], + "children": [], + "area": 1535085.9236150002, + "iscrowd": 0, + "segmentation": [], + "text": "Sample Size and Power for Upcoming Paradigm Study\n\nPower to detect a reduction in the\nhazard ratio with N=106 DPS treated" + }, + { + "id": 92, + "strid": "06866757-6b74-4581-b005-d4793c97d7e9", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1987.457, + 1028.668, + 948.1879999999999, + 535.874 + ], + "priority": 18, + "parents": [ + 93 + ], + "children": [], + "area": 2044433.417276, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 114, + "strid": "d7746856-efd1-4f33-8879-da8aa7d6088a", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1811.926, + 1654.131, + 1274.0499999999997, + 79.2349999999999 + ], + "priority": 19, + "parents": [ + 93 + ], + "children": [], + "area": 2997162.966306, + "iscrowd": 0, + "segmentation": [], + "text": "Calculations are for logrank test based on 53 treated and 53 control with 20% survival at 24\nmonths post DPS implant." + }, + { + "id": 97, + "strid": "de97dd77-1a59-41a7-96d5-1b9561ae4039", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1755.027, + 1836.36, + 1246.7110000000002, + 491.42600000000016 + ], + "priority": 20, + "parents": [ + 93 + ], + "children": [], + "area": 3222861.38172, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101, + "strid": "fbb36154-4754-41f0-9829-9127fc86a7c3", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1758.442, + 2352.245, + 790.9180000000001, + 413.97699999999986 + ], + "priority": 21, + "parents": [ + 93 + ], + "children": [], + "area": 4136286.4022899996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 113, + "strid": "57b1cdb9-3390-4af1-b905-3a12a1fc8a81", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2577.316, + 2345.949, + 619.9110000000001, + 434.1460000000002 + ], + "priority": 22, + "parents": [ + 93 + ], + "children": [], + "area": 6046251.892883999, + "iscrowd": 0, + "segmentation": [], + "text": "Performance metrics for predictive models\nto be used as secondary outcomes in this\nstudy. A. The ALSFRS-R functional model\ndisplays an RMSD of 4.979 (48 point range)\nand a close correlation between predicted\nand observed scores. B. The survival model\nROC curve has an AUC of 0.826. C. The vital\ncapacity model has an RMSD of 0.553 over a\nrange of 7L and also exhibits close\ncorrelation between predictions and\nobservations." + }, + { + "id": 104, + "strid": "17b6e99d-4d61-43ce-a9e9-af86e8e1f96b", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1718.775, + 2872.656, + 1486.366, + 580.7799999999997 + ], + "priority": 23, + "parents": [ + 93 + ], + "children": [], + "area": 4937449.3164, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 96, + "strid": "e7a2a173-bf53-4428-ab48-97161d6a8f12", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1798.515, + 3485.846, + 1187.117, + 118.71199999999999 + ], + "priority": 24, + "parents": [ + 93 + ], + "children": [], + "area": 6269346.31869, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100, + "strid": "8d6127b7-4bce-47ec-b831-bdc52a3a956c", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1800.734, + 3624.528, + 1353.5350000000003, + 166.41800000000012 + ], + "priority": 25, + "parents": [ + 93 + ], + "children": [], + "area": 6526810.803551999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 108, + "strid": "d09a78f5-bd0d-4853-bab8-2d0a32077da4", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2321.325, + 3898.727, + 267.0819999999999, + 52.777000000000044 + ], + "priority": 26, + "parents": [ + 93 + ], + "children": [ + 111 + ], + "area": 9050212.453274999, + "iscrowd": 0, + "segmentation": [], + "text": "COMMENT" + }, + { + "id": 111, + "strid": "ececd0d3-878f-4a5e-a3ae-f4faf202218d", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1694.235, + 3959.004, + 1526.9040000000002, + 174.558 + ], + "priority": 27, + "parents": [ + 108 + ], + "children": [], + "area": 6707483.14194, + "iscrowd": 0, + "segmentation": [], + "text": "This is the first study to enroll only PALS who are already on NIV. In this way, the impact of DPS can be\nmore clearly examined in the presence of NIV. Moreover, this design will speed recruitment by\nempowering patient choice to obtain concurrent controls and thereby increase participation of PALS in\nclinical research. The use of virtual controls is also innovative and shows great promise for ALS trials." + }, + { + "id": 110, + "strid": "2a064b44-f7e4-473d-b0f7-402d7a6194f4", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2310.365, + 4155.629, + 292.7739999999999, + 53.23199999999997 + ], + "priority": 28, + "parents": [ + 93 + ], + "children": [ + 112 + ], + "area": 9601019.794584999, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCES" + }, + { + "id": 112, + "strid": "528321ab-c9f2-4372-84dc-c355030c445b", + "image_id": 200500, + "image_name": "10003.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1697.426, + 4225.927, + 1518.3579999999997, + 293.1109999999999 + ], + "priority": 29, + "parents": [ + 110 + ], + "children": [], + "area": 7173198.363901999, + "iscrowd": 0, + "segmentation": [], + "text": "Kuffner R, Zach N, Norel R, Hawe J, Schoenfeld D, Wang L, Li G, et al. Crowdsourced analysis of clinical trial\ndata to predict amyotrophic lateral sclerosis progression. Nat Biotechnol 2015;33:51-57.\nDOI:10.1038/nbt.3051\n\nD Friedman JH. 2001. Greedy Function Approximation: A Gradient Boosting Machine. Ann. Stat Taylor A,\nMiller R, Onders R and Ennist D. Analysis of function and survival in ALS patients with diaphragm pacing\nusing virtual controls (poster P108). Amyotrophic Lateral Sclerosis, 16:sup1, p130. 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We hope to\nhighlight the impact of these infections in terms of\nmortality and length of stay in hospital." + }, + { + "id": 58928, + "strid": "7403d714-b1f3-4a86-88ba-b9c2f26c70f9", + "image_id": 202830, + "image_name": "119320.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 115.562, + 1409.031, + 157.079, + 61.01999999999998 + ], + "priority": 5, + "parents": [ + 58948 + ], + "children": [ + 58934 + ], + "area": 162830.44042199999, + "iscrowd": 0, + "segmentation": [], + "text": "AIM:" + }, + { + "id": 58934, + "strid": "81614f14-a3fa-4bc0-b0a3-42c202ec290c", + "image_id": 202830, + "image_name": "119320.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 110.207, + 1493.574, + 1405.8380000000002, + 230.17399999999998 + ], + "priority": 6, + "parents": [ + 58928 + ], + "children": [], + "area": 164602.309818, + "iscrowd": 0, + "segmentation": [], + "text": "To describe the epidemiology and clinical outcomes\nassociated with Carbapenem resistant 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Udara Liyanage?, Mallory A Nin Rolo g oie , Thomas Keane? Tare hea er inst) 0 0a\n\n1 EMBL European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Oinecel nec X\n2 Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology Geissaeeigeeloe) pain C))\n\nELIXIR All Hands, 5-8 June 2023, Dublin, lreland" + }, + { + "id": 154046, + "strid": "c406629e-eaf9-456f-9857-79047dbef9f1", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.7, + 790.343, + 467.84200000000004, + 72.23199999999997 + ], + "priority": 3, + "parents": [ + 154072 + ], + "children": [ + 154051 + ], + "area": 78797.1971, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 154051, + "strid": "8b3fb905-c8e2-4c5a-a012-d3e4b89b49d3", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.881, + 897.127, + 3047.818, + 365.9839999999999 + ], + "priority": 4, + "parents": [ + 154046 + ], + "children": [], + "area": 115622.624887, + "iscrowd": 0, + "segmentation": [], + "text": "The European Genome-phenome Archive (EGA), an ELIXIR core data resource for archiving and sharing personally identifiable genetic and phenotypic data, continually\nstrives for improved metadata compliance and interoperability in line with the FAIR principles. To achieve this, the EGA will: (1) apply its enhanced metadata model with\nthe help of the JSON Schema definition; and (2) integrate it with ELIXIR Biovalidator, a comprehensive JSON Schema validator tailored for life sciences.\n\nThis poster illustrates how the EGA's enhanced metadata model, combined with the power of Biovalidator, fosters a central, open-sourced and remote metadata\nvalidation. This synergy not only bolsters the metadata FAIRness but also greatly benefits the Federated EGA (FEGA) initiative, by providing to emerging nodes an\nout-of-the-box workflow for metadata validation. The EGA aims to establish a process for constant review and incorporation of feedback into its model through\ncollaboration with ELIXIR Human Data Communities." + }, + { + "id": 154049, + "strid": "2b3125b7-e9e9-49f0-bf24-ed01610e8538", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.522, + 1361.083, + 879.31, + 68.61999999999989 + ], + "priority": 5, + "parents": [ + 154072 + ], + "children": [ + 154065, + 154063, + 154053, + 154052, + 154064 + ], + "area": 135457.70232600003, + "iscrowd": 0, + "segmentation": [], + "text": "EGA Metadata schemas" + }, + { + "id": 154052, + "strid": "61688ff7-555a-4852-b241-22153d9f69a2", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 119.174, + 1473.205, + 1348.572, + 135.385 + ], + "priority": 6, + "parents": [ + 154049 + ], + "children": [], + "area": 175567.73267, + "iscrowd": 0, + "segmentation": [], + "text": "In order to improve its metadata standards, the EGA has worked towards\nupgrading its existing metadata definitions. The outcome is a revised set of\nJSON Schemas hosted in GitHub." + }, + { + "id": 154053, + "strid": "6f219b43-ad5a-4bed-b1ff-bbe717291d48", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.657, + 1814.304, + 998.6819999999999, + 182.85699999999997 + ], + "priority": 7, + "parents": [ + 154049 + ], + "children": [], + "area": 209836.957728, + "iscrowd": 0, + "segmentation": [], + "text": "The schemas are organised in modular files that can be\nreferenced. Whenever a validation request contains\nareference to them, Biovalidator fetches and\n\ncompiles them, if they are not already in cache." + }, + { + "id": 154065, + "strid": "7a93c4e0-34aa-465b-8611-ad2d084d0b45", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 131.36, + 2026.934, + 793.41, + 556.6920000000002 + ], + "priority": 8, + "parents": [ + 154049 + ], + "children": [], + "area": 266258.05024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154063, + "strid": "966c1355-d5a3-49e2-ae6b-e44a093ab616", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.698, + 2610.974, + 876.315, + 91.50900000000001 + ], + "priority": 9, + "parents": [ + 154049 + ], + "children": [], + "area": 302084.469852, + "iscrowd": 0, + "segmentation": [], + "text": "Thanks to Biovalidator, we can encode ontology\nbased constraints:" + }, + { + "id": 154064, + "strid": "8b3bf0f9-b7b9-42ef-8531-afbffc3bf192", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 172.748, + 2715.803, + 834.4449999999999, + 121.49499999999989 + ], + "priority": 10, + "parents": [ + 154049 + ], + "children": [], + "area": 469149.536644, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154071, + "strid": "81a2b471-1534-4fbb-952d-cf3cb82a870f", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 944.095, + 1646.996, + 1421.7, + 1400.4099999999999 + ], + "priority": 11, + "parents": [ + 154072 + ], + "children": [], + "area": 1554920.6886200001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154050, + "strid": "a5e6ec4e-fc41-4474-bc4a-7f724e78b01a", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2473.194, + 1360.913, + 731.0419999999999, + 69.18599999999992 + ], + "priority": 12, + "parents": [ + 154072 + ], + "children": [ + 154061, + 154062, + 154066, + 154060 + ], + "area": 3365801.866122, + "iscrowd": 0, + "segmentation": [], + "text": "ELIXIR Biovalidator" + }, + { + "id": 154062, + "strid": "2ebc3575-6c6e-4754-b996-1c1f38cf2881", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1848.376, + 1472.475, + 1342.338, + 93.95100000000002 + ], + "priority": 13, + "parents": [ + 154050 + ], + "children": [], + "area": 2721687.4505999996, + "iscrowd": 0, + "segmentation": [], + "text": "The ELIXIR Biovalidator* is an advanced JSON Schema validator based on\nAjv2. Biovalidator is publicly available at ELIXIR's GitHub repository." + }, + { + "id": 154061, + "strid": "2c498075-9829-436c-bdbe-0a363d061cc5", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2167.552, + 1783.928, + 1024.4500000000003, + 226.51199999999994 + ], + "priority": 14, + "parents": [ + 154050 + ], + "children": [], + "area": 3866756.7042560005, + "iscrowd": 0, + "segmentation": [], + "text": "It is capable of running both as a server or ina Command\nLine Interface (CLI) mode. Its deployment as a server\n\nis effortless and, if the server port is exposed to the\nworld, it allows for anyone to use it remotely,\n\nanywhere and anytime." + }, + { + "id": 154066, + "strid": "c0627795-e83a-46b3-88e0-3ed151e80427", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2419.994, + 2020.368, + 703.2469999999998, + 335.2049999999999 + ], + "priority": 15, + "parents": [ + 154050 + ], + "children": [], + "area": 4889278.437792, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154060, + "strid": "d2841bd6-3f88-4e87-8ce0-0617e4c3723c", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2371.268, + 2430.886, + 820.3220000000001, + 222.48599999999988 + ], + "priority": 16, + "parents": [ + 154050 + ], + "children": [], + "area": 5764282.183448, + "iscrowd": 0, + "segmentation": [], + "text": "Its validation rules are augmented through\nthe usage of user-defined keywords. These\nallow for semantic validation of the metadata\nrelying on external resources, easing the\nmaintenance of the metadata definitions" + }, + { + "id": 154048, + "strid": "c8ae652a-cb42-444a-a407-dbecfb483f1f", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.158, + 2905.494, + 623.9, + 78.85199999999986 + ], + "priority": 17, + "parents": [ + 154072 + ], + "children": [ + 154055, + 154070, + 154069, + 154054, + 154068, + 154056 + ], + "area": 288102.97405200003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154054, + "strid": "3b2dc563-5a44-4cda-a8fd-3ae321ea1b97", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.415, + 3018.701, + 780.66, + 276.04399999999987 + ], + "priority": 18, + "parents": [ + 154048 + ], + "children": [], + "area": 354440.77791500004, + "iscrowd": 0, + "segmentation": [], + "text": "The Federated EGA (FEGA) is a network of\nEGA nodes across different European\ncountries, working collectively for secure\nhuman data sharing and research\nadvancement while complying with\nnational data protection regulations." + }, + { + "id": 154069, + "strid": "97539369-5683-4859-aa00-1891f423870f", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 176.765, + 3295.298, + 698.653, + 287.3299999999999 + ], + "priority": 19, + "parents": [ + 154048 + ], + "children": [], + "area": 582493.3509699999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154070, + "strid": "e8d45aff-4e96-4c2f-b8de-d7424f5030e8", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 917.147, + 3010.352, + 577.045, + 557.969 + ], + "priority": 20, + "parents": [ + 154048 + ], + "children": [], + "area": 2760935.3057440002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154055, + "strid": "c212200e-17a3-4488-acb6-ed5a7990b03b", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.657, + 3590.13, + 1352.089, + 182.85699999999997 + ], + "priority": 21, + "parents": [ + 154048 + ], + "children": [], + "area": 415223.66541, + "iscrowd": 0, + "segmentation": [], + "text": "When metadata is validated through Biovalidator, the information itself is\n\nnot saved at the EGA. Therefore, FEGA nodes can utilize the existing EGA\nBiovalidator server for metadata validation or choose to deploy their own\nlocal servers for more personalized control." + }, + { + "id": 154056, + "strid": "5b187fd0-a0d6-4b3d-836a-d769808bcad4", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.415, + 3794.086, + 931.8690000000001, + 233.846 + ], + "priority": 22, + "parents": [ + 154048 + ], + "children": [], + "area": 445482.60769, + "iscrowd": 0, + "segmentation": [], + "text": "The true beauty of this project is that as long as the\nsame schemas are referenced and the same version\nof Biovalidator is used, the validation outcome will\nbe the same. This boosts interoperability and\nenables seamless synchronization between nodes." + }, + { + "id": 154068, + "strid": "fd0daa70-4b1f-4368-8bad-fef5416fa439", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1087.685, + 3773.196, + 389.577, + 239.35399999999981 + ], + "priority": 23, + "parents": [ + 154048 + ], + "children": [], + "area": 4104048.6912599998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154047, + "strid": "dd57afab-e4dd-4927-a280-249c941ec0ce", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2520.664, + 2903.954, + 683.9569999999999, + 83.22299999999996 + ], + "priority": 24, + "parents": [ + 154072 + ], + "children": [ + 154057, + 154058, + 154059, + 154067 + ], + "area": 7319892.305456001, + "iscrowd": 0, + "segmentation": [], + "text": "Global community" + }, + { + "id": 154059, + "strid": "6944ccd6-f225-44e2-924e-5aed96b4a836", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1830.34, + 3034.171, + 1362.461, + 188.58300000000008 + ], + "priority": 25, + "parents": [ + 154047 + ], + "children": [], + "area": 5553564.54814, + "iscrowd": 0, + "segmentation": [], + "text": "Users all over the world will soon be able to easily validate their metadata\nagainst EGA's standards. This will be possible by either reaching our\nBiovalidator endpoint directly, or through a pre-submission toolkit that is in\nthe making and being designed for lab-coat scientists and physicians." + }, + { + "id": 154067, + "strid": "421dffe0-69bc-4d88-86a6-91625935ec9d", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1905.215, + 3244.453, + 1234.668, + 323.8789999999999 + ], + "priority": 26, + "parents": [ + 154047 + ], + "children": [], + "area": 6181380.522395, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154058, + "strid": "b40a52f8-fb88-4246-ad73-8170adc82ad7", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2256.495, + 3629.67, + 884.6040000000003, + 185.10800000000017 + ], + "priority": 27, + "parents": [ + 154047 + ], + "children": [], + "area": 8190332.20665, + "iscrowd": 0, + "segmentation": [], + "text": "The global community is invited to contribute to\nthe development and enhancement of EGA's\nmetadata schemas and ELIXIR's Biovalidator,\ndriven by the needs of the worldwide user base." + }, + { + "id": 154057, + "strid": "c0b016dc-5c68-491c-b25b-67f377675820", + "image_id": 206504, + "image_name": "22529.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1923.657, + 3894.873, + 1267.2789999999998, + 137.05099999999993 + ], + "priority": 28, + "parents": [ + 154047 + ], + "children": [], + "area": 7492399.710561, + "iscrowd": 0, + "segmentation": [], + "text": "By making metadata validation accessible, EGA aims to bridge the gap\nbetween different data standards across the world, facilitating more\ncomprehensive and meaningful data analysis and comparisons." + }, + { + "id": 127028, + "strid": "c8a9bead-1584-405e-b1b2-3e14938fdfd0", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 21.37, + 561.05, + 170.01999999999998, + 199.58000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 127002, + 126998, + 127000, + 127020, + 127019, + 127003, + 127016, + 127009, + 127004, + 126999 + ], + "area": 11989.6385, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 126998, + "strid": "fce80532-a35a-4f5c-bbc0-6ee369e45e91", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 60.639, + 230.722, + 1597.925, + 298.89200000000005 + ], + "priority": 1, + "parents": [ + 127028 + ], + "children": [], + "area": 13990.751358000001, + "iscrowd": 0, + "segmentation": [], + "text": "re\noe\n\nTrackFind ay\n\n— FAIR Search of Geno Tack" + }, + { + "id": 126999, + "strid": "2e6aaf8b-2cf1-40ea-a306-38da39729374", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 145.802, + 768.154, + 1349.004, + 398.836 + ], + "priority": 2, + "parents": [ + 127028 + ], + "children": [], + "area": 111998.389508, + "iscrowd": 0, + "segmentation": [], + "text": "Dmytro Titov *, Sveinung Gundersen *, Radmila Kompova *, Salvador\nCapella-Gutierrez ?, Finn Drablas 3, José M. Fernandez ?, Kieron Taylor 4,\nDaniel Zerbino *, Eivind Hovig “5\n\nCenter for Bioinformatics, University of Oslo (UiO), Norway\n\n? INB Coordination Node / ELIXIR ES, Barcelona Supercomputing Center, Spain\n\n3 Norwegian University of Science and Technology (NTNU), Norway\n\n* European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), United Kingdom\n5 Department of Tumor biology, Institute for Cancer Research, Oslo University Hospital (OUH), Norway" + }, + { + "id": 127000, + "strid": "7bb2c183-541d-458a-95df-f6528b604947", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 145.367, + 1219.052, + 1397.771, + 312.77600000000007 + ], + "priority": 3, + "parents": [ + 127028 + ], + "children": [], + "area": 177209.93208399997, + "iscrowd": 0, + "segmentation": [], + "text": "FAIR track search — In the context of the ELIXIR Implementation Study: “FAIRifi-\ncation of Genomic Tracks”, we have developed TrackFind, a track search engine\nand metadata FAIRification service. We believe TrackFind to be an important con-\ntribution, both to maintainers of genomic annotation track data, as well as to re-\nsearchers and tool developers interested in making use of the wealth of genomic\nannotation track data publicly available." + }, + { + "id": 127003, + "strid": "323a9888-b935-41f6-b881-7b0bf61e9b29", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 148.901, + 1590.142, + 236.791, + 47.71199999999999 + ], + "priority": 4, + "parents": [ + 127028 + ], + "children": [ + 127001 + ], + "area": 236773.73394200002, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation" + }, + { + "id": 127001, + "strid": "afcf6cf2-1eb6-42f0-b27c-6fae60a54536", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.901, + 1676.729, + 1426.045, + 215.58500000000004 + ], + "priority": 5, + "parents": [ + 127003 + ], + "children": [], + "area": 249666.62482900004, + "iscrowd": 0, + "segmentation": [], + "text": "Thousands of genomic annotation tracks have been generated the recent years, many in the con-\ntext of larger undertakings such as BLUEPRINT and ENCODE. Several data portals for tracks are\nproviding search services to researchers, but the underlying metadata is diverse and often poorly\n\ncurated. The Track Hub Registry (11) provides a unified access point, but currently only supports lim-\nited search capabilities." + }, + { + "id": 127004, + "strid": "0cb2e333-b350-496e-ab74-14d49d505df8", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 154.202, + 1948.862, + 459.44399999999996, + 56.547000000000025 + ], + "priority": 6, + "parents": [ + 127028 + ], + "children": [ + 127018, + 127014 + ], + "area": 300518.418124, + "iscrowd": 0, + "segmentation": [], + "text": "Overview of TrackFind" + }, + { + "id": 127014, + "strid": "76e5f6c5-95b7-4135-a11d-77d40e008b71", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 150.79, + 2042.93, + 1423.41, + 626.0959999999998 + ], + "priority": 7, + "parents": [ + 127004 + ], + "children": [], + "area": 308053.41469999996, + "iscrowd": 0, + "segmentation": [], + "text": "TrackFind (1) supports crawling of the Track Hub Registry (11) and other data portals to fetch track\nmetadata. Crawled metadata can be accessed through hierarchical browsing or by search queries,\nboth through a web-based user interface, and as a REST API (2). TrackFind supports advanced\nSQL-based search queries that can be easily built in the user interface, and the search results can be\nbrowsed and exported in JSON or GSuite (8) format (see Figure 1). The RESTful API allows down-\nstream tools and scripts to easily integrate TrackFind search, currently demonstrated by the GSuite\nHyperBrowser (3), and soon by EPICO (12).\n\nIn addition to supporting most metadata models directly, TrackFind also supports the transforma-\ntion of metadata into a JSON Schema currently named \"Fairtracks\" (4), as defined in the “FAIRifica-\ntion of Genomic Tracks” Implementation Study. Such transformation can be achieved ona per-\ntrackhub basis through online scripting, thus providing a simple path for data managers to FAIRify\ntheir track metadata. TrackFind also maintains a version history of all metadata changes, including\nall recrawlings and transformations. We are also planning to add functionality for curating existing\ntrack metadata content." + }, + { + "id": 127018, + "strid": "f5372945-626b-4237-8eea-101419ef150e", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 339.349, + 2739.119, + 1049.578, + 619.0990000000002 + ], + "priority": 8, + "parents": [ + 127004 + ], + "children": [ + 127017 + ], + "area": 929517.293531, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127017, + "strid": "6f0895ac-1c6e-4c9e-b40b-431ee2c5fcf6", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 150.73, + 3388.641, + 1425.297, + 219.04199999999992 + ], + "priority": 9, + "parents": [ + 127018 + ], + "children": [], + "area": 510769.85793, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: TrackFind (1) user interface for browsing, performing search queries, and exporting track metadata. The model\nbrowser on the left shows a hierarchical overview of all metadata attributes and values present in the selected track hub.\nAttributes or values from this browser can be dragged to the middle part of the screen, automatically becoming terms in\nthe search query. Such on-the-fly query building allows for easy construction of complicated queries. After possibly apply-\n\ning filter and clicking the “Search” button, the search results (if any) will appear on the right, currently in JSON format. The\nresults can be briefly reviewed and exported to a file, in either JSON or GSuite (8) formats." + }, + { + "id": 127016, + "strid": "60a792b8-5edc-4d04-bf26-776901c85896", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 158.335, + 3667.007, + 596.282, + 60.8449999999998 + ], + "priority": 10, + "parents": [ + 127028 + ], + "children": [ + 127015 + ], + "area": 580615.553345, + "iscrowd": 0, + "segmentation": [], + "text": "Underlying technology stack" + }, + { + "id": 127015, + "strid": "36f10005-02d3-48dc-bac5-5ed430842fd5", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 141.603, + 3762.838, + 1419.212, + 351.37999999999965 + ], + "priority": 11, + "parents": [ + 127016 + ], + "children": [], + "area": 532829.149314, + "iscrowd": 0, + "segmentation": [], + "text": "TrackFind (a, 5, 6) is a Java-based web-application powered by Spring Boot as a back-end tech-\nnology and Vaadin framework as a front-end technology. The database engine used by Track-\nFind is PostgreSQL, which have been chosen due to support for storing arbitrary JSON docu-\nments while retaining the possibility to perform regular SOL queries to access data.\n\nThe application is distributed as a Docker image (9), which, together with the PostgreSOL\nimage and the image for the JSON-to-GSuite converter (10), allows for easy deployment of the\nwhole stack with Docker Compose." + }, + { + "id": 127009, + "strid": "c8efc0f8-5bf3-48c4-92cb-61b1241ba09c", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1726.916, + 752.539, + 397.5959999999998, + 60.08100000000002 + ], + "priority": 12, + "parents": [ + 127028 + ], + "children": [ + 127006, + 127008, + 127005 + ], + "area": 1299571.639724, + "iscrowd": 0, + "segmentation": [], + "text": "Web user interface" + }, + { + "id": 127008, + "strid": "dc0aa73b-50bc-4daf-bd1d-831e02c2dad8", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1730.45, + 847.962, + 1005.4759999999999, + 47.71199999999999 + ], + "priority": 13, + "parents": [ + 127009 + ], + "children": [], + "area": 1467355.8429, + "iscrowd": 0, + "segmentation": [], + "text": "The Web user interface (UI) of TrackFind currently contains four pages:" + }, + { + "id": 127005, + "strid": "a9a81e42-024f-470f-865e-65f52ba7485c", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1723.382, + 931.016, + 1422.5099999999998, + 450.60900000000004 + ], + "priority": 14, + "parents": [ + 127009 + ], + "children": [], + "area": 1604496.216112, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127006, + "strid": "7ba776ad-2de9-4854-a83a-f0c2969a6cf8", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1723.382, + 1408.131, + 1145.0769999999998, + 53.01299999999992 + ], + "priority": 15, + "parents": [ + 127009 + ], + "children": [], + "area": 2426747.6190420003, + "iscrowd": 0, + "segmentation": [], + "text": "Future plans include separate page(s) to simplify curation of metadata content." + }, + { + "id": 127002, + "strid": "72bceacd-55c7-4fd0-9e3f-a62f2d9cca92", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1732.217, + 1524.759, + 199.68200000000002, + 53.01299999999992 + ], + "priority": 16, + "parents": [ + 127028 + ], + "children": [ + 127010, + 127011, + 127007 + ], + "area": 2641213.460703, + "iscrowd": 0, + "segmentation": [], + "text": "REST API" + }, + { + "id": 127007, + "strid": "6190f5e1-668d-4a7b-8c4d-5121e7b64e25", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1730.45, + 1614.881, + 1300.581, + 53.01299999999992 + ], + "priority": 17, + "parents": [ + 127002 + ], + "children": [], + "area": 2794470.82645, + "iscrowd": 0, + "segmentation": [], + "text": "In addition to the Web UI, TrackFind is also accessible via a set of REST endpoints (Figure 3)." + }, + { + "id": 127010, + "strid": "d6247c06-41f0-4957-ad4c-5e8a3d1c4955", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1734.072, + 1771.383, + 693.7149999999999, + 423.24099999999976 + ], + "priority": 18, + "parents": [ + 127002 + ], + "children": [ + 127012 + ], + "area": 3071705.661576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127012, + "strid": "5a2f0d61-6923-45fe-bbd6-af4da8ed3bb1", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1726.559, + 2214.659, + 683.6969999999999, + 250.43899999999985 + ], + "priority": 19, + "parents": [ + 127010 + ], + "children": [], + "area": 3823739.428381, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: The References admin page. In this example,\nBLUEPRINT metadata has been mapped to the Fairtracks\nstandard (4), which provides four object types for track\nmetadata: studies, samples, experiments, and tracks.\nMetadata attributes in the different types are here linked\ntogether to allow for search and retrieval across object\n\ntypes." + }, + { + "id": 127011, + "strid": "f5d901c7-d2a3-467d-81eb-3c8447527170", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2485.388, + 1721.295, + 668.6710000000003, + 463.31100000000015 + ], + "priority": 20, + "parents": [ + 127002 + ], + "children": [ + 127013 + ], + "area": 4278085.93746, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127013, + "strid": "0e8d5f91-c0cf-4c64-be6d-35fc865a07ad", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2490.396, + 2214.659, + 658.6529999999998, + 85.14899999999989 + ], + "priority": 21, + "parents": [ + 127011 + ], + "children": [], + "area": 5515377.914964001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Specification of the TrackFind REST API, includ-\ning functionality to manually try out the API (2)" + }, + { + "id": 127020, + "strid": "e41d38b3-f9df-4a97-998a-9d98a1c35ccd", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1731.181, + 2541.373, + 334.64800000000014, + 54.76099999999997 + ], + "priority": 22, + "parents": [ + 127028 + ], + "children": [ + 127022, + 127021 + ], + "area": 4399576.651513, + "iscrowd": 0, + "segmentation": [], + "text": "Tool integration" + }, + { + "id": 127021, + "strid": "67590b72-cb1f-4f69-b23c-43615df37969", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1728.139, + 2634.162, + 1420.733, + 333.12699999999995 + ], + "priority": 23, + "parents": [ + 127020 + ], + "children": [], + "area": 4552198.084518, + "iscrowd": 0, + "segmentation": [], + "text": "One of the crucial features of TrackFind is its integration with downstream tools and scripts, mainly\nby making use of the REST API (2). A first example of such downstream use is a TrackFind client\nimplemented in the GSuite HyperBrowser (3, 7), which builds upon the Galaxy platform. Figure 4\nshows an example of search and retrieval from the BLUEPRINT track hub using the HyperBrowser\nclient. TrackFind supports exporting track metadata into the GSuite tabular file format, which is a\npart of the BioXSD/GTrack family of file formats (8). GSuite metadata files can easily be manipu-\nlated and filtered in order to define a suite of related tracks to be downloaded and analyzed in bulk.\nGSuite files also provides a simple way for metadata to persist throughout the analysis process." + }, + { + "id": 127022, + "strid": "7f8c0f1e-b671-4e1e-8e26-1c39b9b1d905", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1755.519, + 3052.472, + 587.155, + 641.9160000000002 + ], + "priority": 24, + "parents": [ + 127020 + ], + "children": [ + 127023 + ], + "area": 5358672.592968, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 127023, + "strid": "6e8ed50b-d13f-47bf-a1b0-923f861b5685", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1749.435, + 3717.204, + 590.1970000000001, + 390.92999999999984 + ], + "priority": 25, + "parents": [ + 127022 + ], + "children": [], + "area": 6503006.77974, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: A TrackFind client implemented within\nthe GSuite HyperBrowser (3). A user has searched\nfor ChIP-seq tracks targeting various histone\nmodifications in naive B cells, and will receive a\nGSuite tabular file (8) containing the relevant\ntrack metadata. The actual track data can then,\nwith a few clicks, be transferred from the BLUE-\nPRINT FTP server to the HyperBrowser server,\nconverted into the efficient binary BTrack format\n(8), and analyzed in bulk via the powerful statisti-\ncal analysis tools provided by the HyperBrowser." + }, + { + "id": 127019, + "strid": "20b48162-d761-42e0-b85a-a7e73e2c707f", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2392.872, + 3049.429, + 590.1970000000001, + 54.76099999999997 + ], + "priority": 26, + "parents": [ + 127028 + ], + "children": [ + 127027, + 127025, + 127026, + 127024 + ], + "area": 7296893.270087999, + "iscrowd": 0, + "segmentation": [], + "text": "Resource availability (URLs)" + }, + { + "id": 127026, + "strid": "7c2096d2-4454-48f9-a879-877614132273", + "image_id": 205449, + "image_name": "15150.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2391.35, + 3123.965, + 725.578, + 249.46500000000015 + 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134139 + ], + "children": [], + "area": 77702.93667200001, + "iscrowd": 0, + "segmentation": [], + "text": "=\n\nInternationa &\n\nSummer School" + }, + { + "id": 134123, + "strid": "07f17b7c-65a1-468b-9f76-b17cbd240452", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 196.821, + 1058.732, + 1249.247, + 159.8989999999999 + ], + "priority": 2, + "parents": [ + 134139 + ], + "children": [], + "area": 208380.69097199998, + "iscrowd": 0, + "segmentation": [], + "text": "Volunteers for the Royal College of Pathologists (RCPath) were:\n\nDr Charles van Heyningen, Chemical Pathologist, London\n\nDr Hesham ElDaly, Consultant Haematopathologist, Addenbrooke's Hospital, Cambridge\nDr Mona El-Bahrawy, Reader and Consultant Histopathologist, Imperial College, London." + }, + { + "id": 134124, + "strid": "5f6541dd-d895-417a-a5d3-159aede4be92", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 5, + 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"priority": 5, + "parents": [ + 134124 + ], + "children": [], + "area": 281554.708887, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134127, + "strid": "219f7457-c60e-44b5-9cfe-f6612b76d971", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 197.148, + 1541.995, + 1225.96, + 172.00600000000009 + ], + "priority": 6, + "parents": [ + 134124 + ], + "children": [], + "area": 304001.23026, + "iscrowd": 0, + "segmentation": [], + "text": "It was attended by 80 undergraduate medical students from Egypt, Jordan and Pakistan.\nThree pathologists from the United Kingdom and others from Egypt, Sudan and Jordan\nvolunteered to contribute to teaching.\n\nStudent objectives were to learn about:" + }, + { + "id": 134129, + "strid": "810ff040-fa86-4ea1-87c5-8fbd925a7bfb", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 200.453, + 1718.31, + 1048.432, + 157.404 + ], + "priority": 7, + "parents": [ + 134124 + ], + "children": [], + "area": 344440.39443, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134126, + "strid": "a9010788-0db9-4d02-a27e-ed96c209b615", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 226.256, + 1955.728, + 381.45500000000004, + 45.60400000000004 + ], + "priority": 8, + "parents": [ + 134139 + ], + "children": [ + 134131, + 134130, + 134132, + 134133 + ], + "area": 442495.194368, + "iscrowd": 0, + "segmentation": [], + "text": "Our contributions" + }, + { + "id": 134130, + "strid": "7ed9f5df-beb0-46ae-85a1-38c4c564ecb6", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 224.878, + 2019.54, + 1067.139, + 41.83100000000013 + ], + "priority": 9, + "parents": [ + 134126 + ], + "children": [], + "area": 454150.11611999996, + "iscrowd": 0, + "segmentation": [], + "text": "We were invited to teach by the College, and given guidance on preparation." + }, + { + "id": 134131, + "strid": "aa7ed7c8-e1db-4c72-b611-fb2d4852e45c", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 232.873, + 2087.006, + 319.392, + 180.74699999999984 + ], + "priority": 10, + "parents": [ + 134126 + ], + "children": [], + "area": 486007.34823799995, + "iscrowd": 0, + "segmentation": [], + "text": "Day 1: we gave presentations\non tackling disease outbreaks,\nblood disorders, the\nbiochemical basis of disease,\ncancer diagnosis and forensic\npathology." + }, + { + "id": 134132, + "strid": "f8d5a80b-c3f3-4f4e-a313-3f9158296a73", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 618.652, + 2087.767, + 372.899, + 239.90099999999984 + ], + "priority": 11, + "parents": [ + 134126 + ], + "children": [], + "area": 1291601.230084, + "iscrowd": 0, + "segmentation": [], + "text": "Day 2: debates were held on\ngenetic testing and organ\n\n(eloYaT- Liem MUU meeynea olde Rico)\nlocal experts on genetics and\ntransplantation. This was followed\nby an interactive pathology quiz\nthat we had prepared based on our\nfecexX nie] Ula M ice m ea Rely M ol-1elkon" + }, + { + "id": 134133, + "strid": "cac2cb74-5bfe-4cf1-8571-ce81134a99c8", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1057.891, + 2086.959, + 366.251, + 242.43899999999985 + ], + "priority": 12, + "parents": [ + 134126 + ], + "children": [], + "area": 2207775.143469, + "iscrowd": 0, + "segmentation": [], + "text": "Day 3: we judged the students’\n\nFoy cceX aL ele Ce) AMOR eCTR UTC NE\nchallenges that we had provided\nthem with on the first day. At the\nend of the last day, the whole\nstudent audience interviewed us\nabout the challenges in becoming\na specialist in laboratory medicine." + }, + { + "id": 134125, + "strid": "3554f5b1-142f-4fbf-b80d-ccc5d97db1ca", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 201.15, + 2417.64, + 507.563, + 83.03099999999995 + ], + "priority": 13, + "parents": [ + 134139 + ], + "children": [ + 134134 + ], + "area": 486308.28599999996, + "iscrowd": 0, + "segmentation": [], + "text": "Outcomes & beusfits" + }, + { + "id": 134134, + "strid": "6c6f4f56-2f04-4d8d-a618-0d6048d1130e", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 199.626, + 2520.084, + 1273.829, + 388.3899999999999 + ], + "priority": 14, + "parents": [ + 134125 + ], + "children": [], + "area": 503074.28858399997, + "iscrowd": 0, + "segmentation": [], + "text": "The students were asked to share their thoughts on the school through an essay\ncompetition. The feedback was very postive and the winning entry was from a student\nwho wrote:\n\n‘The summer school radically altered my view of medicine, pathology and my career as a whole.\n| would highly recommend this programme to every undergraduate student who still thinks\ntwice about the importance and wealth of pathology. It is a life-changing experience that opens\nyour eyes to the many opportunities awaiting you!\n\nThe College is planning to expand the pathology summer school in Jordan for 2019\nand provide more volunteering opportunities for enthusiastic teachers." + }, + { + "id": 134135, + "strid": "ae9899f7-4e65-40bb-9598-561dadff2d22", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 221.199, + 2992.766, + 990.7629999999999, + 131.0619999999999 + ], + "priority": 15, + "parents": [ + 134139 + ], + "children": [], + "area": 661996.8464340001, + "iscrowd": 0, + "segmentation": [], + "text": "As volunteers, we were delighted to have contributed to medical education and to\nraising awareness about pathology careers in this international collaboration in North\nAfrica. We benefited by learning about international aspects of undergraduate\nmedical education for students from various cultures." + }, + { + "id": 134138, + "strid": "8b2aa0da-ad5d-44e2-9210-94947efd5ff8", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1060.527, + 72.535, + 1193.0119999999997, + 2927.568 + ], + "priority": 16, + "parents": [ + 134139 + ], + "children": [], + "area": 76925.325945, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134137, + "strid": "372436a4-a756-47da-a632-3c01ca7f46c9", + "image_id": 205703, + "image_name": "15636.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1533.085, + 3031.794, + 636.8450000000003, + 106.0659999999998 + ], + "priority": 17, + "parents": [ + 134139 + ], + "children": [], + "area": 4647997.90449, + "iscrowd": 0, + "segmentation": [], + "text": "Organisers from L-R: Prof. Ismail Matalka (International advisor MENA\nRegion, RCPath), Major General Khaled Amer (Dean for AFCM),\nZuzana Lescisinova (International Education Officer, RCPath),\n\nDr Mona El-Bahrawy (President of the ECPT)." + }, + { + "id": 20033, + "strid": "fdf7baa2-4910-46bd-8648-c57b2b44e742", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 316.03, + 26.46, + 85.52000000000004, + 87.22999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 20038, + 20039, + 20041, + 20034, + 20037, + 20042, + 20035, + 20040, + 20036 + ], + "area": 8362.1538, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20034, + "strid": "3c8a8d4d-3ba4-43a0-80f1-b49b4b51ea0e", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 418.081, + 64.335, + 876.736, + 106.057 + ], + "priority": 1, + "parents": [ + 20033 + ], + "children": [], + "area": 26897.241135, + "iscrowd": 0, + "segmentation": [], + "text": "Growth, reproduction and plant damage of\nCirsium arvense in its native and invasive range" + }, + { + "id": 20035, + "strid": "b7a6bca0-c324-4337-80f0-95c1736ef428", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 716.218, + 215.171, + 569.1719999999999, + 73.06099999999998 + ], + "priority": 2, + "parents": [ + 20033 + ], + "children": [], + "area": 154109.343278, + "iscrowd": 0, + "segmentation": [], + "text": "Presenter: Inés Abela Hofbauerova (Charles\nUniversity, Prague, Czech Republic)" + }, + { + "id": 20039, + "strid": "c73c62df-85e8-4d4c-926e-f7778a100513", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 16.243, + 209.279, + 275.22, + 156.10900000000004 + ], + "priority": 3, + "parents": [ + 20033 + ], + "children": [], + "area": 3399.3187969999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20040, + "strid": "a18f7f6f-b8ef-4042-97cb-f5f7df6ff4e9", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 18.93, + 393.792, + 270.233, + 159.64500000000004 + ], + "priority": 4, + "parents": [ + 20033 + ], + "children": [], + "area": 7454.4825599999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20041, + "strid": "e700ce13-b321-4914-b27d-56b369371164", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 18.099, + 583.37, + 271.064, + 158.81399999999996 + ], + "priority": 5, + "parents": [ + 20033 + ], + "children": [], + "area": 10558.413630000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20042, + "strid": "adde121b-a575-4900-9fea-fa731d67d6bf", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 18.099, + 770.085, + 271.896, + 158.81399999999996 + ], + "priority": 6, + "parents": [ + 20033 + ], + "children": [], + "area": 13937.768415, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20037, + "strid": "6061fdcc-5f8e-4322-996d-f5c1521e8e8d", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 393.334, + 219.885, + 292.24499999999995, + 279.283 + ], + "priority": 7, + "parents": [ + 20033 + ], + "children": [], + "area": 86488.24659, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 20036, + "strid": "296a5dda-472a-4347-8cb0-8e0b5db5ec92", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 712.947, + 329.477, + 467.56499999999994, + 106.05200000000002 + ], + "priority": 8, + "parents": [ + 20033 + ], + "children": [], + "area": 234899.63871899998, + "iscrowd": 0, + "segmentation": [], + "text": "Date: Wednesday 23\" January\nTime: 12.30pm\nVenue: B4" + }, + { + "id": 20038, + "strid": "73c2db3b-7a91-410c-a0f3-70e4e0293f62", + "image_id": 201293, + "image_name": "116882.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 382.729, + 536.877, + 945.0839999999998, + 463.115 + ], + "priority": 9, + "parents": [ + 20033 + ], + "children": [], + "area": 205478.39733299997, + "iscrowd": 0, + "segmentation": [], + "text": "Observational studies in Cirsium arvense were done in Czech Republic (Europe) and Nebraska (USA),\nnative and invasive ranges, between 2005 and 2007, to test whether plants grow more in the invasive\nrange and suffer less damage than plants from populations in the native range, as the Enemy Release\nHypothesis states. To have more accurate results we afterwards experimentally tested (2008-2011) for\ndirect and indirect effects of non-overlapping herbivore insects on plant growth and reproduction. We\ncompared this effect between plants from the native (Spain and the Czech Republic, Europe) and\ninvasive range (Nebraska-and Illinois, North America). In a common garden experiment, herbivore\ninsects were added alone and in combinations to C. arvense which was planted in the Czech Republic in\nMarch 2008 and grew from seeds for two growing seasons. One underground insect (Cleonis pigra )\nand 3 aboveground insect species were used (Cassida rubiginosa, Rhinocyllus conicus, Urophora\ncardui). Results from observational studies indicate that in its native range, C. arvense experiences\nmore plant damage and grows less than in the invasive range. Results from the experimental study also\nshow that plants from the invasive range grew more than the ones from the native range. Plants. to\nwhich herbivores were not added were bigger than plants to which herbivores were added, showing a\nnegative effect of insects on plant growth. The effect of combined insect was bigger than the single\nadditions, suggesting a combination of more insects would be a better solution for biological control of\nC.arvense ." + }, + { + "id": 3064, + "strid": "10f710cf-1c4d-4cdc-b9d8-e5d432199e64", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2200.7, + 105.49, + 229.35000000000036, + 206.42000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 3062, + 3050, + 3063, + 3053, + 3051, + 3052 + ], + "area": 232151.84299999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 3062, + "strid": "5bda22fb-3c8d-4869-91e8-08c51b472f10", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 184.405, + 111.908, + 1599.333, + 205.96999999999997 + ], + "priority": 1, + "parents": [ + 3064 + ], + "children": [], + "area": 20636.39474, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 3052, + "strid": "aff69cab-0130-4032-9c76-414fe7fff4d5", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.557, + 722.816, + 731.354, + 755.952 + ], + "priority": 2, + "parents": [ + 3064 + ], + "children": [], + "area": 75575.47251200001, + "iscrowd": 0, + "segmentation": [], + "text": "Participating organizations:\n\nAristotle University of Thessaloniki (AUTH)\nDemocritus University of Thrace (DUT)\nNational Technical University of Athens (NTUA)\nUniversity of Athens (UoA)\n\nUniversity of Crete (UoC)\n\nUniversity of loannina (Uol)\n\nUniversity of Patras (UoP)\n\nUniversity of Thessaly (UTH)\n\nAthena Research and Innovation Centre (ATHENA)\n\nBiomedical Research Foundation of the Academy of Athens (BRFAA)\nBiomedical Sciences Research Center \"Alexander Fleming\" (FLEMING)\nCentre for Research & Technology Hellas (CERTH)\n\nFoundation for Research and Technology Hellas (FORTH)\n\nHellenic Center for Marine Research (HCMR)\n\nHellenic Pasteur Institute (HPI)\n\nNational Hellenic Research Foundation (NHRF)\n\nGreek Research and Technology Network (GRNET)\nThe Hellenic Society for Computational Biology and Bioinformatics (HSCBB)\nHellenic Bioinformatics (HBIO)" + }, + { + "id": 3053, + "strid": "99c6639c-c564-4d23-a0da-372e5e6d88e0", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 104.494, + 1499.941, + 735.982, + 207.89200000000005 + ], + "priority": 3, + "parents": [ + 3064 + ], + "children": [], + "area": 156734.83485400002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 3051, + "strid": "a362811b-9572-4d31-be0c-02114b7ede91", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 105.588, + 1760.971, + 515.133, + 129.72299999999996 + ], + "priority": 4, + "parents": [ + 3064 + ], + "children": [ + 3057, + 3055, + 3054, + 3056 + ], + "area": 185937.405948, + "iscrowd": 0, + "segmentation": [], + "text": "Node services\n\n(to be supported by a Structural Funds grant)" + }, + { + "id": 3054, + "strid": "46974923-e7db-4e6a-815d-f437b8784328", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.093, + 1912.318, + 740.947, + 156.7099999999998 + ], + "priority": 5, + "parents": [ + 3051 + ], + "children": [], + "area": 199058.917574, + "iscrowd": 0, + "segmentation": [], + "text": "Databases:\n\nBRIDEdb, DGP, FINDbase, LncBase, MESBL GC-MS,\nMjCyc, mirGEN, OMPdb, OpenAlRE, PICKLE,\nTCGA-Prognostic-Model-Collection, NGS-metadata-DB" + }, + { + "id": 3055, + "strid": "9fc04f24-d53d-49c9-8ffb-4546392f2596", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.571, + 2093.307, + 785.68, + 285.43100000000004 + ], + "priority": 6, + "parents": [ + 3051 + ], + "children": [], + "area": 214712.59229699997, + "iscrowd": 0, + "segmentation": [], + "text": "°Tools:\n\nACT, AMYLPRED2, NGStool, CHRONOS, DEsubs,\nGprotPRED, GWA R, LifeWatchGreece/MicroCT vLab,\nMETAGEN, metaseqR, M-IOLITE DIANA-microT,\nDIANA-mictoTSS, DIANA-mirExTra, DIANA-mirPath,\nMagicMatch/Biolayout/CAST/RAGE/MCL,\n\nPCASNPs, Translational molecular analysis platform,\nPOTAMOS, PRED-TMBB, SweeD, SymCurve, VariantRanker" + }, + { + "id": 3056, + "strid": "80af4684-0c56-4017-a78f-e7bbd8c30d91", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.082, + 2399.119, + 812.944, + 348.712 + ], + "priority": 7, + "parents": [ + 3051 + ], + "children": [], + "area": 244906.865758, + "iscrowd": 0, + "segmentation": [], + "text": "Training:\n\n15 courses, among these:\n\nBioinformatics workflow management with Galaxy,\n\nNGS data analysis, Prediction of protein structure and function,\nComputational resources for membrane proteins,\nMeta-analysis of OMICs data,\n\nBiocuration and specialized protein databases,\n\nSystematic exploratory metagenomic analysis with Galaxy,\nComputer aided drug design and pharmacophore elucidation,\nOn line tutorial for ncRNA research" + }, + { + "id": 3057, + "strid": "5f9f6af2-55e0-47b1-ab52-4f0f227881b9", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 105.809, + 2819.791, + 1282.269, + 123.72400000000016 + ], + "priority": 8, + "parents": [ + 3051 + ], + "children": [], + "area": 298359.265919, + "iscrowd": 0, + "segmentation": [], + "text": "*Compute:\n\nComputational resources (1000 cores, 750TB disks, 1PB tape library) will be provided in a 'Green' Datacenter by\nGRNET (national e-Infrastructure providing high-quality international/national networking/computational services)" + }, + { + "id": 3050, + "strid": "71f316c6-7530-4d6d-827e-4f6d03195f71", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 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+ "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.528, + 3337.856, + 1387.565, + 252.56100000000015 + ], + "priority": 11, + "parents": [ + 3050 + ], + "children": [], + "area": 332210.13196800003, + "iscrowd": 0, + "segmentation": [], + "text": "Computational metabolomics & protein interactomics\n\n(coordinator: FORTH)\n\nStandardized repositories of metabolomic data from various biological systems,\n\nStandardized integration of metabolomic with proteomic and transcriptomic data repositories,\nCombined reconstruction and analysis of metabolic and protein interaction networks,\n\nTarget identification and validation via a systems-level multi-layer strategy" + }, + { + "id": 3060, + "strid": "e9083c43-2956-42b7-a1f2-f1e42f073b9e", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.89, + 3608.674, + 1105.161, + 211.43899999999985 + ], + "priority": 12, + "parents": [ + 3050 + ], + "children": [], + "area": 385731.16386, + "iscrowd": 0, + "segmentation": [], + "text": "eNonCodingRNA biomarker identification\n\n(coordinator: UTH)\n\nHigh Throughput Functional Annotation of Epigenetic and Transcriptional Regulators,\nConstruction of molecular signatures,\n\nElucidation of Regulatory Networks in Homeostasis and Malignancy" + }, + { + "id": 3061, + "strid": "283d4a35-0cb8-4a7b-a8da-8e4b873475d0", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.011, + 3842.978, + 1007.847, + 243.80099999999993 + ], + "priority": 13, + "parents": [ + 3050 + ], + "children": [], + "area": 415083.896758, + "iscrowd": 0, + "segmentation": [], + "text": "ePathogen metagenomics\n\n(coordinator: HPI)\n\ninfectious diseases diagnosis support,\n\noutbreak and transmission pattern monitoring,\n\ntargeted vaccine development support,\n\ndetermination of pathogen-specific mechanisms of antimicrobial resistance" + }, + { + "id": 3063, + "strid": "71087fbb-21a4-4bb1-9474-7ba59433ce84", + "image_id": 200626, + "image_name": "10415.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 854.612, + 703.069, + 2434.546, + 3442.998 + ], + "priority": 14, + "parents": [ + 3064 + ], + "children": [], + "area": 600851.2042279999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169515, + "strid": "a7640c92-760a-4fb5-aea6-ca5ff97cc12e", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2193.96, + 18.45, + 104.82999999999993, + 100.06 + ], + "priority": -1, + "parents": [], + "children": [ + 169511, + 169506, + 169507, + 169504, + 169512, + 169514, + 169513, + 169505 + ], + "area": 40478.562, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169504, + "strid": "35f8d987-6060-4794-94b5-d580518486e7", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 49.009, + 46.031, + 2108.812, + 73.10899999999998 + ], + "priority": 1, + "parents": [ + 169515 + ], + "children": [], + "area": 2255.933279, + "iscrowd": 0, + "segmentation": [], + "text": "Simulating the optics of insect eyes using information from microCT" + }, + { + "id": 169505, + "strid": "4aa383f0-ee73-4ca1-95d3-14f8d0937774", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 49.927, + 130.357, + 2257.647, + 152.07199999999997 + ], + "priority": 2, + "parents": [ + 169515 + ], + "children": [], + "area": 6508.333939, + "iscrowd": 0, + "segmentation": [], + "text": "Gavin Taylor:’, Martin Beck“, Andrew Bodey” & Emily Baird’\npyerey-Tataatenay of Biology, Medical Radiation Physics, Lund University, Sweden, ike Diamond Light Source, United Kingdom\n*gavin.taylor@biol.lu.se" + }, + { + "id": 169511, + "strid": "65ca1d76-eef2-4514-adcf-67468e5e07ca", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 88.56, + 337.618, + 347.503, + 266.80400000000003 + ], + "priority": 3, + "parents": [ + 169515 + ], + "children": [ + 169510 + ], + "area": 29899.45008, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169510, + "strid": "6fd460b7-d454-4049-9ed4-6b1daba83a45", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 92.205, + 608.622, + 343.771, + 40.84500000000003 + ], + "priority": 4, + "parents": [ + 169511 + ], + "children": [], + "area": 56117.99150999999, + "iscrowd": 0, + "segmentation": [], + "text": "Euglossa imperialis" + }, + { + "id": 169506, + "strid": "73660591-90ab-47c1-bc05-475e1dccfd72", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 497.628, + 308.78, + 1368.704, + 408.2180000000001 + ], + "priority": 5, + "parents": [ + 169515 + ], + "children": [], + "area": 153657.57383999997, + "iscrowd": 0, + "segmentation": [], + "text": "We are developing methods to characterize the morphology and\noptics of insect eyes. Our initial aim is to characterise\nspecialisations in the simple eyes (ocelli) of tropical bees.\n\nPreparation: dissection, fixation, contrast enhancement (OsO4), dehydration &\nembedding (Epoxy). Scanning: Coherent x-rays (~25 keV) with moderate\nphase enhancement (100 mm PD, 0.32 um voxels). Segmentation: Amira (1.5\ntum voxels). Volume rendering: Drishti." + }, + { + "id": 169514, + "strid": "3a237760-89df-426e-92ee-01ea602806f8", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1879.405, + 311.087, + 388.8610000000001, + 325.9580000000001 + ], + "priority": 6, + "parents": [ + 169515 + ], + "children": [], + "area": 584658.4632349999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169512, + "strid": "594a5763-62cc-4671-a1b9-3c01e3993e66", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 78.253, + 818.093, + 2174.772, + 854.1249999999999 + ], + "priority": 7, + "parents": [ + 169515 + ], + "children": [ + 169508 + ], + "area": 64018.231529, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169508, + "strid": "fa66a427-895a-47e1-a7d6-9854464c6710", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 739.922, + 751.409, + 759.4299999999998, + 75.19100000000003 + ], + "priority": 8, + "parents": [ + 169512 + ], + "children": [], + "area": 555984.050098, + "iscrowd": 0, + "segmentation": [], + "text": "Segmented tomography" + }, + { + "id": 169513, + "strid": "50b17387-389a-4747-a2e2-461c9e623741", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 36.819, + 1794.825, + 2159.032, + 1263.356 + ], + "priority": 9, + "parents": [ + 169515 + ], + "children": [ + 169509 + ], + "area": 66083.66167500001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 169509, + "strid": "d5d59862-56a7-4397-9aac-a04ffb63c74a", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 975.784, + 1738.894, + 363.3660000000001, + 73.39799999999991 + ], + "priority": 10, + "parents": [ + 169513 + ], + "children": [], + "area": 1696784.9428959999, + "iscrowd": 0, + "segmentation": [], + "text": "Ray tracing" + }, + { + "id": 169507, + "strid": "b24a66ee-2eab-4caa-9b67-7341f12dbeea", + "image_id": 207120, + "image_name": "6982.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1073.15, + 2851.745, + 1177.105, + 362.625 + ], + "priority": 11, + "parents": [ + 169515 + ], + "children": [], + "area": 3060350.1467500003, + "iscrowd": 0, + "segmentation": [], + "text": "Ray tracing is performed in Matlab, using the segmented\nregions in voxel format. The local radii of curvature are\ncalculated where rays intersect surfaces. The refractive\nindex of the lens is not measured directly: we determine the\nfocal length and distance using an optical experiments and\nselect a refractive index such that the ray tracer matches\nexperimental results." + }, + { + "id": 170508, + "strid": "190ec380-9d0b-4446-b1c4-dfb83412f595", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 26.44, + 25.75, + -26.44, + -25.75 + ], + "priority": -1, + "parents": [], + "children": [ + 170484, + 170486, + 170483, + 170476, + 170477, + 170478, + 170480, + 170485, + 170479, + 170481, + 170482 + ], + "area": 680.83, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170476, + "strid": "2e514b95-2283-4621-a15d-a92a856a6876", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 227.345, + 44.21, + 358.818, + 28.963 + ], + "priority": 1, + "parents": [ + 170508 + ], + "children": [], + "area": 10050.92245, + "iscrowd": 0, + "segmentation": [], + "text": "Bioinformatics software testing" + }, + { + "id": 170477, + "strid": "e130cf1e-ae15-4246-9252-118200b7f1ca", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 190.621, + 102.777, + 429.375, + 72.948 + ], + "priority": 2, + "parents": [ + 170508 + ], + "children": [], + "area": 19591.454517000002, + "iscrowd": 0, + "segmentation": [], + "text": "Amir Hossein Kamali' Eleni Giannoulatou?* Joshua W. K. Ho?\n5 1-University of Sychey, 2-Victor Chang Cardiac Research Institute,\n\n5 '3-University of New South Wales" + }, + { + "id": 170478, + "strid": "0fb5763f-3e80-4f28-b84d-dd4212af8f75", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 47.524, + 201.417, + 208.076, + 14.863 + ], + "priority": 3, + "parents": [ + 170508 + ], + "children": [ + 170487 + ], + "area": 9572.141508, + "iscrowd": 0, + "segmentation": [], + "text": "Systems biology & genomic medicine" + }, + { + "id": 170487, + "strid": "ed56e6ee-3655-4ebb-9d96-b14833e804ed", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.842, + 224.721, + 223.85500000000002, + 78.029 + ], + "priority": 4, + "parents": [ + 170478 + ], + "children": [], + "area": 8503.892082, + "iscrowd": 0, + "segmentation": [], + "text": "Many computer programs are designed tb hap\necient acclerate her research, expeciay\nbiomedica research My hess foriseson he\nVerlication and aidatonaf eucnprogra. In\nparicular wehave beused cur atenionon DNA\nSequence dignmert progams ar bologeal network\naren" + }, + { + "id": 170479, + "strid": "857360f9-10e7-4d2f-acf3-398adf3793b2", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 314.111, + 199.127, + 187.35900000000004, + 14.193999999999988 + ], + "priority": 5, + "parents": [ + 170508 + ], + "children": [ + 170488 + ], + "area": 62547.981097, + "iscrowd": 0, + "segmentation": [], + "text": "Software testing in bioinformatics" + }, + { + "id": 170488, + "strid": "25c80c5c-95f2-4665-9d27-dde3d7e41fb1", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 288.166, + 217.72, + 242.945, + 163.857 + ], + "priority": 6, + "parents": [ + 170479 + ], + "children": [], + "area": 62739.50152, + "iscrowd": 0, + "segmentation": [], + "text": "New bidnibanaice tools ase being developed in a fest\npace fo gidyzehighthrowpt daa. Trae is thorefowa\nerfeal need valde he comer trea of he algortre\nused, and very tht fhey are beng implemerted nb\nconpubr program corecty. For nsbree it fas been\nshown at fe corcosaree of mutige wide sed\nVariantcaling ppdiresis very bw (280% n SNP cara,\nand <30%% in edd cang). Cansideing thew is oly ore\ngroundnut the high vel of decrapare taubirg, an\nis tllng us hateven to mostpapubr bphformats cos\nto dale can generate resus wi a non-edigtl tase\npostves or flee negatve rab. Thus, we want to have a\nGA mensure to eetmte the avd of fase postive or false\nnegatves prasice by the systam wih each expeimenta" + }, + { + "id": 170480, + "strid": "0d001add-4f56-4254-98b7-41e90e3b195e", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 589.482, + 198.459, + 158.46500000000003, + 13.137 + ], + "priority": 7, + "parents": [ + 170508 + ], + "children": [ + 170489, + 170490 + ], + "area": 116988.008238, + "iscrowd": 0, + "segmentation": [], + "text": "Challenges in bioinformatics" + }, + { + "id": 170489, + "strid": "8fafceb8-e850-4507-ab0b-b691bf5015b0", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 547.939, + 223.75, + 240.99300000000005, + 77.644 + ], + "priority": 8, + "parents": [ + 170480 + ], + "children": [], + "area": 122601.35124999999, + "iscrowd": 0, + "segmentation": [], + "text": "Bioinfomatis Sofware programs are ofien designed 10\nperform heavy computators ona kige amaunt cdi.\nHowever, duoto he lack of“ omclé or goldstandard\nitis often expersie or sometimes manes Bip to very the\ncomactness ofoutut data, Aso many cntrmatane\ndovelop thar avn tak andin most casos fey ae rot\nfamiliar wih sofware engineering practices." + }, + { + "id": 170490, + "strid": "faee3396-7d2d-42f0-9fcb-e01411a1907d", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 547.133, + 312.679, + 242.60500000000002, + 44.329999999999984 + ], + "priority": 9, + "parents": [ + 170480 + ], + "children": [], + "area": 171076.999307, + "iscrowd": 0, + "segmentation": [], + "text": "A recent survey found that drrost 4°: of scientists spend\natleast one fh thir ima daveopmentsfbrare\nnowadays, bt les han SD ofthe sdentets have ag\nunderstanding ofsdware testing." + }, + { + "id": 170481, + "strid": "a3a5f8ec-3365-45eb-b9c3-78f7d385cf9a", + "image_id": 207154, + "image_name": 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"text": "‘After inital mapping, each read is extended by 20 bp to the 3°\nor end ofthe read, wh hgh qualtyscar, based onthe\nIefeence genome sequence We ape the aitutmagpigto" + }, + { + "id": 170506, + "strid": "6e7a2ebe-7f27-44d0-961c-c230c344b61b", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 288.358, + 683.414, + 239.252, + 165.601 + ], + "priority": 20, + "parents": [ + 170483 + ], + "children": [], + "area": 197067.89421199998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170494, + "strid": "f33c7d0f-6a73-4f7d-a4b5-3956c2a2c666", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 290.563, + 849.794, + 238.01099999999997, + 32.301000000000045 + ], + "priority": 21, + "parents": [ + 170483 + ], + "children": [], + "area": 246918.69402199998, + "iscrowd": 0, + "segmentation": [], + "text": "The reads in the FASTO files are reshuffled. The permutation\nthe se for Reads ad Rea ends We expecthe output\neee nthe cate cthennanalestee" + }, + { + "id": 170505, + "strid": "8fb4dfc0-6d3f-482f-9396-77cb1ab28aa4", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 552.313, + 681.127, + 247.029, + 149.59000000000003 + ], + "priority": 22, + "parents": [ + 170483 + ], + "children": [], + "area": 376195.296751, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 170495, + "strid": "0593b535-57d6-45f0-9b14-f622cd85df77", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 552.834, + 844.328, + 219.25599999999997, + 34.41999999999996 + ], + "priority": 23, + "parents": [ + 170483 + ], + "children": [], + "area": 466773.22555199993, + "iscrowd": 0, + "segmentation": [], + "text": "‘The result from our experiment demonstrates the |\nviolationof Mis and some urexpociad behaviors n\ntested programe." + }, + { + "id": 170484, + "strid": "9fc3d0d4-b2b1-4f7f-9d7e-883412708752", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 73.595, + 899.916, + 158.93, + 15.706999999999994 + ], + "priority": 24, + "parents": [ + 170508 + ], + "children": [ + 170496 + ], + "area": 66229.31802, + "iscrowd": 0, + "segmentation": [], + "text": "Metamorphic Relations" + }, + { + "id": 170496, + "strid": "0fc11c61-02d9-495e-bddb-ce7889571958", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.975, + 924.517, + 233.97600000000003, + 112.28500000000008 + ], + "priority": 25, + "parents": [ + 170484 + ], + "children": [], + "area": 34184.01607500001, + "iscrowd": 0, + "segmentation": [], + "text": "We have developed MAS ‘br testing DNA seqerce\nalgnmentprograms'1-Random permutation of reads,\n2Reverse complement of reads, Addition of\nreads, 4Removal of reads, S-Extension of reads, 6-\nUnmapped reads, 7-Mapred reads, 8-Qualty secre\nincrease of reade, SCavection of enor or\nmismatches inthe mapped reads for fie rout reads\nfor sofware algrment software and. apie a\nautomaton techrigus to execula and evaluate the\nrolationahip existence betwenninput and cutput data," + }, + { + "id": 170485, + "strid": "dcef0d37-50fe-4350-a8aa-61664befadfe", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 320.185, + 901.235, + 177.86399999999998, + 15.629999999999995 + ], + "priority": 26, + "parents": [ + 170508 + ], + "children": [ + 170497 + ], + "area": 288561.928475, + "iscrowd": 0, + "segmentation": [], + "text": "Road map / Future works" + }, + { + "id": 170497, + "strid": "00979c60-dd15-4fd9-9243-a71b7bbff23d", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 290.589, + 923.53, + 238.47200000000004, + 113.07199999999989 + ], + "priority": 27, + "parents": [ + 170485 + ], + "children": [], + "area": 268367.65917, + "iscrowd": 0, + "segmentation": [], + "text": "The qually Of 186 ee messured with fe rumber oi\nfauls ard pobiems that they can fd duing the sth\nMutaton Arayss, a Srglo orors jected to re source\ncode ofthe program fosimuate the potent fair nthe\nsofware, The rew version of sofware fs hen caled\nMutant. By apphing our MT strategy to tt a lage\nnumber of mune, wecan avauat tha electienecs dt\nthe tstngstabay In the faire, we wil apy our Bstrg\ntectniquas on mutins fochark how many of tem cast\nbe killedusirg the tecnique." + }, + { + "id": 170486, + "strid": "7ed033c6-a9b9-411b-89c7-c8d67867fab8", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 563.632, + 898.948, + 212.40099999999995, + 16.888000000000034 + ], + "priority": 28, + "parents": [ + 170508 + ], + "children": [ + 170500, + 170499, + 170498, + 170501 + ], + "area": 506675.8591359999, + "iscrowd": 0, + "segmentation": [], + "text": "Citations & Acknowledgements" + }, + { + "id": 170498, + "strid": "c5c650e5-0e6a-4015-9206-81f54f465e04", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 555.073, + 924.535, + 229.789, + 33.30600000000004 + ], + "priority": 29, + "parents": [ + 170486 + ], + "children": [], + "area": 513184.416055, + "iscrowd": 0, + "segmentation": [], + "text": "Kamali “11 Glanroutatou E, Ghen TY, Charleston MA,\nMcEwan AL, Ho JNK (2018) How toes ainbrmatcs\nsoftware? Biophysical Reviews 713), 343352" + }, + { + "id": 170499, + "strid": "8107f74d-e93c-476f-b4ee-ab123bc54e89", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 554.276, + 968.141, + 229.74199999999996, + 45.73900000000003 + ], + "priority": 30, + "parents": [ + 170486 + ], + "children": [], + "area": 536617.3209159999, + "iscrowd": 0, + "segmentation": [], + "text": "Giannouisiou E, Perk SH, Humphreys DT, HOW\n(2014) Verticaion and vaidation fbieefomaics\nsoftware withaut ago sandar: case sudy of A\nand Bowtie. BMC Bionfermates, 15(Supd 16), S15" + }, + { + "id": 170500, + "strid": "a622b714-102c-44dd-95e4-ed660517cbff", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 554.812, + 1023.9, + 233.67500000000007, + 54.763000000000034 + ], + "priority": 31, + "parents": [ + 170486 + ], + "children": [], + "area": 568072.0068, + "iscrowd": 0, + "segmentation": [], + "text": "CrRawe, J., Jiang, TC, Sun, G., Wu, ¥, Wang, W., Hu, J\nBodly,P, Tan... Hokonarson HandJehinson WE\n(2013), Low concordance of mule varantoaling\npipelines: practal implatons i exome ard gonome\newuencirg Genome Modisne 528." + }, + { + "id": 170501, + "strid": "34fe6561-76b4-460d-8c1e-d2f5323319bb", + "image_id": 207154, + "image_name": "7030.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 554.862, + 1086.841, + 226.485, + 43.656999999999925 + ], + "priority": 32, + "parents": [ + 170486 + ], + "children": [], + "area": 603046.7709419999, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported in part by funds from the New\nSouth Was Minsty ol Heath aNow Sou Wises\nGenomics Colltratra Grant anda Mcoeot Aire\nFoceech Amant" + }, + { + "id": 10668, + "strid": "e7b93b29-91e6-44b6-90fc-ede8627462b6", + "image_id": 200929, + "image_name": "11333.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 500.53, + 57.62, + 229.34000000000003, + 206.42000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 10664, + 10663, + 10674, + 10669, + 10662 + ], + "area": 28840.538599999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10662, + "strid": "1e8df708-0c66-437f-b1ec-9bbb88892520", + "image_id": 200929, + "image_name": "11333.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1086.404, + 25.777, + 1131.623, + 80.078 + ], + "priority": 1, + "parents": [ + 10668 + ], + "children": [], + "area": 28004.235908000002, + "iscrowd": 0, + "segmentation": [], + "text": "iCLIK VAL Network View" + }, + { + "id": 10663, + "strid": "0fcc498c-2cae-4ae6-ba3d-76809cdbe148", + "image_id": 200929, + "image_name": "11333.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 873.351, + 108.564, + 1556.826, + 150.52200000000002 + ], + "priority": 2, + "parents": [ + 10668 + ], + "children": [], + "area": 94814.47796399999, + "iscrowd": 0, + "segmentation": [], + "text": "Maxime Hebrard’, Naveen Kumar', Todd D. 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Kost, John C. Magee, David B. Kershaw, Milagros-D. Samaniego-Picota,\nTimothy C. Williams, Daniel Ramon\nUniversity of MichtZan Health System, Bepanieabose halons Ann Arbor, MI, USA\n\nf" + }, + { + "id": 88673, + "strid": "829a4ec6-ba70-4f87-94cf-0e4bd4165bf0", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.278, + 706.303, + 423.529, + 54.56899999999996 + ], + "priority": 3, + "parents": [ + 88716 + ], + "children": [ + 88711, + 88694, + 88680 + ], + "area": 65882.53123400001, + "iscrowd": 0, + "segmentation": [], + "text": "Case_ Description:" + }, + { + "id": 88694, + "strid": "6c235518-5c88-4dff-9c0c-e440374fbb34", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 538.338, + 707.968, + 869.3329999999999, + 61.12900000000002 + ], + "priority": 4, + "parents": [ + 88673 + ], + "children": [], + "area": 381126.07718399994, + "iscrowd": 0, + "segmentation": [], + "text": "We present a case of high nonspecific" + }, + { + "id": 88680, + "strid": "ac0a8527-94ea-4a8d-8fb9-3de494f9df3f", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.808, + 769.076, + 1316.941, + 586.9949999999999 + ], + "priority": 5, + "parents": [ + 88673 + ], + "children": [], + "area": 69838.253408, + "iscrowd": 0, + "segmentation": [], + "text": "reactivity against the AT1 receptor in a nonsensitized, patient\nwith normal graft function following a deceased donor kidney\ntransplant. A two year old male diagnosed with end*stage renal\ndisease secondary to congenital obstructive’ uropathy was\ntransplanted in October 2013 with an ABO_matched, HLA half-\nmatched deceased donor kidney. Prior=to transplant, the\npatient was shown to be 0% PRA by LabScreen Single Antigen\nassay (One Lambda, Inc.), however-a history of nonspecific\npositive flow crossmatches had been present when tested by\nour local OPO." + }, + { + "id": 88711, + "strid": "9e7538db-e4b3-410a-9abe-fab32a9f142a", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 131.052, + 1463.776, + 1207.415, + 713.251 + ], + "priority": 6, + "parents": [ + 88673 + ], + "children": [ + 88696 + ], + "area": 191830.772352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88696, + "strid": "ccb17e50-6352-4f4d-952c-5ef2bfb79dcb", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 138.792, + 2173.143, + 154.643, + 49.88500000000022 + ], + "priority": 7, + "parents": [ + 88711 + ], + "children": [], + "area": 301614.863256, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1" + }, + { + "id": 88677, + "strid": "5729bea3-30af-4ec5-bec2-0575649f2fe6", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 107.79, + 2252.93, + 340.784, + 51.639000000000124 + ], + "priority": 8, + "parents": [ + 88716 + ], + "children": [ + 88682, + 88681, + 88707, + 88710, + 88695 + ], + "area": 242843.3247, + "iscrowd": 0, + "segmentation": [], + "text": "AT1ir Reaction:" + }, + { + "id": 88695, + "strid": "5c507d45-7d9d-4f8a-8a4f-474cda5d8059", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 454.914, + 2257.013, + 53.40499999999997, + 54.590999999999894 + ], + "priority": 9, + "parents": [ + 88677 + ], + "children": [], + "area": 1026746.811882, + "iscrowd": 0, + "segmentation": [], + "text": "AS" + }, + { + "id": 88681, + "strid": "3fc4716b-2fdf-4951-9027-28dcdaf41ab8", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.308, + 2311.569, + 479.4, + 958.7800000000002 + ], + "priority": 10, + "parents": [ + 88677 + ], + "children": [], + "area": 245738.277252, + "iscrowd": 0, + "segmentation": [], + "text": "part of a validation\nstudy for the AT1ir\nassay (One Lambda,\nInc.), the patient’s pre\ntransplant serashowed\nextreme reactivity\nrequiring’atiter of\n1:2048 in order to\nbring-results within a\nrange of readability as\ndefined by a calibrator\ncurve (Figure 1). At this\ndilution an OD = 2,034\nand concentration of\n58.72 U/mL were\nobtained (Negative" + }, + { + "id": 88682, + "strid": "5da68fbb-74f0-4df0-b50a-9fc5420f02c0", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 106.54, + 3270.364, + 1271.498, + 236.99400000000014 + ], + "priority": 11, + "parents": [ + 88677 + ], + "children": [], + "area": 348424.58056000003, + "iscrowd": 0, + "segmentation": [], + "text": "Control OD = 73) (Table.1)..The reaction was suspected to be\nnonspecific for AT1r due.to the absence of sensitizing events in\naddition to normal kidney function maintained with standard\ntriple immunosuppression." + }, + { + "id": 88707, + "strid": "8455374e-bfd9-43d3-be60-de3347fb4abe", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 597.467, + 2229.2, + 769.169, + 984.4769999999999 + ], + "priority": 12, + "parents": [ + 88677 + ], + "children": [ + 88697 + ], + "area": 1331873.4363999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88697, + "strid": "da8d94df-7167-4a09-90d3-5c17128adda9", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 604.335, + 3214.159, + 136.27199999999993, + 38.99800000000005 + ], + "priority": 13, + "parents": [ + 88707 + ], + "children": [], + "area": 1942428.7792650003, + "iscrowd": 0, + "segmentation": [], + "text": "Table" + }, + { + "id": 88710, + "strid": "60bc98f3-6351-48f6-95dd-f46b9c5474d8", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 133.922, + 3559.407, + 1216.845, + 267.14400000000023 + ], + "priority": 14, + "parents": [ + 88677 + ], + "children": [ + 88698 + ], + "area": 476682.904254, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88698, + "strid": "2ed01af8-73c6-436d-be5f-75b1f532bdbf", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 142.531, + 3829.057, + 135.39600000000002, + 34.13500000000022 + ], + "priority": 15, + "parents": [ + 88710 + ], + "children": [], + "area": 545759.323267, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 88678, + "strid": "8162ebda-8c3f-4bbd-86c9-723ff84d1f19", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 104.311, + 3890.642, + 457.99, + 52.52500000000009 + ], + "priority": 16, + "parents": [ + 88716 + ], + "children": [ + 88686, + 88679 + ], + "area": 405836.757662, + "iscrowd": 0, + "segmentation": [], + "text": "Untreated Surface:" + }, + { + "id": 88686, + "strid": "c2cd9bdf-c4e4-43ef-87b6-69ef9d97164e", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 582.471, + 3893.174, + 795.9200000000001, + 56.79100000000017 + ], + "priority": 17, + "parents": [ + 88678 + ], + "children": [], + "area": 2267660.952954, + "iscrowd": 0, + "segmentation": [], + "text": "As part of an investigation into the" + }, + { + "id": 88679, + "strid": "31bfb627-80d3-4dc9-be3e-204f94508081", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.564, + 3949.914, + 1281.666, + 414.7959999999998 + ], + "priority": 18, + "parents": [ + 88678 + ], + "children": [], + "area": 389319.32349599997, + "iscrowd": 0, + "segmentation": [], + "text": "source of the highly affinitive crossreactivity, the patient’s sera\nwas incubated in an untreated Nune, MaxiSorp ELISA plate in\norder to rule out reactions to~polystyrene. An OD = 106\n(Negative Control OD = 45) (Table 2) was read, falling below\nthe range of readability as(designated by the calibration curve,\nquickly ruling this out\\as the cause of the nonspecific\nreactivity." + }, + { + "id": 88712, + "strid": "1cdfe0fe-0592-4b89-8460-ce00775eb0c2", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1620.3, + 872.095, + 366.7070000000001, + 305.10000000000014 + ], + "priority": 19, + "parents": [ + 88716 + ], + "children": [ + 88705 + ], + "area": 1413055.5285, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88705, + "strid": "dbb4d6bd-893f-4c12-8549-3f186130971e", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1641.328, + 729.608, + 252.09699999999998, + 129.82799999999997 + ], + "priority": 20, + "parents": [ + 88712 + ], + "children": [], + "area": 1197526.0394239998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: One\nLambda Inc.\nATir Plate" + }, + { + "id": 88713, + "strid": "aa49c73d-a45e-4fb4-9df9-94e069cd0c13", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1912.198, + 728.346, + 366.7070000000001, + 306.567 + ], + "priority": 21, + "parents": [ + 88716 + ], + "children": [ + 88703 + ], + "area": 1392741.764508, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88703, + "strid": "30f5c849-b20c-4f41-8d0b-995b7997bb06", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1998.231, + 1049.427, + 165.37900000000013, + 182.894 + ], + "priority": 22, + "parents": [ + 88713 + ], + "children": [], + "area": 2096997.5636369998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3:\nCasein\nBlocking\nAgent" + }, + { + "id": 88714, + "strid": "7562a362-1668-4059-90b0-7f8a3748b1cd", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2273.876, + 876.915, + 361.46799999999985, + 300.70000000000005 + ], + "priority": 23, + "parents": [ + 88716 + ], + "children": [ + 88702 + ], + "area": 1993995.97254, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88702, + "strid": "a70ce99c-61ab-4cbc-8750-02c127178cdb", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2290.472, + 737.509, + 258.97299999999996, + 136.38699999999994 + ], + "priority": 24, + "parents": [ + 88714 + ], + "children": [], + "area": 1689243.7142480002, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: BSA\nBlocking\nAgent" + }, + { + "id": 88715, + "strid": "6232fdb8-57b1-4a43-a90c-2502f300f476", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2572.66, + 731.187, + 357.645, + 301.00699999999995 + ], + "priority": 25, + "parents": [ + 88716 + ], + "children": [ + 88704 + ], + "area": 1881095.54742, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88704, + "strid": "15c00d13-7c64-4aaa-a8f5-bd8b2ab83b9d", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2629.863, + 1048.061, + 284.11500000000024, + 135.894 + ], + "priority": 26, + "parents": [ + 88715 + ], + "children": [], + "area": 2756256.8456429997, + "iscrowd": 0, + "segmentation": [], + "text": "| Figure 5:\nHuman Sera\nBlocking/Agent" + }, + { + "id": 88670, + "strid": "8bf14637-c736-4976-a313-ce385109243c", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1617.601, + 1402.126, + 575.8849999999998, + 54.531999999999925 + ], + "priority": 27, + "parents": [ + 88716 + ], + "children": [ + 88708, + 88684, + 88693 + ], + "area": 2268080.419726, + "iscrowd": 0, + "segmentation": [], + "text": "Casein Blocking Agent:" + }, + { + "id": 88693, + "strid": "bfb5caa5-516e-406a-880c-81d6e144f258", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2220.331, + 1402.996, + 702.7240000000002, + 64.04999999999995 + ], + "priority": 28, + "parents": [ + 88670 + ], + "children": [], + "area": 3115115.5116760004, + "iscrowd": 0, + "segmentation": [], + "text": "Without knowing the definitive" + }, + { + "id": 88684, + "strid": "aeece4e7-09d9-4bfa-8b19-15ae72af254a", + "image_id": 203944, + "image_name": "121210.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1617.623, + 1467.029, + 1305.455, + 830.547 + ], + "priority": 29, + "parents": [ + 88670 + ], + "children": [], + "area": 2373099.852067, + "iscrowd": 0, + "segmentation": [], + "text": "composition of One Lambda’s ATir plates (Figure 2), it was\nthought the common blocking agent’casein should be tested to\ngauge reactivity. Sera introduced into a MaxiSorp plate blocked\nwith 0.5% casein in PBS (Figure 3) reacted at OD = 3,617\n(Negative Control OD = 43). Serial dilutions of the patient’s pre\ntransplant sera were also.incubated in the casein blocked plate.\nThere appeared to be no clear pattern of linear regression and\nmost results remained above the range of readability as defined\nby the calibrator curve in U/mL. At the most concentrated\ndilution factor10mEq/24h. hNa patients had higher mean MELD scores than other patients (able 1: 27\nvs 20, p<0.0001), a higher prevalence of renal failure (p=0.01), and higher mean preoperative serum creatinine\n(n=258; 1.4 versus 1.1mg/dL, p=0.006). 38 (70%) hNa patients experienced a ANa>10mEq/24h (p<0.0001).\n\nThe incidence of infections was strongly associated with MELD, renal failure, preoperative and peak\ncreatinine at 48h and with ANa >6mEq/24h.\n\nInfections were also associated with increased hospital (HR 0.24 (0.17, 0.33)), intensive care unit LOS (HR\n0.29 (0.21 0.4)), and with mortality (HR 3.23 (1.99, 5.24)) all at p<0.0001.\n\nBoth hNa and ANa were associated with UTI (Zable 2: p=0.01, p=0.02), pneumonia (p=0.03, p=0.003), and\nwith Enterococcus (p=0.001, p=0.02). In logistic regression (Zable 3:), the crude odd ratios (OR) for the\nassociations of infections with hNa and ANa were statistically significant, but the adjusted ORs were not -\nalthough the association of infection with MELD was statistically significant. Model 2 includes both Na<130\nand ANa>10 without an interaction term; neither these nor the interaction p value in Table 3a is significantly\nassociated with infection, although the interaction effect size estimate of 0.77 is noteworthy. The Relative\nExcess Risk due to Interaction using the values in Figure I further suggests that there is positive interaction\non an additive and multiplicative scale.\n\nModel 3 controls for diabetes and age: This suggests that the true effect sizes are higher, and that neither\ndiabetes nor age contribute to infections.\n\nModel 4 adjusts for AKI estimates by 48h. These were calculated from the raw Creatinine values listed in\nTable 1." + }, + { + "id": 5793, + "strid": "b4a09158-9858-4e91-82c8-55e7fc60cea4", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.603, + 2068.912, + 1036.743, + 55.422000000000025 + ], + "priority": 9, + "parents": [ + 5786 + ], + "children": [], + "area": 119175.537936, + "iscrowd": 0, + "segmentation": [], + "text": "Table 4: ANa=2 when adjusted for dialysis becomes significant. Adjusting for AKI at 48h when ANa=8&\nbecomes more significant" + }, + { + "id": 5787, + "strid": "9cb15147-c67b-461b-a7f2-f87043bd92b1", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2931.562, + 331.177, + 140.16600000000017, + 34.47800000000001 + ], + "priority": 10, + "parents": [ + 5807 + ], + "children": [ + 5800, + 5801, + 5804, + 5802, + 5799, + 5803 + ], + "area": 970865.908474, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 5799, + "strid": "8229959a-d36c-4f43-a71d-ea433927aa72", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1297.013, + 550.015, + 1070.018, + 833.985 + ], + "priority": 11, + "parents": [ + 5787 + ], + "children": [ + 5794 + ], + "area": 713376.605195, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5794, + "strid": "dac7b10b-6a84-415b-95a5-f7d200d45d75", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1303.17, + 451.29, + 1048.411, + 76.15799999999996 + ], + "priority": 12, + "parents": [ + 5799 + ], + "children": [], + "area": 588107.5893000001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1, 1096:\nDistribution of demographic, intraoperative and AKI related variables across categories of min Na pre- day of\ntransplantation and ANa of 10mEq/24h to max Na on day 1" + }, + { + "id": 5800, + "strid": "3c80af05-0d30-4ab4-ad23-8c1d388dc7cc", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1296.982, + 1634.005, + 1045.031, + 569.9920000000002 + ], + "priority": 13, + "parents": [ + 5787 + ], + "children": [ + 5795 + ], + "area": 2119275.07291, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5795, + "strid": "1ab5fc01-9969-462d-adc9-85e76b461647", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1303.217, + 1547.014, + 913.56, + 75.83200000000011 + ], + "priority": 14, + "parents": [ + 5800 + ], + "children": [], + "area": 2016094.944038, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2, 1096:\nComparison of Infectious outcomes across preoperative hyponatremia <130mEq/DL, and ANa >\n10mEq/L/24h" + }, + { + "id": 5804, + "strid": "0529c014-1491-4ac9-8f3e-2bee4de3293f", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2450.501, + 433.524, + 973.509, + 1021.7479999999999 + ], + "priority": 15, + "parents": [ + 5787 + ], + "children": [], + "area": 1062350.9955240001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5802, + "strid": "f4502c8c-14d0-4d2f-9693-368827fc7c71", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2388.037, + 1542.621, + 1098.6460000000002, + 478.6869999999999 + ], + "priority": 16, + "parents": [ + 5787 + ], + "children": [ + 5796 + ], + "area": 3683836.024977, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5796, + "strid": "061ba526-341e-4cf1-95a0-1fd93cfc2a6b", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2398.436, + 1492.638, + 851.1959999999999, + 48.54899999999998 + ], + "priority": 17, + "parents": [ + 5802 + ], + "children": [], + "area": 3579996.714168, + "iscrowd": 0, + "segmentation": [], + "text": "Table 3, 1096:\nInfection with organism of interest: ORs (CI 95%) in Univariate and Multivariate models" + }, + { + "id": 5801, + "strid": "515fb9e3-4628-49f6-b57f-356beaa6a372", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2388.991, + 2168.008, + 638.0259999999998, + 201.9920000000002 + ], + "priority": 18, + "parents": [ + 5787 + ], + "children": [ + 5797 + ], + "area": 5179351.599927999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5797, + "strid": "9f43773f-1b23-4a59-b77f-baf7a74beb21", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2395.48, + 2110.646, + 573.038, + 38.48000000000002 + ], + "priority": 19, + "parents": [ + 5801 + ], + "children": [], + "area": 5056010.280080001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 3a, 1096:\nAnalysis of Maximum Likelihood Estimates between ANa>10 and preop Na<130" + }, + { + "id": 5803, + "strid": "5a445700-f24f-486a-9e15-85ab1125647b", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3569.011, + 566.023, + 1182.0120000000002, + 495.977 + ], + "priority": 20, + "parents": [ + 5787 + ], + "children": [ + 5798 + ], + "area": 2020142.3132530001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5798, + "strid": "81296adc-7945-4948-ad6c-269e4b1fe2be", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3578.508, + 466.947, + 1066.1660000000002, + 73.51800000000003 + ], + "priority": 21, + "parents": [ + 5803 + ], + "children": [], + "area": 1670973.5750759998, + "iscrowd": 0, + "segmentation": [], + "text": "Table 4, 1096:\nInfection with organism of interest: ORs (95%CTI) in Comparison of severity of ANa, controlling for Dialysis as a\ncovariate, or %A Creatinine levels" + }, + { + "id": 5788, + "strid": "54b7c793-3308-49ca-af84-2d2d571cd0eb", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3614.395, + 1411.733, + 230.40200000000004, + 34.94900000000007 + ], + "priority": 22, + "parents": [ + 5807 + ], + "children": [ + 5805 + ], + "area": 5102560.696535, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 5805, + "strid": "afa77732-0cf2-4f6b-93a9-121aae8534eb", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3647.556, + 1514.166, + 1023.4959999999996, + 323.5640000000001 + ], + "priority": 23, + "parents": [ + 5788 + ], + "children": [], + "area": 5523005.278295999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 5789, + "strid": "f2ef15a9-c138-4183-a51c-5b67d9308da0", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3608.538, + 1987.938, + 371.817, + 43.909000000000106 + ], + "priority": 24, + "parents": [ + 5807 + ], + "children": [ + 5806 + ], + "area": 7173549.8146440005, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 5806, + "strid": "5e82ba88-fe67-47bb-bc62-299d206bd851", + "image_id": 200735, + "image_name": "10746.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3632.357, + 2090.262, + 1132.862, + 209.14300000000003 + ], + "priority": 25, + "parents": [ + 5789 + ], + "children": [], + "area": 7592577.807534001, + "iscrowd": 0, + "segmentation": [], + "text": "Funding provided in part by NIH, ROINRO10822\n\nJianfang Liu and Elaine Larson for sharing their infectious disease dataset and invaluable guidance. Jianfang Liu\nfor her highly imaginative and original approach with SAS code in merging the databases.\n\nGebhard Wagener for sharing the Anesthesia dataset, and guidance.\nKim Love for Statistical guidance\nChris Reich for assistance in preparing posters." + }, + { + "id": 184167, + "strid": "b43c6908-25ec-479c-8cac-797a977a5926", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 557.2, + 337.49, + 285.24, + 203.74 + ], + "priority": -1, + "parents": [], + "children": [ + 184125, + 184145, + 184142, + 184143, + 184126, + 184141, + 184140, + 184123, + 184144, + 184121, + 184122, + 184127, + 184124, + 184120 + ], + "area": 188049.428, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184120, + "strid": "b243acc3-1b20-4a2e-a900-d1084c0f74f4", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 519.531, + 159.65, + 2531.219, + 75.619 + ], + "priority": 1, + "parents": [ + 184167 + ], + "children": [], + "area": 82943.12414999999, + "iscrowd": 0, + "segmentation": [], + "text": "Molecular cloning and production of type III Hsp40 protein co-chaperone Pf{ZRF1 of" + }, + { + "id": 184121, + "strid": "afe9c496-6152-4c6c-a1d7-a87427218733", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 952.56, + 241.155, + 1708.83, + 270.87300000000005 + ], + "priority": 2, + "parents": [ + 184167 + ], + "children": [], + "area": 229714.60679999998, + "iscrowd": 0, + "segmentation": [], + "text": "human malaria parasite Plasmodium falciparum\nPriyanka Chahar, Sarvajeet Singh Gill and Ritu Gill*\nCentre for Biotechnology, MD University, Rohtak — 124001, Haryana, India\n*F-mail. ritu. gill@hotmail.com" + }, + { + "id": 184122, + "strid": "f7bde6c0-cdd2-4a4e-a322-0cbdf6010598", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1658.721, + 604.596, + 283.9079999999999, + 47.98299999999995 + ], + "priority": 3, + "parents": [ + 184167 + ], + "children": [ + 184150, + 184151, + 184149 + ], + "area": 1002856.081716, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 184149, + "strid": "2a2ea87b-e77e-490b-8266-ec22646731e0", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 164.446, + 733.446, + 1029.472, + 715.368 + ], + "priority": 4, + "parents": [ + 184122 + ], + "children": [], + "area": 120612.260916, + "iscrowd": 0, + "segmentation": [], + "text": "Background\n\nDespite of remarkable progress in combating malaria,\nthis deadly disease still accounts for more than a half\nmillion deaths annually. In the light of growing inci-\ndences of drug resistance, an understanding of parasite\nbiology is necessary for the development of new antima-\nlarials. During life cycle in two different hosts Plasmo-\ndium falciparum experiences frequent thermal variations\nand physiological stress. Heat shock proteins (Hsps) are\nkey players for its survival and making them attractive\ndrug targets. Hence, present research emphasizes on in\nsilico analysis, cloning and production of a type II\nHsp40 protein, P/ZRF 1." + }, + { + "id": 184150, + "strid": "2244f7cf-bea4-4ab7-bd68-ffcf5ed43be7", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1295.461, + 731.194, + 827.6980000000001, + 760.617 + ], + "priority": 5, + "parents": [ + 184122 + ], + "children": [], + "area": 947233.310434, + "iscrowd": 0, + "segmentation": [], + "text": "Methods & Materials\n\nOrthologs of PfZRF1 were assigned by\nBLASTp and literature search. Domain archi-\ntecture was drawn by SMART and Pfam.\nClustalW and T-coffee were employed for\nmultiple sequence alignment analysis. Phy-\nlogenetic tree was generated by NJ method\nusing Phylip-3.695 for evolutionary relation-\nship analysis. P{ZRF1 and its domain con-\nstructs were amplified and cloned in\npETM11 vector between Neol, Xhol and\nKpn1 restriction sites. Histagged P/ZRF1 and\nother domain constructs were expressed in E.\ncoli B834." + }, + { + "id": 184151, + "strid": "30f88925-1896-4df1-af2b-b93791ce5bc6", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2268.75, + 711.387, + 1124.308, + 815.3990000000001 + ], + "priority": 6, + "parents": [ + 184122 + ], + "children": [], + "area": 1613959.2562499999, + "iscrowd": 0, + "segmentation": [], + "text": "Results\n\nPfZRF1 orthologs were identified in 31 eukaryotes however\nfound to be absent in prokaryotes. Pf{ZRF1 is composed of a\nHsp70-binding DnaJ domain and two DNA-binding SANT\ndomains. An ubiquitinated histone H2A binding UBD domain\nwas also identified based on human ortholog HsZRF1. As\ncompared to HsZRF1, DnaJ domain has a 50 aas long parasite\nspecific insertion in loop region between helix II and II near\nHsp70-binding HPD motif. Additionally, ribosome associating\nRAC _ head domain was found less conserved with many in-\nsertions in P/ZRF1. Phylogenetic analysis depicted P/ZRF1 to\nbe closer to unicellular eukaryotes. Full ORF (2820 bp) and\nseveral constructs covering different domains were amplified\nand cloned in pETM11. Different constructs were expressed\nafter inducing with 0.5 mM IPTG at 16°C in E. coli B834\ncells for soluble expression." + }, + { + "id": 184123, + "strid": "1aa97b86-50b2-4b27-aece-3f7aa22dee94", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 593.184, + 1749.074, + 230.904, + 45.335000000000036 + ], + "priority": 7, + "parents": [ + 184167 + ], + "children": [], + "area": 1037522.711616, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 184140, + "strid": "47c3e12d-3028-46c5-ac93-902f51b358c7", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 383.865, + 1895.33, + 560.36, + 41.50299999999993 + ], + "priority": 8, + "parents": [ + 184167 + ], + "children": [ + 184152 + ], + "area": 727550.85045, + "iscrowd": 0, + "segmentation": [], + "text": "Domain architecture analysis" + }, + { + "id": 184152, + "strid": "2e212c50-5faf-470f-a26c-e898471ca218", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 282.005, + 2004.159, + 760.772, + 561.6030000000001 + ], + "priority": 9, + "parents": [ + 184140 + ], + "children": [ + 184146 + ], + "area": 565182.858795, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184146, + "strid": "e330d8d7-44c5-4411-8ff0-ed37a8c5b8a6", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 379.439, + 2605.259, + 611.117, + 24.95699999999988 + ], + "priority": 10, + "parents": [ + 184152 + ], + "children": [], + "area": 988536.869701, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.1. Domain architecture of PfZRF1 and its homologs." + }, + { + "id": 184141, + "strid": "181a9782-4858-4312-bf36-2ff9970fc68b", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 387.393, + 2781.89, + 553.3499999999999, + 43.86499999999978 + ], + "priority": 11, + "parents": [ + 184167 + ], + "children": [ + 184158 + ], + "area": 1077684.7127699999, + "iscrowd": 0, + "segmentation": [], + "text": "Sequence alignment analysis" + }, + { + "id": 184158, + "strid": "f920da9b-4f21-4c49-b2f4-98724bdfc136", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 201.31, + 2876.917, + 894.1590000000001, + 688.7779999999998 + ], + "priority": 12, + "parents": [ + 184141 + ], + "children": [ + 184139 + ], + "area": 579152.16127, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184139, + "strid": "f60d9152-0dd2-4009-8543-b0ad3c491b41", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 272.02, + 3591.614, + 742.719, + 61.47600000000011 + ], + "priority": 13, + "parents": [ + 184158 + ], + "children": [], + "area": 976990.8402799999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.2. Multiple sequence alignment analysis of P/ZRF1 and HsZRF1.\n\nDotted lines represents insertions /deletions." + }, + { + "id": 184143, + "strid": "28a7bb0c-da96-48c9-b793-64c6fb195c70", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 449.871, + 3832.218, + 414.087, + 41.878000000000156 + ], + "priority": 14, + "parents": [ + 184167 + ], + "children": [ + 184164, + 184165 + ], + "area": 1724003.743878, + "iscrowd": 0, + "segmentation": [], + "text": "Phylogenetic analysis" + }, + { + "id": 184165, + "strid": "31148803-8536-4540-83c5-744f6e2a8213", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 417.832, + 3906.86, + 507.43500000000006, + 461.0419999999999 + ], + "priority": 15, + "parents": [ + 184143 + ], + "children": [ + 184147 + ], + "area": 1632411.12752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184147, + "strid": "c6e559b4-934b-4d84-8044-de71b42f9c39", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 190.289, + 4385.006, + 922.5519999999999, + 62.988000000000284 + ], + "priority": 16, + "parents": [ + 184165 + ], + "children": [], + "area": 834418.406734, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.3. Un-rooted phylogenetic tree (NJ method) depicting evolutionary relationship\nof P{ZRF1 and its orthologs." + }, + { + "id": 184164, + "strid": "9c421e8f-22b1-4d3b-bad8-8d745dd4090e", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 251.548, + 4495.16, + 804.4640000000002, + 136.86200000000008 + ], + "priority": 17, + "parents": [ + 184143 + ], + "children": [ + 184148 + ], + "area": 1130748.50768, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184148, + "strid": "61fb581f-4021-40f1-9fd0-a1fbfdda353e", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 366.573, + 4661.834, + 566.083, + 24.962999999999738 + ], + "priority": 18, + "parents": [ + 184164 + ], + "children": [], + "area": 1708902.474882, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.4. Antigenicity index (Jameson-Wolf) of PfZRF1." + }, + { + "id": 184124, + "strid": "967f0450-b671-45a5-b955-94062973f06d", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1594.545, + 1754.624, + 432.45399999999995, + 44.57099999999991 + ], + "priority": 19, + "parents": [ + 184167 + ], + "children": [ + 184153, + 184156 + ], + "area": 2797826.92608, + "iscrowd": 0, + "segmentation": [], + "text": "Constructs for cloning" + }, + { + "id": 184153, + "strid": "74d8a1cd-0696-4f5c-9863-7aed0c61b283", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1417.53, + 1842.368, + 791.9059999999997, + 344.7930000000001 + ], + "priority": 20, + "parents": [ + 184124 + ], + "children": [ + 184131 + ], + "area": 2611611.9110399997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184131, + "strid": "d3dfd9ce-47eb-40eb-ac5c-e8566debe72b", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1449.75, + 2215.26, + 734.5479999999998, + 24.646000000000186 + ], + "priority": 21, + "parents": [ + 184153 + ], + "children": [], + "area": 3211573.1850000005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.5. Various construct boundaries of PfZRF1 selected for cloning." + }, + { + "id": 184156, + "strid": "e1da98e7-b2a0-41fa-b831-985888b3759c", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1609.896, + 2259.706, + 387.4359999999999, + 324.1399999999999 + ], + "priority": 22, + "parents": [ + 184124 + ], + "children": [ + 184130 + ], + "area": 3637891.650576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184130, + "strid": "bffcab75-c2fd-4396-add6-a6633e6f15fa", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1462.69, + 2605.78, + 717.4459999999999, + 25.820999999999913 + ], + "priority": 23, + "parents": [ + 184156 + ], + "children": [], + "area": 3811448.3482000004, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.6. Schematic diagram of constructed plasmid vector pETM11." + }, + { + "id": 184127, + "strid": "191ddc00-c4b6-45e5-8ca2-b8300775b34b", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1439.08, + 2797.789, + 754.2539999999999, + 40.73799999999983 + ], + "priority": 24, + "parents": [ + 184167 + ], + "children": [ + 184166, + 184159 + ], + "area": 4026242.19412, + "iscrowd": 0, + "segmentation": [], + "text": "Amplification of various PfZRF1 inserts" + }, + { + "id": 184166, + "strid": "3f620776-bbd3-4835-882a-7023e98918da", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1384.562, + 2908.817, + 860.2559999999999, + 176.90999999999985 + ], + "priority": 25, + "parents": [ + 184127 + ], + "children": [ + 184132 + ], + "area": 4027437.483154, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184132, + "strid": "8c932cf8-f271-4b30-a473-5c9430f5ec2a", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1538.326, + 2872.699, + 533.3379999999997, + 27.074999999999818 + ], + "priority": 26, + "parents": [ + 184166 + ], + "children": [], + "area": 4419147.561874, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. List of primers for PCR amplification" + }, + { + "id": 184159, + "strid": "b70aebc8-6606-4b92-bd1e-362b99edaa67", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1554.293, + 3121.675, + 506.9889999999998, + 486.14400000000023 + ], + "priority": 27, + "parents": [ + 184127 + ], + "children": [ + 184137 + ], + "area": 4851997.600775, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184137, + "strid": "25088a59-4827-4ee7-963a-b02a6ecaca8c", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1532.422, + 3634.496, + 560.3029999999999, + 27.125 + ], + "priority": 28, + "parents": [ + 184159 + ], + "children": [], + "area": 5569581.629312, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.7. PCR amplification of various PfZRF1 inserts." + }, + { + "id": 184142, + "strid": "e3f9ca26-9fc4-4265-9d7e-2b6e83217f79", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1475.619, + 3835.435, + 720.7349999999999, + 41.9369999999999 + ], + "priority": 29, + "parents": [ + 184167 + ], + "children": [ + 184163, + 184162 + ], + "area": 5659640.759265, + "iscrowd": 0, + "segmentation": [], + "text": "Colony PCR and Expression screening" + }, + { + "id": 184162, + "strid": "8ef178ff-1d6d-4eeb-bc3c-b5e64160249f", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1438.058, + 3944.099, + 755.5010000000002, + 207.7460000000001 + ], + "priority": 30, + "parents": [ + 184142 + ], + "children": [ + 184136 + ], + "area": 5671843.1197420005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184136, + "strid": "4c5293ef-f375-4851-ab7d-3e49887e6fa0", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1670.028, + 4180.793, + 321.27600000000007, + 25.064000000000306 + ], + "priority": 31, + "parents": [ + 184162 + ], + "children": [], + "area": 6982041.372203999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.8. Colony PCR screening." + }, + { + "id": 184163, + "strid": "f7e06f00-2746-400e-b49a-14d7cbbe58ec", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1497.437, + 4252.797, + 618.7309999999998, + 350.5150000000003 + ], + "priority": 32, + "parents": [ + 184142 + ], + "children": [ + 184138 + ], + "area": 6368295.581288999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184138, + "strid": "a00689fd-8537-40d7-a37f-3710f7da3578", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1410.893, + 4642.614, + 813.6280000000002, + 63.501000000000204 + ], + "priority": 33, + "parents": [ + 184163 + ], + "children": [], + "area": 6550231.594302, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.9. Expression of PfZRF1 and its constructs. Lane M, Molecular marker;\n\nU, uninduced E. colilysate; I, induced E. coli lysate." + }, + { + "id": 184125, + "strid": "11ebe44d-635b-4fbe-9ab2-16f873e2eb32", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2801.851, + 1754.204, + 355.80999999999995, + 40.74199999999996 + ], + "priority": 34, + "parents": [ + 184167 + ], + "children": [ + 184154, + 184155 + ], + "area": 4915018.231604, + "iscrowd": 0, + "segmentation": [], + "text": "Soluble expression" + }, + { + "id": 184154, + "strid": "0caf31d0-6657-4c37-aa26-465d1e9a04cf", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2756.811, + 1846.643, + 422.5630000000001, + 252.3380000000002 + ], + "priority": 35, + "parents": [ + 184125 + ], + "children": [ + 184128 + ], + "area": 5090845.735473, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184128, + "strid": "21704496-3362-42e2-8455-5803141a8c82", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2472.121, + 2130.569, + 947.3670000000002, + 98.9409999999998 + ], + "priority": 36, + "parents": [ + 184154 + ], + "children": [], + "area": 5267024.366849001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.10. SDS-PAGE analysis of UBD domain in E. coli B834 cells induced with 0.5mM\nIPTG at 16°C, at O.D. ~0.7. Lane M, molecular marker; U, uninduced cell lysate; I, in-\n\nduced cell lysate; SS, sonicated soup; SP, sonicated pellet." + }, + { + "id": 184155, + "strid": "77f445f3-cbb1-4ba7-9a14-8570726f2445", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2567.242, + 2249.463, + 750.0450000000001, + 287.50199999999995 + ], + "priority": 37, + "parents": [ + 184125 + ], + "children": [ + 184129 + ], + "area": 5774915.891046001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184129, + "strid": "a3b81985-90f9-48ed-b502-ff8e3cebc714", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2466.092, + 2570.024, + 971.3629999999998, + 59.085999999999785 + ], + "priority": 38, + "parents": [ + 184155 + ], + "children": [], + "area": 6337915.626208, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.11. Soluble expression of DnaJ (A) and SANT (B) domain in E. coli B834 cells induced with\n0.5mM IPTG at 16°C, at O.D. ~1.2. C) Western blot of SANT domain with anti-His antibodies." + }, + { + "id": 184126, + "strid": "a2068172-e8c7-4956-89e0-ffba03c789b7", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2501.129, + 2785.095, + 912.8540000000003, + 40.73100000000022 + ], + "priority": 39, + "parents": [ + 184167 + ], + "children": [ + 184160, + 184161, + 184157 + ], + "area": 6965881.872254999, + "iscrowd": 0, + "segmentation": [], + "text": "Soluble expression and purification of UBDOPfN" + }, + { + "id": 184157, + "strid": "74723e0b-292a-4008-88eb-71356928e4fd", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2831.452, + 2901.647, + 354.98, + 339.29399999999987 + ], + "priority": 40, + "parents": [ + 184126 + ], + "children": [ + 184133 + ], + "area": 8215874.201444, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184133, + "strid": "564426a2-51fa-459c-a7c3-a0fdd5f33c40", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2477.96, + 3274.868, + 954.9499999999998, + 59.15000000000009 + ], + "priority": 41, + "parents": [ + 184157 + ], + "children": [], + "area": 8114991.90928, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.12. SDS-PAGE analysis of UBDOPfN expression in E. coli B834 cells induced with\n0.5mM IPTG at 16°C, at O.D. ~0.7." + }, + { + "id": 184160, + "strid": "a8b19526-02ef-4793-aa75-02d5250fbb2a", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2523.564, + 3409.968, + 878.9569999999999, + 240.0340000000001 + ], + "priority": 42, + "parents": [ + 184126 + ], + "children": [ + 184134 + ], + "area": 8605272.485952, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184134, + "strid": "afb4d193-525f-4551-888e-b2b65ee10a49", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2471.786, + 3693.266, + 955.444, + 97.16100000000006 + ], + "priority": 43, + "parents": [ + 184160 + ], + "children": [], + "area": 9128963.193076, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.13. Purification of UBDOPfN by Ni-NTA chromatography. Lanes: 1, Cell lysate; 2,\nFlow through; 3, 10mM imidazole; 4, 40 mM imidazole; 5, 60mM imidazole, 6 & 7, 80mM\nimidazole, 8 & 9, 100mM imidazole; E1 to E9, 300mM imidazole." + }, + { + "id": 184161, + "strid": "1187cdb5-c1a4-496c-be25-6bb094a1d1d0", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2879.793, + 3857.789, + 235.90200000000004, + 347.5890000000004 + ], + "priority": 44, + "parents": [ + 184126 + ], + "children": [ + 184135 + ], + "area": 11109633.757677002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 184135, + "strid": "c895c54b-7d1c-4e84-883b-8a7bf735f9d1", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2616.443, + 4242.52, + 637.9169999999999, + 27.162999999999556 + ], + "priority": 45, + "parents": [ + 184161 + ], + "children": [], + "area": 11100311.756360002, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.14. Western blot of UBDOPfN with anti-His antibodies." + }, + { + "id": 184145, + "strid": "a162fa11-80e7-42d4-a78f-46f4263afb33", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.689, + 4834.916, + 3345.229, + 152.44800000000032 + ], + "priority": 46, + "parents": [ + 184167 + ], + "children": [], + "area": 607695.757124, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion\nThis study presents preliminary characterization of a type III Hsp40 co-chaperone of the parasite. Further functional characterization of this putative multifunctional chaperone would\nundoubtedly provide an insight in parasite molecular biology for the development of novel antimalarials." + }, + { + "id": 184144, + "strid": "233b219d-3505-45e0-a9b2-9e77f3d0e494", + "image_id": 207685, + "image_name": "8596.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2401.832, + 4534.72, + 1098.632, + 189.82399999999961 + ], + "priority": 47, + "parents": [ + 184167 + ], + "children": [], + "area": 10891635.60704, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgement\nThis work is supported by DST, Government of India and\nUniversity Research Fellowship (URS) from MD University,\nRohtak." + }, + { + "id": 102895, + "strid": "fe4cbe7a-d6fe-420f-87cc-68aade0db72d", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 37.91, + 375.59, + 143.76, + 224.63000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 102879, + 102881, + 102878, + 102883, + 102880, + 102882 + ], + "area": 14238.616899999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102878, + "strid": "1af35eb3-4bec-4cdb-ad26-92607f2d83d0", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 463.361, + 127.694, + 2615.831, + 159.82299999999998 + ], + "priority": 1, + "parents": [ + 102895 + ], + "children": [], + "area": 59168.419534, + "iscrowd": 0, + "segmentation": [], + "text": "FACTORS-PREDICTING SUBCLINICAL:ATHEROMATOSIS PROGRESSION\nIN CHRONIC KIDNEY DISEASE. THE NEFRONA STUDY." + }, + { + "id": 102879, + "strid": "8c30cc41-6f53-41a1-83c4-3346433b637c", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 243.186, + 401.927, + 2755.275, + 232.02200000000005 + ], + "priority": 2, + "parents": [ + 102895 + ], + "children": [], + "area": 97743.01942200001, + "iscrowd": 0, + "segmentation": [], + "text": "M. Gracia’, M. Martinez-Alonso, A. Betriu’’, D. Arroyo, M. Abajo’, J.M.Valdivielso’, E. Fernandez':~°\nand NEFRONA study investigators .\n\nNephrology, IRBLleida’. Nephrology Unit, University Hospital Arnau de Vilanova?. UDETMA?." + }, + { + "id": 102880, + "strid": "836f38f4-1413-44ba-a30d-7dd6d3ce2fc4", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 133.033, + 720.382, + 521.076, + 60.99699999999996 + ], + "priority": 3, + "parents": [ + 102895 + ], + "children": [ + 102885 + ], + "area": 95834.57860599998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 102885, + "strid": "2d51de1b-447a-443b-9f94-6c44b2fa08af", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.28, + 923.564, + 1552.02, + 352.88800000000003 + ], + "priority": 4, + "parents": [ + 102880 + ], + "children": [], + "area": 128633.99392, + "iscrowd": 0, + "segmentation": [], + "text": "Subclinical atheromatous disease (AD) is a noninvasive marker\nof arterial injury that predicts incident cardiovascular events in both\nthe general population and among patients with chronic kidney\ndisease (CKD). However, data on risk factors for progression of AD in\nCKD are scarce. The aim of the study is to evaluate predictors of\nchanges in AD in a cohort of chronic kidney disease patients." + }, + { + "id": 102881, + "strid": "293cefdc-5dfc-46ef-9b3c-2457fd5ac9ac", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1851.347, + 721.449, + 353.1870000000001, + 57.78200000000004 + ], + "priority": 5, + "parents": [ + 102895 + ], + "children": [ + 102886 + ], + "area": 1335652.441803, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 102886, + "strid": "74a8cd5b-5e10-484a-8951-d183e3179d51", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1847.329, + 922.268, + 1549.3860000000002, + 529.1669999999999 + ], + "priority": 6, + "parents": [ + 102881 + ], + "children": [], + "area": 1703732.422172, + "iscrowd": 0, + "segmentation": [], + "text": "Multicenter, prospective and observational study of 1553 CKD\npatients (709 stage 3, 578 stages 4-5 and 266 on dialysis) without\nprevious cardiovascular events from the NEFRONA cohort. A carotid\nand femoral ultrasound examination was performed at baseline and\n24 months follow-up. A unique reader performed the evaluation of the\nimages. Progression of AD was defined as formation of plaques in\npreviously vascular healthy territories. CKD progression was defined\nas doubling of serum creatinine or the onset of dialysis. The statistical\nlevel of significance was fixed to 0.05." + }, + { + "id": 102882, + "strid": "26cdec04-ddd5-4a9b-ba47-c4ae39647c8d", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1595.032, + 1669.388, + 322.09400000000005, + 56.559999999999945 + ], + "priority": 7, + "parents": [ + 102895 + ], + "children": [ + 102894, + 102893, + 102887, + 102892, + 102891 + ], + "area": 2662727.2804159997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 102887, + "strid": "3c087d82-f6a2-4dbb-be9c-5d0ebab0e6c3", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.867, + 1846.512, + 3221.087, + 355.3280000000002 + ], + "priority": 8, + "parents": [ + 102882 + ], + "children": [], + "area": 287810.285904, + "iscrowd": 0, + "segmentation": [], + "text": "26.9% were diabetics and 33.4% were former or habitual smokers. Prevalence of atheromatous plaque at baseline was 69 % and progression\nof AD occurred in 60% patients after 24 months without differences between CKD Stage. A higher rate of plaque progression occurred in patients\nwith plaque at baseline and/or CKD progression (Figure 1). Variables significantly and positively predicting AD progression in multivariate\nregression analysis are shown in Figure 2. Predictors of AD progression varied in the different CKD Stages and in patients with or without plaque\n\nat baseline. Thus, in early stages of CKD factors were similar to those described in the general population, whereas in late stages specific factors\nappear (Table 1)." + }, + { + "id": 102893, + "strid": "237327b4-6e6a-452f-aa8e-218eb4a66d4a", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 401.213, + 2626.514, + 821.837, + 453.2350000000001 + ], + "priority": 9, + "parents": [ + 102882 + ], + "children": [ + 102888 + ], + "area": 1053791.5614820002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102888, + "strid": "781a062d-3a89-4dba-b8ff-8266749d6a38", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 153.498, + 2454.087, + 1374.969, + 111.40000000000009 + ], + "priority": 10, + "parents": [ + 102893 + ], + "children": [], + "area": 376697.446326, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Progression of plaque after 24 months stratified by\nplaque at baseline & CKD progression." + }, + { + "id": 102894, + "strid": "2ec458d8-5665-4ec8-b67b-8c3c5ce6228f", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 204.263, + 3510.165, + 1316.965, + 709.2259999999997 + ], + "priority": 11, + "parents": [ + 102882 + ], + "children": [ + 102889 + ], + "area": 716996.833395, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102889, + "strid": "9f96513d-c1b8-4f7b-aa50-8ab30e213128", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 197.805, + 3369.163, + 1341.774, + 107.55099999999993 + ], + "priority": 12, + "parents": [ + 102894 + ], + "children": [], + "area": 666437.287215, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Predictors of plaque progression after 24 months in a\nmultivariate logistic regression analysis." + }, + { + "id": 102892, + "strid": "1acc0ca0-68f1-45f7-9eab-ee4c000fa97e", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1921.544, + 2645.461, + 1441.155, + 1157.708 + ], + "priority": 13, + "parents": [ + 102882 + ], + "children": [ + 102890 + ], + "area": 5083369.711784, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102890, + "strid": "b439360b-4e1a-473d-bb38-321bcf372149", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1918.565, + 2454.876, + 1435.8070000000002, + 108.2199999999998 + ], + "priority": 14, + "parents": [ + 102892 + ], + "children": [], + "area": 4709839.172940001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 Multivariate jogistic regression to model plaque\nprogression at 24 months stratified by CKD stage 3, 4-5 and 5D" + }, + { + "id": 102891, + "strid": "69a5316a-8b31-47c6-a08c-234261933fc9", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1920.732, + 3861.953, + 1434.292, + 281.81399999999985 + ], + "priority": 15, + "parents": [ + 102882 + ], + "children": [], + "area": 7417776.709596, + "iscrowd": 0, + "segmentation": [], + "text": "Resulis are expressed as B Coefficient and S.E. (Standard error). The following variables were introduced to build\nmultivariate models by CKD stages because they were significant on bivariate testing or potential confounders: sex, CKD\nstage, age (decades), diabetes, smoking, dyslipidemia, SBP? (highest tertile>150 mmHg in CK stage 3 and > 156 mmHg\nin CKD stage 4-5), Pulse pressure, BMI, basal plaque, cIMT, ferritin, uric acid, CRP, Total cholesterol> 180 mg/dL° (the\nlevel of 180 was selected based in clinical criteria), LDL-cholesterol, hematocrit, statins, antiplatelet drugs, triglycerides,\n25-OH-vitamin D (Vitamin D highest tertile in CKD Stage 3 = 18.1, in CKD Stage 5D 2 11.5) , Phosphorous? (P highest\ntertile in CKD stage 3 = 3.6 mg/dL), PTH. Finally, only significant variabies in multivariate analysis in each group of CKD\nwere included in the final model. CKD stage 3. Hosmer Lemeshow= 0.64, AUC= 0.706. CKD stage 4-5. Hosmer\nLemeshow= 0.18 AUC= 0.75. CKD stage 5D. Hosmer Lemeshow=0.18, AUC=0.814." + }, + { + "id": 102883, + "strid": "678f3c92-8169-42dc-876b-0e70bbe7fc1c", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1517.52, + 4498.75, + 524.2170000000001, + 60.4409999999998 + ], + "priority": 16, + "parents": [ + 102895 + ], + "children": [ + 102884 + ], + "area": 6826943.1, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 102884, + "strid": "a9118d4d-d411-4dcb-98cf-d7621446da05", + "image_id": 204471, + "image_name": "122181.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.55, + 4673.836, + 3248.046, + 112.86099999999988 + ], + "priority": 17, + "parents": [ + 102883 + ], + "children": [], + "area": 652233.8138000001, + "iscrowd": 0, + "segmentation": [], + "text": "ln CKD (Stage 3, 4-5 & 5D), atheromatous disease progression after 24 months is notorius. Presence of plaque at baseline and ESRD are two\nfactors highly predicting AD progression. Ultrasound monitoring may be a useful tool in cardiovascular risk assessment in CKD patients." + }, + { + "id": 93343, + "strid": "94afcad2-ca38-4c86-995f-6afa0e411244", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 144.56, + 44.04, + 163.82, + 120.14000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 93325, + 93324, + 93332, + 93341, + 93342, + 93333, + 93334 + ], + "area": 6366.4224, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 93324, + "strid": "a048bac2-6bef-46e5-9db4-fbe01e5d2955", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 94.054, + 186.026, + 3220.698, + 253.721 + ], + "priority": 1, + "parents": [ + 93343 + ], + "children": [], + "area": 17496.489404, + "iscrowd": 0, + "segmentation": [], + "text": "Opioid and dopamine neurotransmission in chronic pain and health\nare diametrically opposed: A pharmaco-f{MRI pilot study" + }, + { + "id": 93325, + "strid": "9b055f28-11a9-4d1c-ad75-6db4addf0cf2", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 110.186, + 482.368, + 3277.058, + 172.26500000000004 + ], + "priority": 2, + "parents": [ + 93343 + ], + "children": [], + "area": 53150.200448, + "iscrowd": 0, + "segmentation": [], + "text": "J.H.Bourke!, G.Lyons*, T.Wodehouse?, E.Constantinou!, M.Antoniades!, J.Howard’, R.M. Langford’, P.D.White!, E.A.Rabiner?, M.B.Wall?\n\n'Centre for Psychiatry, Wolfson Institute for Preventive Medicine, Barts and The London School of Medicine and Dentistry, QMUL; *Imanova Centre for Imaging Sciences, Hammersmith Hospital, Imperial College, London; *Pain\nand Anaesthetic Research Centre, William Harvey Insititute, Barts and The London School of Medicine and Dentistry, QMUL" + }, + { + "id": 93334, + "strid": "18ea3fa3-8a8e-42b2-a009-5cee7c11743c", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 51.847, + 709.425, + 323.596, + 53.73400000000004 + ], + "priority": 3, + "parents": [ + 93343 + ], + "children": [ + 93330, + 93337, + 93329, + 93326 + ], + "area": 36781.557974999996, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 93326, + "strid": "790334ec-ea25-4ad5-9844-bac4d615660f", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.576, + 774.938, + 1546.767, + 132.65600000000006 + ], + "priority": 4, + "parents": [ + 93334 + ], + "children": [], + "area": 41518.078288, + "iscrowd": 0, + "segmentation": [], + "text": "Two major challenges exist to pharmacological development in\nchronic pain:" + }, + { + "id": 93330, + "strid": "89890cc5-6fec-4a67-99fc-fd94475b67b7", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 42.964, + 939.431, + 1644.933, + 371.4359999999999 + ], + "priority": 5, + "parents": [ + 93334 + ], + "children": [], + "area": 40361.713484, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 93329, + "strid": "5944afb6-a72c-4657-bef5-f49292ffac00", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.657, + 1337.398, + 1668.811, + 668.586 + ], + "priority": 6, + "parents": [ + 93334 + ], + "children": [], + "area": 50362.39648599999, + "iscrowd": 0, + "segmentation": [], + "text": "Central sensitisation (CS) may contribute to chronicity(4), is\ndetectable on quantitative sensory tests (QST), has been detected\nin FSS(4) and proposed as a model that includes affective and\ncognitive dimensions of pain(4). Associating CS with potentially\nreversible(2,5) adaptations in reward/motivation neural circuits may\nassist in the search for pharmacological targets. We investigated\nthis using phMRI in two FSS: Fibromyalgia and chronic fatigue\nsyndrome (CFS). We hypothesised that D2 and mu-opioid\nantagonism would result in increased activation to pain in healthy\ncontrols but decreased activation in FSS demonstrating CS." + }, + { + "id": 93337, + "strid": "c1fe7ba5-cd8b-4fd1-ba7a-902b10eab4ec", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 78.457, + 2012.176, + 1363.0990000000002, + 711.7739999999999 + ], + "priority": 7, + "parents": [ + 93334 + ], + "children": [ + 93338 + ], + "area": 157869.292432, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 93338, + "strid": "e9ae7c0f-0751-4bf0-bf88-0d226eeeb0a9", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 93.569, + 2727.758, + 1357.51, + 150.33300000000008 + ], + "priority": 8, + "parents": [ + 93337 + ], + "children": [], + "area": 255233.588302, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Group mean pain-related brain activation (top row) and derived\nregions of interest (bottom row) — Somatosensory cortex, ventral striatum,\ninsula, anterior cingulate, inferior frontal gyrus" + }, + { + "id": 93333, + "strid": "7a256f60-1206-41ef-95b0-cb2c9d641b1f", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1742.604, + 710.601, + 230.54600000000005, + 51.601999999999975 + ], + "priority": 9, + "parents": [ + 93343 + ], + "children": [ + 93327 + ], + "area": 1238296.145004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 93327, + "strid": "f666b5fc-ed9a-4c08-b36f-38e4d9097a4e", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1735.653, + 769.631, + 1716.5670000000002, + 947.1629999999999 + ], + "priority": 10, + "parents": [ + 93333 + ], + "children": [], + "area": 1335812.354043, + "iscrowd": 0, + "segmentation": [], + "text": "Seven controls without CS and five FSS patients with CS (2\nfibromyalgia; 3 CFS) were recruited. All participants were assessed\nby QST for CS and for psychophysical variables that affect the pain\nresponse(6-10). Exclusions included other causes of chronic pain,\nOpiates and centrally analgesics, axis | psychiatric diagnoses and\nsubstance abuse (assessed with the SCID(11)). BOLD response was\nmeasured during fMRI scans paired to oral placebo, amisulpride (AM\n- 400mg) and naltrexone (NT - 50mg), separated by one week. All\nfirst scans were with placebo. Thresholds to thumbnail pressure-pain\nwere assessed for each scan with a method that minimises\nhabituation within and between scans(14). A cognitive task battery\nwas used to control for neurovascular decoupling. Three pain runs\nwere delivered with randomised stimuli of up to 5-seconds, with a 15-\n25 second interstimulus interval." + }, + { + "id": 93332, + "strid": "b641ca52-3394-4196-91a7-2669a6292811", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1736.807, + 1743.902, + 209.95100000000002, + 57.322000000000116 + ], + "priority": 11, + "parents": [ + 93343 + ], + "children": [ + 93328, + 93335, + 93331 + ], + "area": 3028821.200914, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 93328, + "strid": "c065fc8f-198f-4f85-af8d-d1790c18b1b6", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1733.0, + 1814.96, + 1652.8919999999998, + 461.6419999999998 + ], + "priority": 12, + "parents": [ + 93332 + ], + "children": [], + "area": 3145325.68, + "iscrowd": 0, + "segmentation": [], + "text": "sex ratios (F:M) were 2:1 In controls (mean age 36) and cases\n(mean age 39) . Data was available for 12 placebo, 10 amisulpride\nand 11 naltrexone scans. Five regions of interest (ROIS) were\nidentified (Figure 1). No neurovascular decoupling was evident.\nBOLD response to pain was greater in cases than controls for all\nROls. BOLD response to pain under both drug conditions was as\nfollows (Figure 2):" + }, + { + "id": 93331, + "strid": "ac41195f-3893-454f-824c-00e139084b92", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1738.306, + 2308.439, + 1659.6370000000002, + 495.4659999999999 + ], + "priority": 13, + "parents": [ + 93332 + ], + "children": [], + "area": 4012773.364334, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 93335, + "strid": "525240a2-4ac6-4a46-b9bb-7d8a769234f7", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 29.922, + 2900.338, + 3406.089, + 517.634 + ], + "priority": 14, + "parents": [ + 93332 + ], + "children": [ + 93336 + ], + "area": 86783.91363600001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 93336, + "strid": "d95f6c95-590e-4691-9efb-22afc006b343", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 79.898, + 3436.018, + 3298.221, + 145.32600000000002 + ], + "priority": 15, + "parents": [ + 93335 + ], + "children": [], + "area": 274530.966164, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Comparisons between placebo and drug conditions for painful stimuli in regions of interest. A four-way mixed model ANOVA showed significance for pain stimulus\n(F[4,40]=28.64, p<0.001), brain region by drug condition (F[8,80]=2.40, p=0.022), brain region by pain stimulus and drug condition (F[8,80]=2.19, p=0.037) and brain region by pain\nstimulus, drug condition and group (F[8,80]=4.14, p<0.001). Abbreviations: AM - amisulpride; NT - naltrexone" + }, + { + "id": 93341, + "strid": "111b8ee6-9641-4bc8-966e-0bf07eed92fb", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 62.719, + 3640.069, + 302.027, + 59.4409999999998 + ], + "priority": 16, + "parents": [ + 93343 + ], + "children": [ + 93339 + ], + "area": 228301.487611, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 93339, + "strid": "9d5d255d-9dab-4501-95f5-8b5ce9cebcc4", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.365, + 3707.103, + 3333.555, + 328.672 + ], + "priority": 17, + "parents": [ + 93341 + ], + "children": [], + "area": 223779.27259500002, + "iscrowd": 0, + "segmentation": [], + "text": "The treatment of CP and FSS is suboptimal. This data suggests an oppositional relationship in the response of two neurotransmitters to\nacute pain in CS as compared to in health. This may be an effect of CP or a potential contribution to the chronification of pain, reflecting\na vulnerability to CS and FSS. CS may explain symptoms other than pain in FSS (4) and these pharmacological targets may represent\n\na route to more successful treatment. In detecting CS, QST may represent a means assessment and directing management, such as in\nthe identification of patients who would not benefit from opiate analgesia." + }, + { + "id": 93342, + "strid": "d86a8723-2dc8-4988-a63e-effd9bdec129", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 62.719, + 4077.044, + 338.977, + 59.4409999999998 + ], + "priority": 18, + "parents": [ + 93343 + ], + "children": [ + 93340 + ], + "area": 255708.122636, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 93340, + "strid": "54d2a265-7c30-4586-a235-d11d3881733e", + "image_id": 204118, + "image_name": "121476.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.07, + 4140.694, + 3316.155, + 196.3680000000004 + ], + "priority": 19, + "parents": [ + 93342 + ], + "children": [], + "area": 257012.87658000004, + "iscrowd": 0, + "segmentation": [], + "text": "These preliminary data are the first to demonstrate that dopaminergic and opioidergic responses to pain in CS disorders are\ndiametrically opposed to those in health. Clinically, these results support the avoidance of opiates whilst demonstrating the potential for\nmu-opioid and D2-antagonism as pharmacological targets in CS disorders." + }, + { + "id": 153034, + "strid": "6769168b-a657-4aec-9803-f03ad3b40ca7", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 225.94, + 12.83, + 141.70999999999998, + 16.29 + ], + "priority": -1, + "parents": [], + "children": [ + 153011, + 153016, + 153017, + 153015, + 153014, + 153013, + 153012 + ], + "area": 2898.8102, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153011, + "strid": "70250925-f4fa-4bd5-b55a-76f23bb44b74", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 259.185, + 39.683, + 1105.991, + 36.74399999999999 + ], + "priority": 1, + "parents": [ + 153034 + ], + "children": [], + "area": 10285.238355, + "iscrowd": 0, + "segmentation": [], + "text": "Machine learning models in genome wide association studies of complex traits" + }, + { + "id": 153012, + "strid": "4b3cae56-ac48-44e1-bda5-f3a272225aab", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 253.06, + 88.675, + 1141.51, + 109.00700000000002 + ], + "priority": 2, + "parents": [ + 153034 + ], + "children": [], + "area": 22440.0955, + "iscrowd": 0, + "segmentation": [], + "text": "D. Dagnogo?, M. Treccani?, E. Locatellit, M. Gallinaro+, E. D. Tomi, L. Veschetti*, C. Patuzzo1 N. D. Dago? and G. Malerba?\n\n1, Department of Neurosciences, Biomedicine and Movement Sciences, University of Verona, Italy.\n2. Unité de Formation et de Recherche (UFR) des Sciences Biologiques, Département de Biochimie Génétique, Univers\n\n \n\né Peleforo Gon Coulibaly, Korhogo, Ivory Coast." + }, + { + "id": 153013, + "strid": "3b610b6c-c3fd-4e40-b793-754f95dc3625", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 748.235, + 303.008, + 156.159, + 16.033999999999992 + ], + "priority": 3, + "parents": [ + 153034 + ], + "children": [ + 153018 + ], + "area": 226721.19087999998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 153018, + "strid": "15b7b8a0-1aeb-4197-b4f6-046d6f2babfb", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 23.145, + 347.974, + 1602.322, + 79.214 + ], + "priority": 4, + "parents": [ + 153013 + ], + "children": [], + "area": 8053.85823, + "iscrowd": 0, + "segmentation": [], + "text": "Machine Learning (ML) applied to health sciences is one of the domains which mostly interested researchers in the last decade. Genome-wide association studies investigate the individual association of many genetic loci (several hundred\nthousand) with complex traits. Thus, ML may find a possible application in these studies to unravel multi-locus genetic patterns associated with the trait variability. Here, we applied some ML approaches on simulated data to assess the\nability of pattern recognition algorithms (Machine learning models ) to accurately select relevant features (SNPs) underlining the aetiopathogenesis of the disorder and (2) how the presence of a huge number of noisy features impacts on the\nselection performance of truly associated signals." + }, + { + "id": 153014, + "strid": "4c84e347-14fd-4f07-8c07-a204a5d57355", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 696.984, + 443.521, + 257.196, + 16.466999999999985 + ], + "priority": 5, + "parents": [ + 153034 + ], + "children": [ + 153026, + 153025 + ], + "area": 309127.04066400003, + "iscrowd": 0, + "segmentation": [], + "text": "MATERIAL AND METHODS" + }, + { + "id": 153026, + "strid": "425e7d97-879c-4495-8dd1-1ec13e797b0a", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 23.715, + 467.264, + 1256.36, + 121.59100000000001 + ], + "priority": 6, + "parents": [ + 153014 + ], + "children": [], + "area": 11081.16576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153025, + "strid": "68000324-4f24-4cc1-b9b4-fcc7d775d30c", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1310.775, + 472.063, + 295.77099999999996, + 109.26599999999996 + ], + "priority": 7, + "parents": [ + 153014 + ], + "children": [], + "area": 618768.378825, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153015, + "strid": "36db509f-1a70-48b4-b1a9-e8d3a2c01aff", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 781.278, + 593.291, + 88.60699999999997, + 16.466999999999985 + ], + "priority": 8, + "parents": [ + 153034 + ], + "children": [ + 153027, + 153032, + 153033, + 153029, + 153028, + 153030 + ], + "area": 463525.20589800004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 153028, + "strid": "d39e7ae4-121f-4843-9883-2a4884791800", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 21.191, + 612.597, + 372.124, + 255.933 + ], + "priority": 9, + "parents": [ + 153015 + ], + "children": [ + 153022 + ], + "area": 12981.543027, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153022, + "strid": "05022a72-064d-4e84-9421-fd339f18ecae", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 393.425, + 640.598, + 166.74399999999997, + 38.559999999999945 + ], + "priority": 10, + "parents": [ + 153028 + ], + "children": [], + "area": 252027.26815, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Manhattan plot\nof association study" + }, + { + "id": 153027, + "strid": "bf5caec6-40a5-459c-8317-5089579a100a", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 22.512, + 869.827, + 510.079, + 126.38 + ], + "priority": 11, + "parents": [ + 153015 + ], + "children": [ + 153023 + ], + "area": 19581.545424, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153023, + "strid": "fe5460d8-656b-4656-a54d-ee1dff7e0951", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 399.157, + 840.691, + 163.618, + 31.786000000000058 + ], + "priority": 12, + "parents": [ + 153027 + ], + "children": [], + "area": 335567.69748699997, + "iscrowd": 0, + "segmentation": [], + "text": "Table |. models evaluation\necores" + }, + { + "id": 153029, + "strid": "80f4094e-d52c-4313-80c3-dbf53aa88a27", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 580.173, + 611.77, + 246.284, + 344.755 + ], + "priority": 13, + "parents": [ + 153015 + ], + "children": [ + 153021 + ], + "area": 354932.43621, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153021, + "strid": "bf1a44f1-776d-41dc-bd13-810394c301db", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 624.039, + 966.637, + 412.30600000000004, + 35.51700000000005 + ], + "priority": 14, + "parents": [ + 153029 + ], + "children": [], + "area": 603219.186843, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Contribution of SNPs on the models prediction. a. pv=\n0.01; a. pv= 0.01; a. pv= 0.01." + }, + { + "id": 153033, + "strid": "7094fd13-9ccd-4836-9686-76a1f63520f8", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 849.162, + 611.394, + 271.75299999999993, + 166.72000000000003 + ], + "priority": 15, + "parents": [ + 153015 + ], + "children": [ + 153024 + ], + "area": 519172.55182800005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153024, + "strid": "e82b70c6-bcf8-4945-b53d-be41ebe064a2", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 954.415, + 788.236, + 176.3510000000001, + 17.28099999999995 + ], + "priority": 16, + "parents": [ + 153033 + ], + "children": [], + "area": 752304.26194, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. SNPs interactions" + }, + { + "id": 153032, + "strid": "fe037d4b-bcb8-439b-8b60-56ba7295c25b", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 827.215, + 801.421, + 244.0970000000001, + 153.41899999999998 + ], + "priority": 17, + "parents": [ + 153015 + ], + "children": [], + "area": 662947.472515, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153030, + "strid": "482013ae-0eb8-4158-bdb6-062732ce2e7c", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1190.088, + 613.514, + 446.24599999999987, + 362.2710000000001 + ], + "priority": 18, + "parents": [ + 153015 + ], + "children": [ + 153020 + ], + "area": 730135.649232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 153020, + "strid": "0a4a9337-0868-4dc9-aa15-33162c3d3924", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1214.534, + 976.869, + 395.08899999999994, + 18.30499999999995 + ], + "priority": 19, + "parents": [ + 153030 + ], + "children": [], + "area": 1186440.6140460002, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Partial dependance plots of most contributor SNPs" + }, + { + "id": 153016, + "strid": "3f733f4f-453a-48ce-b422-8e8073dee143", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 359.154, + 1004.795, + 132.628, + 15.783999999999992 + ], + "priority": 20, + "parents": [ + 153034 + ], + "children": [ + 153019 + ], + "area": 360876.14343, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 153019, + "strid": "83c39e0f-de39-4f14-aaeb-18ac159c5c16", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 23.267, + 1029.344, + 802.28, + 91.83199999999988 + ], + "priority": 21, + "parents": [ + 153016 + ], + "children": [], + "area": 23949.746848, + "iscrowd": 0, + "segmentation": [], + "text": "All the 2 boosting classifiers showed a good accuracy score (range: 83-85%) for all the datasets. RF performed less with an\naccuracy of 73-80% . The risk-SNPs (higher contribution) were always selected by all the classifiers and this was true\nindependently from the number of no associated SNPs included into the study (15*925, 36°689, 52916 SNPs).\n\nIn future work, we will simulate and investigate different genetic configurations (lower Odd ratio, several causal SNPs) to study in\nmore details how suitable ML models could be used for genomic purpose." + }, + { + "id": 153017, + "strid": "f9e7d3a6-a8dc-46ce-89a9-630a29623d12", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1184.832, + 1006.312, + 131.42399999999998, + 16.55200000000002 + ], + "priority": 22, + "parents": [ + 153034 + ], + "children": [ + 153031 + ], + "area": 1192310.659584, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 153031, + "strid": "b2e90dcf-c1ac-4caf-b46c-70a18baa84af", + "image_id": 206459, + "image_name": "21483.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 867.636, + 1035.396, + 738.3980000000001, + 91.82199999999989 + ], + "priority": 23, + "parents": [ + 153017 + ], + "children": [], + "area": 898346.8438559999, + "iscrowd": 0, + "segmentation": [], + "text": "1. Meyer, HV & Birney E (2018). PhenotypeSimulator: A comprehensive framework for simulating multi-trait, multi-locus genotype to phenotype\n\nrelationships, Bioinformatics, 34(17):2951-2956.\n2. hung RH. Tsai WY, Hsich CH, Hung KY, Hsiung CA, Hauser ER. 2014, SegSIMLA2: Simulating Correlated Quantitative Traits Accounting for Shared\n\nEnvironmental Effects in User-Speciied Pedigree Structure. Genetic Epidemiology. 39(1):20-4\n3. Anna Veronika Dorogush, Andrey Gulin, Gleb Gusev. Nikita Kazcev, Liudmila Ostroumova Prokhorenkova, Aleksandr Vorobey “Fighting bases with dynamic\nboosting”. arXiv:1706.09516," + }, + { + "id": 88319, + "strid": "d6ce7220-851b-441c-b0d7-2e0dd1ed9f6f", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 53.25, + 63.09, + 186.28, + 209.55999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 88312, + 88290, + 88291, + 88296, + 88293, + 88295, + 88289, + 88294, + 88292, + 88297 + ], + "area": 3359.5425, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88289, + "strid": "59adf428-e4f7-4b90-9382-f525efd0a58e", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 478.1, + 111.509, + 2431.479, + 183.067 + ], + "priority": 1, + "parents": [ + 88319 + ], + "children": [], + "area": 53312.452900000004, + "iscrowd": 0, + "segmentation": [], + "text": "META-CASH : a tool to identify;domains and functional-annotation\nof metatranscriptomic sequences" + }, + { + "id": 88290, + "strid": "92cbace4-3a64-43b5-95bd-ce5fd8180ffd", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 679.241, + 346.797, + 2057.302, + 274.06999999999994 + ], + "priority": 2, + "parents": [ + 88319 + ], + "children": [], + "area": 235558.741077, + "iscrowd": 0, + "segmentation": [], + "text": "Ari Ugarte '78, Juliana-Bernardes '7° and Alessandra‘Carbone ‘294\n\n1 Université Pierre et Marie Curie, UMR‘7238, Equipe de Génomique Analytique, 15 rue de lEcolede Médecine, 75006 Paris, France\n2 CNRS, UMR 7238 (Laboratoire de Biologie Computationnelle et Quantitative, Paris 75006, France\n3 Sorbonne Universités, UPMC Univ Paris 06, ICS, F-75005, Paris, France\n4 Institut Universitaire de France, Paris 75005.-France" + }, + { + "id": 88291, + "strid": "151fef14-1927-4ea6-962c-cb453d5b6637", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 666.292, + 653.725, + 391.4219999999999, + 49.164999999999964 + ], + "priority": 3, + "parents": [ + 88319 + ], + "children": [ + 88298 + ], + "area": 435571.73770000006, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 88298, + "strid": "387551d4-3583-4b09-9ae6-53233149aef2", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 98.693, + 771.276, + 1533.701, + 338.783 + ], + "priority": 4, + "parents": [ + 88291 + ], + "children": [], + "area": 76119.54226799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88293, + "strid": "f0aebb5a-a670-44d2-842f-b7a021c2e582", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 542.205, + 1186.737, + 633.5120000000001, + 62.54099999999994 + ], + "priority": 5, + "parents": [ + 88319 + ], + "children": [ + 88302, + 88318, + 88315, + 88317, + 88314, + 88300, + 88316 + ], + "area": 643454.735085, + "iscrowd": 0, + "segmentation": [], + "text": "2. 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The handling of metagenomics reads demands special treatement of some\nof its steps." + }, + { + "id": 88305, + "strid": "cc817926-2fe9-4436-b2a8-4bec59b00bd3", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 98.828, + 3219.591, + 1533.592, + 511.308 + ], + "priority": 16, + "parents": [ + 88294 + ], + "children": [], + "area": 318185.739348, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88295, + "strid": "bee133ed-fdc2-407c-94e1-ef81a5d52b76", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 710.22, + 3787.311, + 306.26800000000003, + 49.63799999999992 + ], + "priority": 17, + "parents": [ + 88319 + ], + "children": [ + 88310, + 88309 + ], + "area": 2689824.01842, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 88309, + "strid": "e4c44047-b916-438d-8867-99f3fcdf43b1", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 185.68, + 3884.668, + 1283.424, + 552.0740000000001 + ], + "priority": 18, + "parents": [ + 88295 + ], + "children": [], + "area": 721305.1542400001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88310, + "strid": "c69622f7-15c6-4964-b695-41900c92fddc", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 94.588, + 4472.966, + 1445.998, + 93.41799999999967 + ], + "priority": 19, + "parents": [ + 88295 + ], + "children": [], + "area": 423088.908008, + "iscrowd": 0, + "segmentation": [], + "text": "Marine eukaryotic phytoplankton.metatranscriptoms?; 1.5 M high quality cDNA\nsequences, average length of 242 bp." + }, + { + "id": 88292, + "strid": "6f707b02-6daa-48ca-a17c-179072e53be8", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2309.688, + 655.415, + 277.02300000000014, + 49.71100000000001 + ], + "priority": 20, + "parents": [ + 88319 + ], + "children": [ + 88299, + 88301, + 88308, + 88307, + 88303 + ], + "area": 1513804.16052, + "iscrowd": 0, + "segmentation": [], + "text": "5 Results" + }, + { + "id": 88299, + "strid": "cd5b9000-d403-4259-a517-938224648c57", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1688.282, + 772.329, + 1531.2159999999997, + 379.039 + ], + "priority": 21, + "parents": [ + 88292 + ], + "children": [], + "area": 1303909.148778, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88301, + "strid": "2fe21228-e2e0-4acf-bd9e-9f0fdcef0d32", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1732.459, + 1236.195, + 1440.9999999999998, + 1352.947 + ], + "priority": 22, + "parents": [ + 88292 + ], + "children": [], + "area": 2141657.153505, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88303, + "strid": "edb617e7-ad97-45cb-9bdb-5cd858013174", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1754.055, + 2631.497, + 1378.4799999999998, + 163.13599999999997 + ], + "priority": 23, + "parents": [ + 88292 + ], + "children": [], + "area": 4615790.470335, + "iscrowd": 0, + "segmentation": [], + "text": "Zooming oncclasses\n\nMETA-CASH expands the list of significant terms by detecting new signals." + }, + { + "id": 88307, + "strid": "2ca5d13a-b03e-4cde-b707-a8b79a98e276", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1742.23, + 2849.17, + 581.1019999999999, + 839.1579999999999 + ], + "priority": 24, + "parents": [ + 88292 + ], + "children": [], + "area": 4963909.4491, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88308, + "strid": "feea8ceb-bb8b-4821-90f6-78a5cf526fc6", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2481.365, + 2853.353, + 548.435, + 832.9090000000001 + ], + "priority": 25, + "parents": [ + 88292 + ], + "children": [], + "area": 7080210.266845, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 88296, + "strid": "d1ceb371-1d69-44b5-a58a-edef770f2eb1", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2246.233, + 3788.577, + 411.7710000000002, + 51.690000000000055 + ], + "priority": 26, + "parents": [ + 88319 + ], + "children": [ + 88311 + ], + "area": 8510026.680441001, + "iscrowd": 0, + "segmentation": [], + "text": "6. Conclusions" + }, + { + "id": 88311, + "strid": "8b698313-df67-447f-bf46-33b6690d3b3a", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1701.848, + 3876.043, + 1510.4679999999998, + 95.26899999999978 + ], + "priority": 27, + "parents": [ + 88296 + ], + "children": [], + "area": 6596436.027464, + "iscrowd": 0, + "segmentation": [], + "text": "Our results shows that META-CASH is suitable not only for domain‘identification\nbut also for functional annotation in metagenomics studies." + }, + { + "id": 88312, + "strid": "cb016241-753c-4ec0-b995-7e33e47296eb", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1683.711, + 4375.897, + 1503.7699999999998, + 195.45700000000033 + ], + "priority": 28, + "parents": [ + 88319 + ], + "children": [], + "area": 7367745.913767, + "iscrowd": 0, + "segmentation": [], + "text": "cknowledgments\n\n \n\nhis work undertaken (partially) in the framework-of CALSIMLAB is supported by the public grant ANR-11-\nLAB X-0037-01 overseen by the French National. Research Agency (ANR) as part of the “Investissements\nd’Avenir” program (reference: ANR-11-IDEX-0004-02)." + }, + { + "id": 88297, + "strid": "a83a6424-2952-4602-83d8-0072e339ff59", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2253.874, + 4028.491, + 389.83100000000013, + 51.55600000000004 + ], + "priority": 29, + "parents": [ + 88319 + ], + "children": [ + 88313 + ], + "area": 9079711.124133999, + "iscrowd": 0, + "segmentation": [], + "text": "/. References" + }, + { + "id": 88313, + "strid": "59d168e0-dadf-4734-85a0-acd8c6c0feb5", + "image_id": 203930, + "image_name": "121190.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1688.22, + 4109.988, + 1512.282, + 255.78300000000036 + ], + "priority": 30, + "parents": [ + 88297 + ], + "children": [], + "area": 6938563.9413600005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63474, + "strid": "d0008f44-b1f9-4e03-96e2-0d73c37540ca", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 138.63, + 365.79, + 201.8, + 178.51999999999992 + ], + "priority": -1, + "parents": [], + "children": [ + 63457, + 63452, + 63456, + 63455, + 63453, + 63454, + 63458 + ], + "area": 50709.4677, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63452, + "strid": "e15cd01b-5271-4aba-8148-8e94d38f329a", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 74.44, + 28.498, + 3159.756, + 280.596 + ], + "priority": 1, + "parents": [ + 63474 + ], + "children": [], + "area": 2121.3911200000002, + "iscrowd": 0, + "segmentation": [], + "text": "Mirror illusionreduces ipsilateral motor cortical inhibition in\nhealthy-young adults: implications for rehabilitation" + }, + { + "id": 63453, + "strid": "30e16a9c-b240-4064-a282-7a034ecb7c78", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 476.163, + 352.665, + 2357.181, + 254.88900000000007 + ], + "priority": 2, + "parents": [ + 63474 + ], + "children": [], + "area": 167926.02439500001, + "iscrowd": 0, + "segmentation": [], + "text": "Zult T?’, Goodall S°, Thomas K®, Hortobagyi T?°, Howatson G»\n\naUniversity of Groningen, University medical Center Groningen, Center for Human Movement Sciences, Groningen, The Netherlands\n’Northumbria University, Faculty of Health and Life Sciences, Newcastle-upon-Tyne, United Kingdom\n*Corresponding author: Tjerk Zult; t.d.zult@umcg.nl" + }, + { + "id": 63454, + "strid": "cd5829af-5297-403d-b850-a2a71c5f8690", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.992, + 664.753, + 364.559, + 55.134000000000015 + ], + "priority": 3, + "parents": [ + 63474 + ], + "children": [ + 63459, + 63460 + ], + "area": 51845.415976000004, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 63459, + "strid": "5192959e-2c46-4379-8f86-fcaa1f97ed2c", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.279, + 751.148, + 1527.466, + 313.17500000000007 + ], + "priority": 4, + "parents": [ + 63454 + ], + "children": [], + "area": 57296.818291999996, + "iscrowd": 0, + "segmentation": [], + "text": "Unilateral strength training with the non-affected side is a promising therapeutic\nstrategy to strengthen homologous muscles of.the affected side for patients who\nsuffer from unilateral orthopaedic and neurological conditions. It has been\npreviously hypothesized that viewing the exercising hand in the mirror could\naugment the strength transfer by modulating corticospinal and motor cortical\npathways [1,2]." + }, + { + "id": 63460, + "strid": "180f5ce8-a21b-4df6-a699-d9d6e2cc287e", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 73.324, + 1097.484, + 1531.897, + 259.3319999999999 + ], + "priority": 5, + "parents": [ + 63454 + ], + "children": [], + "area": 80471.916816, + "iscrowd": 0, + "segmentation": [], + "text": "Objective\n\nThe present study investigated the corticospinal and motor cortical responses to\ntranscranial magnetic stimulation (TMS) in the left flexor carpi radialis (FCR) with\nand without viewing a mirror; 1) at rest, and 2) during a forceful shortening\ncontraction of the right wrist flexors." + }, + { + "id": 63455, + "strid": "025fb0b5-b6f4-47da-b96a-913153cf9b22", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.894, + 1417.749, + 682.839, + 54.24000000000001 + ], + "priority": 6, + "parents": [ + 63474 + ], + "children": [ + 63461, + 63472 + ], + "area": 113269.63860600001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 63461, + "strid": "e1fd5496-c7cd-47ee-83ae-40bc3e35b5d8", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.265, + 1500.626, + 1521.202, + 150.673 + ], + "priority": 7, + "parents": [ + 63455 + ], + "children": [], + "area": 114445.24189, + "iscrowd": 0, + "segmentation": [], + "text": "Participants\nTwenty-seven young, healthy, right-handed adults. (mean age: 27 + 7 years)\nparticipated and provided written informed consent." + }, + { + "id": 63472, + "strid": "cf3e1b2d-e241-4e94-8333-6715348c117c", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 66.768, + 1686.568, + 1559.15, + 1378.588 + ], + "priority": 8, + "parents": [ + 63455 + ], + "children": [ + 63462 + ], + "area": 112608.772224, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63462, + "strid": "ba13520d-025d-4f71-b034-6a421d798154", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 73.503, + 3067.413, + 1539.949, + 371.78600000000006 + ], + "priority": 9, + "parents": [ + 63472 + ], + "children": [], + "area": 225464.057739, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. TMS was applied on the right primary motor cortex (M1) to measure\ncorticospinal excitability and short-interval intracortical inhibition (SICI) in the resting\nleft FCR at.rest and during shortening right wrist flexion.at 60% of maximal voluntary\ncontraction. Interhemispheric inhibition (IHI) from-left to right M1 was only\nmeasured at rest. (A) Mirror condition, creating the illusion of seeing the left hand\nbut actually viewing the mirror image of the right hand. (B) No-mirror condition\n(NM), blocking the view of the left and right forearm." + }, + { + "id": 63456, + "strid": "384a3f24-5f52-495c-a007-9fd7fc39fe1b", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.217, + 3469.956, + 207.103, + 53.02599999999984 + ], + "priority": 10, + "parents": [ + 63474 + ], + "children": [ + 63469, + 63470, + 63471, + 63473 + ], + "area": 295699.240452, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 63471, + "strid": "ad5c1f8b-fd75-4b79-80ec-c295c10d3407", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 64.814, + 3549.49, + 1561.077, + 969.134 + ], + "priority": 11, + "parents": [ + 63456 + ], + "children": [ + 63463 + ], + "area": 230056.64485999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63463, + "strid": "92690353-d33e-444f-a590-add3be36653c", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 76.046, + 4522.962, + 1534.308, + 147.6199999999999 + ], + "priority": 12, + "parents": [ + 63471 + ], + "children": [], + "area": 343953.16825200006, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. A representative trace of motor-evoked potentials illustrating corticospinal\nexcitability (solid line) and-SICI (dashed line) of a participant’s right M1 for the four\ndifferent conditions." + }, + { + "id": 63473, + "strid": "445bb73d-3ab5-4a58-9232-35922fcbecf1", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1700.169, + 640.383, + 1561.0960000000002, + 784.203 + ], + "priority": 13, + "parents": [ + 63456 + ], + "children": [ + 63468 + ], + "area": 1088759.3247270002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63468, + "strid": "33b07c91-abd5-45f3-acfa-89fe13c20e73", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1713.992, + 1428.768, + 1533.3570000000002, + 157.06600000000003 + ], + "priority": 14, + "parents": [ + 63473 + ], + "children": [], + "area": 2448896.921856, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Mean SICI data four the four conditions, with a higher value meaning less\nSICI. SIC] during the mirror contraction condition was significantly less compared\nwith the NM contraction condition (47 + 18% vs. 38 + 15%; P = 0.023)." + }, + { + "id": 63470, + "strid": "10dbbda2-1ffe-4390-bd26-31ac241e1832", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1701.043, + 1614.656, + 1559.372, + 838.1260000000002 + ], + "priority": 15, + "parents": [ + 63456 + ], + "children": [ + 63467 + ], + "area": 2746599.2862079996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63467, + "strid": "ead1a489-d2e9-4d32-888c-3349fd2683c6", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1714.41, + 2458.013, + 1528.1320000000003, + 149.88099999999986 + ], + "priority": 16, + "parents": [ + 63470 + ], + "children": [], + "area": 4214042.06733, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Mean corticospinal excitability data for the four conditions. Corticospinal\nexcitability was significantly higher for the contraction compared with the resting\nconditions (P < 0.001) but there was no effect of the mirror." + }, + { + "id": 63469, + "strid": "4589cb42-1ff2-4c42-b5c5-585457b91a7c", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1700.443, + 2641.172, + 1558.336, + 797.2959999999998 + ], + "priority": 17, + "parents": [ + 63456 + ], + "children": [ + 63466 + ], + "area": 4491162.439196, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 63466, + "strid": "b9e101b0-b0e3-46a2-bf7b-66c221e302cb", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1712.66, + 3446.445, + 1530.9379999999999, + 98.56500000000005 + ], + "priority": 18, + "parents": [ + 63469 + ], + "children": [], + "area": 5902588.4937, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Mean IHI data for the two resting conditions. IHI was not different\nbetween the NM and mirror condition (P = 0.274)" + }, + { + "id": 63457, + "strid": "62d96acf-71c0-402b-be1a-dedcb2cdff20", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1716.832, + 3623.219, + 317.366, + 52.534999999999854 + ], + "priority": 19, + "parents": [ + 63474 + ], + "children": [ + 63465 + ], + "area": 6220458.322208, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 63465, + "strid": "a4fb0067-bbb8-4608-ba09-2df0ba697917", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1715.903, + 3715.559, + 1536.222, + 519.7560000000003 + ], + "priority": 20, + "parents": [ + 63457 + ], + "children": [], + "area": 6375538.834777, + "iscrowd": 0, + "segmentation": [], + "text": "Viewing the mirror image of tne contracting right wrist modulated a specitic\ninhibitory path, SICI, in the right M1 without modifying corticospinal excitability and\nanother inhibitory pathway, !HI.\n\nObserving the reflections of the active limb superimposed on the contralateral\ninactive limb reduces the magnitude of inhibition in the M1 associated with the\nmirror image.\n\nThe present study is an initial step towards understanding how, if at all, mirror\nviewing of forceful dynamic muscle contractions might augment the strength\ntransfer from the trained to the non-trained contralateral limb." + }, + { + "id": 63458, + "strid": "2fa104e0-a3fa-43cb-8634-ff3f4e4d4ef1", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1723.749, + 4327.561, + 318.1669999999999, + 54.27800000000025 + ], + "priority": 21, + "parents": [ + 63474 + ], + "children": [ + 63464 + ], + "area": 7459628.946188999, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 63464, + "strid": "8e65d6c6-8c74-49c7-8d22-fdde41072fa0", + "image_id": 203000, + "image_name": "119565.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1714.001, + 4411.461, + 1526.456, + 260.6909999999998 + ], + "priority": 22, + "parents": [ + 63458 + ], + "children": [], + "area": 7561248.565461, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121781, + "strid": "f1102fb7-2fe3-4b18-bf00-32886a784c78", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 50.06, + 176.26, + 288.3, + 93.86000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 121762, + 121759, + 121761, + 121764, + 121760, + 121758, + 121763, + 121766 + ], + "area": 8823.5756, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121758, + "strid": "bf7ebef4-6dfd-4dfb-9fa9-a3155f785519", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 371.937, + 110.605, + 2855.156, + 123.33299999999998 + ], + "priority": 1, + "parents": [ + 121781 + ], + "children": [], + "area": 41138.091885, + "iscrowd": 0, + "segmentation": [], + "text": "Expanding MIxS Genomic Minimal Information Standards" + }, + { + "id": 121759, + "strid": "5ded36d3-fa96-41a3-9a33-44bb84e940f7", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 874.048, + 235.052, + 1668.5470000000003, + 132.496 + ], + "priority": 2, + "parents": [ + 121781 + ], + "children": [], + "area": 205446.730496, + "iscrowd": 0, + "segmentation": [], + "text": "Lynn M. Schriml* and Chris Hunter.\n1University of Maryland School of Medicine, Baltimore, MD; 2 GigaScience" + }, + { + "id": 121766, + "strid": "243c5c89-9cad-45df-ac78-60d732cd4dcb", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 770.942, + 440.501, + 1948.4, + 199.22699999999998 + ], + "priority": 3, + "parents": [ + 121781 + ], + "children": [], + "area": 339600.721942, + "iscrowd": 0, + "segmentation": [], + "text": "MixS metadata standards : Making genomic data FAIR\n“i Making Genomic Data Discoverable" + }, + { + "id": 121760, + "strid": "76b53422-f873-4a57-93c2-f1a653818724", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 551.917, + 596.492, + 236.087, + 47.870000000000005 + ], + "priority": 4, + "parents": [ + 121781 + ], + "children": [ + 121774, + 121765 + ], + "area": 329214.075164, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 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7072379.043954, + "iscrowd": 0, + "segmentation": [], + "text": "Usage of MIxS standards is enhanced through the development of defined standards usage,\ncommon data policies and requirement of MIxS compliant BioSample metadata submission by\njournals." + }, + { + "id": 121761, + "strid": "7c4cd7ff-65b6-4fc6-bc3c-e7d3c5900f10", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2767.888, + 618.036, + 279.0830000000001, + 47.763000000000034 + ], + "priority": 18, + "parents": [ + 121781 + ], + "children": [ + 121767, + 121776, + 121770 + ], + "area": 1710654.4279679998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121767, + "strid": "472cee0f-a2e4-4963-b8bb-fd94349e2754", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2429.119, + 726.28, + 1011.0390000000002, + 167.09000000000003 + ], + "priority": 19, + "parents": [ + 121761 + ], + "children": [], + "area": 1764220.5473200001, + "iscrowd": 0, + "segmentation": [], + "text": "The MIxS checklists and packages have been created and shared with the\ngenomic community to enable genomic data discovery, sharing and re-use.\n\nMIXxS suite of standards (version 4.0) are part of the GenBank/ENA, BioSample(s)\nsubmission process." + }, + { + "id": 121776, + "strid": "ed352336-7e28-4689-92ad-a1aa82b3a157", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2412.628, + 910.98, + 1043.578, + 654.165 + ], + "priority": 20, + "parents": [ + 121761 + ], + "children": [], + "area": 2197855.85544, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121770, + "strid": "36adc63f-639f-495f-9603-fe606747e2e6", + "image_id": 205240, + "image_name": "14493.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2611.136, + 1615.428, + 875.0929999999998, + 716.9199999999998 + ], + "priority": 21, + "parents": [ + 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Around 300,000 people in the UK have TS." + }, + { + "id": 123256, + "strid": "234f3a15-ffa3-4d02-aea0-f636cd8822c7", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 122.878, + 1392.441, + 1735.398, + 701.9649999999999 + ], + "priority": 5, + "parents": [ + 123250 + ], + "children": [], + "area": 171100.365198, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123251, + "strid": "44a43475-8f3d-49b8-a6eb-b875c2bfe208", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 837.775, + 2142.145, + 373.273, + 75.3420000000001 + ], + "priority": 6, + "parents": [ + 123266 + ], + "children": [ + 123257 + ], + "area": 1794635.5273749998, + "iscrowd": 0, + "segmentation": [], + "text": "OBJECTIVES" + }, + { + "id": 123257, + "strid": "59952f8a-53e0-4036-a5b1-ea71d2d7f3e6", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 119.635, + 2300.53, + 1737.652, + 355.9749999999999 + ], + "priority": 7, + "parents": [ + 123251 + ], + "children": [], + "area": 275223.90655, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123252, + "strid": "2a2946de-86c7-4e20-97b7-03767b31610f", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 911.695, + 2707.024, + 268.21899999999994, + 71.66199999999981 + ], + "priority": 8, + "parents": [ + 123266 + ], + "children": [ + 123258 + ], + "area": 2467980.24568, + "iscrowd": 0, + "segmentation": [], + "text": "METHOD" + }, + { + "id": 123258, + "strid": "150fb9a0-9d84-4df2-9747-6b5183ff1efb", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 125.537, + 2804.535, + 1761.22, + 253.94500000000016 + ], + "priority": 9, + "parents": [ + 123252 + ], + "children": [], + "area": 352072.910295, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123253, + "strid": "bcdbbe52-2229-402a-8d0b-71639b560752", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 891.114, + 3083.974, + 267.741, + 73.35199999999986 + ], + "priority": 10, + "parents": [ + 123266 + ], + "children": [ + 123262, + 123261, + 123259 + ], + "area": 2748172.4070360004, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 123261, + "strid": "cf16a40a-c593-46ea-838d-07207dd9fbd2", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 122.98, + 3201.913, + 1644.553, + 1133.275 + ], + "priority": 11, + "parents": [ + 123253 + ], + "children": [], + "area": 393771.26074, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123262, + "strid": "eea27b82-1602-47fa-b742-1b2472621f3b", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 146.007, + 4469.125, + 1572.034, + 784.9750000000004 + ], + "priority": 12, + "parents": [ + 123253 + ], + "children": [], + "area": 652523.533875, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123259, + "strid": "776e0773-4b0a-456e-9b7e-3b03e78ab97b", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2142.701, + 1045.998, + 1571.9970000000003, + 1465.8430000000003 + ], + "priority": 13, + "parents": [ + 123253 + ], + "children": [], + "area": 2241260.9605980003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123254, + "strid": "faaf66a3-6cb3-4379-8673-ba61a1e5b675", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2688.884, + 2543.396, + 428.00599999999986, + 72.23799999999983 + ], + "priority": 14, + "parents": [ + 123266 + ], + "children": [ + 123260, + 123263, + 123264 + ], + "area": 6838896.810064, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 123260, + "strid": "01b0738e-b754-4d1d-ada3-8d5f9bef991e", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2022.138, + 2719.157, + 1798.58, + 1128.6660000000002 + ], + "priority": 15, + "parents": [ + 123254 + ], + "children": [], + "area": 5498510.697666, + "iscrowd": 0, + "segmentation": [], + "text": "Currently there are no NICE guidelines for treating tics, perhaps down\nto a lack of research and funding and general awareness of the\ncondition.\n\nTreatment offered is typically medication for tics but sufferers often\nseek behavioural intervention’.\n\nThe European clinical guidelines? for Tourette Syndrome and other tic\ndisorders suggest that behavioural therapies are ‘first line\n[behavioural] treatments for tics for both children and adults’.\nResearch in the past 10 years has focused on delivery of effective\ntreatment. Research has demonstrated successful treatment with BT\ndelivered by telemedicine? 2.44, group interventions? 2\"4 ® and there are\ncurrently exciting projects for children and adults with tics using\nremote access, online treatments both with and without therapist\nsupport’.\n\nTreatment of tics given a low priority in regards to training?\n\nThis may be caused by a" + }, + { + "id": 123264, + "strid": "ecbbb449-46f0-4f82-b4d5-9fa40f672f7f", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2043.494, + 3865.596, + 1395.6029999999998, + 301.5300000000002 + ], + "priority": 16, + "parents": [ + 123254 + ], + "children": [], + "area": 7899322.232423999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123263, + "strid": "cc558ed2-a905-4bd4-ad58-56cd790fe1fe", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2023.506, + 4186.549, + 1781.655, + 262.3850000000002 + ], + "priority": 17, + "parents": [ + 123254 + ], + "children": [], + "area": 8471507.020794, + "iscrowd": 0, + "segmentation": [], + "text": "Other issues include that once trained there may be a lack of access to\nsupervision expertise.\nThese are all hypotheses that can be explored but remain\noe unanswered." + }, + { + "id": 123265, + "strid": "f155aa5e-f4c0-440b-adea-322c83cd3a79", + "image_id": 205301, + "image_name": "14613.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2053.046, + 4431.541, + 1764.5139999999997, + 916.0190000000002 + ], + "priority": 18, + "parents": [ + 123266 + ], + "children": [], + "area": 9098157.523885999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30667, + "strid": "beecae86-34b4-44d6-8c76-87d7e1d84583", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 149.26, + 434.78, + 197.67000000000002, + 188.68000000000006 + ], + "priority": -1, + "parents": [], + "children": [ + 30643, + 30640, + 30653, + 30654, + 30641, + 30645, + 30652, + 30642, + 30644 + ], + "area": 64895.26279999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30640, + "strid": "263aa656-c1d3-4f86-bf33-548002e13f97", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 180.771, + 171.016, + 4424.225, + 151.035 + ], + "priority": 1, + "parents": [ + 30667 + ], + "children": [], + "area": 30914.733335999998, + "iscrowd": 0, + "segmentation": [], + "text": "Eye movements during working memory retention period influences performance" + }, + { + "id": 30641, + "strid": "1e951145-5dfc-40a4-b8dc-c4127aff6217", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1163.289, + 353.1, + 2765.469, + 268.39 + ], + "priority": 2, + "parents": [ + 30667 + ], + "children": [], + "area": 410757.3459, + "iscrowd": 0, + "segmentation": [], + "text": "Zhenlan Jin, Yu Wang, Ling Li*\n\nKey Laboratory for Neurolnformation of Ministry of Education, School of Life Science and Technology,\nUniversity of Electronic Science and Technology of China, Chengdu, China 610054" + }, + { + "id": 30644, + "strid": "bb1468d3-acff-489d-b69b-1a4cb7e7b87b", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 179.192, + 753.054, + 560.461, + 78.93799999999999 + ], + "priority": 3, + "parents": [ + 30667 + ], + "children": [ + 30646 + ], + "area": 134941.252368, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 30646, + "strid": "d8c0c9f7-6662-4923-938d-17c2bc0e9cf2", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 174.359, + 880.16, + 1463.311, + 128.87900000000002 + ], + "priority": 4, + "parents": [ + 30644 + ], + "children": [], + "area": 153463.81744, + "iscrowd": 0, + "segmentation": [], + "text": "Zelinsky and Loschky (2009) showed refixations on an object help to remember it when freely\ninspecting a scene. The current study investigated whether eye locations after the stimuli offset\nstill affect the performance of working memory (WM)." + }, + { + "id": 30645, + "strid": "99a7bd6e-4a88-4ffc-9bee-301696dab6cc", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 179.299, + 1071.599, + 910.3130000000001, + 91.93299999999999 + ], + "priority": 5, + "parents": [ + 30667 + ], + "children": [ + 30647, + 30649 + ], + "area": 192136.629101, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 30647, + "strid": "907c5785-bccd-4f72-9285-691ba59c8f32", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 182.478, + 1197.435, + 1169.881, + 682.431 + ], + "priority": 6, + "parents": [ + 30645 + ], + "children": [ + 30648 + ], + "area": 218505.54393, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30648, + "strid": "68076cd8-4760-43ae-9d89-46929ab5b3c7", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 179.281, + 1923.017, + 1462.352, + 254.1139999999998 + ], + "priority": 7, + "parents": [ + 30647 + ], + "children": [], + "area": 344760.410777, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Stimuli and sequence of the stimuli in the classic paradigm. The working memory\ntarget, which consists of 2 or 4 colored squares in both left and right visual fields, appeared after\nthe cue. The cue poinied to left or right with equal possibility and subjects memorized the color of\nthe squares in the cued visual field. After the retention period, subjects pressed 1 (Yes) or 2 (No)\nto indicate whether the colors of the squares in the cued visual field were changed or not. For\nexample, the correct answer in the above demonstration should be 2 (No)." + }, + { + "id": 30649, + "strid": "26d52306-ad4f-4587-8745-085c59b5890c", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 182.478, + 2260.237, + 1297.737, + 813.4830000000002 + ], + "priority": 8, + "parents": [ + 30645 + ], + "children": [ + 30650 + ], + "area": 412443.527286, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30650, + "strid": "745c74df-00af-4c34-a078-f993371892cc", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 179.281, + 3155.228, + 1455.959, + 287.67599999999993 + ], + "priority": 9, + "parents": [ + 30649 + ], + "children": [], + "area": 565672.431068, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Stimuli and sequence of the stimuli in the pursuit paradigm. Stimuli were same as\nthe classic paradigm, except that the fixation cross moved towards the left or the right visual field\nat the velocity of 6 deg/sec during the retention period. Subjects were instructed to pursue the\ncross.and perform the working memory task. The trials were further grouped into consistent and\ninconsistent trials which were defined by the consistency of the cued visual field and the motion\ndirection of the fixation cross in the retention period. As a control, the subjects also pursued the\nmoving cross without performing the working memory task." + }, + { + "id": 30643, + "strid": "bf6f566b-6a9f-4fa6-8412-23ffb1419f68", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1763.219, + 747.791, + 1173.5479999999998, + 113.14499999999998 + ], + "priority": 10, + "parents": [ + 30667 + ], + "children": [ + 30666, + 30664 + ], + "area": 1318519.2992290002, + "iscrowd": 0, + "segmentation": [], + "text": "Results of classic paradigin" + }, + { + "id": 30664, + "strid": "a5137af6-1764-4a9b-9d0d-6fbab6f40bda", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1754.725, + 867.369, + 1017.9000000000001, + 487.8849999999999 + ], + "priority": 11, + "parents": [ + 30643 + ], + "children": [ + 30663 + ], + "area": 1521994.068525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30663, + "strid": "15e8e607-a2f9-4d6e-b8ee-9737b1d6119d", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1741.406, + 1373.465, + 1116.8360000000002, + 133.183 + ], + "priority": 12, + "parents": [ + 30664 + ], + "children": [], + "area": 2391760.1917899996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Working memory accuracy and mean reaction times in the\nclassic paradigm. Consistent with previous literatures, accuracy with set\nsize 4 was lower and the reaction times were longer with set size 4." + }, + { + "id": 30666, + "strid": "f0702536-43ef-4141-b379-51177d2cf9f1", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3129.981, + 876.299, + 1198.8430000000003, + 478.8899999999999 + ], + "priority": 13, + "parents": [ + 30643 + ], + "children": [ + 30665 + ], + "area": 2742799.220319, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30665, + "strid": "6c720820-8add-4963-bd87-0834d4545cd0", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3052.323, + 1374.604, + 1525.6529999999998, + 210.3230000000001 + ], + "priority": 14, + "parents": [ + 30666 + ], + "children": [], + "area": 4195735.405092, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Eye movements during the working memory task. More saccades occurred with set size\n4 and. more proportion of trials with saccades were found with set size 4. In addition, only 21.5% of\ntrials with set size 2 and 25.8% of trials with set size 4 showed first saccade in the sample period and\nmost trials showed first saccades in the retention period. We found that 57.2% of trials were towards\nthe cued visual field, suggesting that eyes did not move towards the cued visual filed." + }, + { + "id": 30642, + "strid": "1029cb77-43fa-449f-a3fb-5f83b165699a", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1765.85, + 1634.531, + 1202.4919999999997, + 102.61999999999989 + ], + "priority": 15, + "parents": [ + 30667 + ], + "children": [ + 30658, + 30661, + 30657, + 30660 + ], + "area": 2886336.56635, + "iscrowd": 0, + "segmentation": [], + "text": "Results of pursuit paradigm" + }, + { + "id": 30657, + "strid": "450b97c4-c11b-42e6-ac8c-618870c88667", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1775.653, + 1763.502, + 976.0429999999999, + 95.13100000000009 + ], + "priority": 16, + "parents": [ + 30642 + ], + "children": [], + "area": 3131367.616806, + "iscrowd": 0, + "segmentation": [], + "text": "Would eye movements in the retention period affect\nthe working memory performance?" + }, + { + "id": 30658, + "strid": "fe954a85-8ae3-4612-b6bc-6d934208035c", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1764.238, + 1908.101, + 1248.117, + 483.2649999999999 + ], + "priority": 17, + "parents": [ + 30642 + ], + "children": [ + 30659 + ], + "area": 3366344.292038, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30659, + "strid": "c878d163-8f68-4a49-b50d-f811a4eb4488", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1779.459, + 2437.028, + 1194.8439999999998, + 249.24299999999994 + ], + "priority": 18, + "parents": [ + 30658 + ], + "children": [], + "area": 4336591.407852, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: The performance of memory task with the pursuit task. Still, the\naccuracy was higher and reaction times were faster with set size 2 compared to\nset size 4. In addition, higher accuracy and faster reaction times were observed\nin the consistent conditions (the subjects pursued towards the cued visual field)\nthan in the inconsistent conditions. These results showing eye movements\nduring the retention period could influence the working memory performance." + }, + { + "id": 30660, + "strid": "45dbd751-97d2-4c44-b654-7d489002ca0f", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3063.726, + 1653.15, + 989.3609999999999, + 576.4929999999999 + ], + "priority": 19, + "parents": [ + 30642 + ], + "children": [ + 30662 + ], + "area": 5064798.6369, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30662, + "strid": "f9f2b3d6-964d-49a2-a247-d2219aa699b2", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4060.697, + 1885.269, + 504.1940000000004, + 854.2749999999999 + ], + "priority": 20, + "parents": [ + 30660 + ], + "children": [], + "area": 7655506.1724930005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: Pursuit performance\nin all conditions in subject\nZM’s data. The pursuit\nperformance showed delayed\ninitiation of pursuit. Without\nperforming the working memory\ntask, the pursuit initiation were\nalso delayed in the control\n\nexperiment.\nThe mean velocity in the time\nwindow of 300-600\n\n(approximately open loop period)\nshowed neither the effect of set\nsize and consistency. The mean\nvelocity in the time window (600-\n1600 —ms) showed significant\ninteraction between the\nconsistency and_ set size,\nindicating the inconsistency\nslowed down the velocity with\nset size 4." + }, + { + "id": 30661, + "strid": "3e7176ec-8017-4a72-bc5a-4d3989d3a59a", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3149.343, + 2313.358, + 829.5410000000002, + 418.576 + ], + "priority": 21, + "parents": [ + 30642 + ], + "children": [], + "area": 7285557.823794, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30652, + "strid": "a1f0ade9-56a2-44f5-8de2-508dbf3afd01", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1771.848, + 2794.72, + 525.1219999999998, + 83.71500000000015 + ], + "priority": 22, + "parents": [ + 30667 + ], + "children": [ + 30651 + ], + "area": 4951819.04256, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 30651, + "strid": "96757dff-0580-4379-b08e-f036bda7d032", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1747.114, + 2901.267, + 1773.239, + 492.77800000000025 + ], + "priority": 23, + "parents": [ + 30652 + ], + "children": [], + "area": 5068844.193438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 30653, + "strid": "4909053a-9b01-472e-bd05-bdd2ddf465ff", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3710.615, + 2815.649, + 848.567, + 93.22800000000007 + ], + "priority": 24, + "parents": [ + 30667 + ], + "children": [ + 30655 + ], + "area": 10447789.414135, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 30655, + "strid": "bcd7960d-9726-40b6-82e5-640d04f55a83", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3706.81, + 2939.319, + 865.6910000000003, + 112.2539999999999 + ], + "priority": 25, + "parents": [ + 30653 + ], + "children": [], + "area": 10895497.06239, + "iscrowd": 0, + "segmentation": [], + "text": "This work is supported by the Natural Science Foundation of China,\nGrant No. 91120016 and 61203363, by the Fundamental Research\nFunds for the Central Universities." + }, + { + "id": 30654, + "strid": "aa77be00-7835-40af-98f2-e7b0311603a7", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3716.323, + 3101.042, + 485.1680000000001, + 89.42300000000023 + ], + "priority": 26, + "parents": [ + 30667 + ], + "children": [ + 30656 + ], + "area": 11524473.708565999, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 30656, + "strid": "b6d80ac7-4f1a-4ced-97ef-f9079f000359", + "image_id": 201703, + "image_name": "117536.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3708.713, + 3201.881, + 867.5940000000005, + 241.63200000000006 + ], + "priority": 27, + "parents": [ + 30654 + ], + "children": [], + "area": 11874857.689153, + "iscrowd": 0, + "segmentation": [], + "text": "Li L, Zhang J-X, Jiang T (2011) Visual Working Memory Load-\nRelated Changes in Neural Activity and Functional Connectivity.\nPLoS ONE 6(7): €22357. doi:10.1371/journal.pone.0022357\nZelinsky G J, Loschky L C. Using eye movements to study working\nmemory rehearsal for objects in visual scenes[C]//Proceedings of the\n31st annual conference of the cognitive science society. Austin, TX:\nCognitive Science Society, 2009: 1312-1317." + }, + { + "id": 23374, + "strid": "62ae549e-d13c-4630-924b-1192aef074f6", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 179.87, + 286.82, + 198.12, + 158.49 + ], + "priority": -1, + "parents": [], + "children": [ + 23358, + 23365, + 23360, + 23359, + 23361, + 23357 + ], + "area": 51590.3134, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23357, + "strid": "cae6f5ff-5909-4436-8be9-98a05da08df2", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 757.871, + 117.2, + 3924.612, + 139.373 + ], + "priority": 1, + "parents": [ + 23374 + ], + "children": [], + "area": 88822.4812, + "iscrowd": 0, + "segmentation": [], + "text": "Drosophila as a model for human infection of Shigella flexneri" + }, + { + "id": 23358, + "strid": "27680ba4-a0df-4dce-ac4b-e671aa947e00", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1204.498, + 297.751, + 3116.8829999999994, + 285.081 + ], + "priority": 2, + "parents": [ + 23374 + ], + "children": [], + "area": 358640.483998, + "iscrowd": 0, + "segmentation": [], + "text": "Maldonado-Contreras, Ana?°; Jones, Rheinalt2; Mercante, Jeffrey2; Silverman, Neal!8, and McCormick, Beth A. 12°.\n1UMASS Medical School, Department Microbiology and Physiological Systems** and Department of Medicine’, Worcester, MA.\n“Emory University School of Medicine, Department of Pathology, Atlanta, GA.\n\nContact information: ana.maldonado@umassmed.edu; beth. mccormick@umassmed.edu" + }, + { + "id": 23359, + "strid": "392c040f-fcaa-4cb8-99ec-d55138ae4db6", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 51.505, + 665.188, + 418.118, + 95.02700000000004 + ], + "priority": 3, + "parents": [ + 23374 + ], + "children": [ + 23363, + 23362 + ], + "area": 34260.50794, + "iscrowd": 0, + "segmentation": [], + "text": "ABSTRACT" + }, + { + "id": 23362, + "strid": "c6ecb2b4-4d93-4e00-9292-466edcbed6fa", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 73.677, + 839.404, + 1799.176, + 1127.653 + ], + "priority": 4, + "parents": [ + 23359 + ], + "children": [], + "area": 61844.76850800001, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction: Shigella flexneri is human adapted pathogen that causes bacillary A\ndysentery. A hallmark of Shigella infection is the ability to invade the colonic\nepithelium, which requires a virulence plasmid containing components of a type-lll\nsecretion system. While invasion has been thoroughly investigated, understanding of\nthe host immune response to Shigella infection and how Shigella subverts aspects of\nthis response is not well understood due the lack of appropriate animal models.\nObjective: Establish Drosophila melanogaster as a suitable model to study the innate\nimmune response against S. flexneri infection.\n\nMethods:We established a feeding method whereby Drosophila ingests S. flexneri\norally. Sterile filter disks were soaked in a solution containing sucrose, yeast and fresh\nShigella (108-10°), and were placed on top of normal fly food.\n\nResults: Ingestion of S. flexneri produces a lethal infection that is dependent on the\nShigella virulence plasmid. Moreover, the survival rate of flies exposed to S. flexneri\nwas found to be dose-dependent.\n\nConclusions: These results indicate that Drosophila is susceptible to S. flexneri infection\nand can be further exploited as a model to study the key elements involved in the\ninnate immune response against this infection." + }, + { + "id": 23363, + "strid": "258d9772-536a-4f6b-abd2-ff3c15b1d586", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 51.505, + 2064.9, + 1853.025, + 1837.187 + ], + "priority": 5, + "parents": [ + 23359 + ], + "children": [], + "area": 106352.67450000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 23360, + "strid": "f449950d-0fac-4950-9c2e-847a87b59402", + "image_id": 201437, + "image_name": "117110.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2005.892, + 665.188, + 418.11800000000017, + 95.02700000000004 + ], + "priority": 6, + "parents": [ + 23374 + ], + 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Young?3, Eden R. Martin*, Xi Chen!+, Lily Wang!:?.3.4\n\n1Division of Biostatistics, University of Miami, ? Dr. John T Macdonald Foundation Department of Human Genetics,\n3John P. Hussman Institute for Human Genomics, ‘Sylvester Comprehensive Cancer Center, University of Miami" + }, + { + "id": 146542, + "strid": "7f384b3f-0af7-4de1-94dd-910a6e7f7693", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 442.613, + 178.317, + 155.16900000000004, + 20.424000000000007 + ], + "priority": 3, + "parents": [ + 146556 + ], + "children": [ + 146546 + ], + "area": 78925.422321, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146546, + "strid": "72ac3c64-3e0a-469e-8a06-1bc1b0176357", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 56.65, + 232.458, + 934.588, + 279.222 + ], + "priority": 4, + "parents": [ + 146542 + ], + "children": [], + "area": 13168.7457, + "iscrowd": 0, + "segmentation": [], + "text": "Epigenome-wide association studies (EWAS) often detect a large number of\ndifferentially methylated CpGs, many are located far from genes, complicating the\ninterpretation of their functionalities. Therefore, there is a critical need to better\nunderstand the functional impact of these CpGs.\n\nWe performed a MethReg analysis for the ROSMAP Alzheimer's Disease (AD) brain\ndataset with DNA methylation and RNA-seq data from 529 independent subjects.\nMethReg identified 60 methylation-sensitive transcription factors, many of which are\nwell-known regulators for AD such as TCF12, SPI1, NR3C1, CEBPB, GABPA, and others.\n\nRecent studies demonstrated methylated CpGs can affect gene transcription by either\nincrease or decrease transcription factor binding strengths." + }, + { + "id": 146544, + "strid": "4c307092-9c20-4bcf-bbe2-2fbbcf698eb5", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 471.605, + 543.89, + 95.56600000000003, + 20.163999999999987 + ], + "priority": 5, + "parents": [ + 146556 + ], + "children": [ + 146547, + 146554 + ], + "area": 256501.24345, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146547, + "strid": "ae24ba0e-32ad-4c49-bf77-fd95f7bbde52", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 67.561, + 598.957, + 903.709, + 93.95799999999997 + ], + "priority": 6, + "parents": [ + 146544 + ], + "children": [], + "area": 40466.133877, + "iscrowd": 0, + "segmentation": [], + "text": "We developed a new method and software, MethReg, that analyzes matched DNA-\nmethylation and gene-expression data, along with external transcription factor\n(TF) binding information, to evaluate, prioritize, and annotate CpG sites with high\nregulatory potential." + }, + { + "id": 146554, + "strid": "51a281ab-cdae-4ee1-8281-f6dea7735b68", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 34.109, + 721.569, + 983.038, + 751.5830000000001 + ], + "priority": 7, + "parents": [ + 146544 + ], + "children": [ + 146553 + ], + "area": 24611.997021, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146553, + "strid": "502a0d22-ae6b-4a90-aded-ad112bc8b3e6", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 36.464, + 1493.299, + 392.715, + 21.857999999999947 + ], + "priority": 8, + "parents": [ + 146554 + ], + "children": [], + "area": 54451.654736, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 MethReg analysis workflow." + }, + { + "id": 146543, + "strid": "6a3cea7a-b167-436e-b7a0-16eddc17b514", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1467.533, + 177.368, + 103.76099999999997, + 20.533000000000015 + ], + "priority": 9, + "parents": [ + 146556 + ], + "children": [ + 146548, + 146555 + ], + "area": 260293.39314399997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146548, + "strid": "aa8cc191-9c00-49b9-a8b8-b30efed3b3f8", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1121.137, + 232.582, + 789.5330000000001, + 115.26400000000001 + ], + "priority": 10, + "parents": [ + 146543 + ], + "children": [], + "area": 260756.28573399998, + "iscrowd": 0, + "segmentation": [], + "text": "We performed a MethReg analysis for the ROSMAP Alzheimer's Disease\n(AD) brain dataset with DNA methylation and RNA-seq data from 529\nindependent subjects. MethReg identified 60 methylation-sensitive\ntranscription factors, many of which are well-known regulators for AD\nsuch as TCF12, SPI1, NR3C1, CEBPB, GABPA, and others." + }, + { + "id": 146555, + "strid": "eef031f0-2a68-40d4-858c-c56ffaaaa62d", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1093.751, + 384.574, + 844.607, + 617.4859999999999 + ], + "priority": 11, + "parents": [ + 146543 + ], + "children": [ + 146552 + ], + "area": 420628.197074, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146552, + "strid": "40d883b8-6bc9-4cef-b6f1-ceac26a908cb", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1076.671, + 1046.289, + 871.6679999999999, + 138.712 + ], + "priority": 12, + "parents": [ + 146555 + ], + "children": [], + "area": 1126509.023919, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 An example triplet in which CpG methylation is predicted to invert TF\nactivity on the target gene. In samples with low DNA methylation, target gene\nexpression increases as TF activity increased. In contrast, in samples with high\nDNA methylation, target gene expression decreased as TF activity increased.\nTherefore, the TF SPI1 is predicted to have dual modes of regulation depending\non CpG methylation levels." + }, + { + "id": 146551, + "strid": "ad5ec20a-5783-4fe2-b3ec-33b3c2314a21", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1454.668, + 1414.247, + 104.923, + 20.442999999999984 + ], + "priority": 13, + "parents": [ + 146556 + ], + "children": [ + 146550 + ], + "area": 2057259.854996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146550, + "strid": "407bafc1-5a82-4e26-96f6-bf9ad2ac6bec", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1176.6, + 1479.664, + 713.575, + 17.123000000000047 + ], + "priority": 14, + "parents": [ + 146551 + ], + "children": [], + "area": 1740972.6623999998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146545, + "strid": "32a324e7-fb5d-4cfb-903d-12790031c9be", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1445.015, + 1266.422, + 170.0250000000001, + 23.128999999999905 + ], + "priority": 15, + "parents": [ + 146556 + ], + "children": [ + 146549 + ], + "area": 1829998.7863300003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 146549, + "strid": "6cdca368-9a6c-4dc0-a9f1-3528ac2c6163", + "image_id": 206189, + "image_name": "18723.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1292.649, + 1313.023, + 660.405, + 63.21900000000005 + ], + "priority": 16, + "parents": [ + 146545 + ], + "children": [], + "area": 1697277.8679269997, + "iscrowd": 0, + "segmentation": [], + "text": "Silva, T. C., et al. (2021). \"MethReg: estimating the regulatory\npotential of DNA methylation in gene transcription.\"\n431696" + }, + { + "id": 119944, + "strid": "e2258207-6138-46e4-8b9f-fe080f2ee986", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2121.58, + 52.72, + 227.84000000000015, + 208.03 + ], + "priority": -1, + "parents": [], + "children": [ + 119932, + 119933, + 119934, + 119930, + 119940, + 119939, + 119938, + 119931 + ], + "area": 111849.6976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119930, + "strid": "4221f35e-7341-47cc-941c-1aaefaefcdc8", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 84.966, + 305.383, + 1979.234, + 166.563 + ], + "priority": 1, + "parents": [ + 119944 + ], + "children": [], + "area": 25947.171977999995, + "iscrowd": 0, + "segmentation": [], + "text": "Creation and development of a marine-community data\nmanagement service: the EMBRIC Configurator" + }, + { + "id": 119931, + "strid": "5f24c00a-b939-476d-91df-2ff79b6a07d9", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 147.721, + 60.029, + 1510.469, + 123.154 + ], + "priority": 2, + "parents": [ + 119944 + ], + "children": [], + "area": 8867.543909, + "iscrowd": 0, + "segmentation": [], + "text": "Annalisa Milano', Jeena Rajan', Guy Cochrane!\n‘Data coordination and Archiving team, European Nucleotide Archive (ENA), EMBL-EBI" + }, + { + "id": 119932, + "strid": "2befaeed-2316-4fa5-9903-0521234bd6e3", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 152.83, + 755.728, + 474.51099999999997, + 79.918 + ], + "priority": 3, + "parents": [ + 119944 + ], + "children": [ + 119935 + ], + "area": 115497.91024, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 119935, + "strid": "707c63c3-3150-47bd-9c47-df99aec9f21d", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 149.333, + 897.037, + 3014.594, + 292.376 + ], + "priority": 4, + "parents": [ + 119932 + ], + "children": [], + "area": 133957.226321, + "iscrowd": 0, + "segmentation": [], + "text": "The EMBRIC Configurator (http://www.embric.eu/configurator) is a data management service created to provide an entry point for the\nmarine community into the breadth of existing bioinformatics resources, especially those from ELIXIR. This service has been\nspecifically created to serve the marine community representing disciplines as diverse as aquaculture, ichthyology and algal\nbiotechnology, targeting those embarking on the design of new marine projects. It is a freely available service sponsored by and\ndesigned for the European Marine Biological Research Infrastructure Cluster (EMBRIC)." + }, + { + "id": 119933, + "strid": "9d3f4470-17d6-4721-a865-26211dbdac2c", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 166.399, + 1373.171, + 1183.6730000000002, + 79.60400000000004 + ], + "priority": 5, + "parents": [ + 119944 + ], + "children": [ + 119936, + 119937 + ], + "area": 228494.28122900001, + "iscrowd": 0, + "segmentation": [], + "text": "The data management service" + }, + { + "id": 119936, + "strid": "20fd49b9-2a1a-426a-b3ae-342e8ffbfabd", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 161.568, + 1516.613, + 1346.399, + 774.269 + ], + "priority": 6, + "parents": [ + 119933 + ], + "children": [], + "area": 245036.12918400002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119937, + "strid": "e413f195-842b-4f93-bc37-e88f3125c736", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.384, + 2354.561, + 1341.946, + 951.3229999999999 + ], + "priority": 7, + "parents": [ + 119933 + ], + "children": [], + "area": 384697.594424, + "iscrowd": 0, + "segmentation": [], + "text": "This data management consultancy can also support core\nactivities such as help with data submission and metadata\nstandards development through structured checklists for\ndifferent marine data types.\n\nFurthermore, the EMBRIC configurator can also serve\nELIXIR resources’ curators dealing with marine datasets\nacross multi-omics studies. Are you curating marine\ndatasets and do you want to increase their exposure to the\nmarine community?\n\nThe EMBRIC configurator can bring together experts from\ndifferent resources by coordinating marine biotechnological\ndata in compliance with data principles of “Findability,\nAccessibility, Interoperability, Re-usability” (FAIR), such as\nqualified references to other data and metadata." + }, + { + "id": 119938, + "strid": "76ce5651-3886-40fb-9b94-d5da033c8bb5", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 276.863, + 3506.157, + 973.8799999999999, + 313.7449999999999 + ], + "priority": 8, + "parents": [ + 119944 + ], + "children": [], + "area": 970725.145491, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119939, + "strid": "148bc507-8539-480c-a66d-77222070c986", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2044.323, + 1371.244, + 915.7549999999999, + 443.46699999999987 + ], + "priority": 9, + "parents": [ + 119944 + ], + "children": [ + 119941 + ], + "area": 2803265.647812, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119941, + "strid": "e1ae2b2f-f697-4aa8-a0e9-22fabed72021", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2036.126, + 1888.068, + 920.9779999999998, + 171.77800000000002 + ], + "priority": 10, + "parents": [ + 119939 + ], + "children": [], + "area": 3844344.3445679997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 The six existing research\ninfrastructures connected by EMBRIC,\nincluding ELIXIR." + }, + { + "id": 119940, + "strid": "eaf08849-96a4-4057-b723-9aea107a84d3", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1803.766, + 2209.905, + 1141.025, + 1228.348 + ], + "priority": 11, + "parents": [ + 119944 + ], + "children": [ + 119942 + ], + "area": 3986151.5022300007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 119942, + "strid": "c7a53629-53a6-484e-b58d-81e6e6a4b6ed", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1783.579, + 3523.598, + 1169.5709999999997, + 169.9380000000001 + ], + "priority": 12, + "parents": [ + 119940 + ], + "children": [], + "area": 6284615.397241999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 Workflow of the operation of the EMBRIC\nConfigurator service, showing the case contact, the\ncase officer and the delivery of the case report." + }, + { + "id": 119934, + "strid": "8d524d08-787a-4378-b0e4-fbde25e7df07", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 168.525, + 3927.609, + 484.116, + 68.14100000000008 + ], + "priority": 13, + "parents": [ + 119944 + ], + "children": [ + 119943 + ], + "area": 661900.306725, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 119943, + "strid": "a719ad0b-636b-4fe2-93a8-50ae694d2edd", + "image_id": 205169, + "image_name": "14392.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 166.231, + 4059.014, + 2995.142, + 159.92399999999998 + ], + "priority": 14, + "parents": [ + 119934 + ], + "children": [], + "area": 674733.956234, + "iscrowd": 0, + "segmentation": [], + "text": "The EMBRIC Configurator has provided tailored configurations to sixteen users, across seven countries and metadata standards for\ndifferent marine data types. The EMBRIC Configurator serves as a model for early user engagement around emerging life science\nstudies." + }, + { + "id": 97256, + "strid": "6d5f83be-939e-426a-80ec-2890ba27d5a0", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 14.78, + 12.21, + 50.66, + 22.509999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 97241, + 97244, + 97240, + 97245, + 97242, + 97243 + ], + "area": 180.4638, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97240, + "strid": "eb164773-17ff-4bf7-8db2-f3902362857f", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 77.759, + 13.64, + 599.973, + 51.102999999999994 + ], + "priority": 1, + "parents": [ + 97256 + ], + "children": [], + "area": 1060.63276, + "iscrowd": 0, + "segmentation": [], + "text": "SYSTEMIC ANALYSIS OF LIVELIHOODS’ STRATEGIES OF FOREST DEPENDENT PEOPLE:\nRELATIONSHIPS BETWEEN BIOSPHERE RESERVE CONSTRAINTS\nCn\" AND NATURAL RESOURCES DEPENDENT HOUSEHOLDS’ LIVELIHOODS’" + }, + { + "id": 97241, + "strid": "83f99b83-39bb-4478-93dc-3ee7b325b85b", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 151.001, + 67.703, + 454.03700000000003, + 33.789 + ], + "priority": 2, + "parents": [ + 97256 + ], + "children": [], + "area": 10223.220703, + "iscrowd": 0, + "segmentation": [], + "text": "Asters: Doriane Desciee's’, Pierre Defourny’ and Baudouin Michel" + }, + { + "id": 97242, + "strid": "984a1df6-c7f4-475a-99af-2a521c296831", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 32.253, + 117.324, + 53.26100000000001, + 14.24900000000001 + ], + "priority": 3, + "parents": [ + 97256 + ], + "children": [ + 97248, + 97247, + 97246 + ], + "area": 3784.050972, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 97247, + "strid": "9696d1aa-dad8-4a73-97b8-4bb1c1e2904f", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 31.145, + 137.989, + 437.516, + 152.16300000000004 + ], + "priority": 4, + "parents": [ + 97242 + ], + "children": [], + "area": 4297.667405, + "iscrowd": 0, + "segmentation": [], + "text": "Poverty lemues have 10 be addhensed in a holistic wey. it imposes adopting a nyetemic eppeeach for ensuring 8\nsuliinnsioal analysis. This esearch seeks to ade poverty though te concepts of livelitoads andthe\nCapital theory. Lvelnoos valle to households are ae of spacetne varying tet located between\ncalls: nancial capital physical capital, human capital, socal capital and natura apa: Depending 08\nAssets and behaviors, houscolds make choices wo cteateaslck and achieve a sustainable life balance. The\nlvelioeds approach provider an analytical faework for meaning apa in rde to moditr along Ising\ndevelopment process\n\nInthe come of protected foes ares, asthe Biosphore Reserve of Luin the DRC, human aves evolve\nto use peur resources asa source of income. The Laki Reserve is unfruately i the peoces ofa longer\ncola fom species rich heaven into s landscape of depaded secondary Tore and subsistence agrcaure\nWe have investiga the impact ofthe Lui Reserve on the ivelihood of people depending on its resource,\nDenne ee ee ee nn en nenal ty welect tneaa! tell cathe nee cwal" + }, + { + "id": 97246, + "strid": "47b33978-da29-43a1-af55-0e8ff3e5c8d3", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 476.858, + 110.65, + 248.839, + 177.316 + ], + "priority": 5, + "parents": [ + 97242 + ], + "children": [], + "area": 52764.337700000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97248, + "strid": "ed7920d6-d930-4b1b-a3aa-653b0212b851", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 31.225, + 290.322, + 694.273, + 81.88299999999998 + ], + "priority": 6, + "parents": [ + 97242 + ], + "children": [], + "area": 9065.30445, + "iscrowd": 0, + "segmentation": [], + "text": "Data eve Geen integrated in a relatiqnel detabese, ang Maked t geographical elements. After exploeation, certain Key variables say shown om mapa of the slaty expe in order to\ncompare the effects ofthese elements onthe lostion in and aru the Reserve I allows having itions abou the inpact of variables on Lveibood steps,\n\nGiven th mixed types and the dimeasionaliy ofthe dataset, pipeline of processing algorithms haven been applied on each capital to investigate the original inition and\npotetilly confirm them using automated classTeation lool The purpose i to dfie deferent types of iveliboedstraepes. such groupe of ivelnoods segs can be\neterna effects on variables though derisons cnn be anipated and some decision support ean take pace inthe overall staepes spans povey and protecting the\nvst well ulitesivie choices utthe hoses revel" + }, + { + "id": 97243, + "strid": "9eb7d7e0-3ae9-4657-bb19-9ce73dbec30c", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 32.008, + 391.255, + 84.463, + 15.660000000000025 + ], + "priority": 7, + "parents": [ + 97256 + ], + "children": [ + 97249, + 97253, + 97252, + 97250, + 97251 + ], + "area": 12523.290040000002, + "iscrowd": 0, + "segmentation": [], + "text": "Methodology" + }, + { + "id": 97253, + "strid": "05863849-d06f-4542-9e2e-903abb3298c5", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 35.079, + 414.505, + 338.102, + 196.54899999999998 + ], + "priority": 8, + "parents": [ + 97243 + ], + "children": [], + "area": 14540.420895, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97252, + "strid": "3f959265-66b9-4f23-82ac-4f4bb1af12b2", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 398.843, + 388.657, + 325.175, + 50.956999999999994 + ], + "priority": 9, + "parents": [ + 97243 + ], + "children": [], + "area": 155013.123851, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97249, + "strid": "3186347b-9203-4644-9d9f-83d3e6563c8e", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 384.686, + 445.283, + 335.191, + 93.01599999999996 + ], + "priority": 10, + "parents": [ + 97243 + ], + "children": [], + "area": 171294.136138, + "iscrowd": 0, + "segmentation": [], + "text": "1. Theoretical Fra\nApplication\n\nThis appeeac consis in a way to improve understanding ofthe velihoods of poor\nPeople. People ate the main concern, as much as elements and selaonships\nsfocing. them and their live choices and. stegies. Main consists and\nopportunities ate denied. In cur ease, relationships between poople and the\nBiosphere Reserve afe analysed. We intoduced an’ additional variables in the\nanalysis: spatial elements and theit localisation,\n\n \n\newmork: Suetainable Livelikesds Appreach and ite" + }, + { + "id": 97250, + "strid": "2cd91644-ee8f-4e6d-8c01-2d9b6e5520f1", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 384.551, + 549.084, + 335.33200000000005, + 94.43799999999999 + ], + "priority": 11, + "parents": [ + 97243 + ], + "children": [], + "area": 211150.801284, + "iscrowd": 0, + "segmentation": [], + "text": "2. Techaleal Tools: Dats Race and Factor Anslysis of Milzed Data (FARO)\nFAMD is statistical atrial method devoted to dats ables in which individuals\n\n(nou ease houscols) are described bo by quate snd qualitative variables\nRoughly, we ean say that FAMD weeks as Principal Compenentdnabss (PCA)\nfor quantitative dat and as a Muliple Correspondence Anais (MCA) for\nqualitative data One of che main purpose of thse stitial procedures is\nJiensinal reduction of high-dimensional dat-space by prsevig information\noa variables and interrelations in the dataset as smack an poccibte." + }, + { + "id": 97251, + "strid": "03f6b76c-bd66-4ce6-89b2-8426c31b3290", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.737, + 637.163, + 682.742, + 34.18100000000004 + ], + "priority": 12, + "parents": [ + 97243 + ], + "children": [], + "area": 23407.457131000003, + "iscrowd": 0, + "segmentation": [], + "text": "3. Analysis: Spatial Issues and Clustering\nI ou nays, spatial vaiables ae significant. Inded, the impact ofthe Biosphere Reseve on households opportunities is wo egiibe, While chsterng allows grouping\na cet of objects aed definitions of typologies and livelihoods” Strategies." + }, + { + "id": 97244, + "strid": "bad12a71-b6b7-4b38-a2a2-c01337331eda", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 32.856, + 680.292, + 43.748, + 14.058999999999969 + ], + "priority": 13, + "parents": [ + 97256 + ], + "children": [ + 97254 + ], + "area": 22351.673952, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 97254, + "strid": "53c897b0-688c-4ade-9c50-324a0ea22e18", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 27.58, + 682.459, + 699.279, + 238.57900000000006 + ], + "priority": 14, + "parents": [ + 97244 + ], + "children": [], + "area": 18822.21922, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97245, + "strid": "d9db762d-7100-4fbf-bb77-a5e6a4254b42", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 32.134, + 933.278, + 68.399, + 15.437999999999988 + ], + "priority": 15, + "parents": [ + 97256 + ], + "children": [ + 97255 + ], + "area": 29989.955252, + "iscrowd": 0, + "segmentation": [], + "text": "Cee es)" + }, + { + "id": 97255, + "strid": "e9332f05-9c91-423f-80de-d0a574b5a02c", + "image_id": 204261, + "image_name": "121744.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 32.172, + 952.486, + 666.665, + 33.26800000000003 + ], + "priority": 16, + "parents": [ + 97245 + ], + "children": [], + "area": 30643.379591999998, + "iscrowd": 0, + "segmentation": [], + "text": "SS a ee ee nL Rea ROLL aL\nPON TE SOIT ae ESTE ann" + }, + { + "id": 139567, + "strid": "bc426ae4-c94c-4a81-97fb-86849c556ec4", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2687.25, + 23.07, + 229.8800000000001, + 204.34 + ], + "priority": -1, + "parents": [], + "children": [ + 139547, + 139543, + 139549, + 139546, + 139544, + 139545, + 139548 + ], + "area": 61994.8575, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139543, + "strid": "7b0382f4-f2e0-4fc3-b0a7-52d78814a616", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 59.928, + 45.742, + 2461.329, + 227.78400000000002 + ], + "priority": 1, + "parents": [ + 139567 + ], + "children": [], + "area": 2741.2265759999996, + "iscrowd": 0, + "segmentation": [], + "text": "Probabilistic Gene Signatures Identify Cell-\nTypes in Single-Cell RNAseq Data" + }, + { + "id": 139544, + "strid": "aec1e90f-eca6-4d94-b1da-30ea9ceac737", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 59.928, + 332.581, + 2056.38, + 137.09199999999998 + ], + "priority": 2, + "parents": [ + 139567 + ], + "children": [], + "area": 19930.914168, + "iscrowd": 0, + "segmentation": [], + "text": "Isabella N. Grabski!, Rafael A. Irizarry?!\n\n| Harvard University, Department of Biostatistics 2 Dana Farber Cancer Institute, Department of Data Sciences" + }, + { + "id": 139545, + "strid": "cced79a6-0a19-4d3f-a03c-13823245ad7e", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1447.42, + 576.936, + 418.80899999999997, + 57.24699999999996 + ], + "priority": 3, + "parents": [ + 139567 + ], + "children": [ + 139550 + ], + "area": 835068.70512, + "iscrowd": 0, + "segmentation": [], + "text": "1. Introduction" + }, + { + "id": 139550, + "strid": "45b04aa4-22fa-4375-9a9f-4ec55664c7c5", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 78.854, + 673.172, + 3155.035, + 339.134 + ], + "priority": 4, + "parents": [ + 139545 + ], + "children": [], + "area": 53082.304888, + "iscrowd": 0, + "segmentation": [], + "text": "Single-cell RNA sequencing (scRNA-seq) quantifies the gene expression of individual cells in a sample, which allows distinct cell-type populations to be identified\nand characterized. An important step in many scRNA-seq analysis pipelines is the classification of cells into known cell-types. While this can be achieved using\nexperimental techniques, such as fluorescence-activated cell sorting, these approaches are impractical for large numbers of cells. This motivates the development\nof data-driven cell-type identification methods. We find limitations with current approaches due to the reliance on known marker genes and overfitting to\ntraining data. Here we present a computationally light statistical approach, based on Naive Bayes, that leverages public datasets to combine information across\nthousands of genes and probabilistically assign cell-type identity." + }, + { + "id": 139546, + "strid": "ed4cc751-8800-4ee9-952b-6d63e831fe1a", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 233.177, + 1090.655, + 686.966, + 69.29899999999998 + ], + "priority": 5, + "parents": [ + 139567 + ], + "children": [ + 139551, + 139557, + 139552, + 139560 + ], + "area": 254315.660935, + "iscrowd": 0, + "segmentation": [], + "text": "2. Issues with Clustering" + }, + { + "id": 139551, + "strid": "e4ecf78a-b47e-4227-b935-0b0ae4690131", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.39, + 1191.896, + 991.2790000000001, + 221.02800000000002 + ], + "priority": 6, + "parents": [ + 139546 + ], + "children": [], + "area": 94624.62344, + "iscrowd": 0, + "segmentation": [], + "text": "One of the most common approaches to cell-type\nidentification is to cluster the data and look for\nmarkers among the differentially expressed genes.\nThis approach has several issues:" + }, + { + "id": 139557, + "strid": "a7aff938-da0b-4a37-86d5-f19175c7ae4d", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 152.816, + 1457.101, + 915.415, + 562.2240000000002 + ], + "priority": 7, + "parents": [ + 139546 + ], + "children": [], + "area": 222668.34641600001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139552, + "strid": "06b585ce-fd7b-4584-94b0-2873792b2909", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.322, + 2063.966, + 992.9040000000001, + 221.17300000000023 + ], + "priority": 8, + "parents": [ + 139546 + ], + "children": [], + "area": 163717.911052, + "iscrowd": 0, + "segmentation": [], + "text": "We further observe that clustering can artifi-\ncally identify more cell-types with increasing\ndataset size. For example, we apply Seurat v3\nclustering to a PBMCs dataset with 4 cell-types:" + }, + { + "id": 139560, + "strid": "28fbbc0c-b1b6-4c4a-a4d1-06327b40bbcb", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 108.203, + 2326.456, + 932.4280000000001, + 560.1459999999997 + ], + "priority": 9, + "parents": [ + 139546 + ], + "children": [], + "area": 251729.51856800003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139548, + "strid": "fa8bd7d9-794f-45fb-90b1-7a706f1ea5de", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 337.237, + 2980.376, + 473.8550000000001, + 67.10199999999986 + ], + "priority": 10, + "parents": [ + 139567 + ], + "children": [ + 139554, + 139553, + 139558 + ], + "area": 1005093.0611120001, + "iscrowd": 0, + "segmentation": [], + "text": "3. Our Approach" + }, + { + "id": 139553, + "strid": "a55a270c-79ad-4c9f-8577-3490d5ece559", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.839, + 3079.997, + 999.6010000000001, + 683.6500000000001 + ], + "priority": 11, + "parents": [ + 139548 + ], + "children": [], + "area": 239743.88648299998, + "iscrowd": 0, + "segmentation": [], + "text": "We model counts of gene 7 in cell-type k as\nyjr ~ Poisson(N;Ajx), with\n\nAjk © 71,jkExp(aj) + 72,;4LogNormal(j41 + 91,7, 07,5)\n+ (1 = 11,56 — 72,jn)LogNormal(fi2 + 92,7,03,3)s\n\na mixture of two unexpressed components and\n\none expressed component. We interpret j11, [2\n\nas global unexpressed and expressed means, and\nJ1,j> 92,7 aS gene-specific shifts.\n\nWe use this model in a probabilistic, data-driven\napproach to cell-type identification:" + }, + { + "id": 139558, + "strid": "0648d150-8a24-44c1-bf83-42e008533dbe", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 139.372, + 3807.079, + 932.463, + 620.6879999999996 + ], + "priority": 12, + "parents": [ + 139548 + ], + "children": [], + "area": 530600.2143880001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139554, + "strid": "8cd5961a-7896-441f-8980-7148ec8d1679", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.701, + 4470.839, + 988.9649999999999, + 167.91600000000017 + ], + "priority": 13, + "parents": [ + 139548 + ], + "children": [], + "area": 356330.339139, + "iscrowd": 0, + "segmentation": [], + "text": "The cell-type-specific 77;,,, define probabilistic gene\nsignatures (i.e. the probability that each gene is\nexpressed in each cell-type)." + }, + { + "id": 139547, + "strid": "280ebda0-2a6b-4630-94c6-b0587f340d9f", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2054.542, + 1095.174, + 281.7159999999999, + 57.24700000000007 + ], + "priority": 14, + "parents": [ + 139567 + ], + "children": [ + 139561, + 139559, + 139563, + 139562, + 139556 + ], + "area": 2250080.980308, + "iscrowd": 0, + "segmentation": [], + "text": "4. Results" + }, + { + "id": 139561, + "strid": "10ceb247-00b3-41d9-b243-bde3f9df38ec", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1199.195, + 1287.169, + 2002.738, + 677.346 + ], + "priority": 15, + "parents": [ + 139547 + ], + "children": [ + 139566 + ], + "area": 1543566.628955, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139566, + "strid": "0588b294-f1c2-46a0-91aa-2f673a0a831b", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1160.914, + 1188.483, + 1692.7499999999998, + 55.69200000000001 + ], + "priority": 16, + "parents": [ + 139561 + ], + "children": [], + "area": 1379726.5534619999, + "iscrowd": 0, + "segmentation": [], + "text": "Result 1: We characterize gene-specific distributions across diverse cell-types." + }, + { + "id": 139562, + "strid": "26fff1a1-225f-4771-9cef-ebd1223172fd", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1178.513, + 2123.08, + 2032.038, + 613.576 + ], + "priority": 17, + "parents": [ + 139547 + ], + "children": [ + 139565 + ], + "area": 2502077.3800399997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139565, + "strid": "e07a37df-01a1-4362-9a24-02b86d44a6d8", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1163.845, + 2028.263, + 1610.677, + 52.76099999999997 + ], + "priority": 18, + "parents": [ + 139562 + ], + "children": [], + "area": 2360583.751235, + "iscrowd": 0, + "segmentation": [], + "text": "Result 2: Probabilistic gene signatures validate and identify marker genes." + }, + { + "id": 139563, + "strid": "c510c7e9-1399-44f0-94a0-5876cb9d2590", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1261.242, + 2943.479, + 1866.5800000000002, + 472.2460000000001 + ], + "priority": 19, + "parents": [ + 139547 + ], + "children": [ + 139564 + ], + "area": 3712439.340918, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139564, + "strid": "9b4e932f-7ca5-4f19-9240-f32f72449838", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1159.449, + 2799.16, + 2069.405, + 105.52199999999993 + ], + "priority": 20, + "parents": [ + 139563 + ], + "children": [], + "area": 3245483.26284, + "iscrowd": 0, + "segmentation": [], + "text": "Result 3: Our approach outperforms existing data-driven methods for cell-type identification,\nespecially with different coverage between reference and unlabeled data." + }, + { + "id": 139556, + "strid": "b3e54eec-d663-4f94-9ca6-f06beefb183d", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1154.382, + 3469.156, + 2074.96, + 166.07499999999982 + ], + "priority": 21, + "parents": [ + 139547 + ], + "children": [], + "area": 4004731.2415920002, + "iscrowd": 0, + "segmentation": [], + "text": "We also demonstrate improved performance with extremely small reference data (50 cells per cell-type)\nand misannotated reference data. We note the following key differences between our approach and many\nexisting methods:" + }, + { + "id": 139559, + "strid": "f0fdbef6-4818-4ff7-bf9a-15080572cb46", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1232.626, + 3680.34, + 2000.5180000000003, + 258.79100000000017 + ], + "priority": 22, + "parents": [ + 139547 + ], + "children": [], + "area": 4536482.77284, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 139549, + "strid": "5620a4c6-4d66-4d36-b82d-60f7e94282a4", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2006.379, + 4022.338, + 379.9659999999999, + 60.94999999999982 + ], + "priority": 23, + "parents": [ + 139567 + ], + "children": [ + 139555 + ], + "area": 8070334.494102, + "iscrowd": 0, + "segmentation": [], + "text": "5. References" + }, + { + "id": 139555, + "strid": "0505917b-f080-4fb5-a11a-c90785961cfa", + "image_id": 205924, + "image_name": "16732.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1157.449, + 4119.292, + 2076.198, + 475.6229999999996 + ], + "priority": 24, + "parents": [ + 139549 + ], + "children": [], + "area": 4767870.406108, + "iscrowd": 0, + "segmentation": [], + "text": "Franzén, O., Gan, L. M., Bjérkegren, J. L. (2019). PanglaoDB: a web server for exploration of mouse and human\nsingle-cell RNA sequencing data. Database, 2019.\n\nStuart, T., Butler, A., Hoffman, P., Hafemeister, C., Papalexi, E., Mauck Ill, W. M., .... Satija, R. (2019).\nComprehensive integration of single-cell data. Cell, 177(7), 1888-1902.\n\nZhang, X., Lan, Y., Xu, J., Quan, F., Zhao, E., Deng, C., .... Ping, Y. (2019). CellMarker: a manually curated\nresource of cell markers in human and mouse. Nucleic acids research, 47(D1), D721-D728.\n\nZheng, G. X., Terry, J. M., Belgrader, P., Ryvkin, P., Bent, Z. W., Wilson, R., .... Gregory, M. T. (2017).\nMassively parallel digital transcriptional profiling of single cells. Nature communications, 8(1), 1-12." + }, + { + "id": 155486, + "strid": "2afdcf3f-76be-4461-9d46-c112ed40a339", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 26.7, + 48.11, + 249.04000000000002, + 191.57 + ], + "priority": -1, + "parents": [], + "children": [ + 155468, + 155472, + 155473, + 155469, + 155471, + 155470 + ], + "area": 1284.537, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155468, + "strid": "0c641feb-0616-47f8-b3db-2a1c9c1de0e8", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 232.481, + 308.126, + 1717.767, + 166.75599999999997 + ], + "priority": 1, + "parents": [ + 155486 + ], + "children": [], + "area": 71633.44060599999, + "iscrowd": 0, + "segmentation": [], + "text": "A Scalable Privacy-Preserving Machine Learning\nUsing Homomorphic Encryption for Bioinformatician" + }, + { + "id": 155469, + "strid": "980addf1-a690-4f10-8d9b-8b8bb312d381", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 234.274, + 501.779, + 1052.7130000000002, + 123.72199999999998 + ], + "priority": 2, + "parents": [ + 155486 + ], + "children": [], + "area": 117553.773446, + "iscrowd": 0, + "segmentation": [], + "text": "S00-Heang Abel Eo and Song Hyeop Park\nCryptoLab Inc. abel.eo@cryptolab.co.kr" + }, + { + "id": 155473, + "strid": "73d9d5bc-331d-4393-b4d1-ddab84b049c5", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 233.547, + 694.682, + 2851.497, + 317.433 + ], + "priority": 3, + "parents": [ + 155486 + ], + "children": [], + "area": 162240.897054, + "iscrowd": 0, + "segmentation": [], + "text": "Homomorphic Encryption (HE) is a cryptographic scheme that enables arbitrary computations over encrypted data. It offers perfect\nprotection for data at rest, in use, and in transit because encrypted data can be analyzed without decryption. We introduce HEaaN, a new\nscalable privacy-preserving data analysis tool that uses HE technology. HEaaN provides various statistics and machine learning toolkits,\nsuch as linear models, logistic regression, and more. The package offers user-friendly APIs similar to those of popular data analysis tools\nlike Pandas and scikit-learn in Python and R. Additionally, HEaaN supports data analysis such as Polygenic Risk Scores and Ancestry\nInference and integrates with tools developed within R/Bioconductor packages." + }, + { + "id": 155470, + "strid": "f24f02a1-6c7b-42fc-b5aa-9a07bbe9f665", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 279.122, + 1121.032, + 1120.838, + 91.49700000000007 + ], + "priority": 4, + "parents": [ + 155486 + ], + "children": [ + 155474, + 155479, + 155476, + 155478 + ], + "area": 312904.693904, + "iscrowd": 0, + "segmentation": [], + "text": "Homomorphic Encryption" + }, + { + "id": 155474, + "strid": "a4d9df54-2378-4eb5-b632-d807a4480f4e", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 232.734, + 1296.63, + 1328.64, + 590.4259999999999 + ], + "priority": 5, + "parents": [ + 155470 + ], + "children": [], + "area": 301769.88642000005, + "iscrowd": 0, + "segmentation": [] + }, + 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258.149, + 2492.562, + 426.32499999999993, + 174.27700000000004 + ], + "priority": 8, + "parents": [ + 155470 + ], + "children": [], + "area": 643452.387738, + "iscrowd": 0, + "segmentation": [], + "text": "Principle of Homomorphic Encryption\n\nPrinciple of analyzing encrypted data.\n\nIt can be seen that value of adding two\ndifferent messages (stage is exactly same\nwhen one decrypts the corresponding\nvalue of ciphertext (stage 3)" + }, + { + "id": 155479, + "strid": "be2bad73-7bc0-4b48-acc2-83e05cccd2d3", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 777.573, + 2498.238, + 451.87, + 168.5999999999999 + ], + "priority": 9, + "parents": [ + 155470 + ], + "children": [], + "area": 1942562.4163739998, + "iscrowd": 0, + "segmentation": [], + "text": "Decrypt with the secret key.\n\nCiphertext is obtained by adding multiples\n\nof secret key to original information.\n\nIn the above example, If one knows\n\nsecret key 12345’, one can subtract multiples of\nsecret key '12345' to get original information." + }, + { + "id": 155471, + "strid": "add409bc-55ac-4e9f-b0de-3d4988ca648c", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1760.23, + 1124.463, + 987.0239999999999, + 92.64100000000008 + ], + "priority": 10, + "parents": [ + 155486 + ], + "children": [ + 155480, + 155475 + ], + "area": 1979313.50649, + "iscrowd": 0, + "segmentation": [], + "text": "Privacy-Preserving ML" + }, + { + "id": 155475, + "strid": "56b3c9df-2be2-4523-98d0-00e7cf08ec94", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1709.244, + 1293.076, + 1329.474, + 661.152 + ], + "priority": 11, + "parents": [ + 155471 + ], + "children": [], + "area": 2210182.394544, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155480, + "strid": "83fe349c-f790-49ab-b584-c4c711624e09", + "image_id": 206567, + 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"parents": [ + 155486 + ], + "children": [ + 155484, + 155483, + 155482, + 155485 + ], + "area": 854091.160956, + "iscrowd": 0, + "segmentation": [], + "text": "Usability for HEaaN" + }, + { + "id": 155482, + "strid": "334da0b0-678a-4b08-90b2-f1e093300f43", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 232.812, + 3081.586, + 2340.56, + 66.32400000000007 + ], + "priority": 15, + "parents": [ + 155472 + ], + "children": [], + "area": 717430.199832, + "iscrowd": 0, + "segmentation": [], + "text": "User-friendly APIs that are similar to those of famous data analysis tools such as tidyverse in R." + }, + { + "id": 155483, + "strid": "fb044624-4694-4538-aa02-035bc41161b4", + "image_id": 206567, + "image_name": "22893.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 314.257, + 3254.428, + 1312.001, + 1280.7489999999998 + ], + "priority": 16, + "parents": [ + 155472 + ], + "children": [], + "area": 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+ "category_id": 9, + "category_name": "Root", + "bbox": [ + 55.63, + 37.9, + 96.1, + 214.35999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 24319, + 24320, + 24317, + 24332, + 24326, + 24338, + 24331, + 24318 + ], + "area": 2108.377, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24317, + "strid": "928044bd-330b-469b-b048-db61c714bce1", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 684.271, + 42.058, + 2303.2780000000002, + 88.27200000000002 + ], + "priority": 1, + "parents": [ + 24339 + ], + "children": [], + "area": 28779.069718, + "iscrowd": 0, + "segmentation": [], + "text": "COLNIS UP-REGULATES REELIN EXPRESSION IN THE-COLON" + }, + { + "id": 24318, + "strid": "b19916de-5453-40ac-8647-467765e117b7", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 526.203, + 177.545, + 2631.731, + 160.121 + ], + "priority": 2, + "parents": [ + 24339 + ], + "children": [], + "area": 93424.71163499999, + "iscrowd": 0, + "segmentation": [], + "text": "A.E. Carvajal, M.D. Vazquez-Carretero, A.A. Ilundain, M.L. Calonge and M.J. Peral\n\nDepartamento Fisiologia)Facultad de Farmacia, Universidad de Sevilla" + }, + { + "id": 24320, + "strid": "43e39ecb-1842-4c3a-ac55-539930c54eef", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 472.829, + 446.466, + 414.67199999999997, + 55.42599999999999 + ], + "priority": 3, + "parents": [ + 24339 + ], + "children": [ + 24321 + ], + "area": 211102.07231400002, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 24321, + "strid": "e353bd0a-629d-4b59-b44b-ff3cf0eb8e68", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 51.999, + 516.263, + 1246.069, + 835.503 + ], + "priority": 4, + "parents": [ + 24320 + ], + "children": [], + "area": 26845.159737, + "iscrowd": 0, + "segmentation": [], + "text": "Subepithelial myofibroblasts secrete substances that control intestinal\norganogenesis and wound repair and participate in immune and inflammatory\nresponses. We reported that the subepithelial myofibroblasts of rodent small\nintestine express reelin and that reelin is involved in the control of crypt-villus\nunit cell renewal processes [1,2]. Reelin deficiency also modifies the\nexpression of genes related with intestinal immune response and\ninflammation [3].\n\nThe response of the target cells to reelin requires the presence in their\nmembrane of either the very low density lipoprotein receptor (VidIR) or the\napolipoprotein E receptor 2 (ApoER2) [4]. Reelin binding to these receptors\nresults in phosphorylation of the Disabled-1 (Dab1) adapter protein and in\nactivation of downstream signalling pathway (s).\n\nThe aim of this study was to investigate whether: i) mice colon expresses\nthe reelin- Dab1 signalling system and ii) the colonic inflammation modifies\nthis system." + }, + { + "id": 24319, + "strid": "9b6a23cb-7f66-4fba-9f6d-7edb8ab6b2ac", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1934.446, + 434.149, + 704.1210000000001, + 65.69100000000003 + ], + "priority": 5, + "parents": [ + 24339 + ], + "children": [ + 24323, + 24324, + 24325, + 24322 + ], + "area": 839837.7964539999, + "iscrowd": 0, + "segmentation": [], + "text": "MATERIALS AND METHODS" + }, + { + "id": 24322, + "strid": "46258726-4759-483f-bda9-085d3d99594b", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1338.077, + 517.659, + 1895.7280000000003, + 209.47300000000007 + ], + "priority": 6, + "parents": [ + 24319 + ], + "children": [], + "area": 692667.601743, + "iscrowd": 0, + "segmentation": [], + "text": "Animals and Treatment\n\n12 week-old mice (C57BL/6J) were given either water (control) or water containing 3% dextran sodium sulfate (DSS)\nfor 10 days to induce experimental colitis. The extent of colonic inflammation was determined using established clinical\nand histological scoring systems. All procedures were accord with current national/local ethical guidelines." + }, + { + "id": 24323, + "strid": "df140118-b94c-46e2-bdc5-c56599ffb000", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1339.823, + 742.842, + 1904.456, + 209.47300000000007 + ], + "priority": 7, + "parents": [ + 24319 + ], + "children": [], + "area": 995276.796966, + "iscrowd": 0, + "segmentation": [], + "text": "Isolation of mucosal colonic cells\n\nColonocytes and myofibroblasts enriched fractions were isolated by using either a calcium and magnesium-free PBS\nbuffer containing 1mM EDTA and.2 mM glucose or PBS containing 1 mg/mL collagenase and 2 mg/mL hyaluronidase,\nrespectively." + }, + { + "id": 24324, + "strid": "46992a26-1b7d-42f7-b36b-e64fd9be74d2", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1341.569, + 969.771, + 1890.491, + 167.57799999999997 + ], + "priority": 8, + "parents": [ + 24319 + ], + "children": [], + "area": 1301014.710699, + "iscrowd": 0, + "segmentation": [], + "text": "Real time PCR\nTotal RNA was isolated from the proximal and distal colon. B-actin was used to normalize the mRNA levels. Villin and\na- Smooth muscle actin (a-SMA) were used as a markers of colonocytes and myofibroblasts, respectively." + }, + { + "id": 24325, + "strid": "84a0f128-4393-4c93-a5f2-375001ad1b0a", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1343.314, + 1149.569, + 1885.2540000000001, + 212.96399999999994 + ], + "priority": 9, + "parents": [ + 24319 + ], + "children": [], + "area": 1544232.131666, + "iscrowd": 0, + "segmentation": [], + "text": "Immunostaining\n\nSlides containing either isolated cells or 5 um-paraffin sections of proximal and distal colon were incubated with the\nindicated primary antibody (O/N at 4°C) and then with the appropiate biotinylated secundary antibodies. The slides\nwere analysed with a Zeiss microscope equipped with a SPOT digital camera." + }, + { + "id": 24326, + "strid": "d48060ff-eeb4-4833-b2be-1ddd03b1a468", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1460.27, + 1435.848, + 268.82299999999987, + 66.33300000000008 + ], + "priority": 10, + "parents": [ + 24339 + ], + "children": [ + 24329, + 24336, + 24330, + 24327, + 24335, + 24328 + ], + "area": 2096725.75896, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 24327, + "strid": "cd3ffa77-e028-4b85-b75c-e98093b771fd", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 113.826, + 1533.602, + 1277.202, + 1664.144 + ], + "priority": 11, + "parents": [ + 24326 + ], + "children": [], + "area": 174563.781252, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24330, + "strid": "382aa6f2-9b6a-41be-8855-33e4d5b917e8", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 178.247, + 3239.308, + 1205.299, + 178.7170000000001 + ], + "priority": 12, + "parents": [ + 24326 + ], + "children": [], + "area": 577396.9330760001, + "iscrowd": 0, + "segmentation": [], + "text": "A; mRNA relative expression in isolated cells from the colon of control mice. Data\nare means + SEM of 4 animals in each experimental group. B; Representative\n\nphotomicrographs of isolated cells from the colon of control mice. Bars represents\n5 um." + }, + { + "id": 24328, + "strid": "52ea332a-2bc2-4cde-ae51-de64ea5eca25", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1632.503, + 1583.061, + 1556.4980000000003, + 986.267 + ], + "priority": 13, + "parents": [ + 24326 + ], + "children": [], + "area": 2584351.8316829996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24329, + "strid": "3d1b068b-29a9-41c6-9148-67adc2977075", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1678.637, + 2630.424, + 1487.921, + 132.9989999999998 + ], + "priority": 14, + "parents": [ + 24326 + ], + "children": [], + "area": 4415527.052088, + "iscrowd": 0, + "segmentation": [], + "text": "A; mRNA relative expression in the colon of control mice. B; mRNA fold-changes of DSS- treated vs.\ncontrol mice. Data are means + SEM of 6-8 animals in each experimental group. a-SMA was used as a\nmyofibroblasts marker. t test; * p<0.001, #p<0.01 DSS- treated vs. control mice." + }, + { + "id": 24336, + "strid": "c20db0ca-71f5-4b10-ac10-4570974de673", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1539.404, + 2904.734, + 1585.592, + 1402.7189999999996 + ], + "priority": 15, + "parents": [ + 24326 + ], + "children": [], + "area": 4471559.138536, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24335, + "strid": "295fe9c2-f9f4-44d0-baf8-7cdb3ed0912b", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1730.589, + 4371.874, + 1394.4070000000002, + 128.84199999999964 + ], + "priority": 16, + "parents": [ + 24326 + ], + "children": [], + "area": 7565917.053785999, + "iscrowd": 0, + "segmentation": [], + "text": "Representative photomicrographs of colon sections from control and DSS-treated mice.\nNegative controls without primary antibody were run in parallel (not shown). a-SMA was a\nmyofibroblasts marker. Bars represents 50 um." + }, + { + "id": 24331, + "strid": "42e580e2-1136-406a-8743-a2b16650ff36", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 608.414, + 3422.181, + 390.683, + 54.03099999999995 + ], + "priority": 17, + "parents": [ + 24339 + ], + "children": [ + 24334 + ], + "area": 2082102.830934, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 24334, + "strid": "0605fff9-e6e5-4f9c-a0a7-97bcb56c7c0a", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 226.043, + 3499.071, + 1165.815, + 600.5720000000001 + ], + "priority": 18, + "parents": [ + 24331 + ], + "children": [], + "area": 790940.506053, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24332, + "strid": "da798e7a-1cf3-45a9-ba99-2d83df702e13", + "image_id": 201477, + "image_name": "117184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 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Bath, Julie Ellis, Sarah Hargreaves and Melanie Lovatt\nInformation School, University of Sheffield UK" + }, + { + "id": 1276, + "strid": "3462c4e4-3339-4eca-aa97-e9f095fcb31d", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 647.734, + 624.761, + 351.55499999999995, + 59.57000000000005 + ], + "priority": 3, + "parents": [ + 1298 + ], + "children": [ + 1283 + ], + "area": 404678.941574, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 1283, + "strid": "ccc7ec98-a7be-4b90-9589-9c7fb7e3ec82", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.447, + 711.469, + 1482.152, + 540.461 + ], + "priority": 4, + "parents": [ + 1276 + ], + "children": [], + "area": 64350.236643000004, + "iscrowd": 0, + "segmentation": [], + "text": "There are increasing opportunities for people with Motor Neurone Disease\n(MND) to seek information and share knowledge and experiences online [1].\n\nWhile some attention has been paid to information exchange and provision of\nadvice [2], few studies focus on the processes of sharing of information and\nexperiences. Moreover, the role of trust and empathy in mediating online\nsharing is under-researched [3].\n\nEmpathy is defined as: (a) knowing what the other person is feeling, (b) feeling\nwhat the other person is feeling, and (c) responding compassionately to\nanother person’s distress [4]." + }, + { + "id": 1277, + "strid": "6bd9c6be-f018-4f78-96fa-6442b0d1f95f", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 677.267, + 1337.283, + 301.067, + 60.121000000000095 + ], + "priority": 5, + "parents": [ + 1298 + ], + "children": [ + 1295, + 1284 + ], + "area": 905697.645561, + "iscrowd": 0, + "segmentation": [], + "text": "Study Aim" + }, + { + "id": 1295, + "strid": "9ec81756-d295-4b75-96fb-4cb9ad62b47c", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 84.713, + 1419.087, + 1482.438, + 147.82500000000005 + ], + "priority": 6, + "parents": [ + 1277 + ], + "children": [], + "area": 120215.11703099999, + "iscrowd": 0, + "segmentation": [], + "text": "The aim of this study is to investigate how people living with MND share\ninformation and experiences within the UK based Motor Neurone Disease\nAssociation (the Association) discussion forum. The study ask three questions:-" + }, + { + "id": 1284, + "strid": "a182775d-611d-4456-bf93-4fb99763be15", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 89.072, + 1589.976, + 1479.8319999999999, + 230.40599999999995 + ], + "priority": 7, + "parents": [ + 1277 + ], + "children": [], + "area": 141622.342272, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1278, + "strid": "d77b84ed-0901-4ee9-bff2-0cb9e7628366", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 702.962, + 1922.195, + 258.7629999999999, + 46.919000000000096 + ], + "priority": 8, + "parents": [ + 1298 + ], + "children": [ + 1294, + 1285 + ], + "area": 1351230.04159, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 1285, + "strid": "acd97a31-eaf2-41ce-99b1-15a0821e6c69", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 82.7, + 2003.183, + 1481.516, + 213.03999999999996 + ], + "priority": 9, + "parents": [ + 1278 + ], + "children": [], + "area": 165663.2341, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1294, + "strid": "3829cd87-417b-48c7-be98-331f49b45ef5", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 86.787, + 2239.011, + 1480.33, + 196.89300000000003 + ], + "priority": 10, + "parents": [ + 1278 + ], + "children": [], + "area": 194317.04765700002, + "iscrowd": 0, + "segmentation": [], + "text": "Our thinking was informed by the interplay between the two data sources, as\neach gave insights into the other. The interviews gave voice to reflections about\nempathy, and the threads gave examples of how it is played out within the online\ncommunity." + }, + { + "id": 1279, + "strid": "9890a7da-c3a8-4557-b6a1-9c9567b1e6a7", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 379.651, + 2517.234, + 899.547, + 65.30000000000018 + ], + "priority": 11, + "parents": [ + 1298 + ], + "children": [ + 1293, + 1286 + ], + "area": 955670.405334, + "iscrowd": 0, + "segmentation": [], + "text": "Initial theoretical propositions" + }, + { + "id": 1286, + "strid": "e3a85be1-230f-43a3-a526-500bec4ed517", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 83.543, + 2598.92, + 1487.7509999999997, + 518.5569999999998 + ], + "priority": 12, + "parents": [ + 1279 + ], + "children": [], + "area": 217121.57356000002, + "iscrowd": 0, + "segmentation": [], + "text": "Why people use the forum?\n\nInitial analysis revealed that interview participants with MND were drawn to the\nAssociation forum by common experiences and needs. Diagnosis was a common\nentry point, with one participant describing how his MND diagnosis left him in a\n“void,” struggling to understand what the diagnosis meant, and looking for help\nand support:-\n\n.. you're not getting help from anywhere else, what are you going to do? Youre\ndesperate for information. You're desperate for some help really and for some\nsupport in your situation (Tom*)" + }, + { + "id": 1293, + "strid": "955363e0-46b8-4c45-9aac-98ea863c25d7", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 573.565, + 3139.743, + 515.787, + 391.27199999999993 + ], + "priority": 13, + "parents": [ + 1279 + ], + "children": [], + "area": 1800846.6937950002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1280, + "strid": "a72701db-7123-44c1-8250-ba27b2014dde", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 84.466, + 3546.346, + 176.07999999999998, + 29.56100000000015 + ], + "priority": 14, + "parents": [ + 1298 + ], + "children": [ + 1287 + ], + "area": 299545.66123599996, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 1287, + "strid": "50083ba8-535c-436b-b5d3-1a7ff3cd98de", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.124, + 3598.229, + 1501.262, + 370.31100000000015 + ], + "priority": 15, + "parents": [ + 1280 + ], + "children": [], + "area": 277509.81339599995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1297, + "strid": "c326725a-0ac3-414a-bd53-cfd0388d30db", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 84.215, + 4092.308, + 130.663, + 27.90899999999965 + ], + "priority": 16, + "parents": [ + 1298 + ], + "children": [ + 1296, + 1292, + 1290, + 1291 + ], + "area": 344633.71822000004, + "iscrowd": 0, + "segmentation": [], + "text": "Funders" + }, + { + "id": 1296, + "strid": "09b987a9-85d1-4971-ba01-bede6629e1bf", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 78.153, + 4148.976, + 1503.884, + 359.8180000000002 + ], + "priority": 17, + "parents": [ + 1297 + ], + "children": [], + "area": 324254.921328, + "iscrowd": 0, + "segmentation": [], + "text": "The ‘A Shared Space and A Space for Sharing’ project is one of several funded through the EMoTICON\nnetwork, which is funded through the following cross-council programmes:\n\nPartnership for Conflict, Crime and Security Research (led by the Economic and Social Research\nCouncil (ESRC)),\n\nConnected Communities (led by the Arts & Humanities Research Council (AHRC)),\n\nDigital Economy (led by the Engineering and Physical Sciences Research Council (EPSRC))\n\nin partnership with:\n\nDefence Science and Technology Laboratory (Dstl),\n\nCentre for the Protection of National Infrastructure (CPNI)." + }, + { + "id": 1292, + "strid": "3d6e4038-1f88-4bc2-b060-291692e883be", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1747.017, + 621.507, + 1452.4729999999997, + 357.773 + ], + "priority": 18, + "parents": [ + 1297 + ], + "children": [], + "area": 1085783.294619, + "iscrowd": 0, + "segmentation": [], + "text": "How empathy is played out on the forum\n\nThe forum provided a space in which empathy can flourish, fostered by the fact\nthat forum members are linked by shared experiences. Newcomers to the\nforum described feeling a connection and affinity with the community, and a\nrecognition that this was a place to feel at home:-\n\nThe forum is my home. It is where | can put my feet up and relax (Vanessa*)" + }, + { + "id": 1291, + "strid": "dc6ee94e-d84d-4a3f-9f9f-cd164ed08a0d", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1745.388, + 1054.47, + 1474.2510000000002, + 709.095 + ], + "priority": 19, + "parents": [ + 1297 + ], + "children": [], + "area": 1840459.28436, + "iscrowd": 0, + "segmentation": [], + "text": "What are the benefits of developing empathetic relationships\n\nCamaraderie encouraged sharing, because those posting messages knew they\nwould be understood by the community. The compassionate space provided\nan opportunity to express things that cannot be said face to face, to vent fears\nand emotions, and to share experiences, problems and solutions.\n\nThere is a tremendous empathetic bond between the forumites. We share a life\nsentence. It cannot be more powerful than that (Vanessa*)\n\nThose receiving support from the forum spoke of the comfort and hope they\nderived from being understood by others sharing the same journey. Shared\ninformation enabled them to prepare for what comes next with the disease.\nThose giving support benefitted from knowing that they had helped others in\ntheir time of need." + }, + { + "id": 1290, + "strid": "aa5cacac-f504-429f-97d6-cef1b54e56b2", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1745.827, + 1840.086, + 1475.425, + 417.4280000000001 + ], + "priority": 20, + "parents": [ + 1297 + ], + "children": [], + "area": 3212471.821122, + "iscrowd": 0, + "segmentation": [], + "text": "What are the challenges of empathetic relationships?\n\nWhilst the tone of the forum was generally positive, there were occasions when\nthe generally congenial space was interrupted by potentially offensive, or\ninconsiderate posts. These caused upset and, for some, this was heart-felt.\n\nDue to the nature of MND, forum members were faced with upsetting situations\nwhen they learned of the death of online friends. This was particularly\nupsetting for those that had formed an emotional connection with that person." + }, + { + "id": 1281, + "strid": "e98d3fc0-8f88-48dc-8db3-e701b09bcfb3", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2341.35, + 2340.607, + 299.2829999999999, + 54.13200000000006 + ], + "priority": 21, + "parents": [ + 1298 + ], + "children": [ + 1289 + ], + "area": 5480180.199449999, + "iscrowd": 0, + "segmentation": [], + "text": "Outcomes" + }, + { + "id": 1289, + "strid": "343f122b-3f67-4f6d-8fe1-0e3bb37fe825", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1742.351, + 2429.046, + 1474.368, + 399.75099999999975 + ], + "priority": 22, + "parents": [ + 1281 + ], + "children": [], + "area": 4232250.727146, + "iscrowd": 0, + "segmentation": [], + "text": "The findings from this research will provide insights into how trust and empathy\ncan be facilitated in online environments, such as peer-support networks for\npeople with life-threatening and terminal conditions.\n\nThis will be of interest and practical use for charitable and health organisations,\nin addition to the Association, that are seeking to explore innovative ways of\nusing, designing and facilitating digital environments to deliver and/or enhance\nsupport services." + }, + { + "id": 1282, + "strid": "5e0f4471-f4fb-4267-89cc-34d9411cf836", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2039.941, + 2917.993, + 886.2259999999999, + 59.96399999999994 + ], + "priority": 23, + "parents": [ + 1298 + ], + "children": [ + 1288 + ], + "area": 5952533.558413, + "iscrowd": 0, + "segmentation": [], + "text": "The Space for Sharing Project" + }, + { + "id": 1288, + "strid": "bdbb9114-12af-4df6-b038-f4d5e2a9976c", + "image_id": 200546, + "image_name": "10218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1746.795, + 3007.304, + 1470.7579999999998, + 592.8159999999998 + ], + "priority": 24, + "parents": [ + 1282 + ], + "children": [], + "area": 5253143.59068, + "iscrowd": 0, + "segmentation": [], + "text": "This research is part of a large-scale transdisciplinary project entitled A Shared\nSpace and a Space for Sharing. This larger project has a number of work\npackages each exploring sharing online in a different extreme circumstance\n(e.g., people experiencing serious illness, suicidal ideation, humanitarian crisis,\ndrug addiction and seeking tissue/ organ donation).\n\nThe overarching aim is to provide a transdisciplinary understanding of the\nonline sharing of personal information, emotion and resources in extreme\ncircumstances.\n\nThe project ‘A Shared Space and A Space for Sharing’ was funded through the\nCross-Council EMoTICON programme.\n\n———_——__" + }, + { + "id": 91038, + "strid": "137ee787-324f-4a71-8946-d62a6b14bd61", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 254.51, + 503.63, + 280.96000000000004, + 204.34000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 91017, + 91031, + 91034, + 91022, + 91029, + 91024, + 91018, + 91033, + 91026, + 91036 + ], + "area": 128178.8713, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91017, + "strid": "9555e231-1508-4faa-9482-cee2847fb63c", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 225.911, + 163.608, + 3488.526, + 290.711 + ], + "priority": 1, + "parents": [ + 91038 + ], + "children": [], + "area": 36960.846888, + "iscrowd": 0, + "segmentation": [], + "text": "Four-color B cell ImmunoSpot Assay for simultaneous\ndetection of all Immunoglobulin classes and IgG subclasses" + }, + { + "id": 91018, + "strid": "f37231e9-38d8-4b7b-bdd8-5119fcaf6d96", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 601.985, + 479.712, + 2749.784, + 161.69799999999998 + ], + "priority": 2, + "parents": [ + 91038 + ], + "children": [], + "area": 288779.42832, + "iscrowd": 0, + "segmentation": [], + "text": "Tameem Ansari, Richard D. Caspell, Alexey Y. Karulin, and Paul V. Lehmann\nCellular Technology Limited ¢ R&D Department ¢ 20521 Chagrin Boulevard ¢ Shaker Heights, OH USA" + }, + { + "id": 91033, + "strid": "7b15ebff-1896-4952-9813-593aff70c559", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 149.5, + 780.678, + 381.369, + 42.706999999999994 + ], + "priority": 3, + "parents": [ + 91038 + ], + "children": [ + 91032, + 91021 + ], + "area": 116711.361, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 91032, + "strid": "849ae928-715f-4179-8e49-629fa86e4e8d", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 558.737, + 779.69, + 1963.272, + 51.37800000000004 + ], + "priority": 4, + "parents": [ + 91033 + ], + "children": [], + "area": 435641.65153000003, + "iscrowd": 0, + "segmentation": [], + "text": "ELISPOT is a key research tool tor enumerating antigen-specitic B cells. Resting memory B cells can be detected in" + }, + { + "id": 91021, + "strid": "a46c38c3-fdaa-4e70-933d-34c4f4439848", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.757, + 833.284, + 2373.793, + 265.235 + ], + "priority": 5, + "parents": [ + 91033 + ], + "children": [], + "area": 123956.827988, + "iscrowd": 0, + "segmentation": [], + "text": "blood samples after polyclonal stimulation. In contrast, the spontaneous production of immunoglobulins (lg) by B cells in freshly-isolated\nPeripheral Blood Mononuclear Cells (PBMC) signifies recent and ongoing antigen stimulation in vivo. ELISPOT has thus far been restricted to\nsingle-color ananysis of each Ig class or IgG subclass for detection of Antibody-Secreting Cells (ASC). Consequently, a comprehensive study\nof all four Ig classes or subclasses requires fourfold amounts of PBMC, antigen and labor. We report here the development of a four-color B\ncell ImmunoSpot® Assay in which all IgG subclasses and Ig classes are detected simultaneously." + }, + { + "id": 91034, + "strid": "677192d9-b624-44cf-9a9c-f6eaa0aea8d3", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 148.751, + 1130.578, + 256.99300000000005, + 43.455999999999904 + ], + "priority": 6, + "parents": [ + 91038 + ], + "children": [ + 91035, + 91020 + ], + "area": 168174.608078, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 91035, + "strid": "f7fd8982-68e9-4763-891a-7fec04c95a73", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 420.729, + 1127.83, + 2097.829, + 50.10200000000009 + ], + "priority": 7, + "parents": [ + 91034 + ], + "children": [], + "area": 474510.78806999995, + "iscrowd": 0, + "segmentation": [], + "text": "Four-color sub-class detection: PBMC were cultured for four days with polyclonal B cell activator. On day four, cells were" + }, + { + "id": 91020, + "strid": "0423467b-177d-4bbd-abfc-38ce851114e1", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.591, + 1180.603, + 2376.041, + 377.87200000000007 + ], + "priority": 8, + "parents": [ + 91034 + ], + "children": [], + "area": 175426.98037300003, + "iscrowd": 0, + "segmentation": [], + "text": "washed, counted and plated at 50,000 cells/well in a low autofluorescence PVDF plate pre-coated with anti-human Ig capture antibody\n(Ab). During a 4h culture, the Ig secreted by the individual B cells was captured on the membrane. These plate-bound human lg “spots” were\nvisualized using IgG subclass-specific detection reagents, whereby each detection reagent is distinguished from the other three reagents\nthrough its unique fluorescence pattern. For detection of individual Ig classes (Figure 4), PBMC were cultured on plates coated with human\nCytomegalus virus antigen for four days, and the resultant spots representing antigen-specific ASC were detected using Ig-class specific\nfluorochrome-labeled detection reagents as above. The assays were analyzed using an ImmunoSpot® S6 Ultimate Analyzer. All reagents and\ninstruments used are available through CTL." + }, + { + "id": 91036, + "strid": "ea5b4b06-1442-4d24-beaa-93ee00c17240", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 148.002, + 1584.624, + 577.672, + 44.205999999999904 + ], + "priority": 9, + "parents": [ + 91038 + ], + "children": [ + 91037, + 91019 + ], + "area": 234527.521248, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 91037, + "strid": "ba2179e7-c8a9-4772-b886-b4e756c179e2", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 759.029, + 1583.103, + 1759.159, + 52.54600000000005 + ], + "priority": 10, + "parents": [ + 91036 + ], + "children": [], + "area": 1201621.086987, + "iscrowd": 0, + "segmentation": [], + "text": "Our four-color ImmunoSpot® Assay has identical sensitivity for detecting individual B cells secreting IgG" + }, + { + "id": 91019, + "strid": "c460d4b1-8c18-494c-ab3f-8fd735027ef3", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 147.259, + 1636.814, + 2375.291, + 109.14100000000008 + ], + "priority": 11, + "parents": [ + 91036 + ], + "children": [], + "area": 241035.59282599998, + "iscrowd": 0, + "segmentation": [], + "text": "Ab subclasses as the respective single-color assays (Table 1), and the four fluorochromes can be discerned unambiguously, without spectral\noverlap (Figure 2). Four-color B cell ImmunoSpot® is as equally suitable for monitoring B cell-mediated immunity as are four single-color assays." + }, + { + "id": 91024, + "strid": "d7b7d0de-dc71-48ad-a377-f61fad2042bc", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 123.847, + 1857.795, + 898.842, + 719.0740000000001 + ], + "priority": 12, + "parents": [ + 91038 + ], + "children": [ + 91025 + ], + "area": 230082.33736499998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91025, + "strid": "a4f1b0cb-a221-4171-9d55-7e1936dc3ed1", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 187.009, + 2594.684, + 804.909, + 53.445000000000164 + ], + "priority": 13, + "parents": [ + 91024 + ], + "children": [], + "area": 485229.260156, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: A representative four-color well." + }, + { + "id": 91026, + "strid": "02e4d742-f8ac-4bfe-ba77-29d6308e6201", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 127.086, + 2759.876, + 879.408, + 602.4670000000001 + ], + "priority": 14, + "parents": [ + 91038 + ], + "children": [ + 91027 + ], + "area": 350741.601336, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91027, + "strid": "0b8c2e85-1a24-479e-a1be-64424941b977", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 135.184, + 3385.017, + 874.549, + 356.2979999999998 + ], + "priority": 15, + "parents": [ + 91026 + ], + "children": [], + "area": 457600.13812799996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Reproducibility of the four-color B cell\nassay. To ensure testing of standardized cell material,\nPBMC were stimulated polyclonally, and frozen in\naliquots on day four. Three independent assays were\nperformed after thawing an aliquot, measuring the four\nIgG subclasses. Each bar represents the mean spot count\n+ SD for the test done in four replicate wells." + }, + { + "id": 91029, + "strid": "24d3106f-df31-4603-a9c6-5347fd57ecee", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1139.909, + 1887.384, + 1406.9940000000001, + 1560.777 + ], + "priority": 16, + "parents": [ + 91038 + ], + "children": [ + 91028 + ], + "area": 2151446.0080560003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91028, + "strid": "d9288e78-f46c-4e03-8ae2-334337d0a8a1", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1139.296, + 3485.428, + 1384.7029999999997, + 259.1260000000002 + ], + "priority": 17, + "parents": [ + 91029 + ], + "children": [], + "area": 3970934.178688, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Unambigous detection of the four fluorescent tags identifying\nthe individual IgG subclasses. In each row a single-color B cell ELISPOT assay was\nperformed using the respective IgG subclass-specific detection reagent, as specified.\nEach assay was analyzed with filter settings optimized for the individual colors. Note:\nthere is no cross-bleeding of colors." + }, + { + "id": 91022, + "strid": "3d2f695e-1d5c-4450-9520-cb5a339a26b7", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2635.396, + 772.292, + 1175.1219999999998, + 737.07 + ], + "priority": 18, + "parents": [ + 91038 + ], + "children": [ + 91023 + ], + "area": 2035295.2476320001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91023, + "strid": "58405006-b7a5-4a10-b7f4-1eb71898fbfa", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2665.869, + 1566.499, + 1127.507, + 582.7989999999998 + ], + "priority": 19, + "parents": [ + 91022 + ], + "children": [], + "area": 4176081.1226310004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. One million PBMC per well from 8 different donors\nwere tested in a three-color B cell ImmunoSpot® Assay. The\nresults for each donor show a similar pattern whereby each donor\nhas ASC producing IgG, IgA and IgM. The relative numbers of each\nIg-class secreting ASC are greatly varied, as is the relative affinity of\nthe different secreted antibodies for the capture antigen, as can be\nvisualized by the degree of diffuseness of the spots in the assay. Here,\na diffuse, “fuzzy” spot indicates relatively low affinity, while a tight\nspot with well-defined borders indicates antibody with high affinity\nfor the antigen." + }, + { + "id": 91031, + "strid": "189f5d4f-f650-44d3-93d8-bd1ddacd54b5", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2635.434, + 2266.43, + 1188.6170000000002, + 501.6779999999999 + ], + "priority": 20, + "parents": [ + 91038 + ], + "children": [ + 91030 + ], + "area": 5973026.68062, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91030, + "strid": "40f1127b-0d27-4c45-a020-d16a0fd000ae", + "image_id": 204031, + "image_name": "121352.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2669.863, + 2836.965, + 1124.6770000000001, + 526.27 + ], + "priority": 21, + "parents": [ + 91031 + ], + "children": [], + "area": 7574307.885795, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Single-color (SC) enzymatic and SC fluorescent B cell\nELISOT assays performed to detect individual IgG subclasses\nprovide the same ASC frequencies as the four-color (4C)\nfluorescent assay. Polyclonally stimulated B cells were seeded into\nSC enzymatic B cell ELISPOT assays that detect the four IgG sublasses.\nIn parallel, SC fluorescent assays were performed, and a 4C fluorescent\nassay was done. The three different assays were each performed in four\nreplicate wells. The spot numbers for each IgG subclass were counted,\nwith the mean and SD of the replicates shown." + }, + { + "id": 61878, + "strid": "2460bfd6-b933-4ad1-9185-de9d1c9d82b1", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 339.85, + 95.8, + 1180.0300000000002, + 87.16000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 61866, + 61865, + 61862, + 61876, + 61863, + 61861, + 61860, + 61877, + 61864 + ], + "area": 32557.63, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 61860, + "strid": "da042d9f-fca2-400f-8282-0bd9d078fff0", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 760.333, + 337.243, + 1949.167, + 128.69300000000004 + ], + "priority": 1, + "parents": [ + 61878 + ], + "children": [], + "area": 256416.98191899998, + "iscrowd": 0, + "segmentation": [], + "text": "Perceptions, behaviour and experience of patients and practitioners in\nKarakalpakstan on the use of tuberculosis medication: a qualitative study" + }, + { + "id": 61861, + "strid": "74cd0461-39c1-4a96-b850-fcec4834e86a", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 122.513, + 881.788, + 3078.816, + 353.0 + ], + "priority": 2, + "parents": [ + 61878 + ], + "children": [], + "area": 108030.49324400001, + "iscrowd": 0, + "segmentation": [], + "text": "“Beverley Stringer’, Dr K Lowton?, Professor Mirza alib Tillashaikhov’, Professor rarpleva Nargiza’, Dr Dilrabo\nUlmasova’, Dr Philip ros', Dr Epco Hasker®, Nees Sergeeva®\n\n'Médecins Sans Fr res (MSF), London, UK; @King’ llege London, UK; *, Republican Specialized Scientific and\nPractical Medical Center of Phtisiology and Pulmono , Ministry of Health Uzbekistan; *Ministry of Health of the os\nUzbekistan; SInsiitute of Tropical Medicine, Antwerp, Belgium; SMSF, Tashkent, Uzbekistan" + }, + { + "id": 61862, + "strid": "c9acd770-1e45-4403-826c-7bb759023cd0", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 125.903, + 1376.175, + 101.046, + 44.888999999999896 + ], + "priority": 3, + "parents": [ + 61878 + ], + "children": [ + 61870 + ], + "area": 173264.561025, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 61870, + "strid": "996e94dd-db0d-4168-8b2e-3433a985028d", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.732, + 1483.936, + 679.737, + 1239.731 + ], + "priority": 4, + "parents": [ + 61862 + ], + "children": [], + "area": 180642.497152, + "iscrowd": 0, + "segmentation": [], + "text": "Médecins Sans Frontieres (MSF)\nand the Ministry of Health (MoH)\nrun a decentralised multidrug-\nresistant tuberculosis (MDR-TB)\nprogramme in Karakalpakstan,\nUzbekistan. Uzbekistan has some\nof the highest reported rates of\nMDR-TB in the world, affecting\n23% of new and 62% of\nretreatment TB cases. We aimed\nto understand patients’ and\nprescribers’ attitudes to TB drug\nprescription, TB drug prescription\npractices and the problems of TB\ndrug regulation in this high-burden\nMDR-TB context." + }, + { + "id": 61863, + "strid": "ec62df12-81c6-4ae1-91fc-4d66a0b45526", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 988.483, + 1354.475, + 193.76199999999994, + 46.10500000000002 + ], + "priority": 5, + "parents": [ + 61878 + ], + "children": [ + 61871, + 61867, + 61872, + 61868 + ], + "area": 1338875.511425, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 61871, + "strid": "2e51fa02-685e-4635-b8c0-f36e8f14f756", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 984.19, + 1438.46, + 2232.573, + 331.172 + ], + "priority": 6, + "parents": [ + 61863 + ], + "children": [], + "area": 1415717.9474000002, + "iscrowd": 0, + "segmentation": [], + "text": "The study was conducted in the MoH/MSF programme in 2012 in three administrative districts of Karakalpakstan.\nParticipants (12 patient, 12 practitioner) were recruited purposively by snowball method. Using a flexible\nparticipatory technique, data were gathered using field notes and in-depth interviews guided by topic-led\nquestions, and analysed thematically by open coding, drawing on grounded theory principles with participant\nvalidation of responses and attention to deviant cases. The MSF and Uzbekistan ERBs granted Ethics approval." + }, + { + "id": 61867, + "strid": "bdd27843-21b0-4684-acba-4c73e050590d", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 984.772, + 1812.038, + 1471.5930000000003, + 979.1669999999999 + ], + "priority": 7, + "parents": [ + 61863 + ], + "children": [], + "area": 1784444.2853360001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 61872, + "strid": "f8534754-afd3-4e84-b136-2c60848db08d", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2482.015, + 2221.367, + 546.1309999999999, + 39.302999999999884 + ], + "priority": 8, + "parents": [ + 61863 + ], + "children": [], + "area": 5513466.214505, + "iscrowd": 0, + "segmentation": [], + "text": "MDRTB patient with daily dose of drugs" + }, + { + "id": 61868, + "strid": "daf75eea-f268-438c-b0dd-f8df812249be", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2478.11, + 2294.292, + 766.0909999999999, + 496.0790000000002 + ], + "priority": 9, + "parents": [ + 61863 + ], + "children": [], + "area": 5685507.94812, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 61864, + "strid": "8941a49b-db6b-4cf6-a03e-1bf701c2ffce", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 126.877, + 2929.042, + 198.063, + 48.16100000000006 + ], + "priority": 10, + "parents": [ + 61878 + ], + "children": [ + 61873 + ], + "area": 371628.061834, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 61873, + "strid": "271c1886-287c-46f4-9d1a-63847db82db8", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.3, + 3071.485, + 1518.474, + 1583.2689999999998 + ], + "priority": 11, + "parents": [ + 61864 + ], + "children": [], + "area": 375642.6155, + "iscrowd": 0, + "segmentation": [], + "text": "Two main themes emerged: risk, shame and stigma; and positive influences\non treatment. Patients reported misuse of TB drugs to be most likely at the\ninitial stage of illness and treatment. Motivated by shame, they hid their\ncondition by resorting to drug treatment options outside the TB programme. It\nwas perceived that there was a failure to promote health information through\nthe health system and that incorrect information was passed through lay\nnetworks leading to wrong diagnoses and inappropriate therapies.\n\nThe first theme emphasizes the shame that patients felt in having TB and how it related\nto increased risk of self-treatment and incorrect use of TB drugs. Other risks included\nchaotic management of TB treatment and the dissemination of erroneous information;\nthis in turn reinforced misleading knowledge. Risk of self-medication was highest before\nreferral or entry to the TB programme and at the initial stage of the patient’s sickness\nand treatment journey. There was overwhelming reference to shame and stigma as an\nincentive for seeking hidden treatment in order to avoid disclosing TB status:\n\nThen we have stigma meaning that it is a very bad form stigma means not telling others\nyou have TB or getting treatment somewhere, Doctor1:\n\nThere are for example people of higher social levels they don’t want to go to hospitals\nthey prefer hidden treatment when they buy drugs at pharmacies they do it secretly,\nPatient 11\n\nThe second theme highlights that the correct information reaching the right people, with\nan emphasis on how patients, practitioners and peers working effectively together, can\ncontribute to normalising TB and reducing stigma:\n\n| wake up in the morning, thank God that | am good, and recently we started adding\nwords like “when | finish the programme | will be healthy” we live with these thoughts,\nwith the idea that the treatment will have good effect on us, Patient 5\n\nWe see the results of the quality. We are getting better thanks to these drugs.\nWe...ummm...how to say it.../...umm...we, women here are taking drugs together and\n...ummm we talk to each other having no secrets, Patient 5" + }, + { + "id": 61876, + "strid": "021af83a-4129-4759-b0ec-42690b88e120", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1748.255, + 2906.484, + 635.9880000000003, + 236.7739999999999 + ], + "priority": 12, + "parents": [ + 61878 + ], + "children": [], + "area": 5081275.18542, + "iscrowd": 0, + "segmentation": [], + "text": "I’ve heard that people self-medicate in hidden\nway. When I was told to go nsary in the\nvery beginning I didn t w go and I told\nwould have the treatment at home. But because\n\nof my cough was verv strong...umm.... But I\ndidn t think it was infectious, Patient 8" + }, + { + "id": 61877, + "strid": "54145f8d-1532-4337-8b67-e60071059d44", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2448.416, + 2908.276, + 845.71, + 276.19900000000007 + ], + "priority": 13, + "parents": [ + 61878 + ], + "children": [], + "area": 7120669.490816, + "iscrowd": 0, + "segmentation": [], + "text": "They take without prescription, because t ‘0 to some\nevents like funerals, weddings, that ti may hear “T got\ncough, and tried this drug”. Says he ie tubazide,\nisoniazid and advises them to sb you get me? They\ngather together during eso hey say: “I have\ncough”, “your cough is ba aman in a drugstore told\nme, advised me, I got this and got cured”, Doctor 1\n\n66" + }, + { + "id": 61865, + "strid": "8013f4d9-1e26-46de-8948-98975af119e1", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1764.357, + 3283.787, + 302.0999999999999, + 49.84400000000005 + ], + "priority": 14, + "parents": [ + 61878 + ], + "children": [ + 61875, + 61869 + ], + "area": 5793772.5799589995, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 61875, + "strid": "eab040d9-1a9a-4900-9e1c-02dada9f669e", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1761.999, + 3424.045, + 740.383, + 635.8310000000001 + ], + "priority": 15, + "parents": [ + 61865 + ], + "children": [], + "area": 6033163.865955, + "iscrowd": 0, + "segmentation": [], + "text": "Effective case finding and community\neducation strategies should be\nincluded in programming to diminish\nthe problem of shame and desire for\npatients to seek treatment elsewhere.\nThe study reinforces the need for\npolitical engagement with the public\nand private sector and a\ndecentralised treatment approach as\nequally important for effective\nregulation of TB drugs." + }, + { + "id": 61869, + "strid": "66e4648d-b6fa-49d7-be87-e3cd9daf6928", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1762.898, + 4097.224, + 725.338, + 519.9520000000002 + ], + "priority": 16, + "parents": [ + 61865 + ], + "children": [], + "area": 7222987.995152, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 61866, + "strid": "9c9f7576-1424-4ee7-a2cb-ef8622925374", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2628.691, + 4369.916, + 522.2930000000001, + 59.488000000000284 + ], + "priority": 17, + "parents": [ + 61878 + ], + "children": [ + 61874 + ], + "area": 11487158.859956, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 61874, + "strid": "7318a1a9-8b38-4306-a14e-50889348ee57", + "image_id": 202940, + "image_name": "119478.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2627.826, + 4441.636, + 667.594, + 257.03800000000047 + ], + "priority": 18, + "parents": [ + 61866 + ], + "children": [], + "area": 11671846.563336002, + "iscrowd": 0, + "segmentation": [], + "text": "We thank Sarah Venis for editing assistance,\nKalniyazov Yesemurat for translation and\npatients, practitioners and staff of the\ntuberculosis programme in Karakalpakstan,\nUzbekistan." + }, + { + "id": 74466, + "strid": "50dd641a-d53f-4f66-b54b-7c061a764e6a", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 42.73, + 87.2, + 283.79999999999995, + 191.13 + ], + "priority": -1, + "parents": [], + "children": [ + 74442, + 74448, + 74440, + 74439, + 74447, + 74443, + 74465, + 74438, + 74445, + 74446, + 74441, + 74444 + ], + "area": 3726.056, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74438, + "strid": "7fe814df-b0b4-4d59-9db6-fb23128060ed", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 53.192, + 52.38, + 4690.85, + 85.90100000000001 + ], + "priority": 1, + "parents": [ + 74466 + ], + "children": [], + "area": 2786.19696, + "iscrowd": 0, + "segmentation": [], + "text": "Direct Soluble Guanylate Cyclase Targeting Improves Endothelial Dysfunction in a Mouse Model of Sickle Cell Disease" + }, + { + "id": 74439, + "strid": "c7e23d55-46da-4504-8081-749025ef2b0d", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 155.869, + 173.257, + 4517.489, + 175.18 + ], + "priority": 2, + "parents": [ + 74466 + ], + "children": [], + "area": 27005.395333, + "iscrowd": 0, + "segmentation": [], + "text": ") K Potoka!+5, C. Mucci®, S. Mutchler>, J. Baust®°, M. Bueno2°, E. Becker-Pelster®7, J.-P. Stasch®®, H. Truebel®”, A. Straub?-°, A. L. Mora2>, M. Gladwin.\n\n1Division of Newborn Medicine, 2Division of Pulmonary, Allergy and Critical Care Medicine, #Department of Pharmacology and Chemical Biology, #Department of Pediatrics, >Vascular Medicine Institute,\nDepartment of Medicine, University of Pittsburgh School of Medicine, “Bayer Pharma AG (Wuppertal, Germany), “University of Witten/Herdecke (Witten, Germany), University of Halle (Halle, Germany)" + }, + { + "id": 74440, + "strid": "9f3caad7-f46e-4856-8a64-3968dcb75471", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 55.806, + 466.635, + 126.847, + 29.403999999999996 + ], + "priority": 3, + "parents": [ + 74466 + ], + "children": [ + 74449 + ], + "area": 26041.032809999997, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 74449, + "strid": "69b576d4-8cdb-43b8-9fd1-eee24aaf3aa5", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 55.165, + 514.183, + 1289.252, + 878.567 + ], + "priority": 4, + "parents": [ + 74440 + ], + "children": [], + "area": 28364.905195, + "iscrowd": 0, + "segmentation": [], + "text": "Background: Endothelial dysfunction caused by chronic intravascular hemolysis is a\nhallmark of sickle cell disease (S@D) affecting multiple organs, including the lung. A\ncommon complication of SCD.is‘Pulmonary Arterial Hypertension (PAH) which is\nassociated with early mortality,\n\nHypothesis: Direct solublé\\guanylate cyclase (sGC) targeting may bypass nitric oxide\n(NO) scavenging and.improve endothelial dysfunction.\n\nMethods: Using anféstablished animal model of SCD we investigated a novel*soluble\nguanylate cyclasé (sGC) targeting in the pathobiology of global vascular dysfunction.\nAge matched wildtype mice were used as controls. SCD mice were treated‘with sGC\nactivator chow*(17mg/kg/d; BAY 54-6544, structurally similar to 58-2667 xHCl\n(cinaciguat))jor placebo for 30 days. Following the treatment period, mi¢e underwent\ninvasive.cardiac interrogation of the right ventricle (RV), and the theracodorsal artery\n(TDA).was harvested for pressure myography.\n\nResults: We found that SCD mice had an increased baseline ‘tone and increased\nresponse to PE as compared with controls. SCD mice treated with sGC activator for 30\ndays showed improved baseline tone and improved constriction response to PE. We\nfound that SCD mice have PAH, which is acutely réversed after exposure to 30 days of\nsGC activator.\n\nConclusions: The transgenic sickle mouse-develops significant vascular dysfunction\nwith age. Novel targeting of smooth muscle cell sGC represents a novel therapeutic\napproach for global vascular dysfunction,leading to PAH in SCD and other hemolytic\ndisease processes." + }, + { + "id": 74441, + "strid": "b92f8fac-de6b-405c-bf14-06379dc28ffb", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1383.533, + 467.755, + 174.95900000000006, + 28.531999999999982 + ], + "priority": 5, + "parents": [ + 74466 + ], + "children": [ + 74450, + 74458 + ], + "area": 647154.4784149999, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 74458, + "strid": "a0535a06-4b8d-4f00-ab48-cee139af6d89", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1439.79, + 593.389, + 931.094, + 605.084 + ], + "priority": 6, + "parents": [ + 74441 + ], + "children": [], + "area": 854355.54831, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74450, + "strid": "c733f63a-5dab-4f1a-91d2-cd007d91b043", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1453.593, + 1296.769, + 883.173, + 87.50299999999993 + ], + "priority": 7, + "parents": [ + 74441 + ], + "children": [], + "area": 1884974.3410170001, + "iscrowd": 0, + "segmentation": [], + "text": "ye hemolysis leads to decreased nitric oxide bioavailabilit\nrea oxygen species formation and endothelial dysfunction.\noe N Engl J Med 2008;359:2," + }, + { + "id": 74442, + "strid": "086cd0dd-6f84-42df-9484-8ce81a76e19b", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2399.332, + 467.271, + 153.45100000000002, + 37.59800000000001 + ], + "priority": 8, + "parents": [ + 74466 + ], + "children": [ + 74451, + 74459 + ], + "area": 1121138.262972, + "iscrowd": 0, + "segmentation": [], + "text": "Hypothesis" + }, + { + "id": 74459, + "strid": "52efa366-2fa8-435d-9aeb-09af6dfcea91", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2603.829, + 499.005, + 1024.9190000000003, + 763.609 + ], + "priority": 9, + "parents": [ + 74442 + ], + "children": [], + "area": 1299323.6901450001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74451, + "strid": "d8edcea4-d1cd-439b-bfdc-6b90054e997e", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2648.91, + 1278.85, + 886.8069999999998, + 121.35300000000007 + ], + "priority": 10, + "parents": [ + 74442 + ], + "children": [], + "area": 3387558.5534999995, + "iscrowd": 0, + "segmentation": [], + "text": "Direct targeting of smooth muscle cell siden eae cyclase as a\nmethod to bypass the scavenging of nitric oxide that occurs in sickle cell\ndisease can improve endothelial dystunctida7and treat pulmonary arterial\n\nhypertension. « ~" + }, + { + "id": 74443, + "strid": "e11e5cd0-0e8d-4378-b2e9-ada2e8e6d0e6", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3802.757, + 462.623, + 133.04500000000007, + 29.173999999999978 + ], + "priority": 11, + "parents": [ + 74466 + ], + "children": [ + 74452, + 74460 + ], + "area": 1759242.851611, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 74460, + "strid": "122ccec7-f848-495f-bf46-dbd3df7b5dc0", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3731.821, + 517.878, + 1036.5329999999994, + 717.1529999999999 + ], + "priority": 12, + "parents": [ + 74443 + ], + "children": [], + "area": 1932627.9958380002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74452, + "strid": "b4d177ae-565f-4a44-83fa-94b8f491045c", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3904.486, + 1235.762, + 844.5540000000001, + 148.33500000000004 + ], + "priority": 13, + "parents": [ + 74443 + ], + "children": [], + "area": 4825015.428332, + "iscrowd": 0, + "segmentation": [], + "text": "6mo male double*knockout transgenic SCD mice were treated with\nsGC Activat ebo for 30days, and compared with age matched\nhemizygou enic littermate controls. After 1mo the mice\nunderwe io-phenotype interrogation and their TDA was\nharvesta > myographic studies." + }, + { + "id": 74447, + "strid": "a610a5e4-011e-4e0e-9328-a9989a6fbe85", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.019, + 1408.065, + 115.00399999999999, + 31.353000000000065 + ], + "priority": 14, + "parents": [ + 74466 + ], + "children": [ + 74462, + 74454 + ], + "area": 70430.003235, + "iscrowd": 0, + "segmentation": [], + "text": "Result 1" + }, + { + "id": 74462, + "strid": "6d4f4db1-f016-4803-b645-cdb21fb3f08e", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 110.308, + 1431.496, + 1893.703, + 1000.6010000000001 + ], + "priority": 15, + "parents": [ + 74447 + ], + "children": [], + "area": 157905.46076800002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74454, + "strid": "822456eb-5599-4eb4-a2e6-7c66c43f62a7", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.961, + 2448.162, + 2160.016, + 89.11499999999978 + ], + "priority": 16, + "parents": [ + 74447 + ], + "children": [], + "area": 154138.727682, + "iscrowd": 0, + "segmentation": [], + "text": "A: Hematological indic: ined from blood of SCD and control mice at time of sacrifice. B: resentative Western blots of endothelial nitric oxide synthase (eNOS, nomer and\ndimer ratios (top) and B-actin (bottom)). Total proteins were obtained from whole lysate of SCD and control mice, and were subjected to low-temp: e SDS-PAGE\n(LT-PAGE) to asse: IOS dimers and monomers. The expression of B-actin was used as‘al ng control. *Significant increase compared with control mice, P<" + }, + { + "id": 74448, + "strid": "675a171a-14b1-4f93-8221-bdd63ec307c9", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2397.422, + 1393.93, + 117.21300000000019, + 29.549999999999955 + ], + "priority": 17, + "parents": [ + 74466 + ], + "children": [ + 74461, + 74453 + ], + "area": 3341838.44846, + "iscrowd": 0, + "segmentation": [], + "text": "Result 2" + }, + { + "id": 74461, + "strid": "f57c3483-7a29-4207-8345-dc0f96601641", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2538.427, + 1431.815, + 2086.149, + 908.4200000000001 + ], + "priority": 18, + "parents": [ + 74448 + ], + "children": [], + "area": 3634557.8550050003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74453, + "strid": "998e6563-68a2-407c-962a-5e14db8e9418", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2448.736, + 2432.336, + 2285.742, + 88.779 + ], + "priority": 19, + "parents": [ + 74448 + ], + "children": [], + "area": 5956148.727295999, + "iscrowd": 0, + "segmentation": [], + "text": "(A) ~225 um of thoracodorsal artery i, albeateee from SCD mice and controls and a dose response to phenylephrine was performed. There is a major constriction in the siekle\\mice\ncompared to the control. (B) 6mo no OS ce underwent closed chest micro heart catheterization using nic 3.5mm 1.2Fr catheter and lox2 software for analysis. SC. icé have\n\nstatistically significant elevation xSP as evidence of PAH compared with controls. ***Significant i compared with control mice, P < 0.0001. f>*" + }, + { + "id": 74446, + "strid": "699cf803-1106-4b2f-b0b3-57e7f97a0659", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.078, + 2557.049, + 117.476, + 29.664000000000215 + ], + "priority": 20, + "parents": [ + 74466 + ], + "children": [ + 74455, + 74463 + ], + "area": 128051.899822, + "iscrowd": 0, + "segmentation": [], + "text": "Result 3" + }, + { + "id": 74463, + "strid": "51407d11-cf77-4ee3-a959-5fb04b02fcba", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 116.05, + 2589.726, + 2044.008, + 833.5799999999999 + ], + "priority": 21, + "parents": [ + 74446 + ], + "children": [], + "area": 300537.7023, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74455, + "strid": "d6901be5-1d13-4eb9-b2e2-aab00cf91735", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 38.715, + 3471.818, + 2103.772, + 87.32400000000007 + ], + "priority": 22, + "parents": [ + 74446 + ], + "children": [], + "area": 134411.43387, + "iscrowd": 0, + "segmentation": [], + "text": "Significant increase compared with placebo SCD mice, P < 0.005. (B) A concentration response curve was performed using phenyl rine. There is a major\n\n(A) ~225 racodorsal artery was harvested from SCD mice and P< 00, (8) A con in SCD mice treated with 30 days of sGC activator was n rmatized compared with\ncontr (\nGO ictfon in the sickle mice compared to the controls. SCD mice treated for ays with sGC activator had near normalization of constriction rept\n\nto phenylephrine." + }, + { + "id": 74445, + "strid": "6351405f-40eb-40ae-9b7f-8b1e07e5c173", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2406.075, + 2553.917, + 115.17500000000018, + 28.063000000000102 + ], + "priority": 23, + "parents": [ + 74466 + ], + "children": [ + 74456, + 74464 + ], + "area": 6144915.845774999, + "iscrowd": 0, + "segmentation": [], + "text": "Result 4" + }, + { + "id": 74464, + "strid": "8fb671dd-67df-46cf-a25a-abdb6aa58331", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2330.336, + 2592.567, + 1408.1110000000003, + 823.4749999999999 + ], + "priority": 24, + "parents": [ + 74445 + ], + "children": [], + "area": 6041552.2125119995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74456, + "strid": "bd19ff24-11f9-4d6c-b1be-2b40fcc2579f", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2447.333, + 3418.428, + 1281.775, + 147.73199999999997 + ], + "priority": 25, + "parents": [ + 74445 + ], + "children": [], + "area": 8366031.652524, + "iscrowd": 0, + "segmentation": [], + "text": "dissection of heart to se e RV from LV + Septum. SCD mice have evidence of RV remodeling dary\nto PAH, which was un d treatment v placebo. (B) Using closed chest micro heart cat? ion we\nsee acute roam RVmaxSP in treated SCD mice compared with placebo. ***Signific decrease\ncompared with p| ¥0 SCD mice, P < 0.0001.\n\nAfter 30 days of treatment withasGC activator (A) RV free wall weight was compared modeling senate" + }, + { + "id": 74444, + "strid": "3b0d58ba-81a8-4c56-887c-4dfdff253d65", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3816.494, + 2557.719, + 123.21300000000019, + 32.914999999999964 + ], + "priority": 26, + "parents": [ + 74466 + ], + "children": [ + 74457 + ], + "area": 9761519.217186, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 74457, + "strid": "f4537717-bf42-42ea-8119-9ce0b02b3d65", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3884.881, + 2670.394, + 819.1280000000002, + 597.5520000000001 + ], + "priority": 27, + "parents": [ + 74444 + ], + "children": [], + "area": 10374162.913113998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 74465, + "strid": "601c2180-2b08-429e-946f-c68b46e0ae40", + "image_id": 203402, + "image_name": "120169.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3858.599, + 3374.088, + 520.5129999999999, + 174.30099999999993 + ], + "priority": 28, + "parents": [ + 74466 + ], + "children": [], + "area": 13019252.582712002, + "iscrowd": 0, + "segmentation": [], + "text": "This work was funded by the NIH K12\nScholar Award, Bayer\nPharmaceuticals and the Vascular\nMedicine Institute at the University\nof Pittsburgh, PA." + }, + { + "id": 78920, + "strid": "812668a5-8bed-4850-8740-5a78bffee5be", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 37.3, + 30.96, + 900.0500000000001, + 36.49 + ], + "priority": -1, + "parents": [], + "children": [ + 78901, + 78900, + 78902, + 78904, + 78898, + 78897, + 78899, + 78903, + 78919 + ], + "area": 1154.808, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78897, + "strid": "e48ac309-c7f6-4514-8b32-918863faff56", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 122.678, + 107.729, + 3301.429, + 135.13800000000003 + ], + "priority": 1, + "parents": [ + 78920 + ], + "children": [], + "area": 13215.978261999999, + "iscrowd": 0, + "segmentation": [], + "text": "Revealing missing parts ofthe interactome via link prediction" + }, + { + "id": 78898, + "strid": "17748ca5-1df3-44b9-adeb-7cd1720ef3d9", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 125.466, + 261.249, + 2315.786, + 315.999 + ], + "priority": 2, + "parents": [ + 78920 + ], + "children": [], + "area": 32777.867034, + "iscrowd": 0, + "segmentation": [], + "text": "Yuriy Hulovatyy, Ryan W. Solava, and Tijana Milenkovi¢é\nDepartment of Computer Science and Engineering, University of Notre Dame\nInterdisciplinary Center for Network Science and Applications; ECK Institute for Global Health\n*Corresponding author (e-mail: tmilenko@nd.edu)" + }, + { + "id": 78899, + "strid": "38b4c941-254a-43c6-9686-fba55836d2de", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 124.235, + 649.621, + 1216.311, + 90.75999999999999 + ], + "priority": 3, + "parents": [ + 78920 + ], + "children": [ + 78905 + ], + "area": 80705.664935, + "iscrowd": 0, + "segmentation": [], + "text": "Why de-noise biological networks?" + }, + { + "id": 78905, + "strid": "63156a3d-9001-4891-9556-e06d80e50e3b", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 121.42, + 776.511, + 1610.022, + 390.8899999999999 + ], + "priority": 4, + "parents": [ + 78899 + ], + "children": [ + 78909 + ], + "area": 94283.96562, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78909, + "strid": "483aff70-89e6-4314-b79a-7a864a85afea", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 129.629, + 1187.89, + 1612.028, + 413.3219999999999 + ], + "priority": 5, + "parents": [ + 78905 + ], + "children": [], + "area": 153984.99281, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: Individual genes\\are just a means to an end: they produce proteins that interact in\ncomplex networked ways and make our cells work. Thus, topology of protein-protein interaction\n(PPI) networks is. likely to provide additional biological insights, over and above sequences of\nindividual proteins.[1]. However, current PPI networks are noisy, with many missing and\nspurious interactions, due to limitations of biotechnologies and\\human biases. And while PPI\nnetworks.have been extensively used for computational predictions of biological function,\ntheir noisiness could lead to incorrect predictions. Computational de-noising of current PPI\nnetwork data by identifying missing and spurious links could improve the quality of the\npredictions and consequently save resources needed for their experimental validation." + }, + { + "id": 78902, + "strid": "e9104a07-9003-47cc-94bc-0896eb224f85", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 125.546, + 1674.199, + 1326.808, + 86.12799999999993 + ], + "priority": 6, + "parents": [ + 78920 + ], + "children": [ + 78918 + ], + "area": 210188.98765400003, + "iscrowd": 0, + "segmentation": [], + "text": "Network de-noising via link prediction" + }, + { + "id": 78918, + "strid": "82140174-2aa2-4f51-8b68-d1ad84e4a6b1", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.13, + 1787.697, + 1616.4429999999998, + 378.751 + ], + "priority": 7, + "parents": [ + 78902 + ], + "children": [], + "area": 220119.13160999998, + "iscrowd": 0, + "segmentation": [], + "text": "Link prediction (LP) methods use the existing network structure to predict missing \\and\nspurious links. Typically, LP consists.of (un)supervised approaches that use some measure\nof topology of the nodes to be linked. For example, it may be desirable to link nodes with\nhigh degrees as measured by degree product (DP), nodes that share many neighbors as\nmeasured by Jaccard’s coefficient (JC), Adamic/Adar measure (AA), and resource allocation\nindex (RAI), nodes that-share many paths as measured by Katz index (Katz) and local path\nindex (LPI), or nodes with similar “distances” to other nodes as measured by random walk\nwith resistance (RWS) [2,6]. Here, we propose new LP measures, as follows." + }, + { + "id": 78903, + "strid": "4667fd72-53a5-48d5-9d46-d14a03d1d7ea", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 126.165, + 2243.4, + 1362.715, + 85.14699999999993 + ], + "priority": 8, + "parents": [ + 78920 + ], + "children": [ + 78906 + ], + "area": 283038.56100000005, + "iscrowd": 0, + "segmentation": [], + "text": "New sensitive link prediction measures" + }, + { + "id": 78906, + "strid": "cc2fe9e7-afe2-4225-bc0a-479921479510", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 121.416, + 2363.393, + 1609.661, + 1031.8400000000001 + ], + "priority": 9, + "parents": [ + 78903 + ], + "children": [ + 78910 + ], + "area": 286953.724488, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78910, + "strid": "8494e03d-cb5f-40b0-844b-affd60202c2d", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 120.867, + 3413.619, + 1621.027, + 889.2720000000004 + ], + "priority": 10, + "parents": [ + 78906 + ], + "children": [], + "area": 412593.88767300005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure: We recently designed a graphlet-based measure of the network position of a node;\ngraphlets are induced subgraphs [3]. This measure generalizes the degree of a node.that\ncounts the number of edges that the-node touches into the node graphlet degree vector\n(node-GDV) that counts the number of 2-5-node graphlets (i.e., “node orbits”, where different\norbits are numbered differently-in, the figure) that the node touches [4]. Then, we-designed\nnode-GDV-similarity to compare node-GDVs of two nodes and quantify the topological\nsimilarity of their extended, network neighborhoods [4]. In addition, we recently designed\nedge-GDV to count the number of 2-5-node graphlets (i.e., “edge orbits”) that an edge\ntouches [5]. Now, we-need to predict the existence of a link between-two nodes independent\non whether there-is~an edge between the nodes in the original‘network or not. Thus, in\naddition to describing the position of an edge in the network, we need to be able to describe\nthe position of a non-edge as well. Hence, we generalize edge-GDV into non-edge-GDV,\nwhich counts the number of “non-edge” orbits that a non-edge touches (see the figure). We\nreconcile ‘mutually exclusive edge-GDVs and non-edge-GDVs into a new node-pair-GDV\nmeasure, which counts the number of graphlets (i.e., “node-pair orbits”) that a node pair (an\nedge’ or a non-edge) touches. Then, we design>node-pair-GDV-centrality to assign high\ncentrality values to node pairs that participate in {or share) many 3-5-node graphlets. Hence,\nnode-pair-GDV-centrality is a generalization-of the shared neighbors measures from 3-node\ngraphlets only to 3-5-node graphlets. As such; it is a more sensitive measure of topology [6]:" + }, + { + "id": 78900, + "strid": "ef5eb20a-8bde-4f65-803a-b70034ba0ecb", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1839.252, + 650.018, + 849.2620000000002, + 90.56299999999999 + ], + "priority": 11, + "parents": [ + 78920 + ], + "children": [ + 78916, + 78914, + 78917, + 78915 + ], + "area": 1195546.906536, + "iscrowd": 0, + "segmentation": [], + "text": "Link prediction in action" + }, + { + "id": 78914, + "strid": "f4d27b82-a07b-4c98-81f4-71d8e0da2bd7", + "image_id": 203578, + "image_name": "120501.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1831.597, + 772.538, + 1610.5910000000001, + 139.51199999999994 + ], + "priority": 12, + "parents": [ + 78900 + ], + "children": [], + "area": 1414978.283186, + "iscrowd": 0, + "segmentation": [], + "text": "The graphlet-based node-GDV-similarity and node-pair-GD\\V-centrality measures are flexible\nin that there are several simple modifications. It also enables\neffective CPR with an overall higher success rates to Return of spontaneous circulation(ROSC)?." + }, + { + "id": 123603, + "strid": "a7f38f58-16e7-4712-be51-3417e292ae74", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 6.2, + 7.05, + 16.970000000000002, + 69.77 + ], + "priority": -1, + "parents": [], + "children": [ + 123588, + 123601, + 123590, + 123589, + 123602, + 123597, + 123596, + 123595, + 123592, + 123593, + 123599, + 123598, + 123600, + 123591, + 123594 + ], + "area": 43.71, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123588, + "strid": "daa4c094-171d-4149-b35a-a5560072dabe", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 30.386, + 19.064, + 764.095, + 83.06700000000001 + ], + "priority": 1, + "parents": [ + 123603 + ], + "children": [], + "area": 579.278704, + "iscrowd": 0, + "segmentation": [], + "text": "The effects of transcutaneous electroacupuncture stimulation (TEAS)\non heart rate variability (HRV) and nonlinearity (HRNL):\nIs stimulation frequency or amplitude more important?" + }, + { + "id": 123589, + "strid": "ac12aeb8-42c3-4cc7-8f81-8c2bb9122be5", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 193.359, + 116.972, + 439.467, + 19.823999999999998 + ], + "priority": 2, + "parents": [ + 123603 + ], + "children": [], + "area": 22617.588948, + "iscrowd": 0, + "segmentation": [], + "text": "David Mayor,** Tony Steffert,* ° Deepak Panday,?*" + }, + { + "id": 123590, + "strid": "b67f47a0-85cb-4f5a-86b9-ff0dbc033e6a", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 15.089, + 168.917, + 407.944, + 188.62799999999996 + ], + "priority": 3, + "parents": [ + 123603 + ], + "children": [], + "area": 2548.788613, + "iscrowd": 0, + "segmentation": [], + "text": "Background. The balance of parasympathetic/sympathetic\n(PNS/SNS) activity can be assessed using heart rate variability\n(HRV) measures derived from the ECG. Newly developed\nheart rate nonlinearity (HRNL) indices also reflect this balance.\n\nPatients often report that they find acupuncture relaxing\nHowever, electroacupuncture (EA) and transcutaneous EA\nstimulation (TEAS) are often used without understanding the\nautonomic effects of different parameters of frequency and\namplitude. This study investigates such effects using ‘PNS-like’\nand ‘SNS-like’ HRV measures and HRNL indices." + }, + { + "id": 123591, + "strid": "9f0c4693-8029-4822-979d-6c259967ba32", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.438, + 368.741, + 408.257, + 129.00099999999998 + ], + "priority": 4, + "parents": [ + 123603 + ], + "children": [], + "area": 5323.882558, + "iscrowd": 0, + "segmentation": [], + "text": "miathods. In this singe-blnd, semi-randomised cross-over study, 66\nparticipants attended for four sessions. Following a 5-minute baseline\nECG, TEAS was applied bilaterally for 20 minutes to LI4 (hegu) and the\nulnar border, at a different frequency in each visit ~ 2.5, 10 or 80 pulses\nper sec (pps) at a ‘strong but comfortable’ amplitude, or as ‘sham’ at 160\npps and zero amplitude. After stimulation, ECG continued for 15 minutes\nto assess post-stimulation changes (making eight S-minute recordings for\neach session). See QR code or URL below for references & more details." + }, + { + "id": 123592, + "strid": "f0fbc7f2-fed2-4ba7-ac32-813ab2d8085a", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.184, + 507.303, + 408.868, + 222.56899999999996 + ], + "priority": 5, + "parents": [ + 123603 + ], + "children": [], + "area": 7195.585752, + "iscrowd": 0, + "segmentation": [], + "text": "Results. Significant differences for stimulation frequency and\namplitude (‘high’ vs ‘low’) were found in 24 HRV measures (12\nPNS-like, 12 SNS-like) during successive 5-minute time slots\nNumbers of significant differences and their effect sizes (ES)\nwere similar for amplitude (N = 156, median ES = 0.29) and\nfrequency (N = 133, median ES = 0,30). Some significant\ndifferences with larger ES were also found for changes after\nTEAS compared to baseline (N = 26 for!2 PNS-like measures\nmedian ES = 0.48; N = 53 forl2 SNS-like measures and two\nSNS-like HRNL indices: median ES = 0.44), Amplitude had\ndifferent effects at different frequencies, often most markedly at\n\n10 pps." + }, + { + "id": 123593, + "strid": "dc7c3d4c-88bc-4d71-9021-298ed255a1ef", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 13.767, + 748.908, + 374.045, + 32.585000000000036 + ], + "priority": 6, + "parents": [ + 123603 + ], + "children": [], + "area": 10310.216436, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions. The frequency and amplitude of TEAS at LI4\nHSE ESSE ee" + }, + { + "id": 123594, + "strid": "b866e799-f5fd-4f68-ae80-d1197aced4eb", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 13.435, + 793.016, + 406.084, + 166.79399999999998 + ], + "priority": 7, + "parents": [ + 123603 + ], + "children": [], + "area": 10654.16996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123595, + "strid": "791d638d-0c32-41ea-8aec-b2f33f4e2897", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 13.989, + 977.044, + 409.01, + 80.74699999999996 + ], + "priority": 8, + "parents": [ + 123603 + ], + "children": [], + "area": 13667.868516, + "iscrowd": 0, + "segmentation": [], + "text": "tations. Baseline differences may have influenced results, and\ninteractions between amplitude and frequency mean it was not always\neasy to disentangle their effects without using more advanced statistical\nmethods than could be managed in the time available to prepare this\nposter. Further analysis is planned to explore these issues." + }, + { + "id": 123599, + "strid": "70f05d15-073f-476d-bf07-3546868c2a18", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 438.104, + 168.794, + 360.3709999999999, + 72.338 + ], + "priority": 9, + "parents": [ + 123603 + ], + "children": [], + "area": 73949.326576, + "iscrowd": 0, + "segmentation": [], + "text": "Amplitude and frequency (N = 63)\n\nLF/HEa‘SNS-like’ HRV measure, reflects sympathetic activation.\nGroup median LF/HF was higher for TEAS at higher amplitudes\nat all active frequencies, lowest for law-amiplicudde TEAS nr: 10 pou:" + }, + { + "id": 123598, + "strid": "208373f9-9b75-4a66-9ec6-e1ba8a67e4fe", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 431.504, + 250.218, + 381.779, + 347.006 + ], + "priority": 10, + "parents": [ + 123603 + ], + "children": [], + "area": 107970.067872, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123600, + "strid": "c5887496-2938-4186-9cc5-b60bfe860cf8", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 437.39, + 616.348, + 369.677, + 48.48199999999997 + ], + "priority": 11, + "parents": [ + 123603 + ], + "children": [], + "area": 269584.45171999995, + "iscrowd": 0, + "segmentation": [], + "text": "D1+D2,a‘PNS-like’ HRNL index, reflects parasympathetic activity.\nGroup median D1+D2 was higher for TEAS at lower amplitudes\nat all active frequencies, highest for low-amplitude TEAS at 10 pps." + }, + { + "id": 123601, + "strid": "499ed306-7a2a-4b5c-9050-0cae734f3d85", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 439.637, + 704.072, + 360.93199999999996, + 73.68600000000004 + ], + "priority": 12, + "parents": [ + 123603 + ], + "children": [], + "area": 309536.101864, + "iscrowd": 0, + "segmentation": [], + "text": "Differences from sham stimulation (2 gps, N = 31)\nSeveral HRV measures showed a pattern of negative differences\nfrom sham at one amplitude and positive differences from sham\nat the other: Two examples are shown below:" + }, + { + "id": 123597, + "strid": "2171b5e1-4ad8-4dd8-8cdd-00709807071d", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 438.082, + 781.666, + 371.202, + 217.85299999999995 + ], + "priority": 13, + "parents": [ + 123603 + ], + "children": [], + "area": 342433.804612, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 123596, + "strid": "33f1b437-060f-470d-a17d-09c09bfa4f35", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 439.49, + 1010.706, + 363.019, + 30.5089999999999 + ], + "priority": 14, + "parents": [ + 123603 + ], + "children": [], + "area": 444195.17994, + "iscrowd": 0, + "segmentation": [], + "text": "dulenced teed arcttbaentelbtahed he deat. dentate lacalatll bees\nwas for stimulation at 10 pps." + }, + { + "id": 123602, + "strid": "187d957d-3d8a-4159-82c3-e9b33801d56c", + "image_id": 205313, + "image_name": "14670.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 91.145, + 1091.202, + 718.558, + 47.037000000000035 + ], + "priority": 15, + "parents": [ + 123603 + ], + "children": [], + "area": 99457.60629, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8980, + "strid": "417b1117-7333-4d5d-9714-1ebebafad636", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 165.64, + 106.82, + 86.48000000000002, + 196.55 + ], + "priority": -1, + "parents": [], + "children": [ + 8974, + 8985, + 8994, + 8993, + 8975, + 8981, + 8976, + 8988, + 8991 + ], + "area": 17693.6648, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8974, + "strid": "fed7af1b-94cc-451a-b18a-d30e89c2b4f8", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 335.525, + 58.498, + 2284.849, + 304.075 + ], + "priority": 1, + "parents": [ + 8980 + ], + "children": [], + "area": 19627.541449999997, + "iscrowd": 0, + "segmentation": [], + "text": "Transmission analysis of aMDR\nM.tuberculosis outbreak in Bulgaria" + }, + { + "id": 8975, + "strid": "4d291919-acb1-4f06-bbf2-b304684fac4f", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 89.267, + 368.998, + 2766.659, + 396.15500000000003 + ], + "priority": 2, + "parents": [ + 8980 + ], + "children": [], + "area": 32939.344465999995, + "iscrowd": 0, + "segmentation": [], + "text": "S. Panaiotov', E. Bachiyska’, S. Yordanova!, D.M. Cirillo 7, E. Tigliani ,\nA. Trovato 2, M.R. de Filippo 7, G. Refregier 3, C. Sola\n1. National Center of Infectious and Parasitic Diseases, 1504 Sofia, Bulgaria; 2. Emerging\nBacterial Pathogens Unit, IRCCS S. Rafaelle Scientific Institute, 20132 Milano, Italy; 3. Institute\nfor Integrative Biology of the Cell, CEA, CNRS, University Paris-Sud, 91198 Paris, France" + }, + { + "id": 8976, + "strid": "d3471e85-940e-4ba2-a683-8d24e8cedd24", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 236.304, + 929.753, + 576.145, + 103.26799999999992 + ], + "priority": 3, + "parents": [ + 8980 + ], + "children": [ + 8977 + ], + "area": 219704.352912, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 8977, + "strid": "95cd71be-6613-4c9f-9b9f-3cb9998d18bf", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 127.853, + 1114.489, + 780.618, + 1025.4810000000002 + ], + "priority": 4, + "parents": [ + 8976 + ], + "children": [], + "area": 142490.762117, + "iscrowd": 0, + "segmentation": [], + "text": "An outbreak of = multidrug-resistant\ntuberculosis was detected in Bulgaria in\n2008 when spoligo and MIRU-VNTR\ngenotyping was introduced. Molecular\ntyping confirmed strong association\nbetween MDR and SIT41 (TUR) MTB\nsublineage. The MDR TB cases of SIT41\ngenotype in Bulgaria are >40% The drug\nsensitive MTB strains of SIT41 genotype\nrepresented only 2%. SIT41 genotype is\nconsidered as a marker for MDR\ntuberculosis in Bulgaria. SIT41 (TUR) is\nendemic M. tuberculosis genotype for\nBulgaria and Turkey. SIT41 is a low copy\nnumber of the 1S6110 element as identified\nby RFLP-IS6110 typing.\n\nSpoligo- and MIRU-VNTR strain typing\nlacks sufficent discriminatory power to\nresolve large outbreaks and the potential of\nNGS technique _ for identification of\noutbreak-related transmission chains should\nbe applied." + }, + { + "id": 8988, + "strid": "f532ff45-517d-4cbf-8f8a-93b4625dffe5", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 275.699, + 2206.712, + 483.877, + 102.15299999999979 + ], + "priority": 5, + "parents": [ + 8980 + ], + "children": [ + 8990 + ], + "area": 608388.291688, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 8990, + "strid": "40d5c6f3-aa79-4485-ad22-24fc25ee2625", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.991, + 2371.839, + 760.613, + 274.5329999999999 + ], + "priority": 6, + "parents": [ + 8988 + ], + "children": [], + "area": 315433.24044900003, + "iscrowd": 0, + "segmentation": [], + "text": "Our study intended to apply core genome\nMultilocus Sequencing Typing (cgMLST)\nanalysis to reconstruct the transmission\ndynamics of a MDR endemie in Bulgaria at\nhigher resolution than 24 MIRU-VNTR\nanalysis." + }, + { + "id": 8991, + "strid": "ecb60e36-d3ac-46bb-bbdc-0edf48bc4eac", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 288.4, + 2732.634, + 510.04200000000003, + 195.80099999999993 + ], + "priority": 7, + "parents": [ + 8980 + ], + "children": [ + 8992 + ], + "area": 788091.6455999999, + "iscrowd": 0, + "segmentation": [], + "text": "Materials &\nMethods" + }, + { + "id": 8992, + "strid": "261ef9d3-8a8d-46bd-a8ef-3c16099f1aa5", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 134.368, + 3007.936, + 794.1400000000001, + 604.0769999999998 + ], + "priority": 8, + "parents": [ + 8991 + ], + "children": [], + "area": 404170.344448, + "iscrowd": 0, + "segmentation": [], + "text": "In total, 185 MDR/XDR TB strains of SIT41\n(TUR) have been characterized by\nspoligotyping and 24 loci MIRU-VNTR\nanalysis. These represent about 75%\ncoverage of the MDR/XDR TB cases of\nSIT41 (TUR) in the country for the period\n2007-2016. A core genome Multilocus\nSequence Typing (cgMLST) V2 scheme\n(2891 genes) using the Ridom SeqSphere+\nsoftware, which transfers the genome-wide\nSNP diversity into a standardized allele\nnumbering system was_ applied for\nsequencing analysis of 34 SIT41 strains." + }, + { + "id": 8981, + "strid": "959df8fb-9b07-4e38-9774-9aa3ecf32321", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1276.957, + 934.394, + 346.7650000000001, + 88.03899999999999 + ], + "priority": 9, + "parents": [ + 8980 + ], + "children": [ + 8982, + 8984, + 8979, + 8986, + 8983 + ], + "area": 1193180.959058, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 8982, + "strid": "f7e57d56-2074-4e3c-8473-7ee5fbc9d74e", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1029.982, + 1108.966, + 824.598, + 846.874 + ], + "priority": 10, + "parents": [ + 8981 + ], + "children": [], + "area": 1142215.018612, + "iscrowd": 0, + "segmentation": [], + "text": "In total, 1385 MDR strains of SIT41 (TUR)\ngenotype were identified between 2007 —\n2016. The percentage of the MDR-TB cases\nwith SIT41 genotype significantly increased in\nBulgaria, from 40% in the period 2007-2011 to\n60% in 2012 - 2013. MIRU-VNTR analysis\nidentified three clusters including 17, 26 and 67\nstrains. Five other clusters include between 3\nand 9 strains. The largest cluster’s MIRU-\nVNTR_ profile 244124132134425113333b32\nwas identified all over the country, suggesting\na common ancestor. This genotype was not\nfound in other countries. MIRU-VNTR analysis\nshowed that SIT41 strains from Bulgaria differ\nfrom those from Albania, Greece and Turkey\n(Fig. 2). The highest number of MIRU-VNTR\nclustered strains was in the North-West part of\nthe country. (Fig.1)" + }, + { + "id": 8979, + "strid": "32b21a6a-6fb5-4537-9239-9b0539386279", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1039.733, + 1994.458, + 787.671, + 527.3969999999999 + ], + "priority": 11, + "parents": [ + 8981 + ], + "children": [ + 8995 + ], + "area": 2073703.799714, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8995, + "strid": "de8e12e1-8e02-4125-8c6f-7a5da2d11cda", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1059.749, + 2549.287, + 765.105, + 52.38299999999981 + ], + "priority": 12, + "parents": [ + 8979 + ], + "children": [], + "area": 2701604.348963, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Distribution of 185 MDR SIT41 strains" + }, + { + "id": 8986, + "strid": "31be84dd-f183-4954-823c-50fa10e7c305", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1051.106, + 2644.164, + 769.7279999999998, + 704.0660000000003 + ], + "priority": 13, + "parents": [ + 8981 + ], + "children": [ + 8989 + ], + "area": 2779296.645384, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8989, + "strid": "26f93abb-0ae7-49f1-922b-667f5737319d", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1053.04, + 3381.327, + 836.1869999999999, + 84.05499999999984 + ], + "priority": 14, + "parents": [ + 8986 + ], + "children": [], + "area": 3560672.58408, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Comparison between Albanian, Bulgarian\nand Turkish MDR SIT41 M. tuberculosis strains." + }, + { + "id": 8983, + "strid": "dd40ff72-d223-47f5-9c66-7ff71bc760e1", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1942.031, + 1090.556, + 933.8820000000001, + 510.68499999999995 + ], + "priority": 15, + "parents": [ + 8981 + ], + "children": [ + 8978 + ], + "area": 2117893.559236, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 8978, + "strid": "46cdfde2-cac9-47b8-8050-ccd0dddc7c8f", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1971.674, + 1651.32, + 910.8310000000001, + 47.999000000000024 + ], + "priority": 16, + "parents": [ + 8983 + ], + "children": [], + "area": 3255864.70968, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. cgMLST analysis of 34 SIT41 MDR TB strains" + }, + { + "id": 8984, + "strid": "3d477a03-6ead-47bb-ac6b-4da8d1e19229", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1984.656, + 1780.765, + 882.9969999999998, + 322.81600000000003 + ], + "priority": 17, + "parents": [ + 8981 + ], + "children": [], + "area": 3534205.94184, + "iscrowd": 0, + "segmentation": [], + "text": "Few MIRU-VNTR clustered strains originated from\ngeographically distant regions >350 km.\nEpidemiological links were difficult to establish\nbased on patients interview. cgMLST analysis of\n34 SIT41 strains demonstrated allelic differences\nbetween 1 and 54 alleles. Several clustered strains\nwith identical cgMLST profile were identified." + }, + { + "id": 8985, + "strid": "a7f4877d-1e7e-4457-9008-5ac6272c7475", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2106.437, + 2237.733, + 574.4299999999998, + 84.4340000000002 + ], + "priority": 18, + "parents": [ + 8980 + ], + "children": [ + 8987 + ], + "area": 4713643.587321, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 8987, + "strid": "501ba277-a661-4771-93cf-cc66d6ff6846", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1989.94, + 2401.663, + 853.9969999999998, + 653.9900000000002 + ], + "priority": 19, + "parents": [ + 8985 + ], + "children": [], + "area": 4779165.27022, + "iscrowd": 0, + "segmentation": [], + "text": "The endemic SIT41 MDR genotype, spreading in\nBulgaria, was not found in other countries,\nsuggesting local evolution.\n\nMain characteristics of the Bulgarian SIT41\nstrains is the 11 VNTR copy number of QUB-\n26(4052) marker.\n\nContact tracing analysis could not explain how\npatients living at a distance of >350 km have\nidentical MIRU-VNTR and cgMLST profiles.\nApplying WGS we hope to date the start of this\nongoing MDR_ endemy, to identify true\ntransmissions across the country. The clonal\nexpansion of SIT41 among the MDR-TB patients\nin Bulgaria remains to be further analyzed." + }, + { + "id": 8994, + "strid": "0bbc5c22-1cac-471b-aef6-d08925c3ea77", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2008.807, + 3105.857, + 774.3810000000001, + 112.22899999999981 + ], + "priority": 20, + "parents": [ + 8980 + ], + "children": [], + "area": 6239067.282599, + "iscrowd": 0, + "segmentation": [], + "text": "References:\nKohl, T. Et al. J. Clin. Microbiol., 52(7):2479-2486 (2014)\nPanaiotov, S. et al. Med. Pregled. 52(3):47-54 (2016) (in Bulg.)" + }, + { + "id": 8993, + "strid": "c0a5dd3d-7960-4fad-ade7-14d1dba97772", + "image_id": 200859, + "image_name": "11159.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1383.599, + 3522.807, + 1473.0090000000002, + 122.34000000000015 + ], + "priority": 21, + "parents": [ + 8980 + ], + "children": [], + "area": 4874152.242392999, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements: S.P. has received funding from the European Union’s Horizon 2020\nresearch and innovation programme under the Marie Sklodowska-Curie grant agreement\nNo 660150 and with the support of Marie Curie Alumni Association" + }, + { + "id": 65067, + "strid": "b23cbb0c-1980-49cc-965b-3e2b75aa1b5a", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 487.37, + 705.48, + 232.32000000000005, + 168.97000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 65055, + 65066, + 65054, + 65052, + 65056, + 65053, + 65064, + 65051, + 65050 + ], + "area": 343829.78760000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65050, + "strid": "8995855e-082d-444c-b892-0ac1ef1e2190", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 852.191, + 172.165, + 3593.2, + 482.581 + ], + "priority": 1, + "parents": [ + 65067 + ], + "children": [], + "area": 146717.463515, + "iscrowd": 0, + "segmentation": [], + "text": "Reversal Of Microstructural White Matter Changes In Drug-Naive\nPatients With First-Episode Psychosis After Antipsychotic\nTreatment" + }, + { + "id": 65051, + "strid": "96e9f54c-162f-451d-8174-fb6d8617f9df", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 890.991, + 711.997, + 3479.559, + 357.20799999999997 + ], + "priority": 2, + "parents": [ + 65067 + ], + "children": [], + "area": 634382.919027, + "iscrowd": 0, + "segmentation": [], + "text": "Mauricio H. Serpa?, JimitDoshi2, Tiffany M. Chaim+, MikaelGavallet:, Martinus T. van de Bilt» Paulo Sallet+, Marcel P. Jackowski?,\nWagner F. Gattaz!, Geraldo F) Busatto!, Christos Davatzikos?, Marcus V. Zanetti+\n\n1Department and Institute of Psychiatry, University of Sao Paulo, Sao Paulo, Brazil.\n2Department‘of Radiology, University of Pennsylvania, Philadelphia, USA.\n3Department of Computational Sciences, Institute of Mathematics and Statistics, University of Sdo Paulo, Sao Paulo, Brazil." + }, + { + "id": 65052, + "strid": "f79b882b-f046-4f1a-be00-d0f0833d1da2", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 97.487, + 1103.94, + 287.03, + 53.73299999999995 + ], + "priority": 3, + "parents": [ + 65067 + ], + "children": [ + 65057 + ], + "area": 107619.79878, + "iscrowd": 0, + "segmentation": [], + "text": "round" + }, + { + "id": 65057, + "strid": "b55472d3-9b21-4387-be42-e3c58a1dc667", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.704, + 1185.312, + 1592.177, + 1010.701 + ], + "priority": 4, + "parents": [ + 65052 + ], + "children": [], + "area": 114624.41164799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65053, + "strid": "2653eb72-95b3-4731-8df6-ad18075e658f", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.097, + 2306.081, + 217.887, + 41.41600000000017 + ], + "priority": 5, + "parents": [ + 65067 + ], + "children": [ + 65065, + 65058 + ], + "area": 228525.708857, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 65058, + "strid": "df6cb30a-6f49-4948-8717-92e30d5e8464", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 93.464, + 2385.279, + 1596.093, + 452.09000000000015 + ], + "priority": 6, + "parents": [ + 65053 + ], + "children": [], + "area": 222937.716456, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65065, + "strid": "4291f12e-bcca-4880-98aa-808ca00a1f86", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 95.672, + 2944.048, + 1597.231, + 699.2429999999999 + ], + "priority": 7, + "parents": [ + 65053 + ], + "children": [], + "area": 281662.960256, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65064, + "strid": "2fa24758-bf92-4dc4-b1b1-990ecf4bac62", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1783.804, + 1321.844, + 1973.0190000000002, + 920.9499999999998 + ], + "priority": 8, + "parents": [ + 65067 + ], + "children": [ + 65063 + ], + "area": 2357910.6145760003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65063, + "strid": "3963ad14-2bf5-4f3c-9738-ff8d1848cd6d", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1782.218, + 1196.954, + 1858.291, + 120.42800000000011 + ], + "priority": 9, + "parents": [ + 65064 + ], + "children": [], + "area": 2133232.963972, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1.Demographic and clinical information forpatients with non affective first-\nepisode psychotic (FEP) and healthy controls\\(HC)" + }, + { + "id": 65066, + "strid": "fa99a2f5-fc17-490f-8887-552e2ce30e00", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1905.437, + 2308.035, + 1770.3980000000001, + 999.1350000000002 + ], + "priority": 10, + "parents": [ + 65067 + ], + "children": [ + 65062 + ], + "area": 4397815.2862949995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65062, + "strid": "b6f95e89-dd38-4946-a3f9-3ccf660a31e5", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1789.541, + 3364.982, + 1956.1030000000003, + 256.4430000000002 + ], + "priority": 11, + "parents": [ + 65066 + ], + "children": [], + "area": 6021773.253262, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: a) FA map showing thejresults of the between group comparison at baseline\n(FEP vs. HC). b) FA map showing the results of the longitudinal comparison of FEP\n(followup vs. baseline). Gold colors indicates lower FA values, afid“not colors indicates\nhigher FA values." + }, + { + "id": 65054, + "strid": "cf2d9d37-9076-4915-b6d9-ed5fc2a51c49", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3881.146, + 1107.698, + 178.80200000000013, + 41.59899999999993 + ], + "priority": 12, + "parents": [ + 65067 + ], + "children": [ + 65059 + ], + "area": 4299137.661908001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 65059, + "strid": "93e59874-f38b-4921-83ad-d86dd4d2052b", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3878.167, + 1185.797, + 1581.962, + 378.0709999999999 + ], + "priority": 13, + "parents": [ + 65054 + ], + "children": [], + "area": 4598718.794099, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65055, + "strid": "5f84d07b-86d4-423c-955c-48341726cd30", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3879.405, + 1666.783, + 287.00000000000045, + 41.903999999999996 + ], + "priority": 14, + "parents": [ + 65067 + ], + "children": [ + 65060 + ], + "area": 6466126.304115, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 65060, + "strid": "c6b2efe4-0d46-4efb-980e-759e073dff81", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3876.186, + 1743.798, + 1597.0269999999996, + 613.2120000000002 + ], + "priority": 15, + "parents": [ + 65055 + ], + "children": [], + "area": 6759285.394428, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 65056, + "strid": "33700853-e8af-4bbb-8de9-6da3b66d3c49", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3881.082, + 2466.915, + 267.4590000000003, + 42.03800000000001 + ], + "priority": 16, + "parents": [ + 65067 + ], + "children": [ + 65061 + ], + "area": 9574299.40203, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 65061, + "strid": "9601a636-d8de-4967-be66-52fbeb6cec88", + "image_id": 203058, + "image_name": "119664.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3878.328, + 2542.811, + 1481.1569999999997, + 215.55099999999993 + ], + "priority": 17, + "parents": [ + 65056 + ], + "children": [], + "area": 9861855.100008, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41634, + "strid": "9ca6e29c-5395-46be-9527-6d0f233e67ff", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 17.53, + 11.47, + 46.92999999999999, + 328.53 + ], + "priority": -1, + "parents": [], + "children": [ + 41606, + 41599, + 41633, + 41603, + 41600, + 41601, + 41605, + 41607, + 41602, + 41604 + ], + "area": 201.06910000000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41599, + "strid": "9de0b06a-170e-4977-a86c-5face39c4668", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 88.288, + 81.982, + 5423.423, + 132.432 + ], + "priority": 1, + "parents": [ + 41634 + ], + "children": [], + "area": 7238.026816, + "iscrowd": 0, + "segmentation": [], + "text": "Do initial species communities planted affect subsequent succession? Results from a nine-year succession experiment" + }, + { + "id": 41600, + "strid": "ab065670-f348-4594-9aa3-8794cbf5f37d", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1653.351, + 228.042, + 2296.041, + 182.797 + ], + "priority": 2, + "parents": [ + 41634 + ], + "children": [], + "area": 377033.46874200006, + "iscrowd": 0, + "segmentation": [], + "text": "Lee H. Dietterich and Brenda B. 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CC onnilyv PAL AIRS" + }, + { + "id": 41611, + "strid": "01c1bb91-7a93-4ea9-9d65-31c082fa05f9", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2005.124, + 3384.386, + 652.2830000000001, + 792.6479999999997 + ], + "priority": 27, + "parents": [ + 41606 + ], + "children": [], + "area": 6786113.593864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41612, + "strid": "45b4223f-5c46-4e9b-86d4-727816e1fa8b", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2809.545, + 3389.105, + 708.9090000000001, + 792.1740000000004 + ], + "priority": 28, + "parents": [ + 41606 + ], + "children": [], + "area": 9521843.007225, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41603, + "strid": "80738d52-7750-4da5-ae41-296c45975a33", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3905.423, + 484.814, + 417.78600000000006, + 85.86100000000005 + ], + "priority": 29, + "parents": [ + 41634 + ], + "children": [ + 41622, + 41623, + 41620 + ], + "area": 1893403.746322, + "iscrowd": 0, + "segmentation": [], + "text": "Ordination" + }, + { + "id": 41620, + "strid": "99dce0b9-f7d8-4eab-b2f4-c7f799e44236", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3905.035, + 584.343, + 1569.3819999999996, + 615.7099999999999 + ], + "priority": 30, + "parents": [ + 41603 + ], + "children": [], + "area": 2281879.867005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41623, + "strid": "3538102e-ed5c-47ca-a3ec-e9cb50e30838", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4034.769, + 1276.548, + 1252.1280000000002, + 1245.2629999999997 + ], + "priority": 31, + "parents": [ + 41603 + ], + "children": [], + "area": 5150576.297412, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41622, + "strid": "a7f52676-e471-47e7-974d-3f3cc9259ce0", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4096.862, + 2558.468, + 1110.5259999999998, + 173.471 + ], + "priority": 32, + "parents": [ + 41603 + ], + "children": [], + "area": 10481690.327415999, + "iscrowd": 0, + "segmentation": [], + "text": "Red — Plots; see treatment key in Methods\nBlack — Compost centroids + 1SE ellipses\nBlue — Contour lines representing plot species richness" + }, + { + "id": 41607, + "strid": "b3e0fe07-9ce7-4cca-9449-f2febf3bc65a", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3925.056, + 2766.825, + 403.32199999999966, + 90.44200000000001 + ], + "priority": 33, + "parents": [ + 41634 + ], + "children": [ + 41619 + ], + "area": 10859943.0672, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 41619, + "strid": "82a1e3a5-3c50-4cd5-a2bb-f2ea253a4b4d", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3923.251, + 2876.141, + 1437.3099999999995, + 670.143 + ], + "priority": 34, + "parents": [ + 41607 + ], + "children": [], + "area": 11283823.054391, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 41633, + "strid": "6a77ee44-dcd7-4e32-bfcd-709b8aaf1cb6", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3992.689, + 3604.786, + 623.4479999999999, + 72.36499999999978 + ], + "priority": 35, + "parents": [ + 41634 + ], + "children": [ + 41610 + ], + "area": 14392789.409554, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 41610, + "strid": "6c13703d-553b-4250-92d8-8eeb36ffb2e5", + "image_id": 202133, + "image_name": "118212.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3991.641, + 3684.08, + 1369.1280000000002, + 360.62800000000016 + ], + "priority": 36, + "parents": [ + 41633 + ], + "children": [], + "area": 14705524.77528, + "iscrowd": 0, + "segmentation": [], + "text": "UPenn: A. Rhoads, T. Block, P. Petraitis, numerous field\nassistants, Educational and Teaching Fellowships\n\nLehigh Gap Nature Center: D. Kunkle, D. Husic\n\nEPA: C. Root\nArcadis: J. Lansing" + }, + { + "id": 200247, + "strid": "a03416db-0d31-4377-9ca5-14f08aadb226", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 88.53, + 364.6, + 295.19000000000005, + 135.08999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 200221, + 200222, + 200226, + 200224, + 200225, + 200223 + ], + "area": 32278.038000000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200221, + "strid": "0fb08a33-4d12-415f-962b-a070eecf2f8e", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 85.287, + 45.909, + 4606.58, + 282.782 + ], + "priority": 1, + "parents": [ + 200247 + ], + "children": [], + "area": 3915.440883, + "iscrowd": 0, + "segmentation": [], + "text": "Active microorganisms in forest soils differ from the total community yet are shaped\nby the same environmental factors" + }, + { + "id": 200222, + "strid": "7cb9facc-33fc-41f1-8ccb-8394611a7bfc", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 924.451, + 367.255, + 2927.675, + 151.56899999999996 + ], + "priority": 2, + "parents": [ + 200247 + ], + "children": [], + "area": 339509.252005, + "iscrowd": 0, + "segmentation": [], + "text": "Karl J. Romanowicz' (kjromano@umich.edu), Zachary Freedman’, Rima Upchurch’, William Argiroff!, and Donald Zak’\n1School of Natural Resources and Environment, University of Michigan, Ann Arbor, MI, USA" + }, + { + "id": 200223, + "strid": "33ce9adf-b0a1-4774-b186-6b5b99690f69", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 206.989, + 567.908, + 1187.609, + 67.42399999999998 + ], + "priority": 3, + "parents": [ + 200247 + ], + "children": [ + 200240, + 200231, + 200227 + ], + "area": 117550.709012, + "iscrowd": 0, + "segmentation": [], + "text": "Microbial Diversity and the Environment" + }, + { + "id": 200227, + "strid": "bc8d5857-5035-449b-a3dd-9008c20b87c9", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 157.464, + 720.576, + 1284.216, + 191.41599999999994 + ], + "priority": 4, + "parents": [ + 200223 + ], + "children": [], + "area": 113464.779264, + "iscrowd": 0, + "segmentation": [], + "text": "Predicting the impact of environmental change on soil\nmicrobial functions requires an understanding of how\nthe environment shapes microbial composition" + }, + { + "id": 200231, + "strid": "b0bbdf90-e6ce-4795-96e7-318b7d43fb16", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 130.276, + 988.187, + 1341.935, + 502.63199999999995 + ], + "priority": 5, + "parents": [ + 200223 + ], + "children": [], + "area": 128737.04961200002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200240, + "strid": "47a4b5d7-f6bd-49ec-ad75-13d488e30eac", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 164.953, + 1822.961, + 1253.052, + 654.0640000000001 + ], + "priority": 6, + "parents": [ + 200223 + ], + "children": [ + 200235 + ], + "area": 300702.885833, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200235, + "strid": "239a9ea0-eb67-4cae-95e4-f5f6c2976866", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 123.613, + 1603.76, + 1344.188, + 180.36899999999991 + ], + "priority": 7, + "parents": [ + 200240 + ], + "children": [], + "area": 198245.58488, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1 Physical, chemical, and biogeochemical forest floor characteristics for four\nforest stands in upper and lower Michigan, USA that span the north-south geographic\nrange of northern hardwoods. Mean + standard deviation values are presented with\npost-hoc analysis for site differences (P < 0.05 via ANOVA) denoted." + }, + { + "id": 200224, + "strid": "7340a9c4-d65b-4d9d-89fb-bf801f0a51fe", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2296.581, + 566.986, + 1723.529, + 68.28800000000001 + ], + "priority": 8, + "parents": [ + 200247 + ], + "children": [ + 200243, + 200244, + 200242, + 200229, + 200241, + 200228 + ], + "area": 1302129.274866, + "iscrowd": 0, + "segmentation": [], + "text": "Microbial Composition Across the Michigan Gradient Study" + }, + { + "id": 200228, + "strid": "7f205d9a-54ae-4ac3-9ae7-e8a8b10ff4e0", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1772.299, + 717.568, + 1428.5569999999998, + 188.515 + ], + "priority": 9, + "parents": [ + 200224 + ], + "children": [], + "area": 1271745.048832, + "iscrowd": 0, + "segmentation": [], + "text": "Q1: Does the composition of total and active communities\nwithin bacteria and fungi differ from one another across the\nregional climatic gradient?" + }, + { + "id": 200243, + "strid": "5a86ee92-862f-4baa-824f-12d98d3b4923", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1629.246, + 909.647, + 1707.263, + 661.1539999999999 + ], + "priority": 10, + "parents": [ + 200224 + ], + "children": [ + 200236 + ], + "area": 1482038.736162, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200236, + "strid": "d4658b25-3956-40ce-bb01-47183985ee3a", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1665.133, + 1586.123, + 1598.8169999999998, + 133.58799999999997 + ], + "priority": 11, + "parents": [ + 200243 + ], + "children": [], + "area": 2641105.749359, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Nonmetric multidimensional scaling (NMDS) ordinations based on Bray-Curtis dissimilarity of\nOTU abundance within (a) bacterial or (b) fungal communities reveals spatial variation by site and\nbetween total and active communities. Each marker represents an individual plot in the NMDS charts." + }, + { + "id": 200244, + "strid": "6ecd9120-e19f-4193-9147-6f5fe96470e2", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1679.867, + 1739.308, + 1621.168, + 606.315 + ], + "priority": 12, + "parents": [ + 200224 + ], + "children": [ + 200237 + ], + "area": 2921806.112036, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200237, + "strid": "9419d9e3-c702-4f98-bd30-7e1a72cea01a", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1665.89, + 2374.26, + 1664.343, + 87.73700000000008 + ], + "priority": 13, + "parents": [ + 200244 + ], + "children": [], + "area": 3955255.9914000006, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Relative abundance of total and active bacterial and fungal taxa across the Michigan Gradient study.\nBacterial taxa listed to the left of the dashed line and fungal taxa listed to the right of the dashed line.\n\ni" + }, + { + "id": 200229, + "strid": "14644b71-bd15-4359-97ec-b4ebbc1ecd89", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3523.218, + 721.713, + 1111.1940000000004, + 191.39099999999996 + ], + "priority": 14, + "parents": [ + 200224 + ], + "children": [], + "area": 2542752.232434, + "iscrowd": 0, + "segmentation": [], + "text": "Q2: Are these compositional differences within\ntotal and active communities influenced by the\nsame (or different) environmental factors?" + }, + { + "id": 200241, + "strid": "60f4806c-29d8-46b5-8b30-26618698be99", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3571.914, + 1107.959, + 1006.1179999999999, + 613.0609999999999 + ], + "priority": 15, + "parents": [ + 200224 + ], + "children": [ + 200238 + ], + "area": 3957534.2635260005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200238, + "strid": "471b3274-4f8a-4061-9631-4bc6c7382edc", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3515.428, + 944.669, + 1142.933, + 132.361 + ], + "priority": 16, + "parents": [ + 200241 + ], + "children": [], + "area": 3320915.853332, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2 Influence of individual environmental factors on total and active\nbacterial and fungal composition (via Marginal DistLM). Strongest\nsingle environmental factor within each community denoted in bold." + }, + { + "id": 200242, + "strid": "666388f2-27f4-4930-bf7f-58ab27767213", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3522.962, + 1939.917, + 1112.0859999999998, + 520.107 + ], + "priority": 17, + "parents": [ + 200224 + ], + "children": [ + 200239 + ], + "area": 6834253.874154, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200239, + "strid": "423a7c61-6651-4cdb-8123-a66374c5a0de", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3507.141, + 1744.892, + 1121.2499999999995, + 181.64900000000011 + ], + "priority": 18, + "parents": [ + 200242 + ], + "children": [], + "area": 6119582.273772, + "iscrowd": 0, + "segmentation": [], + "text": "Table 3 Spearman’s rank correlations between bacterial and fungal taxa\nrepresenting significant community effects and environmental factors\nrepresenting significant site effects. Significant correlations (|r,| > 0.59)\ndisplayed." + }, + { + "id": 200225, + "strid": "96a6dacf-f8ee-4b8c-8dea-51886cd8b4e8", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 971.938, + 2552.085, + 1021.6349999999999, + 68.02500000000009 + ], + "priority": 19, + "parents": [ + 200247 + ], + "children": [ + 200245, + 200234, + 200233, + 200232 + ], + "area": 2480468.39073, + "iscrowd": 0, + "segmentation": [], + "text": "Questions and Experimental Design" + }, + { + "id": 200232, + "strid": "ffbe6cdc-101d-4548-bf7d-ccc767217025", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 123.076, + 2705.743, + 1959.5789999999997, + 280.1869999999999 + ], + "priority": 20, + "parents": [ + 200225 + ], + "children": [], + "area": 333012.025468, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200233, + "strid": "e9932b22-c331-46e4-a9f4-a98314e47a2d", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 121.988, + 3004.689, + 1963.8949999999998, + 228.6819999999998 + ], + "priority": 21, + "parents": [ + 200225 + ], + "children": [], + "area": 366536.001732, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200234, + "strid": "ae420927-c695-474d-bbcb-f49451308465", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 121.822, + 3252.492, + 1961.7929999999997, + 227.70899999999983 + ], + "priority": 22, + "parents": [ + 200225 + ], + "children": [], + "area": 396225.08042400004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200245, + "strid": "e1502dca-ab96-4d41-b520-809a411654d1", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2100.441, + 2697.059, + 749.0969999999998, + 745.0010000000002 + ], + "priority": 23, + "parents": [ + 200225 + ], + "children": [ + 200246 + ], + "area": 5665013.303019, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 200246, + "strid": "c8f10390-7490-4d16-9b22-cf7d4a1c6b5d", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2209.688, + 3454.982, + 569.5529999999999, + 40.02799999999979 + ], + "priority": 24, + "parents": [ + 200245 + ], + "children": [], + "area": 7634432.265616001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 The Michigan Gradient Study" + }, + { + "id": 200226, + "strid": "cff13357-821f-4a4e-bd82-e1d29555ccce", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3652.127, + 2553.214, + 361.09799999999996, + 57.25500000000011 + ], + "priority": 25, + "parents": [ + 200247 + ], + "children": [ + 200230 + ], + "area": 9324661.786178, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 200230, + "strid": "1d740f7c-ca3d-4693-a4ce-def2ae2ca287", + "image_id": 208339, + "image_name": "9983.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2998.823, + 2693.446, + 1668.0309999999995, + 810.0639999999999 + ], + "priority": 26, + "parents": [ + 200226 + ], + "children": [], + "area": 8077167.814057999, + "iscrowd": 0, + "segmentation": [], + "text": "Our findings demonstrate that metabolically active microorganisms differ from the total\ncommunity yet are still a subset of the taxa present in the total community.\n\nCompositional differences between total and active communities reflect changes in relative\nabundance of dominant taxa.\n\nFurther, we reveal that both the total and active communities of bacteria and fungi are\nshaped by the same subset of measured environmental factors.\n\nSite differences in soil moisture, pH, SOM carboxyl content, and C and N concentration\neach influenced composition within total and active communities.\n\nFuture research should focus on experiments that manipulate the environmental factors\nidentified in this study (i.e., soil moisture, pH, carboxyl, C, and N) to determine their effects\non microbial composition to better predict functional responses to environmental change in\nnorthern hardwood forests.\n\nRomanowicz KJ, Freedman ZB, Upchurch RA, Argiroff WA, Zak DR. 2016. Active microorganisms in forest soils differ from the total community\nyet are shaped by the same environmental factors: the influence of pH and soil moisture. FEMS Microbiology Ecology 92: fiw149." + }, + { + "id": 101645, + "strid": "ed730be9-9419-488e-8ca4-1b1bbeb5bab0", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 56, + 275.44, + 217.32999999999998, + 294.94 + ], + "priority": -1, + "parents": [], + "children": [ + 101614, + 101617, + 101621, + 101626, + 101615, + 101628, + 101616 + ], + "area": 15424.64, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101615, + "strid": "ed4f078a-8530-44ed-9315-6e2f1a3ea043", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 309.013, + 147.548, + 2815.564, + 224.589 + ], + "priority": 1, + "parents": [ + 101645 + ], + "children": [], + "area": 45594.250124, + "iscrowd": 0, + "segmentation": [], + "text": "Localization and Regulation of Reproductive Steroid Receptors\nin the Raphe Serotonin System of Male Macaques" + }, + { + "id": 101614, + "strid": "02802aa7-1327-4148-8c2f-768347bf9c9a", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 321.337, + 456.986, + 4028.774, + 78.928 + ], + "priority": 2, + "parents": [ + 101645 + ], + "children": [], + "area": 146846.510282, + "iscrowd": 0, + "segmentation": [], + "text": "Cynthia L. Bethea, Kenny Phu, Yelena Belikova, Sarah C. Bethea, Oregon Nationai Primate Research Center, Beaverton, OR 97006" + }, + { + "id": 101617, + "strid": "3233498f-00d0-4c2b-b589-e4d076acb18c", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 194.872, + 640.557, + 599.778, + 90.601 + ], + "priority": 3, + "parents": [ + 101645 + ], + "children": [ + 101618 + ], + "area": 124826.62370400001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 101618, + "strid": "aeb9bbec-d1bd-456f-8c68-902a492d0dc9", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 198.496, + 779.478, + 1337.872, + 1996.2379999999998 + ], + "priority": 4, + "parents": [ + 101617 + ], + "children": [], + "area": 154723.265088, + "iscrowd": 0, + "segmentation": [], + "text": "We have shown that gene-expression for the\nserotonin-related genes, TPH2 and SERT, is\nincreased by androgens, testosterone (T) and\ndihydrotestosterone (DHT). Further,\naromatase inhibition had no effect on TPH2\nor SERT mRNA stimulation.\n\nWe have also shown that estrogen (E) from\nmetabolism of T by aromatase\n\nactivity supports the concentration of serotonin\nin axons (1).\n\nAndrogen receptors (AR) and estrogen\nreceptors (ER) are needed to mediate the\nactions of androgens and estrogens.With our\ntreatment times, nuclear steroid receptors\nwould be engaged. We sought nuclear AR\nand ERs in serotonin neurons of male\nJapanese macaques.\n\nThis study characterized the regulation and\nlocalization of AR, ERa and ERg in the dorsal\nraphe of serotonin neurons with immuno-\nhistochemistry (IHC) in male macaques\ntreated with androgens plus or minus\naromatase inhibitors." + }, + { + "id": 101621, + "strid": "218ad3e5-1f05-4abf-8722-5e474a3776a7", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 211.272, + 2814.188, + 1054.735, + 102.72200000000021 + ], + "priority": 5, + "parents": [ + 101645 + ], + "children": [ + 101624, + 101622, + 101623, + 101643 + ], + "area": 594559.127136, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 101622, + "strid": "278ad5c4-e05f-475f-b838-dc10ff125749", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 220.443, + 2922.413, + 970.356, + 115.5619999999999 + ], + "priority": 6, + "parents": [ + 101621 + ], + "children": [], + "area": 644225.488959, + "iscrowd": 0, + "segmentation": [], + "text": "Male macaques were castrated and treated\nfor 3 months as follows:" + }, + { + "id": 101643, + "strid": "940eec67-1bfb-4267-83f8-f933f8155bc3", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 315.531, + 3053.201, + 933.6770000000001, + 204.7539999999999 + ], + "priority": 7, + "parents": [ + 101621 + ], + "children": [], + "area": 963379.564731, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101624, + "strid": "78652be1-f5c2-4eb8-a800-d4338575e4dc", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 322.73, + 3266.03, + 866.925, + 736.973 + ], + "priority": 8, + "parents": [ + 101621 + ], + "children": [], + "area": 1054045.8619000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101623, + "strid": "afee8a47-bc34-4e04-a37b-582e751fcd20", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 239.747, + 4035.759, + 1061.286, + 552.4799999999996 + ], + "priority": 9, + "parents": [ + 101621 + ], + "children": [], + "area": 967561.112973, + "iscrowd": 0, + "segmentation": [], + "text": "DHT is non-aromatizable.The aromatase\ninhibitor, ATD, blocked the conversion of T to E.\nFlutamide (FLUT) was employed to block AR.\n\nAt the end of 3 months, the midbrain was\ncollected, sectioned and processed for\nimmunohistchemical staining (IHC). Computer\nassisted image analysis was used to\n\nquantify the amount of receptor staining." + }, + { + "id": 101616, + "strid": "b72b71d6-7404-4572-9fde-6b817c513863", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1706.094, + 609.753, + 355.15499999999975, + 99.66099999999994 + ], + "priority": 10, + "parents": [ + 101645 + ], + "children": [ + 101619, + 101637, + 101639, + 101638, + 101627, + 101632, + 101633, + 101620, + 101635, + 101629, + 101630, + 101640, + 101642, + 101634, + 101631, + 101644, + 101636 + ], + "area": 1040295.9347820001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 101636, + "strid": "ca05b697-076c-4101-828b-f21d66c97250", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1751.835, + 739.612, + 1003.643, + 229.40999999999997 + ], + "priority": 11, + "parents": [ + 101616 + ], + "children": [], + "area": 1295678.18802, + "iscrowd": 0, + "segmentation": [], + "text": "AR, ERa and ER® are robustly\nexpressesd in the dorsal raphe\nof male macaques as observed" + }, + { + "id": 101637, + "strid": "a6a12096-1c5c-48f4-9a76-22ed0a269394", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1762.481, + 981.333, + 285.7189999999998, + 60.666000000000054 + ], + "priority": 12, + "parents": [ + 101616 + ], + "children": [], + "area": 1729580.767173, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 101638, + "strid": "c6fce466-d9e4-4e72-9324-b6f7f89149d6", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2112.189, + 971.061, + 736.415, + 74.85199999999998 + ], + "priority": 13, + "parents": [ + 101616 + ], + "children": [], + "area": 2051064.362529, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101619, + "strid": 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"parents": [ + 101616 + ], + "children": [], + "area": 3584056.2793420004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101635, + "strid": "4576746b-8bd3-4b61-bc03-4fd594ed3f3b", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2863.027, + 652.677, + 1871.1130000000003, + 315.80000000000007 + ], + "priority": 17, + "parents": [ + 101616 + ], + "children": [], + "area": 1868631.8732790002, + "iscrowd": 0, + "segmentation": [], + "text": "AR increased with androgen treatment in the presence\nor absence of aromatase inhbition (or E from metabolism).\n\nNeither ERa nor ER$ were regulated in male macaques." + }, + { + "id": 101632, + "strid": "694a7a7c-e8a1-4dbc-b281-2db5b0304aa5", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2934.082, + 971.108, + 524.259, + 573.258 + ], + "priority": 18, + "parents": [ + 101616 + ], + "children": [], + "area": 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{ + "id": 101631, + "strid": "7483526f-e367-4354-ac2d-7b0f2316d7fb", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3175.443, + 2389.671, + 1032.085, + 459.6170000000002 + ], + "priority": 24, + "parents": [ + 101616 + ], + "children": [ + 101641 + ], + "area": 7588264.049253, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101641, + "strid": "b3eeedc0-7539-4c0e-95b7-8d691f8e0871", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3180.5, + 2228.07, + 941.223, + 98.01600000000008 + ], + "priority": 25, + "parents": [ + 101631 + ], + "children": [], + "area": 7086376.635000001, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Sex and species differences in reproductive steroid receptor expression\nin the dorsal raphe nucleus (DRN) and co-localization within serotonin neurons\n(5HT)." + }, + { + "id": 101630, + "strid": "016c44cc-6d92-47e4-aadf-836a9b1d8e23", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3097.419, + 2880.273, + 1226.1819999999998, + 140.375 + ], + "priority": 26, + "parents": [ + 101616 + ], + "children": [], + "area": 8921412.315387, + "iscrowd": 0, + "segmentation": [], + "text": "+yes -no ~sparse\n\nTable 1. Data from rats and mice derived from (2)." + }, + { + "id": 101629, + "strid": "741c05a2-d52e-4d70-9652-37a39a555f7a", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3571.429, + 3061.575, + 1133.9099999999999, + 221.12300000000005 + ], + "priority": 27, + "parents": [ + 101616 + ], + "children": [], + "area": 10934197.740675, + "iscrowd": 0, + "segmentation": [], + "text": "Antibodies used\n\nrabbit anti-human AR (SC-816, Santa Cruz, Dallas, TX)1/400\n\nrabbit anti-human ERa (C1355, Cat #06-935, Millipore, Billerica, MA)1/1000\nmouse anti-human ERB (GTX70174, GeneTex, Irvine, CA) 1/400\n\ngoat anti-TPH antibody (Sigma-Aldrich SAB2501377 St. Louis, MO)1/1000" + }, + { + "id": 101627, + "strid": "f1120250-2a20-4b92-9d1b-ce99a0ce0066", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1698.551, + 3367.034, + 1979.3030000000003, + 565.5799999999999 + ], + "priority": 28, + "parents": [ + 101616 + ], + "children": [], + "area": 5719078.967734, + "iscrowd": 0, + "segmentation": [], + "text": "IHC Colocalization of nuclear receptors (black) with TPH2\n(brown) as a marker for serotonin neurons.\n\nPanels A&B. AR were not expressed by serotonin neurons.\nAR were located in neighboring neurons.\n\nPanels C-F. ERa and ER® were expressed by serotonin\nneurons. Approximately 40% of serotonin neurons contained\ndetectable ERo or ERB." + }, + { + "id": 101626, + "strid": "f89fe177-6197-43a3-b09f-f0ee17a44e1b", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1678.589, + 4009.985, + 615.8719999999998, + 95.94000000000005 + ], + "priority": 29, + "parents": [ + 101645 + ], + "children": [ + 101625 + ], + "area": 6731116.711165, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 101625, + "strid": "7d419f59-4a6f-4fd3-9aee-ae9b8b9340cc", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1678.589, + 4130.684, + 3036.035, + 454.9409999999998 + ], + "priority": 30, + "parents": [ + 101626 + ], + "children": [], + "area": 6933720.724876001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 101628, + "strid": "75db216b-7604-43c0-85a1-5cfeb645fad6", + "image_id": 204425, + "image_name": "122099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3736.655, + 3335.311, + 974.8740000000003, + 349.7159999999999 + ], + "priority": 31, + "parents": [ + 101645 + ], + "children": [], + "area": 12462906.524705002, + "iscrowd": 0, + "segmentation": [], + "text": "References\n\n1. Bethea, C.L., Coleman, K., Phu, K., Reddy, A.P., Phu, A., 2014.\nRelationships between androgens, serotonin gene expression and\ninnervation in male macaques. Neuroscience 274, 341-356.\n\n2. Sheng, Z., Kawano, J., Yanai, A., Fujinaga, R., tanaka, M., Watanabe,\nY., Shinoda, K., 2004. Expression of estrogen receptors (a, 8) and\nandrogen receptor in serotonin neurons of the rat and mouse dorsal\nraphe nuclei; sex and species differences. Neurosci Res 49, 185-196." + }, + { + "id": 51262, + "strid": "c4d518a3-92c4-4eff-9b1d-17c383049214", + "image_id": 202515, + "image_name": "118801.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 88.46, + 142.64, + 34.13000000000001, + 41.31 + ], + "priority": -1, + "parents": [], + "children": [ + 51240, + 51242, + 51235, + 51238, + 51241, + 51236, + 51237, + 51239 + ], + "area": 12617.934399999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 51235, + "strid": "b44fa529-34dd-4997-be22-83ced678426b", + "image_id": 202515, + "image_name": "118801.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 141.06, + 150.852, + 817.537, + 20.49600000000001 + ], + "priority": 1, + "parents": [ + 51262 + ], + "children": [], + "area": 21279.18312, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 51236, + "strid": "8308e3ae-c49e-461f-8d12-79a50ce072ee", + "image_id": 202515, + "image_name": "118801.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 111.455, + 175.695, + 879.279, + 34.986999999999995 + ], + "priority": 2, + "parents": [ + 51262 + ], + "children": [], + "area": 19582.086225, + "iscrowd": 0, + "segmentation": [], + "text": "Nicolas Beaudet\", Josiane Courteau', Francois Michaud’, Philippe Sarret* and Alain Vanasse’\n‘ Dept. of Family and Emergency Medicine, 2 Dept. Physiology & Biophysics, Faculty of Medicine and Health Sciences, Université de Sherbrooke" + }, + { + "id": 51237, + "strid": "650e4f11-7790-4caf-aa62-42c1808ce52c", + "image_id": 202515, + "image_name": "118801.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.809, + 243.689, + 95.213, + 11.105999999999995 + ], + "priority": 3, + "parents": [ + 51262 + ], + "children": [ + 51247 + ], + "area": 18961.197400999998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 51247, + "strid": "0619ee0f-498f-40c4-b179-f7688da4378f", + "image_id": 202515, + "image_name": "118801.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.177, + 259.301, + 212.041, + 78.195 + ], + "priority": 4, + "parents": [ + 51237 + ], + "children": [], + "area": 20012.073277, + "iscrowd": 0, + "segmentation": [], + "text": "The low back pain (LBP) lifetime prevalence averages\ncar sc ert hah cori by\noven eae oeaumencein me re ne ay" + }, + { + "id": 51239, + 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"segmentation": [], + "text": "Andreia Rogerio', Chris Boustrea', Nicholas Broad”, Niels Rogge, Florent Gbelidjit*, Anna Neea', Francisco Azuaje'\n1Genomics England Limited, 2HuggingFace * Contributed Equally" + }, + { + "id": 151761, + "strid": "70b7436a-7331-46f7-a3c4-1a16ecdf0321", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 186.88, + 891.405, + 209.779, + 48.192999999999984 + ], + "priority": 3, + "parents": [ + 151776 + ], + "children": [ + 151767, + 151766 + ], + "area": 166585.7664, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 151766, + "strid": "e0d55dd8-4c2c-44ba-85ae-3c09f814a996", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.759, + 1008.799, + 1464.628, + 456.35699999999997 + ], + "priority": 4, + "parents": [ + 151761 + ], + "children": [], + "area": 139979.94044099998, + "iscrowd": 0, + "segmentation": [], + "text": "Sharing clinical data leads to faster collaboration in medical research and\nultimately contributes to disease prevention and improved treatments. At\nGenomics England, data sharing is crucial to research and to enable the\ninfinity loop that allows continuous improvement of cancer and rare\ndisease diagnosis.\n\nUnfortunately, ensuring personal identifiable data (PID) is anonymized and\ncompliant with the relevant governance is still challenging, especially in\nunstructured data. In the Clinical Variant Ark (CVA) Portal, clinical scientist" + }, + { + "id": 151767, + "strid": "e83a8210-8883-4147-87d8-701543a2fb0e", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1652.289, + 1008.799, + 1430.3190000000002, + 404.93100000000004 + ], + "priority": 5, + "parents": [ + 151761 + ], + "children": [], + "area": 1666827.490911, + "iscrowd": 0, + "segmentation": [], + "text": "share their interpretations of genomic variants in free text boxes. This is\nhighly valuable information but can only be shared with researchers if\ncompletely anonymised.\n\nHere we propose a prof of concept solution to identify and redact all\npersonal names in the CVA database, while still maintaining the relevant\nmedical content. We show that with NLP techniques the anonymisation\ncan reach values of 100% of recall and 80% of precision." + }, + { + "id": 151762, + "strid": "e0bc2406-ad07-4e8e-bb74-024aa4da6d93", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 191.349, + 1588.756, + 633.655, + 58.56600000000003 + ], + "priority": 6, + "parents": [ + 151776 + ], + "children": [ + 151770, + 151768 + ], + "area": 304006.871844, + "iscrowd": 0, + "segmentation": [], + "text": "Methodology and Results" + }, + { + "id": 151770, + "strid": "28eb0031-9309-488a-b7be-b8c395b43661", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 135.291, + 1704.657, + 1456.247, + 310.154 + ], + "priority": 7, + "parents": [ + 151762 + ], + "children": [], + "area": 230624.750187, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151768, + "strid": "a9b36872-c6d9-45b8-9beb-10d69d5752d8", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1648.204, + 1703.266, + 1482.892, + 238.97800000000007 + ], + "priority": 8, + "parents": [ + 151762 + ], + "children": [], + "area": 2807329.834264, + "iscrowd": 0, + "segmentation": [], + "text": "We compare the recall obtained by different open-source pre-trained NER models,\navailable in HuggingFace, and integrated in the anonymisation pipeline tool\nPresidio. We further add NLP techniques to improve the precision of our solution.\nThe most performant model was Flair with 100% and 85% recall for the VC and GI\nsubsets respectively." + }, + { + "id": 151763, + "strid": "5b51b6eb-8f2c-4898-91c9-4178bec6a253", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 163.985, + 2139.458, + 407.6, + 46.11200000000008 + ], + "priority": 9, + "parents": [ + 151776 + ], + "children": [ + 151771, + 151775, + 151769 + ], + "area": 350839.02013, + "iscrowd": 0, + "segmentation": [], + "text": "Technical details" + }, + { + "id": 151771, + "strid": "c62f67b4-7e1f-4ecb-87c7-7b15a6da9375", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 137.471, + 2277.14, + 1462.858, + 794.7260000000001 + ], + "priority": 10, + "parents": [ + 151763 + ], + "children": [], + "area": 313040.71294, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151769, + "strid": "cc50d288-023c-4217-8aee-e428a8be0b40", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 137.216, + 3116.891, + 1460.701, + 95.52700000000004 + ], + "priority": 11, + "parents": [ + 151763 + ], + "children": [], + "area": 427687.31545600004, + "iscrowd": 0, + "segmentation": [], + "text": "For the GI dataset the best performance was obtained using the same strategy and\nreached 85% of recall and 67% of precision." + }, + { + "id": 151775, + "strid": "787ad039-a4f7-4cbe-8536-fca116828c9c", + "image_id": 206405, + "image_name": "21320.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1705.155, + 2127.957, + 1466.9040000000002, + 1068.121 + ], + "priority": 12, + "parents": [ + 151763 + ], + "children": [], + "area": 3628496.5183349997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 151764, + "strid": "8475884c-8cf9-40ad-8362-bba84555f235", + "image_id": 206405, + "image_name": 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"d83a5768-b516-4afe-bf1f-9260d965caaf", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 51.35, + 52.6, + 303.38, + 126.87 + ], + "priority": -1, + "parents": [], + "children": [ + 132526, + 132522, + 132520, + 132533, + 132524, + 132519, + 132534, + 132525, + 132528, + 132523, + 132527, + 132521 + ], + "area": 2701.01, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132519, + "strid": "7b4598ec-7d92-4958-87e2-574a8c9ace86", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 94.871, + 250.048, + 2761.918, + 322.57500000000005 + ], + "priority": 1, + "parents": [ + 132536 + ], + "children": [], + "area": 23722.303808, + "iscrowd": 0, + "segmentation": [], + "text": "Neoantigen discovery workflow\n\nAccurate prediction of immuno-oncology targets" + }, + { + "id": 132520, + "strid": "7c274eb8-9286-42ce-bf1c-a3b0751061a1", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 92.763, + 610.573, + 2793.543, + 63.25 + ], + "priority": 2, + "parents": [ + 132536 + ], + "children": [], + "area": 56638.583199, + "iscrowd": 0, + "segmentation": [], + "text": "Vladimir Kovacevic, Veliborka Josipovic, Stefan Stojanovic, Nikola Skundric, Jack DiGiovanna, Brandi Davis-Dusenbery" + }, + { + "id": 132521, + "strid": "7790a409-fc8b-455f-9f68-009f70d879b6", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 365.287, + 759.485, + 388.56199999999995, + 64.75999999999999 + ], + "priority": 3, + "parents": [ + 132536 + ], + "children": [ + 132535 + ], + "area": 277429.997195, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 132535, + "strid": "6feadf1f-2705-4250-9012-eac31deb920f", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.047, + 891.03, + 971.0509999999999, + 2345.7220000000007 + ], + "priority": 4, + "parents": [ + 132521 + ], + "children": [], + "area": 88253.84840999999, + "iscrowd": 0, + "segmentation": [], + "text": "Neoantigens are peptides on the surface of cancer\ncells that may activate the immune system.\nMultiple novel therapeutic approaches involve\nidentifying neoantigens and predicting which\nneoantigens can be leveraged to trigger\nimmunity-induced tumor regression.\n\nWe present a novel method (workflow) for\nneoantigen discovery and prioritization using Next\nGeneration Sequencing (NGS) data which\nprocess tumor-normal pairs of whole exome\nsequencing (WES) samples and tumor gene\nexpression data. Our method considers multiple\ndimensions of genomic features including phasing\nof mutations, the influence of both somatic and\ngermline mutations, and positions of all transcripts\nand mutations on start and stop codons. This\nNeoantigen workflow (also known as a pipeline) is\na combination of tools (e.g. BWA, GATK4) and is\ndescribed in Common Workflow Language (CWL).\nHere, individual tools are associated with Docker\ncontainers enabling both configurability of all\nrelevant parameters and full reproducibility across\nan abundance of computational environments.\n\nThis neoantigen discovery workflow has been\ntested throughout the last three rounds (Round 2,\nRound X and Round 3) of the Tumor Neoantigen\nSelection Alliance - TESLA Challenge organized\nby the Parker Institute for Cancer Immunotherapy.\nWithin Round X, TESLA provided\nflow-cytometry-validated peptide-HLA sets for\nmore than 10 patients. Our neoantigen discovery\nworkflow detected the majority of confirmed\ncandidates. Detailed results will soon be published\nby the TESLA organizers.\n\nAccurate, reproducible, and rapid discovery of\nneoantigen candidates represents a foundation for\npersonalized cancer vaccine development. Paired\nwith a cloud environment, this Neoantigen\nworkflow has the potential to fulfill the demands for\nrapid turnaround of accurate predictions within a\nclinically compliant environment for a large\nnumber of patients." + }, + { + "id": 132528, + "strid": "0786738c-3ec1-4b53-9f34-d0be64c8be04", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1199.862, + 769.03, + 2211.599, + 546.4460000000001 + ], + "priority": 5, + "parents": [ + 132536 + ], + "children": [], + "area": 922729.87386, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132526, + "strid": "87f42469-7de5-48c4-a6dd-1a811aa0e9c3", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1186.033, + 1416.638, + 1079.8089999999997, + 234.84899999999993 + ], + "priority": 6, + "parents": [ + 132536 + ], + "children": [], + "area": 1680179.4170539998, + "iscrowd": 0, + "segmentation": [], + "text": "1. Integral Neoantigen analysis in CWL\n\nFrom FASTQs to prioritized neoantigen candidates\n\nRNA expression and variant calling included in prioritization" + }, + { + "id": 132527, + "strid": "1de8f7d1-b147-49fa-94c6-0ccb6b76ffa9", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1185.771, + 1721.257, + 963.0429999999999, + 60.10799999999995 + ], + "priority": 7, + "parents": [ + 132536 + ], + "children": [], + "area": 2041016.634147, + "iscrowd": 0, + "segmentation": [], + "text": "2. Wide range of mutational events" + }, + { + "id": 132533, + "strid": "fefd4faf-f872-4e81-a0fb-389372208b59", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1236.606, + 1848.1, + 609.0550000000001, + 975.5329999999999 + ], + "priority": 8, + "parents": [ + 132536 + ], + "children": [], + "area": 2285371.5486, + "iscrowd": 0, + "segmentation": [], + "text": "Changes from all germline and\nsomatic variants\n\nSNPs and indels\n\nMutations on the STOP codon\nMutations that create STOP codons\nVariant phasing\n\nCustomizable transcript\nselection (GTF)\n\nConfigurable filtering based on:\nAgretopicity\n\nTumor and normal VAF\n\nMHC binding scores\n\nPresence in wild type\nprotein database\n\nMaximal size of\nhomopolimer in peptide" + }, + { + "id": 132534, + "strid": "0de68938-fad4-4a06-b9f5-335ba7b9ed8a", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1975.749, 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+ { + "id": 132532, + "strid": "cdc255b3-91ac-4151-80cc-b27741d3c341", + "image_id": 205644, + "image_name": "15495.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1569.781, + 3000.258, + 1536.958, + 51.9670000000001 + ], + "priority": 17, + "parents": [ + 132522 + ], + "children": [], + "area": 4709748.003497999, + "iscrowd": 0, + "segmentation": [], + "text": "For a full article on the neoantigen discovery workflow, please scan the QR code." + }, + { + "id": 100234, + "strid": "05a1399c-589d-43ff-a53a-d2a2104e0c0e", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 193.59, + 95.71, + 215.14000000000001, + 260.17 + ], + "priority": -1, + "parents": [], + "children": [ + 100224, + 100210, + 100220, + 100216, + 100223, + 100228, + 100221, + 100209, + 100227 + ], + "area": 18528.4989, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100227, + "strid": "2ee35ce5-75d7-4fad-9d8f-fde738ec1834", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 523.629, + 93.747, + 3758.6580000000004, + 101.26099999999998 + ], + "priority": 1, + "parents": [ + 100234 + ], + "children": [], + "area": 49088.647863, + "iscrowd": 0, + "segmentation": [], + "text": "VISUAL AND SEMANYIC SUBLIMINAL PRIMING BY T’VO UNRELATED IMAGES" + }, + { + "id": 100228, + "strid": "57a38d7f-c87c-487c-9dbf-992eb214c8a0", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1508.392, + 216.911, + 1783.5070000000003, + 172.18099999999998 + ], + "priority": 2, + "parents": [ + 100234 + ], + "children": [], + "area": 327186.817112, + "iscrowd": 0, + "segmentation": [], + "text": "Muge Erol, Arien Mack, Lindsey Holder, John Bert, Jason Clarke\ng\n\nNew School for Social Research —" + }, + { + "id": 100221, + "strid": "8e988881-da13-4644-9424-342154267c66", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 119.693, + 437.816, + 568.467, + 70.54000000000002 + ], + "priority": 3, + "parents": [ + 100234 + ], + "children": [ + 100222 + ], + "area": 52403.51048799999, + "iscrowd": 0, + "segmentation": [], + "text": "Research ‘yuestion" + }, + { + "id": 100222, + "strid": "6fea545b-874c-4a47-a7db-9593d25ec4f3", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.712, + 531.869, + 1520.062, + 228.21699999999998 + ], + "priority": 4, + "parents": [ + 100221 + ], + "children": [], + "area": 54097.459728, + "iscrowd": 0, + "segmentation": [], + "text": "Previously we reported (Slesar, Mack, Clarke, & Erol, 2011) evidence of subliminal priming by 2 visual images while\ndemonstrating that retinal location was not a factor in priming. That study did not conclusively answer whether both\nprimes are equally and independently capable of priming, and did not employ a vigorous measure of prime visibility.\nThe current study addresses these weaknesses and asks:\n\nCan multiple images of unrelated visual objects each subliminally prime?\n\nIf so, is the priming only perceptual or is it also semantic?" + }, + { + "id": 100223, + "strid": "1debfd83-903d-48b9-8d7a-01d94571193d", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 116.926, + 820.944, + 226.834, + 65.00700000000006 + ], + "priority": 5, + "parents": [ + 100234 + ], + "children": [ + 100225, + 100226 + ], + "area": 95989.698144, + "iscrowd": 0, + "segmentation": [], + "text": "Stimuli" + }, + { + "id": 100225, + "strid": "70b378b8-f1ad-40be-b65c-5be73153be13", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.562, + 914.997, + 1515.912, + 114.80000000000007 + ], + "priority": 6, + "parents": [ + 100223 + ], + "children": [], + "area": 89268.937314, + "iscrowd": 0, + "segmentation": [], + "text": "Priming images were 60 pairs of black and white line drawings of familiar objects, e.g. animals, tools, food items, etc.\neach subtending approximately 3.5° horizontally or vertically, and were placed 3.5° to the left and right of fixation.\nExamples of priming stimuli:" + }, + { + "id": 100226, + "strid": "b59714de-8308-46f6-bb53-1a4f1908e23a", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 103.885, + 1031.631, + 1310.255, + 199.7070000000001 + ], + "priority": 7, + "parents": [ + 100223 + ], + "children": [], + "area": 107170.98643500001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100224, + "strid": "9bc4893c-482a-4f27-97c9-8ae8a036392c", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 118.309, + 1259.397, + 322.27, + 65.00700000000006 + ], + "priority": 8, + "parents": [ + 100234 + ], + "children": [ + 100217, + 100218, + 100230, + 100229, + 100231, + 100219 + ], + "area": 148997.99967299998, + "iscrowd": 0, + "segmentation": [], + "text": "Procedure" + }, + { + "id": 100229, + "strid": "aa1f578a-64e0-424c-aa68-894a0513f648", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.807, + 1356.142, + 1475.014, + 226.10400000000004 + ], + "priority": 9, + "parents": [ + 100224 + ], + "children": [], + "area": 135352.46459400002, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment i (N=22)\n“Do both subliminal images prime?”\n\n180 primed, 60 non-primed trials\nThere were 5 experimental conditions:\n(1) Prime Same AA, (2) Prime Same BB, (3) Prime Different AB, (4) No Prime Same CC, (5) No Prime Different DE" + }, + { + "id": 100230, + "strid": "bc5f87fe-a8df-4850-b1ad-5de501a51268", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.069, + 1621.154, + 1610.258, + 300.346 + ], + "priority": 10, + "parents": [ + 100224 + ], + "children": [], + "area": 157363.797626, + "iscrowd": 0, + "segmentation": [], + "text": "Primes: Pairs of images (A and B) were flashed for 14 ms, backward masked, and followed by 2 visible target images\n\nTask: to report whether the two visible test images were the same or different\n\nPrimed trials: When the test items were the same, they were AA or BB. When different, they were the prime pair itself, AB\nEach of the 2 priming images appeared 3 times as a member of a visible target pair and 3 times as a member of a subliminal\nprime pair\n\nNon-primed trials: A blank screen preceded the mask, which was followed by 2 not previously shown images, either the\nsame (CC) or different (DE)\n\nReaction time (RT) data was collected and RTs on primed and non-primed trials were compared" + }, + { + "id": 100231, + "strid": "cfb1d0aa-8d82-4c68-ba6e-6fa44353b51f", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.069, + 1958.096, + 1134.5, + 147.6489999999999 + ], + "priority": 11, + "parents": [ + 100224 + ], + "children": [], + "area": 190070.420624, + "iscrowd": 0, + "segmentation": [], + "text": "Prime Visibility Check\n\nThis was the final condition, completed after the experimental conditions\n\n120 trials, 60 with the original prime pairs, 60 blank trials. All trials contained a mask.\nTask: to report whether an image preceded the mask and if so what it was" + }, + { + "id": 100217, + "strid": "b1fed134-fbd6-4078-9593-f9f209572c49", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1709.592, + 433.685, + 1133.156, + 193.38799999999998 + ], + "priority": 12, + "parents": [ + 100224 + ], + "children": [], + "area": 741424.4065200001, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 2 (N=22)\n“Is the priming semantic?”\n\n165 primed, 60 non-primed trials\nTarget images exchanged for words that described the images with the conditions that:" + }, + { + "id": 100219, + "strid": "dcd4f1ed-1193-41fb-8941-bb7ad70d2046", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1713.536, + 629.823, + 912.6660000000002, + 106.572 + ], + "priority": 13, + "parents": [ + 100224 + ], + "children": [], + "area": 1079224.384128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100218, + "strid": "d0a1e578-784a-4e53-9b10-a05c4c890f64", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1709.002, + 738.663, + 759.5329999999999, + 191.96500000000003 + ], + "priority": 14, + "parents": [ + 100224 + ], + "children": [], + "area": 1262376.544326, + "iscrowd": 0, + "segmentation": [], + "text": "Procedure was otherwise identical to Experiment 1\n\nPrime Visibility Check\n110 trials, 55 with the original prime pairs, 55 blank trials\nTask: Same as Experiment 1" + }, + { + "id": 100220, + "strid": "67bce529-b7a2-413e-b402-cc2da6bbcf2b", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1726.338, + 963.904, + 1000.336, + 76.68100000000004 + ], + "priority": 15, + "parents": [ + 100234 + ], + "children": [ + 100205 + ], + "area": 1664024.103552, + "iscrowd": 0, + "segmentation": [], + "text": "Timeline of Experimental Events" + }, + { + "id": 100205, + "strid": "b6e3b13c-f298-4116-827f-57a051108405", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1710.23, + 1055.301, + 1655.9969999999998, + 1129.2930000000001 + ], + "priority": 16, + "parents": [ + 100220 + ], + "children": [], + "area": 1804807.42923, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100216, + "strid": "7e4009f8-fc5b-4838-9e24-823de91f9b70", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3422.682, + 439.399, + 227.61099999999988, + 59.045000000000016 + ], + "priority": 17, + "parents": [ + 100234 + ], + "children": [ + 100214, + 100215, + 100211, + 100212, + 100233, + 100213, + 100232, + 100207 + ], + "area": 1503923.048118, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 100215, + "strid": "993f223f-f472-40e1-baf7-b674164ca01f", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3406.445, + 534.634, + 626.692, + 226.07400000000007 + ], + "priority": 18, + "parents": [ + 100216 + ], + "children": [], + "area": 1821201.3161300002, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 1\n\nPriming\n\nPriming occurred.\n\nRTs on primed trials were significantly faster\nthan on non-primed trials in the same (p< .05)\nand different conditions (p< .05)." + }, + { + "id": 100232, + "strid": "0acd2e45-c393-461b-ae6f-8a3cdd30cc4a", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3404.853, + 797.376, + 630.4560000000001, + 220.562 + ], + "priority": 19, + "parents": [ + 100216 + ], + "children": [], + "area": 2714948.065728, + "iscrowd": 0, + "segmentation": [], + "text": "Prime Visibility\n\nAverage hit rate (image detection): 44.2%\nAverage correct rejection rate: 97.8%\n\nDespite the high detection rate, on average, only\n4 of the 120 flashed images (3.6%), which by\nthen had been shown 7 times, were identifiable." + }, + { + "id": 100212, + "strid": "03ccfb13-54e1-4dc7-8881-6df5809091b2", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4043.803, + 539.586, + 585.3119999999999, + 399.986 + ], + "priority": 20, + "parents": [ + 100216 + ], + "children": [], + "area": 2181979.485558, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100213, + "strid": "6e0bdc1f-ed54-4f24-ba4c-af96b2b99d5c", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 4083.802, + 940.905, + 561.3129999999996, + 137.32799999999997 + ], + "priority": 21, + "parents": [ + 100216 + ], + "children": [], + "area": 3842469.72081, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100207, + "strid": "545f92c1-1ef6-4def-9644-98d100a8eb92", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3402.492, + 1095.566, + 614.645, + 228.8520000000001 + ], + "priority": 22, + "parents": [ + 100216 + ], + "children": [], + "area": 3727654.550472, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 2\n\nPriming\n\nSemantic priming occurred.\n\nRTs on primed trials were significantly faster ir\nboth the same (p< .01) and different conditions\n(p< .05)." + }, + { + "id": 100233, + "strid": "45245190-3149-4cc5-98c6-1bb8c2d43116", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3401.926, + 1356.588, + 602.154, + 187.37999999999988 + ], + "priority": 23, + "parents": [ + 100216 + ], + "children": [], + "area": 4615011.988488, + "iscrowd": 0, + "segmentation": [], + "text": "Prime Visibility\n\nAverage hit rate (image detection): 51.7%\nAverage correct rejection rate: 97.7%\n\nOn average, observers could identify only 7 of\nthe 110 priming images (5.9%)." + }, + { + "id": 100211, + "strid": "42be018b-00bb-4d4c-a281-122ffb32d3b8", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4037.137, + 1096.9, + 607.9779999999996, + 383.9859999999999 + ], + "priority": 24, + "parents": [ + 100216 + ], + "children": [], + "area": 4428335.575300001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100214, + "strid": "daf1240e-d2ab-46f8-b2c7-1c698dbdbc95", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 4083.802, + 1486.219, + 569.3129999999996, + 117.32899999999995 + ], + "priority": 25, + "parents": [ + 100216 + ], + "children": [], + "area": 6069424.1246380005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100209, + "strid": "54cfbc96-d7e2-46ea-9ac7-149ca23da731", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3421.158, + 1634.214, + 335.98799999999983, + 59.99800000000005 + ], + "priority": 26, + "parents": [ + 100234 + ], + "children": [ + 100208 + ], + "area": 5590904.299811999, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 100208, + "strid": "e3c94759-840d-4610-9876-52a207b0d2c6", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3409.159, + 1728.877, + 1293.2869999999998, + 259.991 + ], + "priority": 27, + "parents": [ + 100209 + ], + "children": [], + "area": 5894016.584443, + "iscrowd": 0, + "segmentation": [], + "text": "The combined results of Experiment 1 and 2 confirm that two unrelated, subliminal images\ncan both visually and semantically prime. While there is considerable evidence of priming by\nsingle images, and some evidence of priming by multiple digits and word pairs, there is no prior\nreport of identity priming by multiple visual objects. Two experiments are described which provide\nsuch evidence. The first demonstrated equal and independent priming by each of the 2 subliminal\nimages and employed a rigorous prime visibility criterion. The second experiment demonstrated\nthat the priming was not only perceptual but was also semantic." + }, + { + "id": 100210, + "strid": "a15e7d1b-e568-4023-a163-2327d64ef3a4", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3426.492, + 2016.867, + 342.654, + 61.330999999999904 + ], + "priority": 28, + "parents": [ + 100234 + ], + "children": [ + 100206 + ], + "area": 6910778.640564, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 100206, + "strid": "dd31e1ae-b1d9-44e8-967b-98e7e2824405", + "image_id": 204378, + "image_name": "122019.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3407.825, + 2104.864, + 1293.2870000000003, + 69.33100000000013 + ], + "priority": 29, + "parents": [ + 100210 + ], + "children": [], + "area": 7173008.1608, + "iscrowd": 0, + "segmentation": [], + "text": "Slesar, C., Mack, A,, Clarke, J., & Erol, M. (2011). Two object subliminal priming. Journal of Vision, 11(11), 1280.\nCorrespondence: erolm712@newschool.edu" + }, + { + "id": 171417, + "strid": "9169ba28-d1aa-4994-ab7a-369d1a55e8df", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 3241.52, + 35.46, + 201.13999999999987, + 80.44999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 171402, + 171408, + 171403, + 171391, + 171410, + 171395, + 171413, + 171407, + 171392, + 171394, + 171398, + 171401, + 171400, + 171411, + 171412, + 171397, + 171415, + 171396, + 171390, + 171416, + 171414, + 171393, + 171409, + 171406, + 171399, + 171404, + 171405 + ], + "area": 114944.29920000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171391, + "strid": "1ed8d7a6-52cc-45ce-ab3d-e9f2ee3ca738", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 2488.97, + 136.483, + 1014.404, + 97.053 + ], + "priority": 1, + "parents": [ + 171417 + ], + "children": [], + "area": 339702.09251, + "iscrowd": 0, + "segmentation": [], + "text": "JSim, an open-source modeling system for data\nanalysis and reproducibility in research" + }, + { + "id": 171392, + "strid": "5007c288-980e-4fac-aaa8-e0a07b1b8f34", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 2503.595, + 288.046, + 986.4850000000001, + 184.8 + ], + "priority": 2, + "parents": [ + 171417 + ], + "children": [], + "area": 721150.5253699999, + "iscrowd": 0, + "segmentation": [], + "text": "James B. Bassingthwaighte, Erik Butterworth,\nBart Jardine, Gary M. Raymond, Maxwell L. Neal\nBioengineering, University of Washington, Seattle,\n\nWA 98195-5061" + }, + { + "id": 171390, + "strid": "9bae7ca1-616a-44a6-aaa1-29c868945eda", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 70.726, + 54.32, + 2317.086, + 481.55400000000003 + ], + "priority": 3, + "parents": [ + 171417 + ], + "children": [], + "area": 3841.83632, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract: JSim is a simulation system for developing models, designing experiments, and evaluating hypotheses on physiological and pharmacological\nsystems through the testing of model solutions against data. It is designed for interactive, iterative manipulation of the model code, different data sets,\nparameter sets, and for making comparisons among different models running simultaneously or separately. Interactive use is supported by a large collection\nof graphical user interfaces handling model writing and compilation diagnostics, defining input functions, model runs, selection of algorithms solving ordinary\nand partial differential equations, run-time multidimensional graphics, parameter optimization (8 methods), sensitivity analysis, and Monte Carlo simulation for\ndefining confidence ranges. JSim uses Mathematical Modeling Language (MML) a declarative syntax specifying ODEs and PDEs. The model coding and\ndisplaying of results is basically simply defining the parameters, variables, and writing the equations in MML in usual form (except for using x:t for dx/dt)\nmaking it good for teaching modeling as well as for model analysis for research. JSim can be run as a batch job. JSim can automatically translate models\nfrom the repositories for Systems Biology Markup Language (SBML) and CellML models. Stochastic modeling is supported. JSim encourages assigning\nphysical units to variables and parameters and automates the first steps of verification testing by checking for dimensional balance with automatic unit scaling\nincluded in the computation. The JSim Project File sets a standard for reproducible modeling analysis by including in one ascii file everything for a complete\nanalysis of experiments: the data, the quantitative hypotheses defined by the models, and the data analysis. JSim is open source; it and about 400 human\nreadable open source models are available at http:/Awww.physiome.org/jsim/." + }, + { + "id": 171405, + "strid": "2399daee-e1e0-4b1c-9906-b7165bad7df2", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 40.34, + 591.888, + 1211.454, + 534.8180000000001 + ], + "priority": 4, + "parents": [ + 171417 + ], + "children": [], + "area": 23876.761920000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171393, + "strid": "34a0cdda-9c93-4102-b63f-a6eb9154e1eb", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.342, + 1141.527, + 1177.836, + 201.36300000000006 + ], + "priority": 5, + "parents": [ + 171417 + ], + "children": [], + "area": 54042.171234, + "iscrowd": 0, + "segmentation": [], + "text": "(1) Left: A JSim project contains all the models, parameter sets, data sets, plot\npages, and note pages in an organized format. Jsim models can use as many\ncomputation threads as the number of system processors to speed computation\nand runs on Mac, Window, and Linux platforms. Right: Plots are formatted\ninteractively in JSim and saved as plot pages. This is a plot of data." + }, + { + "id": 171410, + "strid": "0b4d1e3c-c9d3-4367-b7d1-71239c4c239d", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 37.403, + 1345.805, + 1212.578, + 967.2230000000002 + ], + "priority": 6, + "parents": [ + 171417 + ], + "children": [], + "area": 50337.144415, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171404, + "strid": "bc1a1345-456d-4d34-aef9-81ef1d9a86fd", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.651, + 2327.255, + 1158.826, + 157.76800000000003 + ], + "priority": 7, + "parents": [ + 171417 + ], + "children": [], + "area": 110896.02800500001, + "iscrowd": 0, + "segmentation": [], + "text": "(2) Left: JSim models are written in Mathematical Modeling Language (MML)\nusing declarative syntax (equations). Right: Plots are formatted interactively by\nusing menu selections or entering variable names manually before or after the\nmodel is run." + }, + { + "id": 171411, + "strid": "333e906a-c0da-4636-a7a4-70eed33da912", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 39.431, + 2513.773, + 1210.55, + 944.9180000000001 + ], + "priority": 8, + "parents": [ + 171417 + ], + "children": [], + "area": 99120.583163, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171401, + "strid": "3b629ea9-8f28-49fa-a872-4581e03aaec9", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.342, + 3475.131, + 1194.386, + 162.7449999999999 + ], + "priority": 9, + "parents": [ + 171417 + ], + "children": [], + "area": 164519.65180199998, + "iscrowd": 0, + "segmentation": [], + "text": "(3) Left: Every model is provided with a similar interface found on the RunTime\nTAB by selecting the Pages TAB then selecting Model_Parms from the pull down\nmenu. Right: The plot page can be expanded to display up to 16 plots of different\nstyles in a 4 x 4 matrix of plots using the View TAB on the plot page." + }, + { + "id": 171416, + "strid": "cc4f33d5-1a5d-4003-8eee-6dc77f5f5a89", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 38.065, + 3643.192, + 1215.049, + 856.0280000000002 + ], + "priority": 10, + "parents": [ + 171417 + ], + "children": [], + "area": 138678.10348, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171400, + "strid": "89c6c2be-ea1e-427c-bbdc-bae2d11c7242", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.342, + 4513.668, + 1166.802, + 237.22199999999975 + ], + "priority": 11, + "parents": [ + 171417 + ], + "children": [], + "area": 213686.070456, + "iscrowd": 0, + "segmentation": [], + "text": "(4) Left: Customized user interfaces are easily generated as an alternative to\nthe standard menu see at thebottom of the previous column. Different kinds of\nruns are available from the All_Runs TAB. Right: (Upper) Model Fits to the data\nare displayed. (Lower) Consecutive snapshots at t=1 to 10 seconds in intervals\nin 1 sec of Albumin in the capillary are captured: 1 sec (solid purple) ... 5 sec\n(solid Blue), 6 sec (dashed purple) ... 10 sec (dashed blue)." + }, + { + "id": 171406, + "strid": "e8cadf2e-030d-4e28-b6a4-e59d86c51287", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1255.4, + 588.283, + 1215.0589999999997, + 804.0300000000001 + ], + "priority": 12, + "parents": [ + 171417 + ], + "children": [], + "area": 738530.4782000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171394, + "strid": "6628c2ab-2acc-4b59-afe4-dc50e4b1e0e3", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1263.795, + 1421.504, + 1169.56, + 164.125 + ], + "priority": 13, + "parents": [ + 171417 + ], + "children": [], + "area": 1796489.64768, + "iscrowd": 0, + "segmentation": [], + "text": "(5) Left: There are eight different optimizers for fitting models to data available\nusing the optimizer Graphical User Interface. This user interface is available by\nselecting the Config TAB. Right: The data is plotted with the un-optimized\nparameters." + }, + { + "id": 171409, + "strid": "cf6f55d6-ae4b-4dc5-90df-75317da0d7ea", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1255.659, + 1609.815, + 1212.9829999999997, + 658.1990000000001 + ], + "priority": 14, + "parents": [ + 171417 + ], + "children": [], + "area": 2021378.6930850002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171403, + "strid": "792f15ad-dc75-4cc2-bc6c-73f7f348ebc1", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1265.117, + 2300.728, + 1130.903, + 160.55999999999995 + ], + "priority": 15, + "parents": [ + 171417 + ], + "children": [], + "area": 2910690.105176, + "iscrowd": 0, + "segmentation": [], + "text": "(6) Left: A detailed report from running the optimizer is available under the\nReport TAB. It includes confidence intervals for each parameter and the\ncorrelation between parameters. Right: The data is plotted with the optimized\nparameters." + }, + { + "id": 171412, + "strid": "ab249bc8-a5cc-40c6-8800-fb1c1cf7bf4b", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1256.064, + 2485.385, + 1214.6049999999998, + 1032.6779999999999 + ], + "priority": 16, + "parents": [ + 171417 + ], + "children": [], + "area": 3121802.6246400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171402, + "strid": "6e7b0f88-39d5-4d35-b3f0-561ce90c627e", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1263.795, + 3548.229, + 1179.2150000000001, + 310.32000000000016 + ], + "priority": 17, + "parents": [ + 171417 + ], + "children": [], + "area": 4484234.069055, + "iscrowd": 0, + "segmentation": [], + "text": "(7) Left: Model's response of changes of parameter values can be analyzed by\n\"looping\" on a parameter. If more that one parameter is being changed, the\nresults can be viewed using nested plots. Right: In the 5x5 matrix of plots,\nPsgGlu, the exchange rate for L- and D-Glucose from the capillary to the\ninterstitial fluid region is varied from from left to right with values 0.66, 2.66,\n4.66, 6.66 and 8.66. The consumption rate for D-Glucose in the cell is varied\nfrom bottom to top with values of 1, 2, 3, 4, and 5. Each individual plot has the\ncell length as the vertical axis and time as the horizontal axis." + }, + { + "id": 171415, + "strid": "e6452923-6ca0-477d-9dee-27645c6b5e25", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1255.669, + 3883.391, + 1213.771, + 536.6150000000002 + ], + "priority": 18, + "parents": [ + 171417 + ], + "children": [], + "area": 4876253.693579, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171399, + "strid": "6eb73942-e916-4b22-8289-976e35241be1", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1262.416, + 4451.604, + 1177.836, + 231.70499999999993 + ], + "priority": 19, + "parents": [ + 171417 + ], + "children": [], + "area": 5619776.115264, + "iscrowd": 0, + "segmentation": [], + "text": "(8) Left: Sensitivity of an model output variable as a result of a small change in\nparameter value is calculated. In this instance the parameters used to generate\na Longtail input function are used to note the change in DGluout. Right: Where\nthe sensitivity function of a parameter is positive (negative) a small positive\nchange in the value of the parameter will cause a positive (negative) change in\nthe variable. W—,- , 9 0. poop pe" + }, + { + "id": 171407, + "strid": "9c33ad8f-964e-481e-8275-e47bdf41e0d3", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2474.064, + 589.484, + 1078.0499999999997, + 596.112 + ], + "priority": 20, + "parents": [ + 171417 + ], + "children": [], + "area": 1458421.142976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171395, + "strid": "5c5491bf-fe71-48e5-8db0-1d890eadd44c", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2487.145, + 1220.141, + 1064.741, + 266.18499999999995 + ], + "priority": 21, + "parents": [ + 171417 + ], + "children": [], + "area": 3034667.587445, + "iscrowd": 0, + "segmentation": [], + "text": "(9) Left: The Monte Carlo routines utilize the values from the optimizer\nGUI. Noise is added to the data being optimized. The noise can be\neither uniform [-1,1] or Gaussian (mean 0, standard deviation) and\neither additive or proportional. The number of cases is set. There are\ntwo types of reports generated: a global report as illustrated here anda\ncomplete set of optimization reports, one for each case. Right: The\nGUI's can be resized." + }, + { + "id": 171408, + "strid": "c082a5cf-5482-4847-b211-d3a13c329194", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2479.592, + 1530.734, + 1073.071, + 597.3669999999997 + ], + "priority": 22, + "parents": [ + 171417 + ], + "children": [], + "area": 3795595.780528, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171396, + "strid": "aaeb622e-b28d-4dcd-99a9-ae659348354f", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2484.386, + 2151.101, + 1027.5030000000002, + 164.125 + ], + "priority": 23, + "parents": [ + 171417 + ], + "children": [], + "area": 5344165.208986, + "iscrowd": 0, + "segmentation": [], + "text": "(10) Left: The covariance between two parameters is illustrated by\na scatter plot, one of the many plots available from the Graph TAB for\nthe Monte Carlo GUI. Right: The data set of parameters was saved\nand used by the second model in this project (see next panel below)." + }, + { + "id": 171413, + "strid": "9779c73f-e0cb-4063-8157-85ab1fdb295d", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2477.914, + 2341.512, + 1076.96, + 598.6990000000001 + ], + "priority": 24, + "parents": [ + 171417 + ], + "children": [], + "area": 5802065.365968001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171397, + "strid": "b6df7adf-33ab-4ac9-ad58-472107629ef8", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2495.42, + 2974.482, + 1037.1570000000002, + 311.69900000000007 + ], + "priority": 25, + "parents": [ + 171417 + ], + "children": [], + "area": 7422581.87244, + "iscrowd": 0, + "segmentation": [], + "text": "(11) (From panel above) Left: The optimized parameters from Monte\nCarlo analysis can be directly stored as a data set and used by a\nsecond model (also stored in this project). This model is written in\nMML, but also accesses two Java procedures, minmax (finds the\nminimum and maximum of an array) and histogram (constructs\nhistogram values from an array). Right: (Upper) The covariance of two\nparameters is graphically illustrated. (Lower) Histogram values are\nplotted as a function of the midpoint of the bin." + }, + { + "id": 171414, + "strid": "fee81edb-cbcc-4f78-ad02-d41f824a88fa", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2485.794, + 3292.859, + 1069.652, + 885.4140000000002 + ], + "priority": 26, + "parents": [ + 171417 + ], + "children": [], + "area": 8185369.145045999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 171398, + "strid": "2370c345-26cf-45da-bac1-e703ce15a860", + "image_id": 207186, + "image_name": "7073.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2483.007, + 4219.898, + 1035.7779999999998, + 426.17199999999957 + ], + "priority": 27, + "parents": [ + 171417 + ], + "children": [], + "area": 10478036.273286, + "iscrowd": 0, + "segmentation": [], + "text": "(12) Model Predictions are uncertain because of uncertainties in:\n(1) inputs to the system, (2) configuration of the model itself, and (3)\nmodel parameter values. Product formation (e.g. energy) depends on\ntransport in series: substrate delivery to tissue by Flow, conductance\ninto cells by permeation, and rates of metabolic reactions, G. With\nconstrained random Gaussian parameter values, the solutions show\ndivergent paths, (upper right and lower left). While parameter values\nare independent of each other (lower right (leftmost panels)) G\nvs.Flow, product formation depends on Flow (lower right (middle\npanels)) and consumption rate (lower right (rightmost panels)) non-\nrandomly, with a predictable probability (contour plots) ." + }, + { + "id": 154233, + "strid": "793e37da-d82c-4720-af7e-e42c689b6634", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1595.66, + 117.26, + 167.6199999999999, + 181.03000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 154229, + 154211, + 154220, + 154221, + 154214, + 154230, + 154216, + 154212, + 154213, + 154210 + ], + "area": 187107.0916, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154210, + "strid": "c1bae039-4449-46ec-9b25-3b2b9591a5e1", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 102.706, + 102.747, + 1356.948, + 228.539 + ], + "priority": 1, + "parents": [ + 154233 + ], + "children": [], + "area": 10552.733382, + "iscrowd": 0, + "segmentation": [], + "text": "Federated Learning\n\nGeneral Review and Future Directions" + }, + { + "id": 154211, + "strid": "00085844-97a9-44f9-bcfb-24d04eed44e6", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 102.188, + 390.451, + 2834.823, + 215.54600000000005 + ], + "priority": 2, + "parents": [ + 154233 + ], + "children": [], + "area": 39899.406788, + "iscrowd": 0, + "segmentation": [], + "text": "Maria Chavero-Diez'?; Socayna Jouide**; Carles Hernandez-Ferrer'?; Laia Cod6'; Karim Lekadir +; Salvador Capella-Gutierrez':?; Josep Lluis Gelpit:23\n\n1 Spanish National Bioinformatics Institute (INB/ELIXIR-ES)\n\n? Barcelona Supercomputing Center (BSC)\n3 Dept Biochemistry and Molecular Biomedicine, University of Barcelona (UB)\n\n4 Dept Mathematics and Informatics, University of Barcelona (UB)" + }, + { + "id": 154212, + "strid": "b2b6aa6a-6435-403d-8a4b-f241e4d5a3b0", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 67.519, + 750.504, + 746.735, + 39.13300000000004 + ], + "priority": 3, + "parents": [ + 154233 + ], + "children": [ + 154218, + 154215 + ], + "area": 50673.27957600001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154218, + "strid": "2ac829e5-9c0c-4f0e-b61e-490db453dc33", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.364, + 842.14, + 815.733, + 604.6 + ], + "priority": 4, + "parents": [ + 154212 + ], + "children": [], + "area": 55887.77896, + "iscrowd": 0, + "segmentation": [], + "text": "Federated learning (FL) is defined as a\ndecentralized machine learning technique that\nenables the training of learning models using\ndata that is distributed across different devices\nor servers, without the need to centralize all\nthe data in a single place.\n\nIn FL, the data is kept on local devices or\nservers, and learning algorithms are used that\nallow the exchange of information only in the\nform of model parameters and not the data\nitself This allows data to remain secure and\nprivate on the source devices." + }, + { + "id": 154215, + "strid": "96e612ff-a3e0-4cdd-bbf0-ddde5f6d4bb0", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 921.216, + 841.711, + 738.8749999999999, + 583.24 + ], + "priority": 5, + "parents": [ + 154212 + ], + "children": [], + "area": 775397.640576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154213, + "strid": "c07a26d2-cff4-402e-bc33-e1c174c808d1", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 55.239, + 1492.414, + 1228.03, + 39.05400000000009 + ], + "priority": 6, + "parents": [ + 154233 + ], + "children": [ + 154219 + ], + "area": 82439.45694599999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154219, + "strid": "accc7375-0305-48fd-95f9-c9d1e7f6cdbe", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 59.965, + 1571.693, + 1464.673, + 417.19900000000007 + ], + "priority": 7, + "parents": [ + 154213 + ], + "children": [], + "area": 94246.570745, + "iscrowd": 0, + "segmentation": [], + "text": "A review of the current state of the art regarding federated machine learning in the\nbiomedical field could provide valuable and novel information on the strengths and\nlimitations of this technology, as well as identify areas in which more research is\nneeded.\n\nThis work also intends to serve as a starting point and roadmap for future\ndevelopments that take place in projects associated with ELIXIR and ELIXIR nodes,\nsuch as the European Genomic Data Infrastructure (GDI) and the EUropean\nFederation for CAncer IMages (EUCAIM)." + }, + { + "id": 154214, + "strid": "c350185e-a1f6-4a9b-a162-36772ea0a87a", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 46.429, + 2038.246, + 828.764, + 42.26800000000003 + ], + "priority": 8, + "parents": [ + 154233 + ], + "children": [ + 154217, + 154222, + 154232 + ], + "area": 94633.723534, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154232, + "strid": "1537b14b-8e87-42b3-9ae3-6a6189b880cf", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.556, + 2134.318, + 977.318, + 92.79799999999977 + ], + "priority": 9, + "parents": [ + 154214 + ], + "children": [], + "area": 133514.39680800002, + "iscrowd": 0, + "segmentation": [], + "text": "Within the framework of this bibliographical review, four\nmain thematic pillars have been selected:" + }, + { + "id": 154222, + "strid": "bfca64ca-68a2-4262-8edb-bd8d219fe0c3", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 63.969, + 2276.312, + 974.876, + 463.1109999999999 + ], + "priority": 10, + "parents": [ + 154214 + ], + "children": [], + "area": 145613.402328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154217, + "strid": "bbeb9921-28eb-4794-8e91-b75643dc43db", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1105.412, + 2172.283, + 613.077, + 544.1730000000002 + ], + "priority": 11, + "parents": [ + 154214 + ], + "children": [], + "area": 2401267.695596, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154220, + "strid": "b6c83268-ee09-4ce6-bc1b-533b42d14f3f", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2293.072, + 715.328, + 422.875, + 48.33400000000006 + ], + "priority": 12, + "parents": [ + 154233 + ], + "children": [], + "area": 1640298.607616, + "iscrowd": 0, + "segmentation": [], + "text": "Review Process" + }, + { + "id": 154216, + "strid": "36161816-4ff7-4a3c-b3cd-34b229ed479a", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1749.678, + 813.692, + 1533.2589999999998, + 1462.5749999999998 + ], + "priority": 13, + "parents": [ + 154233 + ], + "children": [], + "area": 1423698.991176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154230, + "strid": "e18da342-030f-4734-a773-d40e356e54e3", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1788.203, + 2307.976, + 1463.3650000000002, + 65.21199999999999 + ], + "priority": 14, + "parents": [ + 154233 + ], + "children": [], + "area": 4127129.6071280004, + "iscrowd": 0, + "segmentation": [], + "text": "(*) Number of scientific articles included acquired in each iteration and non-cumulative included in each category\nbeing, from left to right: General, Data, Framework, and Case Study." + }, + { + "id": 154221, + "strid": "f2fd9bfa-8ba1-49a5-93ac-83ddf5421f8d", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1788.612, + 2463.539, + 1471.301, + 241.10399999999981 + ], + "priority": 15, + "parents": [ + 154233 + ], + "children": [], + "area": 4406315.417868, + "iscrowd": 0, + "segmentation": [], + "text": "DISCLAIMER!\n\nThis is an ongoing work, still at an early stage. This means that, although, we are\nobserving some interesting patterns, like the lack of case studies that are linked to existing\nFL frameworks, further study of the literature is needed in order to reach a consensus about\n\nthe actual current state of the art and the issues that federated learning is facing." + }, + { + "id": 154229, + "strid": "a3ef7ff3-00bd-4383-86e4-ace40a85ac99", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 42.267, + 2817.327, + 1837.908, + 41.06100000000015 + ], + "priority": 16, + "parents": [ + 154233 + ], + "children": [ + 154227, + 154228, + 154224, + 154225, + 154226, + 154223, + 154231 + ], + "area": 119079.96030900002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154231, + "strid": "4930828a-8fb7-4b82-bc79-ac9e357ca673", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 56.682, + 2904.272, + 3111.991, + 137.47800000000007 + ], + "priority": 17, + "parents": [ + 154229 + ], + "children": [], + "area": 164619.945504, + "iscrowd": 0, + "segmentation": [], + "text": "In our involvement in multiple Spanish and European projects, we were required to develop a system to make federated analysis and federated learning available in multiple\nscenarios. This led to the development of a multiple layers system, each layer dedicated to a specific goal. This modular architecture allows the exchange of the selected solution\nfor any specific task, easily adapting the framework to each project's requirements:" + }, + { + "id": 154223, + "strid": "c5a22e79-224f-4756-9d0c-b7ebd593f0a8", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 58.755, + 3093.707, + 3107.537, + 180.26400000000012 + ], + "priority": 18, + "parents": [ + 154229 + ], + "children": [], + "area": 181770.754785, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154225, + "strid": "1227c1e2-b9fe-4577-ac06-c31d7a1df9c7", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 55.959, + 3326.667, + 2067.504, + 42.422000000000025 + ], + "priority": 19, + "parents": [ + 154229 + ], + "children": [], + "area": 186156.958653, + "iscrowd": 0, + "segmentation": [], + "text": "As depicted in the figure, using a federated learning use-case as an example, our system follows a specific architecture:" + }, + { + "id": 154224, + "strid": "aa6b4da7-dd70-423c-97b5-a8d90ef429b0", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 99.865, + 3499.787, + 972.2859999999998, + 443.80499999999984 + ], + "priority": 20, + "parents": [ + 154229 + ], + "children": [], + "area": 349506.228755, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154227, + "strid": "7157e996-0bac-4a42-b24d-7b30542d08fd", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 67.711, + 4016.295, + 1014.242, + 97.1210000000001 + ], + "priority": 21, + "parents": [ + 154229 + ], + "children": [], + "area": 271947.350745, + "iscrowd": 0, + "segmentation": [], + "text": "General description of the Federated Processing system developed at BSC. It is\ncomposed of four main layers that can be exchanged to use other tools to fit\nmultiple scenarios." + }, + { + "id": 154228, + "strid": "d1c10fe3-0b54-4606-9ae7-20299d5304b9", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1141.143, + 3414.961, + 1986.027, + 696.9749999999999 + ], + "priority": 22, + "parents": [ + 154229 + ], + "children": [], + "area": 3896958.840423, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154226, + "strid": "2d93c99e-3d10-4fd9-9428-38f263004673", + "image_id": 206512, + "image_name": "22566.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 56.428, + 4154.235, + 3162.998, + 89.8739999999998 + ], + "priority": 23, + "parents": [ + 154229 + ], + "children": [], + "area": 234415.17257999998, + "iscrowd": 0, + "segmentation": [], + "text": "In a more general case, Flower can be replaced by containers providing the desired server and client functionalities and/or adapted to be compatible with a different \"management\nframework\" implementations." + }, + { + "id": 85979, + "strid": "152dbd52-65fd-48ea-b390-47f8119cc285", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 144.52, + 472.87, + 273.59000000000003, + 339.64 + ], + "priority": -1, + "parents": [], + "children": [ + 85977, + 85967, + 85969, + 85966, + 85968, + 85971 + ], + "area": 68339.17240000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85966, + "strid": "add53600-eb92-4813-b8ec-53723e2f0b2c", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 675.171, + 432.734, + 2389.51, + 225.82699999999994 + ], + "priority": 1, + "parents": [ + 85979 + ], + "children": [], + "area": 292169.447514, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 85967, + "strid": "381d0cdd-47f9-4b51-9811-564908547bb8", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 155.557, + 951.937, + 1944.1829999999998, + 60.83100000000002 + ], + "priority": 2, + "parents": [ + 85979 + ], + "children": [], + "area": 148080.46390899998, + "iscrowd": 0, + "segmentation": [], + "text": "ZORICA STEVANOV '\\ DEWAN TODOROVIC', JASMINA 372 VANOV-" + }, + { + "id": 85968, + "strid": "a6307a00-df40-49ae-83ee-7bb03e1dc1d6", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 151.336, + 1693.832, + 3012.174, + 601.8639999999998 + ], + "priority": 3, + "parents": [ + 85979 + ], + "children": [], + "area": 256337.75955200003, + "iscrowd": 0, + "segmentation": [], + "text": "Ce face processing refers to perceiving the relational feature configuration (the first-order relations) and their spatial relations (the\nsecond-order relations). Scrambling features impairs configural processing, however we argue that simultaneous visibility of features can\nstill initiate configural processing even with disrupted feature interrelations. Therefore, we devised a method for serial presentation of features\nassuming it will impair any kind of configural processing: (1) rapid serial presentation and (2) serial presentation interleaved with 2s blanks. Ob-\nservers determined thenumber oftrial repetitions. The highestrecognition rate was achieved with the first-order congruent features presented\nsimultaneously or within interleaved serial presentation. We suggest that interleaved serial presentation of the features allows enough time\nto initiate configural processing as participants are trying to retrieve a mental representation of the familiar face and compare each presented\nfeature againstit. With rapid serial presentation, recognition rate dropped dramatically, trial repetitions increased significantly and reaction time\nwas substantially longer as a result of failure to initiate configural processing. Therefore, rapid serial presentation is the only mode-that trig-\ngers pure featural processing. Our results support the findings of previous studies accounting featural processing for prolonged reaction time." + }, + { + "id": 85969, + "strid": "96c74407-3fb1-4504-88e1-d9f6bbe27548", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 157.108, + 2310.915, + 501.566, + 79.12199999999984 + ], + "priority": 4, + "parents": [ + 85979 + ], + "children": [ + 85972, + 85970 + ], + "area": 363063.23382, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 85970, + "strid": "5ed6d47a-74a0-42f8-b2e2-8b9d3bbb2347", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 151.608, + 2655.538, + 1390.895, + 619.7170000000001 + ], + "priority": 5, + "parents": [ + 85969 + ], + "children": [], + "area": 402600.805104, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85972, + "strid": "dde0a601-6e4b-4b18-beb3-a5a32105c502", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1564.703, + 2314.26, + 1610.967, + 1163.295 + ], + "priority": 6, + "parents": [ + 85969 + ], + "children": [], + "area": 3621129.56478, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85971, + "strid": "dbc130d8-d483-421f-a6b1-33d6765c0b81", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 153.427, + 3353.763, + 301.602, + 74.07799999999997 + ], + "priority": 7, + "parents": [ + 85979 + ], + "children": [ + 85975, + 85973, + 85976, + 85974 + ], + "area": 514557.795801, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 85976, + "strid": "c4ee2832-12c1-4a7d-99fa-c8826cc8fa54", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 165.248, + 3489.718, + 827.913, + 933.473 + ], + "priority": 8, + "parents": [ + 85971 + ], + "children": [], + "area": 576668.920064, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85975, + "strid": "c6d2bb21-d473-42e9-bc4d-541d1b6167f8", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1126.851, + 3442.659, + 1072.2360000000003, + 40.139000000000124 + ], + "priority": 9, + "parents": [ + 85971 + ], + "children": [], + "area": 3879363.7368090004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 85974, + "strid": "84fe57ae-f875-4cc3-9150-88d44cdb1fae", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1111.63, + 3489.789, + 811.837, + 934.9059999999995 + ], + "priority": 10, + "parents": [ + 85971 + ], + "children": [], + "area": 3879354.1460700007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85973, + "strid": "4af1899b-dc8f-4e09-87f1-f40d19f80323", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2405.001, + 3488.638, + 732.431, + 464.2579999999998 + ], + "priority": 11, + "parents": [ + 85971 + ], + "children": [], + "area": 8390177.878638001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85977, + "strid": "56cffc24-813e-4989-9ac0-60366d1bf510", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1925.226, + 4005.862, + 422.0369999999998, + 70.30000000000018 + ], + "priority": 12, + "parents": [ + 85979 + ], + "children": [ + 85978 + ], + "area": 7712189.674812, + "iscrowd": 0, + "segmentation": [], + "text": "oA" + }, + { + "id": 85978, + "strid": "94621280-81f8-4c09-a0a8-46c499a708e9", + "image_id": 203845, + "image_name": "121015.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1923.548, + 4083.359, + 1237.8280000000002, + 339.8529999999996 + ], + "priority": 13, + "parents": [ + 85977 + ], + "children": [], + "area": 7854537.0377319995, + "iscrowd": 0, + "segmentation": [], + "text": "Gonfigural spatial relations can aid or disrupt face recognition in the following\nmanner: configural processing Is initiated during serial presentation of facial fea-\ntures as participants are trying to retrieve a mental representation of a familiar\nface thatserves as areference frame for partialanalysis of each single-presented\nfeature. Competing processes wouldincreasecognitiveload which wouldexplain\nprolonged viewing time and a larger number of the trial repetitions. Therefore we\nsuggest that the rapid serial presentation of features is the only mode that initi-\nates pure featural processing, as a result of failure to resolve high cognitive load." + }, + { + "id": 1550, + "strid": "645a16e9-4af7-4b1a-b1fe-a36d45ee42e8", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 27.7, + 24.73, + 121.33, + 114.93999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 1532, + 1547, + 1546, + 1548, + 1549 + ], + "area": 685.021, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1547, + "strid": "ac64fbea-3c91-4838-8a6e-d095ccd727bb", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 163.939, + 71.568, + 3039.214, + 430.047 + ], + "priority": 1, + "parents": [ + 1550 + ], + "children": [], + "area": 11732.786352, + "iscrowd": 0, + "segmentation": [], + "text": "Stabilising wheat flowering time\nand yield under drought in Australia" + }, + { + "id": 1546, + "strid": "bda2c632-09c1-49c5-9c14-acb3c8452444", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 169.253, + 546.444, + 2896.898, + 127.33000000000004 + ], + "priority": 2, + "parents": [ + 1550 + ], + "children": [], + "area": 92487.28633199999, + "iscrowd": 0, + "segmentation": [], + "text": "BM Flohr? 3, JR Hunt2, JA Kirkegaard?, JR Evans?\n\n1 CSIRO Agriculture and Food, PO Box 1700 Canberra ACT 2601 Australia; Department of Animal, Plant and Soil Sciences, AgriBio Centre for AgriBiosciences, 5 Ring Rd, La Trobe University, Bundoora\n3086, Australia; 3 The Australian National University, Research School of Biology, Canberra, ACT 0200" + }, + { + "id": 1532, + "strid": "bbecb3b2-2a72-4a38-8c7e-4b033466de7d", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 165.774, + 907.397, + 2718.327, + 311.1070000000001 + ], + "priority": 3, + "parents": [ + 1550 + ], + "children": [], + "area": 150422.830278, + "iscrowd": 0, + "segmentation": [], + "text": "In south eastern Australian farmers are sowing earlier than traditionally practiced due to increasing frequency of autumn (Cai\net. al. 2012) and spring drought, and increased farm size (Fletcher et a/., 2016). The most widely grown cultivars in south\neastern Australia are spring types with little photoperiod and vernalisation sensitivity which risk flowering outside the optimal\nflowering period if sown too early. The aim of this study is to compare winter vs. spring habit across a range of sowing times to\ndetermine if winter habit has more stable yield and flowering time across the sowing times currently practiced by growers." + }, + { + "id": 1548, + "strid": "2d17da8c-a9cf-4386-a06e-cc211ddfca8e", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 176.434, + 1246.237, + 277.65200000000004, + 75.00600000000009 + ], + "priority": 4, + "parents": [ + 1550 + ], + "children": [ + 1542, + 1545, + 1543, + 1533, + 1540, + 1544, + 1534, + 1541 + ], + "area": 219878.57885800002, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 1545, + "strid": "6be7deae-08c3-4898-867e-47e47292ff49", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 173.461, + 1366.555, + 1382.818, + 1028.3419999999999 + ], + "priority": 5, + "parents": [ + 1548 + ], + "children": [], + "area": 237043.99685500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1544, + "strid": "9884999b-08e0-4e73-98b3-39952078610d", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 164.623, + 2498.025, + 1396.755, + 536.8539999999998 + ], + "priority": 6, + "parents": [ + 1548 + ], + "children": [ + 1539 + ], + "area": 411232.369575, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1539, + "strid": "e9e13578-a28b-4c1d-a2bc-38059cc5a68a", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 173.01, + 2421.863, + 581.914, + 43.01299999999992 + ], + "priority": 7, + "parents": [ + 1544 + ], + "children": [], + "area": 419006.51762999996, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Research experiment details" + }, + { + "id": 1540, + "strid": "4c7d10ac-0dac-4184-b18b-8088d50a637f", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 164.919, + 3068.485, + 1196.586, + 702.9410000000003 + ], + "priority": 8, + "parents": [ + 1548 + ], + "children": [ + 1536 + ], + "area": 506051.47771500004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1536, + "strid": "f1697b57-4161-4bdd-93e8-dc6ff4eeaad9", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 169.564, + 3799.625, + 1344.945, + 140.8499999999999 + ], + "priority": 9, + "parents": [ + 1540 + ], + "children": [], + "area": 644279.6135, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 Simulated potential yield (kg ha) and the mean heat, frost and mean water\nstress from floral initiation to maturity indices (0 to 1) applied to yield plotted against\nflowering date for a mid-fast cultivar of wheat in Temora, New South Wales." + }, + { + "id": 1534, + "strid": "9faece2a-59fa-41be-8bc5-876d2a7025a4", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 165.774, + 3988.735, + 1389.455, + 273.8970000000004 + ], + "priority": 10, + "parents": [ + 1548 + ], + "children": [], + "area": 661228.5558900001, + "iscrowd": 0, + "segmentation": [], + "text": "Optimal flowering periods for wheat in south eastern Australia are driven by\nseasonal water supply and demand and extremes of temperature (Fig. 1).\nThe optimal flowering period for Temora NSW, is 25 September to 10\nOctober. This optimal flowering period can be targeted with appropriate\ncombinations of genotype and establishment times." + }, + { + "id": 1533, + "strid": "89f3cc3e-2e35-42c3-a12b-fdad6de54bc3", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1737.827, + 1252.621, + 1400.032, + 381.64599999999996 + ], + "priority": 11, + "parents": [ + 1548 + ], + "children": [], + "area": 2176838.594567, + "iscrowd": 0, + "segmentation": [], + "text": "Targeting the optimal flowering period with\nspring vs. winter habit\nFlowering times and thus yields of cultivars that possessed winter habit\n\n(RAC2341 and Wedgetail) were more stable than spring cultivars (Gregory\nand Condo, Fig. 2 and Table 2)." + }, + { + "id": 1541, + "strid": "df982ff9-80b9-4129-bcae-9bb4eca5374e", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1731.475, + 1714.397, + 1433.3669999999997, + 706.1130000000003 + ], + "priority": 12, + "parents": [ + 1548 + ], + "children": [ + 1537 + ], + "area": 2968435.545575, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1537, + "strid": "38ec20c7-6435-4fb3-9fce-87c599238c73", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1728.938, + 2443.342, + 1421.951, + 190.26999999999998 + ], + "priority": 13, + "parents": [ + 1541 + ], + "children": [], + "area": 4224386.830796001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Mean grain yield of cultivars plotted against flowering date at Temora, NSW in\nA) 2015 B) 2016 growing season. Condo (e) Gregory (e) RAC2341 (e) and Wedgetail (©)\nLSD (=), the grey column is the optimal flowering period. CultivarTime of sowing, P-\nvalue <0.001" + }, + { + "id": 1543, + "strid": "0cffb5cf-9776-46c2-aaa3-eee83430d44b", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1746.092, + 2907.914, + 1388.513, + 732.971 + ], + "priority": 14, + "parents": [ + 1548 + ], + "children": [ + 1538 + ], + "area": 5077485.372088001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1538, + "strid": "03cdb6a2-d008-49bf-b459-b187a0435482", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1733.382, + 2728.747, + 1394.6749999999997, + 143.24299999999994 + ], + "priority": 15, + "parents": [ + 1543 + ], + "children": [], + "area": 4729960.9323539995, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: The mean flowering date stability (higher number indicates a cultivar is less\nstable), mean yield and mean standard deviation of yield of all years (2015 and 2016)\nand sowing times." + }, + { + "id": 1542, + "strid": "be865556-a3dd-4cf6-9c64-ec227e9a9319", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1742.166, + 3691.581, + 1379.441, + 103.21099999999979 + ], + "priority": 16, + "parents": [ + 1548 + ], + "children": [], + "area": 6431346.904446, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1549, + "strid": "f65d4e20-fcd1-4c15-a3e3-d76496ffd939", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1753.0, + 3825.649, + 353.8960000000002, + 62.623999999999796 + ], + "priority": 17, + "parents": [ + 1550 + ], + "children": [ + 1535 + ], + "area": 6706362.697, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 1535, + "strid": "45c6ec03-efb9-4e2d-9063-cd75b7fa9024", + "image_id": 200556, + "image_name": "10276.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1740.539, + 3919.646, + 1401.0619999999997, + 330.0989999999997 + ], + "priority": 18, + "parents": [ + 1549 + ], + "children": [], + "area": 6822296.729194, + "iscrowd": 0, + "segmentation": [], + "text": "Cultivars with vernalisation requirement (i.e. winter wheats) had more\nstable flowering time and more consistently flowered in the optimal period\nto minimise yield loss from frost, heat and water stress. Such cultivars\nprovide a novel strategy for growers to cope with increasing autumn and\nspring drought patterns emerging in southern Australia. Breeders should\ndevote some resources to winter cultivars given the recent shift in sowing\ntimes." + }, + { + "id": 16829, + "strid": "dd0adc58-6834-4600-b135-d9501381caf0", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 128.55, + 40.55, + 435.28000000000003, + 235.14999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 16831, + 16830, + 16836, + 16843, + 16834, + 16850, + 16837, + 16847, + 16839, + 16846, + 16841, + 16832 + ], + "area": 5212.7025, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 16830, + "strid": "21f5d900-37c8-4bab-9c2c-79d487302490", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 597.924, + 14.767, + 3603.4219999999996, + 299.189 + ], + "priority": 1, + "parents": [ + 16829 + ], + "children": [], + "area": 8829.543708, + "iscrowd": 0, + "segmentation": [], + "text": "Early Detection of Invasive Species — Surveillance Monitoring and\nRapid Response for Northeast Parks\n\nV4 Weve tee" + }, + { + "id": 16831, + "strid": "2c8cc858-c358-4166-9e7d-77949afbdb24", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1068.148, + 322.526, + 2675.331, + 138.978 + ], + "priority": 2, + "parents": [ + 16829 + ], + "children": [], + "area": 344505.501848, + "iscrowd": 0, + "segmentation": [], + "text": "Jesse Wheeler and Kate Miller\nNortheast Temperate Network, National Park Service Inventory & Monitoring Program, Acadia National Park, Bar Harbor, ME 04609" + }, + { + "id": 16832, + "strid": "25f2363e-cfe5-4143-b839-fbee000ae7f5", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 21.353, + 500.721, + 1217.843, + 1804.351 + ], + "priority": 3, + "parents": [ + 16829 + ], + "children": [ + 16833 + ], + "area": 10691.895513000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 16833, + "strid": "ac2188ca-62a2-4e99-9fae-79c65284d4b2", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 36.349, + 2310.159, + 1188.914, + 235.82900000000018 + ], + "priority": 4, + "parents": [ + 16832 + ], + "children": [], + "area": 83971.969491, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Target ISED species vary among three northeast\nregional parks (Fredericksburg & Spotsylvania NMP (FRSP),\nMorristown NHP (MORR), Acadia NP (ACAD)), stretching\nfrom Virginia to,Maine. |" + }, + { + "id": 16837, + "strid": "a742b544-a576-44b2-9563-ba474d2c3b2b", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 32.742, + 2548.893, + 1184.62, + 913.681 + ], + "priority": 5, + "parents": [ + 16829 + ], + "children": [ + 16838 + ], + "area": 83455.854606, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 16838, + "strid": "58555229-78c0-46e1-8047-702dfc265bd8", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 36.993, + 3479.774, + 1125.052, + 114.96099999999979 + ], + "priority": 6, + "parents": [ + 16837 + ], + "children": [], + "area": 128727.279582, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Locations of five ISED sightings at Morristown\nNational Historical Park in May 2011." + }, + { + "id": 16834, + "strid": "83591a1b-b158-4af7-90b5-14e49161bf97", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 966.204, + 526.355, + 263.74, + 63.149 + ], + "priority": 7, + "parents": [ + 16829 + ], + "children": [ + 16835 + ], + "area": 508566.30642, + "iscrowd": 0, + "segmentation": [], + "text": "Objective" + }, + { + "id": 16835, + "strid": "0a3de6a6-c040-4566-b005-9fa3a0eb7c51", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 965.936, + 593.964, + 1367.8289999999997, + 358.4150000000001 + ], + "priority": 8, + "parents": [ + 16834 + ], + "children": [], + "area": 573731.2103040001, + "iscrowd": 0, + "segmentation": [], + "text": "The overall goal of the Invasive Species Early Detection\n(ISED) protdcol is to utilize opportunistic sampling to\ndetect.invasive species in the early stages of\nestablishment while the costs of eradication-are still\nrelatively low." + }, + { + "id": 16839, + "strid": "795a4c56-96e9-4506-960e-765993118320", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1258.981, + 987.52, + 793.6270000000002, + 61.61400000000003 + ], + "priority": 9, + "parents": [ + 16829 + ], + "children": [ + 16840 + ], + "area": 1243268.9171199999, + "iscrowd": 0, + "segmentation": [], + "text": "Creating the ISED species list" + }, + { + "id": 16840, + "strid": "0719d945-078a-4c2b-9b92-b8feef05409a", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1251.011, + 1062.929, + 1293.591, + 588.5529999999999 + ], + "priority": 10, + "parents": [ + 16839 + ], + "children": [], + "area": 1329735.871219, + "iscrowd": 0, + "segmentation": [], + "text": "The target list includes-species that are either 1)\npresent in the park.at low levels, and of\nmanagement concern if new populations are\ndetected, or 2) not present in the park, but that\nhave denjoenstrated impacts to ecosystem function\nin the-region. Target lists for terrestrial, riparian and\naquatic plants and priority pests are reviewed\nannually and updated as needed (Figures 1&2). §" + }, + { + "id": 16841, + "strid": "1a534c92-4c72-41c0-b581-b43e36ae9442", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2615.087, + 559.465, + 505.0279999999998, + 1067.2289999999998 + ], + "priority": 11, + "parents": [ + 16829 + ], + "children": [ + 16842 + ], + "area": 1463049.648455, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 16842, + "strid": "0c20d0ef-71de-4139-9a4e-2c92560aefdd", + "image_id": 201165, + "image_name": "116696.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3131.55, + 668.094, + 291.5819999999999, + 779.4589999999998 + ], + "priority": 12, + "parents": [ + 16841 + ], + "children": [], + "area": 2092169.7657000003, + "iscrowd": 0, + "segmentation": [], + "text": "BTA\nAquatic plant\nlist for three\nNETN parks:\nVela ale\nBillings-\n\nNolo 0.05). To fulfill the normality and linearity assumptions, Y was transformed using Box-Cox power transformation with A=0.5. Positive relationship was\nfound between CPR performance and BLS knowledge as well as respondents who attended a refresher course." + }, + { + "id": 194219, + "strid": "7326db76-738d-43e9-a2c1-e2d6c65a46f9", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 693.006, + 1321.486, + 317.38700000000006, + 43.23000000000002 + ], + "priority": 5, + "parents": [ + 194243 + ], + "children": [ + 194227 + ], + "area": 915797.726916, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 194227, + "strid": "817e7b58-9554-4282-a960-29f0376d37bd", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.36, + 1403.251, + 1477.682, + 891.3799999999999 + ], + "priority": 6, + "parents": [ + 194219 + ], + "children": [], + "area": 161879.03536, + "iscrowd": 0, + "segmentation": [], + "text": "Sudden out-of-hospital cardiac arrest is a major cause of death worldwide and it\nis predominantly due to underlying cardiac disease.' In 2013, the incidence of\nout-of-hospital cardiac arrest in United States is 359,400. Although a 40.1% rate\nof bystander cardiopulmonary resuscitation (CPR) was delivered, only 9.5%\nsurvived. Therefore, the quality of CPR conducted by bystanders was\nquestioned.* Basic Life Support (BLS) is fundamental and life-saving following\ncardiac arrest, and high quality CPR is strongly emphasised because it is\nassociated with improved survival and better outcome.®\n\nThe Ministry of Health (MOH) recognised the need for health care\nprofessionals (HCPs) to be trained in CPR, making BLS certification among\nHCPs a Key Performance Indicator (KPI) for Hospital Directors in 2009.4\n\nQuality of CPR has been found to be inconsistent and inadequate even\nwith HCPs attending to in-hospital cardiac arrests. This is due to several\nreasons, including deterioration of CPR skills over time.®\n\nTo date there are no major studies comparing CPR skill retention and\ncharacteristics among HCPs and laypersons. Taking into account\ndemographical variations between the two groups, we explored the differences\nand factors that affect the retention of CPR skills and knowledge." + }, + { + "id": 194221, + "strid": "058132fe-ff7a-403e-b4d9-03f910f8b494", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 709.609, + 2390.914, + 274.80499999999995, + 54.13299999999981 + ], + "priority": 7, + "parents": [ + 194243 + ], + "children": [ + 194228 + ], + "area": 1696614.0926260003, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 194228, + "strid": "b42c08c6-39e5-4448-8724-f62b815ee4a1", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 116.267, + 2470.626, + 1455.206, + 342.0830000000001 + ], + "priority": 8, + "parents": [ + 194221 + ], + "children": [], + "area": 287252.273142, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194222, + "strid": "83203f66-0b15-42b5-ae96-0e5cb9510274", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 690.255, + 2901.122, + 339.2399999999999, + 55.19599999999991 + ], + "priority": 9, + "parents": [ + 194243 + ], + "children": [ + 194230, + 194231, + 194229 + ], + "area": 2002513.96611, + "iscrowd": 0, + "segmentation": [], + "text": "Methodology" + }, + { + "id": 194229, + "strid": "5e51ce1f-b599-4933-8c55-eacd70d9c3c3", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 118.892, + 2984.175, + 1474.131, + 258.9859999999999 + ], + "priority": 10, + "parents": [ + 194222 + ], + "children": [], + "area": 354794.5341, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194230, + "strid": "c660355a-567e-44bc-971e-68904a53d4ce", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 155.956, + 3272.822, + 1391.5, + 379.0340000000001 + ], + "priority": 11, + "parents": [ + 194222 + ], + "children": [ + 194242 + ], + "area": 510416.227832, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194242, + "strid": "83d6c13e-3b81-48e7-9670-cf3569ce81fd", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 558.476, + 3672.834, + 578.87, + 26.83100000000013 + ], + "priority": 12, + "parents": [ + 194230 + ], + "children": [], + "area": 2051189.640984, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Data collection methods for this stuay." + }, + { + "id": 194231, + "strid": "9641931e-83fc-462c-ac4c-54c9b16d5ec0", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 118.82, + 3726.603, + 1474.914, + 357.41600000000017 + ], + "priority": 13, + "parents": [ + 194222 + ], + "children": [], + "area": 442794.96846, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194220, + "strid": "256d4825-c75b-4269-98d3-13e54de2923c", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2336.145, + 1322.115, + 195.38900000000012, + 43.25999999999999 + ], + "priority": 14, + "parents": [ + 194243 + ], + "children": [ + 194236, + 194234, + 194235, + 194239 + ], + "area": 3088652.346675, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 194234, + "strid": "a84798e6-6955-40fb-9f43-e8e3c9eca43b", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1670.94, + 1403.071, + 1528.8650000000002, + 85.94000000000005 + ], + "priority": 15, + "parents": [ + 194220 + ], + "children": [], + "area": 2344447.45674, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194235, + "strid": "6d89fc80-c744-458e-a7dc-082473449bc1", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1733.817, + 1518.553, + 522.3980000000001, + 330.1700000000001 + ], + "priority": 16, + "parents": [ + 194220 + ], + "children": [ + 194238 + ], + "area": 2632893.0068010003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194238, + "strid": "d03d7f31-a742-4c1a-b9fd-f9256b790bc8", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1698.17, + 1857.163, + 594.5100000000002, + 63.825000000000045 + ], + "priority": 17, + "parents": [ + 194235 + ], + "children": [], + "area": 3153778.49171, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Mean score of BLS knowledge and CPR\nperformance in both groups" + }, + { + "id": 194236, + "strid": "d825d35c-fb39-4a59-ac58-014154b50225", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2287.362, + 1581.739, + 883.7150000000001, + 173.539 + ], + "priority": 18, + "parents": [ + 194220 + ], + "children": [ + 194237 + ], + "area": 3618009.6825180002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194237, + "strid": "c1b56100-3048-4c1a-a261-d16e72e806a8", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2522.209, + 1762.995, + 406.58600000000024, + 28.644000000000005 + ], + "priority": 19, + "parents": [ + 194236 + ], + "children": [], + "area": 4446641.855954999, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2: Mean score comparison" + }, + { + "id": 194239, + "strid": "cf437e9d-1436-446d-bd69-69d54706c2a2", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1671.696, + 1943.656, + 1528.0950000000003, + 990.3710000000001 + ], + "priority": 20, + "parents": [ + 194220 + ], + "children": [], + "area": 3249201.9605759997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194223, + "strid": "475849ba-6cdd-453e-be66-299c99f82c3a", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2289.619, + 3009.032, + 287.741, + 43.253000000000156 + ], + "priority": 21, + "parents": [ + 194243 + ], + "children": [ + 194240 + ], + "area": 6889536.838808001, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 194240, + "strid": "54a5230a-7ca7-41dd-8715-21518f453853", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1662.918, + 3089.615, + 1550.3860000000002, + 383.5500000000002 + ], + "priority": 22, + "parents": [ + 194223 + ], + "children": [], + "area": 5137776.396569999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194224, + "strid": "3b61d4d5-c73b-40a8-862d-ee97ed1cf680", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2285.545, + 3552.029, + 294.62300000000005, + 43.784999999999854 + ], + "priority": 23, + "parents": [ + 194243 + ], + "children": [ + 194241 + ], + "area": 8118322.120805, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 194241, + "strid": "419a3135-7371-49fe-bdee-e8ae1c7e96eb", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1668.875, + 3638.708, + 1534.821, + 460.63400000000047 + ], + "priority": 24, + "parents": [ + 194224 + ], + "children": [], + "area": 6072548.8135, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194225, + "strid": "8871dd21-a48f-49f0-b5b8-3262f2d31530", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1233.829, + 4161.439, + 267.8589999999999, + 36.22099999999955 + ], + "priority": 25, + "parents": [ + 194243 + ], + "children": [ + 194232 + ], + "area": 5134504.119931, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCES" + }, + { + "id": 194232, + "strid": "c90c1409-62ff-4abd-a010-fadeab64022f", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 85.167, + 4208.925, + 2568.858, + 413.3729999999996 + ], + "priority": 26, + "parents": [ + 194225 + ], + "children": [], + "area": 358461.515475, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 194233, + "strid": "d6035f9e-753a-4b40-9914-f925b74f522a", + "image_id": 208098, + "image_name": "9372.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2733.84, + 4185.241, + 487.2130000000002, + 410.875 + ], + "priority": 27, + "parents": [ + 194243 + ], + "children": [], + "area": 11441779.25544, + "iscrowd": 0, + "segmentation": [], + "text": "Corresponding Author:\n\nDr Cheah Phee-Kheng,\nEmergency Physician and\nHead of Department,\n\nSabah Women and Children’s\nHospital, Locked Bag 187,\n88996 Kota Kinabalu, Sabah.\nTel: +6016-8108384\n\nFax: +6088-434582\n\nEmail: pkheng1@yahoo.com" + }, + { + "id": 132465, + "strid": "ddb8b883-a49a-460f-814d-ea338428c4f7", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1579.59, + 192.76, + 366.6400000000001, + 252.86 + ], + "priority": -1, + "parents": [], + "children": [ + 132432, + 132431, + 132441, + 132433, + 132451, + 132429, + 132430, + 132428, + 132434, + 132435 + ], + "area": 304481.76839999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132428, + "strid": "ffd1aab4-52cc-44c5-8883-97aedc74aef7", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 3536.804, + 181.219, + 5483.632, + 195.767 + ], + "priority": 1, + "parents": [ + 132465 + ], + "children": [], + "area": 640936.084076, + "iscrowd": 0, + "segmentation": [], + "text": "Training the biomedical workforce for long-term career success" + }, + { + "id": 132429, + "strid": "ee76fece-9cee-4bb6-8261-d5f8ab5a6022", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 3966.677, + 432.441, + 2287.5410000000006, + 251.57099999999997 + ], + "priority": 2, + "parents": [ + 132465 + ], + "children": [], + "area": 1715353.768557, + "iscrowd": 0, + "segmentation": [], + "text": "Adriana Bankston and Gary S. McDowell\n\nThe Future of Research, Inc., Abington, MA" + }, + { + "id": 132430, + "strid": "39609826-638f-407b-ade3-55e616d9c6d5", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 885.595, + 924.885, + 511.751, + 100.63699999999994 + ], + "priority": 3, + "parents": [ + 132465 + ], + "children": [ + 132437 + ], + "area": 819073.531575, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 132437, + "strid": "501b28ce-2d36-4de2-88c3-f440c9df46ad", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 146.821, + 1099.906, + 2119.786, + 3286.5970000000007 + ], + "priority": 4, + "parents": [ + 132430 + ], + "children": [], + "area": 161489.29882599998, + "iscrowd": 0, + "segmentation": [], + "text": "Sustainability of the research enterprise depends on a\nwell-trained biomedical workforce that is both educated in\nperforming rigorous research and can gain valuable skills\nrequired for career success. Adequately training the workforce\nrequires partnerships among various groups, including\nuniversities, funding agencies, industry and government. At the\nsame time, it is critical that scientists from all backgrounds have\naccess to high-quality academic training as they progress in their\ncareers. Therefore, systemic change in academia is required for\nensuring long-term success of an entire generation of scientists.\nProposed systemic changes in academia include better pay,\nadequate mentoring, leadership opportunities and increased\nvalue for the intellectual contributions of young scientists to the\nresearch enterprise. Increasing transparency around career\noutcomes for graduate students and postdoctoral researchers is\nan additional step towards enabling young scientists to make\nbetter informed career decisions.\n\nFuture of Research aims to empower young scientists to\nadvocate for change in many of these areas in an evidence-\nbased manner. Our organization has made significant impact in\nadvocating for increased postdoctoral salaries, resulting in\ninstitutional change. We are currently focused on improving the\nmentoring landscape within institutions, ensuring meaningful\nleadership experiences for young scientists in scientific\nsocieties, and celebrating their contributions to the manuscript\npeer review process. These are a few examples of areas where\nsystemic change in academia is needed. We have also advocated\nfor career outcomes transparency and highlighted the efforts of\nothers who made an impact in this space. We hope this work\nresults in meaningful actions among key partners towards\nimproving training for the biomedical workforce and ensuring\nlong-term career success for promising young scientists." + }, + { + "id": 132435, + "strid": "0c13e02b-88d7-444a-add0-972eb406c2aa", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 536.863, + 4640.119, + 1370.78, + 107.03799999999956 + ], + "priority": 5, + "parents": [ + 132465 + ], + "children": [ + 132446, + 132445, + 132444, + 132464 + ], + "area": 2491108.206697, + "iscrowd": 0, + "segmentation": [], + "text": "What is Future of Research?" + }, + { + "id": 132444, + "strid": "64b3023d-ca1e-4044-8e46-9b1f1e847ffd", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.098, + 4809.478, + 2129.3, + 202.40499999999975 + ], + "priority": 6, + "parents": [ + 132435 + ], + "children": [], + "area": 635322.424844, + "iscrowd": 0, + "segmentation": [], + "text": "501(c)(3) non-profit representing ECRs, through grassroots\n\nadvocacy, to promote systemic change to the way we do science." + }, + { + "id": 132464, + "strid": "8cb864cb-1b07-404a-a31b-a3565be26efc", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1267.77, + 5052.925, + 984.9670000000001, + 825.4399999999996 + ], + "priority": 7, + "parents": [ + 132435 + ], + "children": [], + "area": 6405946.72725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132445, + "strid": "fb3a1224-e9fb-4c1f-b9a0-9dcbf63034e8", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 211.089, + 5913.978, + 953.7450000000001, + 517.1199999999999 + ], + "priority": 8, + "parents": [ + 132435 + ], + "children": [], + "area": 1248375.702042, + "iscrowd": 0, + "segmentation": [], + "text": "This is a representation of\nsome of our workshops which\nutilize sticky notes, where\nECRs participate with\nquestions, and a panel\ncomponent typically exists." + }, + { + "id": 132446, + "strid": "290585be-0fa8-40c5-bb52-125ff70576ec", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1257.525, + 5911.539, + 1043.9969999999998, + 943.9880000000003 + ], + "priority": 9, + "parents": [ + 132435 + ], + "children": [], + "area": 7433908.080975, + "iscrowd": 0, + "segmentation": [], + "text": "This publication represents the\nviews of young researchers on\nthe state of the research\nenterprise. Recommendations\ninclude: increased connectivity\namong junior scientists and\nother stakeholders; increased\ntransparency in the number and\ncareer outcomes of trainees;\nand increased financial\ninvestment in junior scientists." + }, + { + "id": 132431, + "strid": "3fa413d7-983d-4962-8db0-f004be075096", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2624.128, + 934.252, + 2954.171, + 105.16499999999996 + ], + "priority": 10, + "parents": [ + 132465 + ], + "children": [ + 132436, + 132440, + 132439, + 132438 + ], + "area": 2451596.832256, + "iscrowd": 0, + "segmentation": [], + "text": "How do we achieve sustainability in the research enterprise?" + }, + { + "id": 132436, + "strid": "1919ff8a-3098-4188-8eff-a6468387034d", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2515.309, + 1101.043, + 2663.041, + 439.89200000000005 + ], + "priority": 11, + "parents": [ + 132431 + ], + "children": [], + "area": 2769463.367287, + "iscrowd": 0, + "segmentation": [], + "text": "There are several systemic issues in biomedical research which multiple sources\nhighlighted in the last several years. The publication Rescuing US biomedical\nresearch from its systemic flaws provides notable background on this topic and\n\nprovides recommendations for change [Bruce Alberts, Marc W. Kirschner, Shirley\nTilghman, Harold Varmus]." + }, + { + "id": 132438, + "strid": "43d33038-6f50-4423-838b-882a6d753ecd", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2522.282, + 1627.465, + 2338.21, + 519.0310000000002 + ], + "priority": 12, + "parents": [ + 132431 + ], + "children": [], + "area": 4104925.67513, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132439, + "strid": "94eeb364-3c83-46a2-a9a6-909cf02f0d81", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2527.42, + 2236.427, + 2299.6679999999997, + 434.23900000000003 + ], + "priority": 13, + "parents": [ + 132431 + ], + "children": [], + "area": 5652390.3283400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132440, + "strid": "0f06f2b9-4e59-49ea-976a-948b89fd37b2", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2525.9, + 2755.231, + 1837.5149999999999, + 168.23900000000003 + ], + "priority": 14, + "parents": [ + 132431 + ], + "children": [], + "area": 6959437.982900001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132441, + "strid": "10651ab6-202c-4505-bdc9-ae7eff9252a9", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2801.615, + 3026.587, + 2653.2610000000004, + 107.47400000000016 + ], + "priority": 15, + "parents": [ + 132465 + ], + "children": [ + 132463, + 132442 + ], + "area": 8479331.538005, + "iscrowd": 0, + "segmentation": [], + "text": "How should we train the next generation of scientists?" + }, + { + "id": 132463, + "strid": "795471bf-12d5-4bdf-84e8-fcaab368c3ff", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2677.045, + 3194.745, + 2819.568, + 1233.942 + ], + "priority": 16, + "parents": [ + 132441 + ], + "children": [], + "area": 8552476.128525, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132442, + "strid": "f508cd98-fe77-4052-a896-6f2cdcae85ef", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2532.795, + 4478.168, + 3103.04, + 431.58500000000004 + ], + "priority": 17, + "parents": [ + 132441 + ], + "children": [], + "area": 11342281.51956, + "iscrowd": 0, + "segmentation": [], + "text": "The traditional training model (left) focuses largely on scientific training and research required\nfor a career on the academic track, where mentorship is critical. The model proposed by NIH\nBEST (right) expands this training with experiential learning and professional development, in\naddition to mentorship and career development resources. It also allows for broadening the\nrange of careers that trainees are prepared for, where academia is one of several options." + }, + { + "id": 132434, + "strid": "2ba08062-7c91-45ac-bd76-5aa5c7ebd289", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3058.337, + 4971.475, + 2071.123, + 116.89800000000014 + ], + "priority": 18, + "parents": [ + 132465 + ], + "children": [ + 132449, + 132448, + 132447, + 132450, + 132443 + ], + "area": 15204445.937075, + "iscrowd": 0, + "segmentation": [], + "text": "Advocacy: Fair Compensation for Postdocs" + }, + { + "id": 132443, + "strid": "dce5301f-2eaa-47b0-83ea-1465cefe9dd8", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2541.955, + 5124.025, + 3186.5339999999997, + 688.0020000000004 + ], + "priority": 19, + "parents": [ + 132434 + ], + "children": [], + "area": 13025040.968874998, + "iscrowd": 0, + "segmentation": [], + "text": "Proposed systemic changes in academia are: fair compensation, adequate mentoring, leadership\nopportunities for early career researchers, as well as an increased value for intellectual\ncontributions of young scientists to the research enterprise. Fair compensation is critical for\nensuring that money is not a barrier to young scientists who want to pursue science careers. Our\nprior work examined the compliance of institutions with the Fair Labor Standards Act (FLSA). This\nwork can be used for advocacy towards fair compensation for postdocs [Rodoniki Athanasiadou,\nAdriana Bankston, McKenzie Carlisle, Carrie Niziolek, Gary McDowell]." + }, + { + "id": 132447, + "strid": "f243ceb0-696e-4f8d-a33c-7ac7bb4d9d36", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2912.673, + 5861.218, + 938.9319999999998, + 833.6890000000003 + ], + "priority": 20, + "parents": [ + 132434 + ], + "children": [], + "area": 17071811.415714, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132449, + "strid": "cde920ec-e219-4ad4-b17d-6a442aff10ba", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2798.737, + 6744.35, + 1445.6800000000003, + 343.1199999999999 + ], + "priority": 21, + "parents": [ + 132434 + ], + "children": [], + "area": 18875661.885950003, + "iscrowd": 0, + "segmentation": [], + "text": "Our work found average postdoc salary is\nsignificantly higher for male than female\npostdocs in universities across the Northeast\nand South (13,000 postdocs)." + }, + { + "id": 132448, + "strid": "8571604f-e6e9-4f0f-bfc5-68597efc8f2a", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4420.639, + 5863.878, + 1156.853, + 825.6599999999999 + ], + "priority": 22, + "parents": [ + 132434 + ], + "children": [], + "area": 25922087.778042, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132450, + "strid": "67ecbb28-1fcc-4812-81bb-27cca8c5d103", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4356.503, + 6739.775, + 1399.9309999999996, + 285.9340000000002 + ], + "priority": 23, + "parents": [ + 132434 + ], + "children": [], + "area": 29361850.006824996, + "iscrowd": 0, + "segmentation": [], + "text": "Variability among annual postdoc salaries\nbased on titles provided by institutions for\n\na total of 13,000 postdocs nationwide." + }, + { + "id": 132432, + "strid": "6a5399f7-15b4-4f01-b7ec-b6964d8d61c2", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 7103.606, + 923.112, + 2649.255000000001, + 99.97199999999998 + ], + "priority": 24, + "parents": [ + 132465 + ], + "children": [ + 132458, + 132460, + 132461, + 132462, + 132459 + ], + "area": 6557423.941872, + "iscrowd": 0, + "segmentation": [], + "text": "Improving the mentoring landscape within institutions" + }, + { + "id": 132462, + "strid": "9dd45d10-74af-4163-b3f6-5a1bacad3e87", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 5964.98, + 1089.562, + 5055.852999999999, + 349.61300000000006 + ], + "priority": 25, + "parents": [ + 132432 + ], + "children": [], + "area": 6499215.538759999, + "iscrowd": 0, + "segmentation": [], + "text": "Mentoring is critical to training the next generation of scientists. A prior workshop at UMD-College Park focused on culturally aware mentoring,\nhypercompetition, mental health, ethical behavior, and advocacy. A_second meeting held in Chicago aimed to develop a set of mentoring guidelines at the\n\ndepartment level, and enlist departments to implement them in order to improve mentoring in institutions [Juan Pablo Ruiz, Pinar Gurel, William H Olds,\nAdriana Bankston, Gary S McDowell]." + }, + { + "id": 132458, + "strid": "7df61605-228e-4ea1-8d6b-ec3b5f7f3bcb", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 6706.775, + 1470.979, + 1294.232, + 1229.878 + ], + "priority": 26, + "parents": [ + 132432 + ], + "children": [], + "area": 9865525.182725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132460, + "strid": "e5ccb170-4dde-46cd-bfc6-3d6fb0fb96bd", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 6563.766, + 2743.76, + 1769.7379999999994, + 690.0190000000002 + ], + "priority": 27, + "parents": [ + 132432 + ], + "children": [], + "area": 18009398.60016, + "iscrowd": 0, + "segmentation": [], + "text": "This summary shows elements necessary to ensure\nstrong mentorship in STEM. In addition to career\nsatisfaction and research productivity, strong\nmentorship provides increased self-efficacy, research\nproductivity, fosters a sense of belonging, allows for a\nsense of persistence, and also increases science\nidentity, in particular with URM recruitment." + }, + { + "id": 132459, + "strid": "4f3050dd-1868-49f4-aeab-6aa0f1074345", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 8665.999, + 1496.006, + 1630.304, + 1190.5509999999997 + ], + "priority": 28, + "parents": [ + 132432 + ], + "children": [], + "area": 12964386.499994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132461, + "strid": "fea7774c-eaf1-4e4e-8c8a-270311fdc4b3", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 8626.672, + 2733.035, + 1794.7639999999992, + 611.364 + ], + "priority": 29, + "parents": [ + 132432 + ], + "children": [], + "area": 23576996.50952, + "iscrowd": 0, + "segmentation": [], + "text": "Main barriers to effective mentoring from the College\nPark meeting were due to a lack of exposure to and\ntraining in best mentoring practices, as well as a lack\nof incentives and accountability. This chart provides\nfunding agencies, professional societies, and institutes\nwith actionable steps towards changing the mentoring\nlandscape in institutions." + }, + { + "id": 132433, + "strid": "eef344cc-a14e-4d96-9104-27532eee1371", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 7497.849, + 3497.823, + 2183.124, + 103.66800000000012 + ], + "priority": 30, + "parents": [ + 132465 + ], + "children": [ + 132454, + 132455, + 132456, + 132457, + 132453 + ], + "area": 26226148.682726998, + "iscrowd": 0, + "segmentation": [], + "text": "ECR contributions to the peer review process" + }, + { + "id": 132457, + "strid": "df306431-adfb-4394-bbb8-13a11e0e7eea", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 5984.484, + 3642.622, + 4986.834999999999, + 448.5329999999999 + ], + "priority": 31, + "parents": [ + 132433 + ], + "children": [], + "area": 21799213.077048, + "iscrowd": 0, + "segmentation": [], + "text": "The intellectual contributions of early career reseachers (ECRs) to the research enterprise are often not adequately recognized, although they fall under\nservice activities provided to the university. Peer review is such an activity, which ECRs don’t always receive credit for. The peer review study we\nperformed sought to better understand how commonly ECRs contribute ideas and/or text to peer review reports when they are not the invited reviewer\n\n(“co-review’’), and how commonly ECRs do not receive named credit to the journal editorial staff for these scholarly efforts (“ghostwrite”) [Gary S.\nMcDowell, John Knutsen, June Graham, Sarah K. Oelker, Rebeccah S. Lijek]." + }, + { + "id": 132454, + "strid": "7d487b63-d48d-484d-b903-1cebc4d34531", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 6202.64, + 4127.454, + 1892.888, + 1143.9040000000005 + ], + "priority": 32, + "parents": [ + 132433 + ], + "children": [], + "area": 25601111.27856, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132453, + "strid": "4426e972-db8f-4c60-8ac1-38ffa66f494a", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 6195.15, + 5319.02, + 1946.679, + 424.8779999999997 + ], + "priority": 33, + "parents": [ + 132433 + ], + "children": [], + "area": 32952126.753000002, + "iscrowd": 0, + "segmentation": [], + "text": "This figure shows the number of co-reviewing experiences\nby ECR career stage. The distribution of postdocs (n=312) is\nskewed toward more co-reviewing experiences while the\ndistribution of PhD students (n=89) is skewed toward fewer\nco-reviewing experiences." + }, + { + "id": 132455, + "strid": "a2283338-0317-4f88-86f6-a629b614ce4c", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 8267.623, + 4129.212, + 2165.857, + 1515.397 + ], + "priority": 34, + "parents": [ + 132433 + ], + "children": [], + "area": 34138768.103076, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132456, + "strid": "d4c522f6-f5cf-4343-b814-42d6240f563f", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 8273.766, + 5662.784, + 2053.361000000001, + 283.9529999999995 + ], + "priority": 35, + "parents": [ + 132433 + ], + "children": [], + "area": 46852549.724543996, + "iscrowd": 0, + "segmentation": [], + "text": "These data represent statements of agreement from all\nrespondents to the questions regardless of whether or not they\nhad participated in peer review." + }, + { + "id": 132451, + "strid": "ad4f8f74-a2cb-4bd3-ae83-9132f6452f65", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 8212.459, + 6099.4, + 597.9930000000004, + 106.3100000000004 + ], + "priority": 36, + "parents": [ + 132465 + ], + "children": [ + 132452 + ], + "area": 50091072.424600005, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 132452, + "strid": "c59d584f-5fec-444c-bf2a-0d17bcd36d93", + "image_id": 205640, + "image_name": "15488.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 5926.798, + 6272.154, + 5049.715999999999, + 797.3239999999996 + ], + "priority": 37, + "parents": [ + 132451 + ], + "children": [], + "area": 37173789.782892, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192066, + "strid": "da87ee23-23fe-485d-8155-035f58509698", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 34.9, + 31.76, + 299.5, + 77.02 + ], + "priority": -1, + "parents": [], + "children": [ + 192063, + 192047, + 192050, + 192049, + 192048, + 192065, + 192051 + ], + "area": 1108.424, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192047, + "strid": "6d258740-b8a2-4458-b775-86eab594469a", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1798.671, + 205.291, + 1353.162, + 268.936 + ], + "priority": 1, + "parents": [ + 192066 + ], + "children": [], + "area": 369250.968261, + "iscrowd": 0, + "segmentation": [], + "text": "STAB HEART WITH\nPACEMAKER IN SITU" + }, + { + "id": 192048, + "strid": "9a38e0f9-d3ea-46e5-b15c-ae43c9c7a31e", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1703.503, + 578.894, + 1534.0910000000001, + 222.32799999999997 + ], + "priority": 2, + "parents": [ + 192066 + ], + "children": [], + "area": 986147.665682, + "iscrowd": 0, + "segmentation": [], + "text": "Mohamedsuhel Chagani, MD?\nKamil Vallabh, MBBCh, FCEM (SA)\n\nDivision of Emergency Medicine, Stellenbosch University, Cape Town, South Africa\n*Division of Emergency Medicine, University of Cape Town, Cape Town, South Africa" + }, + { + "id": 192065, + "strid": "bfd64dcc-01ca-496e-b1af-d089d29e7e4d", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 140.852, + 142.776, + 965.0780000000001, + 816.0709999999999 + ], + "priority": 3, + "parents": [ + 192066 + ], + "children": [], + "area": 20110.285152, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192049, + "strid": "46db1b33-a429-486c-a322-706c90e1fc55", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 432.253, + 1028.919, + 369.42299999999994, + 38.74199999999996 + ], + "priority": 4, + "parents": [ + 192066 + ], + "children": [ + 192052 + ], + "area": 444753.32450700004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192052, + "strid": "41db48f6-5ca4-4aea-a5ad-f724f4a387f3", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 109.373, + 1131.065, + 1016.3009999999999, + 1040.9360000000001 + ], + "priority": 5, + "parents": [ + 192049 + ], + "children": [], + "area": 123707.97224500001, + "iscrowd": 0, + "segmentation": [], + "text": "Penetrating cardiac injury is among the most\ndramatic and lethal of all injuries. It is an injury\ncommonly encountered in the Republic of South\nAfrica. (1) The Mitchell’s Plain hospital was\ncommissioned as a district level hospital to\nprovide level 1 (generalist) services to in-patients\nand outpatients, but has evolved to provide some\nspecialist services as well. (2) The hospital has a\n24-hour emergency service and an operating\ntheatre. (2) However, there are no high care or\nintensive care unit facilities available and\nspecifically, no specialist cardiology and\n\ncardiothoracic surgery service on site." + }, + { + "id": 192050, + "strid": "5dd55527-8a2d-40fb-b036-17cdd3a36141", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 388.24, + 2283.497, + 453.10300000000007, + 50.25199999999995 + ], + "priority": 6, + "parents": [ + 192066 + ], + "children": [ + 192059, + 192056, + 192055, + 192060, + 192053, + 192054, + 192061 + ], + "area": 886544.8752799999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192053, + "strid": "c2cdfc00-a07d-4521-b721-1549800d301c", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.587, + 2449.845, + 1011.5620000000001, + 900.2649999999999 + ], + "priority": 7, + "parents": [ + 192050 + ], + "children": [], + "area": 266021.31901499996, + "iscrowd": 0, + "segmentation": [], + "text": "Mr. A L, a 48-year-old male was brought to the\nEmergency Centre (EC) by ambulance with a\nhistory of a single stab wound to the left side of\nthe chest. The pre-hospital providers also\nreported that the patient had been drinking\nalcohol and had a documented episode of\nhypotension on scene. However, they were\nunable to establish intravenous access and the\npatient was rushed to the EC. It was noted that\nthe patient had a pacemaker, but the reason for\n\nit could not be immediately established." + }, + { + "id": 192054, + "strid": "912b854e-8f30-4f45-9420-374a0e2d7610", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 101.818, + 3471.073, + 1030.183, + 273.97699999999986 + ], + "priority": 8, + "parents": [ + 192050 + ], + "children": [], + "area": 353417.710714, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192055, + "strid": "3a5b84ef-9d19-40a8-86cf-03ada5e51799", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 110.7, + 3824.488, + 1008.626, + 1324.4549999999995 + ], + "priority": 9, + "parents": [ + 192050 + ], + "children": [], + "area": 423370.82159999997, + "iscrowd": 0, + "segmentation": [], + "text": "Pertinent findings on primary exam revealed\nslightly reduced air entry on the left with cold\nand clammy extremities. Fluid resuscitation\nwas commenced with a 2 litre crystalloid bolus\nafter the insertion of two large bore peripheral\nintravenous lines. Point of care ultrasound (E-\nFAST) showed a 16.6mm pericardial effusion\nwith no obvious pneumohaemothorax. An\nintercostal drain (ICD) was placed in the left\nchest on clinical grounds despite the negative\nultrasound. The on-call surgical team was\nmobilized to assist with the resuscitation.\nDespite the fluid bolus, the patient did not\nrespond with a significant increase in blood\npressure. The best-recorded BP was 60/45\nmmHg." + }, + { + "id": 192056, + "strid": "61496a48-5e09-4d52-9180-5915be255e43", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1259.119, + 1028.79, + 1009.5579999999998, + 1835.6279999999997 + ], + "priority": 10, + "parents": [ + 192050 + ], + "children": [], + "area": 1295369.03601, + "iscrowd": 0, + "segmentation": [], + "text": "An electrocardiogram showed a paced rhythm\nwith electrical alternans (figure 1) and a chest\nradiograph revealed cardiomegaly, a\npacemaker with a single lead in the right\nventricle and a left ICD (figure 2). An internal\njugular central venous catheter was inserted as\nwell as a femoral arterial line to obtain invasive\nblood pressure. Further fluid resuscitation\nconsisted of 500 mls of colloid and a unit of\nemergency blood but despite the further\nvolume, the patient’s blood pressure did not\nrespond. Adrenaline was started at 0.1 mcg/kg/\nmin and increased slowly to 0.3 mcg/kg/min,\nwith no improvement in blood pressure or level\nof consciousness. A decision to over ride the\npacemaker with external pacing was made by\nthe anaesthetic consultant on call. The heart rate\n(HR) was set at 80 bpm. Electric and mechanical\ncapture was achieved at 80mA. The BP\nimproved and a mean arterial pressure (MAP)\nof 62mmHg was achieved. The adrenaline was\n\nweaned down to 0.2 mcg/kg/min." + }, + { + "id": 192059, + "strid": "ccf26fbf-4602-4e1f-8258-17f675dffc7e", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1258.916, + 3095.787, + 1025.36, + 731.8040000000001 + ], + "priority": 11, + "parents": [ + 192050 + ], + "children": [ + 192057 + ], + "area": 3897335.7868919997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192057, + "strid": "4e5a3151-85f6-4c8d-b5c3-93c5586a5491", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1265.295, + 3037.192, + 242.365, + 40.73100000000022 + ], + "priority": 12, + "parents": [ + 192059 + ], + "children": [], + "area": 3842943.85164, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: ECG" + }, + { + "id": 192060, + "strid": "ce78d7bf-a5bb-4c29-a3d0-e379b843380c", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1266.901, + 4038.241, + 1009.2650000000001, + 924.058 + ], + "priority": 13, + "parents": [ + 192050 + ], + "children": [ + 192058 + ], + "area": 5116051.561141, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192058, + "strid": "584cc338-0cca-4384-b016-e750936766e5", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1270.048, + 3979.365, + 356.38599999999997, + 41.896999999999935 + ], + "priority": 14, + "parents": [ + 192060 + ], + "children": [], + "area": 5053984.55952, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Chest x-ray" + }, + { + "id": 192061, + "strid": "15097c35-530b-4dc2-9150-638049b79e72", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2406.515, + 1029.562, + 1009.864, + 728.896 + ], + "priority": 15, + "parents": [ + 192050 + ], + "children": [], + "area": 2477656.3964299997, + "iscrowd": 0, + "segmentation": [], + "text": "The patient was transferred to a tertiary trauma\ncentre where cardiothoracic surgeons and\ncardiology were on standby. On arrival at the\ntertiary trauma centre, the patient was awake\nand able to sign consent for a sternotomy,\nwhich revealed a left ventricular stab with a\npericardial effusion. The patient subsequently\nunderwent cardiac repair and was discharged\n\nsuccessfully 5 days later." + }, + { + "id": 192051, + "strid": "da8582ae-0408-4672-8395-93b7205abfc1", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2721.166, + 1916.323, + 383.8510000000001, + 50.25500000000011 + ], + "priority": 16, + "parents": [ + 192066 + ], + "children": [ + 192062 + ], + "area": 5214632.992618, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192062, + "strid": "330ff98e-42b0-410e-8dec-0cb9f2fc1ab0", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2407.899, + 2082.766, + 1011.0970000000002, + 2769.042 + ], + "priority": 17, + "parents": [ + 192051 + ], + "children": [], + "area": 5015090.168634, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluating a patient with penetrating cardiac\ninjury is complex and time sensitive. (3) A high\nindex of suspicion coupled with aggressive\nresuscitation and rapid diagnosis of life\nthreatening injury is required. (4) FAST\n(focused assessment with sonography in\ntrauma) was initially used for assessment for\nblunt trauma. (3) It has now been validated for\nuse in penetrating cardiac injuries and was\nfound to be both rapid and accurate for\nevaluation of penetrating precordial wounds.\n(3,5) We found no published literature on\nmanagement of penetrating cardiac injury with\na pacemaker in situ. The blood pressure is\ndetermined by three factors including cardiac\noutput and total peripheral resistance. The\ncardiac output (CO), a measure of the amount\nof blood that is pumped out of the heart in one\nminute, is made up of two components, heart\nrate (HR) and stroke volume (SV). An increase\nin HR, SV or both will increase the CO. SV on\nthe whole does not fluctuate too much, with\nonly relatively small increases. HR on the other\nhand increases quite dramatically and thus is\nthe biggest influencer of increasing the CO. In\nour patient, the set heart rate of the pacemaker\nlimited the required compensatory mechanisms\nto improve organ perfusion. External pacing\nused to override the permanent pacemaker\nhelped increase the heart rate and to improve\nthe overall perfusion enabling us to stabilize the\npatient and transfer to a tertiary trauma centre\n\nfor definitive management." + }, + { + "id": 192063, + "strid": "985a5bf1-e8e6-459f-8c01-0dc6a869e0fe", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1650.954, + 5167.765, + 246.3499999999999, + 30.666000000000167 + ], + "priority": 18, + "parents": [ + 192066 + ], + "children": [ + 192064 + ], + "area": 8531742.29781, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192064, + "strid": "265782fb-a735-443e-acd2-31ec04607745", + "image_id": 207999, + "image_name": "9213.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 903.405, + 5236.402, + 1739.447, + 261.1099999999997 + ], + "priority": 19, + "parents": [ + 192063 + ], + "children": [], + "area": 4730591.74881, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58489, + "strid": "60205740-c96d-4638-a384-5183b9c0b3ad", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 168.22, + 121.62, + 260.55999999999995, + 161.73000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 58471, + 58472, + 58480, + 58488, + 58477, + 58470, + 58487, + 58481, + 58469 + ], + "area": 20458.916400000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58469, + "strid": "5e2d1dec-25aa-444f-b6d1-7c62c9fa4b73", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 771.916, + 65.424, + 2034.8519999999999, + 255.609 + ], + "priority": 1, + "parents": [ + 58489 + ], + "children": [], + "area": 50501.83238400001, + "iscrowd": 0, + "segmentation": [], + "text": "Changing epidemiological presentation in\nDengue infection in.South-East Asia Region" + }, + { + "id": 58470, + "strid": "bb5c659c-6088-42ac-938b-6a6016979acf", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 468.692, + 367.522, + 2711.465, + 300.46099999999996 + ], + "priority": 2, + "parents": [ + 58489 + ], + "children": [], + "area": 172254.621224, + "iscrowd": 0, + "segmentation": [], + "text": "C. R.Revankar * and A.P.Dash**\n\n* Consultant. Neglected Tropical Diseases, New Jersey, USA **Former Regional Advisor,\nWHO-SEARO. New Delhi, India" + }, + { + "id": 58472, + "strid": "8d515e78-6f56-47f9-bafa-951cf83e7c30", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 674.08, + 776.78, + 498.63800000000003, + 74.58299999999997 + ], + "priority": 3, + "parents": [ + 58489 + ], + "children": [ + 58479 + ], + "area": 523611.86240000004, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 58479, + "strid": "43bb72d8-83ff-4382-94ce-1f7bd4449b5f", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.92, + 881.467, + 1602.848, + 788.322 + ], + "priority": 4, + "parents": [ + 58472 + ], + "children": [], + "area": 102179.65464, + "iscrowd": 0, + "segmentation": [], + "text": "The global burden of dengue and its impact on health\nand socio-economic growth aspects are being more and\nmore realized. It is estimated that 2.5 billion people are\nat risk in more than 100 countries in the world; and of\nthem, 1.3 billion people are at risk in South-East Asia\n(SEA) Region (WHO2013)(1). An estimated 50 million\ndengue infections occur each year globally. Ae.aegypti\nand Ae. albopictus are responsible for transmission of\ndengue. All four types(DENV1,2,3,4) are seen in the\nSouth-East Asia Region." + }, + { + "id": 58480, + "strid": "91db9ae6-22b0-4a7d-9c63-f33d23b15638", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 484.968, + 1748.403, + 875.6699999999998, + 78.61400000000003 + ], + "priority": 5, + "parents": [ + 58489 + ], + "children": [ + 58483, + 58482 + ], + "area": 847919.506104, + "iscrowd": 0, + "segmentation": [], + "text": "MATERIALS AND METHODS" + }, + { + "id": 58483, + "strid": "215f5431-2998-4b57-b594-bab1af3b8880", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.288, + 1942.754, + 1600.664, + 465.13200000000006 + ], + "priority": 6, + "parents": [ + 58480 + ], + "children": [], + "area": 233689.99315199998, + "iscrowd": 0, + "segmentation": [], + "text": "A review of the available epidemiological data(published\nand unpublished) from the dengue programmes. in\nSouth-East Asia Region was conducted in relation to\nchanging pattern in the human host, the dengue virus\nand the vectors biology. The following aspects were\nstudied:" + }, + { + "id": 58482, + "strid": "19075f8e-644d-4fa2-ad25-fa8e9ad02f8f", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 118.104, + 2438.457, + 1500.213, + 456.39699999999993 + ], + "priority": 7, + "parents": [ + 58480 + ], + "children": [], + "area": 287991.52552799997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58481, + "strid": "533cb111-30f2-4213-897c-4f59769d64d6", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 784.138, + 2931.977, + 272.96500000000003, + 74.2460000000001 + ], + "priority": 8, + "parents": [ + 58489 + ], + "children": [ + 58484 + ], + "area": 2299074.580826, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 58484, + "strid": "173799c9-1fa8-460c-82d4-311834beef01", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 111.553, + 3023.693, + 1607.2150000000001, + 1543.888 + ], + "priority": 9, + "parents": [ + 58481 + ], + "children": [], + "area": 337302.025229, + "iscrowd": 0, + "segmentation": [], + "text": "The maximum burden of the infection (dengue /dengue\nhemorrhagic fever) occurred in the 10 out of 11 Member\ncountries of the SEA Region. A total 2.4 million cases\nwere reported from 2000 to 2011 in the region. Though\ncases are declining in the Region since 2011, there is a\nupsurge in dengue cases in Thailand and Sri Lanka.\nHowever, the case fatality rate is declining in the member\ncountries.\n\nAge and sex-wise analysis of trend data showed a shift in\nthe affected age groups and sex groups. More cases were\nreported among the adults than children <15 years old.\nSimilarly, more deaths occurred among the adults(31% of\n328 deaths in 2009 in Sri Lanka). Moreover, 57% of the\ndeaths occurred among the females in 2009 (1)\n\nOver a period of time( 2000-2013), it has been observed\nthat more cases are being reported by the rural areas\ncompared to urban locations. in addition, the severity\nand time interval between the episodes of infection\ndepended on the virulence and genotype of the virus." + }, + { + "id": 58471, + "strid": "5deeae26-7eda-4c0c-b912-d4a84ecf95c7", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2527.991, + 781.042, + 266.366, + 72.452 + ], + "priority": 10, + "parents": [ + 58489 + ], + "children": [ + 58474, + 58473 + ], + "area": 1974467.146622, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 58473, + "strid": "4560dddf-0a65-40c6-b117-128f6e2a78fb", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1848.224, + 891.85, + 767.135, + 562.5660000000001 + ], + "priority": 11, + "parents": [ + 58471 + ], + "children": [ + 58475 + ], + "area": 1648338.5744, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58475, + "strid": "a7bd5d39-17c0-45e3-894c-a330715c809d", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1847.678, + 1516.415, + 748.8439999999998, + 197.2260000000001 + ], + "priority": 12, + "parents": [ + 58473 + ], + "children": [], + "area": 2801846.63437, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Countries reporting\nDengue cases in South-East Asia\nRegion(SEAR) ( 2)" + }, + { + "id": 58474, + "strid": "88d118b7-5450-4f25-b112-179708a0b69b", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2660.317, + 878.834, + 811.6759999999999, + 571.32 + ], + "priority": 13, + "parents": [ + 58471 + ], + "children": [ + 58476 + ], + "area": 2337977.030378, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 58476, + "strid": "937320dc-b350-475f-813e-abd25964308d", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2618.093, + 1516.415, + 825.8850000000002, + 127.8889999999999 + ], + "priority": 14, + "parents": [ + 58474 + ], + "children": [], + "area": 3970115.4965949995, + "iscrowd": 0, + "segmentation": [], + "text": "Fig.2. Annual trend in Dengue cases\nand Deaths in SEAR countries ( 2)" + }, + { + "id": 58477, + "strid": "8423deff-fddf-4b79-b906-73987b6e17dc", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2357.692, + 1733.672, + 459.1680000000001, + 73.96000000000004 + ], + "priority": 15, + "parents": [ + 58489 + ], + "children": [ + 58478 + ], + "area": 4087464.605024, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 58478, + "strid": "d9cc1abc-75bc-4db0-8d95-fb509860cec5", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1843.24, + 1831.384, + 1635.604, + 1506.7640000000001 + ], + "priority": 16, + "parents": [ + 58477 + ], + "children": [], + "area": 3375680.2441600002, + "iscrowd": 0, + "segmentation": [], + "text": "The vectors are very adaptive in nature and have been\naffected by climatic changes, socio-cultural and economic\nfactors, and rapid urbanization\n\nThe major factors influencing changes in. dengue\nepidemiology are i) viral genotypes/subtypes with\nincreased virulence; ii) lack of information on human\npopulation genetics and its relation with viral genome; iii)\nlack of information on vector ecology in micro-climatic\nconditions; iv) viral load injected by infected mosquito; v)\npost-infection natural immunity of the host and vi) time\ninterval in sequential infection.\n\nThe health programme managers may consider looking at\nthe changing patterns to implement control / prevention\nmeasures to reduce the disease burden and its impact.\nAppropriate operational and implementation research\nissues are to be to identified in addition to basic research\nto effectively control dengue." + }, + { + "id": 58487, + "strid": "1cf657a6-cc92-4f2c-ab6b-7dc2312c6ac2", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2094.368, + 4139.573, + 1235.984, + 74.2460000000001 + ], + "priority": 17, + "parents": [ + 58489 + ], + "children": [ + 58486 + ], + "area": 8669789.224864, + "iscrowd": 0, + "segmentation": [], + "text": "ACKNOWLEDGEMENTS AND CONTACT" + }, + { + "id": 58486, + "strid": "0b13b11c-d2ea-49d7-870a-14fceec36904", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1851.975, + 4288.065, + 1543.888, + 231.47400000000016 + ], + "priority": 18, + "parents": [ + 58487 + ], + "children": [], + "area": 7941389.178374999, + "iscrowd": 0, + "segmentation": [], + "text": "The authors are thankful to all the members of the team for\ntheir support.\nContact: revankarcr@gmail.com" + }, + { + "id": 58488, + "strid": "d9cfe841-6695-4bfb-9044-657109a4d9af", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2463.416, + 3460.437, + 417.09000000000015, + 74.2460000000001 + ], + "priority": 19, + "parents": [ + 58489 + ], + "children": [ + 58485 + ], + "area": 8524495.872792, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCES" + }, + { + "id": 58485, + "strid": "27295e09-e140-4a18-b5e6-2885e5347ad9", + "image_id": 202812, + "image_name": "119300.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1851.975, + 3600.195, + 1626.8690000000001, + 395.25300000000016 + ], + "priority": 20, + "parents": [ + 58488 + ], + "children": [], + "area": 6667471.135125, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34299, + "strid": "6752ad39-b5cd-4a74-8a8c-6e2ec0e56cfe", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 260.81, + 17.87, + 130.39999999999998, + 195.59 + ], + "priority": -1, + "parents": [], + "children": [ + 34277, + 34279, + 34282, + 34276, + 34280, + 34278, + 34281, + 34283 + ], + "area": 4660.6747000000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34276, + "strid": "071518dc-cd98-4c66-9c5c-0aa491d02ef5", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 431.989, + 117.293, + 1495.65, + 179.48000000000002 + ], + "priority": 1, + "parents": [ + 34299 + ], + "children": [], + "area": 50669.285777, + "iscrowd": 0, + "segmentation": [], + "text": "SHOCK WAVE FORMATION IN\nCOMPLIANT ARTERIES" + }, + { + "id": 34277, + "strid": "ecc782ef-1425-40dc-9b08-11472f75dc0e", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 39.416, + 406.583, + 2019.6500000000003, + 94.19799999999998 + ], + "priority": 2, + "parents": [ + 34299 + ], + "children": [], + "area": 16025.875528, + "iscrowd": 0, + "segmentation": [], + "text": "C. Rodero’ 2, J.A. Conejero?, |. Garcia-Fernandez' 1 CoMMLab, Universitat de Valéncia, Spain\nMail: cristobal.rodero@uv.es 2 IUMPA, Universitat Politécnica de Valéncia, Spain" + }, + { + "id": 34278, + "strid": "1a2efa70-c13f-4f40-8081-8f5158a11e6f", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 479.795, + 550.859, + 272.16799999999995, + 45.75300000000004 + ], + "priority": 3, + "parents": [ + 34299 + ], + "children": [ + 34296, + 34297, + 34285, + 34286, + 34295, + 34284 + ], + "area": 264299.393905, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34284, + "strid": "398e9849-ce32-4eb9-b14c-abe5f5a8ba94", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.438, + 641.967, + 987.686, + 30.576999999999998 + ], + "priority": 4, + "parents": [ + 34278 + ], + "children": [], + "area": 63193.947546, + "iscrowd": 0, + "segmentation": [], + "text": "Aorta is one of the most important arteries and the largest one in human" + }, + { + "id": 34297, + "strid": "f5d43e57-90ae-4df0-a220-81a54b23ebea", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.621, + 677.81, + 70.15599999999999, + 33.02099999999996 + ], + "priority": 5, + "parents": [ + 34278 + ], + "children": [], + "area": 66846.30000999999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34285, + "strid": "2213c14e-2a23-4d79-9490-419ad77e5144", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 298.43, + 688.236, + 578.867, + 372.447 + ], + "priority": 6, + "parents": [ + 34278 + ], + "children": [], + "area": 205390.26948, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34296, + "strid": "58cac011-c31e-44e1-98df-2f1bdebca899", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.142, + 1073.199, + 993.9679999999998, + 138.6199999999999 + ], + "priority": 7, + "parents": [ + 34278 + ], + "children": [], + "area": 106399.095258, + "iscrowd": 0, + "segmentation": [], + "text": "In people suffering from aortic insufficiency sometimes a sound like a\npistol-shot is heard with the stethoscope. It is widely accepted that this is\ndue to a shock wave formation, a wave that moves faster than the speed\n\nof sound." + }, + { + "id": 34295, + "strid": "c83be41c-8769-49ac-8882-5da9a0c3e016", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.539, + 1234.244, + 988.2910000000002, + 154.68100000000004 + ], + "priority": 8, + "parents": [ + 34278 + ], + "children": [], + "area": 119152.681516, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34286, + "strid": "d4b014de-d14a-4436-a552-6e8aa1ab791c", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.039, + 1415.315, + 899.824, + 67.77299999999991 + ], + "priority": 9, + "parents": [ + 34278 + ], + "children": [], + "area": 140171.382285, + "iscrowd": 0, + "segmentation": [], + "text": "We are going to model both cases in order to appreciate the shock\nwaves, if they appear." + }, + { + "id": 34279, + "strid": "ce3a5608-5139-4489-b9aa-53d3ba9c97e2", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 443.418, + 1566.755, + 348.481, + 52.75 + ], + "priority": 10, + "parents": [ + 34299 + ], + "children": [ + 34294, + 34287 + ], + "area": 694727.3685900001, + "iscrowd": 0, + "segmentation": [], + "text": "Main result [3]" + }, + { + "id": 34294, + "strid": "388e1b4e-6c2a-485d-84dd-fc56428177cc", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.274, + 1661.737, + 1025.926, + 484.884 + ], + "priority": 11, + "parents": [ + 34279 + ], + "children": [], + "area": 161643.80493800002, + "iscrowd": 0, + "segmentation": [], + "text": "Let us consider the previous presented blood flow model. With the\nconstant initial data\nA(x, 0) = Apo, u(x,0) = 0.\n\nThe time t, of the first shock formation is given by\n__ tiniow + 418/20) Ae AN,\nUin slow (t)\n\nwhere w is the first time when the forward characteristic intersects the\nleft spatial boundary and the functions (A, uw) are smooth enough\nfunctions defined in\n\nD={(@,t):x, 0,x, € R}.\n\nt, =\n\n," + }, + { + "id": 34287, + "strid": "30057a11-572d-49f8-b7bd-2640bff079b3", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 97.026, + 2163.565, + 1004.255, + 338.145 + ], + "priority": 12, + "parents": [ + 34279 + ], + "children": [], + "area": 209922.05769, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34281, + "strid": "79d3aab6-01f5-4ec5-9700-2b23d1a55264", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1545.378, + 558.217, + 539.9100000000001, + 55.702 + ], + "priority": 13, + "parents": [ + 34299 + ], + "children": [ + 34293 + ], + "area": 862656.2710259999, + "iscrowd": 0, + "segmentation": [], + "text": "Biophysical notation" + }, + { + "id": 34293, + "strid": "7d4df69f-41a3-4a2a-a799-4476e84dad04", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1439.04, + 662.509, + 715.6660000000002, + 352.10799999999995 + ], + "priority": 14, + "parents": [ + 34281 + ], + "children": [], + "area": 953376.95136, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34282, + "strid": "578d1f35-6c9f-4f62-a714-fb7ed9cf50b9", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1476.279, + 1100.744, + 648.5529999999999, + 45.87699999999995 + ], + "priority": 15, + "parents": [ + 34299 + ], + "children": [ + 34292 + ], + "area": 1625005.251576, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34292, + "strid": "c8fdd8c9-7670-43a7-8b8e-2d01230ebca2", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1325.982, + 1199.711, + 914.8420000000001, + 915.9469999999999 + ], + "priority": 16, + "parents": [ + 34282 + ], + "children": [], + "area": 1590795.191202, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34283, + "strid": "02d51ea8-0009-470d-88c5-a760a86dc283", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1703.224, + 2178.477, + 194.73900000000003, + 44.815000000000055 + ], + "priority": 17, + "parents": [ + 34299 + ], + "children": [ + 34291, + 34298, + 34289, + 34290 + ], + "area": 3710434.309848, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34289, + "strid": "6612b9b5-1399-43df-a807-5b4ff1117f3e", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1324.707, + 2304.614, + 939.5689999999997, + 355.1619999999998 + ], + "priority": 18, + "parents": [ + 34283 + ], + "children": [], + "area": 3052938.298098, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34298, + "strid": "9a65c1a8-46a7-4f4f-b8a5-d28c284cdbe1", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1323.153, + 2671.564, + 929.1690000000001, + 159.11099999999988 + ], + "priority": 19, + "parents": [ + 34283 + ], + "children": [], + "area": 3534887.921292, + "iscrowd": 0, + "segmentation": [], + "text": "These times and positions have also clinical sense, since they could\nbe related to aortic insufficiency and risk of aneurysm.\n\nNumerical experiments have been performed implementing Lax-\nWendroff. Using as inflow data a pulse of the form" + }, + { + "id": 34291, + "strid": "4d9e40b5-da89-428a-8296-b03f4930804f", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1559.777, + 2863.689, + 490.5340000000001, + 257.32400000000007 + ], + "priority": 20, + "parents": [ + 34283 + ], + "children": [], + "area": 4466716.237353, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34290, + "strid": "ef29f1a9-9b76-4eaf-a4c3-f65212bef102", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1325.165, + 3162.639, + 643.068, + 30.934000000000196 + ], + "priority": 21, + "parents": [ + 34283 + ], + "children": [], + "area": 4191018.510435, + "iscrowd": 0, + "segmentation": [], + "text": "we have corroborated the previous estimations." + }, + { + "id": 34280, + "strid": "25910e52-39c5-4d4f-918e-b88b03a4d93a", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 468.928, + 2790.642, + 294.8929999999999, + 45.60199999999986 + ], + "priority": 22, + "parents": [ + 34299 + ], + "children": [ + 34288 + ], + "area": 1308610.171776, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 34288, + "strid": "bca7a487-e37e-4bc5-a0ac-4c459249104d", + "image_id": 201847, + "image_name": "11777.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 98.422, + 2876.103, + 1016.521, + 325.72800000000007 + ], + "priority": 23, + "parents": [ + 34280 + ], + "children": [], + "area": 283071.809466, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187931, + "strid": "18b6949e-4dcc-4623-a9de-282d4ed18281", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 107.91, + 249.02, + 335.23, + 315.12 + ], + "priority": -1, + "parents": [], + "children": [ + 187922, + 187925, + 187918, + 187928, + 187911, + 187926, + 187923, + 187907, + 187906, + 187921, + 187904, + 187912, + 187924, + 187929, + 187927, + 187919, + 187905, + 187908, + 187910, + 187920, + 187917, + 187913, + 187909, + 187914, + 187916 + ], + "area": 26871.7482, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187904, + "strid": "238002c9-7403-413b-9ce7-ee1631e7a099", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 17.004, + 112.465, + 3256.104, + 301.3299999999999 + ], + "priority": 1, + "parents": [ + 187931 + ], + "children": [], + "area": 1912.3548600000001, + "iscrowd": 0, + "segmentation": [], + "text": "Ontological Reasoning for Immunological Diseases\nof the IEDB using the DO" + }, + { + "id": 187905, + "strid": "f0c77c3c-ff78-49e0-935c-80bfb5976d59", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 9.417, + 423.331, + 3250.666, + 281.655 + ], + "priority": 2, + "parents": [ + 187931 + ], + "children": [], + "area": 3986.5080270000003, + "iscrowd": 0, + "segmentation": [], + "text": "Randi Vita', Elvira Mitraka?, James A Overton’, Lynn M. Schriml?, Bjoern Peters’\ny J\n'La Jolla Institute for Allergy and Immunology, San Diego, California\n\n“Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland" + }, + { + "id": 187906, + "strid": "737200f4-fc1c-42e2-97ed-da84e903717b", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 492.956, + 1099.417, + 157.31000000000006, + 25.840999999999894 + ], + "priority": 3, + "parents": [ + 187931 + ], + "children": [ + 187915 + ], + "area": 541964.206652, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 187915, + "strid": "c16cc92b-793a-4fc5-a64b-28c433d1a6e1", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.838, + 1162.401, + 988.5720000000001, + 831.4840000000002 + ], + "priority": 4, + "parents": [ + 187906 + ], + "children": [], + "area": 90478.969038, + "iscrowd": 0, + "segmentation": [], + "text": "The IEDB has been describing immune epitope experiments, as presented in\nthe scientific literature, for more than 10 years and has accumulated a\nsignificant dataset, representing what is currently known in the field of immune\nepitopes. The goal of this project was to accurately model the disease states\npresented in this literature in a logical and consistent manner. To achieve this\ngoal, we reviewed all disease states described in our literature set, determining\nthe method of exposure (e.g. natural infection), type of disease (e.g. allergy),\nsite of disease (e.g. respiratory tract) and the immunogen (e.g. Plasmodium\nfalciparum) in order to establish logical rules to define disease states. This work\ngenerated clear logical definitions for disease states and enabled enforceable\nvalidation rules, as well as identifying errors within our dataset. In order to share\nthe results of this work with overlapping domains and to make the IEDB more\ninteroperable with other resources, the resulting disease states and their\ndefinitions were submitted to the Human Disease Ontology (DO). DO is the\nwell-established standardized ontology for human disease. Through\ncollaboration between the IEDB and DO, these diseases were logically modeled\nwithin the DO. Thus, the IEDB can now incorporate a subset of DO as an OWL\nfile to create a searchable disease tree for our curators and end users to easily\nview disease information in a hierarchical tree format. Additionally, the\nreasoned ontology provides validation rules that are being incorporated into the\nIEDB’s curation interface to improve accuracy of curated data. Going forward,\nas new diseases are encountered in the literature, the process will be repeated.\nOur hope is that other resources will increasingly utilize these same diseases\nwithin DO and the richness of our data will grow, identifying overlapping\ndatasets and allowing new scientific conclusions." + }, + { + "id": 187909, + "strid": "81f5d092-a82d-4425-b7c5-d3a560cb454f", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 76.048, + 2208.573, + 964.1319999999998, + 196.82200000000012 + ], + "priority": 5, + "parents": [ + 187931 + ], + "children": [], + "area": 167957.559504, + "iscrowd": 0, + "segmentation": [], + "text": "Experimental data\n\nThe IEDB captures immune epitope data related to allergy, autoimmunity,\ninfectious disease, and transplantation. It has data on 6,800 epitopes\nrecognized on the context of allergic diseases. These epitopes are\nderived from more than 300 common allergens such as pollens, animals,\ndrugs and foods." + }, + { + "id": 187921, + "strid": "148793c0-974d-4a7b-a213-c132efb63113", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 69.064, + 2426.002, + 996.562, + 687.7730000000001 + ], + "priority": 6, + "parents": [ + 187931 + ], + "children": [], + "area": 167549.402128, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187920, + "strid": "df0cd38a-476b-4384-b0aa-d873b1d292c8", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 73.73, + 3131.836, + 983.752, + 67.99200000000019 + ], + "priority": 7, + "parents": [ + 187931 + ], + "children": [], + "area": 230910.26828, + "iscrowd": 0, + "segmentation": [], + "text": "Screen shot of example experimental assays in the IEDB where the host has an\nallergic disease." + }, + { + "id": 187912, + "strid": "5a2336c0-f7b5-4aa3-8581-cb99c95c472d", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.423, + 3497.424, + 959.961, + 201.5039999999999 + ], + "priority": 8, + "parents": [ + 187931 + ], + "children": [], + "area": 270781.058352, + "iscrowd": 0, + "segmentation": [], + "text": "Data analysis\n\nBy studying the relationships between the allergens and the allergic\ndiseases they caused, we recognized patterns that allowed us to form\ngroups of diseases, such as food allergy, drug allergy, metal allergy, etc.\nthat are meaningful to allergists and can be logically defined using\nexisting ontology terms." + }, + { + "id": 187927, + "strid": "453b951a-48ad-4ce6-b332-f66a1fa45ab0", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 272.451, + 3766.046, + 598.828, + 201.91699999999992 + ], + "priority": 9, + "parents": [ + 187931 + ], + "children": [], + "area": 1026062.998746, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187926, + "strid": "993dc18f-22dd-4203-992c-0188c12d4439", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.576, + 4025.633, + 798.406, + 31.728999999999814 + ], + "priority": 10, + "parents": [ + 187931 + ], + "children": [], + "area": 328395.037608, + "iscrowd": 0, + "segmentation": [], + "text": "Example groups of immunologist friendly allergic diseases in DO." + }, + { + "id": 187907, + "strid": "926a2865-7a4c-4067-9f8c-a28260530bb1", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1150.454, + 1067.907, + 914.5809999999999, + 131.41100000000006 + ], + "priority": 11, + "parents": [ + 187931 + ], + "children": [], + "area": 1228577.8797779998, + "iscrowd": 0, + "segmentation": [], + "text": "Data mapping\nWe mapped certain allergens to ontologies describing products of\norganisms (8 ENVO terms, 4 BTO terms) and others to roles (3 ChEBI\n\nterms)." + }, + { + "id": 187917, + "strid": "c0409139-4369-4baa-b094-c4fa05f01252", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1169.899, + 1236.111, + 960.3130000000001, + 585.086 + ], + "priority": 12, + "parents": [ + 187931 + ], + "children": [], + "area": 1446125.022789, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187916, + "strid": "ed1da545-b390-4450-83b0-635160dc4764", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1149.06, + 1853.165, + 827.412, + 31.133000000000038 + ], + "priority": 13, + "parents": [ + 187931 + ], + "children": [], + "area": 2129397.7749, + "iscrowd": 0, + "segmentation": [], + "text": "Example allergens from IEDB data modeled by different ontologies." + }, + { + "id": 187910, + "strid": "b934c335-95b6-4a06-ae58-b4a017f6d0c4", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1158.907, + 2207.032, + 966.1400000000001, + 131.63400000000001 + ], + "priority": 14, + "parents": [ + 187931 + ], + "children": [], + "area": 2557744.834024, + "iscrowd": 0, + "segmentation": [], + "text": "Modeling\n\nWe added a dedicated relation such that disease Y has_allergic_trigger\nallergen X to link the diseases to their causative allergens.\n\n‘peach allergy’ has_allergic_trigger (‘fruit' and produced_by ‘peach tree’)." + }, + { + "id": 187923, + "strid": "ba0a7328-0292-476f-9dc2-499ed293faca", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1157.216, + 2367.346, + 959.7339999999999, + 621.0039999999999 + ], + "priority": 15, + "parents": [ + 187931 + ], + "children": [], + "area": 2739530.6687359996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187922, + "strid": "8259ab08-69cd-4d22-ae30-c83be680e2b9", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1155.919, + 3033.006, + 983.2899999999997, + 61.483999999999924 + ], + "priority": 16, + "parents": [ + 187931 + ], + "children": [], + "area": 3505909.2625140003, + "iscrowd": 0, + "segmentation": [], + "text": "Example allergic disease context in IEDB with terms mapped to logical ontology\nterms." + }, + { + "id": 187913, + "strid": "adf41f60-eaa5-4c5b-a947-b34c1d89c79b", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1151.171, + 3501.178, + 968.8279999999997, + 97.62300000000005 + ], + "priority": 17, + "parents": [ + 187931 + ], + "children": [], + "area": 4030454.579438, + "iscrowd": 0, + "segmentation": [], + "text": "Incorporation\nBy displaying the disease terms in the ontological tree format, users gain\na better understanding of the terms." + }, + { + "id": 187929, + "strid": "97de1e3f-3b27-4edb-9f74-8ce716c9faaf", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1252.839, + 3691.431, + 771.0830000000001, + 268.91499999999996 + ], + "priority": 18, + "parents": [ + 187931 + ], + "children": [], + "area": 4624768.722609, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187928, + "strid": "e9b4cb06-999a-4da4-9746-c41887d7565f", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1148.506, + 4001.659, + 949.4170000000001, + 58.547000000000025 + ], + "priority": 19, + "parents": [ + 187931 + ], + "children": [], + "area": 4595929.3714540005, + "iscrowd": 0, + "segmentation": [], + "text": "The IEDB search interface utilizing DO to display the IEDB relevant subset of\nterms." + }, + { + "id": 187908, + "strid": "6f11672d-7e19-499a-a15a-aae6f92ec10f", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2222.979, + 1067.298, + 953.9900000000002, + 97.98399999999992 + ], + "priority": 20, + "parents": [ + 187931 + ], + "children": [], + "area": 2372581.0407419996, + "iscrowd": 0, + "segmentation": [], + "text": "Validation rules\nIn this way, the IEDB can use logical reasoning to create validation rules\nthat identify errors within the data and enforce accurate curation." + }, + { + "id": 187919, + "strid": "df3c844a-4630-48e1-aebd-b758c7577eb2", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2226.287, + 1222.067, + 925.0859999999998, + 380.61699999999996 + ], + "priority": 21, + "parents": [ + 187931 + ], + "children": [], + "area": 2720671.8752289996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187918, + "strid": "75da57fd-c544-4dec-9eae-fc3aa1a250e3", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2218.243, + 1629.136, + 981.4410000000003, + 264.278 + ], + "priority": 22, + "parents": [ + 187931 + ], + "children": [], + "area": 3613819.528048, + "iscrowd": 0, + "segmentation": [], + "text": "For example, because\n\nTimothy grass allergy (DOID_0060498) is logically defined as\nhas_allergic_trigger (pollen BTO_0001097 produced_by RO_0003001 Phleum\npratense NCBI_15957).\n\nTimothy grass allergy should not be curated as being caused by a chicken egg.\nSuch existing data is flagged as an error. The curation interface can prevent\nnew entries with this type of error from being entered." + }, + { + "id": 187911, + "strid": "e6337cc2-4206-42e5-b9c7-55e4d37317a1", + "image_id": 207828, + "image_name": "8858.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2242.234, + 2205.637, + 956.8780000000002, + 163.01499999999987 + ], + "priority": 23, + "parents": [ + 187931 + ], + "children": [], + "area": 4945554.273058, + "iscrowd": 0, + "segmentation": [], + "text": "Inferences\n\nAdditionally, the IEDB can use logical reasoning to facilitate curation by\ninferring disease states based upon curated data fields. 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Hospital, Mumbai | * PD. Hinduja National Hospital and Medical Research Centre, Mumbai" + }, + { + "id": 183235, + "strid": "874de924-e1a7-4a1e-b04f-db433c6ce673", + "image_id": 207650, + "image_name": "8546.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 171.95, + 659.858, + 314.353, + 33.527000000000044 + ], + "priority": 3, + "parents": [ + 183292 + ], + "children": [ + 183242, + 183243, + 183279, + 183244, + 183241 + ], + "area": 113462.58309999999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183241, + "strid": "383bba8e-8cc3-44d6-8064-dc9ad8818e68", + "image_id": 207650, + "image_name": "8546.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 120.155, + 740.05, + 1377.54, + 121.97199999999998 + ], + "priority": 4, + "parents": [ + 183235 + ], + "children": [], + "area": 88920.70775, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 183242, + "strid": "31480582-aca8-4832-a767-06e379524c33", + "image_id": 207650, + "image_name": "8546.png", + 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135085, + "strid": "d1223b7e-8dc8-41ea-8ac5-7b322dd6e61e", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 652.268, + 122.29, + 2156.264, + 170.291 + ], + "priority": 1, + "parents": [ + 135132 + ], + "children": [], + "area": 79765.85372000001, + "iscrowd": 0, + "segmentation": [], + "text": "Paired analytical techniques detect stressor-induced changes in\nmetabolomics of Daphnia magna" + }, + { + "id": 135086, + "strid": "479411e0-a783-4243-a250-a6ee3a74728c", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 82.63, + 306.484, + 3069.75, + 383.48099999999994 + ], + "priority": 2, + "parents": [ + 135132 + ], + "children": [], + "area": 25324.772919999996, + "iscrowd": 0, + "segmentation": [], + "text": "Christina Le!, Mouhammad Shadi Khudr?, Abdullatif Alfutimie!\n\n'Department of Chemical Engineering and Analytical Sciences, Faculty of Science and Engineering, The University of Manchester, Manchester, UK\nSchool of Biological Sciences, Faculty of Biology, Medicine and Health, The University of Manchester, Manchester, UK\n\nContribution Statement: All authors contributed to the production of a poster. Christina Le conducted the experimental work and analysed the data in collaboration with Mouhammad Shadi Khudr (MSK) and\nAbdullatif Alfutimie (AA). MSK conceived and designed the project and contributed to the enhancement of the analyses. AA hosted the work and contributed to the enrichment of the design and analysis.\n\n*Corresponding author: abdullatif.alfutimie@manchester.ac.uk" + }, + { + "id": 135087, + "strid": "bf33dc1e-bf1d-46df-ab49-0c2c4821b14d", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 463.27, + 756.256, + 747.6660000000002, + 59.56499999999994 + ], + "priority": 3, + "parents": [ + 135132 + ], + "children": [ + 135093, + 135094 + ], + "area": 350350.71712, + "iscrowd": 0, + "segmentation": [], + "text": "1. Background and Motivation" + }, + { + "id": 135093, + "strid": "8ecccd0e-ca51-47c6-8800-ef272db9cf10", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 77.983, + 859.687, + 1473.368, + 605.919 + ], + "priority": 4, + "parents": [ + 135087 + ], + "children": [], + "area": 67040.971321, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135094, + "strid": "4bdcd23c-f5e7-4ae1-b958-5e8557a46111", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 110.351, + 1470.575, + 225.26, + 44.721000000000004 + ], + "priority": 5, + "parents": [ + 135087 + ], + "children": [], + "area": 162279.421825, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135088, + "strid": "1f83be54-bdd4-4b24-98f2-2aa85659ef15", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2177.044, + 757.292, + 560.9000000000001, + 59.66999999999996 + ], + "priority": 6, + "parents": [ + 135132 + ], + "children": [ + 135119 + ], + "area": 1648658.004848, + "iscrowd": 0, + "segmentation": [], + "text": "2. Aims and Objectives" + }, + { + "id": 135119, + "strid": "769d0d1d-52d7-412f-b75c-08fbd090e2a3", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1695.967, + 870.783, + 1534.982, + 395.1930000000001 + ], + "priority": 7, + "parents": [ + 135088 + ], + "children": [], + "area": 1476819.2321610001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135089, + "strid": "a06262c5-c1d2-40be-8b91-1299d6b1e554", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1535.555, + 1502.427, + 220.961, + 56.27500000000009 + ], + "priority": 8, + "parents": [ + 135132 + ], + "children": [ + 135109, + 135113, + 135115, + 135107, + 135110, + 135108, + 135111, + 135112, + 135116 + ], + "area": 2307059.291985, + "iscrowd": 0, + "segmentation": [], + "text": "3. Set-up" + }, + { + "id": 135107, + "strid": "7485b475-33f5-4f6f-858e-fc8d99cd557d", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1556.601, + 1651.061, + 253.46000000000004, + 118.221 + ], + "priority": 9, + "parents": [ + 135089 + ], + "children": [], + "area": 2570043.203661, + "iscrowd": 0, + "segmentation": [], + "text": "14 daphnids x\n5 Reps. x\n2 Stressors" + }, + { + "id": 135111, + "strid": "0c75752c-f4b4-4447-80db-15c5aea3f74d", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1407.437, + 1807.472, + 123.35300000000007, + 173.46499999999992 + ], + "priority": 10, + "parents": [ + 135089 + ], + "children": [], + "area": 2543902.9692639997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135115, + "strid": "825bc706-a0ea-4fd4-bfe2-5900f18e58db", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1562.635, + 1820.829, + 159.0329999999999, + 35.524000000000115 + ], + "priority": 11, + "parents": [ + 135089 + ], + "children": [], + "area": 2845291.124415, + "iscrowd": 0, + "segmentation": [], + "text": "Cu2* from" + }, + { + "id": 135116, + "strid": "ee575755-b80a-45bb-b234-a77ca2d1edc0", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1749.756, + 1795.631, + 87.57099999999991, + 76.41799999999989 + ], + "priority": 12, + "parents": [ + 135089 + ], + "children": [], + "area": 3141916.116036, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135108, + "strid": "19948346-531c-4539-8e6f-2b51efa52c49", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1563.832, + 1885.046, + 397.58799999999997, + 36.490999999999985 + ], + "priority": 13, + "parents": [ + 135089 + ], + "children": [], + "area": 2947895.2562720003, + "iscrowd": 0, + "segmentation": [], + "text": "CuSO,:5H,O (0.1*10°% g.L\")" + }, + { + "id": 135109, + "strid": "db97b2ec-4f3d-4992-85f5-71c3cf77eacc", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1562.871, + 1978.857, + 288.3890000000001, + 52.840999999999894 + ], + "priority": 14, + "parents": [ + 135089 + ], + "children": [], + "area": 3092698.2184470003, + "iscrowd": 0, + "segmentation": [], + "text": "Aspirin (0.3 g.L\")" + }, + { + "id": 135112, + "strid": "36dd981f-f553-4d4c-b1cf-ece45271ad5f", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1856.132, + 1965.517, + 180.40300000000002, + 165.75499999999988 + ], + "priority": 15, + "parents": [ + 135089 + ], + "children": [], + "area": 3648259.000244, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135113, + "strid": "0272209b-22dc-4ec6-91f7-6e3b58f1cd98", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1382.01, + 2094.129, + 371.365, + 37.69399999999996 + ], + "priority": 16, + "parents": [ + 135089 + ], + "children": [], + "area": 2894107.21929, + "iscrowd": 0, + "segmentation": [], + "text": "Experimental Medium" + }, + { + "id": 135110, + "strid": "52466cca-1251-4f56-aa7b-cfdc2ea327a1", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1382.326, + 2153.819, + 745.6790000000001, + 832.308 + ], + "priority": 17, + "parents": [ + 135089 + ], + "children": [], + "area": 2977280.002994, + "iscrowd": 0, + "segmentation": [], + "text": "Aqueous solution of Milli-Q water containing\nCaCl, :2H,O (117.6 g-L*), NaHCO, (25.2 g-L*),\nSeO, (0.07g - L), and NaCl (0.33 g - L)\n\nDaphnia magna were euthanised in liquid\nnitrogen, frozen, and lyophilised overnight\n(LaboGene CoolSafe Freeze Drier).\n\nDaphnia metabolites were extracted using\nD,O-based sodium phosphate buffer. Samples\nwere vortexed, sonicated and centrifuged [1].\n\nPeak analysis was done using IR\nspectroscopy and NMR resonance to\ncompare the metabolomic response of the\nstress-exposed relative to the\n\nstress-free samples." + }, + { + "id": 135090, + "strid": "34c15227-9925-4fad-a898-9b13f52fd304", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 72.779, + 1550.197, + 1279.908, + 62.05600000000004 + ], + "priority": 18, + "parents": [ + 135132 + ], + "children": [ + 135096, + 135095, + 135099, + 135101, + 135100, + 135104, + 135103, + 135097, + 135098, + 135106 + ], + "area": 112821.78746299999, + "iscrowd": 0, + "segmentation": [], + "text": "4.a. Fourier Transform Infrared Spectroscopy (FTIR)" + }, + { + "id": 135095, + "strid": "bf7c61b8-b7ce-4845-9ce4-c1d9a0b3599b", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.344, + 1644.153, + 1143.86, + 49.093000000000075 + ], + "priority": 19, + "parents": [ + 135090 + ], + "children": [], + "area": 87705.697632, + "iscrowd": 0, + "segmentation": [], + "text": "FTIR analysis of organic chemical functional groups" + }, + { + "id": 135096, + "strid": "27a20c11-66c6-4ded-91b5-6ddd6286a396", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 54.571, + 1701.837, + 981.8539999999999, + 279.828 + ], + "priority": 20, + "parents": [ + 135090 + ], + "children": [], + "area": 92870.946927, + "iscrowd": 0, + "segmentation": [], + "text": "revealed:\nLarge influence of aspirin on certain groups\n(building blocks for proteins) was apparent;\nthe peak intensity of C-O (~1000 cm’)\nincreased in particular, Fig. 1a." + }, + { + "id": 135101, + "strid": "608581a1-865f-48b1-9483-39a4f903d4c5", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 80.231, + 2000.7, + 931.745, + 533.0409999999999 + ], + "priority": 21, + "parents": [ + 135090 + ], + "children": [ + 135102 + ], + "area": 160518.1617, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135102, + "strid": "1ad8271e-142d-4a6c-99d9-bc7e091adcee", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 105.302, + 2536.085, + 877.006, + 80.6210000000001 + ], + "priority": 22, + "parents": [ + 135101 + ], + "children": [], + "area": 267054.82267, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1a — FTIR spectra for wavelengths between 400 —\n2400 cm [2]." + }, + { + "id": 135103, + "strid": "57de2d58-8e88-49ed-baa1-363a68c17d64", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.729, + 2665.492, + 943.598, + 165.97299999999996 + ], + "priority": 23, + "parents": [ + 135090 + ], + "children": [], + "area": 233840.947668, + "iscrowd": 0, + "segmentation": [], + "text": "More intense amine bonds were found after\naspirin exposure, as a result of a higher rate of\nprotein." + }, + { + "id": 135104, + "strid": "095cc460-83f6-45df-bb27-a1232a94a69b", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 92.302, + 2847.878, + 918.227, + 513.127 + ], + "priority": 24, + "parents": [ + 135090 + ], + "children": [ + 135105 + ], + "area": 262864.83515600004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135105, + "strid": "646c0207-ceec-424b-bb6b-75cf45243981", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 128.54, + 3369.709, + 876.064, + 133.3789999999999 + ], + "priority": 25, + "parents": [ + 135104 + ], + "children": [], + "area": 433142.39485999994, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1b — FTIR spectra for wavelengths between 2400 -\n4000 cm. The peak corresponding to COz has been\nneglected [2]." + }, + { + "id": 135106, + "strid": "a8fd8002-26f1-4efc-a8a9-af2625499574", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.38, + 3553.305, + 966.9400000000002, + 344.6999999999998 + ], + "priority": 26, + "parents": [ + 135090 + ], + "children": [], + "area": 338914.23089999997, + "iscrowd": 0, + "segmentation": [], + "text": "By contrast, copper exposure had a smaller\nimpact on Daphnia compared to Aspirin:\nVariable changes in protein metabolite\nconcentration (amide groups) was observed,\nindicative of higher energy metabolism under\nAspirin, Fig. 1b." + }, + { + "id": 135097, + "strid": "951ad2fa-f24e-4b94-ae7d-f64589752aa2", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1112.266, + 1826.288, + 220.1010000000001, + 238.9670000000001 + ], + "priority": 27, + "parents": [ + 135090 + ], + "children": [], + "area": 2031318.0486080002, + "iscrowd": 0, + "segmentation": [], + "text": "Exposure\nto\nstressor\n\n<@ 4" + }, + { + "id": 135098, + "strid": "3e467352-4279-4006-b49c-3f47e8b7ad60", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1111.368, + 2148.803, + 205.7270000000001, + 202.1329999999998 + ], + "priority": 28, + "parents": [ + 135090 + ], + "children": [], + "area": 2388110.8925039996, + "iscrowd": 0, + "segmentation": [], + "text": "FTIR\nAnalysis\n\n~~ @®" + }, + { + "id": 135099, + "strid": "10cfd685-26bb-4e4a-8c60-ed8f90699358", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1113.164, + 2434.485, + 204.82799999999997, + 209.32000000000016 + ], + "priority": 29, + "parents": [ + 135090 + ], + "children": [], + "area": 2709981.06054, + "iscrowd": 0, + "segmentation": [], + "text": "IWIN\nPaver a ett\n\nNO" + }, + { + "id": 135100, + "strid": "65da8e4d-9d7c-4a25-8dc7-e7d540db5615", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1114.961, + 2727.354, + 201.2349999999999, + 212.91400000000021 + ], + "priority": 30, + "parents": [ + 135090 + ], + "children": [], + "area": 3040893.343194, + "iscrowd": 0, + "segmentation": [], + "text": "Seren!\nAnalysis\n\n @~-" + }, + { + "id": 135114, + "strid": "171ec7e4-2db0-4654-9c9e-a82cf476b9f8", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1233.515, + 3108.838, + 765.559, + 105.86700000000019 + ], + "priority": 31, + "parents": [ + 135132 + ], + "children": [], + "area": 3834798.3055700003, + "iscrowd": 0, + "segmentation": [], + "text": "Sampling occurred after 48h or before (~ 24h) in\n\ncase of mortality to avoid denaturation." + }, + { + "id": 135091, + "strid": "3a4aac66-8064-4ee8-b51d-aac65fb830ab", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2053.972, + 1353.686, + 1002.163, + 60.565000000000055 + ], + "priority": 32, + "parents": [ + 135132 + ], + "children": [ + 135125, + 135120, + 135121, + 135124 + ], + "area": 2780433.140792, + "iscrowd": 0, + "segmentation": [], + "text": "4.b. Nuclear Magnetic Resonance (NMR)" + }, + { + "id": 135120, + "strid": "a0a83065-a024-4274-931f-44a128820ee5", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2036.039, + 1451.805, + 1165.983, + 296.76800000000003 + ], + "priority": 33, + "parents": [ + 135091 + ], + "children": [], + "area": 2955931.600395, + "iscrowd": 0, + "segmentation": [], + "text": "Proton NMR differentiates between different chemical\nenvironments of hydrogen atoms present in a sample.\n\nDifferent metabolites produce peaks at different chemical\nshifts which indicates the presence and quantity of the\nmetabolite." + }, + { + "id": 135121, + "strid": "5b449843-f30c-4fa0-a35b-e5d54a881a10", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2245.434, + 1777.195, + 958.0950000000003, + 402.2189999999998 + ], + "priority": 34, + "parents": [ + 135091 + ], + "children": [ + 135122 + ], + "area": 3990574.07763, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135122, + "strid": "16a25394-b5db-43ee-b5b3-62fe895052b4", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2286.107, + 2205.024, + 943.9830000000002, + 278.7829999999999 + ], + "priority": 35, + "parents": [ + 135121 + ], + "children": [], + "area": 5040920.801568, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2.a — NMR spectra for the control population of\nDaphnia magna, obtained from Bruker TopSpin 3.6.1. The six\nmetabolites identified are: Formate (5 = 8.46 ppm), Uracil (6 =\n7.55 ppm), Glutamate (6 = 2.35 ppm), Methionine (6 = 2.14\nppm), Alanine (6 =1.46 ppm) and Valine (6 =1.05 ppm) [3]." + }, + { + "id": 135124, + "strid": "9cbcf2d3-581e-4c42-8913-3a40fcd9ef2e", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2264.002, + 2583.676, + 972.6169999999997, + 449.701 + ], + "priority": 36, + "parents": [ + 135091 + ], + "children": [ + 135123 + ], + "area": 5849447.631352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135123, + "strid": "ce3f71d1-6b1e-4e8a-88fb-4a4dc753bb50", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2194.018, + 3061.005, + 1047.3599999999997, + 134.08399999999983 + ], + "priority": 37, + "parents": [ + 135124 + ], + "children": [], + "area": 6715900.06809, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2.b - NMR-detected changes in metabolite concentrations for\nexposure to aspirin and copper stress in comparison to the control\nsample." + }, + { + "id": 135125, + "strid": "14b45061-cf49-4ec1-91eb-1c2809fccc62", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2140.193, + 3229.801, + 1126.721, + 653.3359999999998 + ], + "priority": 38, + "parents": [ + 135091 + ], + "children": [], + "area": 6912397.4915930005, + "iscrowd": 0, + "segmentation": [], + "text": "The effects of aspirin on the Daphnia population seemed\nmore prominent than the copper exposure. However, it\nmust be noted that the copper exposed Daphnia died\nbefore the 48-hour exposure period; changes in\nmetabolomics would have stopped at that point of\ndeath.\n\nThe aspirin led to large increases in glucose\nconcentration due to the tablet form used in the\nexperiment. Copper was found to enhance lipid\nperoxidation by acting as the catalyst in the Fenton\nreaction." + }, + { + "id": 135092, + "strid": "fac6e6f8-17f3-4f5e-a49d-a3c8ebf17a02", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1463.697, + 3312.366, + 302.7070000000001, + 45.02500000000009 + ], + "priority": 39, + "parents": [ + 135132 + ], + "children": [ + 135118, + 135117 + ], + "area": 4848300.1771019995, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 135117, + "strid": "b1bfdfc4-c0a3-432f-ba3f-a30d1bd9554d", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1221.935, + 3409.876, + 761.046, + 579.645 + ], + "priority": 40, + "parents": [ + 135092 + ], + "children": [], + "area": 4166646.83006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135118, + "strid": "9316f9a3-e199-44ce-b368-380a17fb1c59", + "image_id": 205738, + 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"children": [], + "area": 1712529.7244479998, + "iscrowd": 0, + "segmentation": [], + "text": "Special thanks to UoM, Dr James Winterburn, Haydn Ingram, Dr Khasim Cali, my colleagues Shuayb Alam, Zakariya Nzeribe, Sin Ming Beh, Gemma Chapman and Shahla Khan (CEAS), and Dr Matthew Cliff (Manchester" + }, + { + "id": 135130, + "strid": "2c1c02db-7d63-4415-b226-1d8168f74845", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 35.039, + 4636.839, + 353.599, + 33.33299999999963 + ], + "priority": 44, + "parents": [ + 135127 + ], + "children": [], + "area": 162470.201721, + "iscrowd": 0, + "segmentation": [], + "text": "Institute of Biotechnology)." + }, + { + "id": 135128, + "strid": "af922e89-c99f-47d7-8a1d-78b5fec202d9", + "image_id": 205738, + "image_name": "15782.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 39.385, + 4397.25, + 189.24, + 31.225999999999658 + ], + "priority": 45, + "parents": [ + 135132 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Additional\nfunding is provided by Huck Institutes for the Life Sciences at Penn State and, in\npart, under a grant with the Pennsylvania Department of Health using Tobacco\nSettlement Funds. The Department specifically disclaims responsibility for any\nanalyses, interpretations or conclusions." + }, + { + "id": 82266, + "strid": "942a16a8-40e3-4276-a6b6-f7f62009587b", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 18.55, + 18.41, + 172.2, + 37.230000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 82254, + 82258, + 82257, + 82253, + 82252, + 82255, + 82256 + ], + "area": 341.50550000000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82252, + "strid": "57b3f9a8-b423-4395-97fa-0525338fb75d", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 89.204, + 65.941, + 650.13, + 52.08500000000001 + ], + "priority": 1, + "parents": [ + 82266 + ], + "children": [], + "area": 5882.200964, + "iscrowd": 0, + "segmentation": [], + "text": "Behavioral, biological or systemic changes? Impact of SMS-\nbased surveillance strengthening in a low-resources setting" + }, + { + "id": 82253, + "strid": "f9545a98-9422-484b-903b-cbc16415cfeb", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 75.771, + 135.177, + 665.422, + 35.684 + ], + "priority": 2, + "parents": [ + 82266 + ], + "children": [], + "area": 10242.496466999999, + "iscrowd": 0, + "segmentation": [], + "text": "Anis Fuad\nDepartment of Public Health, Faculty of Medicine, Universitas Gadjah Mada, Yogyakarta, Indonesia" + }, + { + "id": 82254, + "strid": "9bf02964-7a37-477d-ac5f-4da7e634510d", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 141.953, + 239.661, + 122.32500000000002, + 23.418999999999983 + ], + "priority": 3, + "parents": [ + 82266 + ], + "children": [ + 82259 + ], + "area": 34020.597933, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 82259, + "strid": "4f76a32a-acaa-44be-af6a-72b9dad2bc19", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 43.015, + 283.592, + 346.505, + 231.389 + ], + "priority": 4, + "parents": [ + 82254 + ], + "children": [], + "area": 12198.70988, + "iscrowd": 0, + "segmentation": [], + "text": "With the increasing penetration of mobile technologies,\nmHealth is among the potential solutions to strengthen\nhealth systems particularly in low-resources setting. Within\nmHealth, we are mostly interested with the use of short\nmessage service (SMS) to support surveillance systems due\nto its affordability and capacity. This research was aimed to\nreport the status of SMS-based surveillance research in\nIndonesia.\n\nResearch was conducted at the Graduate Program of Public\nHealth of Universitas Gadjah Mada, among the prominent\nhigher education and research institutes of public health\nIndonesia since 1983. We describe and analyze MPH thesis\nin this institute within the last five years which was related to\nthe use of SMS to support surveillance activities." + }, + { + "id": 82256, + "strid": "a9e4b3ff-a60f-41e1-a011-744477543f8a", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 164.98, + 546.6, + 76.77799999999999, + 19.38900000000001 + ], + "priority": 5, + "parents": [ + 82266 + ], + "children": [ + 82264, + 82261 + ], + "area": 90178.068, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 82261, + "strid": "7376474b-06a3-4bdd-b4ad-b0bdb4d5cde6", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 43.308, + 601.596, + 345.392, + 148.22000000000003 + ], + "priority": 6, + "parents": [ + 82256 + ], + "children": [], + "area": 26053.919568, + "iscrowd": 0, + "segmentation": [], + "text": "We included 5 MPH thesis (Table 1) which were performed in\ndifferent districts. Two of them directly intervened patients\n(pregnant women) with reminders to take daily iron tablet.\nThe remaining were action research at organizational level to\nimprove the quality of reporting systems and to design a\nreminder system as part of the routine TB recording systems.\nAll of the thesis utilized open source SMS gateway to\nsend/receive messages which were linked into the database\nsystem." + }, + { + "id": 82264, + "strid": "2da75bf1-e2fb-4e7d-ab13-a340d553ef12", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 41.389, + 796.411, + 343.107, + 249.18400000000008 + ], + "priority": 7, + "parents": [ + 82256 + ], + "children": [ + 82263 + ], + "area": 32962.654879, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82263, + "strid": "d2d93202-6264-45e1-82da-f93f58ac5abd", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 43.036, + 768.033, + 176.558, + 12.450000000000045 + ], + "priority": 8, + "parents": [ + 82264 + ], + "children": [], + "area": 33053.068188000005, + "iscrowd": 0, + "segmentation": [], + "text": "Tabel 1. MPH thesis for review" + }, + { + "id": 82255, + "strid": "8ec6ba4b-b90a-4e86-bdff-ae551e6783ae", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 557.262, + 240.06, + 87.23900000000003, + 18.999000000000024 + ], + "priority": 9, + "parents": [ + 82266 + ], + "children": [ + 82260 + ], + "area": 133776.31571999998, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 82260, + "strid": "9915379c-76d2-4ddc-b8a8-cb6b29da3989", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 440.686, + 283.868, + 348.56, + 197.15699999999998 + ], + "priority": 10, + "parents": [ + 82255 + ], + "children": [], + "area": 125096.653448, + "iscrowd": 0, + "segmentation": [], + "text": "We searched from the MPH thesis database using keywords:\nshort message service or SMS. Those without intervention\nand no relation to surveillance activities were excluded\n\nWe then described descriptively into tabel based on\ncharacteristics of subject, study design and major result. With\nregard to the result, we were particularly interested to enrich\nthe discussion by asking to what extend was the impact of\nthe intervention of SMS-based surveillance.\n\nShould changes occurred, was it related to biological,\nbehavioral or systemic factors?" + }, + { + "id": 82257, + "strid": "379160eb-030b-480c-9c2d-98eb888f32a9", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 545.782, + 546.626, + 113.37300000000005, + 19.523000000000025 + ], + "priority": 11, + "parents": [ + 82266 + ], + "children": [ + 82265 + ], + "area": 298338.631532, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 82265, + "strid": "b22c4b14-6cd5-4029-9710-29f11bfab4d7", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 480.983, + 592.66, + 274.00500000000005, + 170.221 + ], + "priority": 12, + "parents": [ + 82257 + ], + "children": [], + "area": 285059.38477999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82258, + "strid": "b729fdbd-740d-4d7f-819f-c419be8bf74e", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 514.035, + 797.521, + 177.34900000000005, + 44.673 + ], + "priority": 13, + "parents": [ + 82266 + ], + "children": [ + 82262 + ], + "area": 409953.707235, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion and\nRecommendation" + }, + { + "id": 82262, + "strid": "62481233-bac7-48b4-abda-8d8dbdf76fff", + "image_id": 203699, + "image_name": "12077.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 440.847, + 868.893, + 330.74199999999996, + 80.981 + ], + "priority": 14, + "parents": [ + 82258 + ], + "children": [], + "area": 383048.872371, + "iscrowd": 0, + "segmentation": [], + "text": "With limited evidences, SMS based approach is potentially\nimprove the surveillance systems by improving mostly the\nuser behavior in a low-resources setting. Robust.\n\nmethodologies are needed to understand the success and\nfailures on using mHealth to improve surveillance systems." + }, + { + "id": 150501, + "strid": "2b61fbbf-4fe0-461a-89f2-5d6c20854329", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 85.54, + 603.3, + 376.34999999999997, + 153.33000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 150480, + 150478, + 150479, + 150482, + 150483, + 150490, + 150481 + ], + "area": 51606.282, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150478, + "strid": "1ad2a885-5bfd-4b2e-aa80-e745a120bccb", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 416.426, + 23.471, + 2770.993, + 128.7 + ], + "priority": 1, + "parents": [ + 150501 + ], + "children": [], + "area": 9773.934646, + "iscrowd": 0, + "segmentation": [], + "text": "MetaboAnnotation: simplifying metabolite annotation" + }, + { + "id": 150479, + "strid": "6b6b8bad-a3ed-4980-972e-3cb0da5d159c", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 568.765, + 186.316, + 2463.688, + 338.823 + ], + "priority": 2, + "parents": [ + 150501 + ], + "children": [], + "area": 105970.01974, + "iscrowd": 0, + "segmentation": [], + "text": "Andrea Vicini’ °, Carolin Huber? ”, Michael Witting: °, Johannes Rainer’ ”\n\n1 Institute for Biomedicine, Eurac Research, 39100 Bolzano, Italy.\n2 Department of Effect-Directed Analysis, Helmholtz Centre for Environmental Research - UFZ, Permoserstr. 15, 04318 Leipzig, Germany.\n3 Metabolomics and Proteomics Core, Helmholtz Zentrum Munchen, 85764 Neuherberg, Germany." + }, + { + "id": 150480, + "strid": "30d8e104-fdec-4292-b30a-b3c2239dbe5e", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 701.04, + 779.194, + 397.69000000000005, + 59.254999999999995 + ], + "priority": 3, + "parents": [ + 150501 + ], + "children": [ + 150484, + 150496 + ], + "area": 546246.1617599999, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 150484, + "strid": "ce914e95-5a26-469d-9f24-99c72f3d49f6", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 48.173, + 889.319, + 1707.827, + 125.50099999999998 + ], + "priority": 4, + "parents": [ + 150480 + ], + "children": [], + "area": 42841.164187, + "iscrowd": 0, + "segmentation": [], + "text": "MetaboAnnotation: Main end-user interface of a comprehensive ecosystem of\nR packages for MS'- and MS2-based metabolite annotation." + }, + { + "id": 150496, + "strid": "9ade3683-72ef-4c1d-8004-9fad5ef03ed3", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 176.427, + 1051.628, + 1395.588, + 961.0319999999999 + ], + "priority": 5, + "parents": [ + 150480 + ], + "children": [], + "area": 185535.57315599997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150482, + "strid": "7a00e587-fd5d-4b3a-a210-722ff9542b52", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 332.262, + 2103.152, + 1136.211, + 83.37699999999995 + ], + "priority": 6, + "parents": [ + 150501 + ], + "children": [ + 150494, + 150487, + 150492, + 150495, + 150485, + 150486 + ], + "area": 698797.489824, + "iscrowd": 0, + "segmentation": [], + "text": "MS! annotation with matchValues()" + }, + { + "id": 150494, + "strid": "da482b14-a5e7-4a32-b3ab-7c27e9e9b2f5", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.028, + 2229.404, + 1666.588, + 44.577999999999975 + ], + "priority": 7, + "parents": [ + 150482 + ], + "children": [], + "area": 111532.623312, + "iscrowd": 0, + "segmentation": [], + "text": "matchValues: m/zand/or retention time-based annotation of LC-MS features." + }, + { + "id": 150492, + "strid": "b74a0cac-07d1-4374-881a-e6eaa5316a35", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 28.002, + 2333.184, + 1742.506, + 607.6779999999999 + ], + "priority": 8, + "parents": [ + 150482 + ], + "children": [], + "area": 65333.818368, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150485, + "strid": "af65cae3-29f6-49b5-855f-883cabb515e1", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.785, + 2995.611, + 1708.935, + 180.26699999999983 + ], + "priority": 9, + "parents": [ + 150482 + ], + "children": [], + "area": 140149.66063499998, + "iscrowd": 0, + "segmentation": [], + "text": "The variables query and target can be of type numeric, data.frame,\nSummarizedExperiment or QFeatures. These can be easily extracted from any\nxcms result objects or retrieved from CompDb or IonDb annotation databases." + }, + { + "id": 150486, + "strid": "d8d14ed3-ebd2-4767-880e-91dea653f73e", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 44.381, + 3221.546, + 1710.694, + 283.9720000000002 + ], + "priority": 10, + "parents": [ + 150482 + ], + "children": [], + "area": 142975.43302599998, + "iscrowd": 0, + "segmentation": [], + "text": "Example: Adducts (for the mass to m/z conversion), absolute and m/z\ndependent tolerance for the matches are set via param object.\n\nparam <- Mass2MzParam(adducts = c(\"[M+H]+\", \"[M+Na]+\"), tolerance = 0.005, ppm = 0)\n\nmatches <- matchValues(query, target, param)" + }, + { + "id": 150487, + "strid": "5b1d78c7-7c72-448c-8125-246c2f8954c4", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 41.977, + 3584.485, + 1708.935, + 120.17799999999988 + ], + "priority": 11, + "parents": [ + 150482 + ], + "children": [], + "area": 150465.92684499998, + "iscrowd": 0, + "segmentation": [], + "text": "Output: A result object of type Matched simplifies the handling (e.g. filtering,\nsub-setting, re-ordering and extracting matches) of matching results." + }, + { + "id": 150495, + "strid": "45412042-c023-4355-8e46-2203dd1c2ef8", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 465.45, + 3749.663, + 928.557, + 870.8110000000001 + ], + "priority": 12, + "parents": [ + 150482 + ], + "children": [], + "area": 1745280.64335, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150481, + "strid": "ece022f4-2afa-4d82-b937-293ec07bf04b", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2116.869, + 777.568, + 1169.2289999999998, + 85.59299999999996 + ], + "priority": 13, + "parents": [ + 150501 + ], + "children": [ + 150489, + 150499, + 150493, + 150498, + 150500, + 150488, + 150497 + ], + "area": 1646009.5945920001, + "iscrowd": 0, + "segmentation": [], + "text": "MS2 annotation with matchSpectra()" + }, + { + "id": 150489, + "strid": "6c35dcba-9db5-4d57-a66e-d87ededcb200", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1844.651, + 897.299, + 1706.5309999999997, + 132.1959999999999 + ], + "priority": 14, + "parents": [ + 150481 + ], + "children": [], + "area": 1655203.497649, + "iscrowd": 0, + "segmentation": [], + "text": "matchSpectra: Compare and match experimental MS? spectra against\nreference spectra." + }, + { + "id": 150493, + "strid": "45be1e7b-4e1c-44dc-990c-e64615400f78", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1828.971, + 1076.863, + 1741.8470000000002, + 661.22 + ], + "priority": 15, + "parents": [ + 150481 + ], + "children": [], + "area": 1969551.1979730001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150499, + "strid": "26c16552-faee-4a15-9a2e-22d2b0c20b05", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1845.007, + 1802.883, + 221.1790000000001, + 58.06099999999992 + ], + "priority": 16, + "parents": [ + 150481 + ], + "children": [], + "area": 3326331.755181, + "iscrowd": 0, + "segmentation": [], + "text": "Example:" + }, + { + "id": 150500, + "strid": "a5a204f7-3001-4a47-ad46-1cb432b933ed", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2067.941, + 1930.019, + 948.27, + 96.38699999999994 + ], + "priority": 17, + "parents": [ + 150481 + ], + "children": [], + "area": 3991165.4208789994, + "iscrowd": 0, + "segmentation": [], + "text": "param = CompareSpectraParam(requirePrecursor = TRUE, ppm = 10)\n\nmatches <- matchSpectra(query, target, param)" + }, + { + "id": 150488, + "strid": "21ea854a-f516-4062-a9ac-7c7b776205f7", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1847.055, + 2096.678, + 1703.818, + 286.41600000000017 + ], + "priority": 18, + "parents": [ + 150481 + ], + "children": [], + "area": 3872679.58329, + "iscrowd": 0, + "segmentation": [], + "text": "Output: A result object of type MatchedSpectra that has the same structure as\nMatched and provides the same functionalities to simplify results handling.\n\nAn interactive, shiny-based, validation of matching results is available with\nthe validateMatchedSpectra function:" + }, + { + "id": 150498, + "strid": "983dba94-8f6d-4988-923f-c3d90ea20801", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2070.361, + 2450.942, + 740.252, + 49.52500000000009 + ], + "priority": 19, + "parents": [ + 150481 + ], + "children": [], + "area": 5074334.7300619995, + "iscrowd": 0, + "segmentation": [], + "text": "validated_matches <- validateMatchedSpectra(matches)" + }, + { + "id": 150497, + "strid": "41745e59-056f-43ac-af7f-ee91eb117042", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1846.322, + 2575.972, + 1704.689, + 894.5349999999999 + ], + "priority": 20, + "parents": [ + 150481 + ], + "children": [], + "area": 4756073.774984, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150483, + "strid": "952cf2f2-7962-4981-9f70-de3900aee743", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2506.798, + 3556.598, + 387.26099999999997, + 62.889000000000124 + ], + "priority": 21, + "parents": [ + 150501 + ], + "children": [ + 150491 + ], + "area": 8915672.753204, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 150491, + "strid": "7b3fb383-8d82-4b0a-af21-c3cc0fca5ddc", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1830.415, + 3702.059, + 1740.3959999999997, + 495.39400000000023 + ], + "priority": 22, + "parents": [ + 150483 + ], + "children": [], + "area": 6776304.324485, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 150490, + "strid": "a93335df-f5ab-4940-9dff-0955c833e7d6", + "image_id": 206348, + "image_name": "20894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1844.434, + 4263.654, + 1709.394, + 241.38400000000001 + ], + "priority": 23, + "parents": [ + 150501 + ], + "children": [], + "area": 7864028.401836, + "iscrowd": 0, + "segmentation": [], + "text": "Reference: Rainer, J.; Vicini, A.; Salzer, L.; Stanstrup, J.; Badia, J.M.; Neumann,\nS.; Stravs, M.A.; Verri Hernandes, V.; Gatto, L.; Gibb, S.; Witting, M. A Modular\nand Expandable Ecosystem for Metabolomics Data Annotation in R.\nMetabolites 2022, 12, 173. https://doi.org/10.3390/metabo12020173" + }, + { + "id": 27400, + "strid": "5f4a2af5-70c1-4eda-97ae-b0d203cbb1ac", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 37.41, + 14.33, + 341.46000000000004, + 63.040000000000006 + ], + "priority": -1, + "parents": [], + "children": [ + 27377, + 27379, + 27383, + 27376, + 27378, + 27382, + 27381, + 27380, + 27384 + ], + "area": 536.0853, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27376, + "strid": "1a070b22-9160-4cb7-abec-111dc038055f", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 892.769, + 93.064, + 2916.799, + 206.43000000000004 + ], + "priority": 1, + "parents": [ + 27400 + ], + "children": [], + "area": 83084.654216, + "iscrowd": 0, + "segmentation": [], + "text": "Motion Detection in a Noisy Environment:\nUnexpected Effects of Noise Orientation on Motion Streak Masking." + }, + { + "id": 27377, + "strid": "0d9499c4-5124-404d-b177-ce0e30be165a", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1758.981, + 324.378, + 1100.715, + 166.82 + ], + "priority": 2, + "parents": [ + 27400 + ], + "children": [], + "area": 570574.738818, + "iscrowd": 0, + "segmentation": [], + "text": "D. Heslip, T. Ledgeway & P. McGraw\n\nNottingham Visual Neuroscience, School of Psychology\nUniversity of Notingham, Nottingham. NG7 2RD" + }, + { + "id": 27378, + "strid": "3fc323ce-9e8f-470c-842b-8e1804bfc515", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 81.049, + 595.633, + 391.7080000000001, + 70.25599999999997 + ], + "priority": 3, + "parents": [ + 27400 + ], + "children": [ + 27387, + 27395, + 27386 + ], + "area": 48275.45901700001, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 27386, + "strid": "90a72336-82e3-460d-8d48-0e062c6460d1", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 67.878, + 735.577, + 1983.7300000000002, + 624.1279999999999 + ], + "priority": 4, + "parents": [ + 27378 + ], + "children": [], + "area": 49929.495606, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27387, + "strid": "feab7b87-a57e-4dca-9c6c-20640c930461", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 4, + "category_name": "List", + 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"text": "Further Testing" + }, + { + "id": 27391, + "strid": "a46b3b9c-7c71-4290-861a-1b7686bda7fe", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2734.436, + 1782.242, + 1126.935, + 707.1299999999999 + ], + "priority": 18, + "parents": [ + 27381 + ], + "children": [], + "area": 4873426.685512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27397, + "strid": "33643fd7-2eb4-4058-9657-76774dfcd88b", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3920.022, + 1761.76, + 672.335, + 812.0809999999999 + ], + "priority": 19, + "parents": [ + 27381 + ], + "children": [], + "area": 6906137.9587199995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27383, + "strid": "7b9bb5a0-3c78-40af-b4e5-ee06d217a295", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.537, + 2672.065, + 895.465, + 70.86400000000003 + ], + "priority": 20, + "parents": [ + 27400 + ], + "children": [ + 27389 + ], + "area": 228560.42390500003, + "iscrowd": 0, + "segmentation": [], + "text": "Summary and Conclusions" + }, + { + "id": 27389, + "strid": "89884845-1afd-44a4-8d04-eb23740ef242", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 59.057, + 2813.851, + 2543.626, + 361.61900000000014 + ], + "priority": 21, + "parents": [ + 27383 + ], + "children": [], + "area": 166177.59850700002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 27384, + "strid": "6811ce15-5b70-442c-9f5d-3a412c5e7e9c", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 40.729, + 3236.59, + 1486.26, + 42.64899999999989 + ], + "priority": 22, + "parents": [ + 27400 + ], + "children": [], + "area": 131823.07411000002, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by The Medical Research Council and The University of Nottingham." + }, + { + "id": 27382, + "strid": "fb47501b-5939-4d72-8509-98fa5f6ed98a", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2737.459, + 2675.216, + 368.2069999999999, + 57.92500000000018 + ], + "priority": 23, + "parents": [ + 27400 + ], + "children": [ + 27390 + ], + "area": 7323294.116144, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 27390, + "strid": "b5b797dc-8c2f-4046-9c6d-aec5e9a119e1", + "image_id": 201579, + "image_name": "117337.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2714.172, + 2825.129, + 1834.7469999999998, + 359.78499999999985 + ], + "priority": 24, + "parents": [ + 27382 + ], + "children": [], + "area": 7667886.0281879995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22472, + "strid": "8bf6d8c6-defb-4378-95cc-d32f2b0d759f", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 215.27, + 61.49, + 203.73999999999998, + 195.59999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 22431, + 22433, + 22436, + 22432, + 22430, + 22438, + 22434, + 22435, + 22437 + ], + "area": 13236.9523, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22430, + "strid": "52065c0b-69ea-44ab-b3ff-e2b50ca62a0f", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 684.421, + 19.455, + 2558.758, + 290.062 + ], + "priority": 1, + "parents": [ + 22472 + ], + "children": [], + "area": 13315.410555, + "iscrowd": 0, + "segmentation": [], + "text": "BUM Wee aD\nCompound ex vivo and in silico method to study stented arteries" + }, + { + "id": 22431, + "strid": "ff5bbae3-9afe-45f1-b549-733947055b89", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 69.644, + 424.086, + 3625.7699999999995, + 480.96900000000005 + ], + "priority": 2, + "parents": [ + 22472 + ], + "children": [], + "area": 29535.045384000005, + "iscrowd": 0, + "segmentation": [], + "text": "F Rikhtegar*, F. Pacheco, C. Wyss‘, K.S. Stok¢, H. Ges, R.J. Choo4, A. Ferrari?, D. Poulikakos?, R. Miuller4, V. Kurtcuoglu*©\n\n«Laboratory of Thermodynamics in Emerging Technologies, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, Switzerland\n‘Department of Bioengineering, Imperial College, London, United Kingdom\n‘Clinic of Cardiology, University Hospital Zurich, Zurich, Switzerland\ndInstitute for Biomechanics, Department Health Sciences and Technology, ETH Zurich, Zurich, Switzerland\n©The Interface Group, Institute of Physiology, University of Zurich, Zurich, Switzerland" + }, + { + "id": 22432, + "strid": "6914a28f-1484-4357-9288-8868532689cf", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 71.461, + 972.633, + 257.896, + 44.059999999999945 + ], + "priority": 3, + "parents": [ + 22472 + ], + "children": [ + 22444 + ], + "area": 69505.326813, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 22444, + "strid": "54b88efb-d4d7-410b-8c26-37d99aadad97", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.578, + 1096.168, + 1708.555, + 229.10400000000004 + ], + "priority": 4, + "parents": [ + 22432 + ], + "children": [], + "area": 89423.19310399999, + "iscrowd": 0, + "segmentation": [], + "text": "Cardiovascular diseases are the leading cause of death in the developed world, of these, coronary artery disease that can\nlead to heart attack is the most relevant. Hemodynamic factors such as low wall shear stress have been shown to influence\nendothelial healing and atherogenesis in stent-free vessels. However, in stented vessels, a reliable quantitative analysis of\n\nsuch relations has not been possible due to the lack of a suitable method for the accurate acquisition of blood flow." + }, + { + "id": 22433, + "strid": "d9695f76-6948-4a6f-a2f4-a3e9df46a4fc", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 69.649, + 1382.292, + 200.262, + 51.9079999999999 + ], + "priority": 5, + "parents": [ + 22472 + ], + "children": [ + 22445 + ], + "area": 96275.255508, + "iscrowd": 0, + "segmentation": [], + "text": "Objective" + }, + { + "id": 22445, + "strid": "81cc912a-cca7-45c0-8b83-6190d61a3691", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.07, + 1504.889, + 1703.439, + 95.03700000000003 + ], + "priority": 6, + "parents": [ + 22433 + ], + "children": [], + "area": 131030.68522999997, + "iscrowd": 0, + "segmentation": [], + "text": "The objective of this work is to develop a method for the precise reconstruction of hemodynamics and quantification of wall shear\n\nstress in stented vessels. To achieve this goal the geometry of implanted stent and the deformed artery are resolved accurately." + }, + { + "id": 22434, + "strid": "4e472d06-aa79-41e9-8709-fcce51f8594c", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 68.659, + 1663.413, + 487.842, + 43.58899999999994 + ], + "priority": 7, + "parents": [ + 22472 + ], + "children": [ + 22470, + 22469, + 22446, + 22447, + 22449, + 22467, + 22448, + 22468 + ], + "area": 114208.273167, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and Methods" + }, + { + "id": 22446, + "strid": "6aea543a-006a-4e74-91a8-f73d0d81f8ce", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.271, + 1788.153, + 1677.561, + 96.20900000000006 + ], + "priority": 8, + "parents": [ + 22434 + ], + "children": [], + "area": 145324.982463, + "iscrowd": 0, + "segmentation": [], + "text": "This method consists of four major steps, namely ex vivo heart preparation and intervention, vascular corrosion casting, imaging,\n\nsegmentation and registration and finally grid generation and numerical simulation which is briefly illustrated as follows:" + }, + { + "id": 22447, + "strid": "49761034-62e0-4343-9382-d5bb18448d08", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 81.734, + 1930.326, + 1722.203, + 115.56400000000008 + ], + "priority": 9, + "parents": [ + 22434 + ], + "children": [], + "area": 157773.265284, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22467, + "strid": "a53b3358-9f6d-4e59-8faf-005b7f4f3c76", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 134.482, + 2063.361, + 1581.619, + 443.8649999999998 + ], + "priority": 10, + "parents": [ + 22434 + ], + "children": [ + 22453 + ], + "area": 277484.914002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22453, + "strid": "2e2aef52-06f0-4dda-abf2-f415f4cc69f0", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 75.489, + 2525.363, + 1734.91, + 67.9090000000001 + ], + "priority": 11, + "parents": [ + 22467 + ], + "children": [], + "area": 190637.127507, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Heart preparation and stent implantation. A Porcine heart with stitched Cannula (left), Heart preserved for intervention inside saline (middle) and\nangiographic image of heart while stenting (right)" + }, + { + "id": 22448, + "strid": "4aa29961-ca56-4a96-aff2-d40c55f59c3d", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 80.856, + 2651.111, + 1639.161, + 97.6590000000001 + ], + "priority": 12, + "parents": [ + 22434 + ], + "children": [], + "area": 214358.23101599998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22468, + "strid": "40e95c6a-df2b-43dc-bed4-078206d633e5", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 475.97, + 2786.711, + 1244.185, + 507.62800000000016 + ], + "priority": 13, + "parents": [ + 22434 + ], + "children": [ + 22452 + ], + "area": 1326390.83467, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22452, + "strid": "fb40b39a-ede8-48ad-a351-ac790d7326cc", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 77.443, + 2935.92, + 383.006, + 182.53899999999976 + ], + "priority": 14, + "parents": [ + 22468 + ], + "children": [], + "area": 227366.45256, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Vascular corrosion cast-\ning of stented artery. Left: Injec-\ntion of epoxy resin under physio-\nlogical pressure (90 mmHg). Right:\nMaceration of casted hearts with\nKOH 7.5 % for 12 hours at 55 °C" + }, + { + "id": 22469, + "strid": "e35ccc47-81bb-4d92-a5e8-0a66f9f6a9fe", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 531.425, + 3297.553, + 1158.309, + 534.2739999999999 + ], + "priority": 15, + "parents": [ + 22434 + ], + "children": [ + 22451 + ], + "area": 1752402.1030249998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22451, + "strid": "2833dd1a-4ba8-420f-85bc-a11f3b05f07a", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 72.092, + 3478.372, + 385.824, + 189.7489999999998 + ], + "priority": 16, + "parents": [ + 22469 + ], + "children": [], + "area": 250762.79422399998, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. Final product of corro-\nsion casting. After maceration of\nthe heart tissue the cast is rinsed\nseveral times with water and a con-\nventional detergent. ‘The inset\nshows the stented segment." + }, + { + "id": 22449, + "strid": "ff4d6324-bf0f-44eb-a24b-4e92c997f882", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 76.799, + 3888.318, + 1524.814, + 155.19700000000012 + ], + "priority": 17, + "parents": [ + 22434 + ], + "children": [], + "area": 298618.93408200005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22470, + "strid": "f0c026e0-2d93-4c0f-ad4c-ba2254e12d73", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 98.713, + 4087.866, + 1660.946, + 544.3069999999998 + ], + "priority": 18, + "parents": [ + 22434 + ], + "children": [ + 22450 + ], + "area": 403525.516458, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22450, + "strid": "5bf475cc-6ef0-4323-88c4-199a26357975", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 76.277, + 4640.717, + 1711.951, + 98.97800000000007 + ], + "priority": 19, + "parents": [ + 22470 + ], + "children": [], + "area": 353979.97060899995, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. Imaging, segmentation and surface reconstruction. (A) High resolution image of stent and cast (top) together with the segmentation product of it\n(bottom) (B) Automatic image registration using Geomagic combining the high resolution stented part (green) with the low resolution arterial tree (red) (C)\nThe unstructured tetrahedral computational grid in a representative cross-section of domain. The whole domain consists of about 48 million elements." + }, + { + "id": 22435, + "strid": "cb1e64ee-591e-4546-84eb-e54d9d0d1e83", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1946.136, + 976.59, + 148.60600000000022, + 39.85900000000004 + ], + "priority": 20, + "parents": [ + 22472 + ], + "children": [ + 22471, + 22443, + 22465, + 22466, + 22461, + 22442, + 22464, + 22463, + 22462 + ], + "area": 1900576.95624, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 22443, + "strid": "76db4cf5-a714-4de9-8b3a-075ff406953b", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1953.607, + 1099.515, + 1723.464, + 77.53199999999993 + ], + "priority": 21, + "parents": [ + 22435 + ], + "children": [], + "area": 2148020.2006050004, + "iscrowd": 0, + "segmentation": [], + "text": "It is shown in the following figures on ex vivo porcine hearts that the compound method presented in the methods part very well en-\nsures anatomic fidelity, capturing arterial tissue prolapse, radial and axial arterial deformation as well as stent malapposition" + }, + { + "id": 22466, + "strid": "d839d051-a612-4dcb-9084-5adfac3b7fd4", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1975.82, + 1192.104, + 506.0669999999998, + 246.0809999999999 + ], + "priority": 22, + "parents": [ + 22435 + ], + "children": [ + 22455 + ], + "area": 2355382.92528, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22455, + "strid": "067bd491-ef01-4d44-95ae-3f294a09029b", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2484.852, + 1250.339, + 442.00300000000016, + 124.66699999999992 + ], + "priority": 23, + "parents": [ + 22466 + ], + "children": [], + "area": 3106907.364828, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5. Final product of digitization\nof casted coronary artery. The stented\nand non-stented segments are registered\nand shown in different colors." + }, + { + "id": 22471, + "strid": "8e2331e4-701e-4c88-a93d-6e63cb0135d4", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2023.171, + 1451.73, + 629.0229999999999, + 200.212 + ], + "priority": 24, + "parents": [ + 22435 + ], + "children": [ + 22454 + ], + "area": 2937098.03583, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22454, + "strid": "f1f4c3af-e83a-4132-b9eb-92405440fdfb", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1955.919, + 1678.712, + 782.0409999999999, + 127.03999999999996 + ], + "priority": 25, + "parents": [ + 22471 + ], + "children": [], + "area": 3283424.696328, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 6. Radial wall deformation of stented artery. (A) Representative\nmicro-CT cross-section of a stented coronary artery corrosion cast.\nWith the dotted circle showing the nominal circular cross-section (B)\nRadial arterial enlargement caused by stenting." + }, + { + "id": 22463, + "strid": "b8cee5c9-d5c8-4fa5-b3d3-6a9bf114fa8f", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2042.094, + 1845.927, + 677.1819999999998, + 629.3950000000002 + ], + "priority": 26, + "parents": [ + 22435 + ], + "children": [ + 22457 + ], + "area": 3769556.451138, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22457, + "strid": "0e0671c7-ebeb-4fd9-b8a0-69998b7b6208", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1954.291, + 2490.966, + 779.4849999999999, + 281.2260000000001 + ], + "priority": 27, + "parents": [ + 22463 + ], + "children": [], + "area": 4868072.435106, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 8. Stent malapposition and its effect on local hemodynamics.\n(A) Imprint of malapposed stent end section (arrow) in artery lumen\nnegative (top) and corresponding wall shear stress (WSS) distribution\n(bottom). Higher WSS can be observed in the vicinity of the malap-\nposed strut due to flow tunneling compared to (B), a similar fully ap-\nposed stent end. (C) Velocity contour in axial cross-section of the stent-\ned artery near a malapposed strut. (D) Velocity vector plot in the vicini-\nty of the malapposed strut demonstrates the presence of vortices.\nThese influence WSS distribution and may lead to thrombosis" + }, + { + "id": 22465, + "strid": "b7ec4792-21a9-47b9-9c6a-6204d09653ab", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3056.119, + 1214.201, + 581.607, + 418.43100000000004 + ], + "priority": 28, + "parents": [ + 22435 + ], + "children": [ + 22456 + ], + "area": 3710742.7459190004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22456, + "strid": "c1115c95-1c51-412b-b0c5-2a01743e6f30", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2902.345, + 1676.079, + 786.3130000000001, + 157.47399999999993 + ], + "priority": 29, + "parents": [ + 22465 + ], + "children": [], + "area": 4864559.505255, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 7. Axial arterial deformation due to stenting. (A) The solid line\nshows the axis of the stent, while the dashed line approximates the cen-\nterline of the stent-free artery. (B) An extended area of low wall shear\nstress is seen immediately downstream of the stent at the outer artery\nwall due to the change in curvature." + }, + { + "id": 22464, + "strid": "5da96403-55b7-43b9-839a-ea95559e71d3", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3061.947, + 1842.43, + 547.8069999999998, + 646.8779999999999 + ], + "priority": 30, + "parents": [ + 22435 + ], + "children": [ + 22458 + ], + "area": 5641423.01121, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22458, + "strid": "7ed5fb56-5dbe-4960-9cd1-06a4f026114c", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2897.397, + 2498.46, + 785.9859999999999, + 283.91399999999976 + ], + "priority": 31, + "parents": [ + 22464 + ], + "children": [], + "area": 7239030.5086199995, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 9. Arterial tissue prolapse between stent struts. (A) Recon-\nstructed surface of arterial lumen negative obtained by wCT of a corro-\nsion cast. The black arrows point to prolapsed regions. (B) Wall shear\nstress (WSS) distribution in the same region shown in B. Higher WSS is\nevident in prolapsed regions compared to regions without prolapse.\nBlood flow is from left to right. (C) Velocity contour plots in prolapsed\n(top) and prolapse-free inter-strut sections. Regions of low velocity are\nevident near stent struts in both cases, with larger low-velocity regions\nin the prolapse-free segment." + }, + { + "id": 22442, + "strid": "15db75ad-82ee-46a2-99da-34e4d8de6af9", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1957.922, + 2807.854, + 1723.5390000000002, + 180.69399999999996 + ], + "priority": 32, + "parents": [ + 22435 + ], + "children": [], + "area": 5497559.119388, + "iscrowd": 0, + "segmentation": [], + "text": "Both the local geometry at the vessel wall, as well as the large scale arterial anatomy, influence WSS distribution and can be accounted\nfor with this method. In Fig. 10 regions of low, atheroprone shear stress are present at bifurcations and nearby individual stent struts.\nThe distribution of low (<0.5 Pa), intermediate (0.5 to 2.5 Pa) and high (>2.5 Pa) WSS is shown in Fig, 11 relative to the surface area\nof selected arterial sections in a vessel with two stents. In the stented sections, more than 40% of the wall surface area is exposed to\n\nlow shear stress. ey eee." + }, + { + "id": 22461, + "strid": "21c51ce8-205d-485d-b3a0-d7976896ba70", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1979.803, + 3036.499, + 863.972, + 496.82400000000007 + ], + "priority": 33, + "parents": [ + 22435 + ], + "children": [ + 22459 + ], + "area": 6011669.829697, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22459, + "strid": "64e46592-8a28-44a3-bb1d-49e5739fc83f", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2018.19, + 3537.043, + 784.4410000000003, + 190.63099999999986 + ], + "priority": 34, + "parents": [ + 22461 + ], + "children": [], + "area": 7138424.812170001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 10. Wall shear stress distribution in a porcine left coronary ar-\ntery with two stents. Wall shear stress (WSS) below 0.5 Pa is reported\nto correlate with sites of intimal thickening [51]. Such low WSS can be\nseen here to occur mainly in the vicinity of stent struts and at bifurca-\ntions. The left inset shows low and high wall shear stress regions occur-\nring, respectively, at the outer and inner walls of the bifurcation." + }, + { + "id": 22462, + "strid": "bcb5197a-c70c-4758-a510-bf3220768310", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3014.178, + 2968.568, + 557.2649999999999, + 548.0540000000001 + ], + "priority": 35, + "parents": [ + 22435 + ], + "children": [ + 22460 + ], + "area": 8947792.357104, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 22460, + "strid": "707b4468-62bf-45df-96d3-57e97d1adcbf", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2901.727, + 3537.409, + 784.0509999999999, + 187.09400000000005 + ], + "priority": 36, + "parents": [ + 22462 + ], + "children": [], + "area": 10264595.205343, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 11. Distribution of relative vessel wall area exposed to differ-\nent levels of shear stress. Results are shown as percentage of the re-\nspective segment’s surface area in a porcine left coronary artery with two\nstents. Low wall shear stress: <0.5 Pa. Moderate: 0.52.5 Pa. Top: Corresponding reconstructed surface of the arterial\nlumen negative." + }, + { + "id": 22436, + "strid": "7ad3732b-a6c0-4e2b-990c-9b7323f4dc71", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1943.883, + 3776.516, + 248.09199999999987, + 39.914999999999964 + ], + "priority": 37, + "parents": [ + 22472 + ], + "children": [ + 22441 + ], + "area": 7341105.251628, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 22441, + "strid": "f720cce4-9e77-4036-924a-45297c79fdd3", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1957.789, + 3877.297, + 1727.8060000000003, + 150.13700000000017 + ], + "priority": 38, + "parents": [ + 22436 + ], + "children": [], + "area": 7590929.416333, + "iscrowd": 0, + "segmentation": [], + "text": "The method presented herein constitutes a unique tool for accessing WSS in stented arteries. It can be employed to study the effects\nof hemodynamics on vascular biology, to develop stenting strategies that optimize hemodynamics and to design new stents that mini-\n\nmize regions of NIH promoting WSS." + }, + { + "id": 22437, + "strid": "43313034-2292-43e3-bb68-933ed87a2a19", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1944.758, + 4081.769, + 230.72500000000014, + 41.14799999999968 + ], + "priority": 39, + "parents": [ + 22472 + ], + "children": [ + 22440 + ], + "area": 7938052.916902, + "iscrowd": 0, + "segmentation": [], + "text": "{ay ce) a2) aah" + }, + { + "id": 22440, + "strid": "5a2dc4d7-a101-47df-83ab-12d1f53eb05d", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1957.645, + 4214.618, + 1728.1780000000003, + 94.80199999999968 + ], + "priority": 40, + "parents": [ + 22437 + ], + "children": [], + "area": 8250725.854610001, + "iscrowd": 0, + "segmentation": [], + "text": "Rikhtegar F, Pacheco F, Wyss C, Stok KS, Ge H, et al. (2013) Compound Ex Vivo and In Silico Method for Hemodynamic Analysis\nof Stented Arteries. PLoS ONE 8(3): e58147. doi:10.1371/journal.pone.0058147" + }, + { + "id": 22438, + "strid": "e17778b9-3039-4f63-90d8-92617e9156d3", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1940.523, + 4362.333, + 799.1560000000002, + 51.29699999999957 + ], + "priority": 41, + "parents": [ + 22472 + ], + "children": [ + 22439 + ], + "area": 8465207.520158999, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments and ‘contact details" + }, + { + "id": 22439, + "strid": "0a3ff97d-cea7-4308-ab52-e638c7840c0d", + "image_id": 201398, + "image_name": "117061.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1949.972, + 4466.277, + 1534.865, + 97.19499999999971 + ], + "priority": 42, + "parents": [ + 22438 + ], + "children": [], + "area": 8709115.094244, + "iscrowd": 0, + "segmentation": [], + "text": "The authors thank the Swiss Federal Commission for Technology and Innovation (CTI) for partially funding this\n\nptoject through the EnOp project, grant 9921.1." + }, + { + "id": 173221, + "strid": "0cf0ec54-1b27-4288-8776-88a0b9fe0cf0", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 0, + 0, + 125.47, + 171.46 + ], + "priority": -1, + "parents": [], + "children": [ + 173211, + 173212, + 173213, + 173220, + 173215, + 173208, + 173214, + 173219, + 173210, + 173209, + 173207 + ], + "area": 0, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173219, + "strid": "48d6e941-230b-4614-be32-930d993c444e", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 268.939, + 482.963, + 2988.0, + 220.93599999999998 + ], + "priority": 1, + "parents": [ + 173221 + ], + "children": [], + "area": 129887.58625700002, + "iscrowd": 0, + "segmentation": [], + "text": "ASTROCITOMA SUBEPENDIMARIO DE CELULAS GIGANTES\nCOM BOA RESPOSTA A EVEROLIMO ORAL —RELATO DE CASO" + }, + { + "id": 173220, + "strid": "32e44aba-dbde-48ab-986f-494ef5f5a98b", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 288.244, + 770.394, + 3005.16, + 278.8509999999999 + ], + "priority": 2, + "parents": [ + 173221 + ], + "children": [], + "area": 222061.44813600002, + "iscrowd": 0, + "segmentation": [], + "text": "FRANCISCO HELDER CAVALCANTE FELIX (1); JULIANA COSTA ALBUQUERQUE (2).; JUVENIA BEZERRA\nFONTENELE (3).\n1-HOSPITAL INFANTIL ALBERT SABIN, FORTALEZA - CE — BRASIL\n2 3-UNIVERSIDADE FEDERAL DO CEARA, FORTALEZA - CE= BRASIL." + }, + { + "id": 173209, + "strid": "f355f125-0b1a-4984-bf53-d04660cae5dc", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 273.679, + 1494.904, + 413.121, + 40.011999999999944 + ], + "priority": 3, + "parents": [ + 173221 + ], + "children": [ + 173196 + ], + "area": 409123.83181599993, + "iscrowd": 0, + "segmentation": [], + "text": "Esclerose Tuberosa" + }, + { + "id": 173196, + "strid": "0055a418-903f-436e-87a5-fb2f3f25e02a", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 219.147, + 1545.066, + 524.393, + 359.02099999999996 + ], + "priority": 4, + "parents": [ + 173209 + ], + "children": [], + "area": 338596.57870199997, + "iscrowd": 0, + "segmentation": [], + "text": "O complexo da esclerose tuberosa é\numa doenga autossémica dominante\nmultissistémica que afeta criangas e\nadultos. Resulta de mutacdes nos\ngenes TSC1 (hamartina) ou TSC2\n(tuberina). Descrito por Bourneville em\n1880, o complexo causa epilepsia,\nretardo mental, autismo e outros\nproblemas neuroldgicos. Manifestagdes\ndermatolégicas e neoplasias benignas\nsao comuns (Crino, 2006)." + }, + { + "id": 173207, + "strid": "1552dcdd-fb6a-4331-a8da-4e5c8de47a78", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 86.148, + 2188.939, + 285.07499999999993, + 50.39499999999998 + ], + "priority": 5, + "parents": [ + 173221 + ], + "children": [ + 173198 + ], + "area": 188572.71697199997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173198, + "strid": "34b43b61-1e44-42fe-bfb0-9ed53d2601e4", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.473, + 2248.836, + 302.375, + 669.1120000000001 + ], + "priority": 6, + "parents": [ + 173207 + ], + "children": [], + "area": 174224.07142799997, + "iscrowd": 0, + "segmentation": [], + "text": "Analise retrospectiva\nde prontuarios, com\nprévia autorizacdo da\nresponsavel pela\npaciente. Figuras das\nlesdes cutaneas e\ndas imagens\nradiol6gicas foram\nobtidas mediante\nconsentimento. O\nprocessamento das\nimagens de\nressonancia nuclear\nmagnética (RNM)\nusou as rotinas do\nprograma Osirix para\nMac OS X." + }, + { + "id": 173208, + "strid": "c46b79a7-a375-4a99-accb-a9dbfa824eaf", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 493.257, + 2126.687, + 254.93699999999995, + 41.501000000000204 + ], + "priority": 7, + "parents": [ + 173221 + ], + "children": [ + 173199 + ], + "area": 1049003.249559, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173199, + "strid": "06aa7ce1-bc8b-4ffd-b71c-6608e70c8e6e", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 463.589, + 2186.904, + 316.997, + 794.7359999999999 + ], + "priority": 8, + "parents": [ + 173208 + ], + "children": [], + "area": 1013824.638456, + "iscrowd": 0, + "segmentation": [], + "text": "O tratamento de SEGA\ncom everolimo tem um\nefeito rapido e\ndramatico sobre estas\nlesdes raras e sobre a\nsatde dos pacientes\ncom ES tratados com\nesta droga. Apesar do\ncusto atual da\nmedicagao e da\npossibilidade do\npaciente vir a usa-la\npelo resto de sua vida,\nsto) arclesXo1\neconomicamente viavel\nsua utilizagao como\nprimeira escolha na\nterapia do SEGA na ES,\ndevido a grande\nreducao da morbidade\ndos pacientes." + }, + { + "id": 173210, + "strid": "ef102d91-544e-428b-ad3d-3401553c695f", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 931.021, + 1280.705, + 744.2650000000001, + 263.4459999999999 + ], + "priority": 9, + "parents": [ + 173221 + ], + "children": [ + 173197 + ], + "area": 1192363.249805, + "iscrowd": 0, + "segmentation": [], + "text": "Astrocitoma\nSubependimario de\nCélulas Gigantes" + }, + { + "id": 173197, + "strid": "741d5857-be28-43b1-ab75-d59638459155", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 908.094, + 1585.796, + 792.9760000000001, + 627.8230000000001 + ], + "priority": 10, + "parents": [ + 173210 + ], + "children": [], + "area": 1440051.8328240002, + "iscrowd": 0, + "segmentation": [], + "text": "O astrocitoma subependimario de celulas\ngigantes (SEGA) @ uma_ neoplasia\nglioneuronal benigna, relacionada com a\nesclerose tuberosa (ES). E uma lesao de\ncrescimento lento que ocorre comumente\nnos ventriculos laterais, proximo ao\nforame de Monro. Seu crescimento pode\ndeterminar hidrocefalia grave. 0\ntratamento cirurgico é curativo quando a\nresseccado completa é possivel. Até\nrecentemente, os pacientes com doenca\nprogressiva e sem possibilidade cirurgica\nnao tinham alternativa de tratamento\neficaz (Goh, 2004; Krueger, 2010)." + }, + { + "id": 173213, + "strid": "ce5139ab-6ff2-4a78-b822-8eedfa75e0fa", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 917.739, + 2419.704, + 776.502, + 155.4459999999999 + ], + "priority": 11, + "parents": [ + 173221 + ], + "children": [ + 173200 + ], + "area": 2220656.7292560004, + "iscrowd": 0, + "segmentation": [], + "text": "Everolimo, um\ninibidor da via MTOR" + }, + { + "id": 173200, + "strid": "38fb81ad-f6cf-445d-8c91-277b10587253", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 907.24, + 2633.138, + 796.5910000000001, + 582.692 + ], + "priority": 12, + "parents": [ + 173213 + ], + "children": [], + "area": 2388888.11912, + "iscrowd": 0, + "segmentation": [], + "text": "A via de sinalizagao celular que ativa o\nalvo da rapamicina em mamiferos\n(mammalian target of rapamycin) esta\nalterada em muitos tumores. Na ES,\nmutacoes nas proteinas TSC1 e 2 fazem\ncom que elas percam a capacidade de\ninibir a mTOR. O everolimo é um inibidor\noral da via mTOR, capaz de inibir a\nproliferagao celular tumoral em pacientes\ncom ES. Um ensaio clinico fase 1/II\nmostrou que o everolimo induz a\nregressao de SEGA em pacientes com ES\n(Easton, 2006, Krueger, 2010)." + }, + { + "id": 173211, + "strid": "5c5bca7d-a90a-4055-9542-036ceac101c6", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2087.28, + 1314.201, + 461.0970000000002, + 69.31500000000005 + ], + "priority": 13, + "parents": [ + 173221 + ], + "children": [ + 173202 + ], + "area": 2743105.4632800003, + "iscrowd": 0, + "segmentation": [], + "text": "Caso Clinico" + }, + { + "id": 173202, + "strid": "472ba610-b209-4748-bd75-43ab3f7d4838", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1920.55, + 1437.514, + 793.6479999999999, + 718.0620000000001 + ], + "priority": 14, + "parents": [ + 173211 + ], + "children": [], + "area": 2760817.5127, + "iscrowd": 0, + "segmentation": [], + "text": "Ha pouco mais de 2 anos, a paciente (5\nanos de idade) foi diagnosticada com\numa grande lesao na topografia do\nventriculo lateral esquerdo, com\ncomprometimento contralateral devido ao\ngrande volume. Resseccao cirtrgica foi\nlevada a cabo ha cerca de 18 meses, com\nretirada de pequena quantidade relativa\nda lesao. A paciente foi considerada\ninoperavel pela neurocirurgia de nosso\ncentro hospitalar e encaminhada para o\nCentro Pediatrico do Cancer, para\navaliagao. Exames de imagem mostraram\nprogressao tumoral (vide infografico ao\nlado). O tratamento com everolimo foi\niniciado." + }, + { + "id": 173212, + "strid": "19a10bac-a840-4f37-b46a-bb609a89cfba", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2098.836, + 2423.336, + 433.6500000000001, + 64.64800000000014 + ], + "priority": 15, + "parents": [ + 173221 + ], + "children": [ + 173205, + 173218, + 173216, + 173203, + 173217, + 173204, + 173201 + ], + "area": 5086184.836895999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 173201, + "strid": "d96e4ae9-0323-4589-bbff-c83a276f120f", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1919.077, + 2544.824, + 797.6859999999999, + 858.663 + ], + "priority": 16, + "parents": [ + 173212 + ], + "children": [], + "area": 4883713.207448, + "iscrowd": 0, + "segmentation": [], + "text": "A paciente era intensamente sintomatica,\ndependente de cuidados, sem deambular\ne interagindo pouco. Iniciamos everolimo\nna dose de 1,5mg/m?/dia. Apds a\ndosagem sérica demonstrar uma\nconcentracdo sérica e 2,9 ng/ml,\naumentamos a dose para 3,0 mg/m2/dia.\nNenhum para-efeito foi observado e\nnenhum exame laboratorial alterou-se.\nNova avaliacao por imagem mostrou\nremissao parcial da lesao (ao lado). A\npaciente apresentava-se com evidente\nmelhora neurologica, conseguindo elevar\n0 tronco e€ O pescogo, brincar e comunicar-\nse mais ativamente. Adicionalmente, suas\ncrises epilépticas, presentes desde\nlactente, cessaram e a paciente pdde\nreduzir suas medicacgoes anti-epilépticas\nde 4 para apenas 2 drogas." + }, + { + "id": 173203, + "strid": "1362b22d-f791-4f4d-81c6-a30aebdf5fb1", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2910.261, + 1232.51, + 503.4760000000001, + 144.0709999999999 + ], + "priority": 17, + "parents": [ + 173212 + ], + "children": [], + "area": 3586925.78511, + "iscrowd": 0, + "segmentation": [], + "text": "RNM_~ realizada em 21/03/2011\nmostrava lesao com maiores diametros\n7,3 x 5,9 cm (axial) e 7,4 cm (coronal),\ncom volume estimado pela reconstrucao\n3D de 126 cm?" + }, + { + "id": 173218, + "strid": "0be09a1c-f9d6-4577-88e9-bd72528e1794", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2892.651, + 1571.524, + 537.1729999999998, + 524.3579999999997 + ], + "priority": 18, + "parents": [ + 173212 + ], + "children": [], + "area": 4545870.470124, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173204, + "strid": "16db4ac2-f71f-48f1-b267-153c28719b34", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2910.82, + 2284.851, + 503.212, + 141.61099999999988 + ], + "priority": 19, + "parents": [ + 173212 + ], + "children": [], + "area": 6650789.98782, + "iscrowd": 0, + "segmentation": [], + "text": "RNM subsequente em 30/01/2012\nmostrou maiores diametros da lesao de\n8,3 x 64 x 82 cm, com volume\nestimado de 169 cm? (aumento de 34%)" + }, + { + "id": 173217, + "strid": "d310537a-5338-4f15-8969-e7b93a13c12a", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2892.651, + 2622.376, + 539.3090000000002, + 538.241 + ], + "priority": 20, + "parents": [ + 173212 + ], + "children": [], + "area": 7585618.5587760005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173205, + "strid": "89a30a27-7881-470c-a34d-0937d7cd2268", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2913.454, + 3358.458, + 497.94299999999976, + 117.89899999999989 + ], + "priority": 21, + "parents": [ + 173212 + ], + "children": [], + "area": 9784712.893932002, + "iscrowd": 0, + "segmentation": [], + "text": "Nova avaliagao por imagem, em\n12/05/2012, mostrou diametros de 7,7\nx 5,3 x 6,7 cm, com volume estimado de\n\n98 cm? (reducao de 42%)." + }, + { + "id": 173216, + "strid": "992b0b59-abd7-4fc0-b184-48eba492abd5", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2892.651, + 3673.229, + 538.241, + 532.9019999999996 + ], + "priority": 22, + "parents": [ + 173212 + ], + "children": [], + "area": 10625369.540079, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173215, + "strid": "434590dd-534c-46f3-a9cb-2e2a915dd59c", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 100.681, + 3275.361, + 1373.549, + 1026.469 + ], + "priority": 23, + "parents": [ + 173221 + ], + "children": [], + "area": 329766.620841, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 173214, + "strid": "a3e0c25e-2e82-41cc-aae2-f9c1fc53a999", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2009.334, + 3754.439, + 275.4190000000001, + 51.04300000000012 + ], + "priority": 24, + "parents": [ + 173221 + ], + "children": [ + 173206 + ], + "area": 7543921.933626, + "iscrowd": 0, + "segmentation": [], + "text": "Bibliografia:" + }, + { + "id": 173206, + "strid": "34724bb5-1a94-4fcd-bf35-bb88c840fd97", + "image_id": 207263, + "image_name": "7229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1602.474, + 3815.668, + 1087.4579999999999, + 333.38099999999986 + ], + "priority": 25, + "parents": [ + 173214 + ], + "children": [], + "area": 6114508.762632, + "iscrowd": 0, + "segmentation": [], + "text": "Crino PB, Nathanson KL, Henske EP. The tuberous sclerosis complex. N Engl J\nMed. 2006 Sep 28;355(13):1345-56.\nEaston JB, Houghton PJ. mTOR and cancer therapy. Oncogene. 2006 Oct\n16;25(48):6436-46.\nGoh S, Butler W, Thiele EA. Subependymal giant cell tumors in tuberous sclerosis\ncomplex. Neurology. 2004 Oct 26;63(8):1457-61.\nKrueger DA, Care MM, Holland K, Agricola K, Tudor C, Mangeshkar P, Wilson KA,\nByars A, Sahmoud T, Franz DN. Everolimus for subependymal giant-cell\nastrocytomas in tuberous sclerosis. N Engl J Med. 2010 Nov 4;363(19):1801-11." + }, + { + "id": 116858, + "strid": "8bc9e1c2-9d80-48c7-b997-f310f92af416", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 419.44, + 10.28, + 287.53000000000003, + 260.57000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 116826, + 116822, + 116819, + 116820, + 116817, + 116818, + 116823, + 116825, + 116821, + 116824 + ], + "area": 4311.843199999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 116817, + "strid": "82c18b42-2a4c-4264-984e-6d81278d6c1c", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 772.983, + 0.0, + 2246.3189999999995, + 289.13199999999995 + ], + "priority": 1, + "parents": [ + 116858 + ], + "children": [], + "area": 0.0, + "iscrowd": 0, + "segmentation": [], + "text": "Nanopore detection of Influenza virus\ndirect from respiratory samples." + }, + { + "id": 116818, + "strid": "1d06fc11-845e-4ca7-bf9f-183e988f24ad", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 86.637, + 322.066, + 3624.404, + 445.38999999999993 + ], + "priority": 2, + "parents": [ + 116858 + ], + "children": [], + "area": 27902.832042, + "iscrowd": 0, + "segmentation": [], + "text": "Kuiama Lewandowski®, Yifei Xu':?, Sheila Lumley**, Ali Vaughan?, Richard Vipond?, Miles Carroll’,\nSarah Walker?, Peter Simmonds’, Dona Foster?, Tim Peto'°, Derrick Crook'2> Philippa Matthews*°, Steven Pullan®.\n\n1 Nuffield Department of Medicine, University of Oxford, 2 NIHR Oxford Biomedical Research Centre, University of Oxford,\n3 Public Health England, National Infection Service, Porton Down, 4 Nuffield Department of Medicine, Peter Medawar Building for Pathogen Research, University of Oxford,\n5 Department of Infectious Diseases and Microbiology, Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Oxford\n\nSheila.lumley@nhs.net" + }, + { + "id": 116819, + "strid": "4bbe4f95-4a79-4de2-ace1-98acd31d9fba", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 352.625, + 908.143, + 642.208, + 78.18200000000002 + ], + "priority": 3, + "parents": [ + 116858 + ], + "children": [ + 116854, + 116855, + 116857, + 116856 + ], + "area": 320233.925375, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 116854, + "strid": "c89d6452-c5f8-4886-8ef0-0696658a0c32", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 169.619, + 1052.056, + 1008.8659999999999, + 905.671 + ], + "priority": 4, + "parents": [ + 116819 + ], + "children": [], + "area": 178448.686664, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 116855, + "strid": "172b5f41-b2fb-4ead-bbbe-c07e9cab82aa", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 4, + "category_name": 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Six samples\nwere multiplexed per flow cell." + }, + { + "id": 116850, + "strid": "cb711491-7d44-4fcd-9605-94cf222eb303", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 161.49, + 4079.597, + 1035.737, + 787.0520000000001 + ], + "priority": 13, + "parents": [ + 116822 + ], + "children": [ + 116848 + ], + "area": 658814.11953, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 116848, + "strid": "b03ef282-e40f-4e2d-a575-8a7b2973b3e0", + "image_id": 205045, + "image_name": "13915.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 178.909, + 4874.777, + 880.131, + 37.54100000000017 + ], + "priority": 14, + "parents": [ + 116850 + ], + "children": [], + "area": 872141.478293, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Pipeline for sample preparation and data analysis." + }, + { + "id": 116849, + "strid": "9868e770-637c-48a1-8c1d-3a8b8acbb67b", + "image_id": 205045, + "image_name": 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Munro’, Elizabeth T. Hobbs?, Suvarna Nadendla™, Rebecca C. Tauber’*, Stephen\nGoralski2, lvan Erill?, Marcus C. Chibucos', & Michelle Giglio‘\n\n‘Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD\n2Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, MD" + }, + { + "id": 120426, + "strid": "2592b810-f102-4c2a-b28f-be2ec0330ddf", + "image_id": 205191, + "image_name": "14422.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.78, + 736.6, + 3484.449, + 660.2020000000001 + ], + "priority": 3, + "parents": [ + 120468 + ], + "children": [], + "area": 21935.948, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract: The Evidence and Conclusion Ontology (ECO) describes types of evidence relevant to biological investigations. First developed in the early 2000s, ECO now\nconsists of over 1700 defined classes and is used by a large, and growing, list of resources. ECO imports close to 1000 classes from the Ontology for Biomedical\nInvestigations and the Gene Ontology for use in logical definitions. Historically, ECO terms have generally been categorized by either the biological context of the\nevidence (e.g. gene expression) or the technique used to generate the evidence (e.g. PCR-based evidence). The result is that sometimes terms that have related\nbiological context are found under different unrelated nodes. To address this, we have been performing a rigorous review of the structure and logic of the branches of\nECO. Working with additional input from collaborators through the issue tracker on GitHub, term labels, definitions, and relationships are being evaluated and updated.\nThe goal of these changes is to increase the logical consistency of ECO, make it easier for users to find and understand terms, and allow for ECO to continue to grow\nand support its users. 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"strid": "28f3f652-21bb-44de-b2bd-cd8b6bacd2ba", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 607.609, + 358.195, + 1539.9880000000003, + 91.86399999999998 + ], + "priority": 2, + "parents": [ + 52901 + ], + "children": [], + "area": 217642.50575500002, + "iscrowd": 0, + "segmentation": [], + "text": "Marie Kierkegaard'*, Susanne Litiorin’, Gunilla Créde Widsell', Lotta Widén Holmavist'\n1 Karolinska University Hospital, Stockholm, Sweden 2 Karolinska Institutet, Stockholm, Sweden" + }, + { + "id": 52885, + "strid": "d6ade861-59ea-4f76-b729-31fd268097fa", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 777.222, + 546.468, + 367.385, + 59.230999999999995 + ], + "priority": 3, + "parents": [ + 52901 + ], + "children": [ + 52900, + 52896 + ], + "area": 424726.95189599996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 52900, + "strid": "732f29b5-7281-4a4a-a412-e8792584e53b", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 47.533, + 533.867, + 642.005, + 599.818 + ], + "priority": 4, + "parents": [ + 52885 + ], + "children": [], + "area": 25376.300111, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52896, + "strid": "f5e7b148-99fc-4b19-9d5a-31fd94bae907", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 771.559, + 634.144, + 1626.177, + 443.972 + ], + "priority": 5, + "parents": [ + 52885 + ], + "children": [], + "area": 489279.510496, + "iscrowd": 0, + "segmentation": [], + "text": "Technical aids and care services are frequently provided\nActivity limitations and participation restrictions are common\nHealth status is variable in the ALS cohort\n\nA more person-centred approach to care might improve the\nperceived satisfaction with care" + }, + { + "id": 52886, + "strid": "52f5b565-eb3c-4de2-bfc2-0b6bcd49ae88", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 124.566, + 1252.543, + 355.61799999999994, + 65.18599999999992 + ], + "priority": 6, + "parents": [ + 52901 + ], + "children": [ + 52890 + ], + "area": 156024.271338, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 52890, + "strid": "e8364b6a-2dec-432e-8dd4-ceabf959d5da", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.498, + 1322.794, + 1122.046, + 230.02800000000002 + ], + "priority": 7, + "parents": [ + 52886 + ], + "children": [], + "area": 160716.825412, + "iscrowd": 0, + "segmentation": [], + "text": "Longitudinal studies addressing the changing\nneeds of people with ALS, the use and satisfaction\nof care and how personal and environmental\nfactors affect outcomes are warranted." + }, + { + "id": 52887, + "strid": "a8ebd36e-589d-41b7-9326-1e47620f33a3", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.672, + 1607.976, + 307.78499999999997, + 65.00099999999998 + ], + "priority": 8, + "parents": [ + 52901 + ], + "children": [ + 52891 + ], + "area": 197253.631872, + "iscrowd": 0, + "segmentation": [], + "text": "Objectives" + }, + { + "id": 52891, + "strid": "1718364c-368a-4c7d-9f45-002f2e0abbf0", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.108, + 1691.541, + 1120.29, + 299.3879999999999 + ], + "priority": 9, + "parents": [ + 52887 + ], + "children": [], + "area": 198092.983428, + "iscrowd": 0, + "segmentation": [], + "text": "To explore and describe disability and health in\npeople with ALS, and the use and satisfaction with\npresent care, to be able to improve, individualize\nand make the care more effective for these\npersons." + }, + { + "id": 52888, + "strid": "80eead8b-e9a9-4aff-b469-feca2fb00c80", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.084, + 2026.969, + 248.20499999999998, + 53.08399999999983 + ], + "priority": 10, + "parents": [ + 52901 + ], + "children": [ + 52892 + ], + "area": 249487.452396, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 52892, + "strid": "e5f68698-f4c7-4a02-9735-f896dccf06f6", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 119.094, + 2109.065, + 1146.693, + 974.2730000000001 + ], + "priority": 11, + "parents": [ + 52888 + ], + "children": [], + "area": 251176.98711, + "iscrowd": 0, + "segmentation": [], + "text": "Repeated data collections during home-based\nvisits every 6 months up to 3 years. Data on use\nand satisfaction with care, disability, personal and\nenvironmental factors are collected by structured\ninterviews, standardized tests and questionnaires.\n\nDisease severity\nALS functional rating scale (ALSFRS-R) score 0-48\n\nActivity and Participation\n\nKatz Personal ADL index (Katz P-ADL) score 0-6\nKatz Instrumental ADL index (Katz I-ADL) score 0-4\nFrenchay activities index (FAI) score 0-45\n\nHigher scores=better\n\nHealth status\nSickness Impact Scale (SIP), 0=best, 100=worst\nEQ VAS, 100=best, O=worst" + }, + { + "id": 52889, + "strid": "5f111006-58b7-4021-bd7d-d2ae66ae6afb", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.021, + 3132.992, + 550.569, + 71.1260000000002 + ], + "priority": 12, + "parents": [ + 52901 + ], + "children": [ + 52899, + 52898, + 52897, + 52894, + 52893, + 52895 + ], + "area": 382290.81683200004, + "iscrowd": 0, + "segmentation": [], + "text": "Preliminary resuits" + }, + { + "id": 52893, + "strid": "c0843fac-198e-4943-84ff-08fe35ebefe1", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.204, + 3217.685, + 1119.13, + 243.9630000000002 + ], + "priority": 13, + "parents": [ + 52889 + ], + "children": [], + "area": 386778.60773999995, + "iscrowd": 0, + "segmentation": [], + "text": "60 of 102 identified people with ALS were included\n\nin the first (baseline) data collection\n(22 did not fulfil inclusion criteria,17 declined and 3 no answer)\n\n15 had bulbar onset and 45 spinal" + }, + { + "id": 52895, + "strid": "0dba6259-d5db-4361-ab43-36dc92d1c5b0", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1459.004, + 1252.3, + 1093.1530000000002, + 138.46000000000004 + ], + "priority": 14, + "parents": [ + 52889 + ], + "children": [], + "area": 1827110.7092, + "iscrowd": 0, + "segmentation": [], + "text": "Preliminary Results, baseline data\nMean (sd) ALSFRS-R score: 28 (11), min-max: 0-45" + }, + { + "id": 52897, + "strid": "4be70cb7-e341-42df-a97e-7b2a5c96ae61", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1429.123, + 1465.36, + 1243.792, + 463.8610000000001 + ], + "priority": 15, + "parents": [ + 52889 + ], + "children": [], + "area": 2094179.67928, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52898, + "strid": "ebed0d79-019d-4eb5-849d-9a6d13900b89", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1429.123, + 1957.024, + 1242.328, + 291.19299999999976 + ], + "priority": 16, + "parents": [ + 52889 + ], + "children": [], + "area": 2796828.009952, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52899, + "strid": "5c04e8f5-be08-435a-ab43-cb83a0281f30", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1456.532, + 2314.489, + 1218.543, + 728.3040000000001 + ], + "priority": 17, + "parents": [ + 52889 + ], + "children": [], + "area": 3371127.292148, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52894, + "strid": "ae29baf4-0348-4aaa-93bb-906c254fdb50", + "image_id": 202579, + "image_name": "118901.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1445.438, + 3115.984, + 1102.6329999999998, + 191.80299999999988 + ], + "priority": 18, + "parents": [ + 52889 + ], + "children": [], + "area": 4503961.680992, + "iscrowd": 0, + "segmentation": [], + "text": "Satisfaction with care\n33 of 55 satisfied with information on diagnosis\n43 of 56 satisfied with the multidisciplinary ALS-team" + }, + { + "id": 56867, + "strid": "4fc00907-7271-4bd1-a15f-761f4f7bedd1", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 238.72, + 291.79, + 436.48, + 133.76 + ], + "priority": -1, + "parents": [], + "children": [ + 56830, + 56833, + 56831, + 56832, + 56858 + ], + "area": 69656.1088, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56830, + "strid": "e2d65cca-9ebc-4964-9a0f-d2c53262b320", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 761.799, + 132.126, + 3622.258, + 117.326 + ], + "priority": 1, + "parents": [ + 56867 + ], + "children": [], + "area": 100653.45467400001, + "iscrowd": 0, + "segmentation": [], + "text": "The Role of Mer in Apoptotic Cell Clearance in the Germinal Center" + }, + { + "id": 56831, + "strid": "8e9b13e9-60f4-4c7b-8eb5-38353120b4bb", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 762.85, + 275.329, + 3262.022, + 149.75600000000003 + ], + "priority": 2, + "parents": [ + 56867 + ], + "children": [], + "area": 210034.72765000002, + "iscrowd": 0, + "segmentation": [], + "text": "Tahsin N. Khan, Eric B. Wong, and Ziaur S. M. Rahman\nDepartment of Microbiology and Immunology, Kimmel Cancer Center, Thomas Jefferson University, Philadelphia, PA 19107" + }, + { + "id": 56832, + "strid": "5b18ce2e-be46-4ca3-8ca3-f3ad500adce6", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 703.89, + 669.242, + 277.74300000000005, + 57.827 + ], + "priority": 3, + "parents": [ + 56867 + ], + "children": [ + 56834 + ], + "area": 471072.75138, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 56834, + "strid": "5d6b65fd-c6f7-44f5-9d6e-e814e63ee23b", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 94.082, + 803.31, + 1429.2360000000003, + 1166.107 + ], + "priority": 4, + "parents": [ + 56832 + ], + "children": [], + "area": 75577.01142, + "iscrowd": 0, + "segmentation": [], + "text": "Germinal centers (GCs) are specialized micro-environments that\ngenerate high affinity Ab-forming cells (AFCs) and memory B cells.\nMany B cells undergo apoptosis during clonal selection in GCs. The\nTAM (Tyro-3, Axl, and Mer) family receptor tyrosine kinases, including\nMer, facilitate macrophage clearance of apoptotic cells. We previously\nshowed that tingible body macrophages (TBM@s) in GCs express Mer.\nWe observed that apoptotic cells (ACs) accumulated in GCs of mice\ndeficient in Mer (Mer-/-), after immunization with T-dependent Ag.\nAccumulation of ACs in GCs of Mer-/- mice resulted in significantly\nincreased AFCs, GCs, and Th1-skewed IgG2c Ab responses. We report\nhere that increased GC response in Mer-/- mice compared to controls is\ndue to increased proliferation of GC B cells. We also found that AC\naccumulation in Mer-/- GCs is not due to increased B cell apoptosis. We\nshow that TBM@s express two other members (Tyro-3 and Axl) of TAM\nfamily receptors, which are similar in both Mer-/- and controls. TBM@s in\nGCs of both strains express similar levels of milk fat globule EGF factor\n8 (Mfges) and T cell immunoglobulin 4 (Tim-4), which are believed to aid\nin AC clearance. These data indicate the critical role for Mer in the\nclearance of ACs in GCs. This is further strengthened by the efficient\nclearance of ACs from GCs in mice deficient in Axl (Axl-/-) in the\npresence of Mer. Together, these data demonstrate a pivotal role of Mer\nin regulating B cell response and in the maintenance of B cell tolerance." + }, + { + "id": 56833, + "strid": "05406930-8d86-49fc-b80c-461aff15bfc4", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 494.216, + 2042.726, + 673.214, + 59.69599999999991 + ], + "priority": 5, + "parents": [ + 56867 + ], + "children": [ + 56838, + 56842, + 56841, + 56835, + 56837, + 56860, + 56865, + 56864, + 56862, + 56845, + 56847, + 56836, + 56839, + 56859, + 56843, + 56844, + 56840, + 56866, + 56863, + 56846 + ], + "area": 1009547.872816, + "iscrowd": 0, + "segmentation": [], + "text": "Methods and Result\n\nA" + }, + { + "id": 56841, + "strid": "9ef08208-50f2-4f46-8476-d01260f5795c", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 254.173, + 2194.799, + 1117.509, + 52.20100000000002 + ], + "priority": 6, + "parents": [ + 56833 + ], + "children": [], + "area": 557858.646227, + "iscrowd": 0, + "segmentation": [], + "text": "Augmented anti-NP GC response in Mer” mice" + }, + { + "id": 56843, + "strid": "c642c490-383a-486e-a8f5-1761a1e399c9", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 88.381, + 2256.785, + 1473.762, + 455.26800000000003 + ], + "priority": 7, + "parents": [ + 56833 + ], + "children": [ + 56852 + ], + "area": 199456.915085, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56852, + "strid": "562eeb53-e7fc-4672-8d41-1f6ad71958de", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 107.096, + 2739.57, + 1399.216, + 156.65999999999985 + ], + "priority": 8, + "parents": [ + 56843 + ], + "children": [], + "area": 293396.98872, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. (A) B6/129.Mer’ (Mer“) and wild-type control (WT) mice were immunized with the T-\ndependent Ag (TD Ag) NP-OVA. Flow cytometric analysis was performed on splenocytes\nobtained 21 days postimmunization and gated on GC B cells (B220*PNA*CD95*). (B) The\npercentage of WT and Mer” GC B cells is shown. n= 4 for WT and 7 for Mer”" + }, + { + "id": 56842, + "strid": "dbc4bc1f-02ba-4008-b6e1-43411eefa939", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 108.706, + 3002.838, + 1443.787, + 53.84900000000016 + ], + "priority": 9, + "parents": [ + 56833 + ], + "children": [], + "area": 326426.50762800005, + "iscrowd": 0, + "segmentation": [], + "text": "Enhanced primary (short-lived) AFC responses in Mer“ mice" + }, + { + "id": 56862, + "strid": "6773942a-3e50-4eaa-9c3a-ff21e1158b7b", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 122.258, + 3073.521, + 1415.701, + 355.0749999999998 + ], + "priority": 10, + "parents": [ + 56833 + ], + "children": [ + 56853 + ], + "area": 375762.530418, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56853, + "strid": "b0f6ce16-70e1-4b8a-9971-efa22f4b4e46", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 112.752, + 3463.746, + 1414.31, + 134.9749999999999 + ], + "priority": 11, + "parents": [ + 56862 + ], + "children": [], + "area": 390544.288992, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Splenic NP-specific IgM (A) and IgG-secreting (B) AFCs were measured\nby ELISpot. Representative images of an assay obtained on day 21 of anti-NP\nresponse is shown. n= 4-5 mice of each genotype." + }, + { + "id": 56859, + "strid": "25304b68-5b97-4615-9794-9e6fd1db393e", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 177.408, + 3705.18, + 1294.22, + 53.52300000000014 + ], + "priority": 12, + "parents": [ + 56833 + ], + "children": [], + "area": 657328.57344, + "iscrowd": 0, + "segmentation": [], + "text": "Elevated Th1-skewed IgG2 Ab responses in Mer“ mice" + }, + { + "id": 56866, + "strid": "1b0d8f28-d164-4121-b946-d00e0ef20ecc", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 187.724, + 3780.297, + 1274.118, + 966.5440000000003 + ], + "priority": 13, + "parents": [ + 56833 + ], + "children": [ + 56857 + ], + "area": 709652.4740279999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56857, + "strid": "7891910b-28aa-42b5-9d24-9b9d99996e92", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 115.081, + 4760.785, + 1417.556, + 136.36499999999978 + ], + "priority": 14, + "parents": [ + 56866 + ], + "children": [], + "area": 547875.898585, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. TD Ag-induced anti-NP total IgM, IgG, IgG1 and lgG2 titers were\nmeasured by ELISA in WT and Mer“ serum samples obtained on days 21 (A) and\n28 (B) postimmunization. n=5 for WT and 7 for Mer’" + }, + { + "id": 56835, + "strid": "1da3d65b-382f-40ff-b130-43c6930fc5ef", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1740.159, + 689.396, + 1319.094, + 105.048 + ], + "priority": 15, + "parents": [ + 56833 + ], + "children": [], + "area": 1199658.653964, + "iscrowd": 0, + "segmentation": [], + "text": "Significantly increased number of apoptotic cells (ACs)\naccumulate in Mer’- GCs" + }, + { + "id": 56844, + "strid": "f83d95f9-845d-4360-8c41-7fac8ce3b04b", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1680.815, + 803.154, + 1439.449, + 349.66899999999987 + ], + "priority": 16, + "parents": [ + 56833 + ], + "children": [ + 56848 + ], + "area": 1349953.29051, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56848, + "strid": "400f5981-8464-4a01-8306-68d1f81940b9", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1687.485, + 1158.204, + 1426.9239999999998, + 236.6389999999999 + ], + "priority": 17, + "parents": [ + 56844 + ], + "children": [], + "area": 1954451.8769399999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. (A) Three-color immunohistology of spleen sections from WT (top row) and Mer’\n(bottom row) TD Ag immunized mice using PNA, CD68 and TUNEL. Two- (anti-CD68 and\nTUNEL) and three-color (PNA, anti-CD68 and TUNEL) overlay images are shown in the fourth\nand fifth columns, respectively. GCs are shown in dotted red lines in the first column and defined\nby the presence of PNA* cells. Magnification: 200x. (B) TUNEL* cells were counted in randomly\nselected GCs from four to five mice of each genotype. Horizontal bar indicates average value." + }, + { + "id": 56837, + "strid": "6f91b915-71ac-43ba-8157-ca86e2d82246", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1713.737, + 1471.551, + 1372.473, + 105.68200000000002 + ], + "priority": 18, + "parents": [ + 56833 + ], + "children": [], + "area": 2521851.396087, + "iscrowd": 0, + "segmentation": [], + "text": "Accumulation of ACs is not due to increased cell death in\nMer’- GCs" + }, + { + "id": 56846, + "strid": "60cca7e5-e7eb-4bbc-bd9a-63513b994bc7", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1754.609, + 1584.72, + 1291.5819999999999, + 602.0400000000002 + ], + "priority": 19, + "parents": [ + 56833 + ], + "children": [ + 56850 + ], + "area": 2780563.97448, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56850, + "strid": "b13048a5-b5a5-472b-9da5-48e62a6fb644", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1671.946, + 2207.783, + 1436.1750000000002, + 114.95800000000008 + ], + "priority": 20, + "parents": [ + 56846 + ], + "children": [], + "area": 3691293.9557179995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Flow cytometric analysis of splenocytes obtained on day 14 postimmunization. Staining\nperformed with Annexin V and PI, gated on GC B cells (B220*IgD-Fas*). The percentage of GC B\ncells undergoing cell death appears to be lower in Mer’- mice compared to the wild-type control." + }, + { + "id": 56840, + "strid": "1ddb7a4f-b2d7-4cc2-92f5-8719d91848de", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1727.345, + 2435.272, + 1345.573, + 104.46799999999985 + ], + "priority": 21, + "parents": [ + 56833 + ], + "children": [], + "area": 4206554.91284, + "iscrowd": 0, + "segmentation": [], + "text": "Significantly increased number of proliferating B cells in\nMer’ GCs" + }, + { + "id": 56863, + "strid": "ca812d25-5d63-4a4f-9f6e-e306c1f72ba1", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1763.388, + 2545.053, + 1275.0209999999997, + 809.317 + ], + "priority": 22, + "parents": [ + 56833 + ], + "children": [ + 56854 + ], + "area": 4487915.919563999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56854, + "strid": "d81c7f94-9cd9-4a8a-a680-b620a12ac514", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1682.597, + 3391.573, + 1419.928, + 155.95600000000013 + ], + "priority": 23, + "parents": [ + 56863 + ], + "children": [], + "area": 5706650.555081, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6. (A) Spleen sections of WT (top row) and Mer“ (bottom row) mice from day 21\npostimmunization were stained with IgD, PNA and BrdU. (B) Average number of BrdU* cells per\nrandomly selected GC in WT and Mer“ mice. (C) Spleen sections stained with GL-7, anti-Ki67,\nand anti-lgD showing GC B cell proliferation in WT and Mer’- mice." + }, + { + "id": 56860, + "strid": "e17463fa-1563-4dbc-b42f-7e5b982c0f9f", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1686.723, + 3698.791, + 1426.48, + 174.5619999999999 + ], + "priority": 24, + "parents": [ + 56833 + ], + "children": [], + "area": 6238835.851893, + "iscrowd": 0, + "segmentation": [], + "text": "Expression of milk fat globule EGF factor 8 (Mfge8), a dual-\nfunction bridging molecule involved in the integrin pathway\nto clear ACs is not compromised in Mer” mice" + }, + { + "id": 56865, + "strid": "56a86fdc-851b-40aa-bc02-4c657ecca805", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1829.088, + 3896.998, + 1074.1500000000003, + 725.4190000000003 + ], + "priority": 25, + "parents": [ + 56833 + ], + "children": [ + 56856 + ], + "area": 7127952.2778239995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56856, + "strid": "f32da77a-4dad-44c2-93ba-9b5956a75d81", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1662.319, + 4675.138, + 1434.1600000000003, + 182.5039999999999 + ], + "priority": 26, + "parents": [ + 56865 + ], + "children": [], + "area": 7771570.725021999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7. Multicolor immunohistological analysis of spleen sections from WT and\nMer“ mice on days 9 (A) and 14 (B) postimmunization using anti-lgD, !MFGE8, and\nFDC-M1. GCs are shown in dotted red lines in the first column and defined by the\npresence of IgD- cells. Magnification: 200x. n= 4-5 mice of each genotype." + }, + { + "id": 56836, + "strid": "def5b054-ee3f-436e-8183-f05b300e4fc5", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3278.012, + 698.706, + 1397.9810000000002, + 174.54100000000005 + ], + "priority": 27, + "parents": [ + 56833 + ], + "children": [], + "area": 2290366.652472, + "iscrowd": 0, + "segmentation": [], + "text": "Similar expression levels of Tim-4, a molecule that directly\nbinds phosphotidylserine (PS) on ACs and mediates\nphagocytosis in WT and Mer” GCs" + }, + { + "id": 56845, + "strid": "8987898c-560a-461f-8aa6-5fb706c82fe0", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3304.333, + 898.638, + 1284.7980000000002, + 413.84500000000014 + ], + "priority": 28, + "parents": [ + 56833 + ], + "children": [ + 56849 + ], + "area": 2969399.198454, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56849, + "strid": "431e34d7-d8b4-4729-92ba-1d3dc289afae", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3245.538, + 1361.176, + 1472.583, + 196.67100000000005 + ], + "priority": 29, + "parents": [ + 56845 + ], + "children": [], + "area": 4417748.432688, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 8. Spleen sections of WT (top row) and Mer” (bottom row) mice from day 14\npostimmunization with TD Ag were stained using GL-7, Anti-Tim-4 and Anti-CD68. Two- (anti-Tim-4\nand CD68) and three-color (GL-7, anti-CD68 and CD68) overlay images are shown in the fourth\nand fifth columns, respectively. GCs are shown in dotted red lines in the first column and defined by\nthe presence of GL-7* cells. Magnification: 200x. n=4-5 mice of each indicated genotype." + }, + { + "id": 56838, + "strid": "807926c5-dafa-4f83-af98-a7d5fcb344a7", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3263.288, + 1664.369, + 1423.484, + 104.41200000000003 + ], + "priority": 30, + "parents": [ + 56833 + ], + "children": [], + "area": 5431315.385272, + "iscrowd": 0, + "segmentation": [], + "text": "Other members of the TAM family receptor tyrosine kinases\nare not altered in Mer’ mice" + }, + { + "id": 56847, + "strid": "ba4677eb-96f3-493b-bd63-2813a862ce4c", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3481.179, + 1805.363, + 955.9470000000001, + 743.2990000000002 + ], + "priority": 31, + "parents": [ + 56833 + ], + "children": [ + 56851 + ], + "area": 6284791.762977, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56851, + "strid": "d747eeb1-35f2-47cc-87a3-95d99a19b94b", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3269.99, + 2567.699, + 1426.286, + 228.87300000000005 + ], + "priority": 32, + "parents": [ + 56847 + ], + "children": [], + "area": 8396350.05301, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 9. Immunohistology of spleen sections of WT and Mer~ mice from day 14\npostimmunization. (A) Splenic tissue was stained with PNA, anti-Tyro-3 and CD68.\n(B) Spleen frozen sections were stained with PNA, anti-Axl and CD68.\n\nThe expression levels of Tyro-3 and Axl are similar in both the presence and\nabsence of Mer. Magnification: 200x" + }, + { + "id": 56839, + "strid": "935e896c-4f67-4f2c-badd-e15e85b12dc9", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3294.291, + 2900.238, + 1396.9669999999996, + 114.34799999999996 + ], + "priority": 33, + "parents": [ + 56833 + ], + "children": [], + "area": 9554227.941258, + "iscrowd": 0, + "segmentation": [], + "text": "No significant accumulation of ACs in GCs of Axl deficient\n(Ax!I\"-) mice in the presence of Mer" + }, + { + "id": 56864, + "strid": "c51d90d6-5394-4a56-9d1a-4702233be779", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3263.13, + 3018.655, + 1367.2939999999999, + 618.654 + ], + "priority": 34, + "parents": [ + 56833 + ], + "children": [ + 56855 + ], + "area": 9850263.69015, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56855, + "strid": "53ef262d-ac8a-45f2-bafa-2e6fe204a72e", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3238.411, + 3657.538, + 1482.46, + 156.837 + ], + "priority": 35, + "parents": [ + 56864 + ], + "children": [], + "area": 11844611.292118, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 10. Similar immunofluorescent staining of spleen sections as in Figure 4 was performed with\nPNA, CD68 and TUNEL using tissue from Mer“ (top row) and Axl deficient (Axl\"-) mice (bottom two\nrows). Significant number of ACs accumulate in Mer’ GCs, whereas ACs are largely cleared in Axl\nGCs, in the presence of Mer." + }, + { + "id": 56858, + "strid": "d82055ab-cd6d-4a31-9cb2-8a77ded8be90", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3793.078, + 3893.713, + 363.6699999999996, + 57.42599999999993 + ], + "priority": 36, + "parents": [ + 56867 + ], + "children": [ + 56861 + ], + "area": 14769157.118614001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 56861, + "strid": "1f039895-33ff-4d27-ab96-c25750e1ee5c", + "image_id": 202742, + "image_name": "119173.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3263.935, + 4031.504, + 1388.7139999999995, + 640.442 + ], + "priority": 37, + "parents": [ + 56858 + ], + "children": [], + "area": 13158567.00824, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50490, + "strid": "4f676ae5-3fb2-4384-b2f0-cb04a4a37b01", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 28.1, + 44.03, + 103.49000000000001, + 221.76000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 50462, + 50467, + 50470, + 50464, + 50465, + 50473, + 50482, + 50463, + 50478, + 50488, + 50474, + 50479, + 50466, + 50486, + 50468, + 50489, + 50469, + 50477, + 50485, + 50484, + 50487, + 50472, + 50475, + 50480, + 50483, + 50476, + 50471 + ], + "area": 1237.2430000000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50462, + "strid": "526a27ce-568b-43e8-8573-9e5b2ca2f05e", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 180.222, + 93.959, + 3166.214, + 243.192 + ], + "priority": 1, + "parents": [ + 50490 + ], + "children": [], + "area": 16933.478898, + "iscrowd": 0, + "segmentation": [], + "text": "Analysis of the therapeutic efficacy of pudendal nerve infiltration on\npudendal neuralgia due to pudendal canal syndrome at three months." + }, + { + "id": 50463, + "strid": "e4e39176-d7c9-46c0-a206-c89c0cb4de2e", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 31.302, + 621.548, + 3376.746, + 146.332 + ], + "priority": 2, + "parents": [ + 50490 + ], + "children": [], + "area": 19455.695496, + "iscrowd": 0, + "segmentation": [], + "text": "Institutions: I Centre fédératif douleur et soins palliatifs, Service d'Urologie, CHU Nantes, “Unité d'évaluation et de traitement de la douleur, Centre Catherine de Sienne, Nantes, 7H6pital Rothschild, CHU Paris VI, Paris, ‘Service de physiologie, CHU Rouen, Rouen,\n*Neurochirurgie, Polyclinique Cote Basque, Saint Jean de Luz, Service de gynécologie, CHU Clermont Ferrand, Clermont Ferrand, Service de neurotraumatologie, Centre fédératif douleur et soins palliatifs, CHU Nantes, Nantes, France\n\nJ.J. Labat!,T. Riant?,A. Lassaux?, B. Rioult?, A.M. Leroi*, M. Khalfalah>, B. Rabischong®, R. Robert’, J. Nizard®" + }, + { + "id": 50465, + "strid": "9604bcb6-b791-40f2-91a2-1d9139a4b2ef", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 34.845, + 350.639, + 3290.5, + 199.63700000000006 + ], + "priority": 3, + "parents": [ + 50490 + ], + "children": [], + "area": 12218.015955, + "iscrowd": 0, + "segmentation": [], + "text": "Prospective, randomized, three-arm study comparing the efficacy of local steroids versus large-volume\ninfiltrations versus a control arm.\n\nEudraCT No. 2008-003914-87; CPP reference: 08.10.24 ; Afssaps reference: A80938-22 Positive opinion from the CPP Ouest III (Poitiers) (IEC) was obtained on 18/11/2008. Afssaps authorisation on 31/10/2008" + }, + { + "id": 50466, + "strid": "f4e2897c-03df-4b1a-8e08-459aa6771544", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 153.694, + 897.725, + 746.847, + 94.81600000000003 + ], + "priority": 4, + "parents": [ + 50490 + ], + "children": [], + "area": 137974.94615, + "iscrowd": 0, + "segmentation": [], + "text": "Context: pudendal nerve entrapment neuralgia,\n\n“Nantes diagnostic criteria”" + }, + { + "id": 50473, + "strid": "ea645fe6-54f0-4e45-826d-b0cef2c77d12", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 41.522, + 1013.04, + 648.514, + 331.26800000000003 + ], + "priority": 5, + "parents": [ + 50490 + ], + "children": [], + "area": 42063.446879999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50467, + "strid": "51434bde-2ca9-4407-bc22-9091e9e69cba", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 39.137, + 1424.841, + 415.727, + 304.22699999999986 + ], + "priority": 6, + "parents": [ + 50490 + ], + "children": [], + "area": 55764.002216999994, + "iscrowd": 0, + "segmentation": [], + "text": "Diagnostic block >0: when\nsitting\n\nVAS before — VAS\nimmediately after < VAS\nbefore/2 (-50%)\n\nRiant T, Labat JJ, Robert R et\nal ,Pelviper. 2007" + }, + { + "id": 50468, + "strid": "873752fe-0f13-4688-848a-5db439971cde", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 529.55, + 1427.092, + 509.85799999999995, + 333.16599999999994 + ], + "priority": 7, + "parents": [ + 50490 + ], + "children": [], + "area": 755716.5686, + "iscrowd": 0, + "segmentation": [], + "text": "Surgery = only validated\ntreatment in this disease\n(randomized protocol: 71.4% of\npatients obtain greater than 30\nmm gain of VASmax at 1 year vs\n\n13.4% of nonoperated patients)\nRobert R, Labat JJ, Bensignor M\nEur Urol. 2005" + }, + { + "id": 50474, + "strid": "19f06fc2-1440-459b-af12-1f18ecbdbc09", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 19.394, + 1868.508, + 898.28, + 470.52200000000016 + ], + "priority": 8, + "parents": [ + 50490 + ], + "children": [], + "area": 36237.844152, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50475, + "strid": "132e6f9d-f85b-4732-ba18-1b11c5d6ebe0", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 27.386, + 2483.6, + 443.657, + 434.80499999999984 + ], + "priority": 9, + "parents": [ + 50490 + ], + "children": [], + "area": 68015.86959999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50476, + "strid": "c65d37cc-ee72-4c67-a278-c3b73c22e2a1", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 504.375, + 2487.718, + 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"strid": "773df47d-a771-4763-9c09-42ad3d2bc6f9", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1082.717, + 2903.127, + 413.48299999999995, + 628.3359999999998 + ], + "priority": 18, + "parents": [ + 50490 + ], + "children": [], + "area": 3143264.9560590005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50479, + "strid": "fd5451cc-1fd4-426e-a166-eda178275b1b", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1597.171, + 2908.719, + 629.6279999999999, + 763.8940000000002 + ], + "priority": 19, + "parents": [ + 50490 + ], + "children": [], + "area": 4645721.633949, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50487, + "strid": "1d03a271-39cc-43e4-86d1-93055903dcd7", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 938.027, + 3643.153, + 632.597, + 863.9299999999998 + ], + "priority": 20, + "parents": [ + 50490 + ], + "children": [], + "area": 3417375.879131, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50480, + "strid": "51fa2d57-710d-4907-9c4c-6e29e60c4033", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1619.311, + 4071.991, + 605.338, + 250.2479999999996 + ], + "priority": 21, + "parents": [ + 50490 + ], + "children": [], + "area": 6593819.818201, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50484, + "strid": "2f4e0825-9072-48a2-ba01-a8272de9521f", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2336.325, + 908.513, + 1111.819, + 555.4999999999999 + ], + "priority": 22, + "parents": [ + 50490 + ], + "children": [], + "area": 2122581.634725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50471, + "strid": "6b993572-70bc-4617-8359-a022fe715348", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2384.309, + 1530.968, + 1040.688, + 163.24199999999996 + ], + "priority": 23, + "parents": [ + 50490 + ], + "children": [], + "area": 3650300.7811120003, + "iscrowd": 0, + "segmentation": [], + "text": "Primary endpoint: 13.43% of patients improved\nwith no significant, difference\nbetween arms Avs B+C (with or without steroids)" + }, + { + "id": 50486, + "strid": "b458f5b0-7b52-4671-9841-dc710d9a430f", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2475.889, + 1735.024, + 861.8899999999999, + 475.31500000000005 + ], + "priority": 24, + "parents": [ + 50490 + ], + "children": [], + "area": 4295726.836336, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50470, + "strid": "f19e99b8-6511-413d-a94b-6bda27adcc36", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2368.961, + 2309.841, + 462.491, + 309.12199999999984 + ], + "priority": 25, + "parents": [ + 50490 + ], + "children": [], + "area": 5471923.245200999, + "iscrowd": 0, + "segmentation": [], + "text": "Secondary endpoints:\nNo significant difference\nbetween arms: A vs B+C;\n\nAvs B; Avs C; Bvs C.\nfor all parameters at 1, 2\n\nand 3 months" + }, + { + "id": 50482, + "strid": "ea540f5a-7934-4c6d-a5b3-da4091fdaf9c", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2853.508, + 2243.397, + 614.8649999999998, + 417.03099999999995 + ], + "priority": 26, + "parents": [ + 50490 + ], + "children": [], + "area": 6401551.286675999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50464, + "strid": "3aee2d91-7221-4b25-9b60-468ff98bd75c", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2694.527, + 2978.467, + 274.366, + 39.5920000000001 + ], + "priority": 27, + "parents": [ + 50490 + ], + "children": [ + 50481 + ], + "area": 8025559.750109, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50481, + "strid": "6eac84e1-d3a9-4cbe-b2fe-3936ceebd5bf", + "image_id": 202483, + "image_name": "118761.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2352.628, + 3058.289, + 1157.3579999999997, + 1397.6039999999998 + ], + "priority": 28, + "parents": [ + 50464 + ], + "children": [], + "area": 7195016.333492001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 407, + "strid": "af5d48f6-e47b-468f-97e2-2ff65ebf1435", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 46.87, + 40.41, + 87.26999999999998, + 82.13000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 404, + 355, + 367, + 393, + 403, + 362, + 358, + 396, + 366, + 369, + 394, + 370, + 392, + 368, + 399, + 354, + 390, + 401, + 406, + 357, + 371, + 353, + 395, + 398, + 356, + 400, + 387, + 402, + 397, + 388, + 352, + 391, + 389 + ], + "area": 1894.0166999999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 352, + "strid": "fb3defbc-088b-4abb-ad65-94bf4b9ec145", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 206.487, + 183.943, + 3182.53, + 263.22300000000007 + ], + "priority": 1, + "parents": [ + 407 + ], + "children": [], + "area": 37981.838241000005, + "iscrowd": 0, + "segmentation": [], + "text": "Guide to Cyprinid Fish Larvae and Early Juveniles\n\nof the Upper Colorado River Basin with Computer-Interactive Key" + }, + { + "id": 353, + "strid": "728d82b9-b464-4b07-a74c-a5a2a0500cca", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 176.173, + 511.241, + 3247.8600000000006, + 144.45500000000004 + ], + "priority": 2, + "parents": [ + 407 + ], + "children": [], + "area": 90066.860693, + "iscrowd": 0, + "segmentation": [], + "text": "By Darrel E. Snyder, Sean C. Seal, Jennifer A. Charles, and C. Lynn Bjork (illustrator)\n\nLarval Fish Laboratory, Department of Fish, Wildlife, and Conservation Biology, Colorado State University, Fort Collins (darrel.snyder @colostate.edu)" + }, + { + "id": 391, + "strid": "70af03ee-ea1c-4339-a2a0-ddde78c70917", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 139.777, + 836.937, + 1014.6779999999999, + 1355.978 + ], + "priority": 3, + "parents": [ + 407 + ], + "children": [], + "area": 116984.54304899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 354, + "strid": "d9063ebe-8c0e-40c1-a8db-5e81269d4305", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1735.478, + 868.884, + 123.12699999999995, + 30.336000000000013 + ], + "priority": 4, + "parents": [ + 407 + ], + "children": [ + 360, + 359 + ], + "area": 1507929.0665520001, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 359, + "strid": "a5489ec8-ff38-4c60-91d6-37ad8339dca0", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1307.414, + 932.691, + 477.80600000000004, + 1188.544 + ], + "priority": 5, + "parents": [ + 354 + ], + "children": [], + "area": 1219413.271074, + "iscrowd": 0, + "segmentation": [], + "text": "During the past decade, 68 species of fish\nhave been found in the Upper Colorado River\nBasin (UCRB). Although they represent 14\nfamilies, over a third of the fish belong to just\none family, Cyprinidae. Of all the fish, only 13\nspecies (4 families) are native, and nearly a third\nof these are federally endangered and subject to\nrecovery efforts by the Upper Colorado River\nEndangered Fish Recovery Program—one\ncatostomid, razorback sucker = Xyrauchen\ntexanus, and three cyprinids, humpback chub\nGila cypha, bonytail G. elegans, and Colorado\npikeminnow Prychocheilus lucius.\n\nCollections of the early life stages of fish are\nessential for researching and monitoring fish\nspawning sites and seasons, production,\ntransport, distribution, nursery habitat, survival,\nand other aspects of early life history. Such\ninvestigations require accurate identification of\nat least the target species among collected\nspecimens. However, the larvae of most fishes\nchange dramatically as they grow and develop,\nwhich can make diagnosis especially difficult\nand complicated (e.g., the 60-page key for the\nlarvae of just six catostomids in Snyder and\nMuth 1990).\n\nOur objectives for this guide were to better\ndescribe and facilitate identification of the larvae\nand early juveniles of 15 cyprinids in the UCRB.\nThese included the three endangered cyprinids,\ntwo remaining native cyprinids—roundtail chub\nG. robusta and speckled dace Rhinichthys\nosculus, and ten non-native cyprinids (see Table\nof Contents). Nine other non-native cyprinids in\nthe UCRB were either not recognized as present\nwhen the guide was planned or considered\nunlikely to be encountered as larvae in Recovery\nProgram investigations. However, larval\ndescriptions were referenced for all but two of\nthese non-natives (two Lepidomeda species\nremain undescribed)." + }, + { + "id": 360, + "strid": "2e673fff-50a6-4ba7-ac17-63c162c53d05", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1810.371, + 930.74, + 481.4229999999998, + 1190.3 + ], + "priority": 6, + "parents": [ + 354 + ], + "children": [], + "area": 1684984.70454, + "iscrowd": 0, + "segmentation": [], + "text": "The guide was built upon a foundation of\ninformation, species accounts, and keys\npreviously assembled for Snyder (1981), Muth\n(1990), and Snyder et al. (2005). In doing so, we\nstudied developmental series of reared and\ncollected specimens to more completely\ndocument differences in size relative to\ndevelopmental state, morphology, meristics, and\npigmentation. Newly acquired or re-examined\ndata were summarized for over 1,700 specimens.\nAlso, 66 new three-view drawings were prepared\nto complete sets of 8 illustrations per species\nwhich document typical body form and\npigmentation from recently hatched larvae\nthrough early juveniles. The results are\npresented in detailed descriptive species\naccounts, comparative summary tables, and an\nassociated computer-interactive key.\n\nFor complex data sets (e.g., those covering\nthe early developmental stages of various taxa),\ncomputer-interactive keys are much more user\nfriendly and flexible than printed dichotomous\nor polychotomus keys. They are also much\neasier to prepare, correct, and update. In\naddition to the key for cyprinid larvae and\njuveniles, a second associated computer-\ninteractive key (Snyder and Seal 2008) is\nprovided for identification of all larvae at the\nfamily level. Also, to complement the subset of\nfamilies specifically defined for the UCRB in\nthat key, applicable portions of a pictorial guide\nto families by Wallus et al. (1990) were modified\nas an appendix to the guide.\n\nThe guide was peer-reviewed as a final report\nof the Recovery Program and published by\nColorado Parks and Wildlife as Technical\nPublication 47. Together with a similar\npreviously published guide for catostomids\n(Snyder and Muth 2004), it completes a series of\ndescriptive investigations begun over 35 years\nago on cypriniform larvae in the UCRB." + }, + { + "id": 355, + "strid": "ab20262e-426b-42f3-8519-8cf9f4bfdd79", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2838.613, + 867.006, + 222.01600000000008, + 27.21199999999999 + ], + "priority": 7, + "parents": [ + 407 + ], + "children": [ + 386, + 405 + ], + "area": 2461094.502678, + "iscrowd": 0, + "segmentation": [], + "text": "Table of Contents" + }, + { + "id": 386, + "strid": "77c26183-e2cc-4380-8930-5b7af726a743", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2460.423, + 924.912, + 485.81399999999985, + 1010.328 + ], + "priority": 8, + "parents": [ + 355 + ], + "children": [], + "area": 2275674.757776, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 405, + "strid": "255fb7ff-0b3f-4745-96af-162eefd7b822", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2961.529, + 921.9, + 490.6399999999999, + 1012.7880000000001 + ], + "priority": 9, + "parents": [ + 355 + ], + "children": [], + "area": 2730233.5851, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 356, + "strid": "2cf08586-7922-4d08-90c7-b424a06468c3", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2874.311, + 1989.656, + 148.7260000000001, + 29.593000000000075 + ], + "priority": 10, + "parents": [ + 407 + ], + "children": [ + 361 + ], + "area": 5718890.127016, + "iscrowd": 0, + "segmentation": [], + "text": "Availability" + }, + { + "id": 361, + "strid": "b7e95ce8-f559-48fd-a7ec-dcee1fde4155", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2463.0, + 2047.624, + 950.1909999999998, + 111.11800000000017 + ], + "priority": 11, + "parents": [ + 356 + ], + "children": [], + "area": 5043297.9120000005, + "iscrowd": 0, + "segmentation": [], + "text": "A PDF copy of the guide is available on the Colorado Parks and Wildlife (CPW) and Larval Fish\nLaboratory (LFL) websites, the latter at http://warnerenr.colostate.edu/Ifl-downloadable-keys-\nguides-and-bibliography; printed copies are available upon request from CPW. The associated\ncyprinid computer-interactive key and a family-level key are available at the same LFL website." + }, + { + "id": 371, + "strid": "837481b4-a4c4-4329-8eee-8c1f5de92d74", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 989.936, + 2288.587, + 532.7579999999999, + 28.152000000000044 + ], + "priority": 12, + "parents": [ + 407 + ], + "children": [], + "area": 2265554.660432, + "iscrowd": 0, + "segmentation": [], + "text": "1 of 15 Descriptive Species Accounts in the Guide" + }, + { + "id": 370, + "strid": "44dd18ed-b280-4b73-af68-4a313da8d1c8", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 319.85, + 2395.484, + 313.08900000000006, + 16.019999999999982 + ], + "priority": 13, + "parents": [ + 407 + ], + "children": [], + "area": 766195.5574, + "iscrowd": 0, + "segmentation": [], + "text": "Species Account - Gila cypha, humpback chub" + }, + { + "id": 392, + "strid": "afcbe449-9b71-45c6-9c44-41e3e2709ab9", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 148.992, + 2406.433, + 317.918, + 151.76800000000003 + ], + "priority": 14, + "parents": [ + 407 + ], + "children": [ + 372 + ], + "area": 358539.26553599996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 372, + "strid": "2d9aa290-5338-4385-ba51-3373e23a4dad", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 150.099, + 2559.655, + 271.121, + 15.043999999999869 + ], + "priority": 15, + "parents": [ + 392 + ], + "children": [], + "area": 384201.655845, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 36. Gila cyphe adult (© Joseph R. Tomelleri)." + }, + { + "id": 368, + "strid": "daddef21-d31c-48fd-a175-28a4387b0b44", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 149.477, + 2584.676, + 316.78700000000003, + 290.0129999999999 + ], + "priority": 16, + "parents": [ + 407 + ], + "children": [], + "area": 386349.614452, + "iscrowd": 0, + "segmentation": [], + "text": "Adult description: Up to 35-48 cm TL Body stcamlined.\ncompressed, with ‘ypically prominent anrerodorsal nuchal hump,\nabrupt and trmcate aver occiput. Head dorsally flatencd ce concave\nwith very small eyes (as litle a¢ §% HL) and Tong. fleshy snout\noverhanging subteraunal to infericr nearly horizontal, mouth, Caudal\npeduncle slender (least depth ~21% HL). Fins expansive, faleate\ncandaltin lobes moderately long_and pointed: dorsal cigin well\nbehind pelvic origin. Angle of line fiom along base of anal fin extends\nalong upper margin of caudal fin to middle of upper lobe. Scales,\nnearly licking or well embedded over uucal buuap and sometimes\nelsewhare except laterally. Gray or olivaceous deisally. silvery or\nwhite venolateally. Breeding mes orange-red along veateolaveral\nsurfaces with small tabercles an anterior body. (Also, Table 14.)\nReproduction: Nov-giauding, open-substatelihophil. Matureataze\n3.5. Spawn shorty after peak spring flows dung late April eatly\nsly at 12-23°C. typically 16-19°C, probably in near-shore areas af\nunodeate velocity and depth over sand, gravel or cobble, Wate\nhardened egas dewsrsal, acliesive, aud 2.3-)2.6-3.1(-3.3) mum in\ndiameter (nieans 2.7 & 2.9 (onig.) ma),\n\nYoung: Hatch in 3-7 d and swim up 3—4 dlares at 19-20°C. Young\ndiuraily active: in near-shore. low-velocity habitats. esecially at\nseh ce ‘torn oobi xx tages enedenie ated cage" + }, + { + "id": 393, + "strid": "a95b4353-7137-47fa-82f3-3b152e6d2726", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 486.857, + 2419.492, + 316.708, + 416.59699999999975 + ], + "priority": 17, + "parents": [ + 407 + ], + "children": [ + 373 + ], + "area": 1177946.6166440002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 373, + "strid": "df8cddee-a66b-488f-8ca3-ed499cbeb44b", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 487.335, + 2847.076, + 315.536, + 26.409000000000106 + ], + "priority": 18, + "parents": [ + 393 + ], + "children": [], + "area": 1387479.78246, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 37. Recent distribution of Gila cypha in the Colorado\nRiser Genin toa tien weadiblr coerce icles," + }, + { + "id": 387, + "strid": "268b989a-6735-4e06-acb4-61a4384ee1e2", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 149.195, + 2923.651, + 654.49, + 131.23000000000002 + ], + "priority": 19, + "parents": [ + 407 + ], + "children": [ + 374 + ], + "area": 436194.11094499996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 374, + "strid": "1f6cdf38-9ba6-460d-b58f-e7fc590ad8f4", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 149.269, + 2883.573, + 655.224, + 39.87300000000005 + ], + "priority": 20, + "parents": [ + 387 + ], + "children": [], + "area": 430428.058137, + "iscrowd": 0, + "segmentation": [], + "text": "Table 14. Selected juvenile and adult meristics for Gila c:pha. (P= principal rays: R:\nlateral series or line When complete Font added 10 vertebalconat for Weberitn complex. Pharyngea tet\njaiek iii, Caled, Sikencitox enelal ialaes suale nad lacie a htadenntiine mcicvalane Sxucizelbaaes)" + }, + { + "id": 388, + "strid": "99fe78d1-f501-4d4b-9f2a-4e57d691bc91", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 149.547, + 3083.641, + 654.603, + 140.48100000000022 + ], + "priority": 21, + "parents": [ + 407 + ], + "children": [ + 375 + ], + "area": 461149.260627, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 375, + "strid": "31dcf11a-66df-4d89-8a4b-a5c6a8b98167", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 149.651, + 3056.311, + 654.9279999999999, + 26.570999999999913 + ], + "priority": 22, + "parents": [ + 388 + ], + "children": [], + "area": 457379.99746100005, + "iscrowd": 0, + "segmentation": [], + "text": "Table 15. Size at apparent ouset of selected developmental events for Gila eypha. (As apparent under low power magnification, P = principal\nrays; R= rudimentary rays. Scales are lateral series. Rare values in parentheses. Includes re-examined daia as per foomote for Table 14.)" + }, + { + "id": 369, + "strid": "8fb80dee-c04f-4031-9a0a-0b608e7ef14b", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 149.135, + 3225.895, + 654.483, + 76.37199999999984 + ], + "priority": 23, + "parents": [ + 407 + ], + "children": [], + "area": 481093.850825, + "iscrowd": 0, + "segmentation": [], + "text": "References. Balon 1975; Behnke and Benson 1983: Beimke ct al. 1982; Bulkicy ct al. 1982: Carison and Muth 1989: Gaufin ct al. 1960;\nHanuman 1982b; Holden 1968: Holden and Stalnaker 197%, 1975; Johnson 1987. Joseph et a. 1977: Kaceling and Zimmerman 1983; Lce ct al\n1980, Marsh 1985, Miller 1946, Miler aud Lowe 1964, Minckley 1973, Minckley and Marsh 2009, Moore 1968, Muth 1990; Page and Burt\n1991, Sigler and Millet 1963, Snuth tal, 1979, Snyder 1581, Stanford and Ward 1986; Stone and Gorman 2006, Suitkus and Clenuner 1977,\n\nTrys and Karp 1989: Tyus etal. 1983, 1987; LISEWS 1990, 2002c: Valdez T987, 1988; Valdez and Cemmer 1982\nOther larval descriptions: Muth 1990: Snyder 1981," + }, + { + "id": 389, + "strid": "7fbf8669-0851-45eb-a572-ee4707a8a4a9", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 929.368, + 2426.86, + 654.3960000000001, + 92.79899999999998 + ], + "priority": 24, + "parents": [ + 407 + ], + "children": [ + 376 + ], + "area": 2255446.02448, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 376, + "strid": "ef644dab-04a3-47b9-9a96-02fc71af3f6a", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 929.307, + 2399.251, + 655.4190000000001, + 27.8449999999998 + ], + "priority": 25, + "parents": [ + 389 + ], + "children": [], + "area": 2229640.749057, + "iscrowd": 0, + "segmentation": [], + "text": "Table 16. Size at developmental interval (left) and gut phasc (right) transitions for Gila cypha. (Sec Figure 5 for phases of gut folding. Rare\nvalues in parentheses. Includes re-examined data originally prepared for Snyder 1981 or Muth 1990, and supplements and updates those accounts.)" + }, + { + "id": 390, + "strid": "1e6daa68-f8fe-4589-a576-3fd054f53836", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 928.139, + 2594.045, + 655.8570000000001, + 709.9279999999999 + ], + "priority": 26, + "parents": [ + 407 + ], + "children": [ + 377 + ], + "area": 2407634.3322550002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 377, + "strid": "53ac1b74-0c62-421a-aa86-e48fb0843c09", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 928.363, + 2542.053, + 656.9860000000001, + 41.722999999999956 + ], + "priority": 27, + "parents": [ + 390 + ], + "children": [], + "area": 2359947.949239, + "iscrowd": 0, + "segmentation": [], + "text": "Table 17. Summary of morphometrics and myomere counts by developmental phase for Gila cypia. (See Figure 4 for abbreviations and methods\nof measurement and counting. Protolarvae with unpigmented eyes excluded. Standard deviation (SD) of 0 represents a valte “0.5, Includes e-\nexamined data originally prepared for Suyder 1981 or Muth 1990\", and supplements and updates those accounts.)" + }, + { + "id": 401, + "strid": "44897a4f-7bb9-4fbd-ba75-0f4c0913a9fa", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1733.757, + 2396.379, + 605.2599999999998, + 410.9989999999998 + ], + "priority": 28, + "parents": [ + 407 + ], + "children": [ + 378 + ], + "area": 4154738.865903, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 378, + "strid": "577b1dde-0ca4-4f6c-bd48-45a0dffa2a6f", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1734.543, + 2824.841, + 603.1679999999999, + 30.213000000000193 + ], + "priority": 29, + "parents": [ + 401 + ], + "children": [], + "area": 4899808.182662999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 38. Gila cypha protolarva with yolk, recently hatched, 6.3 mm SL, 6.6 mm TL. (Cultured in 1960 by Willow Beach\nNational Fish Hatchery, Arizona, with stock from the Celorado River, Célorade. From Snyder 1981 and Muth 1980.)" + }, + { + "id": 400, + "strid": "caa05a1d-54ce-4787-932e-074188806f41", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1732.179, + 2877.185, + 606.8130000000001, + 381.67300000000023 + ], + "priority": 30, + "parents": [ + 407 + ], + "children": [ + 379 + ], + "area": 4983799.436115, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 379, + "strid": "c9957108-f122-4536-b89c-71b384f7ccd5", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1734.859, + 3273.975, + 603.3830000000003, + 27.898999999999887 + ], + "priority": 31, + "parents": [ + 400 + ], + "children": [], + "area": 5679884.9945249995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 39. Gila cypha protolarva vith yolk, 8.3 mm SL, 8.7 mm TL. (Cultured in 1980 by Willow Beach National Fish\nHatchery, AZ, with stock from Colorado River, Black Rocks area, CO, near UT border. From Snyder 1981 and Muth 1990.)" + }, + { + "id": 394, + "strid": "da54e449-a173-4610-b276-353d3586949b", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 173.995, + 3423.591, + 606.747, + 407.058 + ], + "priority": 32, + "parents": [ + 407 + ], + "children": [ + 380 + ], + "area": 595687.716045, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 380, + "strid": "62a7ae6b-6269-42d8-8508-ea695de59349", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 176.027, + 3843.059, + 603.6699999999998, + 28.019999999999982 + ], + "priority": 33, + "parents": [ + 394 + ], + "children": [], + "area": 676482.146593, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 40. Gila cypha flexion mesolarva with yolk, recently transformed, 8.6 mm SL, 9.3 mm TL. (Cultured in 1980 by\nWillow Bleach National Fish Hatchery, AZ: stock from Colo. R., Black Rocks area, CO. From Snyder 1981 and Muth 1990.)" + }, + { + "id": 395, + "strid": "ac4d5221-bc59-4e2a-998e-9720384ccf3c", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 171.23, + 3905.226, + 609.649, + 381.3390000000004 + ], + "priority": 34, + "parents": [ + 407 + ], + "children": [ + 381 + ], + "area": 668691.84798, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 381, + "strid": "e07b76d2-1109-4647-a47f-35a38fe6d6be", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 174.145, + 4304.621, + 605.634, + 28.127000000000407 + ], + "priority": 35, + "parents": [ + 395 + ], + "children": [], + "area": 749628.224045, + "iscrowd": 0, + "segmentation": [], + "text": "PERERA). Cher ype posta comets, 6)4 tare fl, 71-7 ie Th. (Conant eae oy Wow Bendy Metical Fits\nHatchery, AZ, with stock from Colorado River, Black Rocks area, CO, near UT border. From Snyder 1981 and Muth 1990.)" + }, + { + "id": 397, + "strid": "9051d317-e208-4b95-b1c1-39f373e2563c", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 952.035, + 3426.954, + 608.1170000000001, + 380.87300000000005 + ], + "priority": 36, + "parents": [ + 407 + ], + "children": [ + 383 + ], + "area": 3262580.1513900002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 383, + "strid": "f0297d3b-afd4-43b9-93fd-4257b8c31cd9", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 954.14, + 3817.458, + 604.862, + 41.240999999999985 + ], + "priority": 37, + "parents": [ + 397 + ], + "children": [], + "area": 3642389.37612, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 42. Gila cypha pastfiexion mesolarva near transition to metalarva (lacks second elements of last dorsal and anal\nfin rays), 12:2.mm SL, 14.0mm TL. (Cultured in 1980 by Willow Beach National Fish Hatchery, Anzona, with stock from\nColorado River, Black Rocks area, Colorado, near Utah border. From Muth 1990, modified from Snyder 1981.)" + }, + { + "id": 396, + "strid": "adb240ee-c571-456b-b13d-288ffc19bc3b", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 954.107, + 3880.772, + 605.528, + 416.96399999999994 + ], + "priority": 38, + "parents": [ + 407 + ], + "children": [ + 382 + ], + "area": 3702671.730604, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 382, + "strid": "cad95461-e59f-4f68-906a-5a1e6f31d147", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 954.856, + 4304.345, + 603.2439999999999, + 27.81800000000021 + ], + "priority": 39, + "parents": [ + 396 + ], + "children": [], + "area": 4110029.6493200003, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 43. Gila cypha metalarva, 15.0 mm SL, 18.4 mm TL. (Cultured in 1980 by Willow Beach National Fish Hatchery,\nAZ. with stock from Colorado River, Black Rocks area, Colorado, near Utah border. From Snyder 1981 and Muth 1990 }" + }, + { + "id": 399, + "strid": "cd34fe62-107b-4df2-98cf-86a60c91a676", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1735.062, + 3426.534, + 606.6620000000003, + 375.2950000000001 + ], + "priority": 40, + "parents": [ + 407 + ], + "children": [ + 384 + ], + "area": 5945248.9351079995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 384, + "strid": "6981df4c-6689-42b3-8cf4-1366582dbd7a", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1734.573, + 3830.203, + 607.5199999999998, + 26.934000000000196 + ], + "priority": 41, + "parents": [ + 399 + ], + "children": [], + "area": 6643766.708319, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 44. Gila cypha juvenile, recently transformed, 20.1 mm SL, 25.0 mm TL. (Cultured in 1980 or 1981 by Willov\nBeach Neiional Fish Halchety, Arizona, with stock froma Colorado River, Black Rocks ere, Colorado. From Mulh 1900.)" + }, + { + "id": 398, + "strid": "fdf27883-9e81-4992-899d-28590ca0cef9", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1734.99, + 3868.039, + 606.1649999999997, + 431.88300000000027 + ], + "priority": 42, + "parents": [ + 407 + ], + "children": [ + 385 + ], + "area": 6711008.984610001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 385, + "strid": "a232e96f-cc90-4de9-b66e-d95d5dcb3060", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1735.269, + 4304.452, + 606.327, + 29.98999999999978 + ], + "priority": 43, + "parents": [ + 398 + ], + "children": [], + "area": 7469382.117588, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 45. Gila cypha juvenile, 33.6 mm SL, 44.2 mm TL. (Cultured in 1980 by Willow Beach National Fish Hatchery.\nAZ, with stock from Colorado River, Black Rocks area, Colorado, near Utah border. From Snyder 1981 and Muth 1990.)" + }, + { + "id": 362, + "strid": "4416873c-767c-4d83-bb11-2fac633c844a", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2584.937, + 2384.189, + 840.598, + 284.105 + ], + "priority": 44, + "parents": [ + 407 + ], + "children": [], + "area": 6162978.361093, + "iscrowd": 0, + "segmentation": [], + "text": "Computer-Interactive Key to\nEggs, Larvae, and Early Juveniles\nof Cyprinid Fishes in the\nUpper Colorado River Basin" + }, + { + "id": 367, + "strid": "666dbe56-b6c8-418a-a326-ca261afade1b", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2601.407, + 2737.352, + 397.2710000000002, + 279.86400000000003 + ], + "priority": 45, + "parents": [ + 407 + ], + "children": [], + "area": 7120966.654264, + "iscrowd": 0, + "segmentation": [], + "text": "Darrel E. Snyder\nand Sean C. Seal\nLarval Fish Laboratory\nColorado State University\nFort Collins, Colorado 80523\n(August 2015 onwards)" + }, + { + "id": 402, + "strid": "5792a290-9596-4e4f-9750-06684cbe7caf", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3063.033, + 2725.597, + 345.49900000000025, + 278.8670000000002 + ], + "priority": 46, + "parents": [ + 407 + ], + "children": [], + "area": 8348593.555701001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 406, + "strid": "97d89279-66c3-4631-9f89-122282410542", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2742.858, + 3082.112, + 512.625, + 29.81399999999985 + ], + "priority": 47, + "parents": [ + 407 + ], + "children": [], + "area": 8453795.556096, + "iscrowd": 0, + "segmentation": [], + "text": "Example of Intkey Screen During Identification" + }, + { + "id": 403, + "strid": "301fe3ed-aed2-4162-8b89-ef8b88815667", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2499.1, + 3120.182, + 1007.3980000000001, + 710.444 + ], + "priority": 48, + "parents": [ + 407 + ], + "children": [], + "area": 7797646.836199999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 404, + "strid": "e2e9734f-f411-44b6-ace3-bf761a58dde3", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2497.389, + 3848.283, + 596.326, + 855.0710000000004 + ], + "priority": 49, + "parents": [ + 407 + ], + "children": [], + "area": 9610659.633087, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 366, + "strid": "c1a479d8-3503-4b7d-8880-c5d2385728b8", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3123.569, + 3939.262, + 360.5920000000001, + 85.11799999999994 + ], + "priority": 50, + "parents": [ + 407 + ], + "children": [], + "area": 12304556.666078001, + "iscrowd": 0, + "segmentation": [], + "text": "Example of an Attribute-selection\nWindow for an Illustrated\nMultistate Character" + }, + { + "id": 357, + "strid": "dc4a1875-bf9a-454c-84ca-b7bd43936648", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 509.582, + 4479.71, + 285.975, + 23.511000000000422 + ], + "priority": 51, + "parents": [ + 407 + ], + "children": [ + 363 + ], + "area": 2282779.58122, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgment of Sponsors" + }, + { + "id": 363, + "strid": "228480ae-ed32-4b18-a927-8adc968a7d4c", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 144.078, + 4519.868, + 1020.9080000000001, + 140.79799999999977 + ], + "priority": 52, + "parents": [ + 357 + ], + "children": [], + "area": 651213.5417040001, + "iscrowd": 0, + "segmentation": [], + "text": "This project was funded primarily by the Upper Colorado.\nRiver Endangered Fish Recovery Program through the U.S.\nBureau of Reclamation (Upper Colorado Regional Office, Salt\nLake City, Utah). It was co-sponsored by the Glen Canyon\nNational Recreation Area through the National Park Service\nColorado Plateau Cooperative Ecosystem Studies Unit. Work\n\non four shared species accounts and completion of associated\nportions of the guide and key were also partially funded as part\nof a similar project for cypriniform larvae of the Middle Rio\nGrande by the Middle Rio Grande Endangered Species Act\nCollaborative Program, also through the U.S. Bureau of\nReclamation." + }, + { + "id": 358, + "strid": "c6fba0d8-4fab-4e32-8bb6-103ddc6ab7f8", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1516.678, + 4477.474, + 160.43900000000008, + 21.284999999999854 + ], + "priority": 53, + "parents": [ + 407 + ], + "children": [ + 365, + 364 + ], + "area": 6790886.311372001, + "iscrowd": 0, + "segmentation": [], + "text": "Literature Cited" + }, + { + "id": 364, + "strid": "6238e9fa-1378-423a-ab6a-ae37be814767", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1345.389, + 4509.789, + 502.34799999999996, + 160.36499999999978 + ], + "priority": 54, + "parents": [ + 358 + ], + "children": [], + "area": 6067420.512920999, + "iscrowd": 0, + "segmentation": [], + "text": "Dallwitz, M. J, T. A. Paine, and E. J. Zurcher. 1995 (onwards). User's guide to Tntkey: a program for\ninteractive identification and information retrieval, [st edition, Commonwealth Scientific and Industrial\nReseareh Org. Dep. Fntomol. Available: itp /delt-inkey.comy, under \"Programs and documentation”.\n\n‘Muth, R-T. 1990. Onfogeny and taxonomy of humpback chub, Boustal, and roundtail chub larvae and eatly\njuveniles. Doctoral dissertation, Colorado State University, Fort Collins.\n\nSyder, D.E. 1981. Coutibutions to @ guide to the eypriniform fish larvae of the Upper Colorado River\n‘stem in Colorado. US. Bur Land Management Biol Se. Series 3, Deaver, CO.\n\nSnyder D-E..and RT. Muth. 1990, Description and identification of razorback, flannelmouth, white, Uta,\nbielead, and mountain sucker larvae and eatty juveniles. Colorado Division of Wildlife Tech. Publ. 38.\n\nSayder, D.E.,and R. T. Muth. 2004. Catostomid fish larvae and easly juveniles ofthe Upper Colorado River\n\n‘Basin —morphological descriptions, comparisons, and computer-interactive key. Colorado Division of\n‘Wildlife Technical Publication 42." + }, + { + "id": 365, + "strid": "5236d12f-ba40-4c06-9881-d1688876c984", + "image_id": 200511, + "image_name": "10043.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1865.283, + 4472.969, + 496.797, + 184.5060000000003 + ], + "priority": 55, + "parents": [ + 358 + ], + "children": [], + "area": 8343353.035227, + "iscrowd": 0, + "segmentation": [], + "text": "Snyder, D. E., and S.C. Seal. 2008 onwards. Computer-ineractive key to families of larval fishes in\nfeshwaters of the United States and Cannda (dataset for use with DELTA Jnkey) Laval Fish\nLaberatry, Colorado State Univesity, Fort Collins. Available: np wanes eolostateedui-\ndovwoadable-keys-guides-and-biblioraphy.\n\nSnyder, D Ean S.C. Sea. 2015 onwards. Computer-ineractive key o eggs larvae, and early juveniles of\n‘yprinid Hshes inthe Upper Colorado River Basin data st forse with DELTA Inkey) Laval ish\nLaberaiery, Colorado State University, Fort Collins. Available: hp /wamerencolstate edu I-\n>\nA\n\n@\nGorhiplexo Hospitalario Universitario@’Coruna (CHUAC), Dept of Angeéthesiology (A Coruna, Spain) anj@ Somplexo Hospitalario\nArquitecto Marcide-Profesor Ni santos, Dept of Anaesthesiolagy.& Pain Medicine (Ferrol, Spain) <" + }, + { + "id": 71098, + "strid": "252d0281-fa53-415c-a4e9-e6757ea1e243", + "image_id": 203271, + "image_name": "119973.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 15.365, + 250.55, + 822.225, + 485.859 + ], + "priority": 3, + "parents": [ + 71101 + ], + "children": [], + "area": 3849.7007500000004, + "iscrowd": 0, + "segmentation": [], + "text": "Background and Ggaloi Study: The analgesic properties of ketamine are related tots actions as a non-competitive. N-\nmethyl-D-aspartate receptors antagonist; these receptors present an excitatory function on pain transmission andthis\nbinding seems to prevent or reverse its central:sensitization. In literature, the use of this anesthetic for preemptive\nanalgesia in the management of postoperative pain is controversial; the objective of this study was to determine\nwhether preoperative low-dose-ketamine|reduces postoperative pain and:morphine consumption in adults undergoing\ncolon surgery.\n\nMaterials and methods: In a double-blind, randomized trial, 48 patients were studied. Patients in:the ketamine group\nfeceived 0.5 mg/kg ketamine iy’before surgical incision while normal saline was given in the control group. The\npostoperative analgesia was:performed with a continuous infusion of morphine at 0.015 mgrkg+h” with the possibility of\n0.02 mg/kg bolus every 10 min. Pain was assessed using the Visual Analog Scale (VAS);Verbal Rating Scale (VRS),\nmorphine consumption‘and hemodynamic parameters.at 0,1,2,4,8,12,16 and 24 hours postoperatively. We quantified\ntimes to rescue analgesic (Paracetamol), adverse éffects and patient satisfaction. We compared the categorical variables\nbetween both groups with the Chi-square test. The numerical variables were compared between groups, after checking\nthe assumption of normal distribution with the Kolmogorov-Smimov test, withthe Student's t-test or the Mann-Whitney U-\ntest accordingly. We compared the variables ‘in the different time points with the Friedman test for related. groups. The\nlevel of significance was set at P < 0.05. Data were analyzed using SPSS ‘statistical software (v.19.0)..\n\nResuilts and Discussion: There were no statistically significant differences in VAS and VRS scores between groups\n(P>0.05) nor differences in cumulative consumption of morphinecat any time point (P> 0.05). Théttime to first requested\nrescue analgesia was 70 + 15491 min in the ketamine groupand 44 + 19.494 min in the control group (P>0.05). There\nwere no differences in hemodynamic parameters and patient satisfaction (P>0.05). The majority of patients evaluated\ntheir pain control as excellent.\n\nConelusion(s): Preoperative low-dose-ketamine didn't have a preemptive analgesiéeffect nor was effective as an\nadjuvant to decrease opioid requirement or postoperative pain in patients receiving intravenous analgesia with morphine\nafter colon surgery." + }, + { + "id": 71099, + "strid": "6b24da91-d7ce-4f31-9913-06ee3f3cf2c5", + "image_id": 203271, + "image_name": "119973.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1.666, + 783.737, + 450.649, + 294.409 + ], + "priority": 4, + "parents": [ + 71101 + ], + "children": [], + "area": 1305.7058419999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 71100, + "strid": "ae734b82-2944-4cdb-91e9-ea0b9d97eeeb", + "image_id": 203271, + "image_name": "119973.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 454.413, + 748.224, + 393.47, + 329.20100000000014 + ], + "priority": 5, + "parents": [ + 71101 + ], + "children": [], + "area": 340002.71251200006, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192017, + "strid": "9c926283-81f7-4b63-9b10-cb39175ca682", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 8.14, + 20.32, + 91.52, + 183.04000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 192006, + 192008, + 192010, + 192007, + 192009, + 192016, + 192005 + ], + "area": 165.40480000000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192005, + "strid": "4085f902-273f-4774-815c-d8bf51284589", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 129.901, + 96.314, + 3057.576, + 230.102 + ], + "priority": 1, + "parents": [ + 192017 + ], + "children": [], + "area": 12511.284914, + "iscrowd": 0, + "segmentation": [], + "text": "Anesthesia with topical lidocaine hydrochloride gauzes in acute\ntraumatic wounds in triage, a prospective study’" + }, + { + "id": 192006, + "strid": "65b1dd47-5ffd-4cc3-a9d2-e7e3e1542dbb", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 203.971, + 357.41, + 2910.885, + 179.16000000000003 + ], + "priority": 2, + "parents": [ + 192017 + ], + "children": [], + "area": 72901.27511, + "iscrowd": 0, + "segmentation": [], + "text": "M.L. Ridderikhof, N. Leenders, W.M.T. Goddijn, N.W. Schep, P. Lirk, J.C. Goslings, M.W. Hollmann\n\nAcademic Medical Center, Amsterdam, The Netherlands" + }, + { + "id": 192007, + "strid": "8b5aaa2f-cccb-4114-9d21-f76941c3921b", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 199.382, + 630.648, + 391.417, + 72.04999999999995 + ], + "priority": 3, + "parents": [ + 192017 + ], + "children": [ + 192011 + ], + "area": 125739.859536, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 192011, + "strid": "0b002398-be2c-4eb7-8feb-66739ecf5421", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 196.427, + 712.353, + 2836.092, + 352.735 + ], + "priority": 4, + "parents": [ + 192007 + ], + "children": [], + "area": 139925.36273099997, + "iscrowd": 0, + "segmentation": [], + "text": "Topical application of lidocaine in wounds has been studied in combination with vasoconstrictive\nadditives, but the effect without these additives is unknown.\n\nThe objective of the current pilot study was to examine use of lidocaine-soaked gauzes without\nvasoconstrictive agents, in traumatic wounds in adult patients, applied in triage." + }, + { + "id": 192008, + "strid": "35c4d616-0f23-45ac-b74b-455a2bd98461", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 196.17, + 1150.263, + 281.21500000000003, + 61.36400000000003 + ], + "priority": 5, + "parents": [ + 192017 + ], + "children": [ + 192012, + 192015 + ], + "area": 225647.09270999997, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 192012, + "strid": "985f9ca4-ddee-4652-9600-6287788525e2", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 194.897, + 1229.871, + 2821.382, + 474.72900000000004 + ], + "priority": 6, + "parents": [ + 192008 + ], + "children": [], + "area": 239698.168287, + "iscrowd": 0, + "segmentation": [], + "text": "A prospective study was performed during six weeks in the Emergency Department of a Level 1\ntrauma center. Wounds of consecutive adult patients were treated with a nursing protocol,\nconsisting of lidocaine hydrochloride administration directly into the wound and leaving a\nlidocaine-soaked gauze, until wound treatment. Primary outcome was need for infiltrative\nanesthesia. Secondary outcomes were Numerical Rating Scale (NRS) pain scores, adverse\nevents and patient and physician satisfaction." + }, + { + "id": 192015, + "strid": "63228791-a8d1-4ab9-beb4-24bbe8a6a07f", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 499.511, + 1798.194, + 2243.753, + 1148.3870000000002 + ], + "priority": 7, + "parents": [ + 192008 + ], + "children": [], + "area": 898217.683134, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192009, + "strid": "602c97c0-5d9f-4652-a15b-0e1e473ef117", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 197.795, + 3031.768, + 246.032, + 59.63500000000022 + ], + "priority": 8, + "parents": [ + 192017 + ], + "children": [ + 192013 + ], + "area": 599668.5515599999, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 192013, + "strid": "0a9ea111-6c1a-496e-b214-3400b627598e", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 193.332, + 3111.307, + 2846.754, + 623.0239999999999 + ], + "priority": 9, + "parents": [ + 192009 + ], + "children": [], + "area": 601515.204924, + "iscrowd": 0, + "segmentation": [], + "text": "Forty patients with a traumatic wound were included in the study, 85% male with a wound on the\narm. Thirty-seven patients needed a painful procedure as part of wound management. In case\nsuturing was required, 77% needed additional infiltration anesthesia. Mean NRS pain scores\ndecreased from 3.3 to 2.2 after application of the lidocaine gauze in triage. Wounds requiring\nadditional infiltration anesthesia were larger; mean wound length 3.4 versus 2.0 cm. Mean\ndifference in wound size was 1.36 cm (95%-Cl 0.48-2.24; p=0.003). Of all patients, 60% were\nsatisfied with use of the lidocaine gauze, compared to 40% of treating physicians. No adverse\nevents were recorded." + }, + { + "id": 192010, + "strid": "529dd1e1-8da4-4376-97c9-b90aaa0fd3d3", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 197.647, + 3827.914, + 370.00899999999996, + 67.98100000000022 + ], + "priority": 10, + "parents": [ + 192017 + ], + "children": [ + 192014 + ], + "area": 756575.718358, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 192014, + "strid": "daa1138e-c0d2-419a-8a0b-882a848d8d61", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 197.138, + 3909.395, + 2692.481, + 156.38599999999997 + ], + "priority": 11, + "parents": [ + 192010 + ], + "children": [], + "area": 770690.31151, + "iscrowd": 0, + "segmentation": [], + "text": "Lidocaine hydrochloride (2%) gauzes without any vasoconstrictive additives cannot replace\ninfiltration anesthesia in traumatic wounds in adult patients in the Emergency Department." + }, + { + "id": 192016, + "strid": "9420bc38-e892-480b-a74c-6fda79406432", + "image_id": 207997, + "image_name": "9211.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 123.95, + 4209.028, + 3039.01, + 131.53399999999965 + ], + "priority": 12, + "parents": [ + 192017 + ], + "children": [], + "area": 521709.02060000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111254, + "strid": "61f45ac7-cb46-4799-b365-1801f8f9263d", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 31.38, + 28.52, + 57.42, + 83.16000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 111225, + 111229, + 111231, + 111232, + 111228, + 111230, + 111227, + 111226 + ], + "area": 894.9576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111225, + "strid": "80e52c1a-99d1-4400-8ce8-501898cec184", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 94.645, + 59.311, + 651.239, + 52.035000000000004 + ], + "priority": 1, + "parents": [ + 111254 + ], + "children": [], + "area": 5613.489595, + "iscrowd": 0, + "segmentation": [], + "text": "Construction of standard brain map of honeybee brain\nregion related to vibration stimulus processing" + }, + { + "id": 111226, + "strid": "55006150-ffeb-4734-8ef8-ef1614e13db2", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 50.374, + 128.603, + 490.466, + 88.34100000000001 + ], + "priority": 2, + "parents": [ + 111254 + ], + "children": [], + "area": 6478.247522000001, + "iscrowd": 0, + "segmentation": [], + "text": "Hidetoshi Ikeno', Yuka Uenohara’, Kazuaki Goto’, Satoshi Tanaka®,\nAjayrama Kumaraswamy?, Thomas Wachtler?, Kazuki Kai?, Hiroyuki Ai?’\n1. School of Human Science and Environment, University of Hyogo :\n2. Department of Earth System Science, Fukuoka University\n\n3. Department Biologie Il, Ludwig-Maximilians-Universitat Munchen" + }, + { + "id": 111232, + "strid": "ccdd13f3-c612-4597-b700-1518cc364b24", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.26, + 232.814, + 227.61600000000004, + 13.765999999999991 + ], + "priority": 3, + "parents": [ + 111254 + ], + "children": [ + 111253, + 111233 + ], + "area": 11235.60364, + "iscrowd": 0, + "segmentation": [], + "text": "Honeybee waggle dance communication" + }, + { + "id": 111233, + "strid": "25b4f721-a4f8-4121-be5f-02f82dca535c", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.077, + 249.468, + 387.389, + 93.64200000000002 + ], + "priority": 4, + "parents": [ + 111232 + ], + "children": [], + "area": 12243.141035999999, + "iscrowd": 0, + "segmentation": [], + "text": "Honeybees are known to communicate feeding site information to their hive mates by a\nspecie behavior called the wagule dance. In this dance communication the distance\ninformation from nast to feeding site is rerosented bythe time to walk while wagging. The\ninside of th nest Is dark and itis assumed that the distance information is received by 8\nspecie vibration stimulus generated while wegging, but the processing from aeauiston of\nthe vbeaion to encoding in neural responses has not been clarified yet We have\nvestigated morphology and responses of 119 interneurons responding to vibration simul\nee tena" + }, + { + "id": 111253, + "strid": "a0f685b3-4f97-42fc-8e82-eeab452d2be9", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 448.236, + 252.685, + 336.472, + 153.32099999999997 + ], + "priority": 5, + "parents": [ + 111232 + ], + "children": [ + 111246 + ], + "area": 113262.51366, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111246, + "strid": "27595eaa-9d14-4a5e-a554-e6346afdf8f2", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 584.938, + 332.039, + 200.00900000000001, + 127.19999999999999 + ], + "priority": 6, + "parents": [ + 111253 + ], + "children": [], + "area": 194222.22858199998, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 A, A dance cycle is divided into @ waggle\nphase (WP) and reum phase (RP). Dung ie\nwrogpa pase te dancer wake sight elon the\nRun aus (ed doled tne) and wages, he\nadorn. 8 Thrace bration valor recoded\nduring the wage shoe interment weston ple\n(an sine) produced by wingbets or wth 3\nPr puse pod, PO: pase srt, I ner\neter The surstion ofthe wage hate ene\nmth stan ceaes Mose rom rene et\nSti ietiiped @: fom wn Féech, 2957)," + }, + { + "id": 111231, + "strid": "8049d0bb-3efa-4be5-b6d8-45ec70e71ba3", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.068, + 365.38, + 231.933, + 11.706999999999994 + ], + "priority": 7, + "parents": [ + 111254 + ], + "children": [ + 111234, + 111250, + 111251 + ], + "area": 18293.845839999998, + "iscrowd": 0, + "segmentation": [], + "text": "Transmit airborne stimulus into the brain" + }, + { + "id": 111234, + "strid": "38ca2557-909a-43dd-a758-5a31651e4f2d", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.931, + 381.855, + 349.362, + 34.617999999999995 + ], + "priority": 8, + "parents": [ + 111231 + ], + "children": [], + "area": 19066.402005, + "iscrowd": 0, + "segmentation": [], + "text": "Airborne stimulus is sensed by Johnstan’s organ in peduncle of antenna. The neurites\nfom sencary neurons are projected into the primary audtory center (PAC) around\nListe end meth" + }, + { + "id": 111251, + "strid": "a7f27c36-7d09-44db-95d7-daec7f394e91", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 44.167, + 427.716, + 144.258, + 64.356 + ], + "priority": 9, + "parents": [ + 111231 + ], + "children": [ + 111240 + ], + "area": 18890.932572, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111240, + "strid": "85d69b8c-a2c8-4805-8237-90d3d50fccf4", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 193.063, + 425.586, + 167.298, + 85.06700000000001 + ], + "priority": 10, + "parents": [ + 111251 + ], + "children": [], + "area": 82164.90991799999, + "iscrowd": 0, + "segmentation": [], + "text": "Mp. 2 Eee ee it\nand the primary auditory center (PAC\nwith JO afferent (8)\n\ndSEG. dorsal SubEsophageal Ganglion\nNe: Exteel" + }, + { + "id": 111250, + "strid": "77546dc4-cd78-4d91-b8a2-3c7367004acc", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 42.65, + 522.267, + 149.021, + 139.41999999999996 + ], + "priority": 11, + "parents": [ + 111231 + ], + "children": [ + 111241 + ], + "area": 22274.687550000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111241, + "strid": "c7cfa4ab-90fb-4788-bff5-f7a09bf8a600", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 193.579, + 519.417, + 151.315, + 63.67100000000005 + ], + "priority": 12, + "parents": [ + 111250 + ], + "children": [], + "area": 100548.22344300001, + "iscrowd": 0, + "segmentation": [], + "text": "Fo. Sh peat fom seneery\nneuron i Johnston's organ, A\nfiborzaton of sensory neuen i\nthe PAC. (Prop. ID: HB1S0S18-.\nH5130517-1) 8 Results of manu\nrachadttatiow ieetn tenes tobe" + }, + { + "id": 111229, + "strid": "a5bbc7a9-bb31-42bb-8b99-65e3acc37e23", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 49.359, + 669.606, + 207.631, + 13.585000000000036 + ], + "priority": 13, + "parents": [ + 111254 + ], + "children": [ + 111235, + 111249 + ], + "area": 33051.082554, + "iscrowd": 0, + "segmentation": [], + "text": "The output neurons arborized in PAC" + }, + { + "id": 111235, + "strid": "5e6e898a-5c81-448e-8993-239982877a5d", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 48.906, + 686.888, + 307.56, + 33.96500000000003 + ], + "priority": 14, + "parents": [ + 111229 + ], + "children": [], + "area": 33592.944528, + "iscrowd": 0, + "segmentation": [], + "text": "There are several different types of output neurons arborizing thelr\nneurites into PAC. We have Segmented thelr morphologies from the\nconfocal image data and constructed 2D structural models." + }, + { + "id": 111249, + "strid": "6f7e8e29-05f2-4c24-b0a8-7f8b24201def", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 65.452, + 726.38, + 188.913, + 155.17899999999997 + ], + "priority": 15, + "parents": [ + 111229 + ], + "children": [ + 111242 + ], + "area": 47543.02376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111242, + "strid": "6d534ffb-0529-4870-b826-6a448a213940", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 258.091, + 735.329, + 204.95100000000002, + 105.58100000000002 + ], + "priority": 16, + "parents": [ + 111249 + ], + "children": [], + "area": 189781.796939, + "iscrowd": 0, + "segmentation": [], + "text": "Pe SOs aes aeoapeed in the pAaseal\nidtory enter. Neurons nave. dendritic\nstborzatlons inthe primary sudtory center, DL and\n(a) SEG and axon trina in the LP and (or)\nPPL. A, DLint2 has a soma inthe ier! cal\nCusier othe DL and aborzes wth fe spines\nine DL and dSEG, whe the neon arteries wih\nboutons LP Thee ee acveral ype tara\nneuron arborze in tha DUB, Thar nepali\nwore elno segmarian Sirnorihingson of sofwone:" + }, + { + "id": 111228, + "strid": "e4e9b65a-6a45-48c0-9ed1-5d82812ae683", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.24, + 893.515, + 179.31, + 27.234000000000037 + ], + "priority": 17, + "parents": [ + 111254 + ], + "children": [ + 111236, + 111248 + ], + "area": 43103.1636, + "iscrowd": 0, + "segmentation": [], + "text": "i -iieaahaeadiaddamebes deeded\nconstruction of standard PAC" + }, + { + "id": 111236, + "strid": "e6bc3b4e-7b3b-4bbd-96e8-206dad28022f", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.885, + 928.098, + 307.195, + 33.210000000000036 + ], + "priority": 18, + "parents": [ + 111228 + ], + "children": [], + "area": 43513.874729999996, + "iscrowd": 0, + "segmentation": [], + "text": "Neurplies have been extracted from synapsin immunostaining confocal\nimage data. Detall structure including edges of bran, thick neural branche\naeeee ee at heue clon bean wxhvecee apd feenndun on the Landen" + }, + { + "id": 111248, + "strid": "ce043e42-f9f8-445a-b6d6-caf2e85d8f79", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 47.672, + 967.453, + 306.51599999999996, + 101.8119999999999 + ], + "priority": 19, + "parents": [ + 111228 + ], + "children": [ + 111243 + ], + "area": 46120.419416, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111243, + "strid": "b91f08ee-dfe8-4227-8b23-e68660879e12", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 45.688, + 1068.427, + 323.599, + 41.38599999999997 + ], + "priority": 20, + "parents": [ + 111248 + ], + "children": [], + "area": 48814.292775999995, + "iscrowd": 0, + "segmentation": [], + "text": "ae Benes See lene Poeeees Senter’ heels (ee) ae\ndeveloped by Getman honeybee rescatch grup. A, They we powdng nage\ndala and mages of agmanted europe va the Intrnet. 8, Now segmentation\nreali were abtained te focusing PAC region. C Enierged PAC region." + }, + { + "id": 111230, + "strid": "f593a4f6-ee0b-42ea-abd0-a8ac4e1d9ef5", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 363.217, + 477.079, + 252.514, + 14.48399999999998 + ], + "priority": 21, + "parents": [ + 111254 + ], + "children": [ + 111239, + 111238, + 111252 + ], + "area": 173283.203143, + "iscrowd": 0, + "segmentation": [], + "text": "Local circuit for vibration stimulus processing" + }, + { + "id": 111239, + "strid": "07e46ee7-d9d7-40d0-a361-d524897160eb", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 361.784, + 495.291, + 409.11, + 47.45700000000005 + ], + "priority": 22, + "parents": [ + 111230 + ], + "children": [], + "area": 179188.359144, + "iscrowd": 0, + "segmentation": [], + "text": "The PAG neurons, such as DL-int-i, constitute «local neural clrcult for processing sir vibration\nsimul, Input and output synaptie regions are dented based on morphological characteristic\n[lebby or smooth) Furthermore, the polarity (extatory or inhibitory) ofthe synapse can be\npredicted from the result of immunostaining." + }, + { + "id": 111252, + "strid": "8fc4bdde-2bcd-45d4-ae5d-feb7fb5330cc", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 352.632, + 549.033, + 261.75000000000006, + 132.79700000000003 + ], + "priority": 23, + "parents": [ + 111230 + ], + "children": [ + 111245 + ], + "area": 193606.60485600002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111245, + "strid": "ed73d69f-ebe6-49f1-9521-61dd18d198e1", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 623.358, + 553.7, + 157.20900000000006, + 114.62300000000005 + ], + "priority": 24, + "parents": [ + 111252 + ], + "children": [], + "area": 345153.3246, + "iscrowd": 0, + "segmentation": [], + "text": "Pie. & Pocel (ntestarong prbortzed\ninthe primary auditory center\n\nii severe! groups. A, Four deen\niypes of iemnewen were cbcorved.,\nThal morphologies were segmented by\nsemi-automatic segmentation scheme\nCombination of segmentation and\nWauslzaton sofware, such a2 Fi\nnauTube, vaaa0 and SIGEN. were\nee heen" + }, + { + "id": 111238, + "strid": "b5224447-3112-4916-8db0-37f0e8f68947", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 486.612, + 699.375, + 293.142, + 130.317 + ], + "priority": 25, + "parents": [ + 111230 + ], + "children": [], + "area": 340324.2675, + "iscrowd": 0, + "segmentation": [], + "text": "To elucidate the neural circuits, it is necessary to clarify synaptic\nconnections between them which requires determining the overap ol\ndendrites and axons. The standard coordinate system used for this\npurpose is the honeybee standard bain, and here we present\ndetaled brain map of the honeybee brain per involved inthe\nprocessing ofthe vibration stimulus. Because the existing standard\nbrn dees not heve enouth landnerks and structurl cheracteisties\nto have accurate relsrtion of primary auditory center neurons, we\ncensructed ¢ new standard brain map for this reson. The bein mep\nconsists of synapsin immunostaining. GABA immunostatsng brain en\nback ground fluorescence staining images." + }, + { + "id": 111227, + "strid": "79857cc9-757b-4362-9ab6-426de66b7414", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 391.533, + 857.298, + 137.06399999999996, + 14.284999999999968 + ], + "priority": 26, + "parents": [ + 111254 + ], + "children": [ + 111247, + 111237 + ], + "area": 335660.457834, + "iscrowd": 0, + "segmentation": [], + "text": "io 4s deel mate cel a" + }, + { + "id": 111237, + "strid": "118c4fe2-10cb-4a44-9911-10bd3f5ae30a", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 391.148, + 873.972, + 387.654, + 47.64599999999996 + ], + "priority": 27, + "parents": [ + 111227 + ], + "children": [], + "area": 341852.39985600003, + "iscrowd": 0, + "segmentation": [], + "text": "Brain and neurcpie boundaries, tracts worn weed for lsndmeris for registration to = Grain\nimage. Our new standard brain can be used to 200m into dorsal abe (DL), dovsal\nsubesophageal ganglion (@SEG) and posterior protocereral lobe (PPL) and to register\nsegmented neurons and neurites on It." + }, + { + "id": 111247, + "strid": "5e726bfd-7f34-48be-bd85-4b6c2fb123b6", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 428.536, + 927.043, + 295.52299999999997, + 126.9419999999999 + ], + "priority": 28, + "parents": [ + 111227 + ], + "children": [ + 111244 + ], + "area": 397271.299048, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111244, + "strid": "15a52b92-3fe5-4fcc-91aa-b2b04925a8bd", + "image_id": 204817, + "image_name": "13191.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 426.532, + 1054.53, + 350.987, + 43.0630000000001 + ], + "priority": 29, + "parents": [ + 111247 + ], + "children": [], + "area": 449790.78995999997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 6, Registration of segmented neuron morphologies. A, Segmentaed neurans and\npues wee fepstored a brain image. B,Arbotzaons and canectons between thse\nperons canbe ebsered and measure by fogatered ruts, Neurons woe located\nths lat herisohare hose been fined to the tant side," + }, + { + "id": 158655, + "strid": "8ae4ad08-a096-4319-a21b-3ebf0e060bb9", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 316.69, + 83.94, + 247.65000000000003, + 247.64999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 158630, + 158627, + 158631, + 158626, + 158628, + 158624, + 158632, + 158625, + 158629 + ], + "area": 26582.958599999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 158624, + "strid": "292df0a3-0fc8-4ba4-b204-9fdebd1410b6", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 805.566, + 53.442, + 1690.689, + 182.761 + ], + "priority": 1, + "parents": [ + 158655 + ], + "children": [], + "area": 43051.058172000005, + "iscrowd": 0, + "segmentation": [], + "text": "Building text-mining framework for\nbiological-event extraction using deep learning" + }, + { + "id": 158625, + "strid": "f9947706-471c-4c41-818b-9f5a87416d3f", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 816.344, + 302.585, + 1670.9560000000001, + 120.24899999999997 + ], + "priority": 2, + "parents": [ + 158655 + ], + "children": [], + "area": 247013.44924, + "iscrowd": 0, + "segmentation": [], + "text": "Jaehyun Lee’, Dongjin Jang'?, Kwangmin Kim, 1? and Doheon Lee?\n‘Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST)\n2 Bio-Synergy Research Center, KOREA" + }, + { + "id": 158626, + "strid": "a34ab9cb-a86d-46dd-b43f-99240c742c39", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 701.34, + 518.777, + 266.49300000000005, + 57.620000000000005 + ], + "priority": 3, + "parents": [ + 158655 + ], + "children": [ + 158633 + ], + "area": 363839.06118, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 158633, + "strid": "c8c2ee87-dd36-4d71-be22-caf823de2eb8", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.675, + 597.752, + 1543.641, + 856.6660000000002 + ], + "priority": 4, + "parents": [ + 158626 + ], + "children": [], + "area": 36268.6026, + "iscrowd": 0, + "segmentation": [], + "text": "The scientific literature is a rich resource for information retrieval on the biological knowledge.\nNevertheless, the unstructured textual data in the research articles makes it difficult to access the\ninformation with computer-aided systems. Text-mining is one of the solution that can transform\nunstructured information in the text into database content, and most of the approaches are based\non the machine learning models. Since these approaches require high-dimensional features, the\nperformance of the model is heavily dependent on the selection of features. However, it is usually\ndifficult and labor-intensive to choose good features, because feature extraction requires prior\nknowledge and ingenuity of human experts. Here, we suggest a novel framework to extract\nbiological relations from the texts by using hierarchical text features that enhance the\neffectiveness of relation extraction model.\n\nThe proposed framework is composed of two parts, node and edge detection, using deep belief\nnetworks. Each part is based on the hierarchical text features learned by Gaussian-Bernoulli\nrestricted Boltzmann machine (GBRBM). In this work, we performed gene-cancer relation\nextraction task as a pilot study. The classification model was trained based on both GE09 corpus\nfrom BioNLP’09 Shared Task and CoMAGC corpus. The results show that our model achieved\nbetter performance than other handcrafted feature-based approaches. The evaluation results\nsuggest that deep belief networks offers the optimized and generalized hierarchical text features\nfor the large-scale text mining." + }, + { + "id": 158627, + "strid": "16f7787c-0d1e-4ff6-ad25-09556e38de8e", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 640.187, + 1484.415, + 389.90999999999997, + 55.111000000000104 + ], + "priority": 5, + "parents": [ + 158655 + ], + "children": [ + 158651, + 158635, + 158637, + 158649, + 158636, + 158650 + ], + "area": 950303.185605, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 158635, + "strid": "60f53cba-dbb6-41ef-a0e5-61c6f86753c4", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 80.003, + 1563.537, + 1422.135, + 273.6890000000001 + ], + "priority": 6, + "parents": [ + 158627 + ], + "children": [], + "area": 125087.650611, + "iscrowd": 0, + "segmentation": [] + }, + { + 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Bio-Synergy Research Project (NRF-2012M3A9C4048758) of the Ministry of Science, ICT and Future Planning\nthrough the National Research Foundation." + }, + { + "id": 158631, + "strid": "f1cd5d99-ede7-4d19-8c19-dae4503021cd", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2301.262, + 3969.829, + 351.221, + 64.81800000000021 + ], + "priority": 30, + "parents": [ + 158655 + ], + "children": [ + 158640 + ], + "area": 9135616.624198, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 158640, + "strid": "67ab8b84-d893-4568-9b1c-fa23bc43fbc3", + "image_id": 206698, + "image_name": "6297.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1711.641, + 4068.244, + 1527.9320000000002, + 339.37999999999965 + ], + "priority": 31, + "parents": [ + 158631 + ], + "children": [], + "area": 6963373.228404, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197197, + "strid": "e50d528e-5319-4aa4-af36-f1733e668c56", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 942.12, + 45.25, + 314.40999999999997, + 242.7 + ], + "priority": -1, + "parents": [], + "children": [ + 197178, + 197177, + 197180, + 197181, + 197182, + 197179 + ], + "area": 42630.93, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197177, + "strid": "cd0759a9-401a-450a-95c8-2b4f37de09db", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1352.319, + 105.855, + 2877.315, + 259.768 + ], + "priority": 1, + "parents": [ + 197197 + ], + "children": [], + "area": 143149.727745, + "iscrowd": 0, + "segmentation": [], + "text": "Motion-from-Form Perception in Scotopic and Photopic\nVisual Condition" + }, + { + "id": 197178, + "strid": "9e365193-f219-41ed-b377-4901e7ab6cf7", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1772.427, + 453.955, + 2023.945, + 335.897 + ], + "priority": 2, + "parents": [ + 197197 + ], + "children": [], + "area": 804602.0987849999, + "iscrowd": 0, + "segmentation": [], + "text": "Benassi M', Pansell T?, Bolzani R', Hellgren K2*, Giovagnoli S!\n\n1Department of Psychology, University of Bologna, Italy\n2Department of Clinical Neuroscience, Karolinska Institutet, Stockholm, Sweden\n3Department of Women’s and Children’s Health, Karolinska Institutet, Stockholm, Sweden" + }, + { + "id": 197182, + "strid": "d464cc04-1dcf-4b0f-a312-7dc93896374e", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 170.808, + 948.296, + 2480.864, + 201.058 + ], + "priority": 3, + "parents": [ + 197197 + ], + "children": [], + "area": 161976.543168, + "iscrowd": 0, + "segmentation": [], + "text": "AIM. Human visual perception is worsened under dim light condition. The aim of this study is to investigate\nhow scotopic light level affects motion perception in Motion-From-Form task (MFF) as compared to Motion\nCoherence task (MC)." + }, + { + "id": 197179, + "strid": "b83aeb2b-aefb-457f-8ba2-2af022fc9496", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1199.058, + 1248.893, + 399.24299999999994, + 58.08400000000006 + ], + "priority": 4, + "parents": [ + 197197 + ], + "children": [ + 197190, + 197196, + 197185, + 197195, + 197183, + 197188, + 197184, + 197194, + 197189 + ], + "area": 1497495.142794, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 197183, + "strid": "56b5fbeb-8034-4b4b-8be2-cdf2cacbab05", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.848, + 1352.889, + 2281.311, + 207.4860000000001 + ], + "priority": 5, + "parents": [ + 197179 + ], + "children": [], + "area": 210845.044872, + "iscrowd": 0, + "segmentation": [], + "text": "Participants\n\nThirty healthy subjects participated in the experiment, 19 females (mean age=25.4; SD=3.8) and 11 males (mean age=23.1; SD=5.5)." + }, + { + "id": 197194, + "strid": "77ecbbfd-5aeb-48b3-91fa-09a32f22bea4", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 152.571, + 1696.238, + 230.124, + 61.23900000000003 + ], + "priority": 6, + "parents": [ + 197179 + ], + "children": [], + "area": 258796.727898, + "iscrowd": 0, + "segmentation": [], + "text": "Stimull" + }, + { + "id": 197195, + "strid": "dc45dde6-5c57-4b96-84c3-6fd872b0eb2a", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 246.219, + 1887.591, + 1146.053, + 479.05499999999984 + ], + "priority": 7, + "parents": [ + 197179 + ], + "children": [], + "area": 464760.768429, + "iscrowd": 0, + "segmentation": [], + "text": "Motion-From-Form Coherence (MFF) test\n\n169 empty high luminance static squares (0.12° visual angle at 60 cm; see\nFigure 1) on a black background constitute the frame in which the stimuli\nare presented.\n\nThe target stimuli consist of 9 circles which replace 9 of the static squares\nand move (velocity of 10,72°/sec) coherently according to a specific\n\ndirection (either cardinal or oblique)." + }, + { + "id": 197184, + "strid": "f7205b88-a477-4166-a60c-b43baca82ffb", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 140.088, + 2470.191, + 1266.717, + 609.6840000000002 + ], + "priority": 8, + "parents": [ + 197179 + ], + "children": [ + 197186 + ], + "area": 346044.11680799996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197186, + "strid": "08cac681-e156-432e-9039-4f5ebb6657be", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 151.868, + 3126.512, + 1228.48, + 109.46399999999994 + ], + "priority": 9, + "parents": [ + 197184 + ], + "children": [], + "area": 474817.12441600004, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Form-From-Motion conerence stimull.\nOn the left, the starting screen with squares in background and circle forms as target stimuli.\nOn the right, the circle forms moving to the next position." + }, + { + "id": 197196, + "strid": "f83874cc-976d-45fd-bb0d-b6ede2533018", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1570.25, + 1887.958, + 1056.7330000000002, + 477.3420000000001 + ], + "priority": 10, + "parents": [ + 197179 + ], + "children": [], + "area": 2964566.0495, + "iscrowd": 0, + "segmentation": [], + "text": "Motion Coherence (MC) test\n\nThe MC test is a modified version of Motion Coherence Test\n(Giovagnoli et al., 2014; Menghini et al., 2010).\n\nThe MC test consists of 9 high luminance empty circles (0.12° visual\nangle at 60 cm; see Fig. 2) moving coherently according to a specific\ndirection (either cardinal or oblique) on a black background\n\n(constant velocity of 10,72°/sec)." + }, + { + "id": 197185, + "strid": "b332bc5f-9784-40ec-bd67-1bf6afecfe14", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1537.226, + 2469.145, + 1269.221, + 611.942 + ], + "priority": 11, + "parents": [ + 197179 + ], + "children": [ + 197187 + ], + "area": 3795633.89177, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197187, + "strid": "c454babf-996d-4a0a-9a8b-8ef50ded0f6e", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1549.538, + 3126.019, + 1147.158, + 145.7130000000002 + ], + "priority": 12, + "parents": [ + 197185 + ], + "children": [], + "area": 4843885.229222, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Motion Coherence stimuli.\n\nOn the left, a screen showing both target circles and noise circles.\n\nOn the right, the same screen showing separately the target (red) and the noise (blue)\ncircles." + }, + { + "id": 197188, + "strid": "5c67d7e7-fed4-4ce9-8327-8d06cd0c3055", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 288.248, + 3408.952, + 2299.098, + 386.61900000000014 + ], + "priority": 13, + "parents": [ + 197179 + ], + "children": [], + "area": 982623.596096, + "iscrowd": 0, + "segmentation": [], + "text": "In MFF and MC tests, 5 levels of noise are presented: from a first level without noise, in the subsequent levels the noise is introduced by adding\nnoise stimuli (circles appearing in a random position, not coherent with targets direction) by a additive factor of 6 each level.\n\nThe percentage of coherence is inversely related to the level of difficulty of the task (O-level: 100% of coherence; level 1: 63.1%; level 2: 39.8%; level\n3: 25.1%; level 4: 15.8%).\n\nThe subjects have to recognize and verbally report the perceived motion direction. The percentage of correct detection in each difficulty level has\n\nbeen used as a measure of motion-from-form perception and motion perception accuracy." + }, + { + "id": 197189, + "strid": "cae55e3a-39eb-4d61-a3e3-7275960ad628", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3114.364, + 963.66, + 2287.256, + 471.11299999999994 + ], + "priority": 14, + "parents": [ + 197179 + ], + "children": [], + "area": 3001188.01224, + "iscrowd": 0, + "segmentation": [], + "text": "Light Conditions\n\n \n \n\nand the background luminance were kept constant for the entire experiment; the luminance of the target stimuli in\n\night and low-light visual condition was set to an appropriate value. A Hanger Universal Photometer S4 was used to measure the dot\nluminance on a large dot (3°) displayed on the screen. In high-light visual condition the dot luminance was 42 cd/m2, while in low-light visual\n\ncondition the dot luminance was equal to 0.01 cd/m2. Based on the luminance of the stimuli it is reasonable to consider that our ‘high-light’ level\n\nis a photopic visual condition and the ‘low-light’ level is a scotopic visual condition." + }, + { + "id": 197190, + "strid": "b03493d9-f498-40bd-a4c2-2cc66c4801b7", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3297.046, + 1559.44, + 1668.1889999999999, + 440.8040000000001 + ], + "priority": 15, + "parents": [ + 197179 + ], + "children": [], + "area": 5141545.41424, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197180, + "strid": "c9a1209c-af92-4d12-a14d-235090ddee08", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4089.064, + 2124.612, + 336.2199999999998, + 56.19999999999982 + ], + "priority": 16, + "parents": [ + 197197 + ], + "children": [ + 197191, + 197192 + ], + "area": 8687674.443168, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 197192, + "strid": "37453951-4f68-4455-9795-5c8fae0cb929", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3031.671, + 2308.322, + 2430.8709999999996, + 104.29399999999987 + ], + "priority": 17, + "parents": [ + 197180 + ], + "children": [], + "area": 6998072.866062, + "iscrowd": 0, + "segmentation": [], + "text": "ANOVA for repeated measures shows a significant effect of light condition (p<.001), significant differences between the types of stimuli (lower scores in MFF\n\nas compared to MC) (p<.001) and a significant interaction stimuli type by light condition evidencing disrupted MFF performances in scotopic level (p<.001)." + }, + { + "id": 197191, + "strid": "34d49a5f-1055-4e8a-8c0e-979cba295f23", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3422.896, + 2564.041, + 1537.3699999999994, + 699.7200000000003 + ], + "priority": 18, + "parents": [ + 197180 + ], + "children": [], + "area": 8776445.682736002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197181, + "strid": "29da5933-e38b-4964-85ee-15382d75dc21", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3931.941, + 3390.167, + 535.1689999999999, + 55.27500000000009 + ], + "priority": 19, + "parents": [ + 197197 + ], + "children": [ + 197193 + ], + "area": 13329936.624147, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 197193, + "strid": "32c82e59-feb5-4e36-aff1-28ccab6616eb", + "image_id": 208224, + "image_name": "9721.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3227.094, + 3566.217, + 1916.1949999999997, + 151.8209999999999 + ], + "priority": 20, + "parents": [ + 197181 + ], + "children": [], + "area": 11508517.483398, + "iscrowd": 0, + "segmentation": [], + "text": "In conclusion, our results confirm previous studies demonstrating that for higher order motion stimuli, such as MFF, motion\nperception is degraded in scotopic light level.\n\nThe differences between MFF and MC suggest that scotopic disadvantage increases when motion is extracted from shapes." + }, + { + "id": 94693, + "strid": "c364330a-35b9-42ea-9f39-5ea60f4f13c4", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 164.66, + 433.96, + 194.04, + 124.19 + ], + "priority": -1, + "parents": [], + "children": [ + 94690, + 94692, + 94687, + 94683, + 94677, + 94668, + 94689, + 94688, + 94670, + 94676, + 94679, + 94684, + 94691, + 94673, + 94685, + 94669, + 94667, + 94681, + 94675, + 94666, + 94665, + 94680, + 94686 + ], + "area": 71455.8536, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94665, + "strid": "424dfc67-6a8b-4480-9708-0ba8f22ff624", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 167.175, + 105.896, + 4466.391, + 261.16 + ], + "priority": 1, + "parents": [ + 94693 + ], + "children": [], + "area": 17703.163800000002, + "iscrowd": 0, + "segmentation": [], + "text": "Whale mAPP:\n\nMobile & Web Application to Encourage Citizen Science Contributions of Marine Mammal Sightings" + }, + { + "id": 94666, + "strid": "27eccd56-89a2-4bcb-bcf1-58fc9b840697", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1578.234, + 386.853, + 1668.134, + 141.73700000000002 + ], + "priority": 2, + "parents": [ + 94693 + ], + "children": [], + "area": 610544.557602, + "iscrowd": 0, + "segmentation": [], + "text": "Lei Lani Stelle, Melodi King\n\nDepartment of Biology, University of Redlands, 1200 E. Colton Ave, Redlands, CA. 92373 USA" + }, + { + "id": 94667, + "strid": "d6093c86-438e-49a2-a283-30ea743646fa", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 786.182, + 612.324, + 245.26700000000005, + 41.75699999999995 + ], + "priority": 3, + "parents": [ + 94693 + ], + "children": [ + 94671 + ], + "area": 481398.10696799995, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94671, + "strid": "10ed4496-bba5-4d64-a5bc-61198105e3ea", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 112.63, + 665.029, + 1594.645, + 830.3710000000001 + ], + "priority": 4, + "parents": [ + 94667 + ], + "children": [], + "area": 74902.21626999999, + "iscrowd": 0, + "segmentation": [], + "text": "Traditional methods of gathering the data needed to map marine mammal distributions and assess\nhuman impacts on their populations require extensive time and resources. To reduce the burden\nassociated with collecting and managing marine mammal observations, a geographic information\nsystem (GIS) solution was developed using a volunteered geographic information (VGI) approach.\nWhale mAPP is a system of mobile and web applications that provide easy access for the public to\nsubmit marine mammal observations and visualize the results on maps. A mobile application utilizes\nGPS enabled smart phones to record sightings, automatically track boat path to provide data on\neffort, and collect photographs which are then transmitted to an online geodatabase that is\naccessible to researchers and the public. The web application provides users with the ability to\nquery the observations by region, date, and time, visualize sightings directly, and download data in\nshapefile format. Educational materials on the website include basic biological information on each\nmarine mammal species along with images and illustrations of identification features. To help\nencourage conservation efforts, threats to marine mammals are discussed and research efforts\nhighlighted with brief stories, interviews, and videos. Curricular materials with conservation themes\nare designed for middle school students and utilize ESRI ArcGIS Online software to provide\nexperience with applying the scientific method and helping to improve spatial literacy. The\nadditional data collected by this tool will help supplement the knowledge of marine mammals to aid\nin research and management efforts. y" + }, + { + "id": 94668, + "strid": "b10460bf-1f2b-4712-a025-5594eac1852c", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 707.12, + 1589.848, + 305.461, + 43.08999999999992 + ], + "priority": 5, + "parents": [ + 94693 + ], + "children": [ + 94672, + 94682 + ], + "area": 1124213.31776, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94672, + "strid": "179aa6bd-f7ec-4505-a37d-f61a4e32345a", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.494, + 1651.47, + 1580.802, + 142.577 + ], + "priority": 6, + "parents": [ + 94668 + ], + "children": [], + "area": 134584.89618, + "iscrowd": 0, + "segmentation": [], + "text": "Lack of baseline data on marine mammal species, many of\nwhich are endangered or threatened" + }, + { + "id": 94682, + "strid": "31c85f43-dec8-4468-85f5-677cefb98b5f", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 53.942, + 1815.935, + 1692.134, + 481.1210000000001 + ], + "priority": 7, + "parents": [ + 94668 + ], + "children": [], + "area": 97955.16576999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94669, + "strid": "7e10aff2-8aed-469c-be4c-407614b63371", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 830.704, + 2367.077, + 159.04700000000003, + 43.48700000000008 + ], + "priority": 8, + "parents": [ + 94693 + ], + "children": [ + 94674 + ], + "area": 1966340.3322080001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94674, + "strid": "9f244d07-6a44-42b4-8b3d-984cdad8aafd", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 115.92, + 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areas in:" + }, + { + "id": 94689, + "strid": "05c779f9-30f9-414f-a941-34d24a6c2a20", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 868.517, + 3238.79, + 452.08400000000006, + 296.61400000000003 + ], + "priority": 12, + "parents": [ + 94693 + ], + "children": [], + "area": 2812944.17443, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94685, + "strid": "7e60d8e2-c9b9-45eb-b65b-1783c050637f", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1857.426, + 632.353, + 1100.274, + 777.3629999999999 + ], + "priority": 13, + "parents": [ + 94693 + ], + "children": [], + "area": 1174548.9033779998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94675, + "strid": "7469183d-5da0-40fd-b76c-9b14274f448e", + "image_id": 204163, + "image_name": "121556.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1989.774, + 1473.529, + 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(yliu2011@interchange.ubc.ca), Sebastien BAROT?, Yousry EL-KASSABY’, Nicolas LOEUILLE? taat so\n\n1Department of Forest & Conservation Sciences, University of British Columbia, Vancouver, BC, Canada ? Sorbonne Universités, Institute of Ecology and Environmental Sciences (UMR 7618, UPMC, CNRS, INRA, IRD), Paris, France" + }, + { + "id": 10007, + "strid": "d3af2c94-da70-4f09-8b8e-57c970b2fd43", + "image_id": 200903, + "image_name": "11282.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 650.757, + 678.14, + 353.342, + 57.68100000000004 + ], + "priority": 3, + "parents": [ + 10004 + ], + "children": [ + 10008 + ], + "area": 441304.35198, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 10008, + "strid": "6af9f0ee-582d-422b-9054-8c282f770d02", + "image_id": 200903, + "image_name": "11282.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.118, + 793.923, + 1451.14, + 330.124 + ], + "priority": 4, + "parents": [ + 10007 + ], + "children": [], + "area": 89806.98191399999, + "iscrowd": 0, + "segmentation": [], + "text": "Seed dormancy is an adaptation for survival during bad seasons and exerts\ncascading selective pressures on subsequent life stages. Seed size links the ecology\nof reproduction and seedling establishment with that of vegetative growth.\n\nThe two traits exhibit co-varying phenotypes and evolve under similar agents of\n\nselection. 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"strid": "ebdd96c0-8c90-4693-9a9a-8f6afb09dfec", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 583.23, + 641.435, + 137.00199999999995, + 28.133000000000038 + ], + "priority": 3, + "parents": [ + 90198 + ], + "children": [ + 90189 + ], + "area": 374104.13505, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 90189, + "strid": "d68d3bdf-185e-40b1-a5f6-1677b90e8009", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 221.719, + 699.373, + 932.012, + 957.7550000000001 + ], + "priority": 4, + "parents": [ + 90183 + ], + "children": [], + "area": 155064.282187, + "iscrowd": 0, + "segmentation": [], + "text": "Overexpression of tumor associated antigens (TAA) such as carbonic\nanhydrase 9 (CAQ), Her2/neu and high molecular weight melanoma\nassociated antigen (HMW-MAA) is associated with aggressive high-grade\ntumors leading to disease progression and reduced survival. CAQ is a cell\nsurface enzyme that catalyzes the reversible hydration of carbon dioxide to\nbicarbonate and is overexpressed in response to tumor hypoxia in many\ncommon tumor types. CAQ plays a critical role in hypoxia-associated tumor\nacidosis, which plays an important role in tumor progression and\nchemoresistance in various types of cancer. Current Her2/neu-directed\ntherapies confer limited clinical benefits and most patients experience\nprogressive disease indicating that additional therapeutic strategies targeting\nHer2/neu could have potential. HMW-MAA is reported to be a TAA as well as\nan angiogenesis associated protein, as it is expressed at high levels by\nactivated pericytes and pericytes in tumor angiogenic vasculature that are\nassociated with neovascularization in vivo. We hypothesized that an Lm-LLO\nimmunotherapy, using attenuated Listeria monocytogenes (Lm)-LLO as the\nvector capable of delivering multiple antigens would likely have a synergistic\neffect on decreasing tumor growth by targeting independent mechanisms that\nsupport tumor growth. We created two bivalent Lm-LLO immunotherapies\nexpressing two antigens such as cHer2/HMW-MAA or cHer2/CA9. These\nbivalent Lm-LLO immunotherapies efficiently secreted two antigens, grew\nintracellularly and escaped the phagolysosome, supporting that recombinant\nbacteria retained their ability to deliver antigen successfully in an antigen\npresenting cell. Preliminary antitumor therapeutic studies in the treatment of\nmice bearing established tumors expressing Her2 demonstrate that both of\nthese bivalent Lm-LLO immunotherapies show an improvement in the\nreduction of tumor growth when compared to monovalent Lm-LLO\nimmunotherapies. We will present data on the therapeutic efficacy of two\nbivalent Lm-LLO immunotherapies and provide evidence on the mechanisms\nlikely responsible for the observed anti-tumor effects. Currently Lm-LLO\nimmunotherapies are being evaluated in Phase 2 clinical trials for HPV-\nassociated malignancies such as cervical, head and neck, and anal cancers." + }, + { + "id": 90184, + "strid": "63a330c1-f701-4a9f-bc08-157957a9c4dd", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 315.027, + 1740.447, + 726.509, + 76.37699999999995 + ], + "priority": 5, + "parents": [ + 90198 + ], + "children": [ + 90190 + ], + "area": 548287.797069, + "iscrowd": 0, + "segmentation": [], + "text": "Overview of the Immunotherapies Used in the\nCurrent Study" + }, + { + "id": 90190, + "strid": "63d309ed-3423-45d0-b155-a0bf90e94907", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 220.388, + 1832.358, + 939.313, + 657.8419999999999 + ], + "priority": 6, + "parents": [ + 90184 + ], + "children": [], + "area": 403829.714904, + "iscrowd": 0, + "segmentation": [], + "text": "LmddA based Immunotherapy. LmddA is a non-pathogenic, attenuated and\ngenetically modified Lm vector (Lm A dal dat actA), which does not have the ability\nto spread from cell to cell due to the actA deletion. The dal dat deletion in LmddA is\ncomplemented by a copy of the dal gene using a plasmid that also carries the TAA\nexpression cassette. This complementation is essential for in vitro and in vivo growth\nof LmddA-based constructs and led to the development of an antibiotic-marker free\nplasmid. The TAA is fused to the first 441 residues of the LLO protein (tLLO).\n\nHer2/neu. Her-2/neu overexpression or mutations have been associated with\nseveral types of human cancer, including breast, ovarian, pancreatic, gastric and\ncolon cancers. The Her2/neu is a potential target for immunotherapy as it is\noverexpressed in tumors but has limited presence in other tissues, except for the\nheart.\n\nHMW-MAA or CSPG4. The human high molecular weight-melanoma associated\nantigen (HMW-MAA) is found to be overexpressed in many cancers. HMW-MAA is a\nuseful antigen to target for the treatment of tumors as it is expressed at high levels\nin pericytes in tumor angiogenic vasculature.\n\nCAQ or G250. Carbonic anhydrase 9 (CAQ) is a transmembrane protein\noverexpressed in a variety of tumor types and is induced by hypoxia which has been\na major cause for the failure of radiotherapy." + }, + { + "id": 90185, + "strid": "08945063-4add-4c55-b372-759246454e9c", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 266.278, + 2560.451, + 836.527, + 76.63700000000017 + ], + "priority": 7, + "parents": [ + 90198 + ], + "children": [ + 90195 + ], + "area": 681791.771378, + "iscrowd": 0, + "segmentation": [], + "text": "Construction of Bivalent Plasmid that Concomitantly\nDelivers Two Antigens" + }, + { + "id": 90195, + "strid": "eb95a9e5-9bae-450f-962c-f15a8c9c847e", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 280.588, + 2653.477, + 851.5550000000001, + 401.59000000000015 + ], + "priority": 8, + "parents": [ + 90185 + ], + "children": [ + 90191 + ], + "area": 744533.804476, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 90191, + "strid": "1d4a03d3-ecdb-4fd9-9b74-3fdc45ce903e", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 220.407, + 3091.289, + 941.397, + 178.38900000000012 + ], + "priority": 9, + "parents": [ + 90195 + ], + "children": [], + "area": 681341.734623, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Schematic representation of monovalent and bivalent plasmids. Restriction\nsites that were used for cloning of antigen 1 (Xhol and Spel) and antigen 2 (Xbal and\nSacl or Bglll) are indicated. The black arrow represents the direction of transcription.\np15 ori and RepR refers to E.coli and Listeria origin of replication. tLLO is truncated\nListeriolysin O protein (1-441aa). Bacillus-dal gene codes for D-alanine racemase\nwhich complements for the synthesis of D-alanine in Lm A dal dat strain." + }, + { + "id": 90188, + "strid": "a3ba4eb5-1a68-41fa-b2e1-ce490127f279", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1623.119, + 646.309, + 1332.8439999999998, + 36.05799999999999 + ], + "priority": 10, + "parents": [ + 90198 + ], + "children": [ + 90197 + ], + "area": 1049036.417771, + "iscrowd": 0, + "segmentation": [], + "text": "Anti-Tumor Efficacy of Different Monovalent and Bivalent Lm Based Immunotherapy" + }, + { + "id": 90197, + "strid": "78913555-6463-4305-852e-996e6ac85147", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1335.546, + 735.771, + 1868.787, + 1639.7920000000001 + ], + "priority": 11, + "parents": [ + 90188 + ], + "children": [ + 90193 + ], + "area": 982656.015966, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 90193, + "strid": "6d783ea4-db46-4ada-8d63-cea69adad334", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1233.023, + 2392.957, + 2051.9569999999994, + 88.08300000000008 + ], + "priority": 12, + "parents": [ + 90197 + ], + "children": [], + "area": 2950571.0190109997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Line plots showing effect of monotherapy versus bivalent therapy on anti-tumor efficacy using different cell line models. A) monovalent constructs- cHer2 & CA9 and bivalent\nconstruct— cHer2/CAQ was tested in 4T1 tumor model. Similarly, monovalent constructs- cHer2 & HMW-MAA and bivalent construct- cHer2/ HMW-MAA was tested in NT2 (B) and in 4T1-\nHMW-MAA tumor model (C). Effect of administering cHer2 or HUW-MAA monovalent therapy separately, simultaneously or sequentially was evaluated using NT2 tumor models (D)." + }, + { + "id": 90186, + "strid": "ab6291e5-0cf7-4f21-844e-36de743e503b", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1649.949, + 2562.728, + 196.29899999999998, + 36.20600000000013 + ], + "priority": 13, + "parents": [ + 90198 + ], + "children": [ + 90196 + ], + "area": 4228370.500872, + "iscrowd": 0, + "segmentation": [], + "text": "IHC Staining" + }, + { + "id": 90196, + "strid": "a1c32a67-8667-4bd7-8d22-eb79b79465b8", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1360.974, + 2613.701, + 755.077, + 542.3540000000003 + ], + "priority": 14, + "parents": [ + 90186 + ], + "children": [ + 90192 + ], + "area": 3557179.1047739997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 90192, + "strid": "267ecd64-fcc2-4934-878f-781a66fbce34", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1232.892, + 3163.198, + 987.9649999999999, + 113.05699999999979 + ], + "priority": 15, + "parents": [ + 90196 + ], + "children": [], + "area": 3899881.508616, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Immunohistochemical staining showing infiltration of CD8+ and CD4+ T cells,\nblood vessels (CD31) and pericytes (Smooth muscle actin) in different treatment groups.\nThe different groups are represented as A: Naive; B: cHer2; C: HMW-MAA and D: cHer2/\n\nHMW-MAA" + }, + { + "id": 90187, + "strid": "951341f9-c6ad-4d04-8ff2-1368d32bfb28", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2683.61, + 2573.832, + 201.971, + 30.20400000000018 + ], + "priority": 16, + "parents": [ + 90198 + ], + "children": [ + 90194 + ], + "area": 6907161.29352, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 90194, + "strid": "443f871f-e604-45ce-9f88-7f9e01df789a", + "image_id": 204001, + "image_name": "121301.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2314.184, + 2678.948, + 948.8910000000001, + 563.7069999999999 + ], + "priority": 17, + "parents": [ + 90187 + ], + "children": [], + "area": 6199578.598432, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68149, + "strid": "5d42fdab-e20b-4b02-88f9-ad1dd5b77a21", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2433.76, + 8.04, + 268.1899999999996, + 274.89 + ], + "priority": -1, + "parents": [], + "children": [ + 68130, + 68127, + 68122, + 68129, + 68125, + 68128, + 68126, + 68123, + 68124 + ], + "area": 19567.4304, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68122, + "strid": "de3e0a00-881a-46a5-8075-83049dea9e98", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 81.333, + 128.301, + 2276.387, + 178.039 + ], + "priority": 1, + "parents": [ + 68149 + ], + "children": [], + "area": 10435.105232999998, + "iscrowd": 0, + "segmentation": [], + "text": "Resting state fMRI brain network connectivity in dementia with\nLewy bodies and Alzheimer’s disease" + }, + { + "id": 68123, + "strid": "9f3071d5-24ee-4c56-b5f8-2f5bca0db0e0", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 75.289, + 348.261, + 2558.848, + 245.39799999999997 + ], + "priority": 2, + "parents": [ + 68149 + ], + "children": [], + "area": 26220.222429, + "iscrowd": 0, + "segmentation": [], + "text": "Luis R. Peraza', Marcus Kaiser?*°, Michael Firbank', Sara Graziadio', John O’Brien’, John-Paul Taylor’\n\n1) Institute for Ageing and Health, Newcastle University, UK; 2) School of Computing Science, Newcastle University, UK; 3) Institute of Neuroscience,\nNewcastle University, UK; 4) Department of Psychiatry, University of Cambridge, UK; 5) Department of Brain Cognitive Sciences, Seoul National\n\nUniversity, Korea" + }, + { + "id": 68124, + "strid": "4d2297db-7394-483e-a33b-7148d61a8b21", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 479.114, + 693.82, + 361.4479999999999, + 67.22299999999996 + ], + "priority": 3, + "parents": [ + 68149 + ], + "children": [ + 68131 + ], + "area": 332418.87548, + "iscrowd": 0, + "segmentation": [], + "text": "1) Introduction" + }, + { + "id": 68131, + "strid": "9128d4da-e1ac-4e8b-ae69-d94d0a034314", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.948, + 799.099, + 1198.59, + 509.9229999999999 + ], + "priority": 4, + "parents": [ + 68124 + ], + "children": [], + "area": 43109.792852000006, + "iscrowd": 0, + "segmentation": [], + "text": "Dementia with Lewy bodies (DLB) is the second to*third most common\ncause of neurodegenerative dementia after Alzheimer’s disease (AD). It is\ncharacterised by cognitive fluctuations, ) visual hallucinations, and\nParkinsonism. However at early stagess.both diseases can present similar\nclinical phenotypes which obstruet\\ differential diagnosis and proper\ntreatment.\n\nIn this study, we analysed resting’ state fMRI (rs-fMRI) images from AD\nand DLB patients as well as héalthy controls using graph theory. The use of\nnetwork analysis to the 6tudy of DLB revealed significant differences with\nAD and healthy controls)" + }, + { + "id": 68126, + "strid": "558d75fe-a7f6-4af5-976f-f621a9fe40d8", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 500.265, + 1423.588, + 291.477, + 65.30099999999993 + ], + "priority": 5, + "parents": [ + 68149 + ], + "children": [ + 68132 + ], + "area": 712171.25082, + "iscrowd": 0, + "segmentation": [], + "text": "2) Methods" + }, + { + "id": 68132, + "strid": "5108376b-7881-4322-9fb3-6e8da6d28b2a", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 54.245, + 1498.713, + 1186.034, + 1159.9400000000003 + ], + "priority": 6, + "parents": [ + 68126 + ], + "children": [], + "area": 81297.686685, + "iscrowd": 0, + "segmentation": [], + "text": "Imaging*was performed using a 3T Philips Intera Achieva.scanner. MRI\nand {MRI were preprocessed using FMRIB’s Software Library (FSL\nversion 4.1) and coregistered to standard space MNII52 using FNIRT.\nfMRI images were motion corrected using FLIRT,, spatially smoothed\n(FWHM of 6 mm), and high-pass filtered (150 sees)sTo further clean the\nfMRI datasets, independent component analysis using MELODIC was\ncarried out on each subject’s dataset. Component’resembling artifacts, such\nas movements, or cerebro-spinal fluid were filtered out.\n\nBrain parcellation was implemented_using the Harvard-Oxford atlas, with\nfurther subdivision of the cingulated’ gyrus and frontal pole resulting in a\ntotal 100 regions. 6-mm sphéri¢ ‘seeds were then placed at the centre of\ngravity of each region for time-series extraction.\n\nfMRI time series from,each subject were then used to compute Pearson’s\ncorrelation matfites./We opted for the analysis of binary connectivity.\nmatrices and imvorder to compare networks between subjects @we\nnormalised thé;connectivity matrices by edge density.\n\nA battery’ of four tests were implemented to study the.cofnectivity\nmatri¢es: a) Edge strength and edge counting by short, middle, and long\nrange connections; b) Global network measures; ¢)bocal network\nmeasures; and d) Hub migration. The edge density wanges for these\nanalyses were from 4% to 80% for test a and 4%.f0.50% for test b, c, and\nd." + }, + { + "id": 68127, + "strid": "4de16581-4a0f-4837-8e20-3c766e668fcd", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 522.771, + 2764.788, + 261.033, + 66.00799999999981 + ], + "priority": 7, + "parents": [ + 68149 + ], + "children": [ + 68136, + 68134, + 68133 + ], + "area": 1445350.987548, + "iscrowd": 0, + "segmentation": [], + "text": "3) Results" + }, + { + "id": 68133, + "strid": "29a7ab9b-d6f5-46cb-8854-409f279004e3", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 64.303, + 2843.618, + 1180.417, + 564.4169999999999 + ], + "priority": 8, + "parents": [ + 68127 + ], + "children": [], + "area": 182853.168254, + "iscrowd": 0, + "segmentation": [], + "text": "The edge strength and edge counting results (Fig. 1), showed a generalized\ndecreased edge strength in thé DEB (Fig 1A). This difference in DLB was\nsignificantly lower when compared to AD for all edge ranges and\nsignificantly lower for medium and long distance ranges when compared.\nto controls.\n\nEdge counting“at*different edge lengths showed no statistical significance\nin patient groups when compared to controls. However, there is a trénd of\ndecreased in short range connections in AD and medium\\ range\nconnections in DLB. When comparing patient groups, DLBs*showed\nsignificantly higher short range connections than AD for network densities\n10-46% (Fig 1B)." + }, + { + "id": 68134, + "strid": "2e3b5249-aec8-4a29-a67f-4cc3489ab425", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.524, + 3428.265, + 759.501, + 1189.3449999999998 + ], + "priority": 9, + "parents": [ + 68127 + ], + "children": [], + "area": 224633.63585999998, + "iscrowd": 0, + "segmentation": [], + "text": "Global network measures results are shown in\nFig. 2. AD group showed decreased small-\nworldness but no significant when compared-to\ncontrols. DLB showed increased small¢\nworldness also not significant when compared\nto controls, but significant when compared to\nAD.\n\nClustering coefficient and’ global efficiency\nmeasures were also higherunsaverage in DLBs\nthan controls and ADs.\n\nLocal network measures (node degree, local\nefficiency, andDnodal betweenness centrality)\nwere compared between groups. Fig. 3 shows\nresults for controls vs. DLB, and DLB vs. AD\ncomparisons. DLB_ showed higher local\neffievéncy and node degree in anterior temporal\nfegions when compared to AD.\n\nFor the control group, hubs were found in\ncingulate gyri and parieto-occipital regions.dn\nAD, hubs were found posterior-cingulate}\nparietal and occipital area. In DLB most-of_the\nhubs where found in occipito-temporalwareas\n(see Fig 4)." + }, + { + "id": 68136, + "strid": "80d0608b-ef43-4143-9d81-07935da50331", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 844.991, + 3424.701, + 411.7350000000001, + 925.7979999999998 + ], + "priority": 10, + "parents": [ + 68127 + ], + "children": [ + 68135 + ], + "area": 2893841.522691, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68135, + "strid": "27e9b3a8-eab0-4588-afbb-027cbc679ad5", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 850.405, + 4389.181, + 402.0339999999999, + 161.42299999999977 + ], + "priority": 11, + "parents": [ + 68136 + ], + "children": [], + "area": 3732581.4683049996, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Global network measures.\nDLB showed higher small-\nworldness than controls and AD.\nOn the contrary AD showed lower\nsmall-worldness than controls." + }, + { + "id": 68125, + "strid": "740147e4-dd22-45ac-8038-23d9a88413cc", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2097.909, + 695.956, + 344.41600000000017, + 67.99000000000001 + ], + "priority": 12, + "parents": [ + 68149 + ], + "children": [ + 68137, + 68142, + 68144, + 68143, + 68141, + 68139 + ], + "area": 1460052.3560040002, + "iscrowd": 0, + "segmentation": [], + "text": "4) Discussion" + }, + { + "id": 68137, + "strid": "f19b24d4-93ae-4710-9e60-75e073f72fad", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1303.01, + 783.878, + 1966.981, + 700.4499999999999 + ], + "priority": 13, + "parents": [ + 68125 + ], + "children": [], + "area": 1021400.8727800001, + "iscrowd": 0, + "segmentation": [], + "text": "Our results demonstrate a generalised desynchronisation in DLB compared to healthy, controls. On the other hand, the AD\ngroup did not show lower‘connectivity strength shown by correlation coefficients. compared to the control group.\n\nThe edge length counting test revealed that in DLB that there is a decrease of\\medium range connections, whilst in AD there\nis a decrease of short range connections when compared to controls. Lon range connections contribute to the integration of\nthe network\\components by providing shorter paths to communicate distant network regions, and this is also likely to be the\ncase for middle range connections. In contrast short length edges contribute to segregation of local subnetworks, ‘by:\nincreasing clustering. Our data suggest that in DLB there is segtegation of distant brain networks and poor communication\nbetween them, whilst in contrast AD causes more regionally ‘specific network alterations.\n\nDifferences in local network measures also agree witheprevious findings in other neuroimaging modalities in DLB and AD.\nFor instance, AD is characterised by grey matter lossin temporal cortices even at early stages of the disease afd this has been\ncorroborated by several voxel based morphometty((VBM) studies [1]. Also, hypometabolism in occipitahand parietal regions\nhas been reported to be lower in DLB compared*to AD [2] and associated with cognitive fluctuations in DLB [3]. These\ndifferences are more noticeable for local efficiency when comparing DLB and AD (Fig 3 in squared frame)." + }, + { + "id": 68139, + "strid": "3284ea42-e47f-4745-bc62-f9d7f0cf3ad5", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1312.456, + 1514.192, + 1954.615, + 1046.806 + ], + "priority": 14, + "parents": [ + 68125 + ], + "children": [ + 68138 + ], + "area": 1987310.3755519998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68138, + "strid": "7ed5a6f3-dad7-4ec2-9cfe-759f0bed8c14", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1296.765, + 2562.357, + 1970.4600000000003, + 130.4029999999998 + ], + "priority": 15, + "parents": [ + 68139 + ], + "children": [], + "area": 3322774.875105, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. Local network measure comparisons Consistent regional patterns were found between AD and DLB mainly for temporal and parietal lobes. AD showed lower local\nefficiency than DLB in temporal corti¢essDLB showed lower local efficiency in parietal and occipital regions when Compared to AD. These differences can also be seen for the\nnode degree comparisons. For controls ‘Vs DLB, red spheres mean higher scores in control subjects and blue sphefes*the contrary. For DLB vs AD red spheres mean higher\nscores in DLB and blue spheres‘the contrary." + }, + { + "id": 68141, + "strid": "a67cd944-caf2-4c87-a9e7-181cae9ce2cf", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1440.126, + 2714.845, + 910.1389999999999, + 332.8040000000001 + ], + "priority": 16, + "parents": [ + 68125 + ], + "children": [ + 68140 + ], + "area": 3909718.8704699995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68140, + "strid": "75d565d8-862e-4005-ba8a-45b21a1b1173", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1312.62, + 3071.279, + 1209.6750000000002, + 132.92500000000018 + ], + "priority": 17, + "parents": [ + 68141 + ], + "children": [], + "area": 4031422.24098, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. A) Edge correlation strength comparisons at three edge length interyals (short, medium, long). For\nthe three length intervals DLB showed lower correlation than controlgy HC vs DLB comparisons showed\nsignificant lower correlations for medium and long edges in DLBythan.AD. B) Edge counting at three edge\nlength intervals. DLB showed significantly more short range edgesthan AD as shown in the bottom row." + }, + { + "id": 68142, + "strid": "c1905180-1440-449b-a9d7-762b89c14566", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2522.27, + 2709.52, + 669.9740000000002, + 526.683 + ], + "priority": 18, + "parents": [ + 68125 + ], + "children": [], + "area": 6834141.0104, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68144, + "strid": "2295dc9b-136b-410e-b5cf-0c5d48fb9b51", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1385.819, + 3257.144, + 754.2710000000002, + 41.55799999999999 + ], + "priority": 19, + "parents": [ + 68125 + ], + "children": [], + "area": 4513812.040936, + "iscrowd": 0, + "segmentation": [], + "text": "Hubs: local efficiency and clustering-coefficient" + }, + { + "id": 68143, + "strid": "6b788f50-d0c4-4767-a42d-11e569e907d4", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1295.973, + 3315.433, + 894.1059999999998, + 959.585 + ], + "priority": 20, + "parents": [ + 68125 + ], + "children": [ + 68145 + ], + "area": 4296711.651308999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 68145, + "strid": "b479cf3c-9c1f-4685-b046-965cd03fe703", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1292.57, + 4279.267, + 899.4390000000001, + 66.34000000000015 + ], + "priority": 21, + "parents": [ + 68143 + ], + "children": [], + "area": 5531252.14619, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. Hub distribution in controls, AD and DLB»For DLBs, most of the hubs\nwere found in occipital areas. Hubs are showa.as red spheres." + }, + { + "id": 68130, + "strid": "f5e98d54-c88a-43d6-ba93-42aa045f4673", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2561.037, + 3262.664, + 380.4050000000002, + 68.13200000000006 + ], + "priority": 22, + "parents": [ + 68149 + ], + "children": [ + 68148 + ], + "area": 8355803.222568, + "iscrowd": 0, + "segmentation": [], + "text": "5) Conclusions" + }, + { + "id": 68148, + "strid": "b80ebe20-30be-4be5-8b83-291868b4b356", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2229.308, + 3380.356, + 1036.0749999999998, + 745.6969999999997 + ], + "priority": 23, + "parents": [ + 68130 + ], + "children": [], + "area": 7535854.673648001, + "iscrowd": 0, + "segmentation": [], + "text": "This is the first study known to the authors that analyse DLB\nfrom the network perspective? Our findings confirm the current\nconsensus that in AD thefe is a decrease in small-worldness [4]\nwhich is driven by a‘decrease of short range connections altering\nlocal connectivity:\n\nHigher smallworldness in DLB is driven by disconnections of\nmiddle Grange edges compared to controls impairing\ncommunication between distant regions and multiple systems.\nThis.finding might be related to the wider range of symptoms\npresented in DLB compared to AD.\n\nIn summary we provide evidence of network differences between\nDLB and AD and this may be helpful in the differential diagnosis\nof these conditions as well as informing *aéetiological models of\nthese conditions [5]." + }, + { + "id": 68128, + "strid": "35bf9bae-fac2-4c83-9efd-69ba8e2ac2d4", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1559.092, + 4374.229, + 366.6959999999999, + 51.99399999999969 + ], + "priority": 24, + "parents": [ + 68149 + ], + "children": [ + 68146 + ], + "area": 6819825.440068001, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 68146, + "strid": "3bcce8b5-83dd-4236-95e8-a757c2693f82", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1298.809, + 4442.26, + 879.3300000000002, + 167.29399999999987 + ], + "priority": 25, + "parents": [ + 68128 + ], + "children": [], + "area": 5769647.26834, + "iscrowd": 0, + "segmentation": [], + "text": "The research was funded by.an Intermediate Clinical Fellowship to Dr J-P.\nTaylor (WT088441MA), and “also supported by Newcastle Biomedical\nResearch Unit (BRU) and the’National Institute for Health Research (NIHR).\nDr. M. Kaiser was‘supported by the Human Green Brain Project funded by\nEPSRC (EP/K026992/L), and CARMEN funded by EPSRC (EP/E002331/1)." + }, + { + "id": 68129, + "strid": "63d68a4c-cab4-4671-8d75-9ff0cf030d01", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2644.999, + 4234.508, + 231.51200000000017, + 40.365999999999985 + ], + "priority": 26, + "parents": [ + 68149 + ], + "children": [ + 68147 + ], + "area": 11200269.425491998, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 68147, + "strid": "7168ab56-6e9c-4618-9115-4f5ec91c7da8", + "image_id": 203166, + "image_name": "119809.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2238.479, + 4285.271, + 1030.328, + 333.4449999999997 + ], + "priority": 27, + "parents": [ + 68129 + ], + "children": [], + "area": 9592489.142808998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143058, + "strid": "a9dda4b1-7837-466c-b081-774078c61015", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 113.41, + 504.07, + 140.8, + 174.32 + ], + "priority": -1, + "parents": [], + "children": [ + 143050, + 143054, + 143056, + 143033, + 143031, + 143030, + 143035, + 143034, + 143037, + 143040, + 143048, + 143036, + 143042, + 143038, + 143041, + 143047, + 143055, + 143049, + 143043, + 143057, + 143046, + 143045, + 143051, + 143052, + 143032, + 143044, + 143039, + 143053 + ], + "area": 57166.5787, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143030, + "strid": "4f349790-121c-4d78-89c8-584b34702944", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 281.161, + 334.117, + 2738.725, + 219.54900000000004 + ], + "priority": 1, + "parents": [ + 143058 + ], + "children": [], + "area": 93940.66983700001, + "iscrowd": 0, + "segmentation": [], + "text": "Deconvolution of Transcriptomic Data Shows Biologically\nand Clinically Relevant Signals in Pancreatic Tumors" + }, + { + "id": 143031, + "strid": "60af84ba-7c0a-4c71-84c9-cbfa99ed2cd6", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 153.971, + 609.638, + 3050.782, + 211.38700000000006 + ], + "priority": 2, + "parents": [ + 143058 + ], + "children": [], + "area": 93866.57249800001, + "iscrowd": 0, + "segmentation": [], + "text": "Aliaksandra Kakoichankava'’, Maryna Chepeleva’, Andrea S. Bauer’, Thilo Hackert*, Oliver Strobel*,\nNathalia Giese*, Jé6rg D. Hoheisel? and Petr V. Nazarov>*\n\n(1) Vitebsk State Medical University, Belarus; (2) German Cancer Research Center, Germany; (3) Vitebsk Regional Hospital, Belarus; (4) Heidelberg University Clinics, Germany;\n(5) Luxembourg Institute of Health, Luxembourg; (*) Corresponding author: petr.nazarov @lih.lu" + }, + { + "id": 143032, + "strid": "4f616bd1-cbf3-48c0-a332-684f181190b2", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 51.117, + 870.782, + 1560.258, + 152.327 + ], + "priority": 3, + "parents": [ + 143058 + ], + "children": [], + "area": 44511.763494, + "iscrowd": 0, + "segmentation": [], + "text": "Pancreatic cancer is a significant challenge to oncology. The early stages of\nthe disease are asymptomatic, which limits diagnosis and treatment of the\nneoplastic process and thus lead to bad survival prognosis [1,2]." + }, + { + "id": 143033, + "strid": "82178a87-172a-4a27-89c0-78419ba7c2df", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 57.797, + 1044.677, + 571.428, + 125.70399999999995 + ], + "priority": 4, + "parents": [ + 143058 + ], + "children": [], + "area": 60379.19656899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143057, + "strid": "85a3ec1e-bbe5-4180-95fe-042a0db17e63", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 779.737, + 1040.699, + 549.853, + 177.279 + ], + "priority": 5, + "parents": [ + 143058 + ], + "children": [], + "area": 811471.516163, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143037, + "strid": "6263f523-cf11-4feb-83af-3501c6373151", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 70.706, + 1237.188, + 1271.271, + 659.559 + ], + "priority": 6, + "parents": [ + 143058 + ], + "children": [], + "area": 87476.61472800002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143056, + "strid": "26baa76a-9315-4b3e-93ec-f0d373dfdf73", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 90.203, + 1969.505, + 1284.867, + 335.5100000000002 + ], + "priority": 7, + "parents": [ + 143058 + ], + "children": [], + "area": 177655.259515, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143034, + "strid": "e74a3925-41db-4ac4-a49d-a55e4f4199a5", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1700.535, + 862.048, + 1520.137, + 103.88200000000006 + ], + "priority": 8, + "parents": [ + 143058 + ], + "children": [], + "area": 1465942.79568, + "iscrowd": 0, + "segmentation": [], + "text": "Independent component analysis transforms the data into a matrix product\nof statistically independent transcriptional signals and their weight." + }, + { + "id": 143035, + "strid": "59cc3847-e9d8-44a5-b55e-fa852da34dab", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1603.158, + 1039.391, + 466.7350000000001, + 59.277000000000044 + ], + "priority": 9, + "parents": [ + 143058 + ], + "children": [], + "area": 1666307.996778, + "iscrowd": 0, + "segmentation": [], + "text": "Diam = Snk X Mem" + }, + { + "id": 143036, + "strid": "ca156b16-26a5-4783-8f36-b4182e861de3", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1379.192, + 1152.856, + 825.3519999999999, + 684.8140000000001 + ], + "priority": 10, + "parents": [ + 143058 + ], + "children": [], + "area": 1590009.772352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143038, + "strid": "e38e17eb-5951-4d2b-9976-442b0d09684e", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2208.443, + 1028.711, + 1043.4139999999998, + 892.104 + ], + "priority": 11, + "parents": [ + 143058 + ], + "children": [], + "area": 2271849.6069730003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143039, + "strid": "49d37e66-f9c9-4d0c-8626-8b7ec924dc21", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1461.415, + 1838.522, + 785.6509999999998, + 47.11699999999996 + ], + "priority": 12, + "parents": [ + 143058 + ], + "children": [], + "area": 2686843.6286299997, + "iscrowd": 0, + "segmentation": [], + "text": "https ://gitlab.com/biomodlih/consica" + }, + { + "id": 143040, + "strid": "96ed2cd4-b153-41c5-8b63-d39d9be87f72", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1437.928, + 1930.013, + 1767.9170000000001, + 204.7260000000001 + ], + "priority": 13, + "parents": [ + 143058 + ], + "children": [], + "area": 2775219.733064, + "iscrowd": 0, + "segmentation": [], + "text": "i=k Risk score (RS) is calculated as the weighted sum on\nRS; = R2H;M?. scaled rows of M and Cox log hazard ratio (H). Stability of\nJ Leele* tJ . .\n— the components (R?) is also considered.\nl=" + }, + { + "id": 143041, + "strid": "303502d5-753d-4a84-a446-724bcf1bb51c", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.432, + 2374.621, + 1582.559, + 152.98900000000003 + ], + "priority": 14, + "parents": [ + 143058 + ], + "children": [], + "area": 119756.886272, + "iscrowd": 0, + "segmentation": [], + "text": "Three dataset were first analyzed independently and components were linked\nusing R? between columns of S matrix. Many components were found\nreproducible between datasets and formed a graph presented below." + }, + { + "id": 143042, + "strid": "6624243b-f5d5-49c7-ae94-f22bbb6f1e4e", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 64.096, + 2544.243, + 353.874, + 1172.152 + ], + "priority": 15, + "parents": [ + 143058 + ], + "children": [], + "area": 163075.799328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143043, + "strid": "b8033cae-74be-4165-a753-e77dcfc0f35a", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 472.288, + 2590.031, + 1201.561, + 1116.4160000000002 + ], + "priority": 16, + "parents": [ + 143058 + ], + "children": [], + "area": 1223240.560928, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143044, + "strid": "3f1121be-e0fc-416c-9888-1cc676ec3b15", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 121.895, + 3829.613, + 1510.143, + 102.79100000000017 + ], + "priority": 17, + "parents": [ + 143058 + ], + "children": [], + "area": 466810.676635, + "iscrowd": 0, + "segmentation": [], + "text": "4 », Components identified by ICA were annotated by biological functions\n(GO) and linked to survival using Cox regression as is described in [3]." + }, + { + "id": 143046, + "strid": "0d005b4a-5d48-456e-b702-fbf02e77c89c", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 130.76, + 3962.226, + 388.14699999999993, + 323.9150000000004 + ], + "priority": 18, + "parents": [ + 143058 + ], + "children": [], + "area": 518100.67176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143047, + "strid": "e9119fa9-58fe-477d-b82c-dd65808feefa", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 603.327, + 3966.814, + 357.866, + 178.93299999999954 + ], + "priority": 19, + "parents": [ + 143058 + ], + "children": [], + "area": 2393285.9901779997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143048, + "strid": "a36ea9c8-9915-44e1-bf31-e60b9121ec5d", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1053.871, + 3967.731, + 482.66100000000006, + 181.68600000000015 + ], + "priority": 20, + "parents": [ + 143058 + ], + "children": [], + "area": 4181476.6367010004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143045, + "strid": "8f2b048b-204b-4ebb-817a-4edcada2d81d", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 593.973, + 4187.478, + 1006.3389999999999, + 148.47599999999966 + ], + "priority": 21, + "parents": [ + 143058 + ], + "children": [], + "area": 2487248.870094, + "iscrowd": 0, + "segmentation": [], + "text": "Unlike in melanoma [3], no direct link was found\nbetween immune response and survival: perhaps\ndue to a dual / antinomic effect." + }, + { + "id": 143050, + "strid": "72d52635-573b-4c90-bd47-bd3f2dcd08dc", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1749.086, + 2182.348, + 899.2900000000002, + 554.127 + ], + "priority": 22, + "parents": [ + 143058 + ], + "children": [], + "area": 3817114.333928, + "iscrowd": 0, + "segmentation": [], + "text": "2 ICA was able to detect\n~ transcriptional signals specific to stroma\nand tumors. In DKFZ dataset, abundance\nof normal pancreas tissue as well as\nimmune cells was detected in an\nunsupervised manner and correlated to an\nindependent observation of an immuno-\nhistopahthologist. For Bailey and TCGA\ndataset such correlation was observed\nwith in silico predictions." + }, + { + "id": 143051, + "strid": "79fb0075-b3e5-49c8-b4a9-cf9ae0b18b0c", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2696.806, + 2169.494, + 517.4140000000002, + 595.5230000000001 + ], + "priority": 23, + "parents": [ + 143058 + ], + "children": [], + "area": 5850704.436164, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143052, + "strid": "3b674567-7a46-4d7f-b7f0-d33e0b54a3ba", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1758.584, + 2832.797, + 1464.32, + 154.47899999999981 + ], + "priority": 24, + "parents": [ + 143058 + ], + "children": [], + "area": 4981711.479448, + "iscrowd": 0, + "segmentation": [], + "text": "3 Here we combined DKFZ (training) and Bailey (testing) datasets.\n\\“’ ICA was performed on the joint data. Risk scores (RS) were\ncalculated as in [8] and visualized:" + }, + { + "id": 143053, + "strid": "7af58137-f930-4170-a214-b96a8feb505a", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1813.133, + 3033.064, + 1380.354, + 706.105 + ], + "priority": 25, + "parents": [ + 143058 + ], + "children": [], + "area": 5499348.429512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143054, + "strid": "605d196d-3f28-4a83-9b80-33d486be327c", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1742.154, + 3811.959, + 1490.634, + 533.0320000000002 + ], + "priority": 26, + "parents": [ + 143058 + ], + "children": [], + "area": 6641019.619686, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 143055, + "strid": "8b66894c-ab3c-4265-8457-6496cebad018", + "image_id": 206057, + "image_name": "17154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.45, 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Paris-Saclay, Cachan, France" + }, + { + "id": 132484, + "strid": "48a0df93-c079-4933-b570-9b7a8d8cc75e", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 544.184, + 671.038, + 606.1189999999999, + 66.29399999999998 + ], + "priority": 3, + "parents": [ + 132502 + ], + "children": [ + 132490 + ], + "area": 365168.142992, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 132490, + "strid": "7e0b2a82-21d6-4a50-bc68-6bdbfa31a9a5", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 84.492, + 810.245, + 1522.854, + 674.7600000000001 + ], + "priority": 4, + "parents": [ + 132484 + ], + "children": [], + "area": 68459.22054000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132485, + "strid": "4524ff39-d68e-4f04-93d6-2bc0ad9b1d2d", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 5, + "category_name": "Section", + "bbox": 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+ "bbox": [ + 87.734, + 3115.431, + 1521.789, + 107.15200000000004 + ], + "priority": 10, + "parents": [ + 132500 + ], + "children": [], + "area": 273329.22335399996, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1: The Open Biomedical Ontologies ecosystem, with OWL API conversion support (blue plain arrows), OWL API serializer /\ndeserializer support (blue dashed arrows), FastOBO conversion support (green arrows) and FastOBO/horned-owl serializer /\ndeserializer support (green dashed arrows for FastOBO, purple dashed arrows for horned-owl)." + }, + { + "id": 132493, + "strid": "3f0b138f-90c6-4a35-a3a2-797439cc80c1", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1637.612, + 1855.152, + 1584.2979999999998, + 307.7959999999998 + ], + "priority": 11, + "parents": [ + 132486 + ], + "children": [], + "area": 3038019.1770240003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132499, + "strid": 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Note that both owltools and robot use the OWL API internally. Compliance was obtained with the fastobo-\nvalidator tool. See https://github.com/orgs/fastobo/projects/2 for a complete breakdown of non-compliant ontologies." + }, + { + "id": 132494, + "strid": "98a65690-4a05-41f7-a928-1df2a5df0eed", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1640.71, + 2953.022, + 1604.1099999999997, + 631.3159999999998 + ], + "priority": 14, + "parents": [ + 132486 + ], + "children": [], + "area": 4845052.72562, + "iscrowd": 0, + "segmentation": [], + "text": "Using the fastobo and horned-functional libraries, we developed a minimal validation binary that can\nbe found on GitHub (https://github.com/fastobo/fastobo-validator). It can perform several syntactical\nchecks on OBO documents, and is particularly useful at the end of the release cycle to make sure\nontology releases in the OBO format are not violating any rule defined in the specification. Its is now\npart of in the Ontology Development Kit (https://github.com/INCATools/ontology-development-kit)\nvalidation pipeline.\n\nThe validation pipeline has been used extensively to ease the transition of OBO Foundry ontologies to\nthe OBO format version 1.4, and to this day fastobo has successfully identified 33 faulty OBO files\nreleased on this OBO foundry, 10 of which have been fixed, and 12 of which have been reported to\ntheir developers. Most of these were syntactic issues, but with a lack of a strict validation in most\nrelease workflow relying on the OWL API, invalid OBO files could successfully end up in the hands of\nend-users. The dynamic list of invalid ontology products is available as a GitHub project page\n\n(https://github.com/orgs/fastobo/projects/2)." + }, + { + "id": 132487, + "strid": "b7163452-eeb6-4a41-ac61-cb941a097d47", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 551.886, + 3336.705, + 587.719, + 65.75300000000016 + ], + "priority": 15, + "parents": [ + 132502 + ], + "children": [ + 132495 + ], + "area": 1841480.7756299998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 132495, + "strid": "11becefb-e390-4057-9190-441d3d45406c", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 24.13, + 3488.928, + 1584.505, + 1141.2359999999999 + ], + "priority": 16, + "parents": [ + 132487 + ], + "children": [], + "area": 84187.83264, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132489, + "strid": "4beb3fea-8ead-418e-bbb2-a11f9769dcf6", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2028.879, + 4386.587, + 888.4319999999998, + 86.38799999999992 + ], + "priority": 17, + "parents": [ + 132502 + ], + "children": [ + 132497 + ], + "area": 8899854.245973, + "iscrowd": 0, + "segmentation": [], + "text": "6. Acknowledgements" + }, + { + "id": 132497, + "strid": "897ce7eb-72c8-4a0d-b8b9-01bc6620d310", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1706.818, + 4512.75, + 1534.472, + 132.63699999999972 + ], + "priority": 18, + "parents": [ + 132489 + ], + "children": [], + "area": 7702442.9295, + "iscrowd": 0, + "segmentation": [], + "text": "This work was conducted under the supervision of Chris Mungall (LBNL, Berkeley, USA).\nThe OWL mapping part of this project was made possible by the work of Philipp Lord (Newcastle\nUniversity, UK) with the horned-ow/ Rust library." + }, + { + "id": 132488, + "strid": "e1965192-1960-43c6-860a-b78112774c0c", + "image_id": 205642, + "image_name": "15492.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2202.126, + 3689.655, + 538.2530000000002, + 69.84999999999991 + ], + "priority": 19, + "parents": [ + 132502 + ], + "children": [ + 132496 + ], + "area": 8125085.206530001, 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"id": 168393, + "strid": "8664a0dc-77ca-46d8-ac28-9f12ace2fff7", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.75, + 459.33, + 400.781, + 72.72300000000001 + ], + "priority": 3, + "parents": [ + 168423 + ], + "children": [ + 168400, + 168398, + 168397, + 168396, + 168399 + ], + "area": 39387.5475, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 168396, + "strid": "9dc69fd5-2e0c-40a0-afbb-5bc397273966", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.769, + 592.071, + 1439.773, + 177.97199999999998 + ], + "priority": 4, + "parents": [ + 168393 + ], + "children": [], + "area": 62030.68659900001, + "iscrowd": 0, + "segmentation": [], + "text": "The modal account of human tool use is that tools are\n“incorporated into the body schema” (Head & Holmes, 1911;\nCardinali et al., 2009), and controlled as if part of the body." + }, + { + "id": 168397, + "strid": "5610f90b-443f-48ae-8afe-272c9e4de3bc", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.962, + 834.239, + 1404.518, + 119.68899999999996 + ], + "priority": 5, + "parents": [ + 168393 + ], + "children": [], + "area": 82557.95991800001, + "iscrowd": 0, + "segmentation": [], + "text": "Evidence for this general idea is compelling, but it remains\nessentially descriptive." + }, + { + "id": 168398, + "strid": "6b9f14e2-dbe3-4e10-b7d4-6bea28e6f94a", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.017, + 1021.282, + 1477.14, + 175.30000000000007 + ], + "priority": 6, + "parents": [ + 168393 + ], + "children": [], + "area": 104188.125794, + "iscrowd": 0, + "segmentation": [], + "text": "Tools present the visuo-motor system with a specific mapping\nproblem: they alter the spatial relationship between hand\nposture and movement of the end effectors (i.e. the tool tips)." + }, + { + "id": 168399, + "strid": "47916d69-c59a-47dc-840c-7d62331a5496", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.749, + 1265.13, + 1479.071, + 243.55700000000002 + ], + "priority": 7, + "parents": [ + 168393 + ], + "children": [], + "area": 129990.84237, + "iscrowd": 0, + "segmentation": [], + "text": "A working hypothesis Is that internal models of tool geometry\nallow movements to be programmed in “end-effector units”,\nindependent of the biomechanics of the arm/hand/tool\n(Gentilucci et al., 2004; Umilta et al., 2008; Arbib et al., 2009)." + }, + { + "id": 168400, + "strid": "e13e5e87-7c2f-48e7-aa5b-fe11c2cec1eb", + "image_id": 207080, + "image_name": "6941.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.767, + 1565.953, + 1487.549, + 180.22800000000007 + ], + "priority": 8, + "parents": [ + 168393 + ], + "children": [], + "area": 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Main types of autophagy: macroautophagy, microautophagy and\nhanna diated saeco" + }, + { + "id": 186121, + "strid": "e4e208ea-f6f9-4c36-907a-4b16abc8bd8b", + "image_id": 207759, + "image_name": "8749.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 470.513, + 567.962, + 252.16900000000004, + 14.125999999999976 + ], + "priority": 19, + "parents": [ + 186139 + ], + "children": [ + 186130, + 186129, + 186128 + ], + "area": 267233.50450599997, + "iscrowd": 0, + "segmentation": [], + "text": "Summary of Progress and Functional Analysis" + }, + { + "id": 186128, + "strid": "671ab746-02f7-4862-9baf-b99a514aeca8", + "image_id": 207759, + "image_name": "8749.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 432.288, + 589.78, + 325.38300000000004, + 223.62799999999993 + ], + "priority": 20, + "parents": [ + 186121 + ], + "children": [], + "area": 254954.81664, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 186129, + "strid": "79f5dc58-5b14-4e88-b90d-51c50b197fc2", + "image_id": 207759, + "image_name": "8749.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 432.378, + 815.662, + 328.44199999999995, + 37.22500000000002 + ], + "priority": 21, + "parents": [ + 186121 + ], + "children": [], + "area": 352674.304236, + "iscrowd": 0, + "segmentation": [], + "text": "This project demonstrates the need to continue to Improve both the GO terms and" + }, + { + "id": 186130, + "strid": "3f6b113e-be9a-4907-866d-f6e14bd53111", + "image_id": 207759, + "image_name": "8749.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 433.334, + 869.338, + 326.95699999999994, + 119.13499999999999 + ], + "priority": 22, + "parents": [ + 186121 + ], + "children": [ + 186134 + ], + "area": 376713.712892, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 186134, + "strid": "40a3e096-acdb-4aef-af4b-491eac516f0a", + "image_id": 207759, + "image_name": "8749.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 454.742, + 992.669, + 289.941, + 27.004999999999995 + ], + "priority": 23, + "parents": [ + 186130 + ], + "children": [], + "area": 451408.286398, + "iscrowd": 0, + "segmentation": [], + "text": "“(sing Gene Ontology, Asclocton of GO terms Kentfied by wo analyses using GO." + }, + { + "id": 10148, + "strid": "363a7746-9fe5-4395-9d48-9e47a25d6459", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 837.08, + 64.97, + 261.4999999999999, + 255.42 + ], + "priority": -1, + "parents": [], + "children": [ + 10157, + 10168, + 10153, + 10149, + 10142, + 10161, + 10162, + 10164, + 10143, + 10141, + 10167 + ], + "area": 54385.0876, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10141, + "strid": "68a0d542-81c9-4ac1-a43e-94886e217b36", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1378.708, + 78.766, + 2053.8, + 279.354 + ], + "priority": 1, + "parents": [ + 10148 + ], + "children": [], + "area": 108595.31432800001, + "iscrowd": 0, + "segmentation": [], + "text": "Reliability of Ultrasound Measures of\nIntrinsic Foot Motor Function" + }, + { + "id": 10142, + "strid": "cd554a19-65e3-423d-9a05-fc25a606f2a5", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 853.266, + 447.329, + 3093.962, + 151.935 + ], + "priority": 2, + "parents": [ + 10148 + ], + "children": [], + "area": 381690.626514, + "iscrowd": 0, + "segmentation": [], + "text": "a John J. Fraser, PT, MS, OCS?!”, Jay Hertel PhD, ATC, FACSM?! a\n1. Exercise and Sport Injury Laboratory, University of Virginia, 2. US Navy Medicine Professional Development Center" + }, + { + "id": 10143, + "strid": "57939a04-0086-4adc-9f92-2d1bcf0f0d7a", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 311.573, + 603.386, + 575.112, + 89.25400000000002 + ], + "priority": 3, + "parents": [ + 10148 + ], + "children": [ + 10145 + ], + "area": 187998.78617799998, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 10145, + "strid": "462dbd7c-ce1f-4d30-9971-65cdb8a9a6e9", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 30.64, + 727.151, + 1124.861, + 602.9599999999999 + ], + "priority": 4, + "parents": [ + 10143 + ], + "children": [], + "area": 22279.906639999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10149, + "strid": "66c6c7cd-1ffe-4a69-9baf-f690724d11c9", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 404.252, + 1361.928, + 376.098, + 108.43000000000006 + ], + "priority": 5, + "parents": [ + 10148 + ], + "children": [ + 10158 + ], + "area": 550562.1178560001, + "iscrowd": 0, + "segmentation": [], + "text": "Purpose" + }, + { + "id": 10158, + "strid": "c56c510f-4ee6-49c0-bef3-b6afb79abee7", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 43.394, + 1487.475, + 1084.389, + 108.04199999999992 + ], + "priority": 6, + "parents": [ + 10149 + ], + "children": [], + "area": 64547.49014999999, + "iscrowd": 0, + "segmentation": [], + "text": "To establish test-retest reliability of US measures\nof IFM size and motor function" + }, + { + "id": 10153, + "strid": "90d3b5f5-4392-44a5-8632-99abf1d80929", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 384.567, + 1649.626, + 410.68499999999995, + 92.5909999999999 + ], + "priority": 7, + "parents": [ + 10148 + ], + "children": [ + 10150, + 10144, + 10160, + 10159, + 10147, + 10152, + 10155, + 10156, + 10151 + ], + "area": 634391.721942, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 10144, + "strid": "8dd81315-37c1-4cc1-a5d1-1568b432b458", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.362, + 1752.264, + 1126.356, + 679.5890000000002 + ], + "priority": 8, + "parents": [ + 10153 + ], + "children": [], + "area": 25166.015568, + "iscrowd": 0, + "segmentation": [], + "text": "Design: Reliability Study\n\nParticipants: 24 healthy, recreationally active\nindividuals ages 18-50 were included (12 males, 12\nfemales; mean age 21.5+4.8 years; BMI 23.5+2.9\n\nkg/m?)\n\nIndependent Variable:\nTime (Baseline, 3-10 day Reassessment)\n\nDependent Variables:" + }, + { + "id": 10147, + "strid": "319ab47d-71e8-44f4-9c3c-87ef8934dca6", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 7.939, + 2478.332, + 1181.435, + 792.0570000000002 + ], + "priority": 9, + "parents": [ + 10153 + ], + "children": [], + "area": 19675.477747999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10150, + "strid": "8e5e075a-54a3-4b7c-8a4a-a3bd3fb23756", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 6.179, + 3290.564, + 1161.864, + 259.56500000000005 + ], + "priority": 10, + "parents": [ + 10153 + ], + "children": [], + "area": 20332.394956, + "iscrowd": 0, + "segmentation": [], + "text": "Ultrasound Measures of the Intrinsic Foot Muscles. 1.\nAbductor Hallucis a. cross section area (CSA), b. thickness.\n2. Flexor Digitorum Brevis a. CSA, b. thickness. 3.\nQuadratus Plantae a. CSA, b. thickness. 4. Flexor Hallucis\nBrevis a. CSA, b. thickness." + }, + { + "id": 10156, + "strid": "65d57be4-6e6f-43ee-9696-14b75de2f769", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1354.021, + 642.365, + 992.2740000000001, + 599.6299999999999 + ], + "priority": 11, + "parents": [ + 10153 + ], + "children": [], + "area": 869775.699665, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10155, + "strid": "8950964f-c558-472e-a2ff-c1ca71d9809c", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1226.746, + 1276.879, + 505.3319999999999, + 662.06 + ], + "priority": 12, + "parents": [ + 10153 + ], + "children": [], + "area": 1566406.205734, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 10159, + "strid": "461d4aa7-adca-4384-af53-48602bb98d0d", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1226.286, + 1937.446, + 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Colby Mangum, M.Ed., ATC for her assistance in\nstudy design" + }, + { + "id": 10162, + "strid": "e8870c24-97c2-4e01-a795-dafc6ebc4d29", + "image_id": 200908, + "image_name": "11293.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3643.66, + 3444.821, + 1126.4079999999994, + 114.86200000000008 + ], + "priority": 27, + "parents": [ + 10148 + ], + "children": [], + "area": 12551756.48486, + "iscrowd": 0, + "segmentation": [], + "text": "The views expressed are those of the author(s) and do not necessarily reflect\nthe official policy or position of the Department of the Navy, Department of\nDefense, or the United States Government" + }, + { + "id": 193298, + "strid": "738fd0cd-d92f-45f0-8383-f4080885cbcf", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 49.67, + 446.13, + 206.96999999999997, + 243.94000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 193287, + 193288, + 193289, + 193286, + 193297, + 193290, + 193296 + ], + "area": 22159.2771, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193286, + "strid": "ce89c818-908e-4f47-890e-fd0d84c14c7e", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 439.349, + 120.833, + 2684.414, + 214.806 + ], + "priority": 1, + "parents": [ + 193298 + ], + "children": [], + "area": 53087.857717, + "iscrowd": 0, + "segmentation": [], + "text": "EVALUATING THE RISK OF CARDIOVASCULAR DISEASE\nIN PERITONEAL DIALYSIS PATIENTS" + }, + { + "id": 193287, + "strid": "3cde1047-da61-483a-9ec8-9cf8d9c4e339", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 419.243, + 468.457, + 2761.273, + 283.54499999999996 + ], + "priority": 2, + "parents": [ + 193298 + ], + "children": [], + "area": 196397.318051, + "iscrowd": 0, + "segmentation": [], + "text": "Erol Demir, Yasar Caliskan, Fadime Sevgi Sacli Alimoglu, Halil Yazici,\n\nAydin Turkmen, Alaattin Yildiz, Nilgun Aysuna, Mehmet Sukru Sever , Semra Bozfakioglu\n\nIstanbul University, Istanbul Faculty of Medicine, Department of Internal Medicine, Division of Nephrology, Istanbul, TURKEY." + }, + { + "id": 193288, + "strid": "f1037d29-3dbe-4990-b855-7cc72a208c47", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1305.018, + 915.368, + 915.9180000000001, + 66.38900000000001 + ], + "priority": 3, + "parents": [ + 193298 + ], + "children": [ + 193291 + ], + "area": 1194571.716624, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION AND AIMS" + }, + { + "id": 193291, + "strid": "1829e8d2-03a0-4835-b10e-90a9761a0c20", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.387, + 1121.82, + 3257.035, + 292.251 + ], + "priority": 4, + "parents": [ + 193288 + ], + "children": [], + "area": 144027.10434, + "iscrowd": 0, + "segmentation": [], + "text": "Cardiovascular (CV) disease is the main cause of death in peritoneal dialysis (PD) patients (1,2). Coronary flow reserve\n(CFR) impairment and carotid intima media thickness (IMT) are markers of subclinical coronary atherosclerosis. In this\n\nstudy, we aimed to investigate the long-term prognostic value of CFR and carotid IMT in PD patients." + }, + { + "id": 193289, + "strid": "3d30d730-0508-4157-a996-5bd9c63e5f3e", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1585.832, + 1512.059, + 341.4169999999999, + 65.50999999999999 + ], + "priority": 5, + "parents": [ + 193298 + ], + "children": [ + 193292 + ], + "area": 2397871.548088, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193292, + "strid": "3253f359-9fcb-4715-83ce-814eb646a968", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.5, + 1721.066, + 3259.264, + 399.5290000000002 + ], + "priority": 6, + "parents": [ + 193289 + ], + "children": [], + "area": 210830.585, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 37 PD patients (14 males, mean age: 42 + 12 years) were included in this study. Twenty renal transplant\nrecipients (RT) (13 males, mean age: 33 + 9 years) served as the control group. CFR recordings and carotid IMT were\n\nmeasured at baseline and 3 years later. The development of CV disease and mortality during follow up period of eight\nyears were used as end points." + }, + { + "id": 193290, + "strid": "3504d129-2ea8-4935-8350-71a99652a1e8", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1599.239, + 2221.468, + 311.9290000000001, + 64.38299999999981 + ], + "priority": 7, + "parents": [ + 193298 + ], + "children": [ + 193293 + ], + "area": 3552658.2628519996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193293, + "strid": "a7a18c39-2e49-4572-b823-626ae0e62168", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.204, + 2412.792, + 3245.921, + 954.1860000000001 + ], + "priority": 8, + "parents": [ + 193290 + ], + "children": [], + "area": 290027.24956799997, + "iscrowd": 0, + "segmentation": [], + "text": "At baseline, there were no differences regarding to CFR values between the PD (1.79 + 0.49) and RT (1.85 + 0.49)\ngroups. The IMT levels of PD (0.66 + 0.11 mm) and RT (0.66 + 0.13 mm) groups were also similar at baseline. In the PD\ngroup, over a period of 8 years, 14 (38.7%) were transplanted and 10 (27%) switched to hemodialysis. In these years, 9\n(24.3%) patients developed CV events, 5 (13.5%) patients were dead, 2 (5.4%) patients developed stable angina\npectoris, 2 (5.4%) patients had myocardial infarction. After 8 years of the follow up, the baseline IMT values of the PD\npatients who developed CV events (0.75 + 0.10 mm) were significantly higher than the remaining patients (0.63 + 0.09\nmm) (p=0.05). Baseline CFR values were similar in both groups. After 8 years of follow up, the IMT values of all the\npatients who developed CV events were significantly higher (0.78 + 0.10 mm) than the patients who were not\ndeveloped any CV events (0.66 + 0.09) (p=0.03)." + }, + { + "id": 193296, + "strid": "4bc1b3c6-e3fa-4c6e-973b-6c4440517131", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1523.876, + 3512.441, + 454.37699999999995, + 68.78999999999996 + ], + "priority": 9, + "parents": [ + 193298 + ], + "children": [ + 193294 + ], + "area": 5352524.541316, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193294, + "strid": "5d718c22-cfca-4103-8f6a-7fa1b610251e", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.997, + 3739.283, + 3244.817, + 182.54199999999992 + ], + "priority": 10, + "parents": [ + 193296 + ], + "children": [], + "area": 452442.025151, + "iscrowd": 0, + "segmentation": [], + "text": "The CFR values did not predict CV events and mortality in PD patients. However, the patients with elevated IMT values\n\nare at risk of CV events and the risk were significantly higher than the other patients." + }, + { + "id": 193297, + "strid": "e5da7278-0a8c-4d93-ac7d-4818d20629e7", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1518.396, + 4070.419, + 462.93399999999997, + 64.56700000000001 + ], + "priority": 11, + "parents": [ + 193298 + ], + "children": [ + 193295 + ], + "area": 6180507.927924, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193295, + "strid": "02006a14-b328-446f-8511-53371ef766ac", + "image_id": 208055, + "image_name": "9287.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 120.404, + 4248.739, + 3235.658, + 361.1940000000004 + ], + "priority": 12, + "parents": [ + 193297 + ], + "children": [], + "area": 511565.1705559999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138916, + "strid": "7ff516d6-3f6b-4614-a44a-e573f72f87f9", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 33.09, + 29.46, + 197.95, + 185.17999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 138903, + 138899, + 138897, + 138902, + 138898, + 138901 + ], + "area": 974.8314000000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138897, + "strid": "fb4ac873-f87f-4b9d-a842-1903bf4d1faf", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 869.163, + 24.577, + 1333.9850000000001, + 444.589 + ], + "priority": 1, + "parents": [ + 138916 + ], + "children": [], + "area": 21361.419051, + "iscrowd": 0, + "segmentation": [], + "text": "Bioinforma\n\n[ey\n(eae\n\na tut\n=>) ae" + }, + { + "id": 138898, + "strid": "b1cde664-6c43-45f2-b6f7-ad1d29e02051", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 103.978, + 478.33, + 2559.782, + 220.01500000000004 + ], + "priority": 2, + "parents": [ + 138916 + ], + "children": [], + "area": 49735.79674, + "iscrowd": 0, + "segmentation": [], + "text": "E. Alloza*”, J. Rambla*?, S. Beltran**5, INB/ELIXIR-ES members, I. cu Gelpi*”””, A. Navarro”*7, A. Valencia””” & S. Capella- Gutierrez®*\n\n+ Spanish National Bioinformatics Institute (INB/ELIXIR-ES) ee ete B ML elena [ee Lale eo) Barcelona Institute of Science an an logy (BIST) =a\n? Barcelona Supercomputer Center (BSC) 4 Center for Genomic eee aco) CNAG-CRG, Barcelona Institute Sel ce and Technology (BIST)\n5 Universitat Pompeu Fabra (UPF) ® Dept Biochemistry and Molecular Biomedicine. University of Barcelona (\n\n7 Catalan Institution for Research and Advanced Studies (ICREA)" + }, + { + "id": 138899, + "strid": "aa716c01-d959-4535-8ff5-0131f342422b", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.742, + 742.381, + 3138.649, + 315.832 + ], + "priority": 3, + "parents": [ + 138916 + ], + "children": [], + "area": 59198.945702000005, + "iscrowd": 0, + "segmentation": [], + "text": "The Spanish National Bioinformatics Institute (INB) is the ELIXIR Node in Spain (ELIXIR-ES). The INB was founded in 2003 as a distributed\nnetwork of nodes with a central coordination hub. Since its renewal process (2018 - 2020), the INB/ELIXIR-ES has increased the participant nodes\nto 19 research groups distributed across 13 institutions in Spain, and it has become the bioinformatics platform of Institute of Health Carlos III\n(ISCIII). The two main overarching objectives are: deepen its alignment with ELIXIR and its communities with a strong focus on human data\nrelated activities; and increasing its translational medicine ties with the Spanish National Health System (SNS)." + }, + { + "id": 138901, + "strid": "f45d2207-3000-478d-81ba-741df2571a22", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.708, + 1083.301, + 542.014, + 70.63499999999999 + ], + "priority": 4, + "parents": [ + 138916 + ], + "children": [ + 138900, + 138904, + 138914 + ], + "area": 62515.13410799999, + "iscrowd": 0, + "segmentation": [], + "text": "Core Resources" + }, + { + "id": 138900, + "strid": "79009daa-c5f8-4961-8fc3-f964e5bffa28", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.7, + 1188.013, + 1754.232, + 433.856 + ], + "priority": 5, + "parents": [ + 138901 + ], + "children": [], + "area": 79240.4671, + "iscrowd": 0, + "segmentation": [], + "text": "Strong focus on Biomedical activities including the controlled access to human data through\nthe European Genome-phenome Archive (EGA), jointly managed by EMBL-EBI and CRG\nwith the technological support of BSC. EGA is part of the ELIXIR Core Data Resources as\nwell as the ELIXIR Recommended Deposition Databases. ELIXIR-ES is also supporting\nRare-diseases research by contributing towards the sustainability of the RD-Connect\nplatform leading the RD-Connect Genome-Phenome analysis Platform (GPAP), key\ncomponent of the EJP-RD and the Beyond 1 Million Genome (B1MG) project." + }, + { + "id": 138914, + "strid": "23edd69d-ef44-4e37-8448-7589679bf990", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1872.779, + 1111.162, + 1379.179, + 945.865 + ], + "priority": 6, + "parents": [ + 138901 + ], + "children": [], + "area": 2080960.859198, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138904, + "strid": "f6aca7ce-52b8-41e2-817e-e43e0ab916c7", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1982.181, + 2072.23, + 1147.632, + 121.86299999999983 + ], + "priority": 7, + "parents": [ + 138901 + ], + "children": [], + "area": 4107534.9336300003, + "iscrowd": 0, + "segmentation": [], + "text": "INB Nodes and TransBioNet Members as of June 2020\nincluding the alignment with ELIXIR" + }, + { + "id": 138902, + "strid": "c30da1b0-8f43-4c42-80e0-8a35669039c7", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 59.495, + 1643.538, + 1311.53, + 87.7159999999999 + ], + "priority": 8, + "parents": [ + 138916 + ], + "children": [ + 138915, + 138910, + 138911, + 138909, + 138905, + 138906, + 138912, + 138907, + 138908 + ], + "area": 97782.29331, + "iscrowd": 0, + "segmentation": [], + "text": "Alignment and involvement in ELIXIR" + }, + { + "id": 138906, + "strid": "096f1050-f342-4add-a745-51772625a3eb", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 62.617, + 1750.249, + 1790.225, + 245.36699999999996 + ], + "priority": 9, + "parents": [ + 138902 + ], + "children": [], + "area": 109595.341633, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138907, + "strid": "6eb5c1ee-527d-449f-8fe7-4775cafc2a17", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.507, + 2007.572, + 941.3779999999999, + 50.738000000000056 + ], + "priority": 10, + "parents": [ + 138902 + ], + "children": [], + "area": 233896.191004, + "iscrowd": 0, + "segmentation": [], + "text": "Recommended Interoperability Resources (RIR)." + }, + { + "id": 138908, + "strid": "e0814251-dfad-44f2-add7-77cc0f0db844", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.702, + 2092.597, + 1782.821, + 116.54599999999982 + ], + "priority": 11, + "parents": [ + 138902 + ], + "children": [], + "area": 137487.808094, + "iscrowd": 0, + "segmentation": [], + "text": "Moreover, groups from INB/ELIXIR-ES have also an intense activity across different platforms,\ncommunities, focus groups and implementation studies." + }, + { + "id": 138909, + "strid": "c7704d70-272e-40da-bd64-117db9a82c79", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 65.723, + 2218.115, + 1783.955, + 436.1959999999999 + ], + "priority": 12, + "parents": [ + 138902 + ], + "children": [], + "area": 145781.172145, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138910, + "strid": "5783d35c-280b-43d8-a42b-956d79e12ea5", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 63.41, + 2677.387, + 1703.348, + 308.3939999999998 + ], + "priority": 13, + "parents": [ + 138902 + ], + "children": [], + "area": 169773.10967, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138911, + "strid": "c8d53706-4b63-490a-9228-a4b849cfe365", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 62.692, + 3008.276, + 1787.11, + 244.7199999999998 + ], + "priority": 14, + "parents": [ + 138902 + ], + "children": [], + "area": 188594.838992, + "iscrowd": 0, + "segmentation": [], + "text": "BSC leads the Spanish participation in ELIXIR-Converge across the whole project. BSC\nco-leads WP5 on Demonstrators Projects with the relevant participation of CRG (Federated\naccess of sensitive human data), UPF (FAIR encoding and access to Toxicology data) and IRB\nBarcelona (FAIR organisation of biomolecular simulation information)." + }, + { + "id": 138912, + "strid": "c0acb3fa-4c2e-47c9-ae0a-dd1398d2f338", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.436, + 3271.019, + 3158.473, + 182.1840000000002 + ], + "priority": 15, + "parents": [ + 138902 + ], + "children": [], + "area": 200958.32328399998, + "iscrowd": 0, + "segmentation": [], + "text": "Finally, groups from INB/ELIXIR-ES actively participate in relevant projects e.g. EOSC Life, EJP-RD, EUCANCan, euCanSHare, CINECA, as well as in international\ninitiatives like IRDiRC and GA4GH. The later includes leading efforts in the Beacon and its associated network, and the Beacon specification version 2 includes the use of\ntext-mining extraction and partial manual curation of results by DisGeNET." + }, + { + "id": 138915, + "strid": "8e123229-92f1-4ba5-b221-bf351ded7b71", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1967.535, + 2253.87, + 1237.561, + 829.076 + ], + "priority": 16, + "parents": [ + 138902 + ], + "children": [], + "area": 4434568.11045, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 138905, + "strid": "46872b6e-191c-497a-a338-4f334964ab85", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2173.699, + 3093.019, + 765.069, + 115.61599999999999 + ], + "priority": 17, + "parents": [ + 138902 + ], + "children": [], + "area": 6723292.307281, + "iscrowd": 0, + "segmentation": [], + "text": "Supporting global SARS-CoV-2 and\nCOVID-19 research and knowledge" + }, + { + "id": 138903, + "strid": "15671821-1d54-4de3-b81e-cda70d866446", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 62.477, + 3465.761, + 986.976, + 73.40099999999984 + ], + "priority": 18, + "parents": [ + 138916 + ], + "children": [ + 138913 + ], + "area": 216530.34999699998, + "iscrowd": 0, + "segmentation": [], + "text": "Translational Bioinformatics" + }, + { + "id": 138913, + "strid": "b254ee6c-ba56-45e7-993f-9e1d116fbaa1", + "image_id": 205889, + "image_name": "16542.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 62.092, + 3561.841, + 3179.289, + 308.69799999999987 + ], + "priority": 19, + "parents": [ + 138903 + ], + "children": [], + "area": 221161.831372, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197305, + "strid": "050d6fb1-5537-4c63-85e6-aa8360bfe4a3", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 3148.99, + 73.92, + 245.73000000000002, + 135.19 + ], + "priority": -1, + "parents": [], + "children": [ + 197293, + 197291, + 197302, + 197290, + 197292, + 197289, + 197301 + ], + "area": 232773.34079999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197302, + "strid": "19c22d3a-8363-48a2-bda9-1a91e30c89d6", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 157.627, + 367.531, + 3160.93, + 247.80599999999998 + ], + "priority": 1, + "parents": [ + 197305 + ], + "children": [], + "area": 57932.808937, + "iscrowd": 0, + "segmentation": [], + "text": "Comparing Patient with Acute Stroke at Three Freestanding\nversus a Tertiary Care Emergency Department" + }, + { + "id": 197301, + "strid": "52f5d6e3-ba95-457f-82b1-118bfed2ace7", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 158.73, + 629.264, + 3167.49, + 154.51599999999996 + ], + "priority": 2, + "parents": [ + 197305 + ], + "children": [], + "area": 99883.07471999999, + "iscrowd": 0, + "segmentation": [], + "text": "Erin Simon DO, Leslie Gair BS, Kseniya Orlik MD, Ryan Burke, MPH, Dave Hayslip RN-BSN, Nick Jouriles MD\nDepartment of Emergency Medicine" + }, + { + "id": 197293, + "strid": "0010b458-7e21-41c1-bf98-4a486892f54f", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 266.552, + 1106.533, + 659.846, + 178.337 + ], + "priority": 3, + "parents": [ + 197305 + ], + "children": [ + 197294 + ], + "area": 294948.584216, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction and\nObjectives" + }, + { + "id": 197294, + "strid": "16329752-7faf-4948-a28c-cfff8f041e86", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 176.966, + 1386.803, + 829.835, + 1697.459 + ], + "priority": 4, + "parents": [ + 197293 + ], + "children": [], + "area": 245416.97969800004, + "iscrowd": 0, + "segmentation": [], + "text": "Strokes are a major cause of morbidity\nand mortality ranking as the 3rd most\ncommon cause of death, and affecting\napproximately 800,000 people per year\n(New or recurrent) (1,2).\n\nPrior studies and recommendations have\nlooked to tele-medicine, as well as early\nEMS involvement for rural EDs and\nhospitals (3,4). There is a lack of\ninformation on patients presenting to\nfreestanding emergency departments\n(FEDs) of a tertiary care facility with signs\nconcerning for an acute ischemic stroke.\nThe importance of this information is to\nidentify potential areas of improvement\nfor the care of these patients since earlier\ntreatment leads to better outcomes (5,6).\n\nThe number of FEDs has significantly\nincreased in recent years. They currently\nrepresent 8-10% of EDs in the United\nStates. It has been shown that these\ncenters provide better access and closer\nproximity emergency care to a greater\nnumber of patients through decreased\ntravel time to an emergency facility(7).\n\nWe evaluated demographics, door-to\ndoctor, door-to-CT, and door-to-needle\ntime for patients presenting with acute\nstroke of less than 4.5 hours." + }, + { + "id": 197289, + "strid": "c3ee35db-ce54-40fa-9e1f-14b3fbd0ecc2", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 426.264, + 3299.285, + 324.866, + 71.03900000000021 + ], + "priority": 5, + "parents": [ + 197305 + ], + "children": [ + 197297, + 197298 + ], + "area": 1406366.42124, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 197297, + "strid": "461ae963-d134-4be5-aad6-4fb134d9f213", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 174.219, + 3573.345, + 834.662, + 481.712 + ], + "priority": 6, + "parents": [ + 197289 + ], + "children": [], + "area": 622544.592555, + "iscrowd": 0, + "segmentation": [], + "text": "A retrospective cohort included all\npatients who presented to our FED’ s with\nacute stroke symptoms of less than 4.5\nhours. Study timeframe was July 2007\nthrough May 31, 2015. We randomized\n200 charts with an ICD-9 diagnosis of\nCVA from the main ED for comparison.\nStatistical analysis was performed using\nMann-Whitney U Test." + }, + { + "id": 197298, + "strid": "f9a414bb-3223-4219-93bb-b16242294812", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 171.193, + 4095.103, + 820.355, + 1077.2740000000003 + ], + "priority": 7, + "parents": [ + 197289 + ], + "children": [], + "area": 701052.967879, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197291, + "strid": "c0e98866-a70d-4631-9e97-49abb751b235", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1612.49, + 1121.576, + 285.5820000000001, + 72.40100000000007 + ], + "priority": 8, + "parents": [ + 197305 + ], + "children": [ + 197295, + 197300, + 197304 + ], + "area": 1808530.08424, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 197295, + "strid": "9ae66062-14aa-43c1-a967-a9b9912fb193", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1328.625, + 1395.389, + 832.9000000000001, + 1492.153 + ], + "priority": 9, + "parents": [ + 197291 + ], + "children": [], + "area": 1853948.7101249998, + "iscrowd": 0, + "segmentation": [], + "text": "Thirty-four patients from the main\nEmergency Department and 11 from\nFreestanding Emergency Departments\nmet inclusion criteria.\n\nAt the main ED 58.8% were female\ncompared to 72.7% the FEDs.\n\nThere were 73.5% Caucasian and 23.5%\nAfrican-American at the main ED and\n90.9% Caucasian and 9.1% African-\nAmerican at the FEDs.\n\nMedian age was 65 at the main ED and\n70 at the FEDs. Door-to-doctor time was\n7 minutes at the FEDs and 26 minutes at\nthe main ED (p=0.352).\n\nDoor-to-CT time was 11 minutes at the\nFED and 34 minutes at the main ED\n(p=0.396).\n\nDoor-to-stroke team called was 11\nminutes at the FED and 34 minutes at the\nmain ED (p<0.001).\n\nNo patients met criteria for IV t-PA at the\nFEDs." + }, + { + "id": 197300, + "strid": "6af53339-a783-46d4-92a5-55adc0569cff", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1317.082, + 3068.845, + 848.2850000000001, + 1058.3830000000003 + ], + "priority": 10, + "parents": [ + 197291 + ], + "children": [ + 197286 + ], + "area": 4041920.51029, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197286, + "strid": "8c14dda9-557a-4b95-b4bc-27fa0cc9c99a", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1338.195, + 4193.674, + 775.4750000000001, + 59.251000000000204 + ], + "priority": 11, + "parents": [ + 197300 + ], + "children": [], + "area": 5611953.57843, + "iscrowd": 0, + "segmentation": [], + "text": "Image 1. Picture of ischemic stroke (8)" + }, + { + "id": 197304, + "strid": "c7f38aae-05b5-43e2-82fd-4f1b8f628a3c", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1334.201, + 4414.908, + 852.6889999999999, + 687.6109999999999 + ], + "priority": 12, + "parents": [ + 197291 + ], + "children": [ + 197287 + ], + "area": 5890374.668508001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197287, + "strid": "800ce51b-0e3b-440d-b765-165d50112db3", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1338.147, + 5187.134, + 691.6579999999999, + 103.71000000000004 + ], + "priority": 13, + "parents": [ + 197304 + ], + "children": [], + "area": 6941147.800698, + "iscrowd": 0, + "segmentation": [], + "text": "Image 2. Freestanding Emergency\nDepartment in Green, Ohio" + }, + { + "id": 197292, + "strid": "a7a89f1d-0fde-49f8-857d-553acdc132cc", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2685.377, + 1121.611, + 423.163, + 72.92100000000005 + ], + "priority": 14, + "parents": [ + 197305 + ], + "children": [ + 197303, + 197296 + ], + "area": 3011948.3823470003, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 197296, + "strid": "1480060a-fc0f-4453-a0d2-76e0d3aa4056", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2476.673, + 1395.021, + 836.8919999999998, + 962.2970000000003 + ], + "priority": 15, + "parents": [ + 197292 + ], + "children": [], + "area": 3455010.8451329996, + "iscrowd": 0, + "segmentation": [], + "text": "Acute strokes less than 4.5 hours are\nseen infrequently at Freestanding\nEmergency Departments.\n\nDoor-to-doc and door-to-CT times are\nfaster but were not statistically significant.\n\nDoor-to-stroke team called was\nsignificantly faster at the FED.\n\nFEDs in close proximity to a tertiary care\ncenter should have protocols in place for\nrapid transfer to a Stroke Center\n\nFEDs at a distance from a Stroke Center\nshould have a neurologist they can\nconsult for use of TPA or consider use of\ntelemedicine" + }, + { + "id": 197303, + "strid": "95ef9369-d1f7-489d-9c53-1b1350580f6e", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2469.005, + 2383.53, + 871.136, + 662.0149999999999 + ], + "priority": 16, + "parents": [ + 197292 + ], + "children": [ + 197288 + ], + "area": 5884947.4876500005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197288, + "strid": "2adbe7c0-c02c-4c30-af49-60ff91fe1714", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2473.236, + 3105.873, + 856.9899999999998, + 53.375 + ], + "priority": 17, + "parents": [ + 197303 + ], + "children": [], + "area": 7681556.915027999, + "iscrowd": 0, + "segmentation": [], + "text": "Image 3. Inside of our Montrose, Ohio FED" + }, + { + "id": 197290, + "strid": "59b90f21-c964-42e5-9c12-cff9cc839f15", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2694.296, + 3323.237, + 421.9380000000001, + 69.29399999999987 + ], + "priority": 18, + "parents": [ + 197305 + ], + "children": [ + 197299 + ], + "area": 8953784.156151999, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 197299, + "strid": "81962212-e0cb-4f65-a37a-a584d3267391", + "image_id": 208229, + "image_name": "9733.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2452.21, + 3585.658, + 882.4279999999999, + 1734.7630000000004 + ], + "priority": 19, + "parents": [ + 197290 + ], + "children": [], + "area": 8792786.40418, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94270, + "strid": "c2961a1b-4a47-47fe-93d5-e175ec122465", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 37.52, + 23.67, + 27.919999999999995, + 34.129999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 94262, + 94256, + 94258, + 94261, + 94255, + 94260, + 94259, + 94257, + 94254, + 94269 + ], + "area": 888.0984000000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94254, + "strid": "eab9a005-2747-4564-8e4a-c952ee27073c", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 96.888, + 19.836, + 350.99799999999993, + 32.466 + ], + "priority": 1, + "parents": [ + 94270 + ], + "children": [], + "area": 1921.8703679999999, + "iscrowd": 0, + "segmentation": [], + "text": "AN URBANIZATION OF TAENIASIS AND CYSTICERCOSIS?\nASEROSURVEY IN JAYAPURA CITY PAPUA PROVINCE." + }, + { + "id": 94255, + "strid": "e0ba5e04-6c82-4f33-81ca-d06754641a9b", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 63.491, + 74.077, + 344.618, + 26.593000000000004 + ], + "priority": 2, + "parents": [ + 94270 + ], + "children": [], + "area": 4703.222807, + "iscrowd": 0, + "segmentation": [], + "text": "created hoe eiticone cl ioecl ecl iaaa\nee a a acccgn os cuamiasles eed" + }, + { + "id": 94262, + "strid": "df7753d0-379a-48a3-9df7-5d052fbcdd0a", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 34.942, + 118.934, + 192.653, + 74.977 + ], + "priority": 3, + "parents": [ + 94270 + ], + "children": [], + "area": 4155.791828, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94257, + "strid": "71a5a09a-4a54-41fc-9be6-1bf618146348", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 19.582, + 216.165, + 53.855, + 8.020999999999987 + ], + "priority": 4, + "parents": [ + 94270 + ], + "children": [ + 94264 + ], + "area": 4232.94303, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94264, + "strid": "86106668-0328-4c3c-ad6a-f2e3bbc0d6f4", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 18.283, + 226.576, + 215.60399999999998, + 199.285 + ], + "priority": 5, + "parents": [ + 94257 + ], + "children": [], + "area": 4142.4890080000005, + "iscrowd": 0, + "segmentation": [], + "text": "ee a ee ee\ncyrcercou, Several sar ave fend 23,5 ~ 54.9%\nof cyanea ond 1.7 % = 0.7% ues\nprevalence In he cenrl hla of Fapn, The mae\ntraronison of eyscercansn thee resi by\nIgetin of unercilad infected mest, rtd 12\nInga cate eed \"erope Barepe i 6\n\ntren way 1 eo pork by grting the meat cd\nsepts ot fot son. In recent year, the meres\nof wctenaaten fron cetral ghlnds of Papua 1\ncxarlerexs sch ot Toya iy. make the nection\nspect wid Thace fetes matted the ators 1\ncntvcyrcarans im the reas of Tyepre ety which\nSen: hich dana" + }, + { + "id": 94260, + "strid": "ea2786fc-cdf3-4f56-9bda-545c7b0212ad", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 11.198, + 461.144, + 50.443, + 8.372000000000014 + ], + "priority": 6, + "parents": [ + 94270 + ], + "children": [ + 94266 + ], + "area": 5163.890512, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94266, + "strid": "95cea403-e9eb-4409-966c-99c8f5e0e5fa", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 10.887, + 477.956, + 212.304, + 38.84699999999998 + ], + "priority": 7, + "parents": [ + 94260 + ], + "children": [], + "area": 5203.506972, + "iscrowd": 0, + "segmentation": [], + "text": "A Gee een a ere\nerica and tensa Teypre Cy, expec\nSots alel lak desing achat oem: ghee Pap" + }, + { + "id": 94261, + "strid": "a8668ea9-03d3-4da0-91c8-de123d77ef3f", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 15.433, + 540.797, + 40.625, + 8.000999999999976 + ], + "priority": 8, + "parents": [ + 94270 + ], + "children": [ + 94267 + ], + "area": 8346.120101, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94267, + "strid": "0bdecd4f-453b-4a26-bb89-f54ba244821f", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 14.719, + 556.961, + 204.557, + 95.33699999999999 + ], + "priority": 9, + "parents": [ + 94261 + ], + "children": [], + "area": 8197.908959, + "iscrowd": 0, + "segmentation": [], + "text": "OE ato lil rll lta\nFor sernirey me teh enme- ined\nmnunslctreraer Bet (EIT) sp contig ao\nreconinant orgs specifi and sna: FT26H fo\ndeecton of yrcercneambodes on 533 for\ndeecton of Worn srt, prodeed by COC\nas" + }, + { + "id": 94256, + "strid": "c51889b2-c2fa-46bc-8d45-b4bb0dd32a48", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 271.248, + 125.266, + 83.57400000000001, + 9.664000000000001 + ], + "priority": 10, + "parents": [ + 94270 + ], + "children": [ + 94263 + ], + "area": 33978.151968, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94263, + "strid": "a25444d7-a677-46f4-a1a2-04214cdc6369", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 271.178, + 141.988, + 215.33500000000004, + 36.769000000000005 + ], + "priority": 11, + "parents": [ + 94256 + ], + "children": [], + "area": 38504.021864, + "iscrowd": 0, + "segmentation": [], + "text": "Labrerany of Inet of Research and Devlpmen fr\nee gaa" + }, + { + "id": 94258, + "strid": "7b626043-6996-41d5-a229-dcc55e9242e3", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 277.223, + 209.332, + 36.783000000000015, + 8.242999999999995 + ], + "priority": 12, + "parents": [ + 94270 + ], + "children": [ + 94265 + ], + "area": 58031.645036, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94265, + "strid": "45d5e10f-2f20-497c-a419-eb9b10d64139", + "image_id": 204151, + "image_name": "121530.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 276.514, + 222.356, + 202.78999999999996, + 238.72000000000003 + ], + "priority": 13, + "parents": [ + 94258 + ], + "children": [], + "area": 61484.546984, + "iscrowd": 0, + "segmentation": [], + "text": "ee ee ae ee ee\n0.8% and otis nor 0.9% from 632 sonle\nJeyoire Gi. 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Diversity profiling has\nenhanced the discovery and profiling of microbial species\nthat cannot be isolated into a pure culture, by\nsequencing molecular markers such as the conserved and\nhypervariable regions of ribosomal RNA. The Australian\nGenome Research Facility (AGRF) currently operates a\nmicrobial diversity profiling service targeting various regions\nof 16S, ITS and 18S microbial genes. To compare and\nevaluate the accuracy and reproducibility of various NGS\nplatforms, AGRF pooled artificial control samples and\nsequenced using GSFLX, MiSeq and lon Torrent platforms\nand environmental samples on GSFLX and MiSeq Next\ngeneration platforms." + }, + { + "id": 91464, + "strid": "28b4c083-7ca3-40c1-af37-5559b7f44ab9", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 105.425, + 2081.523, + 449.204, + 61.75599999999986 + ], + "priority": 5, + "parents": [ + 91494 + ], + "children": [ + 91471 + ], + "area": 219444.562275, + "iscrowd": 0, + "segmentation": [], + "text": "Key Challenges" + }, + { + "id": 91471, + "strid": "bbba69c7-55ba-4ecc-9847-fecccdd9aed2", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.014, + 2201.175, + 1041.894, + 633.6590000000001 + ], + "priority": 6, + "parents": [ + 91464 + ], + "children": [], + "area": 224550.66645000002, + "iscrowd": 0, + "segmentation": [], + "text": "Amount of data\n\nHigh-throughput platforms outputs an enormous amount of\ndata, ranging from 10° to 10° reads per run, with each\nplatform producing different read lengths, quality, error rates\nand data formats.\n\nPlatform specific analyses\n\nFrom QC to classifying the sequenced amplicons, a series\nof various complex computation methods are required.\nSample complexity\n\nSamples may consist of an extremely heterogeneous\nmicrobial community and may contain thousands of\nspecies." + }, + { + "id": 91465, + "strid": "53df40d6-f31a-40f6-af01-38b8d80ab906", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 105.301, + 2959.635, + 600.269, + 61.28200000000015 + ], + "priority": 7, + "parents": [ + 91494 + ], + "children": [ + 91472 + ], + "area": 311652.525135, + "iscrowd": 0, + "segmentation": [], + "text": "Experimental Design" + }, + { + "id": 91472, + "strid": "a8c5b8c1-4a12-468a-ac63-4271662d0a95", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 103.798, + 3058.834, + 1040.857, + 460.28600000000006 + ], + "priority": 8, + "parents": [ + 91465 + ], + "children": [], + "area": 317500.851532, + "iscrowd": 0, + "segmentation": [], + "text": "An artificial microbial community was generated by\ncombining equimolar amounts of full-length 16S PCR\nproducts from Escherichia coli, Pseudomonas fluorescens,\nStaphylococcus saprophyticus, Clostridium baratii, and\nActinomyces denticolens. This was used as a template for\nPCR amplification of different target regions and run on the\nMiSeq, GS-FLX and lon Torrent PGM platforms (4 replicates\neach). The resulting sequences were identified at different\ntaxonomic levels (phylum to species) by comparing with\nGreenGenes database using Qiime, UPARSE & USEARCH." + }, + { + "id": 91466, + "strid": "76e01652-8231-4f77-8e0c-4a789f247754", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.958, + 3719.163, + 530.721, + 61.610999999999876 + ], + "priority": 9, + "parents": [ + 91494 + ], + "children": [ + 91473 + ], + "area": 397794.236154, + "iscrowd": 0, + "segmentation": [], + "text": "Platform summary" + }, + { + "id": 91473, + "strid": "7323a952-70e5-4818-8888-b6b3a9488726", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 15.362, + 3822.597, + 1217.095, + 666.3049999999998 + ], + "priority": 10, + "parents": [ + 91466 + ], + "children": [], + "area": 58722.735114, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91469, + "strid": 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taxonomy\nAdd metadata\nGenerate table & Graphs" + }, + { + "id": 91468, + "strid": "74b5ba57-11a3-4776-a819-52228f1c2812", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1371.751, + 2303.2, + 212.52199999999993, + 49.20499999999993 + ], + "priority": 28, + "parents": [ + 91494 + ], + "children": [ + 91475 + ], + "area": 3159416.9031999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 91475, + "strid": "23fe300d-6d05-4805-b160-d01f363ed074", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1327.023, + 2407.022, + 1922.894, + 1095.8029999999999 + ], + "priority": 29, + "parents": [ + 91468 + ], + "children": [], + "area": 3194173.555506, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 91467, + "strid": "f8fc0e54-1d9a-4318-9f6a-ff1e5af71c46", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1368.804, + 3696.389, + 273.4390000000001, + 59.590000000000146 + ], + "priority": 30, + "parents": [ + 91494 + ], + "children": [ + 91476 + ], + "area": 5059632.048756001, + "iscrowd": 0, + "segmentation": [], + "text": "summary" + }, + { + "id": 91476, + "strid": "be6b5f0c-4e31-4d86-9c1e-d0c79300a093", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1363.982, + 3796.031, + 1834.3469999999998, + 434.40200000000004 + ], + "priority": 31, + "parents": [ + 91467 + ], + "children": [], + "area": 5177717.955442, + "iscrowd": 0, + "segmentation": [], + "text": "The taxon resolution at each taxonomy level between replicates shows less than 1% variability. This\nsuggests the reproducibility of the targets was very high and the amplification bias is consistent between\nreplicates. For all the samples, MiSeq performed better followed by GSFLX, thought lon Torrent gave a\nhigher level of resolution for phylum and family but performed poorly at higher taxonomy levels suggesting\nthat the complexity is harder to differentiate on shorter reads/targets.\n\nThese results show that the MiSeq had superior performance for species-level identification of a low-\ncomplexity microbial communities, and superior performance for genus-level identification of high-\ncomplexity communities. This demonstrates the MiSeq is the current “platform of choice” for profiling\nprokaryotic microbial communities." + }, + { + "id": 91477, + "strid": "60125a76-f512-45df-a7a6-40ee0245f354", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1363.687, + 4331.294, + 343.9079999999999, + 42.46399999999994 + ], + "priority": 32, + "parents": [ + 91494 + ], + "children": [ + 91478 + ], + "area": 5906529.320978, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 91478, + "strid": "2116f72b-981d-4fca-913b-7403d7c133cb", + "image_id": 204050, + "image_name": "121379.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1365.011, + 4376.948, + 1323.288, + 109.61999999999989 + ], + "priority": 33, + "parents": [ + 91477 + ], + "children": [], + "area": 5974582.166428001, + "iscrowd": 0, + "segmentation": [], + "text": "Special thanks to Ken McGrath for his enormous contribution and thoughts towards this study.\nAlso thanks to Matt Tinning, Rachael McNally and Matt Johnson for sequencing microbial\nsamples." + }, + { + "id": 4740, + "strid": "2478000f-b209-4d3f-a78d-ce7e99726103", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 33.12, + 34.15, + 122.24000000000001, + 130.4 + ], + "priority": -1, + "parents": [], + "children": [ + 4707, + 4706, + 4703, + 4705, + 4702, + 4701, + 4734, + 4700, + 4704 + ], + "area": 1131.0479999999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4700, + "strid": "bfa8f46b-bd2d-4778-b833-138d8af71130", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 204.649, + 159.346, + 2934.202, + 308.913 + ], + "priority": 1, + "parents": [ + 4740 + ], + "children": [], + "area": 32609.999554, + "iscrowd": 0, + "segmentation": [], + "text": "Comparison of Mortality in Fizi Health Zone,\nDemocratic Republic of Congo, 2014 and 2016" + }, + { + "id": 4701, + "strid": "84e24acc-971b-41e0-ab25-46d5cfde293c", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 640.418, + 540.447, + 2007.315, + 364.68500000000006 + ], + "priority": 2, + "parents": [ + 4740 + ], + "children": [], + "area": 346111.986846, + "iscrowd": 0, + "segmentation": [], + "text": "Yalda Jafari', Colette Badjo', Marit de Wit?, Harriet Roggeveen?,\nIdriss Ait-Bouziad*, Bhargavi Rao?, Ruby Siddiqui®\n\n'MSF, Bukavu, Democratic Republic of Congo; 7MSF, Amsterdam,\nNetherlands; 3MSF, London, UK" + }, + { + "id": 4702, + "strid": "05443437-0233-4157-9261-9cb9b2523cb0", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 92.256, + 1112.49, + 108.15099999999998, + 48.94699999999989 + ], + "priority": 3, + "parents": [ + 4740 + ], + "children": [ + 4711 + ], + "area": 102633.87744, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 4711, + "strid": "cd888c73-d39e-40e8-869f-bb707f168bf5", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 94.855, + 1243.654, + 676.9, + 267.9390000000001 + ], + "priority": 4, + "parents": [ + 4702 + ], + "children": [], + "area": 117966.80017, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4703, + "strid": "c04e5086-0743-4d1e-9670-0e8ecbec55f1", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 90.629, + 1664.827, + 196.99399999999997, + 50.298 + ], + "priority": 5, + "parents": [ + 4740 + ], + "children": [ + 4720, + 4709 + ], + "area": 150881.606183, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 4720, + "strid": "979b7972-cd0e-4581-a60b-4b37df826412", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.446, + 1781.909, + 713.367, + 1138.2440000000001 + ], + "priority": 6, + "parents": [ + 4703 + ], + "children": [], + "area": 155820.814414, + "iscrowd": 0, + "segmentation": [], + "text": "In 2014, a mortality survey was\nperformed in Fizi HZ to estimate\nmortality rates during the recall period\nDecember 2013 to May 2014\".\n\nIn 2016, two retrospective mortality\nsurveys were carried out in Fizi HZ, one\nin Presque’lle and the other in the rest of\nFizi, with a recall period of one year.\n\nThe 2016 mortality surveys were\ncombined and the recall period restricted\nto the same time period utilised in the\n2014 mortality survey, in order to be\ncomparable.\n\nReasons that may have contributed to\nchanges in outcomes were explored.\n\nAnalysis was completed using STATA\n14.2 (StataCorp, TX, USA, 2017) and\nresults are presented with 95%\nconfidence intervals." + }, + { + "id": 4709, + "strid": "fb9834ff-149c-4509-97cd-02c21f694416", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 74.707, + 3007.562, + 742.042, + 1047.2110000000002 + ], + "priority": 7, + "parents": [ + 4703 + ], + "children": [ + 4708 + ], + "area": 224685.93433399996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4708, + "strid": "09f58a47-3846-4d74-9b5f-27cef6a85d77", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 74.416, + 4080.036, + 709.3330000000001, + 64.29899999999998 + ], + "priority": 8, + "parents": [ + 4709 + ], + "children": [], + "area": 303619.95897599997, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1-Map of Fizi Health Zone, iCCM and PSH posts, and\nsurvey areas" + }, + { + "id": 4704, + "strid": "ff1b003f-5fd1-4613-af9d-0d8ca5249328", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 927.433, + 1113.94, + 199.48299999999995, + 47.97499999999991 + ], + "priority": 9, + "parents": [ + 4740 + ], + "children": [ + 4726, + 4717, + 4710, + 4715, + 4716, + 4718, + 4725, + 4732, + 4721, + 4731, + 4724, + 4719, + 4730 + ], + "area": 1033104.71602, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 4719, + "strid": "e517983d-1225-4f2c-a6b8-b08fea995c80", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 926.847, + 1177.545, + 185.31799999999998, + 45.48900000000003 + ], + "priority": 10, + "parents": [ + 4704 + ], + "children": [], + "area": 1091404.050615, + "iscrowd": 0, + "segmentation": [], + "text": "Mortality:" + }, + { + "id": 4715, + "strid": "e0a0150b-fc7d-4cb3-ba17-3104e842ad42", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 930.4, + 1273.307, + 776.6819999999999, + 188.19299999999998 + ], + "priority": 11, + "parents": [ + 4704 + ], + "children": [ + 4712 + ], + "area": 1184684.8328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4712, + "strid": "ea0bb557-8861-4fc7-8220-7d4eea0cd519", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 936.005, + 1467.265, + 262.65199999999993, + 30.304000000000087 + ], + "priority": 12, + "parents": [ + 4715 + ], + "children": [], + "area": 1373367.376325, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1-Demographics" + }, + { + "id": 4716, + "strid": "3f55929c-59fa-4d56-af34-a79c5cf35b1d", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1768.908, + 1294.022, + 585.2040000000002, + 157.75900000000001 + ], + "priority": 13, + "parents": [ + 4704 + ], + "children": [], + "area": 2289005.8679759996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4717, + "strid": "50a2e635-56f8-434f-bf30-5a584a04aeb3", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 913.837, + 1566.152, + 734.598, + 486.05999999999995 + ], + "priority": 14, + "parents": [ + 4704 + ], + "children": [ + 4713 + ], + "area": 1431207.645224, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4713, + "strid": "195222bc-bcef-4846-a9f6-82c473e0b261", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 927.222, + 2059.43, + 516.0420000000001, + 30.972999999999956 + ], + "priority": 15, + "parents": [ + 4717 + ], + "children": [], + "area": 1909548.8034599999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2-Crude and under five mortality rates" + }, + { + "id": 4718, + "strid": "660c737a-6885-4277-b1c2-d8185ca670d6", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1672.524, + 1566.462, + 734.0129999999999, + 486.56399999999985 + ], + "priority": 16, + "parents": [ + 4704 + ], + "children": [ + 4714 + ], + "area": 2619945.290088, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4714, + "strid": "51ef6fec-d3fc-4a0c-bc03-d0b4471efbfb", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1681.513, + 2060.022, + 342.6590000000001, + 29.134000000000015 + ], + "priority": 17, + "parents": [ + 4718 + ], + "children": [], + "area": 3463953.773286, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3-Mortality rate by sex" + }, + { + "id": 4724, + "strid": "2e4d4acd-ed0d-4d0b-b61a-f0e85c0242d0", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 915.51, + 2127.031, + 732.511, + 484.24299999999994 + ], + "priority": 18, + "parents": [ + 4704 + ], + "children": [ + 4722 + ], + "area": 1947318.15081, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4722, + "strid": "16597820-7ac7-46ca-ba3e-b1e81b64d563", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 926.598, + 2618.292, + 483.615, + 30.213000000000193 + ], + "priority": 19, + "parents": [ + 4724 + ], + "children": [], + "area": 2426104.130616, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4 — Main cause of death in all ages" + }, + { + "id": 4725, + "strid": "2c0f9b91-7f28-4820-b7ab-573bb5ad36d2", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1673.193, + 2126.062, + 732.905, + 483.74699999999984 + ], + "priority": 20, + "parents": [ + 4704 + ], + "children": [ + 4723 + ], + "area": 3557312.0559659996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4723, + "strid": "95dd4fc5-e596-40fd-b01e-899bbca0910b", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1681.445, + 2618.85, + 705.5380000000002, + 30.126999999999953 + ], + "priority": 21, + "parents": [ + 4725 + ], + "children": [], + "area": 4403452.2382499995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5 - Main cause of death in all children under five years" + }, + { + "id": 4721, + "strid": "f831abc8-eff7-488b-929f-30e616a69a67", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 953.103, + 2749.752, + 411.611, + 435.34400000000005 + ], + "priority": 22, + "parents": [ + 4704 + ], + "children": [], + "area": 2620796.8804559996, + "iscrowd": 0, + "segmentation": [], + "text": "Violence\n\nIn 2016, 4.6% (95% Cl: 4.0,\n5.2) had experienced an\nepisode of violence during\nthe recall period, compared\nto 3.0% (95% Cl: 2.3-3.8) in\n2014\". In both years, the\nleading nature of violence\nexperienced was being\n\nbeaten." + }, + { + "id": 4726, + "strid": "cf44a1f8-315e-47c8-855c-7ef993f7b9f8", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1487.901, + 2708.989, + 924.1800000000001, + 536.3009999999999 + ], + "priority": 23, + "parents": [ + 4704 + ], + "children": [ + 4727 + ], + "area": 4030707.4420890003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4727, + "strid": "1e5dc1c3-e3a2-43f0-ab43-147b5cc5f100", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1492.656, + 3247.689, + 455.807, + 29.96199999999999 + ], + "priority": 24, + "parents": [ + 4726 + ], + "children": [], + "area": 4847682.471984, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6-Nature of violence experienced" + }, + { + "id": 4710, + "strid": "83725c32-fce3-46d8-83ca-e50dc8f267b1", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 920.348, + 3306.512, + 899.79, + 504.6419999999998 + ], + "priority": 25, + "parents": [ + 4704 + ], + "children": [ + 4728 + ], + "area": 3043141.706176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4728, + "strid": "1a5d6586-b5dd-408d-b4d0-e117535f22ef", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 919.203, + 3814.597, + 869.3490000000002, + 30.646000000000186 + ], + "priority": 26, + "parents": [ + 4710 + ], + "children": [], + "area": 3506389.006191, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7-Main symptoms in those ill in the previous two weeks, under 5 years" + }, + { + "id": 4732, + "strid": "83910490-47bb-482b-b26c-6bbb10e1c2c7", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1862.213, + 3393.256, + 510.49599999999987, + 305.80700000000024 + ], + "priority": 27, + "parents": [ + 4704 + ], + "children": [], + "area": 6318965.435528, + "iscrowd": 0, + "segmentation": [], + "text": "Morbidity\n\nIn both 2014\" and 2016\nFever/Malaria, Diarrhoea, and\nRespiratory symptoms were the\nleading causes of morbidity in\nchildren aged less than five years." + }, + { + "id": 4731, + "strid": "854d18a5-1904-4298-bf8c-9a900dc9534e", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 945.125, + 3925.061, + 423.30899999999997, + 558.3700000000003 + ], + "priority": 28, + "parents": [ + 4704 + ], + "children": [], + "area": 3709673.277625, + "iscrowd": 0, + "segmentation": [], + "text": "In 2016, 60.0% (95% Cl:\n55.5, 64.3) of sick\nindividuals sought care ata\nhealth structure compared to\n62.7% (95% Cl: 58.4-67.0)\nin 2014\". In 2016, the\nleading reason for not\nseeking healthcare was\nbecause individuals bought\nmedication at the\nmarket/pharmacy. In 2014\",\nthe leading reason was\nbecause the cost of the\nconsultation was prohibitive." + }, + { + "id": 4730, + "strid": "ca361fea-d429-40fd-99b7-a80e2a0973df", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1454.785, + 3898.026, + 952.7589999999998, + 577.6930000000002 + ], + "priority": 29, + "parents": [ + 4704 + ], + "children": [ + 4729 + ], + "area": 5670789.7544100005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4729, + "strid": "f9724106-9e66-45f6-8386-8d02738fbaa7", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1452.373, + 4481.849, + 501.80600000000004, + 31.548999999999978 + ], + "priority": 30, + "parents": [ + 4730 + ], + "children": [], + "area": 6509316.477677001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 8-Reasons for not seeking healthcare" + }, + { + "id": 4705, + "strid": "8b4320f6-8b5a-42d7-b268-32faf7846027", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2527.851, + 1113.161, + 298.2359999999999, + 49.71199999999999 + ], + "priority": 31, + "parents": [ + 4740 + ], + "children": [ + 4738, + 4736, + 4737, + 4735 + ], + "area": 2813905.147011, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 4735, + "strid": "f349ea16-5e57-4f01-a749-393b490d5d53", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2528.242, + 1177.101, + 600.0520000000001, + 135.95800000000008 + ], + "priority": 32, + "parents": [ + 4705 + ], + "children": [], + "area": 2975996.1864420003, + "iscrowd": 0, + "segmentation": [], + "text": "Reduction in mortality rate can be\nattributed to improved security and\nimproved access to healthcare." + }, + { + "id": 4736, + "strid": "4ff77d06-f556-4967-a46f-af6b9b90c90d", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2527.529, + 1363.738, + 744.3719999999998, + 371.7070000000001 + ], + "priority": 33, + "parents": [ + 4705 + ], + "children": [], + "area": 3446887.343402, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4737, + "strid": "679bc6d5-67fd-49fd-a026-a20891d30534", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2526.617, + 1783.678, + 741.3589999999999, + 1238.9999999999998 + ], + "priority": 34, + "parents": [ + 4705 + ], + "children": [], + "area": 4506671.157326001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4738, + "strid": "ffa0f9fc-4b73-42c5-a950-6df404ab0b1c", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2526.844, + 3042.074, + 735.6680000000001, + 590.027 + ], + "priority": 35, + "parents": [ + 4705 + ], + "children": [], + "area": 7686846.434456, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4707, + "strid": "98eb61ce-76e7-49ff-ab9d-c23526f14de1", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2527.73, + 3765.847, + 303.4369999999999, + 51.43100000000004 + ], + "priority": 36, + "parents": [ + 4740 + ], + "children": [ + 4739 + ], + "area": 9519044.43731, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 4739, + "strid": "44a2f5ec-d959-4ea3-8f3e-0d283e1f80ce", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2526.59, + 3849.991, + 739.194, + 649.8850000000002 + ], + "priority": 37, + "parents": [ + 4707 + ], + "children": [], + "area": 9727348.76069, + "iscrowd": 0, + "segmentation": [], + "text": "A dramatic decrease in both crude and\nunder-five mortality was observed in Fizi\nHZ between 2014 and 2016. This can be\nattributed to multiple factors including\nimproved security, increased health\nservice coverage, and improved water and\nsanitation. Despite this decrease, mortality\nrates continue to lie above emergency\nthresholds and the main causes of death\nand morbidity continue to be fever\n/malaria, diarrhoea and respiratory\ninfections. The MSF iCCM/PSH\nprogramme is targeting these morbidities\nin an effort to reduce mortality in Fizi HZ." + }, + { + "id": 4706, + "strid": "dc0647ae-ff90-48cb-a433-35888a5bee81", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.418, + 4252.617, + 421.15199999999993, + 48.789999999999964 + ], + "priority": 38, + "parents": [ + 4740 + ], + "children": [ + 4733 + ], + "area": 397270.974906, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 4733, + "strid": "180767ae-c745-449d-b6da-2984b20e0b03", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 93.892, + 4304.709, + 677.0989999999999, + 197.85599999999977 + ], + "priority": 39, + "parents": [ + 4706 + ], + "children": [], + "area": 404177.73742799996, + "iscrowd": 0, + "segmentation": [], + "text": "A Lenglet, AJ Willis, K Bil, and J Mandelkow\nperformed the 2014 mortality survey. We also\nacknowledge the Ministry of Health, South\nKivu; the survey teams; the South Kivu\nMission; and the people of Fizi Health Zone." + }, + { + "id": 4734, + "strid": "3cefb042-1927-4950-b9e8-b8615e8332d2", + "image_id": 200695, + "image_name": "10631.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 64.637, + 4547.841, + 2632.451, + 98.05299999999988 + ], + "priority": 40, + "parents": [ + 4740 + ], + "children": [], + "area": 293958.798717, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6178, + "strid": "2aad5c02-bcb4-4e4e-b87e-a9643137247c", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 3892.51, + 389.85, + 125.78999999999996, + 143.76 + ], + "priority": -1, + "parents": [], + "children": [ + 6175, + 6172, + 6176, + 6173, + 6174, + 6171 + ], + "area": 1517495.0235000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6172, + "strid": "8ed56c7f-f03a-4f2c-be06-6a8eef7a13a0", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 60.802, + 101.418, + 3015.8, + 123.91 + ], + "priority": 1, + "parents": [ + 6178 + ], + "children": [], + "area": 6166.417236, + "iscrowd": 0, + "segmentation": [], + "text": "Genomic signatures to guide gastric cancer chemotherapy" + }, + { + "id": 6171, + "strid": "5141456e-adb1-4451-b046-80adf9832e41", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 122.874, + 290.029, + 2036.0159999999998, + 267.972 + ], + "priority": 2, + "parents": [ + 6178 + ], + "children": [], + "area": 35637.023346, + "iscrowd": 0, + "segmentation": [], + "text": "Zhengdeng Lei*, Hong Hu, George Chlipala, Pinal Kanabar,\nMorris Chukhman and Mark Maienschein-Cline\n\n*Correspondence: zlei2@uic.edu Center for Research Informatics, University of Illinois at Chicago" + }, + { + "id": 6173, + "strid": "107283c8-d363-441d-94cb-a6ef70936186", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 577.975, + 624.26, + 289.5, + 63.648000000000025 + ], + "priority": 3, + "parents": [ + 6178 + ], + "children": [ + 6161 + ], + "area": 360806.67350000003, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 6161, + "strid": "6e5d9fba-2ce4-4d99-b4c9-91edb98b7758", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 72.985, + 729.572, + 1271.766, + 696.917 + ], + "priority": 4, + "parents": [ + 6173 + ], + "children": [], + "area": 53247.81242, + "iscrowd": 0, + "segmentation": [], + "text": "In the past years, scientists have been searching for genomic signatures\nto guide the use of chemotherapeutics. We have witnessed the Duke\nUniversity’s scandal [1], but also the successfully story of Oncotype Dx\ntest [2]. In the present study, we are going to use machine learning\ntechnology to investigate if the genomic signatures derived from gastric\ntumors can guide the chemotherapy. We validate the results in multiple\npatient cohorts. Previously, We have identified three subtypes of gastric\ncancer based on gene expression of gastric tumors [8]. The three\nidentified subtypes are termed as: \"Mesenchymal (Angiogenic)\",\n\"Proliferative\", and \"Metabolic\". In the current study, we re-confirmed that\nmetabolic subtype patients benefited from 5-fluorouracil (5-FU)\nchemotherapy, and proposed that proliferative subtype patients would\npotentially benefit from taxane (paclitaxel), and mesenchymal subtype\npatients might benefit from angiogenesis inhibitors or PISK/ATK/mTOR\ninhibitors." + }, + { + "id": 6175, + "strid": "5c4a395e-7214-4e37-bb76-df47c8d19820", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 492.822, + 1570.344, + 424.76200000000006, + 66.25199999999995 + ], + "priority": 5, + "parents": [ + 6178 + ], + "children": [ + 6162, + 6169, + 6170 + ], + "area": 773900.070768, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 6162, + "strid": "b55b8a13-0e6e-4a52-b326-bf18f2c0f47e", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 70.555, + 1659.3, + 1276.192, + 380.289 + ], + "priority": 6, + "parents": [ + 6175 + ], + "children": [], + "area": 117071.9115, + "iscrowd": 0, + "segmentation": [], + "text": "Gastric cancer remains one of most commonly diagnosed cancers and\none of most deadly cancers worldwide. Gene expression profiling of\ngastric tumors has been proved useful in identification of molecular\nsubtypes of gastric cancer. Previously, we have identified three subtypes\nof gastric cancer termed: “Mesenchymal (Angiogenic)”, “Proliferative���,\nand “Metabolic”. These subtypes show distinct biological properties and\nresponses to chemotherapy and targeted agents.\n\nGastric cancer patients" + }, + { + "id": 6169, + "strid": "21d45f68-c449-4f96-a4ff-05cf39ca4767", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 187.29, + 2049.69, + 888.279, + 865.904 + ], + "priority": 7, + "parents": [ + 6175 + ], + "children": [], + "area": 383886.4401, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6170, + "strid": "7dae500b-cb5b-4f55-87a4-0bfea6a68eb2", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 319.301, + 2946.918, + 675.7180000000001, + 590.694 + ], + "priority": 8, + "parents": [ + 6175 + ], + "children": [], + "area": 940953.864318, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6174, + "strid": "8d26666d-3896-4354-b4fb-cc4b4a1e1d48", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1973.628, + 638.054, + 254.07100000000014, + 65.52599999999995 + ], + "priority": 9, + "parents": [ + 6178 + ], + "children": [ + 6167, + 6166, + 6168, + 6177, + 6165, + 6164 + ], + "area": 1259281.2399119998, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 6164, + "strid": "42d240fa-7938-4f67-aa8b-cd8447ec603b", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1443.231, + 749.357, + 1326.914, + 1208.507 + ], + "priority": 10, + "parents": [ + 6174 + ], + "children": [], + "area": 1081495.252467, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6167, + "strid": "2cb287fd-e75e-457d-b79a-237c30e195d0", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1444.752, + 2047.452, + 1277.6, + 1391.711 + ], + "priority": 11, + "parents": [ + 6174 + ], + "children": [], + "area": 2958060.3719039997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6165, + "strid": "e53bb150-b3b9-48d8-a6ef-683272fa6a1e", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2854.364, + 646.791, + 1259.7000000000003, + 570.5569999999999 + ], + "priority": 12, + "parents": [ + 6174 + ], + "children": [], + "area": 1846176.945924, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6177, + "strid": "bc8184dd-14a2-48f8-be9e-321860abad9e", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2854.979, + 1233.147, + 1225.8290000000002, + 419.93499999999995 + ], + "priority": 13, + "parents": [ + 6174 + ], + "children": [], + "area": 3520608.7889129994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6166, + "strid": "666eee16-13e3-470d-b8ee-db164ae3b789", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2856.601, + 1662.606, + 1217.188, + 577.269 + ], + "priority": 14, + "parents": [ + 6174 + ], + "children": [], + "area": 4749401.962206, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6168, + "strid": "b13efcc4-0964-46e8-ba36-35879a543a3c", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2961.763, + 2300.287, + 1038.19, + 510.145 + ], + "priority": 15, + "parents": [ + 6174 + ], + "children": [], + "area": 6812904.925980999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 6176, + "strid": "3f66ceaf-f7f9-49b9-9441-43f59ba55938", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3302.119, + 2904.469, + 371.2130000000002, + 65.60500000000002 + ], + "priority": 16, + "parents": [ + 6178 + ], + "children": [ + 6163 + ], + "area": 9590902.269811, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 6163, + "strid": "8a196861-2e8c-43ce-8a36-78f2c32e55bc", + "image_id": 200749, + "image_name": "10784.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2836.904, + 3012.599, + 1288.5880000000002, + 245.34000000000015 + ], + "priority": 17, + "parents": [ + 6176 + ], + "children": [], + "area": 8546454.153496, + "iscrowd": 0, + "segmentation": [], + "text": "We confirmed metabolic subtype gastric cancer patients benefited from\n5-FU chemotherapy. We had other evidence to show that proliferative\nsubtype patients would potentially benefit from taxane (paclitaxel), and\nmesenchymal subtype patients might benefit from angiogenesis inhibitors\nor PI3K/ATK/mTOR inhibitors." + }, + { + "id": 142583, + "strid": "aa6dd329-9d0f-4ed8-8d07-12fc35f79f59", + "image_id": 206039, + "image_name": "17058.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 42.73, + 65.35, + 110.05000000000001, + 179.55 + ], + "priority": -1, + "parents": [], + "children": [ + 142556, + 142555, + 142559, + 142558, + 142560, + 142557, + 142561 + ], + "area": 2792.4054999999994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142555, + "strid": "45d52162-fdf2-441e-8240-40ce29df7ef3", + "image_id": 206039, + "image_name": "17058.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 193.736, + 41.305, + 4408.559, + 251.45599999999996 + ], + "priority": 1, + "parents": [ + 142583 + ], + "children": [], + "area": 8002.265479999999, + "iscrowd": 0, + "segmentation": [], + "text": "A combined machine learning and glycomics analysis for the identification and\ndiscrimination of plant gum species used in historical artworks" + }, + { + "id": 142556, + "strid": "7ad5a97d-202d-41ac-a48f-5e3847859a83", + "image_id": 206039, + "image_name": "17058.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 228.992, + 313.277, + 4339.016, + 267.599 + ], + "priority": 2, + "parents": [ + 142583 + ], + "children": [], + "area": 71737.926784, + "iscrowd": 0, + "segmentation": [], + "text": "Narasimhan Balakrishnant, Amra Aksamija**, Clara Granzotto?, Ken Sutherland?, Neda Bagheri*\n\n1 - Chemical and Biological Engineering, Northwestern University, 2 - Department of Conservation and Science, Art Institute of Chicago,\n3 - Center for Scientific Studies in the Arts, Northwestern University & Art Institute of Chicago, 4 - Depts. 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MSF?, Bissau, Guinea-Bissau" + }, + { + "id": 4743, + "strid": "cb09e86b-c135-474b-9bc2-cd1b8ad8ddb7", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 125.48, + 1220.357, + 317.629, + 46.60200000000009 + ], + "priority": 3, + "parents": [ + 4773 + ], + "children": [ + 4759, + 4750 + ], + "area": 153130.39636, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 4750, + "strid": "fd26cf04-eda4-45ab-bbf2-23dbe2de82fc", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 122.745, + 1365.513, + 677.96, + 879.3499999999999 + ], + "priority": 4, + "parents": [ + 4743 + ], + "children": [], + "area": 167609.893185, + "iscrowd": 0, + "segmentation": [], + "text": "In Guinea-Bissau, West African\ncountry malaria is the leading morbidity\nand cause of mortality due to diseases\nin children under 5years old.\n(http:/Awww.who.int/countries/gnb/en/).\n\nMSF OCBA in Guinea-Bissau since\n2014 in collaboration with the MoH is\ncarrying out several health programs\namong which the seasonal malaria\nchemoprevention strategy.\n\nBased on the WHO recommendation\nand considering the opportunity of its\ninterventions, MSF designed the\nSeasonal Malaria Chemoprevention\n(SMC) strategy aiming to reduce\nmainly the burden of malaria in\nchildren under five years old in Bafata\nregion." + }, + { + "id": 4759, + "strid": "b9d4de25-7a08-4e9c-a8ba-ce61332671d4", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 82.74, + 2293.675, + 758.486, + 571.3600000000001 + ], + "priority": 5, + "parents": [ + 4743 + ], + "children": [], + "area": 189778.6695, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4748, + "strid": "f1a61a66-b712-4765-8670-e522f5b9d832", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 5, + 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+ { + "id": 4761, + "strid": "fd40f11d-7a04-495b-8fdc-67951ec54ab5", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2551.0, + 1869.944, + 738.2440000000001, + 504.0239999999999 + ], + "priority": 28, + "parents": [ + 4746 + ], + "children": [], + "area": 4770227.144, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 4747, + "strid": "306abc62-9240-47f2-9764-6c12aed8da18", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2569.094, + 2506.263, + 298.6010000000001, + 47.29500000000007 + ], + "priority": 29, + "parents": [ + 4773 + ], + "children": [ + 4752 + ], + "area": 6438825.235722, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 4752, + "strid": "741a0762-3bc2-40fa-9ba5-537f8c36b638", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2565.865, + 2587.43, + 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SMC as part of the malaria\ncontrol tools contributes where indicated\nto mitigate the burden of this lethal\ndisease.\n\nThis SMC implementation, first\nexperience in Guinea-Bissau with its\ngood outcomes, has triggered\nenthusiastically the MoH whom staffs\nhave been trained in Gabu region by\nMSF in order to extend it to other\nregions." + }, + { + "id": 4749, + "strid": "2d1b51df-58f7-4828-8999-0ced788d30ee", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.849, + 4629.36, + 523.608, + 59.34900000000016 + ], + "priority": 31, + "parents": [ + 4773 + ], + "children": [ + 4758 + ], + "area": 573341.60664, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 4758, + "strid": "2dccdb03-ddab-446c-a0a9-de09efcefb9f", + "image_id": 200696, + "image_name": "10632.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 123.927, + 4714.121, + 3070.621, + 39.80799999999999 + ], + "priority": 32, + "parents": [ + 4749 + ], + "children": [], + "area": 584206.873167, + "iscrowd": 0, + "segmentation": [], + "text": "We kindly appreciate the collaboration of Ministry of Health of Guinea Bissau and the job done by all the community members and health care workers to make this SMC possible." + }, + { + "id": 28796, + "strid": "78fbc672-0960-477c-9609-04c73c17e1e3", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 781.87, + 335.68, + 362.06000000000006, + 201.14000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 28771, + 28764, + 28768, + 28765, + 28770, + 28794, + 28769, + 28767, + 28766, + 28763 + ], + "area": 262458.1216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28763, + "strid": "2f1262cf-79c3-47c6-98bb-45084e845960", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1232.994, + 60.565, + 3133.603, + 97.80700000000002 + ], + "priority": 1, + "parents": [ + 28796 + ], + "children": [], + "area": 74676.28160999999, + "iscrowd": 0, + "segmentation": [], + "text": "Conceptualizatiarrot molecular findingsby mining gene annatations" + }, + { + "id": 28764, + "strid": "8f66fb38-8df6-4cbb-aa58-9b93baae6958", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 2087.92, + 185.314, + 1417.0550000000003, + 275.82500000000005 + ], + "priority": 2, + "parents": [ + 28796 + ], + "children": [], + "area": 386920.80688, + "iscrowd": 0, + "segmentation": [], + "text": "Vicky Chen, MS, and Xinghua Lu, MD, PhD\nUniversity of Pittsburgh\nDepartment of Biomedical Informatics" + }, + { + "id": 28765, + "strid": "fc5e45d5-170b-4b32-b28b-870b655e4578", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 843.544, + 650.954, + 300.986, + 58.605999999999995 + ], + "priority": 3, + "parents": [ + 28796 + ], + "children": [ + 28774, + 28772, + 28775, + 28773 + ], + "area": 549108.340976, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 28772, + "strid": "af947e61-2bd7-4274-bd30-4f56a4602a3b", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 189.441, + 743.382, + 1630.934, + 511.5079999999999 + ], + "priority": 4, + "parents": [ + 28765 + ], + "children": [], + "area": 140827.029462, + "iscrowd": 0, + "segmentation": [], + "text": "background: Contemporary genome-scale studies often return a long\nlist of genes of potential interest. A challenging task is to reveal the\nmajor functional themes the genes are involved in at a conceptual level.\nThe Gene Ontology (GO) is an ontology representing molecular biology\nconcepts related to genes and their products, and current annotations\nfrom the GO Consortium be highly specific. There is a need for tools\nthat reveal the major functional themes through mining and representing\nsemantic information of genes in an objective and quantitative manner." + }, + { + "id": 28773, + "strid": "665ff9e4-b4f4-46cd-bd63-e99797437cdb", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 185.615, + 1297.064, + 1635.069, + 457.914 + ], + "priority": 5, + "parents": [ + 28765 + ], + "children": [], + "area": 240754.53436000002, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: In this study, we utilized the organization of the GO to derive\na more abstract representation of the major biological processes of a list\nof genes based on their annotations. We cast the task as follows: given a\nlist of genes, identify non-disjoint, functionally coherent subsets, such\nthat the functions of the genes in a subset are summarized by an\ninformative GO term that accurately captures the semantic information\nof the original annotations." + }, + { + "id": 28774, + "strid": "1a1d0b8f-e057-49f9-8333-0bc7739398a1", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 188.243, + 1791.174, + 1632.143, + 387.64699999999993 + ], + "priority": 6, + "parents": [ + 28765 + ], + "children": [], + "area": 337175.967282, + "iscrowd": 0, + "segmentation": [], + "text": "Results: We evaluated different metrics for assessing information loss\nwhen merging GO terms, and different statistical schemes to assess the\nfunctional coherence of a gene set. We found that the best discriminative\npower was achieved by using a combination of the information-content-\nbased measure as the information loss metric, and graph-based statistics\nderived from a Steiner tree connecting genes in an augmented GO graph." + }, + { + "id": 28775, + "strid": "86d4561d-d923-4f87-b5ae-d16737fa6953", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 188.438, + 2214.803, + 1630.708, + 189.80999999999995 + ], + "priority": 7, + "parents": [ + 28765 + ], + "children": [], + "area": 417353.0477139999, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions: Our methods provide an objective and quantitative\napproach to capturing the major directions of gene functions in a\ncontext-specific fashion." + }, + { + "id": 28771, + "strid": "276a9cba-5ad3-4fa4-8d14-d1752d9b319c", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 791.873, + 2476.737, + 403.80099999999993, + 73.82799999999997 + ], + "priority": 8, + "parents": [ + 28796 + ], + "children": [ + 28785, + 28786, + 28784 + ], + "area": 1961261.158401, + "iscrowd": 0, + "segmentation": [], + "text": "GOGrapher" + }, + { + "id": 28784, + "strid": "07cb4b51-b03d-4241-a882-9df02ea2275c", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 183.159, + 2575.003, + 1343.6779999999999, + 240.25300000000016 + ], + "priority": 9, + "parents": [ + 28771 + ], + "children": [], + "area": 471634.974477, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28785, + "strid": "eb717d4b-1601-4d29-88b3-c18293116e7d", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 183.533, + 2841.081, + 1634.492, + 253.2510000000002 + ], + "priority": 10, + "parents": [ + 28771 + ], + "children": [], + "area": 521432.119173, + "iscrowd": 0, + "segmentation": [], + "text": "Fach node represents a GO term, each edge represents the relationship\nbetween two terms, and edge weights represent term distances. Semantic\ndistance denotes the different in semantic meaning of concepts. Gene-\nbased distance denotes the amount of genes shared between concepts." + }, + { + "id": 28786, + "strid": "3118bf22-5ef2-4b51-9154-e1d4e917d4b8", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 156.561, + 3107.304, + 848.227, + 247.15999999999985 + ], + "priority": 11, + "parents": [ + 28771 + ], + "children": [ + 28787 + ], + "area": 486482.62154400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28787, + "strid": "d9d55969-22b3-4f70-862a-6d69470d86b1", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1033.432, + 3113.612, + 789.685, + 229.7779999999998 + ], + "priority": 12, + "parents": [ + 28786 + ], + "children": [], + "area": 3217706.276384, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Examples of term weight measures\n\nA) The distance measured using information content (IC)\nis greater for terms that have a smaller number of shared\ngenes. B) The distance measured through KL divergence\nfor information bottleneck (IB) is greater for word\ndistributions that differ more." + }, + { + "id": 28766, + "strid": "3fce21ea-3cab-4113-9409-7b95a324784f", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2317.706, + 642.641, + 1000.029, + 76.543 + ], + "priority": 13, + "parents": [ + 28796 + ], + "children": [ + 28776, + 28777 + ], + "area": 1489452.901546, + "iscrowd": 0, + "segmentation": [], + "text": "Measuring Information Loss" + }, + { + "id": 28777, + "strid": "86c7db25-d9b6-40bd-a552-bcca89931a72", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1996.446, + 723.372, + 1634.159, + 252.139 + ], + "priority": 14, + "parents": [ + 28766 + ], + "children": [], + "area": 1444173.1359119997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28776, + "strid": "8c75c14d-bdaa-414e-b2e8-5a65b6f03731", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1999.772, + 988.467, + 1627.6369999999997, + 488.15 + ], + "priority": 15, + "parents": [ + 28766 + ], + "children": [], + "area": 1976708.629524, + "iscrowd": 0, + "segmentation": [], + "text": "We also tried augmenting graphs by connecting nodes with shared genes.\n\nFunctional Coherence\n\nFunctional coherence is a measure of how closely related the functions\nassociated with a group of genes are. We use this to determine the\nprobability of a given amount of information loss occurring at random.\nThe means and variances used to calculate the probability were\ngenerated from repeated sampling of random genes of different set sizes." + }, + { + "id": 28768, + "strid": "ae2634f9-260c-4f7a-b3d1-1685de4e8e04", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2305.789, + 1521.656, + 963.5660000000003, + 72.42699999999991 + ], + "priority": 16, + "parents": [ + 28796 + ], + "children": [ + 28782, + 28781 + ], + "area": 3508617.666584, + "iscrowd": 0, + "segmentation": [], + "text": "Term Distance Comparison" + }, + { + "id": 28782, + "strid": "ffb9644b-8623-4429-b1fa-2190ae3842c6", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2001.224, + 1609.497, + 1632.8750000000002, + 314.0620000000001 + ], + "priority": 17, + "parents": [ + 28768 + ], + "children": [], + "area": 3220964.024328, + "iscrowd": 0, + "segmentation": [], + "text": "We investigated the characteristics of the different distance measures to\ndetermine which best assessed information loss. We found that the edge\nweight distributions are dominated by edges with short distances. The IB\ndistribution is dominated by outliers while IC has a more consistent\ndecrease in distance over level." + }, + { + "id": 28781, + "strid": "2a05030b-a3a6-4db4-b71e-e70cfb567671", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1980.012, + 1930.225, + 1672.8280000000002, + 342.8130000000001 + ], + "priority": 18, + "parents": [ + 28768 + ], + "children": [ + 28783 + ], + "area": 3821868.6626999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28783, + "strid": "86b68112-1e5c-4200-b24d-55c6a25f8192", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1990.133, + 2276.8, + 1651.622, + 148.64600000000019 + ], + "priority": 19, + "parents": [ + 28781 + ], + "children": [], + "area": 4531134.8144000005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Distribution of edge weights\n\nBoth A and B are organized with the IB-based edge weight plot on the left and the IC-based edge weight plot on the right.\nA) Distribution of the shortest 90% of edges in the entire graph. B) Boxplots of the edge weight distribution organized\naccording to the level of edge. where level 0 contains edges that connected to root." + }, + { + "id": 28770, + "strid": "2751e550-7642-4de6-8a06-a524916503bb", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2504.401, + 2472.024, + 652.2260000000001, + 72.49099999999999 + ], + "priority": 20, + "parents": [ + 28796 + ], + "children": [ + 28789, + 28788 + ], + "area": 6190939.3776239995, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluating Metrics" + }, + { + "id": 28788, + "strid": "e17165ef-6188-4453-9af6-908d9808545d", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1999.292, + 2552.831, + 1629.882, + 319.2669999999998 + ], + "priority": 21, + "parents": [ + 28770 + ], + "children": [], + "area": 5103854.595652, + "iscrowd": 0, + "segmentation": [], + "text": "We tried information loss and distance metrics combinations to\ndetermine which had the highest discriminative power. Human KEGG\npathways were used as coherent gene sets and randomly drawn gene sets\nwere non-coherent. The results indicate that the combination of IC and\nSteiner tree on an augmented GO graph performs the best." + }, + { + "id": 28789, + "strid": "55ad2672-e64b-44c8-a4f0-fab250184502", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1981.58, + 2876.083, + 1672.759, + 341.4960000000001 + ], + "priority": 22, + "parents": [ + 28770 + ], + "children": [ + 28790 + ], + "area": 5699188.55114, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28790, + "strid": "529db06a-ac6c-4548-a0c0-4c2cf67ae82d", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1990.354, + 3223.132, + 1646.9659999999997, + 155.10800000000017 + ], + "priority": 23, + "parents": [ + 28789 + ], + "children": [], + "area": 6415173.6687280005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Example distributions of statistics and discriminative power of coherence models\n\nA) Statistics derived from KEGG gene sets (red), the matched random gene sets (blue), and random gene sets for\ncoherence model building (green) were plotted. On the right is the corresponding ROC curve. B) Scatterplot of the graph-\nbased statistics and ROC curve of the model using IC and Steiner tree length based on an augmented GO graph." + }, + { + "id": 28767, + "strid": "173e9d68-c1ea-4d71-a68c-e03d8692f18a", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3829.873, + 649.955, + 1395.0719999999997, + 55.24400000000003 + ], + "priority": 24, + "parents": [ + 28796 + ], + "children": [ + 28778, + 28780 + ], + "area": 2489245.105715, + "iscrowd": 0, + "segmentation": [], + "text": "Finding multiple function aspects in KEGG pathways" + }, + { + "id": 28778, + "strid": "7bbf0946-f077-4204-b05b-ea7fc0e39a50", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3832.452, + 711.814, + 811.2439999999997, + 642.9529999999999 + ], + "priority": 25, + "parents": [ + 28767 + ], + "children": [], + "area": 2727992.987928, + "iscrowd": 0, + "segmentation": [], + "text": "We investigated if it made sense to\ntreat a large KEGG pathway as\ncoherent. One pathway we looked\nat was the MAPK - signaling\npathway. Our. model returned\nmultiple subsets reflecting different\nfunctions these genes participate in.\nTherefore, it is sensible that our\nmodel treated the full gene set as\nnot-coherent." + }, + { + "id": 28780, + "strid": "9ac31e61-7f26-4c55-8537-c9309ab9fc79", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4673.362, + 701.008, + 804.9610000000002, + 677.5429999999999 + ], + "priority": 26, + "parents": [ + 28767 + ], + "children": [ + 28779 + ], + "area": 3276064.1488960003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28779, + "strid": "68950215-c600-4660-9914-d1797b9a47c4", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3839.472, + 1403.788, + 1618.1380000000004, + 164.89699999999993 + ], + "priority": 27, + "parents": [ + 28780 + ], + "children": [], + "area": 5389804.719936, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. A KEGG pathway containing genes involved in multiple processes\n\nThe MAPK signaling pathway (hsa04010) is shown. Two functionally coherent subsets are highlighted. The genes\nsummarized by GO:0023014 (Signal transduction by phosphorylation) are in green and GO:0006915 (Apoptotic process)\nare in blue. Genes involved in both biological processes are in yellow." + }, + { + "id": 28769, + "strid": "ecaf8517-0f14-4134-970b-b1cd333a72dd", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3925.291, + 1662.207, + 1411.6109999999999, + 75.62999999999988 + ], + "priority": 28, + "parents": [ + 28796 + ], + "children": [ + 28791, + 28792 + ], + "area": 6524646.177237, + "iscrowd": 0, + "segmentation": [], + "text": "Application in Real World Data Analysis" + }, + { + "id": 28791, + "strid": "49a7940b-5be1-42d5-ba27-8cd2e08bb687", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3831.728, + 1758.329, + 1633.8109999999997, + 826.3779999999999 + ], + "priority": 29, + "parents": [ + 28769 + ], + "children": [], + "area": 6737438.4625119995, + "iscrowd": 0, + "segmentation": [], + "text": "We identified a list of differentially expressed genes 1n ovarian cancer to\ncompare our methods with original GO annotations, GO enrichment\nanalysis, and GO slim mapping. We plotted the distribution of the terms\nbased on their level. The results show that summarizing terms identified\nby our method tend to be more specific than GO slims, and more general\nthan original and enriched annotations while covering more genes.\n\nProtein-protein interaction evaluation\n\nTo support the notion that the our model measures functional coherence,\nwe assessed the functional relatedness of the proteins in a subset using\nthe within module PPI ratio. We applied our model using 3 different p-\nvalue cutoff thresholds. The results indicate that our metric agrees with\nanother metric reflecting the functional coherence of genes." + }, + { + "id": 28792, + "strid": "aaee611d-f253-4fe5-b7ef-773179b230ec", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3823.63, + 2587.657, + 1654.969, + 385.3879999999999 + ], + "priority": 30, + "parents": [ + 28769 + ], + "children": [ + 28793 + ], + "area": 9894242.934910001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 28793, + "strid": "d074f9e5-d0dc-4ab7-ae0e-5082c2c9516f", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3834.725, + 2985.207, + 1647.1199999999994, + 224.46099999999979 + ], + "priority": 31, + "parents": [ + 28792 + ], + "children": [], + "area": 11447447.913075, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Distribution of genes and average within module PPI associated with summarizing GO terms\nA) Boxplots of the distribution of number of genes associated per term under five different conditions: original GO\nannotation, enriched GO annotations, our method with a p-value < 0.01 and 0.05 thresholds, and the Generic GO slim. B)\nPlot of the proportion of terms per level in the GO hierarchy under the five conditions. C) Plots of the average within\nmodule PPI ratio for the summarizing terms that resulted from different thresholds of merging the AMIGO GO Slim tool.\nThe whisker denotes the calculated standard error." + }, + { + "id": 28794, + "strid": "09109424-2118-4188-8302-e8bc2312f22f", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4413.654, + 3290.456, + 464.52700000000004, + 39.49499999999989 + ], + "priority": 32, + "parents": [ + 28796 + ], + "children": [ + 28795 + ], + "area": 14522934.286224002, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledaements" + }, + { + "id": 28795, + "strid": "899980be-9f22-48e9-9c50-20b4cdcecae0", + "image_id": 201636, + "image_name": "117439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3835.395, + 3337.05, + 1555.6250000000005, + 31.13700000000017 + ], + "priority": 33, + "parents": [ + 28794 + ], + "children": [], + "area": 12798904.884750001, + "iscrowd": 0, + "segmentation": [], + "text": "This work has been supported in part by the NLM training grant 5TI5LM00709 and research grant ROI LM OIII55." + }, + { + "id": 36513, + "strid": "f55266d8-5c1f-4a9f-bb1b-25ac420ebb47", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 38.58, + 30.33, + 221.76, + 155.23000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 36504, + 36496, + 36507, + 36485, + 36509, + 36479, + 36483, + 36510, + 36493, + 36508, + 36505, + 36486, + 36484, + 36478, + 36482, + 36481, + 36506, + 36495, + 36480, + 36503 + ], + "area": 1170.1314, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36478, + "strid": "ad215d66-f72a-42fb-8df6-c019979903fb", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 932.424, + 65.429, + 1632.5550000000003, + 247.46900000000002 + ], + "priority": 1, + "parents": [ + 36513 + ], + "children": [], + "area": 61007.569896, + "iscrowd": 0, + "segmentation": [], + "text": "VerySNP: VCF features to train\nSVM in crop SNP detection" + }, + { + "id": 36479, + "strid": "e08d0c2a-4b3b-4696-87b8-97034f637fed", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 121.071, + 394.772, + 3305.738, + 206.224 + ], + "priority": 2, + "parents": [ + 36513 + ], + "children": [], + "area": 47795.440812, + "iscrowd": 0, + "segmentation": [], + "text": "Lorena Leonardelli', Alessandro Cestaro’, Carmen M Livi?, Patrice This*, Charles Romieu*, Enrico Blanzieri?, Claudio Moser’\n\n1 Research and Innovation Centre, Fondazione Edmund Mach, Via Mach 1, 38010 San Michele all'Adige, Italy. /orena.leonardelli@fmach. it\n2 DISI, University of Trento, Via Sommarive 18, I-38050 Povo-Trento, Italy.\n3 Montpellier SupAgro - INRA, Unité Mixte de Recherche Amélioration et Génétique de I'Adaptation des Plantes, Montpellier, France" + }, + { + "id": 36480, + "strid": "e4f472a3-79a4-435a-9781-04eaf94867a8", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 63.218, + 693.775, + 929.672, + 58.10500000000002 + ], + "priority": 3, + "parents": [ + 36513 + ], + "children": [ + 36490, + 36498, + 36497, + 36500, + 36512, + 36511 + ], + "area": 43859.067950000004, + "iscrowd": 0, + "segmentation": [], + "text": "Support Vector Machine (SVM) training" + }, + { + "id": 36490, + "strid": "54c13df7-f1f6-462b-b2ed-07fe87e81ee0", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 86.717, + 808.616, + 1047.335, + 675.547 + ], + "priority": 4, + "parents": [ + 36480 + ], + "children": [], + "area": 70120.75367199999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36500, + "strid": "4e9b14cc-04ab-4aec-8b0b-348ce7f86d2a", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 18.801, + 1561.265, + 821.641, + 726.483 + ], + "priority": 5, + "parents": [ + 36480 + ], + "children": [], + "area": 29353.343265, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36512, + "strid": "5f43d27f-34b7-4a93-967a-9111d73a6c1b", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 873.128, + 1654.723, + 431.32399999999996, + 518.123 + ], + "priority": 6, + "parents": [ + 36480 + ], + "children": [], + "area": 1444784.983544, + "iscrowd": 0, + "segmentation": [], + "text": "SVM is an efficient and reliable\nmachine learning method to\ndistinguish categorical data; it\nseparates the positive and\nnegative training data by\nconstructing a linear classifier or a\nnon-linear classifier with a kernel\nfunction. Based on training\nfeatures, SVM represents the\ndata as points in space, where the\ndata belong to two categories\n(positive and negative) divided by\na gap that is as wide as possible." + }, + { + "id": 36498, + "strid": "4c3b4079-c086-4523-9d97-8e481fd1996b", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 39.169, + 2342.511, + 1872.877, + 505.288 + ], + "priority": 7, + "parents": [ + 36480 + ], + "children": [], + "area": 91753.81335899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36511, + "strid": "2cc755d4-2a4f-4ef4-8c1d-816e8d1a6b1f", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1165.253, + 1121.216, + 986.7300000000002, + 1175.1770000000001 + ], + "priority": 8, + "parents": [ + 36480 + ], + "children": [], + "area": 1306500.3076479998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36497, + "strid": "7c100fe6-5e1a-42f0-8462-33e54a00577b", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2229.419, + 1541.87, + 1282.3959999999997, + 1282.3959999999997 + ], + "priority": 9, + "parents": [ + 36480 + ], + "children": [ + 36501 + ], + "area": 3437474.2735299994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36501, + "strid": "f63bf2f1-179a-4500-9d49-1e63e659870e", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2699.245, + 1485.431, + 791.2159999999999, + 52.5920000000001 + ], + "priority": 10, + "parents": [ + 36497 + ], + "children": [], + "area": 4009542.199595, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. VCF features description" + }, + { + "id": 36481, + "strid": "6827ab97-348f-44bd-9ff7-31c2e2fd328a", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1385.488, + 692.204, + 433.4280000000001, + 56.53399999999999 + ], + "priority": 11, + "parents": [ + 36513 + ], + "children": [ + 36491 + ], + "area": 959040.335552, + "iscrowd": 0, + "segmentation": [], + "text": "MyAlignment.bam" + }, + { + "id": 36491, + "strid": "ea3c3728-2dab-4201-8789-31194a54d765", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1202.759, + 795.96, + 774.088, + 263.3029999999999 + ], + "priority": 12, + "parents": [ + 36481 + ], + "children": [], + "area": 957348.05364, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36482, + "strid": "697a52ab-60d0-47bf-8f33-689dc39f0650", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2936.715, + 698.806, + 546.4319999999998, + 44.06700000000001 + ], + "priority": 13, + "parents": [ + 36513 + ], + "children": [ + 36499 + ], + "area": 2052194.0622900003, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 36499, + "strid": "440b1780-6e3f-47bf-9c49-5151c378fb97", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2056.691, + 776.191, + 1436.81, + 666.5519999999999 + ], + "priority": 14, + "parents": [ + 36482 + ], + "children": [], + "area": 1596385.0439809998, + "iscrowd": 0, + "segmentation": [], + "text": "Although next generation sequencing (NGS) technologies are increasing genomic information at unprecedented\npace, still the application of NGS data to in silico SNP identification is problematic. Major problems come from the\ninaccurate mapping of data on reference genome (either due to the short average read length or poor base quality)\nand from distortion respect to the sample population, due to biases from the chosen sequence technology or from\nreverse DNA transcription and PCR processes required to generate cDNA libraries.\n\nEfficient approaches are thus needed to distinguish real polymorphisms from the abundant sequencing artefacts.\nSeveral SNP/variant predictors have been developed since the NGS advent and the most popular to process large-\nscale datasets are the mpileup function in SAMtools package (Li et a/., 2009) and UnifiedGenotyper in GATK\n(Genome Analysis ToolKit; McKenna et al., 2010), which are binomial-based methods. GATK includes also the\nVariant Quality Score Recalibration (VQSR; DePristo et a/., 2011), which is a machine-learning technique based on\nknown true SNP sites and fits new potential SNPs into a multidimensional Gaussian distribution. Even though those\ntools accurately call true variants, they still show high false positive polymorphism prediction. Quite recently, the\napplication of a Supported Vector Machine (SVM; Vapnik, 1998) approach has been proven to be efficient to reduce\nfalse positive SNP predictions (O’Fallon et al., 2013).\n\nVerySNP is a tool that applies an SVM approach to VCF files highlighting the use of VCF information as SVM\ntraining features (Table 1) to detect true SNPs in crop genomes." + }, + { + "id": 36483, + "strid": "b45c21cf-0651-42bb-9403-311535e0d06b", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 959.679, + 2875.54, + 565.8269999999999, + 47.3130000000001 + ], + "priority": 15, + "parents": [ + 36513 + ], + "children": [ + 36492, + 36487 + ], + "area": 2759595.3516599997, + "iscrowd": 0, + "segmentation": [], + "text": "Results and Discussion" + }, + { + "id": 36487, + "strid": "8184d5dd-aa60-441b-b203-6ee4c1224fd6", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 55.829, + 2944.193, + 1494.359, + 413.6489999999999 + ], + "priority": 16, + "parents": [ + 36483 + ], + "children": [], + "area": 164371.350997, + "iscrowd": 0, + "segmentation": [], + "text": "VerySNP training takes as input the positive and negative SNP sets and builds a model, based on the VCF features, to\nseparate the known data into two classes. The 10-fold-cross validation estimates the model performance in terms of\naccuracy, specificity, sensitivity and precision. Among the 10 proposed models the best performing one is applied to\nunknown data, for instance if a list of candidate SNPs in VCF file is the model input, then the output provided is the very\nsame list of polymorphisms classified as true (+1) and false (-1) variants.\n\nVerySNP was tested using positive and negative SNPs coming from Pinot Noir ENTAV 115 genome and validated by\nSNPlex (Pindo et a/., 2008) and a set of paired-end reads from Illumina sequencing technology. Once that Illumina reads\nwere aligned we obtained a VCF files from 3 different strategies (mpileup by SAMtools, UnifiedGenotyper by GATK and\nVQSR by GATK); and then we applied our software to all the 3 sets of predictions improving the predictions of 96.6 % in\nprecision and 92.3 % of accuracy (Table 2)." + }, + { + "id": 36492, + "strid": "a00d58ff-924a-4e84-8c26-d8d119053ff6", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1592.07, + 2956.366, + 597.4059999999997, + 519.2829999999999 + ], + "priority": 17, + "parents": [ + 36483 + ], + "children": [], + "area": 4706741.61762, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36496, + "strid": "3348fa53-90e6-4ab2-ac31-ec95307cfd22", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2421.641, + 2983.729, + 1091.219, + 198.79300000000012 + ], + "priority": 18, + "parents": [ + 36513 + ], + "children": [ + 36502 + ], + "area": 7225520.479289, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36502, + "strid": "ae00a399-eb91-4871-b85a-ade89baabcb2", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2614.496, + 2911.376, + 884.4830000000002, + 54.659000000000106 + ], + "priority": 19, + "parents": [ + 36496 + ], + "children": [], + "area": 7611780.9064960005, + "iscrowd": 0, + "segmentation": [], + "text": "Table 2. SVM 10-fold cross validation" + }, + { + "id": 36495, + "strid": "d05389ac-bdaf-43e9-bdcf-ba4ed60fd281", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2510.311, + 3213.986, + 961.0740000000001, + 231.6869999999999 + ], + "priority": 20, + "parents": [ + 36513 + ], + "children": [], + "area": 8068104.409646, + "iscrowd": 0, + "segmentation": [], + "text": "Sensitivi TP TP\nensiti = isj =\nnsitivity TP + EN Precision = TP + FP\n\nTN TP +TN\n\nSpecificity = — pp Accuracy = a5 aN+ FP + FN" + }, + { + "id": 36484, + "strid": "485ddf2a-d1d1-4d62-80e8-8324d86196b1", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1254.673, + 3355.723, + 271.7940000000001, + 42.38999999999987 + ], + "priority": 21, + "parents": [ + 36513 + ], + "children": [ + 36488 + ], + "area": 4210335.043579, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 36488, + "strid": "c294aa57-89ab-47fc-8eac-24687cd72dcc", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.284, + 3430.087, + 1491.14, + 234.21799999999985 + ], + "priority": 22, + "parents": [ + 36484 + ], + "children": [], + "area": 196489.103708, + "iscrowd": 0, + "segmentation": [], + "text": "SNP prediction is.a challenging operation especially in non-model organisms, which are really problematic due to the\nlack of large validated set and the high complexity of the genome sequence. For those reasons we provide a software\nthat helps the researcher in handling the valuable information of VCF files by means of an SVM approach. Once the 10\nfold cross-validation is completed the scientist will be able to choose the proper model for his dataset, visualizing the\nefficiency of each model with the training data sets or to use the best performing model for his dataset. Finally, the\nsystem is ready to be applied to unknown data the user needs to analyse." + }, + { + "id": 36485, + "strid": "a842f2dc-49ae-49b6-b20c-0ed27e46f9c4", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 584.843, + 3693.708, + 935.3630000000002, + 50.483999999999924 + ], + "priority": 23, + "parents": [ + 36513 + ], + "children": [ + 36489 + ], + "area": 2160239.267844, + "iscrowd": 0, + "segmentation": [], + "text": "Future Work with FruitBreedomics data" + }, + { + "id": 36489, + "strid": "1a8c648d-739a-4d98-87ce-fe443dd32b94", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 53.833, + 3772.219, + 1491.105, + 480.41700000000037 + ], + "priority": 24, + "parents": [ + 36485 + ], + "children": [], + "area": 203069.86542699998, + "iscrowd": 0, + "segmentation": [], + "text": "VerySNP has been designed to identify mutation in vegetal genomes given the high complexity of those sequences.\nWhile plants have a totally different evolutionary history from the other two most studied kingdoms, animals and\nmicroorganisms, the interest in crops is exponentially rising as consequence of biological problems caused by climate\nchanges and the increasing social demand of a more sustainable production. The enhancement of fruit quality and crops\nresistance to biotic stress are major purposes in the modern agricultural field, where the first solution would come from a\nmore efficient fruit breeding, which is strategic but limited in tree breeding: long term, low efficiency and hence high cost.\nIn this scenario the European project FruiBreedomics takes place suggesting to bridge the existing gap between\nscientific molecular genetics research and application in breeding and although FruiBreedomics initially focused on\napple and peach as major fruits in Europe, results will be extended to other rosaceae fruit tree species. VerySNP has the\npotential to help the scientific molecular genetics research in finding the most likely true variants in Apple’s genome,\nthanks to the availability of a big amount of data collected in the FruiBreedomics project, retrieved through 18K SNP-chip\nanalysis. FruitBreedomics has already planned to produce other two chip, 18K and 300K, respectively." + }, + { + "id": 36493, + "strid": "f14d626d-3fcd-4140-aadb-07a973a8a38e", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1231.489, + 4258.737, + 301.05099999999993, + 409.70799999999963 + ], + "priority": 25, + "parents": [ + 36513 + ], + "children": [], + "area": 5244587.769393, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 36503, + "strid": "7ca302d0-4d70-446a-8011-3291bec6ac06", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1660.25, + 3614.374, + 237.63100000000009, + 324.1959999999999 + ], + "priority": 26, + "parents": [ + 36513 + ], + "children": [], + "area": 6000764.433499999, + "iscrowd": 0, + "segmentation": [], + "text": "Exploring\nVerySNP\nefficiency in\ndifferent\ndepth of\n\ncoverage —" + }, + { + "id": 36504, + "strid": "a2b88199-55ca-4e12-86c4-903bb0c51ddb", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2020.091, + 3566.848, + 312.31500000000005, + 298.7359999999999 + ], + "priority": 27, + "parents": [ + 36513 + ], + "children": [], + "area": 7205357.543168, + "iscrowd": 0, + "segmentation": [], + "text": "Application of\nVerySNP to\n11 cultivars of\nApple (Fruit\nBreedomics) |" + }, + { + "id": 36505, + "strid": "fc4ba4b1-f471-41a8-9050-7da3760d36d0", + "image_id": 201941, + "image_name": "117910.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2685.457, + 3682.269, + 281.76200000000017, + 319.1039999999998 + ], + "priority": 28, + "parents": [ + 36513 + ], + "children": [], + "area": 9888575.061933, + "iscrowd": 0, + "segmentation": [], + "text": "Application of\nVerySNP to\n14 cultivars of\nGrapevine\n(Sean Myles\n— 2010) ~" + }, + { + "id": 36506, + "strid": "54025ecc-b547-4fbf-a84a-ba73c5f98329", + "image_id": 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"6889be2b-5540-4285-ba40-94803ac56581", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1079.428, + 693.343, + 3496.38, + 181.63 + ], + "priority": 2, + "parents": [ + 94818 + ], + "children": [], + "area": 748413.847804, + "iscrowd": 0, + "segmentation": [], + "text": "Mark Berry’, Emma Albee’, Seth Benz’, Rebecca Cole-Will’, Abe Miller-Rushing’, Hannah Webber’, Bill Zoellick’.\n1. Schoodic Institute at Acadia National Park, 2. National Park Service" + }, + { + "id": 94794, + "strid": "863b0bda-97f6-4131-8205-91ee077e13dd", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 668.845, + 990.005, + 344.418, + 78.76799999999992 + ], + "priority": 3, + "parents": [ + 94818 + ], + "children": [ + 94800, + 94817, + 94808, + 94801, + 94802, + 94810, + 94809 + ], + "area": 662159.894225, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 94800, + "strid": "f26e1883-c24f-4b7e-b054-162526430c8e", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 140.004, + 1136.386, + 1386.663, + 346.20000000000005 + ], + "priority": 4, + "parents": [ + 94794 + ], + "children": [], + "area": 159098.58554399997, + "iscrowd": 0, + "segmentation": [], + "text": "Schoodic Institute at Acadia National Park is a nonprofit with a\nfocus on connecting people to nature through science research and\neducation. Schoodic Institute and Acadia National Park partner in\nmanagement of the Schoodic Education and Research Center, one of\n20 National Park Service Research Learning Centers around the\nnation." + }, + { + "id": 94808, + "strid": "81ed60e8-2a0a-4fcf-be34-2dd9418493e8", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 116.342, + 1543.671, + 1436.271, + 757.2369999999999 + ], + "priority": 5, + "parents": [ + 94794 + ], + "children": [], + "area": 179593.771482, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94801, + "strid": "45c9bdbb-56ef-49a2-a386-7f4350b084c7", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.142, + 2364.839, + 1364.328, + 595.614 + ], + "priority": 6, + "parents": [ + 94794 + ], + "children": [], + "area": 326683.589138, + "iscrowd": 0, + "segmentation": [], + "text": "Citizen science is our approach to integrating meaningful research\nand education experiences in support of Acadia National Park’s\npriority of understanding and responding to rapid environmental\nchange. Together with university researchers and many other\npartners, Schoodic Institute and Acadia National Park are\ndeveloping a diverse portfolio of citizen science projects. Our\npublic-private partnership provides room for innovation and testing\nof new approaches. Acadia provides a powerful opportunity to\nconnect with a wide audience, and the National Park Service can be\na vehicle for bringing successful approaches to national scale." + }, + { + "id": 94809, + "strid": "fda85d03-d663-4328-9857-a2b008be6a5e", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 108.712, + 2978.035, + 1453.438, + 341.424 + ], + "priority": 7, + "parents": [ + 94794 + ], + "children": [], + "area": 323748.14092, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94802, + "strid": "fc79b254-5b2f-4f88-98eb-9e01e71a8db6", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.142, + 3355.047, + 1358.744, + 595.614 + ], + "priority": 8, + "parents": [ + 94794 + ], + "children": [], + "area": 463472.902674, + "iscrowd": 0, + "segmentation": [], + "text": "In a series of posters, we will present the following selected efforts\nof our partnerships to 1) integrate and coordinate multiple citizen\nscience projects and engage diverse audiences, 2) improve teaching\nand data literacy to support desired educational outcomes for\nteachers, students, or diverse volunteers in citizen science, 3)\nleverage historical, lost, or overlooked citizen science records to\nenhance current research, and 4) connect citizen science research\nwith natural resource management in a National Park. In\n\neach poster we present the challenges faced when balancing the\nneeds of stakeholders, and the solutions we’re developing together." + }, + { + "id": 94810, + "strid": "449ec9b1-c592-40ce-b025-8ab5aeeafa5c", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 124.505, + 3958.438, + 1433.83, + 694.2929999999997 + ], + "priority": 9, + "parents": [ + 94794 + ], + "children": [], + "area": 492845.32318999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94817, + "strid": "9ac133e6-8fd8-4229-8a91-92e0a04de507", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1678.535, + 942.431, + 704.162, + 1076.545 + ], + "priority": 10, + "parents": [ + 94794 + ], + "children": [], + "area": 1581903.418585, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94795, + "strid": "596922b3-076f-44ea-b7c3-f1a23bcc8283", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2618.559, + 988.387, + 1241.0950000000003, + 189.38200000000006 + ], + "priority": 11, + "parents": [ + 94818 + ], + "children": [ + 94814, + 94807, + 94815, + 94816 + ], + "area": 2588149.674333, + "iscrowd": 0, + "segmentation": [], + "text": "Synergies across projects with\ndiverse audiences" + }, + { + "id": 94807, + "strid": "3c6ba645-629a-4f22-8db6-1f91e13da38e", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2536.471, + 1213.941, + 1328.364, + 530.269 + ], + "priority": 12, + "parents": [ + 94795 + ], + "children": [], + "area": 3079126.142211, + "iscrowd": 0, + "segmentation": [], + "text": "Schoodic Institute and Acadia National Park are integrating related citizen\nscience projects that engage different audiences - e.g., one-day visitors,\nweek-long intensive volunteer project participants, and year-round\nvolunteers. The projects are intertwined and synergistic, and are all aimed\nat helping the park understand and respond to rapid environmental\nchanges. This diversity of citizen science volunteer opportunities provides\nmany points of entry for new volunteers, options for volunteers to apply\nskills learned in one project to other projects, and opportunities to learn\nnew topics and skills. The diversity of projects provides concrete\nscientific, education, and management benefits to the national park." + }, + { + "id": 94816, + "strid": "e37befa7-e8f3-4fa8-a535-3f813410af49", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2564.729, + 1788.67, + 503.7220000000002, + 245.92499999999995 + ], + "priority": 13, + "parents": [ + 94795 + ], + "children": [], + "area": 4587453.82043, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94815, + "strid": "7e2b90a6-9b68-46a2-ac13-eae637d175a8", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3328.63, + 1788.324, + 509.6039999999998, + 251.3119999999999 + ], + "priority": 14, + "parents": [ + 94795 + ], + "children": [], + "area": 5952668.91612, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94814, + "strid": "3fe31e9c-225c-4225-8318-fd662df21d26", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4001.121, + 962.253, + 714.3769999999995, + 1058.7669999999998 + ], + "priority": 15, + "parents": [ + 94795 + ], + "children": [], + "area": 3850090.6856130003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94796, + "strid": "c520923d-0cb2-4a78-a3f6-cfe1ce708149", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1767.26, + 2076.874, + 1371.64, + 91.93299999999999 + ], + "priority": 16, + "parents": [ + 94818 + ], + "children": [ + 94805 + ], + "area": 3670376.3452399997, + "iscrowd": 0, + "segmentation": [], + "text": "Data literacy in schools and parks" + }, + { + "id": 94805, + "strid": "f861242a-be88-4370-ba92-b28d73da5ec1", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1783.525, + 2199.184, + 1328.165, + 628.8510000000001 + ], + "priority": 17, + "parents": [ + 94796 + ], + "children": [], + "area": 3922299.6436000005, + "iscrowd": 0, + "segmentation": [], + "text": "The educational goals for many citizen science programs include\nimproved science literacy. Opportunities are frequently lost when the\nanalysis of scientific data is left to professional researchers. The Maine\nData Literacy Project was created to help teachers and students in citizen\nscience partnerships develop abilities to answer their own questions with\nthe data they collect. Recently we have expanded our data literacy focus\nto the Dragonfly Mercury project, which is a National Park Service-wide\ninitiative engaging citizen scientists in ~50 national parks in the collection\nof dragonfly larvae from park waterbodies. This initiative is an example\nof a project pioneered through partnership between Schoodic Institute,\nAcadia National Park, and the University of Maine, and now expanded to\na national scale." + }, + { + "id": 94797, + "strid": "f6c556ac-65c4-4afe-b914-a2815f1120c3", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3363.216, + 2089.744, + 1176.7419999999997, + 97.44900000000007 + ], + "priority": 18, + "parents": [ + 94818 + ], + "children": [ + 94806 + ], + "area": 7028260.456704, + "iscrowd": 0, + "segmentation": [], + "text": "Reviving dark citizen science" + }, + { + "id": 94806, + "strid": "79897bc4-7019-42bb-8e8d-3daf4ac2c380", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3283.195, + 2192.537, + 1306.8929999999996, + 632.8400000000001 + ], + "priority": 19, + "parents": [ + 94797 + ], + "children": [], + "area": 7198526.515714999, + "iscrowd": 0, + "segmentation": [], + "text": "Attics, museums, and many other places are full of valuable observations\nfrom past amateur naturalists, hunters, fishermen, gardeners, and others.\nThese often-overlooked records are invaluable to study how species,\nlandscapes, and the environment have changed. Acadia National Park’s\ncollections contain over one million plant and animal specimens,\nphotographs, reports, field notebooks, maps, and other documents and\nobjects. We have begun, with the help of volunteers, to digitize these\nspecimens and records, extract key data, and make them freely available\nin an online database. One of these projects has shown that the park has\nlost nearly 20% of its flora over the past 100 years, instigating new\nresearch to understand why these losses occurred and to identify species\nthat are likely vulnerable to current and future environmental changes." + }, + { + "id": 94798, + "strid": "19520866-d0c7-4125-9af5-d9ced79a05ff", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2568.916, + 3005.397, + 1264.998, + 207.76800000000003 + ], + "priority": 20, + "parents": [ + 94818 + ], + "children": [ + 94813, + 94804, + 94811, + 94812 + ], + "area": 7720612.439652001, + "iscrowd": 0, + "segmentation": [], + "text": "Connecting citizen science and\nresource management" + }, + { + "id": 94804, + "strid": "f5ddb3c9-cd28-4f07-981d-a06215f82eca", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2533.36, + 3220.236, + 1330.824, + 634.1689999999999 + ], + "priority": 21, + "parents": [ + 94798 + ], + "children": [], + "area": 8158017.0729600005, + "iscrowd": 0, + "segmentation": [], + "text": "Schoodic Institute and Acadia National Park are engaged in connecting\ncitizen science with natural resource management. The Park is bringing a\nmore deliberate, holistic, and adaptive approach to resource management,\nwith a focus on restoring natural resilience to rapid environmental\nchanges. We find that citizen science can be a key component to collect\nthe data necessary to improve management decisions and can contribute to\nrestoration and management projects. Citizen science may enhance our\nability to base management on science, in part because the process of\nengaging volunteers helps to engage other park staff, too. We plan to\ncontinue integrating citizen science as a key component of the park’s\nadaptive management and restoration activities related to rapid\nenvironmental change." + }, + { + "id": 94811, + "strid": "527ddaa9-7f84-4435-b2a4-8e31f9d7302d", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1680.289, + 2918.217, + 701.0930000000001, + 1812.114 + ], + "priority": 22, + "parents": [ + 94798 + ], + "children": [], + "area": 4903447.924713, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94812, + "strid": "4391a3e0-297c-4bdf-80d6-b676e4b79760", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2450.342, + 3942.53, + 1497.259, + 226.73900000000003 + ], + "priority": 23, + "parents": [ + 94798 + ], + "children": [], + "area": 9660546.845260002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94813, + "strid": "1881c83a-a311-4007-a379-624057502faf", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4005.775, + 2930.861, + 707.3960000000002, + 1300.7709999999997 + ], + "priority": 24, + "parents": [ + 94798 + ], + "children": [], + "area": 11740369.722275, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94799, + "strid": "87c72f4a-e9ea-432b-94c8-7a4e8a6ae2bc", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2571.017, + 4250.957, + 1260.795, + 80.11300000000028 + ], + "priority": 25, + "parents": [ + 94818 + ], + "children": [ + 94803 + ], + "area": 10929282.713269, + "iscrowd": 0, + "segmentation": [], + "text": "Contributions in citizen science" + }, + { + "id": 94803, + "strid": "bfa4d582-6510-4814-b2b7-3a4cf39cb25c", + "image_id": 204167, + "image_name": "121562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2534.69, + 4350.306, + 1300.246, + 369.60000000000036 + ], + "priority": 26, + "parents": [ + 94799 + ], + "children": [], + "area": 11026677.115139998, + "iscrowd": 0, + "segmentation": [], + "text": "The Institute is engaged in other initiatives and partnerships, including\nintegration and visualization of citizen science data, contributing to\ngrowth of the field and creating professional development opportunities.\nThe Institute, through its staff, its facilities, and its partnerships, is a\nconvener and an innovator. We are grateful to our partners in the Citizen\nScience Association and the many other leaders in the field. Specific\npartners are acknowledged on our other posters." + }, + { + "id": 199334, + "strid": "5ff9a94f-c353-4591-bff2-01f1d9c02a5b", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 63.51, + 10.53, + 160.10000000000002, + 65.03999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 199324, + 199322, + 199329, + 199326, + 199331, + 199320, + 199318, + 199319 + ], + "area": 668.7602999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199318, + "strid": "320e65d9-57ed-46df-b83f-dafacb735ada", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 340.803, + 49.52, + 1978.342, + 262.733 + ], + "priority": 1, + "parents": [ + 199334 + ], + "children": [], + "area": 16876.564560000003, + "iscrowd": 0, + "segmentation": [], + "text": "GenePattern Notebooks\n\nAn integrative analytical environment for genomic research" + }, + { + "id": 199319, + "strid": "5b246a02-e70b-4883-8ee9-7b45bd979ab1", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 3548.423, + 220.687, + 1190.353, + 82.40300000000002 + ], + "priority": 2, + "parents": [ + 199334 + ], + "children": [], + "area": 783090.826601, + "iscrowd": 0, + "segmentation": [], + "text": "Michael Reich, Thorin Tabor, Peter Carr, David Eby,\nHelga Thorvaldsdottir, Barbara Hill, Ted Liefeld, Pablo Tamayo, Jill P. Mesirov" + }, + { + "id": 199320, + "strid": "b9e4b3d8-db48-4b9e-97b1-d136a1514a7f", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 259.631, + 408.132, + 322.788, + 70.856 + ], + "priority": 3, + "parents": [ + 199334 + ], + "children": [ + 199321 + ], + "area": 105963.719292, + "iscrowd": 0, + "segmentation": [], + "text": "SETH UAH TITY" + }, + { + "id": 199321, + "strid": "f5a81dcc-39b9-4d1b-969d-940890928494", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 198.0, + 510.773, + 1175.564, + 1308.092 + ], + "priority": 4, + "parents": [ + 199320 + ], + "children": [], + "area": 101133.054, + "iscrowd": 0, + "segmentation": [], + "text": "As the availability of genetic and genomic data and\nanalysis tools from large-scale scientific initiatives\ncontinues to increase, the need has become more\nurgent for a software environment that supports the\nentire “idea to dissemination” cycle of an integrative\nelena eee Tare INA CS\n\nTo address these needs, we have developed\nGenePattern Notebook, based on the GenePattern\nenvironment for integrative genomics and the Jupyter\nNotebook system.\n\nGenePattern Notebook presents a familiar lab\nnotebook format that allows researchers to build a\nrecord of their work by creating “cells” containing text,\ngraphics, or executable analyses. Researchers add,\ndelete, and modify cells as the research evolves.\n\nWhen an analysis is ready for publication, the same\ndocument that was used in the design and analysis\nphases becomes a research narrative that interleaves\ntext, graphics, data, and executable analyses, serving as\nthe complete, reproducible, in silico methods section for\na publication." + }, + { + "id": 199322, + "strid": "da8eed20-d760-4798-84c6-341933813b98", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 276.916, + 1930.796, + 500.24099999999993, + 73.86699999999996 + ], + "priority": 5, + "parents": [ + 199334 + ], + "children": [ + 199323 + ], + "area": 534668.305136, + "iscrowd": 0, + "segmentation": [], + "text": "Available Analyses" + }, + { + "id": 199323, + "strid": "39bd0408-f258-44b0-a312-604c9764455c", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 193.239, + 2032.963, + 1172.086, + 1140.2859999999998 + ], + "priority": 6, + "parents": [ + 199322 + ], + "children": [], + "area": 392847.737157, + "iscrowd": 0, + "segmentation": [], + "text": "Users of GenePattern Notebooks have access to all\nanalyses supported by GenePattern, including their\nown custom workflows:\n\nGene Expression. Microarray/RNA-seq data + gene set\nenrichment analysis (GSEA) « differential analysis +\nTuxedo suite » RNASeQC « Picard - SAMtools -\nPreprocessing of Affymetrix, Agilent, and Illumina data\n\nProteomics. Peak detection, spectrum analysis,\npreprocessing, etc. for LC-MS, SELDI, and MALDI data.\n\nSNP and Copy Number. Visualize LOH, indels, and other\nlarge-scale events + GISTIC « Estimate copy number for a\nSNP marker » Segment copy number data\n\nMachine Learning. Clustering (hierarchical, k-means,\netc.) « Classification (SVM, regression trees, etc.) «\nDimensionality reduction (PCA, NMF, etc.)" + }, + { + "id": 199324, + "strid": "de22ff0e-6130-4572-bd81-ecf9cf13b764", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1649.312, + 385.025, + 1544.6170000000002, + 77.35500000000002 + ], + "priority": 7, + "parents": [ + 199334 + ], + "children": [ + 199325, + 199333 + ], + "area": 635026.3527999999, + "iscrowd": 0, + "segmentation": [], + "text": "Example Notebook: Identifying Medulloblastoma Subtypes" + }, + { + "id": 199333, + "strid": "54698e2b-5dba-4f92-ad2d-597f9471a27d", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1612.845, + 502.377, + 1543.954, + 225.46999999999997 + ], + "priority": 8, + "parents": [ + 199324 + ], + "children": [], + "area": 810256.2325650001, + "iscrowd": 0, + "segmentation": [], + "text": "This notebook represents an excerpt of the analytical steps and scientific narrative of a recently\npublished work aimed at identifying the link between medulloblastoma subtype and likelihood\nof relapse. Because of the integration of text, graphics, and executable analysis, the notebook\n\ncontains all of the information required to understand, execute, and reproduce the work\ndescribed. 0" + }, + { + "id": 199325, + "strid": "8a2a23de-604a-43aa-a550-429a4a2d37d9", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1606.39, + 767.565, + 1608.5000000000002, + 2632.528 + ], + "priority": 9, + "parents": [ + 199324 + ], + "children": [], + "area": 1233008.74035, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199326, + "strid": "daf8a881-f2fb-49bc-9bea-4fb5a826e207", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3441.343, + 401.214, + 1110.219, + 70.32099999999997 + ], + "priority": 10, + "parents": [ + 199334 + ], + "children": [ + 199327, + 199328 + ], + "area": 1380714.990402, + "iscrowd": 0, + "segmentation": [], + "text": "GenePattern Notebooks Online Repository" + }, + { + "id": 199327, + "strid": "725b6614-0805-449d-84a6-321ce736cab9", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3368.051, + 518.414, + 1314.1650000000004, + 301.462 + ], + "priority": 11, + "parents": [ + 199326 + ], + "children": [], + "area": 1746044.791114, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199328, + "strid": "2afb9652-5b47-475d-9b53-5bc4c3c108e1", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3371.802, + 883.038, + 1313.1749999999997, + 704.6570000000002 + ], + "priority": 12, + "parents": [ + 199326 + ], + "children": [], + "area": 2977429.294476, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199329, + "strid": "de0ffd9c-08a3-42e7-a1c1-de0eeef4973a", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3449.783, + 1745.193, + 1093.8139999999999, + 60.325000000000045 + ], + "priority": 13, + "parents": [ + 199334 + ], + "children": [ + 199330 + ], + "area": 6020537.143119, + "iscrowd": 0, + "segmentation": [], + "text": "GenePattern Notebooks Local Installation" + }, + { + "id": 199330, + "strid": "8594ba68-11be-4840-b040-177725d98677", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3346.962, + 1829.86, + 1335.2990000000004, + 679.6490000000001 + ], + "priority": 14, + "parents": [ + 199329 + ], + "children": [], + "area": 6124471.885319999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 199331, + "strid": "2284d4a4-bb0c-414c-adf2-b256fed2b21c", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3461.822, + 2609.008, + 710.8109999999997, + 75.49800000000005 + ], + "priority": 15, + "parents": [ + 199334 + ], + "children": [ + 199332 + ], + "area": 9031921.292576, + "iscrowd": 0, + "segmentation": [], + "text": "Connecting to GenePattern" + }, + { + "id": 199332, + "strid": "8945f0fd-62af-4436-a9ff-87eed1d548fe", + "image_id": 208304, + "image_name": "9895.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3362.317, + 2699.418, + 1341.857, + 542.0880000000002 + ], + "priority": 16, + "parents": [ + 199331 + ], + "children": [], + "area": 9076299.031506, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111599, + "strid": "4e90aadb-17d7-48ab-ae9a-9552d4bbbc3b", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 58.83, + 450.67, + 221.76, + 258.71999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 111598, + 111582, + 111587, + 111585, + 111583, + 111581, + 111584, + 111586, + 111580 + ], + "area": 26512.9161, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111580, + "strid": "2ed9b068-3c9e-435b-9a5e-5abdb3a6eb4f", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 184.814, + 17.495, + 2487.862, + 296.588 + ], + "priority": 1, + "parents": [ + 111599 + ], + "children": [], + "area": 3233.32093, + "iscrowd": 0, + "segmentation": [], + "text": "Implementation of Bioschemas for multiple\npatient registries" + }, + { + "id": 111581, + "strid": "cdf5e0dc-ecd6-46df-be7e-af9230028409", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 408.512, + 335.098, + 1606.23, + 325.28899999999993 + ], + "priority": 2, + "parents": [ + 111599 + ], + "children": [], + "area": 136891.554176, + "iscrowd": 0, + "segmentation": [], + "text": "K. Joeri van der Velde’, Bart Charbon', Mark de Haan’, Gert- eu el ee\nGeijn', Mateusz Kuzak? and Mt A. rd VA 7\n\n: \\\n)\nbi\n\nSal\n1: University of Groningen and UmeseStis Never! Center\nGroningen, dept of Genetics, Genomics erecta Center.\n2: Dutch Techcentre for Life Sciences, Utrecht." + }, + { + "id": 111582, + "strid": "3caba7a9-0ba5-4fa3-8cf7-259da61868ec", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 70.34, + 797.279, + 893.914, + 90.46100000000001 + ], + "priority": 3, + "parents": [ + 111599 + ], + "children": [ + 111589, + 111588 + ], + "area": 56080.60486, + "iscrowd": 0, + "segmentation": [], + "text": "Background: Bioschemas" + }, + { + "id": 111588, + "strid": "4a216b92-9575-4473-bf67-b03fdcd4f86b", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.452, + 906.092, + 1482.511, + 465.65999999999997 + ], + "priority": 4, + "parents": [ + 111582 + ], + "children": [], + "area": 60211.625583999994, + "iscrowd": 0, + "segmentation": [], + "text": "Bioschemas is a collection of specifications that provide\nguidelines to facilitate a more consistent adoption of\nschema.org markup within the life sciences. Schema.org\ndelivers a way to add semantic markup to web pages. This\nstructured information then makes it easier to discover, collate\nand analyse distributed data. [1] The ELIXIR Bioschemas project\ngoals are to:" + }, + { + "id": 111589, + "strid": "fa0a66e9-193d-4c64-b5b5-dbb0530d36f3", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 63.856, + 1387.486, + 1483.602, + 424.7940000000001 + ], + "priority": 5, + "parents": [ + 111582 + ], + "children": [], + "area": 88599.306016, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111583, + "strid": "5353e49d-2815-466b-a486-0c9d47434a7a", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1621.041, + 796.169, + 878.1789999999999, + 91.70500000000004 + ], + "priority": 6, + "parents": [ + 111599 + ], + "children": [ + 111591, + 111592, + 111590 + ], + "area": 1290622.5919289999, + "iscrowd": 0, + "segmentation": [], + "text": "Background: MOLGENIS" + }, + { + "id": 111590, + "strid": "a24e59a7-5e67-4204-99c4-0680514fbba2", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1611.785, + 905.125, + 1634.7099999999998, + 264.9069999999999 + ], + "priority": 7, + "parents": [ + 111583 + ], + "children": [], + "area": 1458866.898125, + "iscrowd": 0, + "segmentation": [], + "text": "The MOLGENIS platform [2] hosts many databases, amongst which\nmany patient and mutation registries. These databases help clinicians\nand researchers worldwide to gain more insight into the relations\nbetween the genetic variants and symptoms of rare disease patients." + }, + { + "id": 111591, + "strid": "b16084ad-17c3-43c6-98a1-3b9dc9f7c8d5", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1623.783, + 1235.284, + 677.2080000000001, + 595.943 + ], + "priority": 8, + "parents": [ + 111583 + ], + "children": [], + "area": 2005833.159372, + "iscrowd": 0, + "segmentation": [], + "text": "Here we describe how we\nadopted Bioschemas com-\npliant markup for these\nregistries to increase data\nfindability. The data re-\nsources are hosted at the\nGroningen University Medi-\ncal Centre as part of this\nELIXIR project." + }, + { + "id": 111592, + "strid": "4461d608-a8fa-4108-92ae-04eb1413e408", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2305.165, + 1207.503, + 940.8969999999999, + 558.789 + ], + "priority": 9, + "parents": [ + 111583 + ], + "children": [], + "area": 2783493.6529949997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111584, + "strid": "5a42c0f5-d160-4e85-9fc9-7e1c3c1ed424", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 97.244, + 2019.016, + 1327.119, + 84.375 + ], + "priority": 10, + "parents": [ + 111599 + ], + "children": [ + 111594, + 111593 + ], + "area": 196337.191904, + "iscrowd": 0, + "segmentation": [], + "text": "Results: Bioschemas for patient registries" + }, + { + "id": 111593, + "strid": "3a9c01a0-d7d6-4e9e-ba80-2907d8391bd2", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 97.131, + 2121.13, + 1482.361, + 1020.152 + ], + "priority": 11, + "parents": [ + 111584 + ], + "children": [], + "area": 206027.47803, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111594, + "strid": "6cdc6dd1-c290-441b-814d-6e05881c5476", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1631.371, + 2020.051, + 1612.534, + 804.3939999999998 + ], + "priority": 12, + "parents": [ + 111584 + ], + "children": [], + "area": 3295452.619921, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111585, + "strid": "6dc7a2ba-3573-4cba-a19c-fa9bdeff7845", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 96.98, + 3221.351, + 1231.028, + 87.93100000000004 + ], + "priority": 13, + "parents": [ + 111599 + ], + "children": [ + 111595, + 111596 + ], + "area": 312406.61998, + "iscrowd": 0, + "segmentation": [], + "text": "Bioschemas implementation example:" + }, + { + "id": 111595, + "strid": "33ebff46-9e6d-4960-bd27-8a8db0e6ed48", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 130.34, + 3355.177, + 1279.177, + 581.0540000000001 + ], + "priority": 14, + "parents": [ + 111585 + ], + "children": [], + "area": 437313.77018000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111596, + "strid": "2c610a3e-e2af-4a98-a9c7-f8c03b7370a8", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.766, + 3945.686, + 1437.648, + 118.86700000000019 + ], + "priority": 15, + "parents": [ + 111585 + ], + "children": [], + "area": 464667.657476, + "iscrowd": 0, + "segmentation": [], + "text": "Shown: Bioschemas compliant markup in JSON-LD format that was\nadded to the MVID database to make it better search engine findable." + }, + { + "id": 111586, + "strid": "408f541e-117b-4a48-abd5-92227999b09a", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1652.721, + 2931.388, + 374.85199999999986, + 72.08699999999999 + ], + "priority": 16, + "parents": [ + 111599 + ], + "children": [ + 111597 + ], + "area": 4844766.506748, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 111597, + "strid": "e088d910-8a70-42e2-99ba-f71ab8a0b501", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1646.612, + 3038.077, + 1606.571, + 757.6369999999997 + ], + "priority": 17, + "parents": [ + 111586 + ], + "children": [], + "area": 5002534.045124001, + "iscrowd": 0, + "segmentation": [], + "text": "We added structured metadata descriptions to multiple patient\nregistries using BioSchema in JSON+LD format. These metadata first\ndenote name, type, context, organisation and location of the registry.\nThis followed by dataset descriptors that denote type, name,\nidentifiers, keywords and key phenotypes measured. Finally, a\ncontact reference to the data provider is available.\n\nUsing BioSchemas, we have used machine-readable metadata to\nincrease the findability of multiple patient and mutation registries,\nmaking it easier to find and reuse critical information for rare\ndisease patient care and research." + }, + { + "id": 111598, + "strid": "b464853d-f9c2-4ec1-90e1-b83c5132f5eb", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1648.401, + 3886.111, + 1590.483, + 220.89999999999964 + ], + "priority": 18, + "parents": [ + 111599 + ], + "children": [], + "area": 6405869.258511, + "iscrowd": 0, + "segmentation": [], + "text": "References\n\n[2] http:/ http://bioschemas.org [2] Swertz et al, Bioinformatics, 2010. [3] Van den\nAkker et al, Human Mutation 2011. [4] Janssen et al, Human Mutation 2012. [5] Dhekne\net al, Human Mutation 2018. [6] Begum et al, Endocrine Abstracts 2013." + }, + { + "id": 111587, + "strid": "81dc7766-43f9-46f0-b5f5-647b745f208d", + "image_id": 204832, + "image_name": "13221.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 74.705, + 4238.628, + 323.193, + 79.14900000000034 + ], + "priority": 19, + "parents": [ + 111599 + ], + "children": [], + "area": 316646.70473999996, + "iscrowd": 0, + "segmentation": [], + "text": "Contact:" + }, + { + "id": 145359, + "strid": "debfe439-8a28-4abf-b5c8-3b1089c15dda", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2095.52, + 26.12, + 375.46000000000004, + 382.18 + ], + "priority": -1, + "parents": [], + "children": [ + 145337, + 145338, + 145334, + 145335, + 145340, + 145339, + 145336 + ], + "area": 54734.9824, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145334, + "strid": "1b4a70bc-5e0d-4260-bcec-ccfafe444d28", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 73.46, + 317.295, + 1790.155, + 260.19699999999995 + ], + "priority": 1, + "parents": [ + 145359 + ], + "children": [], + "area": 23308.4907, + "iscrowd": 0, + "segmentation": [], + "text": "BasicS T[ARRseq: a Bioconductor R-package\nfor analyzing STARR-seq data" + }, + { + "id": 145335, + "strid": "3a14d51f-b3e4-42a9-a64b-df28b42f6632", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 70.89, + 77.603, + 1754.207, + 166.64099999999996 + ], + "priority": 2, + "parents": [ + 145359 + ], + "children": [], + "area": 5501.276669999999, + "iscrowd": 0, + "segmentation": [], + "text": "Authors: Annika Burger*, Boet van Riel, Frank Rosenbauer, Martin Dugas\n\nInstitute of Medical Informatics, University of Munster, Germany" + }, + { + "id": 145336, + "strid": "3458cfcc-8e28-4d61-8c4b-94ac5b16c4a6", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 136.544, + 925.793, + 408.40700000000004, + 67.39599999999996 + ], + "priority": 3, + "parents": [ + 145359 + ], + "children": [ + 145341 + ], + "area": 126411.47939200001, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 145341, + "strid": "22267814-e6a9-40ab-a249-6e9d0059d96f", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 128.148, + 1039.825, + 1450.645, + 401.0160000000001 + ], + "priority": 4, + "parents": [ + 145336 + ], + "children": [], + "area": 133251.4941, + "iscrowd": 0, + "segmentation": [], + "text": "Self-transcribing active regulatory region sequencing (STARR-seq) was first described in\n2013 by Arnold et al. [Arnold13]. The method allows to identify and quantify enhancer\nregions in non-coding DNA in large scale. In [Arnold13] whole genome in Drosohpila\n(as in [Arnold14] and [Shlyueval4]) and in BAC-Regions of human cells. In [Vanhille15]\ntargeted as CapSTARR-seq in murin cells, the method was reviewed in [Muerdter15]. The\nR-package BasicSTARRseq provides the in [Arnold13] described routine for peak calling\nin STARR-seq data with an alternativ calculation of the p-Value. It is easy to use." + }, + { + "id": 145338, + "strid": "9978bcec-033a-42a6-a4c1-2d7db5b1a276", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 138.1, + 1578.915, + 292.524, + 69.99800000000005 + ], + "priority": 5, + "parents": [ + 145359 + ], + "children": [ + 145343, + 145342, + 145346, + 145344, + 145345 + ], + "area": 218048.1615, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 145342, + "strid": "6ffdfed6-1bb8-4039-9a08-5019c769e528", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.561, + 1693.74, + 1445.436, + 576.637 + ], + "priority": 6, + "parents": [ + 145338 + ], + "children": [], + "area": 224523.86814, + "iscrowd": 0, + "segmentation": [], + "text": "In [Arnold13] the method to call peaks i. e. find enhancer regions in STARR-seq data is\ndescribed but the code was not published.\n\nThe peak calling in the package BasicSTARRseq works the following way: All genomic\npositions having a STARR-seq coverage over a specific quantile (for example 0.9) are\nconsidered to be the center of a peak with a specific width (choosen for example in\ndependence of the average fragment size of the library). If then two ore more potential\npeaks overlap, the lower one is discarded. To estimate the peaks’ reliability, a binomial\np-value is calculated. If it is higher than a before choosen specific p-Value the peak is\ndiscarded as random variation. There is more than one possibility to choose a binomial\n\nmodel for calculating the p-Value. One model is the following:" + }, + { + "id": 145343, + "strid": "e7bb8de9-8025-4db8-b025-23e1960f58e3", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 139.111, + 2296.902, + 1438.3230000000003, + 243.57999999999993 + ], + "priority": 7, + "parents": [ + 145338 + ], + "children": [], + "area": 319524.334122, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145344, + "strid": "bfe3ce31-3489-4ebc-9c84-272a24189594", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.772, + 2565.454, + 292.993, + 38.94999999999982 + ], + "priority": 8, + "parents": [ + 145338 + ], + "children": [], + "area": 340620.458488, + "iscrowd": 0, + "segmentation": [], + "text": "Another model is:" + }, + { + "id": 145345, + "strid": "3feab64c-a75a-4676-9a0a-e6d4fc73daf5", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 142.131, + 2634.206, + 1435.269, + 302.6419999999998 + ], + "priority": 9, + "parents": [ + 145338 + ], + "children": [], + "area": 374402.332986, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145346, + "strid": "d47b5fdb-e158-441a-a144-2c12ae60ed60", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 130.034, + 2960.499, + 1448.228, + 1161.3810000000003 + ], + "priority": 10, + "parents": [ + 145338 + ], + "children": [], + "area": 384965.526966, + "iscrowd": 0, + "segmentation": [], + "text": "While the first model emphasizes the position of the peaks the second attaches more\nimportance to the difference between STARR-seq signal and input signal. Due to the\nfact, that the coverage usally is a lot smaller than the total number of sequences, the\np-values of both models are highly correlated in practice, but not equal.\nThe enrichment of STARR-seq over input coverage is then calculated as follows:\nSTARR-seq coverage of peak\ntotal number of STARR-seq sequences\n\ninput coverage of peak\ntotal number of input sequences\n\nIn [Arnold13] it seems that the numinator and denuminator are corrected conservatively\nto the bounds of the 0.95 binomial confidence interval corresponding to model 1 in this\nformula and the p-value is calculated corresponding to model 2. To let the decision to\nthe user, the package BasicSTARRseq provides both models to calculate the p-value.\n\nBy enrichment value or p-value the user can easily filter the calculated peaks according\nto reliability or height of peak i. e. activity of enhancer.\n\nThe user can choose if the data should be deduplicated before analysis to avoid PCR bias\n(as in [Arnold13, Vanhille15]) but perhaps also lose some by the construction of STARR-\nseq duplicated reads. To adopt the method to targeted sequencing, the minimal quantile\nfrom the first step of the procedure could be down-regulated in respect to target size, to\nnot take into account every sequenced base pair as peak.\n\nBacisSTARRseq includes test datasets extracted from the published data of [Arnold13]." + }, + { + "id": 145337, + "strid": "6088f779-5a94-4cfc-89ab-6b2f3ed6b131", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1750.294, + 925.35, + 238.6500000000001, + 68.72799999999995 + ], + "priority": 11, + "parents": [ + 145359 + ], + "children": [ + 145356, + 145347, + 145351, + 145348, + 145355, + 145352 + ], + "area": 1619634.5529000002, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 145347, + "strid": "8a79d238-8cbe-4318-a894-a0c413bd1951", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1742.129, + 1040.109, + 1448.4809999999998, + 166.625 + ], + "priority": 12, + "parents": [ + 145337 + ], + "children": [], + "area": 1812004.0520609997, + "iscrowd": 0, + "segmentation": [], + "text": "Parts of the in [Arnold13] published row data was processed with BasicSTARRseq to show\nthe funcionality of the package. Published was a list of peaks of the S2 cells annotated\n\nwith fragments of sample, p-value and foldchange sample over input." + }, + { + "id": 145348, + "strid": "c5227be2-5543-4029-824d-9359bdaa984f", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1749.276, + 1373.62, + 643.008, + 395.9680000000001 + ], + "priority": 13, + "parents": [ + 145337 + ], + "children": [ + 145349 + ], + "area": 2402840.49912, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145349, + "strid": "46b09c2c-c357-4242-bd44-a5f41cf5eaef", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1746.942, + 1812.481, + 647.0340000000001, + 63.64300000000003 + ], + "priority": 14, + "parents": [ + 145348 + ], + "children": [], + "area": 3166299.183102, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Comparison published peaks and with BasicSTARRseq\ncalled peaks." + }, + { + "id": 145351, + "strid": "b3925470-3971-492b-b55c-8343f9f67fe3", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2541.618, + 1248.121, + 628.989, + 528.922 + ], + "priority": 15, + "parents": [ + 145337 + ], + "children": [ + 145350 + ], + "area": 3172246.799778, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145350, + "strid": "1bf858c4-8360-4673-9e01-f6c435f46d92", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2539.054, + 1812.26, + 648.3090000000002, + 63.406999999999925 + ], + "priority": 16, + "parents": [ + 145351 + ], + "children": [], + "area": 4601426.00204, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Comparison fragments in published peaks and with Ba-\nsicSTARRsesq called peaks." + }, + { + "id": 145352, + "strid": "150f8792-ddff-4e97-8048-a3ba5079b22c", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1748.464, + 1958.406, + 631.252, + 528.7069999999999 + ], + "priority": 17, + "parents": [ + 145337 + ], + "children": [ + 145353 + ], + "area": 3424202.388384, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145353, + "strid": "3244d1ed-8eb4-4a68-b6cb-57a86b6790aa", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1745.529, + 2525.652, + 650.25, + 61.152000000000044 + ], + "priority": 18, + "parents": [ + 145352 + ], + "children": [], + "area": 4408598.809908, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: Comparison p-value in published peaks and with Basic-\nSTARRsesq called peaks." + }, + { + "id": 145355, + "strid": "f1e38c9c-6417-49fd-a650-267b39f70fa4", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2542.297, + 1961.751, + 627.1669999999999, + 525.2699999999998 + ], + "priority": 19, + "parents": [ + 145337 + ], + "children": [ + 145354 + ], + "area": 4987353.682047, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 145354, + "strid": "d98774a5-88be-49a9-a328-1f948cb35ff3", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2537.428, + 2523.949, + 650.0, + 61.9050000000002 + ], + "priority": 20, + "parents": [ + 145355 + ], + "children": [], + "area": 6404338.863172, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Comparison foldchange in published peaks and with Ba-\nicSTARRsesq called peaks." + }, + { + "id": 145356, + "strid": "cc4ba450-efa9-4ff9-8cb5-9d012322a2d1", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1740.066, + 2648.877, + 1448.327, + 338.36799999999994 + ], + "priority": 21, + "parents": [ + 145337 + ], + "children": [], + "area": 4609220.805882, + "iscrowd": 0, + "segmentation": [], + "text": "The published peak data could not be reproduced 100% but for the most part. The differ-\nences can be due to a slightly different alignment (reference genome dm3) or for example\ndifferent implementations of the binomial distribution. There are 94% of the published\npeaks found back with BasicSTARRseq with at least 99% overlap. The correlation than\nbetween p-value in these peaks is 0.97, between the foldchange (in logscale) 0.99 and\nbetween the fragments 0.98." + }, + { + "id": 145339, + "strid": "96a4dada-7a19-4554-8b13-755b4c67bb5a", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1743.825, + 3175.595, + 279.3799999999999, + 74.67700000000013 + ], + "priority": 22, + "parents": [ + 145359 + ], + "children": [ + 145357 + ], + "area": 5537681.950875, + "iscrowd": 0, + "segmentation": [], + "text": "Outlook" + }, + { + "id": 145357, + "strid": "3b1e789f-25a7-4849-9090-49ab0270f80c", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1741.157, + 3293.666, + 1447.9330000000002, + 284.36400000000003 + ], + "priority": 23, + "parents": [ + 145339 + ], + "children": [], + "area": 5734789.611562, + "iscrowd": 0, + "segmentation": [], + "text": "Quality controls and visualization routines for comparing different replicates, and for com-\nparison of experiment data and target regions are planned for the package. As well\nplausibility checks or further explorative analysis through comparison functions of range\ntracks of other analysis (like peak lists of CHiP-seq data, but also other data chosen by\n\nthe user)." + }, + { + "id": 145340, + "strid": "ae9afa46-db61-4bb0-8e8a-7eb8abf6e493", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1749.426, + 3739.83, + 357.654, + 73.6909999999998 + ], + "priority": 24, + "parents": [ + 145359 + ], + "children": [ + 145358 + ], + "area": 6542555.83758, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 145358, + "strid": "77fb4340-5832-4b25-a4bf-cd4379193a62", + "image_id": 206144, + "image_name": "18330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1745.986, + 3848.932, + 1442.928, + 275.72100000000046 + ], + "priority": 25, + "parents": [ + 145340 + ], + "children": [], + "area": 6720181.386952, + "iscrowd": 0, + "segmentation": [], + "text": "[Arnold13] Arnold et al. Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq. Science. 2013,\n339(6123):1074-1077 [Vanhille15] Vanhille et al. High-throughput and quantitative assessment of enhancer activity in mammals\nby CapStarr-seq. Nat Commun. 2015 Apr 15;6:6905. [Muerdter15] Muerdter et al. Starr-seq - Principles and Applications.\nGenomics 2015. [Arnold14] Arnold et al. Quantitative genome-wide enhancer activity maps for five Drosophila species show\nfunctional enhancer conservation and turnover during cis-regulatory evolution. Nat Genet. 2014 Jul;46(7):685-92. [Shlyueval 4]\nShlyueva et al. Hormone-responsive enhancer-activity maps reveal predictive motifs, indirect repression, and targeting of closed\nchromatin. Mol Cell. 2014 Apr 10;54(1):180-92." + }, + { + "id": 117976, + "strid": "6a83e3ee-7974-4e72-9e0e-d5686b2c0ccb", + "image_id": 205090, + "image_name": "14105.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 124.48, + 90.97, + 99.05999999999999, + 198.11999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 117974, + 117969, + 117956, + 117972, + 117964, + 117963, + 117973, + 117971, + 117975, + 117959, + 117960, + 117952, + 117962, + 117970, + 117951 + ], + "area": 11323.945600000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 117951, + "strid": "b127fe7a-c174-45f5-8939-e53b206fdd0c", + "image_id": 205090, + "image_name": "14105.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 259.899, + 51.82, + 2783.912, + 253.445 + ], + "priority": 1, + "parents": [ + 117976 + ], + "children": [], + "area": 13467.96618, + "iscrowd": 0, + "segmentation": [], + "text": "DrugLogics: An ensemble model analysis related to drug\nprediction performance" + }, + { + "id": 117952, + "strid": "534364c6-3f39-44b1-b9f0-e35ab2b59668", + "image_id": 205090, + "image_name": "14105.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 111.048, + 364.826, + 1552.018, + 177.94900000000007 + ], + "priority": 2, + "parents": [ + 117976 + ], + "children": [], + "area": 40513.197648, + "iscrowd": 0, + "segmentation": [], + "text": "John Zobolas??, Miguel Vazquez?, Martin Kuiper?, Asmund Flobak?\n\n1 Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), Trondheim, Norway\n2 Department of Biology, Norwegian University of Science and Technology (NTNU), Trondheim, Norway\n3 Barcelona Supercomputing Center (BSC), Barcelona, Spain" + }, + { + "id": 117974, + "strid": "77c64804-910a-4215-8699-2fb78025138c", + "image_id": 205090, + "image_name": "14105.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 113.636, + 648.277, + 231.00499999999997, + 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+ }, + { + "id": 162294, + "strid": "f84c42f9-dbbb-4b39-b14d-24f4608192fc", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 401.054, + 72.266, + 2285.489, + 225.46799999999996 + ], + "priority": 1, + "parents": [ + 162305 + ], + "children": [], + "area": 28982.568364, + "iscrowd": 0, + "segmentation": [], + "text": "Exploiting a large scale biodata management system\nto support NGS variant detection studies." + }, + { + "id": 162295, + "strid": "98389013-eee6-49e6-98ee-421153dd64b7", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 89.932, + 376.84, + 2560.587, + 140.04500000000002 + ], + "priority": 2, + "parents": [ + 162305 + ], + "children": [], + "area": 33889.97488, + "iscrowd": 0, + "segmentation": [], + "text": "Cuccuru G', Uva P*, Onano S*, Atzeni R*, Leo S*, Lianas L*, Oppo M?, Pireddu L*, Angius A?,\nCrisponi L2, Zanetti G1, Fotia G!" + }, + { + "id": 162296, + "strid": "9c73c8c6-3f96-42b1-af15-d2f9e0a5a4da", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 85.873, + 748.534, + 1204.901, + 1999.933 + ], + "priority": 3, + "parents": [ + 162305 + ], + "children": [], + "area": 64278.860182000004, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract Tracing, analysing and updating the results of data processing\nprotocols can significantly improve turn-around time and\nreproducibility when systematically dealing with any large scale NGS\nbased clinical study. We present an infrastructure (Figure 1) to\nautomate and track all data-related procedures and clinical\ninformation at the CRS4 high-throughput sequencing platform, which\nis the largest in Italy (20 TB of raw sequencing data every ten days). To\nallow automated data processing, this facility is directly\ninterconnected to the CRS4 computational resources (3200+ cores, 5\nPB storage).\n\nOne of the core components of the CRS4 infrastructure is\nOMERO.biobank (Figure 2), a robust, extensible and scalable\ntraceability biodata management system. This component provides a\nway to store, query and retrieve a full description of biomedical\ndatasets, the computational procedures that derived them, and the\ngraph of dependencies between datasets. These functionalities are\nessential to support dataset traceability, reproducibility and update.\n\nTo support NGS data analysis, large and diverse datasets must be\nprocessed by workflows consisting of many steps, each with its own\nconfiguration parameters. In addition, the entire analysis process\nshould be transparent and reproducible, and the analysis frameworks\nusable and cost-effective for biomedical researchers. Our workflow\nmanagement system has been specifically designed to address the\nabove challenges. It is based on Orione, a highly customized Galaxy\ninstance. The BioBlend.objects API (Leo et al., 2014) enables\nprogrammatic interaction with Orione.\n\nOur infrastructure has been recently used in a clinical exome\nsequencing program for mutation identification in patients with\nsyndromic intellectual disability, a large group of disorders with\nvariable phenotypes. An average of 60 million or 100bp paired-end\nreads were generated per sample, with a mean 100-fold coverage\nacross 62Mb of target regions. Sequences were automatically\nprocessed according to the GATK Best Practices, annotated and\nfiltered by allele frequency and predicted impact to select likely\npathogenic variants from an average of 170,000 variants per family.\nThe time required for the analysis of a trios was around 1 day ona\nshared cluster resource (Figure 3)." + }, + { + "id": 162304, + "strid": "fdb4a863-9380-4626-a7c1-a14d62a381b4", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 194.308, + 2827.979, + 985.577, + 470.33100000000013 + ], + "priority": 4, + "parents": [ + 162305 + ], + "children": [ + 162301 + ], + "area": 549498.943532, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162301, + "strid": "4a065e88-47c1-4d24-ab2d-cf7e59e3495d", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 111.918, + 3335.894, + 1137.962, + 71.37800000000016 + ], + "priority": 5, + "parents": [ + 162304 + ], + "children": [], + "area": 373346.584692, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. CPU time of the exome workflow main steps by programmatic interaction\nwith the workflow manager of the infrastructure, Orione." + }, + { + "id": 162302, + "strid": "8347b293-fe83-4a69-b3e6-bec6bf6dbfe6", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1432.002, + 652.312, + 1153.8870000000002, + 613.195 + ], + "priority": 6, + "parents": [ + 162305 + ], + "children": [ + 162299 + ], + "area": 934112.088624, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162299, + "strid": "8ace60a1-5dc0-4b28-898a-9d16da5b4623", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1400.672, + 1284.656, + 1190.0499999999997, + 232.86099999999988 + ], + "priority": 7, + "parents": [ + 162302 + ], + "children": [], + "area": 1799381.688832, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Fully automated infrastructure to support the analysis of the DNA sequencing\ndata generated by the CRS4 NGS facility (Cuccuru et al., 2014a). Such infrastructure\nincludes iRODS (Rajasekar et al, 2010) for efficient inter-institutional data sharing,\nOmero.biobank (Allan et al. 2012) to model biomedical data and the chain of actions\nthat connect them, the workflow manager Orione (Cuccuru et al., 2014b), Hadoop-\nbased tools (Leo et al., 2012) to provide scalable computing. GT: genotyping arrays." + }, + { + "id": 162303, + "strid": "ac4c91b1-3594-40b7-82c6-8b1c74353900", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1487.423, + 1705.16, + 1091.6940000000002, + 1414.2 + ], + "priority": 8, + "parents": [ + 162305 + ], + "children": [ + 162300 + ], + "area": 2536294.20268, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162300, + "strid": "4947c68b-00bf-49fb-b60e-205cf327e520", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1401.186, + 3178.529, + 1188.115, + 152.808 + ], + "priority": 9, + "parents": [ + 162303 + ], + "children": [], + "area": 4453710.335394, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Traceability graph for an exome processing workflow stored within\nOMERO.biobank. Top: diagram illustrating the relatioship between the sequencing\nobjects, from the tube of DNA (Original sample) to the FastQC report and FASTQ ready\nto be analysed (SeqDataSample). Bottom: data flow of exome processing workflow" + }, + { + "id": 162297, + "strid": "6650db41-83f8-4e00-9d35-d669d6c6dacf", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 65.706, + 3516.043, + 134.348, + 21.246999999999844 + ], + "priority": 10, + "parents": [ + 162305 + ], + "children": [ + 162298 + ], + "area": 231025.12135800003, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 162298, + "strid": "4c89a314-55a2-4e4c-a0ba-8fa88c3eef7e", + "image_id": 206834, + "image_name": "6510.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.353, + 3547.927, + 2487.711, + 194.52300000000014 + ], + "priority": 11, + "parents": [ + 162297 + ], + "children": [], + "area": 231867.673231, + "iscrowd": 0, + "segmentation": [], + "text": "Allan C. et al. (2012) OMERO: flexible, model-driven data management for experimental biology. Nat Methods 9:245—253\n\nCuccuru G. et al. (2014a) An Automated Infrastructure to Support High-troughput Bioinformatics. In: Smari, Waleed W. and Zeljkovic V (ed) Proc. IEEE Int. Conf. High Perform. Comput. Simul. (HPCS 2014). IEEE, pp 600-607\nCuccuru G. et al. (2014b) Orione, a web-based framework for NGS analysis in microbiology. Bioinformatics 30:1928-9\n\nLeo S. et al. (2012) SNP genotype calling with MapReduce. In: Proc. third Int. Work. MapReduce its Appl. Date - MapReduce ’12. ACM Press, New York, New York, USA, p 49\n\nLeo S. et al. (2014) BioBlend.objects: metacomputing with Galaxy. Bioinformatics 30:2816-7\n\nRajasekar A. et al. (2010) iRODS Primer: Integrated Rule-Oriented Data System. 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Its residues are down-weighted by\ntheir position-specific abundance." + }, + { + "id": 141925, + "strid": "d45f68a8-3204-4771-a26f-9d00d68360f5", + "image_id": 206018, + "image_name": "16993.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1014.542, + 405.238, + 296.7409999999999, + 45.05400000000003 + ], + "priority": 14, + "parents": [ + 141941 + ], + "children": [ + 141927, + 141934 + ], + "area": 411130.970996, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS — SSP" + }, + { + "id": 141934, + "strid": "06574de9-f9cb-4693-a9e5-927d530875ee", + "image_id": 206018, + "image_name": "16993.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1011.019, + 463.213, + 589.5919999999999, + 91.68699999999995 + ], + "priority": 15, + "parents": [ + 141925 + ], + "children": [], + "area": 468317.14404700004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141927, + "strid": "9f7ddce2-a943-4eda-8c5f-989d84fc1ecc", + "image_id": 206018, + 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"4e9961b8-facc-49f5-90b4-4886988fbafa", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 550.235, + 83.359, + 2225.204, + 78.176 + ], + "priority": 1, + "parents": [ + 112478 + ], + "children": [], + "area": 45867.039365, + "iscrowd": 0, + "segmentation": [], + "text": "A bottom-up approach to constructing a striatal micro-circuitry in silico" + }, + { + "id": 112446, + "strid": "6b6be500-3b32-4f3a-88e2-f6c2d2bf32f0", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 603.325, + 206.931, + 1810.3010000000002, + 217.552 + ], + "priority": 2, + "parents": [ + 112478 + ], + "children": [], + "area": 124846.64557500002, + "iscrowd": 0, + "segmentation": [], + "text": "Johannes Hjorth', Alexander Kozlov”, Johanna Frost Nylen?, Robert Lindroos?,\nIlaria Carannante’, Gilad Silberberg”, Jeanette Hellgren Kotaleski*:?, Sten Grillner?\n\n1 Science for Life Laboratory, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, Box 1031, 17121 Solna, Sweden.\n\n2 The Nobel Institute for Neurophysiology, Department of Neuroscience, Karolinska Institutet, SE-171 77 Stockholm, Sweden" + }, + { + "id": 112447, + "strid": "ded12205-e7b3-4412-8ef4-327d89fd12ed", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 207.972, + 640.46, + 1162.474, + 78.077 + ], + "priority": 3, + "parents": [ + 112478 + ], + "children": [ + 112451, + 112449, + 112452, + 112454, + 112455, + 112450, + 112453 + ], + "area": 133197.74712, + "iscrowd": 0, + "segmentation": [], + "text": "Constructing the striatal network" + }, + { + "id": 112449, + "strid": "3637ebf4-a3b1-473d-90b1-0d0dca784355", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 205.671, + 734.228, + 1263.704, + 606.8359999999999 + ], + "priority": 4, + "parents": [ + 112447 + ], + "children": [], + "area": 151009.40698799997, + "iscrowd": 0, + "segmentation": [], + "text": "To understand how the striatum function we need to understand how the\nnetwork is connected. To date there only exists sparse connectivity data\nfor the striatal network. Here we present an approach that lets us\ngenerate in silico the connectome for the mouse striatum compromising\nof 1.7 million neurons placed within a volume of 24mm°[1]. The network\nmodel consists of medium spiny projection neurons of D1 and D2 type\n(MSD1, MSD2), fast spiking interneurons (FS) and Cholinergic\ninterneurons (ChIN) [2]. We can reproduce connection probabilities seen\nin experiments by using the morphologies, touch detection and synapse\npruning [3]. The electrophysiological properties of the neurons have been\noptimised to fit experimental data using BluePyOpt [4]. The model will be\nused to investigate how neuromodulators as well as the intrastriatal\nconnectivity shape network activity." + }, + { + "id": 112450, + "strid": "090dfff0-20fc-431a-8f10-dffba885f223", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 148.556, + 1392.608, + 649.832, + 61.03800000000001 + ], + "priority": 5, + "parents": [ + 112447 + ], + "children": [], + "area": 206880.27404800002, + "iscrowd": 0, + "segmentation": [], + "text": "Single cell reconstructions" + }, + { + "id": 112451, + "strid": "643c9fe0-589d-40a3-8a51-7e3daa93b587", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 177.835, + 1475.796, + 1190.326, + 276.0429999999999 + ], + "priority": 6, + "parents": [ + 112447 + ], + "children": [], + "area": 262448.18166, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112452, + "strid": "abee93c6-5f9d-4d0a-825e-8777fecee0ba", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 140.264, + 1808.409, + 1335.3429999999998, + 64.30400000000009 + ], + "priority": 7, + "parents": [ + 112447 + ], + "children": [], + "area": 253654.67997600004, + "iscrowd": 0, + "segmentation": [], + "text": "Reconstructions of MS D1 & D2 (n=376), FS (n=71) and ChIN (n=7). Somata black, dendrites blue and local\naxon collaterals grey. Scalebar is 100 um. Morphologies from NeuronMorpho.org and Karolinska Institute." + }, + { + "id": 112453, + "strid": "a17f78ba-7dbf-4c6e-9202-5f3f7b588c89", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 169.575, + 1899.615, + 584.7459999999999, + 449.5350000000001 + ], + "priority": 8, + "parents": [ + 112447 + ], + "children": [], + "area": 322127.213625, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112454, + "strid": "bb79a036-7d0e-4fda-950c-fe564b7335ea", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 782.313, + 1901.221, + 550.6270000000001, + 445.6959999999999 + ], + "priority": 9, + "parents": [ + 112447 + ], + "children": [], + "area": 1487349.904173, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112455, + "strid": "6ad20f5e-2fd5-463c-98ad-687884c7aff9", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 139.612, + 2350.629, + 1222.529, + 65.61700000000019 + ], + "priority": 10, + "parents": [ + 112447 + ], + "children": [], + "area": 328176.01594799996, + "iscrowd": 0, + "segmentation": [], + "text": "Morphometric analysis of MS reconstructions (combined MSD1 and MSD2 data) reveals significant\ncontribution of terminal sections to the total dendritic length (80%)." + }, + { + "id": 112456, + "strid": "61215d77-b9ab-4712-9615-f4d3f568e633", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 203.369, + 2503.604, + 1149.925, + 64.51299999999992 + ], + "priority": 11, + "parents": [ + 112478 + ], + "children": [ + 112458, + 112457 + ], + "area": 509155.44187599997, + "iscrowd": 0, + "segmentation": [], + "text": "Single MS neuron model with plateau potential" + }, + { + "id": 112457, + "strid": "051c627a-2325-4f74-8b7f-c9d3789dc8a0", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 209.227, + 2603.288, + 1193.274, + 345.5050000000001 + ], + "priority": 12, + "parents": [ + 112456 + ], + "children": [], + "area": 544678.138376, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112458, + "strid": "9faed2a7-a8e7-4332-90e2-5f58e94f6ccb", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 210.894, + 2988.127, + 1252.703, + 219.82699999999977 + ], + "priority": 13, + "parents": [ + 112456 + ], + "children": [], + "area": 630178.055538, + "iscrowd": 0, + "segmentation": [], + "text": "Illustration of single MSD1 cell properties [5]. Left and middle: voltage traces and current-frequency\ncurves following somatic current injections ranging from —100 to 440 pA in steps of 40 pA. Black trace\nshows the model response under control condition while green is the model response following\ndopamine modulation of ion channels. The current-frequency curve is compared to experimental data\n(brown traces, [7]). Right: In accordance with experimental data [6], the model exhibits dendritic\nplateau potentials following stimulation of a small patch of distal dendrite (at distances greater than\n~110 um, Plotkin et al., 2011)." + }, + { + "id": 112459, + "strid": "67e3e5a9-e12e-47e8-82e6-67df8391b204", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 128.219, + 3315.105, + 1172.485, + 62.440000000000055 + ], + "priority": 14, + "parents": [ + 112478 + ], + "children": [ + 112461, + 112463, + 112464, + 112460, + 112465, + 112462, + 112466 + ], + "area": 425059.447995, + "iscrowd": 0, + "segmentation": [], + "text": "Optimisation of electrophysiological parameters" + }, + { + "id": 112460, + "strid": "fc53920e-bcda-4825-b7ff-f469565ee55d", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 138.119, + 3443.773, + 558.599, + 615.3379999999997 + ], + "priority": 15, + "parents": [ + 112459 + ], + "children": [], + "area": 475650.482987, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112461, + "strid": "033d5c42-1cc3-47cf-b096-785aebde0dec", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 819.747, + 3463.274, + 572.41, + 620.9410000000003 + ], + "priority": 16, + "parents": [ + 112459 + ], + "children": [], + "area": 2839008.471678, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112462, + "strid": "9f735697-35fb-4501-a429-0f54c4c9c395", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 143.335, + 4139.341, + 509.645, + 409.28399999999965 + ], + "priority": 17, + "parents": [ + 112459 + ], + "children": [], + "area": 593312.4422350001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112463, + "strid": "47060e51-61fd-4d28-9d78-3226203909bc", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 792.033, + 4195.128, + 600.053, + 281.77099999999973 + ], + "priority": 18, + "parents": [ + 112459 + ], + "children": [], + "area": 3322679.815224, + "iscrowd": 0, + "segmentation": [], + "text": "Example optimisation of an FS interneuron\nusing BluePyOpt. Left panel shows the\nelectrophysiological traces (grey) the model was\noptimised against, with simulation results\noverlayed (blue). The top right panels show\nmodel performance using the fitness measures.\nBottom right panel shows evolution of fitness\nvalues throughout optimisation (min blue, avg\nblack, avgt+std grey region, max grey line)." + }, + { + "id": 112464, + "strid": "94c80aab-4ecb-4ebd-bd84-1fc07cdf8c03", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1723.597, + 590.974, + 1184.316, + 65.87199999999996 + ], + "priority": 19, + "parents": [ + 112459 + ], + "children": [], + "area": 1018601.0134780001, + "iscrowd": 0, + "segmentation": [], + "text": "Cell placement and touch detection of synapses" + }, + { + "id": 112465, + "strid": "db2f6d4d-8fa1-498c-9cc8-55c78f15cc7d", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1748.488, + 697.111, + 1302.3800000000003, + 842.841 + ], + "priority": 20, + "parents": [ + 112459 + ], + "children": [], + "area": 1218890.218168, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112466, + "strid": "493cb58e-c012-4ffc-848b-3ec84128043d", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1737.073, + 1599.604, + 1410.264, + 127.99800000000005 + ], + "priority": 21, + "parents": [ + 112459 + ], + "children": [], + "area": 2778628.919092, + "iscrowd": 0, + "segmentation": [], + "text": "Top left: Striatum with 1.7 million neurons (we also did smaller scale runs with 1 mm% of striatum containing 71,242\nneurons). Top right: MSN (green, cyan), FS (blue), ChIN (red) and axons (grey) within 100 um cube. Bottom row\nfigures show touch detection at different magnification, putative synapses marked with red spheres. Presynaptic\nMS gray with pink axons, Postsynaptic MS dendrites green." + }, + { + "id": 112467, + "strid": "613ff8b9-bdd9-4993-8f46-826386953d52", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1730.322, + 1833.66, + 1259.3570000000002, + 61.2829999999999 + ], + "priority": 22, + "parents": [ + 112478 + ], + "children": [ + 112468, + 112469 + ], + "area": 3172822.23852, + "iscrowd": 0, + "segmentation": [], + "text": "Pruning network connectivity to match experiments" + }, + { + "id": 112468, + "strid": "a806f8fb-77ef-417d-a8cb-1450cdfdc698", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1799.166, + 1920.698, + 1323.374, + 654.5980000000002 + ], + "priority": 23, + "parents": [ + 112467 + ], + "children": [], + "area": 3455654.537868, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112469, + "strid": "bedbaf66-c508-4e75-b5c9-8684102fe374", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1839.537, + 2612.972, + 1253.479, + 95.52199999999993 + ], + "priority": 24, + "parents": [ + 112467 + ], + "children": [], + "area": 4806658.673964, + "iscrowd": 0, + "segmentation": [], + "text": "Connectivity statistics for computer generated striatal microcircuitry (1mm3) Top: Synapse connection\nprobabilities for MSD2 neurons. Red lines show experimental data [8,9]. Middle: Number of synapses\nbetween connected pairs of neurons. Bottom: Number of connected neighbours for MSD2 neurons." + }, + { + "id": 112470, + "strid": "ca5154c4-d96c-40a0-b047-120e1ebe0545", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1829.801, + 2815.67, + 500.15200000000004, + 49.184999999999945 + ], + "priority": 25, + "parents": [ + 112478 + ], + "children": [ + 112472, + 112471, + 112473 + ], + "area": 5152115.78167, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 112471, + "strid": "70d518f6-c0ae-4de5-a992-45dc8e28ed2a", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1877.942, + 2893.65, + 487.94500000000016, + 366.2750000000001 + ], + "priority": 26, + "parents": [ + 112470 + ], + "children": [], + "area": 5434106.8683, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112472, + "strid": "dcf263e4-4890-4f34-902b-d3029efbd567", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2486.288, + 2908.858, + 424.5749999999998, + 292.7669999999998 + ], + "priority": 27, + "parents": [ + 112470 + ], + "children": [], + "area": 7232258.739104001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112473, + "strid": "c3b72351-711e-4836-9ee6-be151056fca8", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2421.789, + 3225.136, + 668.9879999999998, + 93.47499999999991 + ], + "priority": 28, + "parents": [ + 112470 + ], + "children": [], + "area": 7810598.888304001, + "iscrowd": 0, + "segmentation": [], + "text": "Striatal neurons MS neurons (D1 blue, D2 green).\nAsmall example network activated by tonic input from\ncortex and thalamus." + }, + { + "id": 112448, + "strid": "a8098fbc-717c-48da-9948-4870303e6396", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1816.855, + 3357.583, + 335.6460000000002, + 50.460000000000036 + ], + "priority": 29, + "parents": [ + 112478 + ], + "children": [ + 112475, + 112474 + ], + "area": 6100241.461465, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 112474, + "strid": "78f0fa30-ffde-47fd-b6d0-7a01e3126917", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1811.652, + 3433.457, + 1244.667, + 91.22400000000016 + ], + "priority": 30, + "parents": [ + 112448 + ], + "children": [], + "area": 6220229.240964, + "iscrowd": 0, + "segmentation": [], + "text": "We have applied a data-driven approach to create a scaffold-model of a\nstriatal micro-circuitry." + }, + { + "id": 112475, + "strid": "cdfdb05c-8687-4023-ac7f-b22a4a55f1fc", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1795.233, + 3543.437, + 1314.771, + 413.21399999999994 + ], + "priority": 31, + "parents": [ + 112448 + ], + "children": [], + "area": 6361295.035820999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 112476, + "strid": "4ba8b70c-2b86-43cd-ac8a-789c2865ea33", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1751.97, + 4509.694, + 1320.4799999999998, + 85.74499999999989 + ], + "priority": 32, + "parents": [ + 112478 + ], + "children": [], + "area": 7900848.5971800005, + "iscrowd": 0, + "segmentation": [], + "text": "Funded by: Horizon2020 grant agreement n°720270 & 785907 (Human Brain Project, SGA1 & SGA2); The Swedish\nResearch Council; Swedish e-Science Research Center. The simulations were performed on resources provided by the\nSwedish National Infrastructure for Computing (SNIC) at Parallell Data Centrum (PDC/KTH)." + }, + { + "id": 112477, + "strid": "ab07782f-6d6c-47f4-b08e-9350a6f57748", + "image_id": 204865, + "image_name": "13329.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1759.507, + 4046.364, + 1385.7270000000003, + 434.88899999999967 + ], + "priority": 33, + "parents": [ + 112478 + ], + "children": [], + "area": 7119605.782548, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 29996, + "strid": "fcac4c73-51f1-4583-9e84-8421f36eb147", + "image_id": 201681, + "image_name": "117502.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 5580, + 115.58, + 176, + 211.21000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 29976, + 29972, + 29973, + 29977, + 29975, + 29995, + 29974, + 29978 + ], + "area": 644936.4, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 29972, + "strid": 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Italian Institute of Technology, Rovereto, Italy; 2 e Center for Mind/Brain Sciences, University of Trento, Rovereto, Italy; 3 e Department of Life Sciences, University of Trieste, Trieste, Italy;\n4 e Department of Cognitive, Linguistic & Psychological Sciences, Brown University, Providence, RI, US; 5 e Berenson-Allen Center for Noninvasive Brain Stimulation, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA, USA" + }, + { + "id": 29974, + "strid": "c35eeefc-c8d8-474b-bfb6-efe95837ab77", + "image_id": 201681, + "image_name": "117502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 76.713, + 908.599, + 2790.831, + 175.04000000000008 + ], + "priority": 3, + "parents": [ + 29996 + ], + "children": [ + 29980, + 29979 + ], + "area": 69701.355087, + "iscrowd": 0, + "segmentation": [], + "text": "How; does the human brain combine Motion & Disparity signals during\nself-motion?" + }, + { + "id": 29979, + "strid": 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the\nprocessing of disparity signals" + }, + { + "id": 29982, + "strid": "7d3fac85-8c29-4e4b-86ad-f98748e13c3e", + "image_id": 201681, + "image_name": "117502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1967.736, + 2853.437, + 421.34199999999987, + 50.159999999999854 + ], + "priority": 9, + "parents": [ + 29977 + ], + "children": [], + "area": 5614810.708632, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 29983, + "strid": "8aab818d-6ab8-44a3-b305-8304ca0942d9", + "image_id": 201681, + "image_name": "117502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1590.98, + 2971.591, + 1169.2800000000002, + 121.49800000000005 + ], + "priority": 10, + "parents": [ + 29977 + ], + "children": [], + "area": 4727741.84918, + "iscrowd": 0, + "segmentation": [], + "text": "we targeted hMT in order to interfere with the\nprocessing of motion signals" + }, + { + "id": 29985, + "strid": "bf15f816-c12e-46a0-bdcd-7e931c8d0dff", + "image_id": 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"deb91777-ce49-4f9a-9c03-70a36836b565", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 138.27, + 222.57, + 261.79999999999995, + 166.01999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 45108, + 45111, + 45109, + 45110, + 45107, + 45112, + 45113 + ], + "area": 30774.7539, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45107, + "strid": "1e93700e-d227-410c-8dd5-850dca8db1a5", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 37.153, + 81.023, + 3076.122, + 86.019 + ], + "priority": 1, + "parents": [ + 45131 + ], + "children": [], + "area": 3010.2475189999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45108, + "strid": "f57cdbed-4ab8-4fe1-9d44-0f987828d192", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 676.669, + 206.416, + 1798.888, + 276.116 + ], + "priority": 2, + "parents": [ + 45131 + ], + "children": [], + "area": 139675.308304, + "iscrowd": 0, + "segmentation": [], + "text": "MANUELA PEiXOTO & PEDRO NOBRE\nFaculdade de Psicologia e Ciéncias da Educagao, Universidade do Porto, Portugal\n\nnelinha.peixoto@gmail.com" + }, + { + "id": 45109, + "strid": "8fbe88a0-876b-478c-bca4-a047586cae8f", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 61.707, + 501.911, + 319.343, + 49.49799999999999 + ], + "priority": 3, + "parents": [ + 45131 + ], + "children": [ + 45116 + ], + "area": 30971.422077, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45116, + "strid": "c308c8c5-5f30-4a48-be04-faa9d4d7ce75", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 67.719, + 578.937, + 3019.639, + 523.6939999999998 + ], + "priority": 4, + "parents": [ + 45109 + ], + "children": [], + "area": 39205.034703, + "iscrowd": 0, + "segmentation": [], + "text": "The Tripartite Model (Clark & Watson, 1991) could be a useful theoretica! background in order to better understand the relationship between trait-affect, depressed mood, and female sexual desire. Empirical data\nsuggest that trait-affect is correlated with depressed mood (Beck, Benedict, & Winkler, 2003; Brown, Chorpita, Barlow, 1998; Jacques & Marsh, 2004; Joiner, 1996; Philipp, Washingto, Raouf Norton, 2008; Shankman\n& Klein, 2003; Shapiro, Roberts & Beck, 1999; Teachman, Sieciiecki, Magee, 2007; Watson, Clark, et al., 1995; Watson, Weber, et al., 1995): Additionally, both clinical and empirical data support the overlap between\ndepressed mood, and sexual desire in women (Avellanet, et al., 2008; Cyranowski, Frank, et al., 2004; Dobkin, Leiblum, Rosen, Menza, & Marin, 2006; Graham, et al., 2004; Kennedy, et al., 1999; Kuffel & Heiman,\n2006; Mathew & Weiman, 1982; Trudel, Landry, & Larose, 1997): Although the mediator role of depressed mood in the relationship between trait-affect and sexual functioning in men and women has already been\ntested (Oliveira & Nobre, 2012; Peixoto & Nobre, 2012) there were no published studies exploring the relationship with sexual desire.\n\nThe aim of the present study was to explore the relationship among positive and negative trait-affect, depressed mood, and sexual desire in women. Considering the high comorbidity and overlap between\ndepression and hypoactive sexual desire disorder, we hypothesized that female sexual desire and depressed mood would be correlated (negative correlation). Additionally, a negative correlation would be expected\nfor female sexual desire and negative trait-affect, while a positive correlation would be predictabie for positive-trait-affect. It is also expected that trait-affect (positive and negative) and depressed mood work as\nsignificant predictors of female sexual desire. Regarding the conceptualization of trait-affect as a latent variable and a vulnerability factor for depression (Clark & Watson, 1991)?, we aimed at testing the mediator\nrole of depressed mood (state mood) in the relationship between trait-affect and female sexua! desire. In order to investigate the ability of trait-affect to predict sexual desire above and beyond depressed mood, we\nhypothesized that depressed mood would mediate the relationship between trait-affect (positive and negative) and female sexual desire." + }, + { + "id": 45110, + "strid": "ca2769b8-2e86-441f-9efe-7a01d5813fce", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 54.7, + 1147.41, + 208.13300000000004, + 43.6880000000001 + ], + "priority": 5, + "parents": [ + 45131 + ], + "children": [ + 45118, + 45117 + ], + "area": 62763.327000000005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45117, + "strid": "13a560a3-e628-41f1-972a-cad801b88640", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.552, + 1219.854, + 3032.89, + 174.88799999999992 + ], + "priority": 6, + "parents": [ + 45110 + ], + "children": [], + "area": 75084.453408, + "iscrowd": 0, + "segmentation": [], + "text": "Participants and Procedures\nA total of 171 women from the general population (convenience sample) participated in the study. Participants were recruited in north of Portugal, by a group of students from Tras-os-Montes e Alto Douro University\n\nusing non-random methods. Participants were contacted directly by the group of students, received an explanation of the purpose of the study and signed a consent form. Participants received the questionnaires\nand were instructed to answer them when alone and in the privacy of their homes and then to return them, using sealed envelopes." + }, + { + "id": 45118, + "strid": "0762fb7f-10a4-4b05-b485-1fe76fcbc0a7", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.565, + 1436.708, + 3035.072, + 564.4659999999999 + ], + "priority": 7, + "parents": [ + 45110 + ], + "children": [], + "area": 88450.92802, + "iscrowd": 0, + "segmentation": [], + "text": "Materials\n\nThe Positive Affect — Negative Affect Scale (Watson & Clark, 1994) is a self-administered questionnaire comprising 20 items, assessing two dimensions of emotional condition, Positive Affect (PA) and Negative Affect\n(NA). Answers are giving according to a Likert scale of 5 points (from 1 \"very little or nothing” to 5 “extremely\"), and participants answered about what they feel in general (trait measure). The PANAS allows\ncalculating an index of Positive Trait-Affect and an index of Negative Trait-Affect (Positive trait-affect: 1-5; Negative trait-affect: 1-5), with higher scores in those indexes indicating higher levels of positive and\nnegative trait-affect, respectively. In terms of psychometric characteristics, PANAS have a high internal consistency and temporal stability and convergent and discriminant validity. The Portuguese version presents\ngood psychometric properties (Galinha & Pais-Ribeiro, 2005).\n\nThe Beck Depression Inventory (Beck et al., 1967) is a self- administered measure, comprising 21 items that assess six types of depressive symptoms. The BDI allows calculating a total index of depressive\nsymptomatology (total: 0-63), with higher scores corresponding to more severe levels of depressed mood. This instrument has good psychometric properties (Beck et al., 1996). According to studies conducted in\nPortugal, the Portuguese version also has good psychometric properties (Vaz-Serra & Pio-Abreu, 1973).\n\nThe Female Sexual Function Index (Rosen et al., 2000) is a 19-item instrument, easily administered and scored, providing detailed information on the major dimensions of sexual function. A principal component\nanalysis identified six factors: sexuai interest/desire, sexual arousal, lubrication, orgasm, sexual satisfaction and sexual pain. The measure allows the calculation of specific indexes for each dimension as well a\nsexual function index (calculated through the sum of the specific dimensional indexes), with higher scores indicating greater levels of sexual functioning. The Portuguese version also presented good psychometric\nproperties (Pechorro, Diniz, Almeida & Vieira, 2009)." + }, + { + "id": 45111, + "strid": "7c5294c2-48e0-4a21-abce-3575a18dc4cf", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 71.747, + 2036.23, + 191.71999999999997, + 44.6579999999999 + ], + "priority": 8, + "parents": [ + 45131 + ], + "children": [ + 45120, + 45125, + 45124, + 45130, + 45119, + 45129, + 45127, + 45128, + 45122, + 45121, + 45123, + 45126 + ], + "area": 146093.39381, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45119, + "strid": "295b015a-c8e0-4540-b3cb-e8fc23ec3e84", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.838, + 2122.729, + 1070.277, + 83.51299999999992 + ], + "priority": 9, + "parents": [ + 45111 + ], + "children": [], + "area": 175842.62490199998, + "iscrowd": 0, + "segmentation": [], + "text": "Pearson’s correlations between trait-affect, depressed mood, female sexual\nfunctioning and female sexual desire (N = 171)." + }, + { + "id": 45126, + "strid": "efd653d5-2d5d-428a-9f95-eead6694bcee", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 132.563, + 2234.376, + 932.0499999999998, + 199.7159999999999 + ], + "priority": 10, + "parents": [ + 45111 + ], + "children": [], + "area": 296195.585688, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45120, + "strid": "e049c221-0533-4e57-9a7e-8a7d8b114924", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.287, + 2473.69, + 709.209, + 78.54800000000023 + ], + "priority": 11, + "parents": [ + 45111 + ], + "children": [], + "area": 203552.52903, + "iscrowd": 0, + "segmentation": [], + "text": "Note. Statistical significance using Bonferroni corrections.\nae p <.014 *** p < .001" + }, + { + "id": 45121, + "strid": "bb378841-e92e-4226-a57b-30f4a97f4d28", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.444, + 2603.248, + 1267.122, + 88.08899999999994 + ], + "priority": 12, + "parents": [ + 45111 + ], + "children": [], + "area": 209415.682112, + "iscrowd": 0, + "segmentation": [], + "text": "The mediator role of depressed mood in the relationship between positive trait-affect and\nfemale sexual desire (N= 171)." + }, + { + "id": 45130, + "strid": "04240b86-5576-4108-b249-8dc289418586", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 150.003, + 2701.38, + 1217.222, + 377.57400000000007 + ], + "priority": 13, + "parents": [ + 45111 + ], + "children": [], + "area": 405215.10413999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45122, + "strid": "c38ffbd7-dde8-4006-9dd8-cc94904945d2", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 406.284, + 3105.915, + 497.82900000000006, + 81.97499999999991 + ], + "priority": 14, + "parents": [ + 45111 + ], + "children": [], + "area": 1261883.56986, + "iscrowd": 0, + "segmentation": [], + "text": "Note: Sobel value, t=- 1.49, p< 0.05;\n*0<.01 ** p<.001" + }, + { + "id": 45125, + "strid": "ea59dcc0-35ea-4d17-a8fb-8c3b8935919b", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1365.45, + 2126.225, + 1655.053, + 85.63900000000012 + ], + "priority": 15, + "parents": [ + 45111 + ], + "children": [], + "area": 2903253.92625, + "iscrowd": 0, + "segmentation": [], + "text": "Trait-affect and depressed mood as predictors of female sexual desire: multiple regression analysis, enter method (N\n= 171)." + }, + { + "id": 45127, + "strid": "9f7c033b-0740-4edf-be23-b987bd1be028", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1573.762, + 2212.19, + 1333.528, + 255.0680000000002 + ], + "priority": 16, + "parents": [ + 45111 + ], + "children": [], + "area": 3481460.55878, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45128, + "strid": "3cb67d63-64e1-465d-b117-a8fad805ce30", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1818.906, + 2482.689, + 108.60200000000009, + 37.38799999999992 + ], + "priority": 17, + "parents": [ + 45111 + ], + "children": [], + "area": 4515777.918234, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45124, + "strid": "3f8945e2-44d3-4e3e-9b75-2199f2d9f5ee", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1616.029, + 2602.466, + 1274.6730000000002, + 90.42300000000023 + ], + "priority": 18, + "parents": [ + 45111 + ], + "children": [], + "area": 4205660.5275139995, + "iscrowd": 0, + "segmentation": [], + "text": "The mediator role of depressed mood in the relationship between negative trait-affect and\nfemale sexual desire (N= 171)." + }, + { + "id": 45129, + "strid": "621adbd3-2f6e-4a0c-8810-61f162cca8ab", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1730.543, + 2708.532, + 1296.481, + 377.73 + ], + "priority": 19, + "parents": [ + 45111 + ], + "children": [], + "area": 4687231.092876, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45123, + "strid": "be365d4c-204c-47b8-8261-c4e8f863385c", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1990.729, + 3105.157, + 501.3639999999998, + 82.11999999999989 + ], + "priority": 20, + "parents": [ + 45111 + ], + "children": [], + "area": 6181526.089453001, + "iscrowd": 0, + "segmentation": [], + "text": "Note: Sobel value, t = - 2.65, p < 0.01;\n*p<.01 **p<.001" + }, + { + "id": 45112, + "strid": "462c4139-02e5-467a-8866-0735a8bc1628", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 61.47, + 3221.87, + 282.298, + 46.465000000000146 + ], + "priority": 21, + "parents": [ + 45131 + ], + "children": [ + 45115 + ], + "area": 198048.34889999998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45115, + "strid": "df84d07b-1bd8-4069-b1b9-a452b29ac37d", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.897, + 3295.404, + 3015.958, + 261.07299999999987 + ], + "priority": 22, + "parents": [ + 45112 + ], + "children": [], + "area": 227043.449388, + "iscrowd": 0, + "segmentation": [], + "text": "An increase number of women reported probiems related to lack of sexual desire in engaging in sexual! activity (Abdo et al., 2004; Cayan et al., 2004; Hassanin et al., 2010; Hawton et al., 1994; Ishak, Low, & Othman,\n2010; Laumann et al., 1999; Nobre, Pinto-Gouveia, & Allen-Gomes, 2006; Oksuz & Malhan, 2006; Sidi et al., 2007) , therefore a more comprehensive knowledge about absence of sexual desire needs to be addressed.\nDespite the limitations referred, the current findings represent preliminary results suggesting that positive and negative trait-affect, as well as depressed mood play a major role on female sexual desire.\nAdditionally, negative trait-affect was suggested as an important predictor of sexual desire in women. The present methodological design does not allow exploring causal relationships. However, current findings\ncould help explaining the overlapping between depressed mood and women’s sexua! desire, which suggested that trait-affect (positive and negative) may act as a vulnerability variable for those two conditions.\nFurther research with experimental designs and clinical samples is needed in order to analyze, robustly, Tripartite Model (Clark & Watson, 1997) theoretical hypotheses." + }, + { + "id": 45113, + "strid": "191e0578-d6fb-4158-834d-4bebaa55ef91", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 62.419, + 3588.99, + 191.363, + 31.893999999999778 + ], + "priority": 23, + "parents": [ + 45131 + ], + "children": [ + 45114 + ], + "area": 224021.16680999997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 45114, + "strid": "902a6d03-32ec-4598-be84-81a0c449898a", + "image_id": 202264, + "image_name": "118426.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.97, + 3643.62, + 2157.327, + 165.74699999999984 + ], + "priority": 24, + "parents": [ + 45113 + ], + "children": [], + "area": 225795.13139999998, + "iscrowd": 0, + "segmentation": [], + "text": "Barlow, D. (1986). Causes of sexual dysfunction: The role of anxiety and cognitive interference. Journal of Consulting and Clinical Psychology, 54; 40-148.\n\nClark, L,. & Watson, D. (1991). Tripartite model of anxiety and depression: Psychometric evidence and taxonomic implications. Journal of Abnormal Psychology, 100; 316-336.\n\nMathew, R. & Weinman, M. (1982). Sexual dysfunctions in depression. Archives of Sexual Behavior, 11; 323-328.\n\nOliveira, C. & Nobre, P. (2012). The role of trait-affect, depression, and anxiety in women with sexual dysfunction: A pilot study. Journal of Sex and Marital Therapy. DOI: 10.1080/0092623X.2012.665813\nPeixoto, M. & Nobre, P. (2012). Trait-affect, depressed mood, and male sexual functioning: A preliminary study. Journal of Sexual Medicine, 9, 2001-2008. DOI: 10.1111/j.1743-6109.2012.02779.x" + }, + { + "id": 33757, + "strid": "63e264e8-19b8-4554-ad35-58b223f160b3", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 38.72, + 33.92, + 58.95, + 37.239999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 33756, + 33723, + 33727, + 33722, + 33721, + 33740, + 33739, + 33724 + ], + "area": 1313.3824, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 33721, + "strid": "9158b8cf-c1e8-436d-9c89-59910c863c1d", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 116.684, + 32.287, + 615.635, + 50.537 + ], + "priority": 1, + "parents": [ + 33757 + ], + "children": [], + "area": 3767.376308, + "iscrowd": 0, + "segmentation": [], + "text": "Zinc Supplementagian Improves Bone eesisadal aT wevele ie\nwith Thalassemia." + }, + { + "id": 33722, + "strid": "a2a35271-c12a-4993-993a-781cfe6773e3", + "image_id": 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me/Say) Vs.\npseebe enone heath in young patients wth thalassemia\nvetimated rorn bone minal octent end deneity by DHA." + }, + { + "id": 33727, + "strid": "e310a6c5-9167-45b2-9491-06a5e8fde86b", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 16.213, + 339.772, + 44.138, + 12.107000000000028 + ], + "priority": 7, + "parents": [ + 33757 + ], + "children": [ + 33728 + ], + "area": 5508.723436, + "iscrowd": 0, + "segmentation": [], + "text": "Subjects" + }, + { + "id": 33728, + "strid": "f97aa363-afff-4523-8312-f8fb3acb39c0", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 73.217, + 340.27, + 153.88, + 88.25299999999999 + ], + "priority": 8, + "parents": [ + 33727 + ], + "children": [], + "area": 24913.54859, + "iscrowd": 0, + "segmentation": [], + "text": "inclusions: Age: 10 to 30 years:\n‘Althea Diagnoses\nExcuons: Pregnancy\nBsphesphonate meseation 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Placebd)a=27)" + }, + { + "id": 33745, + "strid": "86e7595f-935b-4f0d-adc0-76985b96b4b3", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 621.499, + 694.964, + 207.02499999999998, + 14.82000000000005 + ], + "priority": 32, + "parents": [ + 33756 + ], + "children": [], + "area": 431919.431036, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 33739, + "strid": "247a741e-1381-4d91-94e0-8c2608211b29", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 596.887, + 729.141, + 50.400999999999954, + 11.437999999999988 + ], + "priority": 33, + "parents": [ + 33757 + ], + "children": [ + 33738 + ], + "area": 435214.7840669999, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 33738, + "strid": "a25a6e59-4a1e-4fe0-823e-ca7892db3c8a", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 599.746, + 745.226, + 228.76999999999998, + 228.05499999999995 + ], + "priority": 34, + "parents": [ + 33739 + ], + "children": [], + "area": 446946.312596, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 33740, + "strid": "bdd2c06b-334e-4a66-81d1-848c0ea7df3b", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 600.104, + 989.01, + 54.424999999999955, + 10.052000000000021 + ], + "priority": 35, + "parents": [ + 33757 + ], + "children": [ + 33741 + ], + "area": 593508.85704, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 33741, + "strid": "9a236319-1d4f-4508-9552-e764f4239543", + "image_id": 201825, + "image_name": "117743.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 600.16, + 1013.885, + 214.774, + 44.30899999999997 + ], + "priority": 36, + "parents": [ + 33740 + ], + "children": [], + "area": 608493.2215999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 46004, + "strid": "a87d5cea-7d48-472c-98cd-e517aa701844", + "image_id": 202298, + "image_name": "118503.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 81.21, + 65, + 118.28000000000002, + 162.63 + ], + "priority": -1, + "parents": [], + "children": [ + 45994, + 45996, + 45995, + 45998, + 45997, + 45999 + ], + "area": 5278.65, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 45994, + "strid": "f3b951e5-4c2e-48f7-b152-d211def97b8c", + "image_id": 202298, + "image_name": "118503.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 280.584, + 35.404, + 2187.382, + 330.679 + ], + "priority": 1, + "parents": [ + 46004 + ], + "children": [], + "area": 9933.795936, + "iscrowd": 0, + "segmentation": [], + "text": "The B-1 receptor blocker Atenolol increases mortality in a mammal in\nassociation with its depressing effectscon heart function only imvery old\n\nindividuals:' agreement with meta-analyses in hypertensive human\nexch aCe Ys" + }, + { + "id": 45995, + "strid": "53741bc9-0377-4fee-b4a0-77014a28390a", + "image_id": 202298, + "image_name": "118503.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 87.683, + 363.128, + 2578.242, + 213.06 + ], + "priority": 2, + "parents": [ + 46004 + ], + "children": [], + "area": 31840.152424, + "iscrowd": 0, + "segmentation": [], + "text": "A. Gomez!, I, Sanchez- Roman!?, J. Goméz4, C. Sanchez! A. Naudi2, M:\\Portero-Otin2 ,R. Pamplona\nM. Lopez-Torres# and G. Barja?\n\n1Department of Animal Physiology-II, Complutense University.of Madrid, Spain\n2Department of Experimental Medicine, University of Lleida,300 ng/ml), troponin T (0.109\nng/ml), and anuria. The level of myoglobin\ndetermined on day 2 of the patient’s ICU stay\nwas > 30,000 ng/ml." + }, + { + "id": 1863, + "strid": "9c2b0d13-3e66-441b-a5a7-79f85af5ab3a", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 265.83, + 1310.705, + 241.66500000000002, + 47.39200000000005 + ], + "priority": 5, + "parents": [ + 1876 + ], + "children": [ + 1869 + ], + "area": 348424.71014999994, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 1869, + "strid": "8537c106-e9f9-4b35-903e-634e88b0e564", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 33.323, + 1371.96, + 705.999, + 703.875 + ], + "priority": 6, + "parents": [ + 1863 + ], + "children": [], + "area": 45717.82308, + "iscrowd": 0, + "segmentation": [], + "text": "The treatment administered to the patient led\nto establishing a diuresis of over 400 ml/day on\nday 6 after admission. CVVHD was discontinued\non day 11 of hospitalization, when the patient’s\nspontaneousdiuresiswas 1,600 ml/day. Following\nCVVHD discontinuation, diuresis was aided\nby the intake of mannitol and the continuous\ninfusion of furosemide. The AST, CK and ALT\nlevels returned to the normal range on days\n11, 12 and 21 of hospitalization, respectively.\nThe level of myoglobin decreased steadily,\nand was 233.4 ng/ml, 149.6 ng/ml and 72.57\nng/ml on hospitalization days 8, 11 and 15,\nrespectively. The patient was discharged on\nday 17 of hospitalization, in the polyuric phase\nof up to 9,300 ml/day (eGFR 17.40 ml/min/1.73\nm?), for further treatment in the Nephrology\nUnit. A week later, upon being discharged from\nthe Nephrology Unit, the patient’s renal function\nwas satisfactory (eGFR 72.3 ml/min/1.73 m?)." + }, + { + "id": 1862, + "strid": "20ec007f-9769-4185-a74a-9ca45f271966", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 981.596, + 392.444, + 267.337, + 50.125999999999976 + ], + "priority": 7, + "parents": [ + 1876 + ], + "children": [ + 1875, + 1874, + 1871, + 1872, + 1868, + 1873 + ], + "area": 385221.460624, + "iscrowd": 0, + "segmentation": [], + "text": "METHODS" + }, + { + "id": 1868, + "strid": "e0c8aef9-6b79-4082-a4c3-40de0630d771", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 762.125, + 456.961, + 706.4479999999999, + 488.259 + ], + "priority": 8, + "parents": [ + 1862 + ], + "children": [], + "area": 348261.402125, + "iscrowd": 0, + "segmentation": [], + "text": "Aside from standard treatment, with a view\nto managing hyperkalaemia and _ protecting\nthe kidneys from further damage, CVVHD CiCa\nhaemodialysiswithanEMIC2filterwas performed,\nleading to a rapid stabilization of the patient's\nclinical condition including sinus rhythm recovery.\nThe EMIC2 filter and/or the CVVHD CiCa kit\nwas/were initially replaced every 12-24 hours.\nAt the same time, the patient, who was monitored\nhaemodynamically, despite anuria received fluid\ntherapy soasto achieve mild arterial hypertension\ndue to hypervolaemia (fluid delivery rate: 4,000\nml/day). 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exertional\nrhabdomyolysis is a safe method of patient\nmanagement which may reduce kidney damage\nand speed up the recovery of normal renal\nfunction after exercise-induced rhabdomyolysis.\nAlso, it appears beneficial to determine the CK\nand myoglobin levels in the blood on a routine\nbasis during the first 12 hours after the end\nof ultramarathons." + }, + { + "id": 1865, + "strid": "a5753448-e795-4e61-a56b-23c851eb5859", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 936.124, + 2110.749, + 358.1780000000001, + 44.85600000000022 + ], + "priority": 16, + "parents": [ + 1876 + ], + "children": [ + 1866 + ], + "area": 1975922.7968759998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 1866, + "strid": "cdaede2b-cda2-4499-82ac-e71c4cf8c039", + "image_id": 200573, + "image_name": "10316.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 761.6, + 2171.909, + 705.938, + 452.5239999999999 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It is assumed that the availability of these data to the wider\nresearch community will facilitate re-analysis and meta-analysis,\nleading to novel insights that go beyond the primary purpose of\nthese studies." + }, + { + "id": 185690, + "strid": "a365b8f6-1a9a-4e6d-a734-ae7fa3d8581d", + "image_id": 207740, + "image_name": "8714.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 164.987, + 1607.466, + 1459.539, + 342.65599999999995 + ], + "priority": 5, + "parents": [ + 185687 + ], + "children": [], + "area": 265210.992942, + "iscrowd": 0, + "segmentation": [], + "text": "The challenge of heterogeneity\n\nA major challenge in integrating such public studies is the\nheterogeneity with which they are described. Not only are basic\nsample information frequently missing, but the descriptions\nprovided often use different vocabularies." + }, + { + "id": 185691, + "strid": "b35588a8-900c-4cf3-aed9-1e264726825f", + "image_id": 207740, + "image_name": "8714.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.718, + 1979.448, + 1456.177, + 204.9530000000002 + ], + "priority": 6, + "parents": [ + 185687 + ], + "children": [], + "area": 324071.267664, + "iscrowd": 0, + "segmentation": [], + "text": "Curating and integrating public and private data\n\nThe curation and integration of transcriptomic studies on a large\nscale require the use of controlled vocabularies." + }, + { + "id": 185699, + "strid": "8e4687d0-a068-491f-b710-e93fadf85ebd", + "image_id": 207740, + "image_name": "8714.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1704.255, + 1152.348, + 1415.1570000000002, + 439.77199999999993 + ], + "priority": 7, + "parents": [ + 185687 + ], + "children": [], + "area": 1963894.8407400001, + "iscrowd": 0, + "segmentation": [], + "text": "Since more then ten years, the curation team at the Swiss\ncompany NEBION has developed and continuously improved\napplication ontologies describing important biological\ndimensions such as tissues, genotypes, diseases, cancers,\nperturbations, or other factors. NEBION offers curation services\nfor both publicly available and private microarray and RNA-seq\nstudies. In particular, its curation team" + }, + { + "id": 185692, + "strid": "923b8221-436d-438d-97e1-a2f57e4973b7", + "image_id": 207740, + "image_name": "8714.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1794.057, + 1614.865, + 1328.3770000000002, + 419.16499999999996 + ], + "priority": 8, + "parents": [ + 185687 + ], + "children": [], + "area": 2897159.857305, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 185693, + "strid": "fac68906-7314-4c02-bde3-95cbf929df87", + "image_id": 207740, + "image_name": "8714.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1695.524, + 2135.047, + 1275.6640000000002, + 53.3130000000001 + ], + "priority": 9, + "parents": [ + 185687 + ], + "children": [], + "area": 3620023.4296279997, + "iscrowd": 0, + "segmentation": [], + "text": "Information is available upon request (sales@nebion.com)" + }, + { + "id": 185688, + "strid": "a6190de3-8925-4d75-bfd0-702a0e9aaa8e", + "image_id": 207740, + "image_name": "8714.png", 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Both modalities provide unique contributions towards the.understanding and\ndiagnosis of mental illness." + }, + { + "id": 52737, + "strid": "306d771e-0b68-4186-86f2-afdca763837c", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2662.766, + 429.019, + 1978.9850000000001, + 842.3509999999999 + ], + "priority": 13, + "parents": [ + 52727 + ], + "children": [], + "area": 1142377.206554, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52738, + "strid": "38c3c11f-46be-4c2d-ba48-ce26bcc328c7", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2593.171, + 1344.456, + 1960.0620000000004, + 126.30899999999997 + ], + "priority": 14, + "parents": [ + 52727 + ], + "children": [], + "area": 3486404.3099759994, + "iscrowd": 0, + "segmentation": [], + "text": "Past survey results ‘showed that parents of children with mental illness are receptive to\nneuroimaging-and genetic testing for diagnosis of mental illness:7" + }, + { + "id": 52739, + "strid": "e74a5633-89db-479c-be41-670ee6061763", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2736.502, + 1594.108, + 1812.9879999999998, + 731.9489999999998 + ], + "priority": 15, + "parents": [ + 52727 + ], + "children": [], + "area": 4362279.730216, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 52725, + "strid": "b53634f8-c354-4dfd-9459-211ea360516b", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1552.729, + 2413.982, + 787.577, + 58.39499999999998 + ], + "priority": 16, + "parents": [ + 52763 + ], + "children": [ + 52754, + 52761, + 52741, + 52749, + 52735, + 52762, + 52755, + 52740, + 52757, + 52758, + 52760, + 52753, + 52759, + 52751, + 52756, + 52752, + 52750 + ], + "area": 3748259.856878, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 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Everybody looking at the picture\nhopefully would see the same thing and would\nknow the implications and treatment would be\nmore streamlined and specific”." + }, + { + "id": 52752, + "strid": "49c91a58-053e-4943-99a6-f73432bc4dd6", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1529.094, + 3431.419, + 824.27, + 123.17999999999984 + ], + "priority": 26, + "parents": [ + 52725 + ], + "children": [], + "area": 5246962.204386, + "iscrowd": 0, + "segmentation": [], + "text": "Informed treatment plan to facilitate\nbetter patient management" + }, + { + "id": 52759, + "strid": "7c254664-4c0b-4c97-bf93-03353b323266", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2552.051, + 3263.899, + 1093.27, + 329.47800000000007 + ], + "priority": 27, + "parents": [ + 52725 + ], + "children": [], + "area": 8329636.7068489995, + "iscrowd": 0, + "segmentation": [], + "text": "“If there could be some definitive test that could\nidentify mental disorders, it would be helpful in\ntreatment for sure—choosing the appropriate\nmedications and kind of overall treatment\nplanning”." + }, + { + "id": 52753, + "strid": "f9002903-05f5-4770-b9e8-6d1546deaa0a", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1518.887, + 3819.831, + 853.8900000000001, + 56.1550000000002 + ], + "priority": 28, + "parents": [ + 52725 + ], + "children": [], + "area": 5801891.648097, + "iscrowd": 0, + "segmentation": [], + "text": "Misuse or misinterpretation of results" + }, + { + "id": 52760, + "strid": "c16e8400-484a-4dd0-9b64-fa30d5cd38ff", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2560.608, + 3649.004, + 1118.9430000000002, + 325.1999999999998 + ], + "priority": 29, + "parents": [ + 52725 + ], + "children": [], + "area": 9343668.834432, + "iscrowd": 0, + "segmentation": [], + "text": "“..my fear is that imaging would simplify things —\nunduly, and we would miss treating the subtleties\nof this disease. And instead we would just slap\ntogether a prescription and here’s your meds and\ngood luck”." + }, + { + "id": 52754, + "strid": "f94a5d86-9c49-4228-8ab1-2fe9a56a9c93", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1522.051, + 4122.394, + 831.201, + 108.67699999999968 + ], + "priority": 30, + "parents": [ + 52725 + ], + "children": [], + "area": 6274493.910094, + "iscrowd": 0, + "segmentation": [], + "text": "Societal impacts on employment and\ninsurance affairs" + }, + { + "id": 52761, + "strid": "08c694fe-ba5a-4aa7-b3f0-8423ab8f7071", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2562.748, + 4025.551, + 1114.6640000000002, + 256.73600000000033 + ], + "priority": 31, + "parents": [ + 52725 + ], + "children": [], + "area": 10316472.774148, + "iscrowd": 0, + "segmentation": [], + "text": "“There might be employment opportunities,\nschooling opportunities that would be closed to\nyou if people knew that you were at risk for those\nconditions ”." + }, + { + "id": 52755, + "strid": "cb997843-2fba-45c1-bdf6-415cf72c3fc8", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1585.347, + 4428.123, + 727.3010000000002, + 111.0659999999998 + ], + "priority": 32, + "parents": [ + 52725 + ], + "children": [], + "area": 7020111.513680999, + "iscrowd": 0, + "segmentation": [], + "text": "Infringements on self-esteem or\nmotivation" + }, + { + "id": 52762, + "strid": "19970f05-5770-4f97-95ad-e71b83a4cd75", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2571.306, + 4340.053, + 1080.433, + 190.41300000000047 + ], + "priority": 33, + "parents": [ + 52725 + ], + "children": [], + "area": 11159604.319218, + "iscrowd": 0, + "segmentation": [], + "text": "“There can be a sense of feeling defeated or\nfeeling that their 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"iscrowd": 0, + "segmentation": [], + "text": "So Value of diagnosis\n.\n\nMore accurate diagnosis\nusing biologically-oriented\nclassification." + }, + { + "id": 52742, + "strid": "f2e3710c-41f7-4d63-bc9e-cf48194e5faf", + "image_id": 202574, + "image_name": "118894.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.986, + 4664.702, + 2446.705, + 117.1289999999999 + ], + "priority": 41, + "parents": [ + 52763 + ], + "children": [], + "area": 139875.75417200002, + "iscrowd": 0, + "segmentation": [], + "text": "SOURCES lKieling et al. 2011. Lancet 378(9801). 2nimh.nih.gov 3cmha.ca *Gogtay et al. 2011. Schiz Bulletin 37(3).\n*Velakoulis et al. 2006. Arch Gen Psych 63. °Paus et al. 2008. Nat Rev Neurosci 9(12). 7Borgelt et al. 2012. J Atten Disord." + }, + { + "id": 155785, + "strid": "989c8cf4-6ca4-4d65-889b-426325115c3a", + "image_id": 206583, + "image_name": "22965.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 71.9, + 48.11, + 121.32999999999998, + 185.18 + ], + "priority": -1, + "parents": [], + "children": [ + 155772, + 155773, + 155777, + 155774 + ], + "area": 3459.1090000000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155772, + "strid": "cea0121b-b81d-4cc2-9158-3318bdb73372", + "image_id": 206583, + "image_name": "22965.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 221.161, + 84.84, + 2879.713, + 215.547 + ], + "priority": 1, + "parents": [ + 155785 + ], + "children": [], + "area": 18763.29924, + "iscrowd": 0, + "segmentation": [], + "text": "Synthetic Genomics Data Generation and Evaluation for the Use Case of\nBenchmarking Somatic Variant Calling Algorithms" + }, + { + "id": 155773, + "strid": "c036a2c1-7ae1-48e9-a373-940a95f50442", + "image_id": 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"area": 9771625.08938, + "iscrowd": 0, + "segmentation": [], + "text": "Venn plot of the Overall Variants" + }, + { + "id": 137398, + "strid": "a760fee6-35de-45ac-9028-cc258770e7ce", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 24.31, + 167.07, + 70.92999999999999, + 119.47000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 137380, + 137397, + 137382, + 137389, + 137378, + 137379, + 137381, + 137383 + ], + "area": 4061.4716999999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137378, + "strid": "770dc2ab-7943-4317-add2-7aba91f5e160", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 118.347, + 213.728, + 1411.933, + 107.82599999999996 + ], + "priority": 1, + "parents": [ + 137398 + ], + "children": [], + "area": 25294.067616, + "iscrowd": 0, + "segmentation": [], + "text": "Estimation of optimal number of independent components\nfor patient classification and prediction of their survival" + }, + { + "id": 137379, + "strid": "ea986968-3100-4c71-a7ed-47aab497e4b3", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 230.736, + 352.894, + 1165.2310000000002, + 124.17399999999998 + ], + "priority": 2, + "parents": [ + 137398 + ], + "children": [], + "area": 81425.349984, + "iscrowd": 0, + "segmentation": [], + "text": "Maryna Chepeleva?, Mikalai M Yatskou2, Petr V Nazarov?\n1Multiomics Data Science Research Group, Quantitative Biology Unit, Luxembourg Institute of Health, Luxembourg\n2Department of System Analysis and Computer Modeling, Belarusian State Universit insk, Belarus\nmaryna.chepeleva@gmail.com, petr.nazarov@lih.lu a" + }, + { + "id": 137380, + "strid": "8a2aa40f-869b-46e0-b6ae-dcd558d57872", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 52.543, + 510.059, + 146.1, + 24.43900000000002 + ], + "priority": 3, + "parents": [ + 137398 + ], + "children": [ + 137384 + ], + "area": 26800.030037, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 137384, + "strid": "05f3ab06-9c7c-4e95-aa51-f291232cb90f", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.597, + 559.013, + 757.299, + 183.68200000000002 + ], + "priority": 4, + "parents": [ + 137380 + ], + "children": [], + "area": 20458.198761000003, + "iscrowd": 0, + "segmentation": [], + "text": "Independent component analysis (ICA) allows decomposing heterogeneous\ntranscriptomics data and extracting signals that correspond either to relevant\nbiological processes or to technical biases. Using weights of independent\ncomponents as features for downstream analysis requires high reproducibility of\ndecomposition. Here we investigated the effect of extracted number of\nindependent components on reproducibility and quality of patients classification\nand prediction of survival." + }, + { + "id": 137381, + "strid": "9b0adad4-d8ea-40a1-8bdd-d6f17240f431", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 53.369, + 764.266, + 96.90900000000002, + 25.225000000000023 + ], + "priority": 5, + "parents": [ + 137398 + ], + "children": [ + 137385, + 137387 + ], + "area": 40788.112153999995, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 137385, + "strid": "fc6a579f-2211-46b0-a429-dbdcce0a3a81", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 36.968, + 805.288, + 765.571, + 522.636 + ], + "priority": 6, + "parents": [ + 137381 + ], + "children": [ + 137386 + ], + "area": 29769.886784000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137386, + "strid": "aa6b2397-1a01-4bf9-a654-7033be0f90ab", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 39.605, + 1340.664, + 749.168, + 114.89100000000008 + ], + "priority": 7, + "parents": [ + 137385 + ], + "children": [], + "area": 53096.99771999999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. (A) ICA decomposes gene expression matrix into meaningful signals (metagenes, S)\nand weights (weight matrix, M). Biological processes can be found in S, while M could be\nlinked to patient cancer groups and patient survival. (B) Cox regression model were built for\neach independent component. Then components with FDR < 0.05 used to calculate risk score\n(Eq. 1)." + }, + { + "id": 137387, + "strid": "3a0a2c4e-8c3a-4bcc-bd3b-88e1da2ffd04", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.589, + 1468.485, + 758.3900000000001, + 379.67499999999995 + ], + "priority": 8, + "parents": [ + 137381 + ], + "children": [], + "area": 53730.397665, + "iscrowd": 0, + "segmentation": [], + "text": "We applied the developed parallel consensus Independent Component Analysis\n(ICA) algorithm from R package cons/CA [1] to TCGA RNA-seq gene expression data\non patients with glioblastoma (GMB) and low-grade gliomas (LGG), skin cutaneous\nmelanoma (SKCM), pancreatic adenocarcinoma (PAAD) and non-small cell lung\ncancers: squamous cell carcinoma (LUSC) and adenocarcinoma (LUAD), Fig. 1A.\n\nTwo predicting models were used to classify the patients based on ICA results:\nrandom forest and xgboost from corresponding R packages. Metasamples (M-\nmatrix), the most significant differentially expressed genes (by limma package)\nwere used as input features to classifiers. Final balanced accuracy of multi-class\nclassification were calculated as average of balanced accuracy for each class. We\nalso carried out survival prediction with Cox regression (R package survival) on the\nweights of independent components with ICA-based risk score (Eq. 1, Fig. 1B), as in\n[2]. In models only the components with FRD < 0.05 in individual survival 5-fold\nvalidation were used." + }, + { + "id": 137382, + "strid": "d098ef8b-0d7b-4ca3-bc10-b4c85f8a97de", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 46.107, + 1869.606, + 85.525, + 24.742999999999938 + ], + "priority": 9, + "parents": [ + 137398 + ], + "children": [ + 137388, + 137393, + 137390, + 137394, + 137391 + ], + "area": 86201.923842, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 137388, + "strid": "978a00c6-5115-4803-9ca0-14747bcdce89", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.153, + 1914.556, + 748.807, + 264.77199999999993 + ], + "priority": 10, + "parents": [ + 137382 + ], + "children": [], + "area": 69216.943068, + "iscrowd": 0, + "segmentation": [], + "text": "To investigate the boundary values for the number of components for\nreproducible transcriptomic data analysis in case of small patient cohorts, we fixed\nthe number of components, as it can not be larger than the number of the\nsamples. We selected equal number of LUSC and LUAD patients and a smaller\nnumber of normal samples from the dataset. The number of normal patients did\nnot show any effect on the stability and classification accuracy. Fig. 2 presents the\nrequired sample size in order to achieve the median stability R? above 0.5. ICA\nwith a small number of components (<30) requires less samples to reach plateau\nin the stability. However ICA with the low number of components may be not\nsensitive enough to detect all important biological signals and technical artefacts." + }, + { + "id": 137390, + "strid": "0c871672-bbd9-43b4-82fe-af19efe9e342", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 834.821, + 498.458, + 770.466, + 48.02600000000001 + ], + "priority": 11, + "parents": [ + 137382 + ], + "children": [], + "area": 416123.206018, + "iscrowd": 0, + "segmentation": [], + "text": "Thus it is necessary to keep a balance between the number of components and the\nsample size." + }, + { + "id": 137391, + "strid": "7445acaa-c7c5-40c5-a97a-5d9bbe881a1e", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 834.779, + 550.879, + 760.297, + 207.918 + ], + "priority": 12, + "parents": [ + 137382 + ], + "children": [ + 137392 + ], + "area": 459862.220741, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137392, + "strid": "caf32c14-d466-4b23-94d8-137b38ab3a59", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 834.187, + 768.629, + 774.5869999999999, + 68.90300000000002 + ], + "priority": 13, + "parents": [ + 137391 + ], + "children": [], + "area": 641180.319623, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Stability depending on the sample size and the number of components for LUAD-LUSC\ndataset. (A) Required sample size to get median 0.5 stability (R) of metagenes. (B) An average\nnumber of components with R? > 0.5 depending on the sample sizes." + }, + { + "id": 137393, + "strid": "cba3fb9c-6be9-4bc9-9938-347304716d29", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 830.829, + 850.277, + 780.5449999999998, + 371.749 + ], + "priority": 14, + "parents": [ + 137382 + ], + "children": [], + "area": 706434.789633, + "iscrowd": 0, + "segmentation": [], + "text": "We validated multi-class models for predict cancer subtypes and calculate average\nmulti-class combined balanced accuracy for several experiments (Fig. 3A). Predicted\ncancer subtypes were classical/mesenchymal/neural/proneural (GMB-LGG),\nluad/lusc/normal (LUAD-LUSC), immune/keratin/MITF-low (SKCM),\nadex/immunogenic/progenitor/squamous (PAAD). Comparing to models trained on\nthe most significant genes (horizontal line), the top IC-based features improved the\nresults.\n\nTo validate the optimal number of independent components for survival analysis, we\ncompared results for 5-fold validated ICA-based cox-regression models. The model\nwill be better when the extracted components contain the most meaningful biological\nsignals correlated with patients survival. As can be seen in Fig. 3B, the influence\nnature is dataset dependent. For SCCM and PAAD data we found the optimum\nnumber of components. In case of more complex datasets the behavior was\nambiguous and sensitive for biological content of extracted components." + }, + { + "id": 137394, + "strid": "c21020f2-36f5-4d7c-9936-f7f26e018381", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 836.332, + 1226.359, + 779.245, + 428.58500000000004 + ], + "priority": 15, + "parents": [ + 137382 + ], + "children": [ + 137395 + ], + "area": 1025643.2751879999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137395, + "strid": "ba95544b-f4cb-4761-b6de-8ada51681388", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 832.928, + 1660.109, + 777.4120000000001, + 115.23399999999992 + ], + "priority": 16, + "parents": [ + 137394 + ], + "children": [], + "area": 1382751.2691519998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. (A) Average balanced accuracy depending on number of independent components for\nrandom forest cancer subtypes prediction. Horizontal line corresponds to model trained on the\nmost significant differentially expressed genes. (B) Average p-value of ICA-based cox regression\nmodels trained on independent components with FDR < 0.05 depending on number of\nindependent components." + }, + { + "id": 137383, + "strid": "116a5930-6f73-4853-b159-bf497616d965", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 840.917, + 1791.399, + 140.56000000000006, + 23.19699999999989 + ], + "priority": 17, + "parents": [ + 137398 + ], + "children": [ + 137396 + ], + "area": 1506417.872883, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 137396, + "strid": "fc384e64-586a-478c-8ece-0fd045f7da0b", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 828.458, + 1838.675, + 778.9339999999999, + 213.0179999999998 + ], + "priority": 18, + "parents": [ + 137383 + ], + "children": [], + "area": 1523265.01315, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137397, + "strid": "6416c847-8760-492e-9340-4176f0d193ff", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 834.868, + 2062.985, + 770.1420000000002, + 116.37699999999995 + ], + "priority": 19, + "parents": [ + 137398 + ], + "children": [], + "area": 1722320.1609800002, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements\n\nThis work was supported by the Luxembourg National Research Fund\nC17/BM/11664971 \"DEMICS“. We would like to thank all the people participated in\nthe DEMICS project." + }, + { + "id": 137389, + "strid": "11c247b0-afdf-4303-9ee1-cc5ddea24003", + "image_id": 205826, + "image_name": "16117.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 33.418, + 2207.499, + 384.859, + 96.39100000000008 + ], + "priority": 20, + "parents": [ + 137398 + ], + "children": [], + "area": 73770.201582, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59947, + "strid": "04c213d3-8ede-4303-ae97-ecb2cc4aa22b", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 117.86, + 172.83, + 425.69999999999993, + 364.88 + ], + "priority": -1, + "parents": [], + "children": [ + 59909, + 59915, + 59916, + 59912, + 59913, + 59911, + 59910, + 59917, + 59914 + ], + "area": 20369.7438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 59909, + "strid": "1ce31b2e-7cbd-4c80-8c18-9aee94589915", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 658.12, + 281.687, + 2217.454, + 109.25 + ], + "priority": 1, + "parents": [ + 59947 + ], + "children": [], + "area": 185383.84844, + "iscrowd": 0, + "segmentation": [], + "text": "Finding network motifs using MCMC Sampling" + }, + { + "id": 59910, + "strid": "2e5104b4-f3c6-4c7b-8dbf-4052aa564b11", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 669.968, + 398.837, + 2196.709, + 137.36799999999994 + ], + "priority": 2, + "parents": [ + 59947 + ], + "children": [], + "area": 267208.02721599996, + "iscrowd": 0, + "segmentation": [], + "text": "Tanay Kumar Saha and Mohammad Al Hasan\n\nDepartment of Computer and Information Science, Indiana University - Purdue University Indianapolis, IN 46202" + }, + { + "id": 59911, + "strid": "506ff6ab-6dc2-4d15-8d72-222ce576259e", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 5, + 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"iscrowd": 0, + "segmentation": [], + "text": "Our Contribution" + }, + { + "id": 59919, + "strid": "fd2d5656-a897-4fb7-b826-e5600c3f3e8e", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.655, + 1746.605, + 1076.016, + 251.86799999999994 + ], + "priority": 6, + "parents": [ + 59912 + ], + "children": [], + "area": 142619.03127500002, + "iscrowd": 0, + "segmentation": [], + "text": "In this work, we propose two random walk based methods,\nnamely MHRW (Metropolis-Hastings random walk) and SRW-\nRwW( Simple Random Walk with Re-weighting). for approximat-\ning the concentration of arbitrary-sized pattern graphs in a single\nlarge network." + }, + { + "id": 59920, + "strid": "22c83a4f-fe63-401b-867c-de7fff084c6d", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 86.749, + 2019.583, + 1039.361, + 317.04800000000023 + ], + "priority": 7, + "parents": [ + 59912 + 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The\ndataset name, motif size, and the number of samples (in parenthesis) are given\n\nin figure sub-title." + }, + { + "id": 59938, + "strid": "8761b64f-0cb2-4ded-9dc2-8b7c1e45c6cc", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2393.117, + 1397.029, + 1053.0720000000001, + 73.18100000000004 + ], + "priority": 26, + "parents": [ + 59916 + ], + "children": [], + "area": 3343253.8493930004, + "iscrowd": 0, + "segmentation": [], + "text": "(iv) p = 4(10000) (Ca- (v)p = 5(10000) (Ca-Hepth) (vi) p = 5(10000) (Ca-GrQC)\nAstroPh)" + }, + { + "id": 59933, + "strid": "8cc8338a-1f8d-4016-883f-6544b5495670", + "image_id": 202868, + "image_name": "119373.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2428.008, + 1760.267, + 462.83399999999983, + 324.50699999999983 + ], + "priority": 27, + "parents": [ + 59916 + ], + "children": [ + 59935 + ], + "area": 4273942.358136, + "iscrowd": 0, + "segmentation": [] + }, 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References" + }, + { + "id": 120321, + "strid": "05d7617a-0545-4838-92da-aeb3cdcc5c7f", + "image_id": 205184, + "image_name": "14411.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 9.919, + 934.372, + 359.001, + 144.25699999999995 + ], + "priority": 19, + "parents": [ + 120320 + ], + "children": [], + "area": 9268.035868, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192517, + "strid": "6cd453fd-053d-49b0-b75f-3fcc56271bc7", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 719.47, + 81.5, + 265.16999999999996, + 145.09 + ], + "priority": -1, + "parents": [], + "children": [ + 192514, + 192502, + 192505, + 192503, + 192506, + 192507, + 192508, + 192504 + ], + "area": 58636.805, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192502, + "strid": "87fbb44e-8029-4ee8-9994-426719e1b9c3", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1273.162, + 155.481, + 2052.6949999999997, + 81.36700000000002 + ], + "priority": 1, + "parents": [ + 192517 + ], + "children": [], + "area": 197952.500922, + "iscrowd": 0, + "segmentation": [], + "text": "Peripheral vision contributions to contextual cueing" + }, + { + "id": 192503, + "strid": "e4a424f2-7a9f-4c3b-88c4-fa7875220061", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 80.896, + 373.356, + 4063.2409999999995, + 114.89100000000002 + ], + "priority": 2, + "parents": [ + 192517 + ], + "children": [], + "area": 30203.006976, + "iscrowd": 0, + "segmentation": [], + "text": "Stefan Pollmann’?, Jonathan Napp’, Klaus Toennies?, and Franziska Geringswald'\n‘Department of Experimental Psychology and 2Department of Simulation and Graphics, Otto-von-Guericke-University, and ?Center for Behavioral Brain Sciences, Magdeburg, Germany" + }, + { + "id": 192504, + "strid": "f9ff87c6-5d1f-4075-9919-89102e38e1b1", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 186.983, + 631.697, + 335.26400000000007, + 41.48000000000002 + ], + "priority": 3, + "parents": [ + 192517 + ], + "children": [ + 192512 + ], + "area": 118116.600151, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192512, + "strid": "095b6458-6aa4-4e5e-9e40-a8d9037b469c", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 177.779, + 817.724, + 2091.281, + 418.53499999999997 + ], + "priority": 4, + "parents": [ + 192504 + ], + "children": [], + "area": 145374.154996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192505, + "strid": "138624d4-fe42-4887-97d7-3fa511018c3a", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 185.905, + 1332.58, + 235.773, + 45.10200000000009 + ], + "priority": 5, + "parents": [ + 192517 + ], + "children": [ + 192509, + 192515, + 192510 + ], + "area": 247733.2849, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192515, + "strid": "1f888195-46ae-447f-88ae-2c519b929f43", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 223.3, + 1512.959, + 2054.019, + 823.702 + ], + "priority": 6, + "parents": [ + 192505 + ], + "children": [], + "area": 337843.74470000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192509, + "strid": "a3f02ab9-9e71-4ca0-96e6-a215bb3deb05", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 191.933, + 2407.326, + 1017.363, + 703.8620000000001 + ], + "priority": 7, + "parents": [ + 192505 + ], + "children": [], + "area": 462045.30115799996, + "iscrowd": 0, + "segmentation": [], + "text": "Experiment 1: Visual search for a T-shaped target\namong L-shaped distractors.\n\nControl condition: Over 20 blocks, 12 identical displays were repeated (plus 12\nnovel displays). Search was restricted by simulated tunnel vision.\n\nExperimental condition: 20 different metameric displays of the same set of\nsummary statistics were presented as preview, followed by tunnel vision search in\nthe original display from which the set of summary statistics was obtained.\n\nSearch times for repeated displays were compared to search times for novel\ndisplays.\n\nExperiment 2:\nSummary statistics contain information about location\n\nand form. Is location information sufficient for\ncontextual cueing?\n\nT and L-shapes were replaced by identical crosses before generating the\nmetameric stimuli." + }, + { + "id": 192510, + "strid": "2067fd41-4857-40d5-bd6a-c877504a70d7", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1282.981, + 2410.597, + 986.635, + 762.652 + ], + "priority": 8, + "parents": [ + 192505 + ], + "children": [], + "area": 3092750.1496570003, + "iscrowd": 0, + "segmentation": [], + "text": "Generation of metameric ,mongrels’\n\nThe mongrels (Balas et al., 2009) are based on the texture synthesis\nalgorithm of Portilla and Simoncelli (2000) which provides a perception-\nderived, randomised texture creation tool, replicating the functionality of V1-\nsimple and complex cells by using linear and energy filters. They correlated\nthe output of these filters based on V2-receptive-field properties. Cross\nscale, cross orientation and cross position correlations are considered\nwhich are indicators for detecting edges, corners and periodicity. The result\nis summarized by a set of statistics that represents these informations as\nthe (inner) pattern structure of an input image. The reconstruction of this\npattern structure is an iterative process which creates a randomised\n“texture” by adjusting gradient directions in each iteration, based on an\ninitial gaussian noise image.\n\nOur mongrels are a full-field-representation of the mentioned reconstruction\nof summary statistics. This is provided by partitioning the visual field in\nregions with a V2-receptive-field-related size. Each point of the image is\ncaptured by four of these pooling regions. The recreation includes the\ncombination of the statistics of overlapping regions. After each iteration of\nthe synthesis of the regions the result is modified by a weighting on the\noverlapping regions. The inclusion of joining overlapping regions within the\niterative process decreases the dependency of the result to the pattern of\nthese regions." + }, + { + "id": 192506, + "strid": "8e88e851-6eef-4d8d-a4f4-341a079325f7", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2513.111, + 629.544, + 205.66699999999992, + 42.101999999999975 + ], + "priority": 9, + "parents": [ + 192517 + ], + "children": [ + 192516 + ], + "area": 1582113.9513839998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192516, + "strid": "6a6fc1c4-fb0b-4e79-acd2-d9fc49203862", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2590.146, + 786.919, + 1847.8699999999994, + 1449.1770000000001 + ], + "priority": 10, + "parents": [ + 192506 + ], + "children": [], + "area": 2038235.100174, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192507, + "strid": "f3ad014a-2821-4985-85d8-91f345535e61", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2508.419, + 2305.65, + 346.087, + 44.33100000000013 + ], + "priority": 11, + "parents": [ + 192517 + ], + "children": [ + 192513 + ], + "area": 5783536.26735, + "iscrowd": 0, + "segmentation": [], + "text": "Conciusions" + }, + { + "id": 192513, + "strid": "78b22324-1ee1-4dc1-b8d3-717e02aac0f2", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2528.253, + 2397.225, + 2064.4339999999997, + 344.1880000000001 + ], + "priority": 12, + "parents": [ + 192507 + ], + "children": [], + "area": 6060791.297925, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192514, + "strid": "e997f6b4-346e-4ab7-b165-389c3ffeac4f", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3135.996, + 3221.099, + 1448.7300000000005, + 41.01800000000003 + ], + "priority": 13, + "parents": [ + 192517 + ], + "children": [], + "area": 10101353.579604002, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by Deutsche Forschungsgemeinschaft, Grant PO 548/14-1" + }, + { + "id": 192508, + "strid": "9c7a4e4e-b2f4-4331-9667-cf0d831524f3", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2526.36, + 2816.371, + 310.326, + 44.5920000000001 + ], + "priority": 14, + "parents": [ + 192517 + ], + "children": [ + 192511 + ], + "area": 7115167.03956, + "iscrowd": 0, + "segmentation": [], + "text": "Pease alate" + }, + { + "id": 192511, + "strid": "7fd115e6-f87c-4ea2-8444-66ee0481b97b", + "image_id": 208019, + "image_name": "9238.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2509.991, + 2912.598, + 1968.7529999999997, + 228.77700000000004 + ], + "priority": 15, + "parents": [ + 192508 + ], + "children": [], + "area": 7310594.766617999, + "iscrowd": 0, + "segmentation": [], + "text": "Balas, B. J., Nakano, L., & Rosenholtz, R. (2009). A summary-statistic representation in peripheral vision explains visual crowding. Journal of Vision, 9(12):13, 1-18.\n\nBrady, T. F., & Chun, M. M. (2007). Spatial constraints on Learning in Visual Search: Modeling Contextual Cuing. Journal of Experimental Psychology: Human Perception and\nPerformance, 33(4), 798-815.\n\nChun, M. M., & Jiang, Y. (1998). Contextual cueing: Implicit learning and memory of visual context guides spatial attention. Cognitive Psychology, 36(1), 28-71.\n\nFreeman, J., & Simoncelli, E. P. (2011). Metamers of the ventral stream. Nature Neuroscience, 9, 1195-1201.\n\nPortilla, J., & Simoncelli, E.P. (2000). A parametric texture model based on joint statistics of complex wavelet coefficients. International Journal of Computer Vision, 40, 49-70.\nWallis, T., Bethge, M, and Wichmann, F. (2016). Testing models of peripheral encoding using metamerism in an oddity paradigm. Journal of Vision, 16, 4, 1-30." + }, + { + "id": 17600, + "strid": "d19d3df9-cc13-4395-a840-f0c6102083a0", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 161.63, + 65.82, + 183.82999999999998, + 116.1 + ], + "priority": -1, + "parents": [], + "children": [ + 17590, + 17591, + 17592, + 17597, + 17599, + 17589, + 17588, + 17594, + 17596, + 17598, + 17595, + 17593, + 17587 + ], + "area": 10638.486599999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17587, + "strid": "410d89cf-b033-4d15-bc12-99f3af62e3d7", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 783.566, + 55.335, + 1863.3349999999998, + 54.029 + ], + "priority": 1, + "parents": [ + 17600 + ], + "children": [], + "area": 43358.62461, + "iscrowd": 0, + "segmentation": [], + "text": "Human Pheromones: Epigenetic effects of odors and their affects on behavior" + }, + { + "id": 17588, + "strid": "955d80b3-d03b-4f8b-ac8c-2b968cb9e427", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1472.874, + 159.423, + 481.69499999999994, + 75.67700000000002 + ], + "priority": 2, + "parents": [ + 17600 + ], + "children": [], + "area": 234809.991702, + "iscrowd": 0, + "segmentation": [], + "text": "J.V. Kohl\n\nIndependent Researcher, Epworth, GA" + }, + { + "id": 17589, + "strid": "18e98128-a750-49ed-ae47-2985e5d213bd", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 72.916, + 352.423, + 953.279, + 358.058 + ], + "priority": 3, + "parents": [ + 17600 + ], + "children": [], + "area": 25697.275468, + "iscrowd": 0, + "segmentation": [], + "text": "Background: A detailed model explains how chemical ecology\ndrives adaptive evolution via 1) ecological niche construction, 2)\nsocial niche construction, 3) neurogenic niche construction, and\n4) socio-cognitive niche construction (Kohl, 2012). That model is\nused to exemplify the effects of olfactory/pheromonal\nconditioning, which alters genetically predisposed, nutrient\nchemical-dependent, hormone-driven mammalian behavior and\nchoices for pheromones that control reproduction via their\neffects on luteinizing hormone (Kohl, 1992)." + }, + { + "id": 17590, + "strid": "9f3e91d6-9c13-4d28-9f94-a70935222d12", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.099, + 751.093, + 958.839, + 599.0689999999998 + ], + "priority": 4, + "parents": [ + 17600 + ], + "children": [], + "area": 55655.240207, + "iscrowd": 0, + "segmentation": [], + "text": "Model: In this diagrammatic representation of the model,\nnutrient chemicals are metabolized to pheromones that condition\nbehavior in precisely the same way that food odors condition\nbehavior associated with food preferences. The epigenetic\neffects of olfactory/pheromonal input calibrate and standardize\nmolecular mechanisms for genetically predisposed receptor-\nmediated changes in intracellular signaling and stochastic gene\nexpression in gonadotropin releasing hormone (GnRH)\nneurosecretory neurons of brain tissue. For example: glucose\n(Roland and Moenter, 2011) and pheromones alter the secretion\nof GnRH and luteinizing hormone (LH). Parenthetically, a form of\nGnRH that is also linked to sexual orientation appears to\ncontrol the feedback loops of developmental processes required\nfor nutrient chemical ingestion, movement, reproduction, and the\ndiversification of species from microbes to man." + }, + { + "id": 17591, + "strid": "eedff286-7328-4cfc-acc4-850b56aa368a", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 73.695, + 1393.439, + 961.777, + 671.5670000000002 + ], + "priority": 5, + "parents": [ + 17600 + ], + "children": [], + "area": 102689.487105, + "iscrowd": 0, + "segmentation": [], + "text": "Additional Considerations (not shown): The honeybee is an\ninvertebrate model of adaptively evolved social behavior. The\nconcept that is extended is the epigenetic tweaking of immense\ngene networks in superorganisms that solve problems through\nthe exchange and the selective cancellation and modification of\nsignals. In the context of what has also been referred to as\n“biological embedding,” olfaction and odor receptors provide a\nclear evolutionary trail that can be followed from unicellular\norganisms to insects to humans.\n\nIt is now clearer how an environmental drive evolved from that of\nnutrient chemical ingestion in unicellular organisms to that of\nsocialization in insects. It is also clear that, in mammals, food\nodors and pheromones cause changes in hormones such as LH,\nwhich has developmental affects on sexual behavior in nutrient\nchemical-dependent reproductively fit individuals across species\nof vertebrates." + }, + { + "id": 17597, + "strid": "7cc518cc-d2b2-4d18-bb83-60b2f1326434", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1135.999, + 346.397, + 1162.235, + 1299.456 + ], + "priority": 6, + "parents": [ + 17600 + ], + "children": [], + "area": 393506.645603, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17598, + "strid": "636b2d69-ebc6-416d-8e4f-dcd895101de1", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1153.442, + 1667.272, + 1123.2290000000003, + 105.40100000000007 + ], + "priority": 7, + "parents": [ + 17600 + ], + "children": [], + "area": 1923101.550224, + "iscrowd": 0, + "segmentation": [], + "text": "Adaptive evolution and the prenatal migration of GnRH neurosecretory neurons allows nutrient chemicals and human\npheromones to alter GnRH pulsatility, which modulates the concurrent maturation of the neuroendocrine,\nreproductive, and central nervous systems, thus influencing the development of ingestive behavior, reproductive\nsexual behavior, and other behaviors." + }, + { + "id": 17599, + "strid": "dfc7ebca-904d-4705-8a36-f613a3887a6c", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1154.55, + 1788.476, + 1087.8099999999997, + 99.28099999999995 + ], + "priority": 8, + "parents": [ + 17600 + ], + "children": [], + "area": 2064884.9658000001, + "iscrowd": 0, + "segmentation": [], + "text": "AOS: accessory olfactory system; FSH: follicle stimulating hormone; GnRH: gonadotropin-releasing hormone;\nHPA: hypothalamic-pituitary-adrenal axis; HPG: hypothalamic-pituitary-gonadal axis; LH: luteinizing hormone;\nMOS: main olfactory system.\n\n‘Adapted from Kohl (1992) Luteinizing Hormoné: the lik between sex and the sense of smell?" + }, + { + "id": 17596, + "strid": "d35e2097-ecf5-4965-b0e8-1e1e2b2874b0", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1114.72, + 1924.497, + 1142.698, + 165.90100000000007 + ], + "priority": 9, + "parents": [ + 17600 + ], + "children": [], + "area": 2145275.2958400003, + "iscrowd": 0, + "segmentation": [], + "text": "Proof of concept (unpublished): Kohl, J. V., Kelahan, L. C., & Hoffmann, H. (2012). Human\npheromones and nutrient chemicals: epigenetic effects on ecological, social, and neurogenic\nniches that affect behavior. Poster presented at Society for Social Neuroscience Annual\nMeeting. New Orleans, LA. Oct 11-12.\nhttp://posters.f1000.com/posters/browse/summary/1092668" + }, + { + "id": 17592, + "strid": "fdb94cd6-6752-47b8-becc-dbd2179b8c66", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2381.796, + 351.002, + 967.056, + 558.5920000000001 + ], + "priority": 10, + "parents": [ + 17600 + ], + "children": [], + "area": 836015.159592, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 17593, + "strid": "7ec0bd99-81b4-493d-bcfd-b9e61f5a7a96", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2381.95, + 951.807, + 962.7359999999999, + 357.59400000000005 + ], + "priority": 11, + "parents": [ + 17600 + ], + "children": [], + "area": 2267156.68365, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions: Across species comparisons of epigenetic effects\non genetically predisposed nutrient-dependent and hormone-\ndriven invertebrate and vertebrate social and sexual behavior\nindicate that human pheromones also alter the development of\nthe brain and behavior via the same molecular mechanisms.\nThose molecular mechanisms must be conserved across all\nspecies for adaptive evolution of the human brain and human\nbehavior to occur (e.g., via properly timed reproductive sexual\nbehavior of mammals)." + }, + { + "id": 17594, + "strid": "a6cb3968-083f-4bd7-95aa-4bcf51c0385a", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2381.784, + 1351.355, + 958.326, + 317.8910000000001 + ], + "priority": 12, + "parents": [ + 17600 + ], + "children": [], + "area": 3218635.7173200003, + "iscrowd": 0, + "segmentation": [], + "text": "Note: In mammals, LH secretion is the measurable proxy for\ngenetically predisposed differences in hypothalamic GnRH pulse\nfrequency and amplitude and the downstream effects of GnRH\non the HPG axis and the HPA axis that provide feedback to the\nGnRH neuronal system. GnRH is the central regulator of\ngenetically predisposed nutrient chemical-dependent individual\nsurvival and pheromone-dependent species survival. In the\ncontext of adaptive evolution, there is no other model for that!" + }, + { + "id": 17595, + "strid": "6078c9c6-1397-45c0-b60d-91f4fafa7ebb", + "image_id": 201195, + "image_name": "116748.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2383.333, + 1707.885, + 961.0250000000001, + 368.376 + ], + "priority": 13, + "parents": [ + 17600 + ], + "children": [], + "area": 4070458.680705, + "iscrowd": 0, + "segmentation": [], + "text": "References:\n\nKohl, JV (1992). Unpublished. Luteinizing hormone: The link between sex and\nthe sense of smell? Annual Meeting of the Society for the Scientific Study of\nSex. San Diego, CA. Nov 12-15.\n\nKohl, J.V. (2012). Human pheromones and food odors: epigenetic influences\non the socioaffective nature of evolved behaviors. Socioaffective\nNeuroscience & Psychology, 2: 17338. DOI: 10.3402/snp.v2i0.17338\n\nRoland, A. V., & Moenter, S. M. (2011). Regulation of gonadotropin-releasing\nhormone neurons by glucose. Trends Endocrinol Metab, 22(11), 443-449." + }, + { + "id": 85891, + "strid": "b9ed26a5-95a2-4c5e-867e-93cf0cf476dc", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 133.25, + 191.95, + 295.68, + 303.07 + ], + "priority": -1, + "parents": [], + "children": [ + 85879, + 85890, + 85871, + 85873, + 85872, + 85887, + 85882 + ], + "area": 25577.337499999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85871, + "strid": "6fd83d13-ba58-4e72-bfa2-0907bf20d648", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 695.555, + 57.752, + 1893.8050000000003, + 258.965 + ], + "priority": 1, + "parents": [ + 85891 + ], + "children": [], + "area": 40169.69236, + "iscrowd": 0, + "segmentation": [], + "text": "Logical modeling ==\nof immune cells specification" + }, + { + "id": 85872, + "strid": "2adb12ad-37ce-43e1-a2be-640863ea9ba8", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 542.34, + 323.514, + 2288.138, + 350.18500000000006 + ], + "priority": 2, + "parents": [ + 85891 + ], + "children": [], + "area": 175454.58276000002, + "iscrowd": 0, + "segmentation": [], + "text": "Samuel Collombet?, Bruno Di Stephano“, Chris Van Oevelen2, Annouck Luytén?, Touati Benoukraf®,\nMorgane Thomas-Cholliér*, Daniel G. Tenen®, Thomas Graf?-& Denis Thieffry1\n\n1 computational systems biology, IBENS (CNRS UMR 8197 - INSERM U1024); Paris, France\nGentre de Regulcion Genomico, Barcelona, spain\n3 Cancer Science Insitut of Singapore, Singapore\n\nsamuel.collombet@ens.fr" + }, + { + "id": 85873, + "strid": "72bdfe17-2917-489c-9015-49226915f10b", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 61.199, + 719.829, + 1668.997, + 93.144 + ], + "priority": 3, + "parents": [ + 85891 + ], + "children": [ + 85876, + 85878, + 85875, + 85877, + 85874 + ], + "area": 44052.81497099999, + "iscrowd": 0, + "segmentation": [], + "text": "Modelling hematopoietic cells specification" + }, + { + "id": 85874, + "strid": "355e7084-fbe1-401e-9990-b43409e3905a", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 23.317, + 842.851, + 1701.113, + 237.94899999999996 + ], + "priority": 4, + "parents": [ + 85873 + ], + "children": [], + "area": 19652.756767, + "iscrowd": 0, + "segmentation": [], + "text": "- Transcription factors (TF) control blood cells differentiation from common progenitor.\n- Genetic perturbations can induce reprogramming of differentiated cells.\n\n- Based on published informations, we_built a computationnal model of the gene network\ncontrolling Bcell and Macrophage specification." + }, + { + "id": 85876, + "strid": "f6e591a1-9615-432c-8bff-92ffdb762eeb", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 231.407, + 1182.071, + 973.4129999999999, + 656.104 + ], + "priority": 5, + "parents": [ + 85873 + ], + "children": [], + "area": 273539.503897, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85877, + "strid": "9d464fcc-a20f-4842-93ea-5593f6f4c02e", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 201.969, + 1844.5, + 1158.824, + 96.56899999999996 + ], + "priority": 6, + "parents": [ + 85873 + ], + "children": [], + "area": 372531.8205, + "iscrowd": 0, + "segmentation": [], + "text": "Scheme of the hierarchical differentiation of hematopoietic lineages\n(lymphoid, myeloid and erythroid)." + }, + { + "id": 85875, + "strid": "1cc7d1bd-4544-465a-b866-0fc6182cce78", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1370.197, + 774.092, + 1907.434, + 1077.3599999999997 + ], + "priority": 7, + "parents": [ + 85873 + ], + "children": [], + "area": 1060658.5361239999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85878, + "strid": "656dd7ec-62d0-4146-a188-2063b57a394c", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1548.396, + 1860.666, + 1577.977, + 141.385 + ], + "priority": 8, + "parents": [ + 85873 + ], + "children": [], + "area": 2881047.7917359998, + "iscrowd": 0, + "segmentation": [], + "text": "Gene network controlling B-cells (blue nodes) and macrophage (orange) specification, from\ncommon progenitors (purple). Thick plain edges: fully proven regulation, thin plain: well\nsupported, dash: potentially indirect." + }, + { + "id": 85879, + "strid": "09cff16f-f20e-47b3-bb41-6921ccb24382", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 58.082, + 2006.594, + 1753.757, + 87.17500000000018 + ], + "priority": 9, + "parents": [ + 85891 + ], + "children": [ + 85881, + 85880 + ], + "area": 116546.992708, + "iscrowd": 0, + "segmentation": [], + "text": "Inferring newregulations from ChiP-seg data" + }, + { + "id": 85880, + "strid": "e03f5dbb-f4c3-4744-b3fe-c72ee97dc73e", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.331, + 2105.723, + 2217.217, + 48.8159999999998 + ], + "priority": 10, + "parents": [ + 85879 + ], + "children": [], + "area": 209163.571313, + "iscrowd": 0, + "segmentation": [], + "text": "To refine our model, we,re-analysed published ChIP-seq data (TF binding to DNA) to infer new transcriptional regulations." + }, + { + "id": 85881, + "strid": "b46c4806-2b34-474e-8f3f-9f78d12106ec", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 205.656, + 2186.592, + 3062.526, + 633.0709999999999 + ], + "priority": 11, + "parents": [ + 85879 + ], + "children": [], + "area": 449685.764352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 85882, + "strid": "98cafc85-c409-4a60-8d7a-22ef6835d777", + "image_id": 203842, + "image_name": "121009.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.469, + 2895.266, + 2284.573, + 88.37800000000016 + ], + "priority": 12, + "parents": [ + 85891 + ], + "children": [ + 85885, + 85886, + 85883, + 85884 + ], + "area": 166388.041754, + "iscrowd": 0, + "segmentation": [], + "text": "Fitting the model: stable states and dynamical simulations" + }, + { + "id": 85883, + "strid": "71551bf4-8b81-4d16-b3e0-c2cdfbd9d578", + 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BH corrected p<0.2). The most" + }, + { + "id": 163873, + "strid": "7c564b40-a092-4c7c-af52-06f0a4d9b13c", + "image_id": 206893, + "image_name": "6601.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 887.17, + 2514.399, + 1387.524, + 142.80200000000013 + ], + "priority": 15, + "parents": [ + 163867 + ], + "children": [], + "area": 2230699.3608299997, + "iscrowd": 0, + "segmentation": [], + "text": "significant SNPs were located in ADARB2 gene(fig. B), which was previously shown\nto be associated with extreme long age. The MTL for each genotype for the most\nsignificant SNP is shown in fig .B." + }, + { + "id": 163868, + "strid": "f635ef32-cdf7-45e6-9064-41119e88d8d5", + "image_id": 206893, + "image_name": "6601.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 482.919, + 2723.639, + 247.00900000000001, + 40.95899999999983 + ], + "priority": 16, + "parents": [ + 163880 + ], + "children": [ + 163874 + ], + "area": 1315297.022241, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 163874, + "strid": "05d5df62-2b6d-4a55-ace7-573248b60c56", + "image_id": 206893, + "image_name": "6601.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 65.196, + 2810.699, + 1068.683, + 410.8319999999999 + ], + "priority": 17, + "parents": [ + 163868 + ], + "children": [], + "area": 183246.332004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35443, + "strid": "2f43fefb-129d-4b8a-80c9-3fc24a1511cb", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 47.26, + 61.38, + 256.71000000000004, + 367.95 + ], + "priority": -1, + "parents": [], + "children": [ + 35427, + 35442, + 35421, + 35418, + 35439, + 35419, + 35417 + ], + "area": 2900.8188, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 35417, + "strid": "1b1b84a7-b9f8-4f9f-9667-e4de71b540d8", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 414.283, + 47.886, + 2481.83, + 238.71900000000002 + ], + "priority": 1, + "parents": [ + 35443 + ], + "children": [], + "area": 19838.355738000002, + "iscrowd": 0, + "segmentation": [], + "text": "TGAC Browser\nVisualisation solutions for-big data in the genomic era" + }, + { + "id": 35418, + "strid": "66079513-e374-4560-94d5-ffa1f664c875", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 864.201, + 296.343, + 1596.7179999999998, + 148.027 + ], + "priority": 2, + "parents": [ + 35443 + ], + "children": [], + "area": 256099.91694300002, + "iscrowd": 0, + "segmentation": [], + "text": "Anil Thanki, Xingdong Bian, Robert Davey\nThe Genome Analysis CentreWorwich Research Park, Norwich NR4 7UH;UK" + }, + { + "id": 35419, + "strid": "435cc95e-eb51-4b39-8bdf-5991e722102b", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.132, + 554.006, + 195.661, + 48.349000000000046 + ], + "priority": 3, + "parents": [ + 35443 + ], + "children": [ + 35420 + ], + "area": 51595.686792, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 35420, + "strid": "11138338-7303-4f94-9800-6a9f1cfa9c54", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 107.439, + 620.785, + 3096.265, + 286.84800000000007 + ], + "priority": 4, + "parents": [ + 35419 + ], + "children": [], + "area": 66696.519615, + "iscrowd": 0, + "segmentation": [], + "text": "We present a new web-based genomics browser with novel rendering and annotation capabilities designed to overcome some of the shortcomings in\navailable approaches. Most of the popular current browsers use on-the-fly server-side rendering of tracks and features which is not efficient in terms of\nperformance or scalability. In addition, these browsers often rely on very specific library dependencies, where writing plugins or modifying existing\n\ncode can be troublesome and resource expensive. We focus on functionality which in many cases is available in existing tools but with an improved and\nmore productive user interface." + }, + { + "id": 35421, + "strid": "8f417dff-6a24-4401-8175-649ef31858d8", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.597, + 1042.229, + 205.35200000000003, + 51.337999999999965 + ], + "priority": 5, + "parents": [ + 35443 + ], + "children": [ + 35422, + 35423, + 35425, + 35424, + 35426 + ], + "area": 97549.507713, + "iscrowd": 0, + "segmentation": [], + "text": "Features" + }, + { + "id": 35422, + "strid": "2e2f6237-55c8-4056-9515-5bfcdaf2cc04", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 118.225, + 1116.0, + 1495.387, + 229.2059999999999 + ], + "priority": 6, + "parents": [ + 35421 + ], + "children": [], + "area": 131939.1, + "iscrowd": 0, + "segmentation": [], + "text": "Responsiveness: Server side caching and client side rendering based on\nJSON generated from server responses, helps to decrease the server load\n\ncompared to server-side rendering browsers, and improves the user\nbrowsing experience." + }, + { + "id": 35423, + "strid": "b4cb1043-d197-4e9a-9094-48ce47d84631", + "image_id": 201897, + "image_name": "117847.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 114.528, + 1367.388, + 1523.114, + 293.90200000000004 + ], + "priority": 7, + "parents": [ + 35421 + ], + "children": [], + "area": 156604.212864, + "iscrowd": 0, + "segmentation": [], + "text": "User-friendly Browser Interaction: Traversing the reference genome,\nadding/removing tracks, drag and drop selections are examples of actions\nthat are seamlessly powered by modern web browsers.\n\nIn addition, other key features of the TGAC browser include merging and\nremoving tracks and exporting sequences in FASTA format." + }, + { + "id": 35424, + "strid": "42e62877-8d4e-4495-a31f-49b4fcef17e8", + 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0, + "segmentation": [], + "text": "Bearing Fruit under the APPLE scheme" + }, + { + "id": 21599, + "strid": "5a4136b8-59a3-45c9-85cc-f02ccbed3e56", + "image_id": 201360, + "image_name": "116997.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 427.704, + 4157.947, + 2636.245, + 320.7960000000003 + ], + "priority": 2, + "parents": [ + 21612 + ], + "children": [], + "area": 1778370.563688, + "iscrowd": 0, + "segmentation": [], + "text": "Author: Jenny Hopper, Occupational Therapy Practice Facilitator\nUniversity of Northampton\nJenny.hopper@northampton.ac.uk" + }, + { + "id": 21596, + "strid": "963a74d9-7a46-4ad3-a14f-daa1347fcd5c", + "image_id": 201360, + "image_name": "116997.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 295.92, + 605.748, + 2889.704, + 420.98199999999997 + ], + "priority": 3, + "parents": [ + 21612 + ], + "children": [], + "area": 179252.94816000003, + "iscrowd": 0, + "segmentation": [], + "text": "The College of Occupational Therapists recognises the skills, knowledge and expertise of Practice Placement Educators (PPEs) through the\n\nAccreditation of Practice Placement Educators’ (APPLE) scheme. By providing evidence for the 6 Learning Outcomes PPEs can apply for this\naccreditation. The 6 learning outcomes are illustrated here through the metaphor of a fruitful tree (1. the roles and attributes of an effective PPE ),\nembedded in nutritious soil (2. appropriate learning theories for adult and professional learners), supported by a network of\n\nestablished roots (3. planning, implementation and facilitation of learning), bearing a strong trunk (4. sound principles of judgement and\nassessment), giving rise to far reaching branches (5. evaluation of the learning experience) and evidence of new growth in the leaves\n\n(6. reflection on the learning experience and action plan for future practice)." + }, + { + "id": 21606, + "strid": "13fdd6d3-f140-4f39-a21d-61e2e2178b27", + "image_id": 201360, + "image_name": "116997.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 194.007, + 1112.586, + 1095.541, + 157.07400000000007 + ], + "priority": 4, + "parents": [ + 21612 + ], + "children": [], + "area": 215849.472102, + "iscrowd": 0, + "segmentation": [], + 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"children": [], + "area": 38842.161915, + "iscrowd": 0, + "segmentation": [], + "text": "Connecting genes with evolutionary knowledge using\nsemantic similarity and ancestral profiles of variation" + }, + { + "id": 157878, + "strid": "91d207ce-d5b6-4798-bd8f-8d8f99f15880", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 306.274, + 449.253, + 3185.495, + 239.55199999999996 + ], + "priority": 2, + "parents": [ + 157901 + ], + "children": [], + "area": 137594.51332199998, + "iscrowd": 0, + "segmentation": [], + "text": "James Balhoff':2, Prashanti Manda'-2, Hilmar Lapp’, Paula Mabee®, Todd Vision?\n'National Evolutionary Synthesis Center, Durham, NC, USA; 2University of North Carolina, Chapel Hill, NC, USA;\n3Duke University, Durham, NC, USA; 4University of South Dakota, Vermillion, SD, USA" + }, + { + "id": 157879, + "strid": "f0148cc2-89d3-4431-94c2-a8ae284ef1ef", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 81.391, + 815.713, + 484.277, + 83.89200000000005 + ], + "priority": 3, + "parents": [ + 157901 + ], + "children": [ + 157888 + ], + "area": 66391.696783, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 157888, + "strid": "6abd381b-ac7a-4a63-8d40-bc139fd66054", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.36, + 952.006, + 3597.019, + 390.0860000000001 + ], + "priority": 4, + "parents": [ + 157879 + ], + "children": [], + "area": 110775.41816, + "iscrowd": 0, + "segmentation": [], + "text": "The Phenoscape Knowledgebase contains evolutionary character descriptions annotated with anatomical terms from the Uberon anatomy ontology, quality terms from the Phenotype and Trait\nOntology (PATO), and other community standard ontologies. By importing model organism phenotype annotations for zebrafish, mouse, human, and frog (from the ZFIN, MGI, HPO, and Xenbase\nprojects, respectively) it provides an integrated phenotypic dataset bridging evolution and development.\n\nGoal: allow users with a gene of interest to find nodes on the tree of life associated with suites of evolutionary changes relevant to the phenotypes associated with the gene.\n\nWe have implemented a semantic similarity-based search which makes use of profiles of evolutionary variation which have been computed from taxonomic phenotype annotations, using ancestral\nstate reconstruction." + }, + { + "id": 157880, + "strid": "f3ebb67c-cef5-49d2-9d1b-1dd6da7eeaf2", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.222, + 1481.712, + 1245.597, + 87.33500000000004 + ], + "priority": 5, + "parents": [ + 157901 + ], + "children": [ + 157890 + ], + "area": 117384.18806399999, + "iscrowd": 0, + "segmentation": [], + "text": "Localizing evolutionary change" + }, + { + "id": 157890, + "strid": "7feebfdd-7417-4fa9-a601-53c75907758b", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1257.681, + 1537.697, + 1297.7869999999998, + 586.4390000000001 + ], + "priority": 6, + "parents": [ + 157880 + ], + "children": [ + 157889 + ], + "area": 1933932.300657, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157889, + "strid": "86090a2c-4e54-47b4-acef-930106baf541", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 129.806, + 1648.342, + 1013.614, + 492.3119999999999 + ], + "priority": 7, + "parents": [ + 157890 + ], + "children": [], + "area": 213964.68165200003, + "iscrowd": 0, + "segmentation": [], + "text": "Right: Fitch parsimony algorithm: for every phenotypic\ncharacter in the knowledgebase, a post-order traversal\nof the evolutionary tree is used to localize variation.\nThe set of possible states for a node is assigned as\nthe set intersection of the states of its descendants; if\nthe intersection is empty, then it is the set union,\nimplying a character state change occurred at that\nlevel. Here, “Shape of ceratobranchial 5” (from\nArmbruster 2004) varies at the level of the catfish\nfamily Loricariidae." + }, + { + "id": 157883, + "strid": "a48be0a4-4659-40c5-9204-0e2d284ed0d5", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2671.322, + 1447.408, + 1043.6350000000002, + 284.04600000000005 + ], + "priority": 8, + "parents": [ + 157901 + ], + "children": [ + 157900 + ], + "area": 3866492.8333759997, + "iscrowd": 0, + "segmentation": [], + "text": "Co-occurring evolutionary\nchanges map to taxon\nphenotypic profiles" + }, + { + "id": 157900, + "strid": "c5ea4f5d-5a4a-4b89-b271-0c8f78f24a13", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2684.055, + 1783.803, + 1110.6569999999997, + 545.1800000000001 + ], + "priority": 9, + "parents": [ + 157883 + ], + "children": [], + "area": 4787825.361165, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157884, + "strid": "5942b9ef-1c44-497a-a28b-5169e61192bc", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1965.486, + 2517.528, + 1844.028, + 187.95199999999977 + ], + "priority": 10, + "parents": [ + 157901 + ], + "children": [ + 157891, + 157899 + ], + "area": 4948166.038608, + "iscrowd": 0, + "segmentation": [], + "text": "Generated phenotype ontology subsumes\ngenetic phenotypes and evolutionary diversity" + }, + { + "id": 157891, + "strid": "164b7b69-6042-4bfd-b9f1-463b3d71f6d5", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 113.395, + 2267.269, + 1784.96, + 1368.404 + ], + "priority": 11, + "parents": [ + 157884 + ], + "children": [], + "area": 257096.96825499996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157899, + "strid": "6f017296-abbb-4596-bb85-c46068d2717a", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2011.492, + 2784.383, + 1810.2190000000003, + 643.944 + ], + "priority": 12, + "parents": [ + 157884 + ], + "children": [], + "area": 5600764.129435999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157881, + "strid": "6d43fe96-eb68-4aa8-9f04-68405ff960da", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 80.564, + 3690.78, + 978.5020000000001, + 85.74099999999999 + ], + "priority": 13, + "parents": [ + 157901 + ], + "children": [ + 157892 + ], + "area": 297343.99992, + "iscrowd": 0, + "segmentation": [], + "text": "Scoring profile similarity" + }, + { + "id": 157892, + "strid": "6c78e198-309a-466b-b735-7dfd710f2ec0", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.7, + 3828.726, + 3763.11, + 295.80499999999984 + ], + "priority": 14, + "parents": [ + 157881 + ], + "children": [], + "area": 286005.8322, + "iscrowd": 0, + "segmentation": [], + "text": "For a given query profile (above, zebrafish gene brpf7) and corpus profile (above, catfish family Loricariidae), a similarity score is calculated as the median information content (IC) of the most informative\nsubsumers of each phenotype in the gene profile and its best matching phenotype in the taxon profile. For Loricariidae, the nearest match to the brpf1 annotation ‘ceratobranchial bone; increased width’ is\n‘ceratobranchial 5 bone; decreased width’. The nearest common subsumer, ‘size phenotype of ceratobranchial bone’, has an IC of 0.75 (green *).\n\nThe best match to ‘hyomandibular cartilage; shape’ is the Loricariidae annotation ‘hyomandibular condyle for the opercle; position’. While there are at least 3 non-redundant least common ancestors of\nthese annotations, the maximum IC match is ‘phenotype of part of hyomandibular cartilage’ (\\C 0.68, blue *).\n\nThese two matches, along with those for the 24 other brpf1 annotations, result in a combined similarity score of 0.62." + }, + { + "id": 157882, + "strid": "901c1eb6-992d-445a-ba86-fd14253bd579", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.178, + 4230.736, + 1323.3830000000003, + 88.16799999999967 + ], + "priority": 15, + "parents": [ + 157901 + ], + "children": [ + 157893, + 157894 + ], + "area": 326519.74300799996, + "iscrowd": 0, + "segmentation": [], + "text": "Significance of a similarity match" + }, + { + "id": 157893, + "strid": "8abb94b5-015c-4eec-a7a5-9871df7f295c", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 67.654, + 4329.656, + 1506.926, + 665.2749999999996 + ], + "priority": 16, + "parents": [ + 157882 + ], + "children": [], + "area": 292918.54702399997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157894, + "strid": "4d6d02b7-e6ca-4790-badf-fa46d81eeab9", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 100.156, + 5047.904, + 1451.226, + 294.8199999999997 + ], + "priority": 17, + "parents": [ + 157882 + ], + "children": [], + "area": 505577.8730240001, + "iscrowd": 0, + "segmentation": [], + "text": "As shown above, the size of a phenotypic profile (number of annotations) is\npositively correlated with similarity scores. We performed a multiple regression\nto remove bias in similarity due to profile sizes. Taking into account the\ndifference in predicted and observed similarities, we produce an Expect value\nfor each match—the number of matches of that similarity which one would\nexpect to find in a corpus this size, given the size of the compared profiles." + }, + { + "id": 157885, + "strid": "f66fd3bd-1801-4f1a-b324-111aad5e12e7", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1654.586, + 4229.543, + 927.153, + 87.22500000000036 + ], + "priority": 18, + "parents": [ + 157901 + ], + "children": [ + 157895, + 157896 + ], + "area": 6998142.634198, + "iscrowd": 0, + "segmentation": [], + "text": "Results and challenges" + }, + { + "id": 157895, + "strid": "7cf44db3-473d-41ca-9240-7f5a1b993a11", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1677.616, + 4344.67, + 1082.8739999999998, + 345.375 + ], + "priority": 19, + "parents": [ + 157885 + ], + "children": [], + "area": 7288687.90672, + "iscrowd": 0, + "segmentation": [], + "text": "Currently, the Phenoscape KB contains 636 evolutionary\nvariation profiles, which can be searched using any of\n~16,000 annotated genes. The computed evolutionary\nprofiles range in size from 2 to 2829, with a median size of\n31. 4178 genes matched at least one evolutionary profile\nwith an Expect value <0.01. 12 genes found matches with\nExpect value <0.0001." + }, + { + "id": 157896, + "strid": "30b4142b-0e8f-42ea-8187-d1cb918bc577", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1680.498, + 4742.97, + 1126.2800000000002, + 595.7070000000003 + ], + "priority": 20, + "parents": [ + 157885 + ], + "children": [], + "area": 7970551.599060001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157886, + "strid": "af18c76c-8a0d-4d2a-892d-f9398067b9be", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2876.242, + 4223.112, + 679.125, + 69.85800000000017 + ], + "priority": 21, + "parents": [ + 157901 + ], + "children": [ + 157897 + ], + "area": 12146692.105104001, + "iscrowd": 0, + "segmentation": [], + "text": "More information" + }, + { + "id": 157897, + "strid": "257c70db-2f7d-4dd0-a343-5162e7c66fc0", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2885.918, + 4361.287, + 932.3220000000001, + 467.78700000000026 + ], + "priority": 22, + "parents": [ + 157886 + ], + "children": [], + "area": 12586316.656466002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157887, + "strid": "87c3b4f9-207c-4584-9f1a-030e7030dd93", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2866.701, + 4877.283, + 742.6480000000001, + 84.84199999999964 + ], + "priority": 23, + "parents": [ + 157901 + ], + "children": [ + 157898 + ], + "area": 13981712.053383002, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 157898, + "strid": "d4f162e8-a901-473c-af30-d06d2430a3d6", + "image_id": 206667, + "image_name": "6218.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2909.552, + 5002.759, + 894.8490000000002, + 194.09500000000025 + ], + "priority": 24, + "parents": [ + 157887 + ], + "children": [], + "area": 14555787.453968002, + "iscrowd": 0, + "segmentation": [], + "text": "The Phenoscape project is funded by NSF\n(DBI-1062404 and DBI-1062542), and\nsupported by the National Evolutionary\nSynthesis Center (NESCent), NSF EF-0423641." + }, + { + "id": 133004, + "strid": "853fe360-24e0-4454-9cc5-4fd4ba1a35f8", + "image_id": 205664, + "image_name": "15546.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 20.82, + 16.69, + 121.32, + 121.32 + ], + "priority": -1, + "parents": [], + "children": [ + 132990, + 132988, + 132986, + 132984, + 132982, + 132987, + 132985, + 132983, + 132989 + ], + "area": 347.48580000000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 132982, + "strid": "14a90289-00d4-4189-a68b-b03a7daf857c", + "image_id": 205664, + "image_name": "15546.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 388.908, + 402.415, + 1525.817, + 218.54699999999997 + ], + "priority": 1, + "parents": [ + 133004 + ], + "children": [], + "area": 156502.41282000003, + "iscrowd": 0, + "segmentation": [], + "text": "Generating Synthetic Images\nfor Visual Attention Modeling" + }, + { + "id": 132983, + "strid": "17f632b6-dc3e-4747-b8ce-0f6a2df96862", + "image_id": 205664, + "image_name": "15546.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 163.471, + 130.822, + 1939.725, + 233.497 + ], + "priority": 2, + "parents": [ + 133004 + ], + "children": [], + "area": 21385.603162, + "iscrowd": 0, + "segmentation": [], + "text": "David Berga’, Xosé R. Fdez-Vidal’, Xavier Otazu', Victor Leboran? & Xosé M. Pardo?\n1. CVC, DCC — Computer Vision Center — Universitat Autonoma de Barcelona\n2. CITIUS — Universidade de Santiago de Compostela\n\n{dberga, xotazuj@cvc.uab.es , {xose.vidal, victor.leboran, xose.pardo}@usc.es" + }, + { + "id": 132984, + "strid": "bc683a17-aef0-4d24-878b-b4c604131892", + "image_id": 205664, + "image_name": "15546.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 164.152, + 759.259, + 437.824, + 72.01300000000003 + ], + "priority": 3, + "parents": [ + 133004 + ], + "children": [ + 132999, + 132991, + 132993 + ], + "area": 124633.883368, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation" + }, + { + "id": 132991, + "strid": "9c53bd35-7da7-4271-9d0c-8ed7ff9a6bb8", + "image_id": 205664, + "image_name": "15546.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 186.006, + 899.502, + 1051.302, + 98.84000000000003 + ], + "priority": 4, + "parents": [ + 132984 + ], + "children": [], + "area": 167312.769012, + "iscrowd": 0, + "segmentation": [], + "text": "Predicting saliency is not equivalent to ...\n“Predict 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In order to\nhelp people manage chronic or persistent pain, significant psychological and social factors\narising rom and contributing to the patients’ symptoms have to be recognised and addressed,\nSIGN 136: Management of Chronic Pain in the Non Specialist Setting has a comprehensive\nreview ofthe effectiveness and safety of pharmacological and non-pharmacological treatment\nin Primary Care\n\nThe evidence on prescribing of analgesic drugs points to a marked increase in Scotland over\nthe last 10 years.\" Research by the Scottish Pain Research Community (SPaRC), with ISD and\nHIC has found a doubling of weak and strong opiate prescriptions over this period. There have\nalso been substantial rises in prescriptions of ather medications for chronic pain, such as\nAntidepressants, Gabapentin and Pregabalin. There is significant variation in rates of\nprescription by NHS Board, by prescriber and related to deprivation.” Ithas long been.\nrecognised that NSAIDs have implications fr patient safety *and patient safety bundles have\nbeen used to reduce these risks *\n\nOf course, analgesics and adjuvant medication can give patients significant pain relief and\nimproved quality of life. However itis essential for HCPs to monitor the effectiveness of\ntreatment and to be aware of the potential for adverse events. There also needs to be\nawareness of the possibilly of dependency and of how to help patients who have become\ndependent." + }, + { + "id": 166478, + "strid": "c510b882-2dec-45fc-bf09-657cd2f5d54d", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 52.481, + 698.391, + 465.995, + 353.111 + ], + "priority": 5, + "parents": [ + 166469 + ], + "children": [], + "area": 36652.258071, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 166477, + "strid": "9cde01b1-4006-469b-946e-c8b4dcf5a2de", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 54.429, + 1068.801, + 442.029, + 37.28800000000001 + ], + "priority": 6, + "parents": [ + 166469 + ], + "children": [], + "area": 58173.769628999995, + "iscrowd": 0, + "segmentation": [], + "text": "Inflal findings from research on oplokd prescribing shows that thera has been a significant\nincrease in the prescribing of both weak and strong opioids over the ten year period\n2003 - 2012 °" + }, + { + "id": 166470, + "strid": "ac52c521-869e-4ae7-9ee2-42907040134d", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 570.407, + 195.623, + 530.4440000000001, + 27.040999999999997 + ], + "priority": 7, + "parents": [ + 166483 + ], + "children": [ + 166479 + ], + "area": 111584.728561, + "iscrowd": 0, + "segmentation": [], + "text": "What are the implications for patient safety?" + }, + { + "id": 166479, + "strid": "6ae1831e-2625-4759-b656-891be8b9223f", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 590.47, + 245.71, + 466.44399999999996, + 436.389 + ], + "priority": 8, + "parents": [ + 166470 + ], + "children": [], + "area": 145084.3837, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 166471, + "strid": "265e4964-24b0-41ca-a59c-3fa60c557d69", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 594.588, + 726.567, + 446.29099999999994, + 28.118000000000052 + ], + "priority": 9, + "parents": [ + 166483 + ], + "children": [ + 166480, + 166475 + ], + "area": 432008.01939599996, + "iscrowd": 0, + "segmentation": [], + "text": "What can be done to improve safety?" + }, + { + "id": 166480, + "strid": "ff64647b-3e9c-40a4-97b2-7b224f83f301", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 599.408, + 784.704, + 472.24300000000005, + 319.46699999999987 + ], + "priority": 10, + "parents": [ + 166471 + ], + "children": [], + "area": 470357.855232, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 166475, + "strid": "b78118ad-69d1-40ae-b963-898667549701", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1123.824, + 250.88, + 466.00800000000004, + 106.519 + ], + "priority": 11, + "parents": [ + 166471 + ], + "children": [], + "area": 281944.96512, + "iscrowd": 0, + "segmentation": [], + "text": "We would propose developing HCP and public educalionsl rescurces. Exernples of existing\nresources can be found in e-Learning for Health resources at hip//portal.e-fh.org.uk/ and at\nthe Physicians for Responsible Opioid Prescribing website“. NES has recently developed two\nPractice Based Small Learning Group resources on chronic pain \"=. In adltion there are\nresources to support management of medically unexplained symptoms *\n\nPilot projects, inking pain management and patient safety are already under development in\nNHS Fife and Tayside." + }, + { + "id": 166472, + "strid": "48c90c27-acf4-421c-80e6-89ab71e9e520", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1292.593, + 409.065, + 127.75499999999988, + 26.16500000000002 + ], + "priority": 12, + "parents": [ + 166483 + ], + "children": [ + 166481, + 166476 + ], + "area": 528754.555545, + "iscrowd": 0, + "segmentation": [], + "text": "Next Steps" + }, + { + "id": 166476, + "strid": "de67223c-778b-4c31-944d-1e49b585dd80", + "image_id": 206998, + "image_name": "6757.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1126.427, + 479.558, + 462.44399999999996, + 66.21600000000001 + ], + "priority": 13, + "parents": [ + 166472 + ], + "children": [], + "area": 540187.079266, + "iscrowd": 0, 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Warren\nThe University of Manchester, UK; emma.gowen@manchester.ac.uk" + }, + { + "id": 168822, + "strid": "5f3642f3-9025-4a9a-b26e-46c1279a0c9c", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 54.178, + 195.114, + 81.62700000000001, + 9.849999999999994 + ], + "priority": 3, + "parents": [ + 168841 + ], + "children": [ + 168827, + 168828, + 168826, + 168838, + 168837 + ], + "area": 10570.886292, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 168826, + "strid": "8c4d9556-e10b-4a2b-a33b-f777e0954bbf", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 50.627, + 209.544, + 724.523, + 80.10099999999997 + ], + "priority": 4, + "parents": [ + 168822 + ], + "children": [], + "area": 10608.584088000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168827, + "strid": "8c4ebbe1-9e86-4e28-bdf7-55cd5ce34798", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 51.06, + 323.817, + 388.057, + 161.575 + ], + "priority": 5, + "parents": [ + 168822 + ], + "children": [], + "area": 16534.09602, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168837, + "strid": "6b12e9ad-09f3-4ddd-9f5b-fa6e32a00d41", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 454.15, + 319.892, + 306.14199999999994, + 125.28399999999999 + ], + "priority": 6, + "parents": [ + 168822 + ], + "children": [ + 168833 + ], + "area": 145278.95179999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168833, + "strid": "00eaa949-12e7-4e4d-9b86-4b08f962fcff", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 447.361, + 451.599, + 316.84900000000005, + 45.648000000000025 + ], + "priority": 7, + "parents": [ + 168837 + ], + "children": [], + "area": 202027.78023899999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. ta. A central gabor patch is flanked by two high contrast gabor patches\nthal are ether abgned with the target (0) or offset. (b) Detection ofthe\ncenral gabor is masimaly fcitated compared to @ no fanker (baseline)\ncondition. when target and flankore are aligned" + }, + { + "id": 168828, + "strid": "4573da32-f424-4156-ae91-965e7eeb6e22", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 51.371, + 507.012, + 365.05, + 28.42900000000003 + ], + "priority": 8, + "parents": [ + 168822 + ], + "children": [], + "area": 26045.713452, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168838, + "strid": "281619c7-c668-4c3b-864a-e5b65db52c4b", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 465.553, + 521.759, + 285.01699999999994, + 92.44899999999996 + ], + "priority": 9, + "parents": [ + 168822 + ], + "children": [ + 168834 + ], + "area": 242906.467727, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168834, + "strid": "f64353d3-32ed-4050-a8ef-a4fb502da01e", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 89.637, + 561.817, + 354.66, + 45.25 + ], + "priority": 10, + "parents": [ + 168838 + ], + "children": [], + "area": 50359.590429, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Temporal masking. In Simutianeous masking (SM) (a), the flankers and\nfarget appear at the same time. In backward masking (2M) (0), he fankers appear\naftr the target. In forward masking (FM) () the flankers appear before the larg\nTypically collinear fecivtation ss mactwal fon Shi, decreseng fer FM ana BMA" + }, + { + "id": 168823, + "strid": "6a10fa0e-1df6-48e6-ae04-52edabb31b69", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 52.828, + 651.537, + 53.94800000000001, + 9.369000000000028 + ], + "priority": 11, + "parents": [ + 168841 + ], + "children": [ + 168831, + 168829, + 168839 + ], + "area": 34419.396636000005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 168831, + "strid": "e17b329f-f227-46e7-ac74-f493b0fcdca1", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 51.792, + 666.169, + 393.51699999999994, + 29.92100000000005 + ], + "priority": 12, + "parents": [ + 168823 + ], + "children": [], + "area": 34502.224848, + "iscrowd": 0, + "segmentation": [], + "text": "Participants: 13 autistic (mean age=29.2%9.1; mean FSIQ=120.611; 2 female)\nand 13 matched controls (mean age=28.948,1: mean FSIQ=122.9410: 2 female)" + }, + { + "id": 168829, + "strid": "8b9a1eec-ec6d-4148-88cb-e0d379b33c4e", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 52.346, + 704.354, + 393.005, + 129.269 + ], + "priority": 13, + "parents": [ + 168823 + ], + "children": [], + "area": 36870.114484, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168839, + "strid": "134e7ed0-3d1d-45a4-8577-0b48d57c6d0e", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 462.826, + 644.312, + 311.2370000000001, + 141.86299999999994 + ], + "priority": 14, + "parents": [ + 168823 + ], + "children": [ + 168835 + ], + "area": 298204.34571200004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168835, + "strid": "90957967-3cf8-4e48-b2e5-4d07d196cb93", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 473.051, + 790.673, + 287.738, + 55.948999999999955 + ], + "priority": 15, + "parents": [ + 168839 + ], + "children": [], + "area": 374028.653323, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. Se Roque of sfeaien events foro singe Sil Tryst oe\nflanker Gabors separated by 2h (b) Temporal sequencing ofthe 5\nconditons showing the elationship between the target and flanker\nithe diferent masking scenarios (BM \\SM and FI). The baseine\n(no flankers) condition ia aloo shown (bottom)" + }, + { + "id": 168824, + "strid": "161c073a-fd90-4193-9f57-27feddfef211", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 54.871, + 874.273, + 143.75, + 9.38900000000001 + ], + "priority": 16, + "parents": [ + 168841 + ], + "children": [ + 168830, + 168840 + ], + "area": 47972.233783, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS AND DISCUSSION" + }, + { + "id": 168830, + "strid": "86578e3c-463c-43f6-b1c8-ea024ae1d602", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 54.272, + 889.444, + 453.449, + 136.61099999999988 + ], + "priority": 17, + "parents": [ + 168824 + ], + "children": [], + "area": 48271.90476799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168840, + "strid": "4e830339-80f2-4473-91c3-bcbc8c81c82e", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 524.244, + 872.067, + 238.44500000000005, + 149.32899999999995 + ], + "priority": 18, + "parents": [ + 168824 + ], + "children": [ + 168836 + ], + "area": 457175.892348, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 168836, + "strid": "630c0f33-d998-4bae-a54b-ef4056e79d9c", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 512.107, + 1021.898, + 257.11300000000006, + 22.091999999999985 + ], + "priority": 19, + "parents": [ + 168840 + ], + "children": [], + "area": 523321.11908599996, + "iscrowd": 0, + "segmentation": [], + "text": "Ag 4. Cine Selon i eee SOA fpr! ©\nbaseline), Error bars indicata SE." + }, + { + "id": 168825, + "strid": "30a32929-2090-44e2-948d-abd18007d943", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 56.516, + 1057.599, + 64.92500000000001, + 7.7439999999999145 + ], + "priority": 20, + "parents": [ + 168841 + ], + "children": [ + 168832 + ], + "area": 59771.26508399999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 168832, + "strid": "241bc8ef-2120-457c-9ff0-6980f4d039b0", + "image_id": 207094, + "image_name": "6955.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.504, + 1067.749, + 702.584, + 34.41799999999989 + ], + "priority": 21, + "parents": [ + 168825 + ], + "children": [], + "area": 53925.595496, + "iscrowd": 0, + "segmentation": [], + "text": "1. Hazen et al. (2014) Harvard Review of Psychiatry. 22(2) 112-24; 2. Muth et al. (2014) J autism Dev Disord. 44; 3245-63: 5-25; 3. Polat and Sagi (1993) Vision\nResearch. 23(7) 993-97; 4. Angelic tal. (2002). Jounal of Neuroscience. 2(18) 8633-46; 5. Jachim etl. (2015) Poster at ECVP 6, Jachim el (2015) Fronts in\nHuman Neuroscience 10(9) 115: 7. Kélta et al. (2011) Biol Psychiatry. 70(9) 806-11." + }, + { + "id": 76739, + "strid": "ef6efe33-1a20-4a3f-8359-67060b5faf10", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 141.02, + 73.49, + 33.69, + 28.88000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 76734, + 76726, + 76723, + 76724, + 76725, + 76727 + ], + "area": 10363.5598, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76723, + "strid": "2bb2b73b-b8a8-4371-aac4-fc9827ff5fac", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 146.685, + 14.637, + 556.319, + 46.663 + ], + "priority": 1, + "parents": [ + 76739 + ], + "children": [], + "area": 2147.028345, + "iscrowd": 0, + "segmentation": [], + "text": "Does finger sense play a role in number processing?\nEvidence from fMRI" + }, + { + "id": 76724, + "strid": "134d7147-b641-469b-9669-41bb9b767761", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 216.331, + 68.998, + 416.83899999999994, + 30.063000000000002 + ], + "priority": 2, + "parents": [ + 76739 + ], + "children": [], + "area": 14926.406338, + "iscrowd": 0, + "segmentation": [], + "text": "Sharlene D. Newman,& Roy Seo\nDepartment of Psychatogical and Brain Sciences, Indiana University, Bloomington, IN" + }, + { + "id": 76725, + "strid": "c6add78f-7fab-497b-ad23-8ea85b34efd0", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.47, + 114.966, + 758.143, + 133.539 + ], + "priority": 3, + "parents": [ + 76739 + ], + "children": [], + "area": 5342.47002, + "iscrowd": 0, + "segmentation": [], + "text": "Starting at a very young age, even before number symbols are leamed, a link is created’ between magnitude and fingers with children being\nable to represent numbers with their fingets as early as two years of age. Therefore, it may be that because magnitudes first mapped\nohto-a body-based system and then translated info a more abstract numeral system that number and finger are ‘connected. This is\néssentially the hypothesis proposed by Butterworth (1999) which suggests that fingers and numbers get linked because fingers are used to\nrepresent numerosity. A number of studies show a strong relationship between finger gnosia, or finger sense, andi number processing\n(Badets et al., 2007; Penner-Wilger et al., 2008), supporting this hypothesis. The current study attempts to examine the relationship\nbetween number and finger processing by exploring the neural overlap between the two. The parietal cortex is\\predicted to be the source of\nthe relationship between finger sense and number processing. Thiss due to the region being linked to magnitude processing (Meintjes et\nal., 2010; Piazza et al., 2007) as well as being the region responsible for Gerstmann’s syndrome (1940),.@ disorder resulting in deficits in\nfinger sense and arithmetia." + }, + { + "id": 76726, + "strid": "522925f5-2f22-4817-839f-f7c61a2449fb", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 194.044, + 252.113, + 95.066, + 15.990999999999985 + ], + "priority": 4, + "parents": [ + 76739 + ], + "children": [ + 76730, + 76729, + 76728 + ], + "area": 48921.014972000004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 76728, + "strid": "4d8724af-c1e0-4ad3-818b-b142e79ca959", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 38.486, + 271.834, + 332.239, + 40.86099999999999 + ], + "priority": 5, + "parents": [ + 76726 + ], + "children": [], + "area": 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622.319, + 69.41799999999998, + 16.812000000000012 + ], + "priority": 8, + "parents": [ + 76739 + ], + "children": [ + 76732, + 76735, + 76731, + 76736 + ], + "area": 123387.18813, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 76735, + "strid": "f58906c3-0490-4b5e-a4f2-5d08846247b0", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 39.385, + 644.513, + 403.444, + 77.95299999999997 + ], + "priority": 9, + "parents": [ + 76727 + ], + "children": [], + "area": 25384.144505, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 76736, + "strid": "96be15d7-e49b-4b4b-9045-7312c0f12eea", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 38.0, + 744.192, + 429.704, + 175.183 + ], + "priority": 10, + "parents": [ + 76727 + ], + "children": [], + "area": 28279.296000000002, + "iscrowd": 0, + "segmentation": [], + "text": "fMRI results:\n\n\\Viaing number strings elicited increased activation of bilateral posterior BA 9, right\nIPL, bilateral occipital cortex and let inferof Occipitaltemporal cortex (p<0.00%\nuncorrected) compared to fixation.\n\n‘The number versus letter comparison Yévealed that the number condition elicited’\nsignificantly more activation than did the letter condition in a number of regions,\nincluding the precuneus, superior occipital cortex, and inferior parietal cortex(see\nFig. 1).\n\nNo regions showed greaiar activation for letters.\n\n‘The right BA 9 revedled a correlation with finger gnosia score (SVE radius =\nFWE p=0.002) along with right BA 43 (see Fig. 2)." + }, + { + "id": 76731, + "strid": "3e4bd775-b230-4ac3-a1f9-5f4f160dbf33", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 441.384, + 281.308, + 369.92599999999993, + 333.677 + ], + "priority": 11, + "parents": [ + 76727 + ], + "children": [ + 76737 + ], + 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"category_name": "Caption", + "bbox": [ + 605.018, + 659.106, + 60.39599999999996, + 18.789999999999964 + ], + "priority": 14, + "parents": [ + 76732 + ], + "children": [], + "area": 398770.993908, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2" + }, + { + "id": 76734, + "strid": "c0748270-27cc-43ad-87a7-8b2f5543aadb", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 366.873, + 915.801, + 115.17099999999999, + 16.778999999999996 + ], + "priority": 15, + "parents": [ + 76739 + ], + "children": [ + 76733 + ], + "area": 335982.660273, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 76733, + "strid": "400bb538-60f6-4b9b-86c8-67cf10f2389d", + "image_id": 203493, + "image_name": "120330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.51, + 951.717, + 727.049, + 104.55200000000002 + ], + "priority": 16, + "parents": [ + 76734 + ], + "children": [], + "area": 58540.112669999995, + "iscrowd": 0, + "segmentation": [], + "text": "The np@per concdilion elicked more activedon in @atsel and laters! parietal regions then cid We lelier condition, regions that have baqnpinked to\nmaghitude processing (Meintjes ot al., 2010), in addition to posterior prefrontal regions. 99% of the contaminating\nmouse cells in less than 20 min, regardless of the tumor type. Cell fractions\nwere labeled with the pan-mouse antibody cocktail and an antibody against\nhuman CD326 (EpCAM) (fig. 1B)." + }, + { + "id": 162724, + "strid": "0c57282c-9b7d-476b-a3e2-afee78b6f6f3", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 143.902, + 2406.069, + 1054.615, + 98.95199999999977 + ], + "priority": 13, + "parents": [ + 162738 + ], + "children": [], + "area": 346238.14123799995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162736, + "strid": "ed32961e-9baa-436e-af6f-043a8c483244", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 115.788, + 2545.726, + 766.316, + 317.34799999999996 + ], + "priority": 14, + "parents": [ + 162738 + ], + "children": [ + 162721 + ], + "area": 294764.522088, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162721, + "strid": "99ae3fe7-729b-4735-9e37-8667191b0243", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 129.646, + 2968.869, + 95.108, + 27.246999999999844 + ], + "priority": 15, + "parents": [ + 162736 + ], + "children": [], + "area": 384901.990374, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2" + }, + { + "id": 162717, + "strid": "a04e8b3a-6fc1-43b3-be9e-a2d6006c7abe", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 111.811, + 3026.386, + 789.466, + 356.12699999999995 + ], + "priority": 16, + "parents": [ + 162738 + ], + "children": [], + "area": 338383.245046, + "iscrowd": 0, + "segmentation": [], + "text": "To assess the impact of MCD on the quality of next-generation sequencing\ndata, we conducted WES on three different xenograft models derived from\nhuman kidney, lung, and bladder cancer. As the capture oligonucleotides\nused for targeted enrichment of protein-coding sequences were designed\nbased on the human genome, an initial pre-enrichment of DNA fragments of\nhuman origin from the mixture of mouse and human cells was expected. In\norder to assess the number of capture oligonucleotides that might cross-\nhybridize with mouse genomic DNA, we conducted BLAST searches of each\nsingle Nextera® probe against mouse genome and used the resulting\nalignment parameters to determine possible cross-hybridization. Depending\non the selection thresholds (alignment length, no. of mismatches, no. of gaps)," + }, + { + "id": 162737, + "strid": "88c8315f-f3d3-48ff-ad0f-a5481ffba185", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 928.51, + 2542.535, + 738.6769999999999, + 418.31500000000005 + ], + "priority": 17, + "parents": [ + 162738 + ], + "children": [], + "area": 2360769.1728499997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162718, + "strid": "bf011020-3e9c-40b2-9ac5-045bf2d0ec55", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 926.49, + 3024.81, + 792.6180000000002, + 359.2779999999998 + ], + "priority": 18, + "parents": [ + 162738 + ], + "children": [], + "area": 2802456.2169, + "iscrowd": 0, + "segmentation": [], + "text": "we predicted a cross-reactivity of 5-10% of capture probes with mouse\ntranscripts (data not shown).\n\nDNA from bulk tumor or isolated human tumor cells was used to produce\nexome-captured sequencing libraries applying the Nextera Rapid Capture\nExome Kit (Illumina®). For sequencing on the MiSeq® instrument (Illumina)\nthe MiSeq Reagent Kit v3 (150 cycles, Illumina) was utilized to generate 75-bp\npaired-end reads. A significant increase (p < 0.05) in cluster density (fig. 2A)\nas well as an average increase in read counts of 33% (fig. 2B) was observed for\nthe samples depleted of mouse cells, indicating improved sample quality.\nCorrespondingly, we observed a strong reduction of debris and dead cells\nupon MCD by flow cytometry analysis." + }, + { + "id": 162725, + "strid": "1bf11928-ce1f-4bd5-bcb6-f3bbb7ffe900", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 141.286, + 3430.569, + 1339.864, + 86.44300000000021 + ], + "priority": 19, + "parents": [ + 162738 + ], + "children": [], + "area": 484691.371734, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162729, + "strid": "f2dcd64d-bb8f-413a-9dc5-be8816c983ee", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 104.409, + 3562.884, + 1566.598, + 1012.4380000000001 + ], + "priority": 20, + "parents": [ + 162738 + ], + "children": [ + 162740 + ], + "area": 371997.155556, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162740, + "strid": "72397ddd-8d40-49b2-8be4-aa1b2fbbd7ca", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 127.624, + 4568.004, + 98.953, + 33.28099999999995 + ], + "priority": 21, + "parents": [ + 162729 + ], + "children": [], + "area": 582986.942496, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3" + }, + { + "id": 162709, + "strid": "f93d85b1-a639-498c-ad19-b457f4191245", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1825.264, + 783.323, + 786.1569999999999, + 190.83799999999997 + ], + "priority": 22, + "parents": [ + 162738 + ], + "children": [], + "area": 1429771.2722719999, + "iscrowd": 0, + "segmentation": [], + "text": "After adapter clipping (trimmomatic v0.327), we mapped the reads of all\nsamples against human and mouse genomes (bwa v0.7.12°) and determined\ntheir putative origin based on the respective alignment parameters (LINUX\nshell, command-line Perl) (fig. 3A). An average of 12% of reads derived from\nbulk tumor samples was attributed to mouse cells. This amount could be\nreduced to 0.3% by prior depletion of mouse cells (fig. 3B). As on average 15%" + }, + { + "id": 162710, + "strid": "e6c958f9-36d2-4b21-83a5-94bc5c0b4ee2", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2640.828, + 783.323, + 789.2739999999999, + 192.21500000000003 + ], + "priority": 23, + "parents": [ + 162738 + ], + "children": [], + "area": 2068621.3114439999, + "iscrowd": 0, + "segmentation": [], + "text": "of the mouse-derived reads mapped erroneously to the human genome\n(1.9% of total reads) in the bulk tumor samples, a strong positive influence of\nmouse cell depletion (0.04% of total reads erroneously mapped to human\ngenome) on downstream analyses can be expected. Figure 3C exemplifies\nthe detailed read assignment for bulk tumor and isolated human tumor cells\nderived from the bladder cancer xenograft." + }, + { + "id": 162723, + "strid": "065cb0be-538b-4cb2-ab6d-6274e8f4f086", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1853.532, + 1020.97, + 1190.479, + 88.9369999999999 + ], + "priority": 24, + "parents": [ + 162738 + ], + "children": [], + "area": 1892400.56604, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162733, + "strid": "44d78807-e429-4303-9829-d90face0f79c", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1825.206, + 1158.094, + 1487.5630000000003, + 319.73800000000006 + ], + "priority": 25, + "parents": [ + 162738 + ], + "children": [ + 162741 + ], + "area": 2113760.117364, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162741, + "strid": "c022bc74-e401-47a1-bdd9-3382b8f8d1aa", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1840.564, + 1896.75, + 97.92000000000007, + 28.116999999999962 + ], + "priority": 26, + "parents": [ + 162733 + ], + "children": [], + "area": 3491089.767, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4" + }, + { + "id": 162732, + "strid": "5a321765-5889-4fdf-a517-7581d0224a9f", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1823.256, + 1516.825, + 1491.463, + 397.72299999999996 + ], + "priority": 27, + "parents": [ + 162738 + ], + "children": [], + "area": 2765560.2822000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162713, + "strid": "bf269294-30c8-47dd-9e6a-e975f4cefdd8", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1831.109, + 1957.073, + 780.7629999999999, + 226.33000000000015 + ], + "priority": 28, + "parents": [ + 162738 + ], + "children": [], + "area": 3583613.983957, + "iscrowd": 0, + "segmentation": [], + "text": "In order to determine the impact of mouse reads erroneously mapped to the\nhuman genome in the bulk tumor samples, we determined the number of\npredicted SNPs for the xenograft samples prior to and after MCD. As no healthy\ntissue was available for comparison, an SNP was defined as a difference between\nthe sequenced sample and the reference genome (hg19). After removal of\nduplicate reads by MarkDuplicates (Picard Tools v.1.119\"), SNP and INDEL calling\nwas conducted using VarScan v2.3.7° and was restricted to the regions targeted" + }, + { + "id": 162714, + "strid": "7c847169-91ad-46b1-ab6f-1793a0b516af", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2643.77, + 1960.111, + 786.8380000000002, + 224.81099999999992 + ], + "priority": 29, + "parents": [ + 162738 + ], + "children": [], + "area": 5182082.65847, + "iscrowd": 0, + "segmentation": [], + "text": "by the Nextera Rapid Capture Exome Kit as provided on the Illumina homepage.\n63+10% of all SNPs predicted for the bulk tumor samples were no longer\ndetected after mouse cell depletion, 18+1% were specific for the isolated human\ntumor cells (fig. 4A). While the former were mainly caused by erroneously\nmapped mouse reads, the latter seemed to be detected due to higher read\ncounts and accordingly higher coverage within the isolated human tumor cell\nsamples. This effect was also visible for predicted INDELs (fig. 4B)." + }, + { + "id": 162716, + "strid": "8ebc8795-9aa8-4c57-b69b-44ead95781ea", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1824.312, + 2359.584, + 787.6500000000001, + 132.3130000000001 + ], + "priority": 30, + "parents": [ + 162738 + ], + "children": [], + "area": 4304617.406207999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5A exemplifies the impact of MCD on the prediction of a protein-\ncoding exon of the POLA1 gene (generated by using the Integrative Genome\nViewer (IGV)®. While erroneously mapped mouse reads caused a number of\nfalsely predicted SNPs in the bulk kidney cancer xenograft, these SNPs were" + }, + { + "id": 162715, + "strid": "968205d3-61c5-4b88-a4df-b6233a0fc74a", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2643.797, + 2362.225, + 784.223, + 132.2420000000002 + ], + "priority": 31, + "parents": [ + 162738 + ], + "children": [], + "area": 6245243.368325, + "iscrowd": 0, + "segmentation": [], + "text": "completely missing after MCD. In addition, MCD also improved the prediction\nof high-impact SNPs. For example, mouse reads mapped to the human\nreference genome in the bulk tumor sample resulted in the wrongly predicted\ndestruction of the start codon of the GRIA3 gene (fig. 5B)." + }, + { + "id": 162731, + "strid": "b6937ba7-f82e-4e4f-b906-392908907a34", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1825.322, + 2516.262, + 1260.2429999999997, + 619.6060000000002 + ], + "priority": 32, + "parents": [ + 162738 + ], + "children": [ + 162719 + ], + "area": 4592988.386364, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162719, + "strid": "b7b342cb-f5fc-4fe8-a807-60e4669b77ac", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1837.027, + 3785.534, + 107.029, + 33.66199999999981 + ], + "priority": 33, + "parents": [ + 162731 + ], + "children": [], + "area": 6954128.167418, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5" + }, + { + "id": 162730, + "strid": "81f15160-ac25-431f-886b-b65bb170ae2b", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1829.871, + 3167.662, + 759.9259999999999, + 596.1349999999998 + ], + "priority": 34, + "parents": [ + 162738 + ], + "children": [], + "area": 5796412.831602, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162706, + "strid": "d81eeb8e-ec18-485f-83f7-67c7dfda3fef", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1889.836, + 3924.418, + 444.77600000000007, + 72.00500000000011 + ], + "priority": 35, + "parents": [ + 162739 + ], + "children": [ + 162727 + ], + "area": 7416506.415448001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 162727, + "strid": "f7fa302c-62de-4c18-9385-8e2a27c761cd", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1818.931, + 4050.854, + 776.808, + 462.3510000000001 + ], + "priority": 36, + "parents": [ + 162706 + ], + "children": [], + "area": 7368223.9170739995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162726, + "strid": "681179c6-f28e-42b6-91ca-edd3fde5cdeb", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2645.419, + 4048.557, + 627.1889999999999, + 193.84299999999985 + ], + "priority": 37, + "parents": [ + 162739 + ], + "children": [], + "area": 10710129.610382998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162728, + "strid": "052f7723-8c79-4d7f-9095-631fb5236f9f", + "image_id": 206853, + "image_name": "6533.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1830.008, + 4566.173, + 1596.6320000000003, + 41.42900000000009 + ], + "priority": 38, + "parents": [ + 162739 + ], + "children": [], + "area": 8356133.119384, + "iscrowd": 0, + "segmentation": [], + "text": "Unless otherwise specifically indicated, Miltenyi Biotec products and services are for research use only and not for therapeutic or diagnostic use. MACS is a registered trademark of Miltenyi Biotec GmbH.\nAll other trademarks mentioned in this document are the property of their respective owners and are used for identification purposes only. Copyright © 2015 Miltenyi Biotec GmbH. All rights reserved." + }, + { + "id": 55633, + "strid": "6929efaa-a8ed-494a-92e2-0a250e571d55", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 191.1, + 271.49, + 221.76000000000002, + 162.62 + ], + "priority": -1, + "parents": [], + "children": [ + 55618, + 55621, + 55615, + 55616, + 55619, + 55620, + 55622, + 55617 + ], + "area": 51881.739, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55615, + "strid": "5710ed45-d334-40fa-ba3b-621f3f720794", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 426.543, + 64.407, + 1943.509, + 58.099000000000004 + ], + "priority": 1, + "parents": [ + 55633 + ], + "children": [], + "area": 27472.355001, + "iscrowd": 0, + "segmentation": [], + "text": "Electrical Impedance Tomography comparison of APRV and Conventional Ventilation" + }, + { + "id": 55616, + "strid": "e0e562cb-447a-49c6-bfea-64680fc025ac", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 511.404, + 179.082, + 1774.7109999999998, + 82.32900000000001 + ], + "priority": 2, + "parents": [ + 55633 + ], + "children": [], + "area": 91583.25112799999, + "iscrowd": 0, + "segmentation": [], + "text": "S Jog ; S Sable ; D Patel ; P Tambur\n\nDepartment of Intensive Care Medicine, Deenanath Mangeshkar Hospital and Research Centre, Erandwane, Pune-411004, India." + }, + { + "id": 55617, + "strid": "8c69ce72-41d2-406d-9821-9a701ce2eb86", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 568.082, + 709.363, + 278.88800000000003, + 43.65999999999997 + ], + "priority": 3, + "parents": [ + 55633 + ], + "children": [ + 55623 + ], + "area": 402976.35176600004, + "iscrowd": 0, + "segmentation": [], + "text": "BACKGROUND" + }, + { + "id": 55623, + "strid": "9f20701a-5240-4e87-a3f3-b91c77db17f2", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 72.298, + 878.217, + 1251.566, + 386.6349999999999 + ], + "priority": 4, + "parents": [ + 55617 + ], + "children": [], + "area": 63493.332666, + "iscrowd": 0, + "segmentation": [], + "text": "Lung protective ventilation requires a reduced tidal volume and an adequate\npositive end-expiratory pressure (PEEP) level to minimize risks of ventilator-\ninduced lung injury. Although PEEP is widely used in clinical routine, the\ndetermination of optimal PEEP is still a matter of controversy [1,2].\n\nElectrical Impedance Tomography (EIT) has the potential to dynamically display\nthe regional distribution of ventilation at the bedside. Clinical studies suggest\nthat EIT monitoring may be helpful as a guide to optimal recruitment [3]." + }, + { + "id": 55618, + "strid": "bbe1e08a-2afc-4e08-8b12-861f446e44a2", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 664.46, + 1337.847, + 85.63200000000006, + 44.5630000000001 + ], + "priority": 5, + "parents": [ + 55633 + ], + "children": [ + 55632 + ], + "area": 888945.81762, + "iscrowd": 0, + "segmentation": [], + "text": "AIM" + }, + { + "id": 55632, + "strid": "6d8927a8-47a5-48f9-bda2-68e3d88d7a6a", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 74.474, + 1437.666, + 1267.135, + 183.85500000000002 + ], + "priority": 6, + "parents": [ + 55618 + ], + "children": [], + "area": 107068.737684, + "iscrowd": 0, + "segmentation": [], + "text": "To study Electrical Impedance tomography (EIT) as a monitoring tool for Tidal\nVentilation (TV) redistribution following switching patients from Volume\n\nControlled Ventilation(VCV) to Airway Pressure Release Ventilation( APRV) in\npatients with severe ARDS." + }, + { + "id": 55619, + "strid": "9adf398c-d670-4b43-9ce0-e33e6231feef", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 558.525, + 1666.124, + 302.1809999999999, + 40.986000000000104 + ], + "priority": 7, + "parents": [ + 55633 + ], + "children": [ + 55624 + ], + "area": 930571.9071, + "iscrowd": 0, + "segmentation": [], + "text": "METHODOLOGY" + }, + { + "id": 55624, + "strid": "8c297864-a200-4210-a816-3f009e091af2", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 62.346, + 1825.25, + 1290.692, + 1067.958 + ], + "priority": 8, + "parents": [ + 55619 + ], + "children": [], + "area": 113797.03649999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55620, + "strid": "aafc6b1b-e631-493a-98d3-307079e105ac", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 633.663, + 2982.725, + 158.53099999999995, + 41.46900000000005 + ], + "priority": 9, + "parents": [ + 55633 + ], + "children": [ + 55625, + 55631, + 55630, + 55629, + 55628 + ], + "area": 1890042.471675, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 55625, + "strid": "282f0fa1-6508-4904-b7be-a0e32d163276", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 61.969, + 3117.53, + 1283.996, + 465.5859999999998 + ], + "priority": 10, + "parents": [ + 55620 + ], + "children": [], + "area": 193190.21657000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55630, + "strid": "91defb91-b0c6-4631-b9e0-885a1848ccdf", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1458.474, + 730.543, + 1176.9669999999999, + 1032.35 + ], + "priority": 11, + "parents": [ + 55620 + ], + "children": [], + "area": 1065477.971382, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55631, + "strid": "6ecb1e11-c7ba-4690-9d19-7a79a7fddfe4", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1408.473, + 1798.024, + 1234.5879999999997, + 152.84300000000007 + ], + "priority": 12, + "parents": [ + 55620 + ], + "children": [], + "area": 2532468.2573519996, + "iscrowd": 0, + "segmentation": [], + "text": "Upper panel of figure shows end inspiratory and end expiratory images of EIT on VCV with\npoor TV in dorsal ROI 3 and 4.\n\nLower panel of figure shows EIT images at Phigh = 30 cm on APRV showing improved TV in\ndorsal ROIs" + }, + { + "id": 55629, + "strid": "6acdec0e-9f61-4465-9600-35c5be795b2f", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1397.815, + 2025.259, + 1259.5430000000001, + 609.279 + ], + "priority": 13, + "parents": [ + 55620 + ], + "children": [], + "area": 2830937.409085, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55628, + "strid": "ab47d441-2ce0-4202-beaf-eca9988c3e96", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1413.049, + 2668.518, + 1226.518, + 75.0909999999999 + ], + "priority": 14, + "parents": [ + 55620 + ], + "children": [], + "area": 3770746.6913819998, + "iscrowd": 0, + "segmentation": [], + "text": "Proportionl TV in ROI 3 during VCV, 12.7646.76 % improved to 24.58 + 6.61 %( p=0.067) on\nAPRV. Similarly TV in ROI 4 during VCV, 24.58 + 6.61% improved to 26.6 + 6.09 %( p=0.068)." + }, + { + "id": 55622, + "strid": "0ae7c9e1-c3f0-45ce-aa2e-3a154fc983ce", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1898.725, + 2788.99, + 278.0189999999998, + 46.82400000000007 + ], + "priority": 15, + "parents": [ + 55633 + ], + "children": [ + 55626 + ], + "area": 5295525.037749999, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 55626, + "strid": "59bd1097-acd8-4ac0-ae80-3bbc55b35e5a", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1423.625, + 2888.172, + 1224.962, + 88.8090000000002 + ], + "priority": 16, + "parents": [ + 55622 + ], + "children": [], + "area": 4111673.8635, + "iscrowd": 0, + "segmentation": [], + "text": "EIT may help to identify patients with severe ARDS on VCV with a potential\nof increasing recruitment by tidal redistribution of ventilation with APRV." + }, + { + "id": 55621, + "strid": "5a4746d5-54a8-4c68-b49a-d1a3f229260a", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1920.127, + 3093.771, + 241.21900000000005, + 43.710999999999785 + ], + "priority": 17, + "parents": [ + 55633 + ], + "children": [ + 55627 + ], + "area": 5940433.228917, + "iscrowd": 0, + "segmentation": [], + "text": "REFERENCES" + }, + { + "id": 55627, + "strid": "d4c420bb-a28e-4945-8342-30e248f976c9", + "image_id": 202686, + "image_name": "119096.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1414.781, + 3187.489, + 1239.533, + 375.3249999999998 + ], + "priority": 18, + "parents": [ + 55621 + ], + "children": [], + "area": 4509598.874909, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142082, + "strid": "34076b3f-bc35-436b-912d-bc5d28b4c4c1", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 147.43, + 68.76, + 181.02999999999997, + 221.26 + ], + "priority": -1, + "parents": [], + "children": [ + 142050, + 142051, + 142053, + 142052, + 142054, + 142049 + ], + "area": 10137.286800000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142049, + "strid": "1123eca7-f4c9-4ee2-935f-1da0975a6da3", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 770.691, + 71.336, + 1765.624, + 79.84499999999998 + ], + "priority": 1, + "parents": [ + 142082 + ], + "children": [], + "area": 54978.013176, + "iscrowd": 0, + "segmentation": [], + "text": "Modeling Quantitative Traits for COVID-19 Case Reports" + }, + { + "id": 142050, + "strid": "b099da21-ab62-4319-8cc8-488647c8d4f2", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 266.083, + 239.06, + 2325.471, + 154.81099999999998 + ], + "priority": 2, + "parents": [ + 142082 + ], + "children": [], + "area": 63609.801980000004, + "iscrowd": 0, + "segmentation": [], + "text": "Nuria Queralt-Rosinach '!, Susan M. Bello”, Robert Hoehndorf*, Claus Weiland +, Phillipe Rocca-Serra®, Paul N. Schofield 2°\" ,\nces =\n1 Leiden University Medical Center, Leiden, Netherlands 2 The Jackson Laboratory, BarHarbor, United States 3 King Abdullah University of Science and Technology, Thuwal, Saudi Arabia SSB int\n\n4 Senckenberg Biodiversity and Climate Research Center, Frankfurt, Germany 5 University of Oxford, Oxford, United Kingdom 6 University of Cambridge, Cambridge, United Kingdom * 2090 for" + }, + { + "id": 142051, + "strid": "9c1aae79-acd1-41ce-844b-84716ced399c", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 107.625, + 466.427, + 258.038, + 43.92099999999999 + ], + "priority": 3, + "parents": [ + 142082 + ], + "children": [ + 142055, + 142056, + 142057, + 142062 + ], + "area": 50199.205875, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 142055, + "strid": "97b81561-a391-434f-8ebb-64befd618ac7", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.411, + 543.725, + 1026.838, + 307.779 + ], + "priority": 4, + "parents": [ + 142051 + ], + "children": [], + "area": 43177.745975000005, + "iscrowd": 0, + "segmentation": [], + "text": "Novel diseases like COVID-19 stress how important is efficient\nand timely access to data and knowledge for healthcare man-\nagement and research. In Case Report Forms (CRFs), clinicians\nmonitor biomolecular concentrations, signs, and symptoms from\npatients to make diagnostic and therapeutic decisions. One prob-\nlem is how to interpret patient Quantitative Traits (QT), and link to\ntheir significance at a phenotypic conceptual level." + }, + { + "id": 142056, + "strid": "c7e5a771-1eaf-4d3f-b9a9-7d2f859ef237", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1136.21, + 543.725, + 1025.476, + 309.14099999999996 + ], + "priority": 5, + "parents": [ + 142051 + ], + "children": [], + "area": 617785.78225, + "iscrowd": 0, + "segmentation": [], + "text": "The Life Science community has been developing different ontolo-\ngies to represent from molecular biology to disease phenotypes\nand bridge knowledge between these domains. The Clinical Mea-\nsurement Ontology (CMO) [1] is designed to encode measure-\nment data generated from clinical, research and health records.\nHowever, there is still the need to link this quantitative measure-\nment standard to phenotypic ontologies." + }, + { + "id": 142057, + "strid": "9a5c7aa4-7246-458f-bcda-300d1ad10e15", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2201.179, + 543.725, + 1024.114, + 187.93600000000004 + ], + "priority": 6, + "parents": [ + 142051 + ], + "children": [], + "area": 1196836.051775, + "iscrowd": 0, + "segmentation": [], + "text": "Aims\n\nTo aid clinical researchers to efficiently connect these different\npieces of information, reason over it and share it, we aimed at:" + }, + { + "id": 142062, + "strid": "3bb41898-7367-4c89-b890-60ab4168d8ea", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2213.423, + 745.899, + 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Now CMO is interoperable with\nUberon, PATO, ChEBI and MP, and QTs are computable. Log-\nical inference with OWL enables integration and facilitates to\nmake connections between clinical measurements and pheno-\ntypes. The model provides a way to encode and share quanti-\ntave traits.\n\nSome limitations of our work are:" + }, + { + "id": 142078, + "strid": "b2c77453-9d41-4f89-895d-64522f6e3cf3", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 80.956, + 4434.182, + 990.937, + 138.53899999999976 + ], + "priority": 29, + "parents": [ + 142054 + ], + "children": [], + "area": 358973.637992, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142061, + "strid": "aa59cd6d-c344-42b8-abb3-1a6304593348", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1111.796, + 4069.347, + 926.3709999999999, + 141.2769999999996 + ], + "priority": 30, + "parents": [ + 142054 + ], + "children": [], + "area": 4524283.717212001, + "iscrowd": 0, + "segmentation": [], + "text": "Contributions\n\nUsing the WHO COVID-19 data and ontologies we provide:" + }, + { + "id": 142079, + "strid": "5fa6bc79-5b29-483e-918e-0cfe44f2c1af", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1121.92, + 4230.223, + 985.1639999999998, + 82.73800000000028 + ], + "priority": 31, + "parents": [ + 142054 + ], + "children": [], + "area": 4745971.78816, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142080, + "strid": "30f9e143-ea8b-406a-9f39-7cfc1c614c66", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1121.92, + 4343.747, + 769.6590000000001, + 38.483000000000175 + ], + "priority": 32, + "parents": [ + 142054 + ], + "children": [], + "area": 4873336.6342400005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 142081, + "strid": "e507564f-5830-4244-83e3-99f1e6a545cf", + "image_id": 206023, + "image_name": "17011.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1110.376, + 4403.396, + 1000.557, + 171.2489999999998 + ], + "priority": 33, + "parents": [ + 142054 + ], + "children": [], + "area": 4889425.236896, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40015, + "strid": "98e0783d-5118-477b-bdb9-01c5c2c5da3b", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 14.69, + 37.25, + 73.54, + 94.28 + ], + "priority": -1, + "parents": [], + "children": [ + 40002, + 40003, + 40004, + 40001, + 39994, + 39995 + ], + "area": 547.2025, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 39994, + "strid": "dac0670e-a735-4d01-8ff0-6f921ec3d081", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 100.305, + 19.1, + 533.9189999999999, + 89.54500000000002 + ], + "priority": 1, + "parents": [ + 40015 + ], + "children": [], + "area": 1915.8255000000004, + "iscrowd": 0, + "segmentation": [], + "text": "THE IMPACT OF ARGININE DEPRIVATION ON\nCANCER CELL VIABILITY AND SIGNALING\nPATHWAYS ASSOCIATED WITH HYPOXIA" + }, + { + "id": 39995, + "strid": "ca8eeb02-1a27-46d1-94bf-206ff9a6c6d4", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 142.491, + 118.76, + 452.52, + 63.400999999999996 + ], + "priority": 2, + "parents": [ + 40015 + ], + "children": [], + "area": 16922.231160000003, + "iscrowd": 0, + "segmentation": [], + "text": "CHORNY1S?., SHUVAYEVA G*., BOBAKY*2., STASYK O*7.\ncee pene Lt hte ners Hey 4 Ts, rine “\nprcraclcn lisiooe Ame te" + }, + { + "id": 40001, + "strid": "c752281d-68e8-4dcb-aa2f-09d7c1934730", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 213.239, + 187.381, + 68.19199999999998, + 12.483000000000004 + ], + "priority": 3, + "parents": [ + 40015 + ], + "children": [ + 39996, + 40005 + ], + "area": 39956.937059, + "iscrowd": 0, + "segmentation": [], + "text": "BACKGROUND" + }, + { + "id": 40005, + "strid": "d8de2910-d3c1-4ada-b2d8-671fbb24574a", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.101, + 201.736, + 355.675, + 226.17700000000002 + ], + "priority": 4, + "parents": [ + 40001 + ], + "children": [], + "area": 13738.423336, + "iscrowd": 0, + "segmentation": [], + "text": "Deregulation of call metabolism is @ key event in the development and\nprogression of cancer. Fr instance, one ofthe halmarks of pat of cancer calls\nther auxotrophic for certain amino acds. This feature can be used to design\nselective anticancer therapies based on certain amino acid deprivation, for\ninstance, arginine (Fig). For tis purpose was used ADIPEG20 (Pegylated\narginine deiminase) or riArg-PEG (Pegylated human recombinant arginase) to\ndeplat the extemal supply of arginine, causing arginine-dependent cancer calls o\nstop polferaion or even die whie leaving the patent's nomal calls unharmed\n(Stasyk otal, 2015; Fultang ot al, 2016; Savara) t al, 2010). However, this\napproach Is not effective enough. Also, some tumors develop resistance to Ary\nstarvation through reacivaion of ASS! (Argininosucchate synthetase 1)\nexpression, The molecular mechanism of tumor call response 0 arginine\ndeficiency is nt fly claifed (Tsai et al, 2017; Bobak eta, 2010)\n\nAnother important pathological feature of sos tumors isthe development of\nhyporia. An answer of tumors on hypoxia in many cases mediated though\nchanges in gone expression regulated by the transcription factor HIF (Hypoxia\ninducible factor). So it is very important to fin out how changes in hyposia-elated\nsignaling pathways will impact cancer cells under arginine deprivation." + }, + { + "id": 39996, + "strid": "d0d10a1f-e911-498f-82ae-d59d865c63c3", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 116.125, + 441.976, + 285.436, + 113.26800000000003 + ], + "priority": 5, + "parents": [ + 40001 + ], + "children": [ + 40014 + ], + "area": 51324.463, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40014, + "strid": "6450840e-d8fd-4675-9276-019d3ee1c9d8", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 108.452, + 560.591, + 311.142, + 14.399999999999977 + ], + "priority": 6, + "parents": [ + 39996 + ], + "children": [], + "area": 60797.215132, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Arginine deprivation therapy based on cancer cells ASS silencing." + }, + { + "id": 40002, + "strid": "08e85ade-3596-4201-93c7-915a17e14b2c", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 574.082, + 188.071, + 72.81399999999996, + 10.850999999999999 + ], + "priority": 7, + "parents": [ + 40015 + ], + "children": [ + 40006, + 39997 + ], + "area": 107968.175822, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 40006, + "strid": "5589db73-b2f8-4145-9b15-b5bcfd610c84", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 458.114, + 203.311, + 298.622, + 150.27699999999996 + ], + "priority": 8, + "parents": [ + 40002 + ], + "children": [], + "area": 93139.615454, + "iscrowd": 0, + "segmentation": [], + "text": "‘Colon conser eal lines HGT-116, HT29 were cullered in the\narginine-supplied (completa) (CM) or in the argnine-ree medium\n(AFM). Hypoxic condition was mimic by addition of 0.1 and 0:2 mM\ncobal (l) charge (CoC) (72h that protect HIF-ta from degradation\nby inhibition oF proly-nydromases (PHD) enzymes (the ongen\ncensors) tough replacement of Fall) making these enzymes\nunable to mark HIF-1 for degradation by von Hippel Lindau (VEL)\nwhich fs the substrate recagniton component of an E3-ubiquin\nigase (Fig.2) (Zhang et al, 2007, Thantafylou at al, 2006). MTT\nassay was used for measuring call vabily rates. Gene expression\nwas determined by RT (reverse transcription-PCR and Westom\nblotting." + }, + { + "id": 39997, + "strid": "62fabde2-dd75-4f3f-aa34-e1bed0d8ba97", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 506.009, + 389.987, + 250.12900000000002, + 165.166 + ], + "priority": 9, + "parents": [ + 40002 + ], + "children": [ + 40013 + ], + "area": 197336.931883, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40013, + "strid": "4282f1db-63f0-4517-86b5-90df01cd7710", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 502.813, + 558.536, + 257.69899999999996, + 24.81600000000003 + ], + "priority": 10, + "parents": [ + 39997 + ], + "children": [], + "area": 280839.161768, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Scheme of the mimic of tha hypoxic condition\nby inhibition of ubiquitin-proteasomal degradation of HiF-1a." + }, + { + "id": 40003, + "strid": "a6c827b9-5e47-4322-9eda-bf5e67b04969", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 402.994, + 595.062, + 82.04200000000003, + 19.783000000000015 + ], + "priority": 11, + "parents": [ + 40015 + ], + "children": [ + 40008, + 40000, + 39998, + 39999, + 40007 + ], + "area": 239806.41562800002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 40007, + "strid": "1b04d674-39ff-4563-bac5-6317f6b7f39b", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.704, + 630.409, + 360.981, + 87.19799999999998 + ], + "priority": 12, + "parents": [ + 40003 + ], + "children": [], + "area": 38898.756936, + "iscrowd": 0, + "segmentation": [], + "text": "Fit of ofl, we enelyzed the inpect of exgining skavelion on the expression of\ngenes associated with the hypoxic conditon — Hila and VEGFA (Vascular\nendothelial growth facto A In human colon cancer call ines HCT-116 and HTZ9\narginine starvation cid not induce any changes inthe expression of transripfon\nfactor HIF1a under the influence of arginine deficiency. But this condiion laads to\nthe increase ofthe amount of VEGFA mRINA (Fig. 3) which can be pal expained\na EL LLL RL" + }, + { + "id": 39999, + "strid": "3581d10d-24b7-45bd-8216-a437b02fd804", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 98.029, + 729.803, + 294.861, + 102.04999999999995 + ], + "priority": 13, + "parents": [ + 40003 + ], + "children": [ + 40012 + ], + "area": 71541.858287, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40012, + "strid": "31772d32-b353-4791-98d6-196d5f3b8af1", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 89.761, + 838.431, + 318.653, + 14.326000000000022 + ], + "priority": 14, + "parents": [ + 39999 + ], + "children": [], + "area": 75258.404991, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. Expression of HIF 1a and VEGFA in cells under arginine deprivation." + }, + { + "id": 40008, + "strid": "3f7ca28f-c4b6-4f95-8338-8143ea66cebe", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 61.772, + 861.115, + 364.112, + 215.13599999999997 + ], + "priority": 15, + "parents": [ + 40003 + ], + "children": [], + "area": 53192.79578, + "iscrowd": 0, + "segmentation": [], + "text": "‘Alar this, we pestormed eriliciel hyena wit the application of Cok end\nanalyzed the response of cancer cals on artificial hyposia in arginine-free medium.\nWe analyzed main signaling pathways associated wih hypoxia under this condition.\nInthe full medium we deteced sttong inhibition of p38 kinase caused by CaCl\nThis condtin also did not cause any changes in mTORC! activity, as shown by\nphosphorylation of S6 protein. But in arginine‘fee medium. no changes in p38 ot\nmTOR wae detected (Fg)\n\n \n\nArginine deprivation leo associated with development of unfoiden protein\nresponse (UPR) (Bobak etal, 2016). So, we analyzed one ofthe main markers of\nUPR — GRP78 (78 kDa glucose-ogulated protsin). CoCi2 exposure induced\naccumulation of GRP78, but, surpesingly, under arginine depfvation, effect of\nCoCla was reverse.\n\n‘We analyzed the impact of CoC2 on activation of apoptosis and cal proffaration in\nour call ines. No impact on caspase-dependent cleavage of PARP (Poly (ADP-\nribose) polymerase) was detected (Fig). We detected decrease in cel proliferation\n\nfale caused by cobalt chloride in argnine-suppied medium. Under argiine\ndeprivation, no changes were detcied (Fig 5)." + }, + { + "id": 39998, + "strid": "dbd2f1b7-371a-447a-beb0-8c0f825939ee", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 483.759, + 630.098, + 263.423, + 233.82500000000005 + ], + "priority": 16, + "parents": [ + 40003 + ], + "children": [ + 40011 + ], + "area": 304815.578382, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40011, + "strid": "a9129a0d-22bc-477e-87a2-013f9328067a", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 493.919, + 870.175, + 242.91899999999998, + 23.98599999999999 + ], + "priority": 17, + "parents": [ + 39998 + ], + "children": [], + "area": 429795.96582499996, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. Western Mots of prolaine aenocieted with lypenia\n\"and answer on arginine deptivation." + }, + { + "id": 40000, + "strid": "c33396d7-d67a-4d76-a433-98b693ad952b", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 434.35, + 905.35, + 346.44999999999993, + 128.02499999999998 + ], + "priority": 18, + "parents": [ + 40003 + ], + "children": [ + 40010 + ], + "area": 393238.7725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40010, + "strid": "dfac917d-53a1-49e0-b861-05ac866f2557", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 451.257, + 1039.134, + 323.6050000000001, + 14.457000000000107 + ], + "priority": 19, + "parents": [ + 40000 + ], + "children": [], + "area": 468916.491438, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5. Impact of CoClz on cancer cell proliferation under arginine starvation." + }, + { + "id": 40004, + "strid": "d4ebf166-2984-4759-ab03-cb2e71f1ef58", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 402.858, + 1095.402, + 61.89499999999998, + 11.891000000000076 + ], + "priority": 20, + "parents": [ + 40015 + ], + "children": [ + 40009 + ], + "area": 441291.45891600003, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 40009, + "strid": "0b018cd9-e239-46f1-8406-4d1e0da4398e", + "image_id": 202072, + "image_name": "11809.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.511, + 1113.376, + 664.671, + 40.53099999999995 + ], + "priority": 21, + "parents": [ + 40004 + ], + "children": [], + "area": 86298.88713599999, + "iscrowd": 0, + "segmentation": [], + "text": "The artificial enhancement of hypoxia did not increase the cytotoxicity of arginine deprivation towards the tested nanan camcer cells, but inkibits\nmTOR signaling pathway in arginine-supplied (complete) medium and reduce UPR induced by arginine starvation\nSemadannanenstbiTicteassnenensinnseninnienannatabiensaniabenteniendecessmmmenbanenintedeenasiedions" + }, + { + "id": 178643, + "strid": "2095461d-2b1d-46dc-b4c0-9f12dc4a5929", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2931.5, + 27.04, + 125.63999999999987, + 203.25 + ], + "priority": -1, + "parents": [], + "children": [ + 178637, + 178633, + 178625, + 178622, + 178627, + 178621, + 178626, + 178624, + 178623 + ], + "area": 79267.76, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 178621, + "strid": "82f901a0-cca7-4587-865e-35fcab695267", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 388.774, + 38.771, + 2529.976, + 304.087 + ], + "priority": 1, + "parents": [ + 178643 + ], + "children": [], + "area": 15073.156754, + "iscrowd": 0, + "segmentation": [], + "text": "Dispersal processes and environmental extrapolation on\npredictive accuracy of species distribution models across time:\nan example with the endemic and threatened Darwin frog" + }, + { + "id": 178622, + "strid": "4147dfcd-2d9f-471a-beb3-ea1eafd15d35", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 286.242, + 424.282, + 2686.951, + 181.81699999999995 + ], + "priority": 2, + "parents": [ + 178643 + ], + "children": [], + "area": 121447.328244, + "iscrowd": 0, + "segmentation": [], + "text": "David E Uribe R?, Andrés Valenzuela-Sanchez??, Gustavo Bizama‘, Claudio Soto-Azat®, Javier A. Simonetti, Patricio Pliscoff®7.\n1 Laboratory of Conservation Biology, Departament of Ecology, Universidad de Chile. 2 ONG Ranita de Darwin, Santiago, Chile. 3 Faculty of Ecology and Natural Resources,\nUniversidad Andres Bello. 4 Laboratory of Biological Invasions, Departament of Ecology, Universidad de Chile. 5 Center for Sustainability Research, Faculty of Ecology and\nNatural Resources, Universidad Andres Bello. 6 Institute de Geography, Universidad Catdlica de Chile. 7 Departament of Ecology, Universidad Catolica de Chile." + }, + { + "id": 178623, + "strid": "a470d028-04e2-40a2-9c16-c3c003c33aef", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.981, + 671.925, + 408.454, + 60.41700000000003 + ], + "priority": 3, + "parents": [ + 178643 + ], + "children": [ + 178642, + 178641, + 178628 + ], + "area": 63148.183424999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 178642, + "strid": "97e7a4d3-11a9-4e69-aca7-7107d291bf54", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 94.639, + 768.251, + 1251.696, + 337.615 + ], + "priority": 4, + "parents": [ + 178623 + ], + "children": [], + "area": 72706.50638899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 178641, + "strid": "da6a496b-5c47-4f2b-9a74-6bffa0d9e650", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 111.09, + 1137.306, + 1167.33, + 209.73500000000013 + ], + "priority": 5, + "parents": [ + 178623 + ], + "children": [], + "area": 126343.32354000001, + "iscrowd": 0, + "segmentation": [], + "text": "Aim\n\nWe investigated the consequences of such issues on predictive\naccuracy of SDMss forecasts for recent (last 40 years) distribution\nchanges on Darwin frog (Rhinoderma darwinii)." + }, + { + "id": 178628, + "strid": "b0c2a39b-099a-49ae-a367-22f69bb574aa", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1360.132, + 770.842, + 215.5440000000001, + 588.793 + ], + "priority": 6, + "parents": [ + 178623 + ], + "children": [], + "area": 1048446.871144, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 178625, + "strid": "7cc5a972-63dd-4592-b8c2-18e24f3b59d3", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 93.386, + 1459.048, + 294.845, + 56.807000000000016 + ], + "priority": 7, + "parents": [ + 178643 + ], + "children": [ + 178636, + 178640, + 178631, + 178632, + 178639 + ], + "area": 136254.656528, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 178639, + "strid": "07c979e0-d1d6-4cbb-9ba5-d3cdae7d8ff2", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 92.206, + 1565.401, + 966.224, + 291.44900000000007 + ], + "priority": 8, + "parents": [ + 178625 + ], + "children": [], + "area": 144339.36460600002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 178640, + "strid": "fc55f87c-968b-4c36-b538-85b7fb4a7e6a", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 93.728, + 1894.298, + 989.2690000000001, + 313.7270000000001 + ], + "priority": 9, + "parents": [ + 178625 + ], + "children": [], + "area": 177548.762944, + "iscrowd": 0, + "segmentation": [], + "text": "Approach\n\nWe built SDMs using past occurrences (1950-1970)\nand climatic conditions (1970) including or not\ndispersal processes, contrasting binary model\npredictions across time against current\npresences/absences." + }, + { + "id": 178631, + "strid": "9ff66d5f-5073-4a27-a40b-df6424c41c99", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1111.414, + 1552.108, + 471.0820000000001, + 658.5670000000002 + ], + "priority": 10, + "parents": [ + 178625 + 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across\ntime against 2008-2015 observed presences/absences (validation dataset). To\nassess the effects of dispersal processes on the temporal predictability of\nSDMs, we compared the predictive accuracy between SDMs with and without\ndispersal limitation. To assess the effect of model extrapolation, we stratified\nmodel projections to extrapolation and no extrapolation areas, and compared\nthe predictive accuracy using stratified validation datasets (i.e. analogue\nclimates vs no-analogue climates)." + }, + { + "id": 178624, + "strid": "089634bf-c195-437c-b832-e78921189d40", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1704.036, + 674.356, + 1444.031, + 54.25 + ], + "priority": 13, + "parents": [ + 178643 + ], + "children": [ + 178629 + ], + "area": 1149126.900816, + "iscrowd": 0, + "segmentation": [], + "text": "RECENT CLIMATIC CHANGE ON HABITAT SUITABILITY" + }, + { + "id": 178629, + "strid": "892e77ca-5341-498b-8359-a455b763a834", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1703.315, + 750.939, + 1518.946, + 719.5860000000001 + ], + "priority": 14, + "parents": [ + 178624 + ], + "children": [], + 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"parents": [ + 178643 + ], + "children": [ + 178635 + ], + "area": 5597391.651494999, + "iscrowd": 0, + "segmentation": [], + "text": "MODEL EXTRAPOLATION ON PREDICTIVE ACCURACY" + }, + { + "id": 178635, + "strid": "03b8d87f-bf2f-4c23-ab51-e012d3406c2d", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1704.526, + 3312.221, + 1515.307, + 657.2170000000001 + ], + "priority": 20, + "parents": [ + 178633 + ], + "children": [], + "area": 5645766.812246, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 178637, + "strid": "aee50fcb-57bf-43ef-bf64-d552f9e4fe76", + "image_id": 207472, + "image_name": "8229.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1427.553, + 4043.899, + 456.8979999999999, + 63.307000000000244 + ], + "priority": 21, + "parents": [ + 178643 + ], + "children": [ + 178638 + ], + "area": 5772880.149147, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 178638, + 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"priority": 1, + "parents": [ + 187079 + ], + "children": [], + "area": 29305.572408, + "iscrowd": 0, + "segmentation": [], + "text": "Estimating perioperative mortality in general surgical wards in MSF-OCA projects\nin South Sudan, Central African Republic and Democratic Republic of Congo,\n2011-2013." + }, + { + "id": 187059, + "strid": "a395f3b7-0218-44b9-9ff5-4bf59ae81817", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 316.955, + 364.858, + 2789.367, + 177.031 + ], + "priority": 2, + "parents": [ + 187079 + ], + "children": [], + "area": 115643.56739, + "iscrowd": 0, + "segmentation": [], + "text": "Lenglet A (1)*, Davies J (2)*, Ariti C (2), van Wijhe M (1)\n\n1) Médecins Sans Frontiéres, Public Health Department, Amsterdam, 2) London School of Hygiene and Tropical Medicine, United Kingdom" + }, + { + "id": 187060, + "strid": "49128181-6189-4b35-a164-bcc0ecf24ba5", + "image_id": 207795, + "image_name": 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+ "text": "Figure 1: POMR30 in MSF facilities in DRC, South Sudan and CAR, 2011-2013." + }, + { + "id": 187078, + "strid": "5600c8cb-1f0a-498a-8952-9aab8019d769", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1680.122, + 2756.338, + 1664.086, + 556.685 + ], + "priority": 13, + "parents": [ + 187062 + ], + "children": [ + 187071 + ], + "area": 4630984.113236001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187071, + "strid": "f5386e3c-3c33-439c-a2f3-25470878a7f5", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1687.466, + 2657.796, + 1641.5030000000002, + 78.23300000000017 + ], + "priority": 14, + "parents": [ + 187078 + ], + "children": [], + "area": 4484940.384935999, + "iscrowd": 0, + "segmentation": [], + "text": "Table 3: Adjusted analysis of risk factors for death within two days of admissions and between 2-\n30 days after admission in MSF facilities in DRC, South Sudan and CAR, 2011-2013." + }, + { + "id": 187075, + "strid": "356994b9-a97c-425e-8626-025fc53df981", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 77.529, + 3811.778, + 1471.316, + 944.3449999999998 + ], + "priority": 15, + "parents": [ + 187079 + ], + "children": [], + "area": 295523.336562, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 187061, + "strid": "7338c64f-7302-4113-887f-f5ecbc2c2897", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1798.125, + 651.311, + 218.5709999999999, + 42.5 + ], + "priority": 16, + "parents": [ + 187079 + ], + "children": [ + 187067 + ], + "area": 1171138.5918750002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 187067, + "strid": "064452ef-366e-4278-aeb8-ed92e2704fa6", + "image_id": 207795, + "image_name": "8818.png", + "category_id": 4, + "category_name": "List", 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"area": 207903.848985, + "iscrowd": 0, + "segmentation": [], + "text": "Debswapna Bhattacharya! and Jianlin Cheng!\"\n1Department of Computer Science, ?Informatics Institute, ?C. Bond Life Science Center;\nUniversity of Missouri, Columbia, MO 65211, USA" + }, + { + "id": 161245, + "strid": "d89d4d8d-614e-41cb-841c-ab519aa80c1f", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 150.349, + 603.862, + 3181.314, + 317.366 + ], + "priority": 3, + "parents": [ + 161278 + ], + "children": [], + "area": 90790.04783799998, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract: Improving the overall told of the initial models is one of the major challenges in protein structure refinement field. Here, we\npropose a novel conformation ensemble approach, called REFINEpro to tackle this problem. The protocol first identifies the less conserved\nlocal regions in the initial structure by consensus approach using ensemble of models produced for the same protein target. We call these\nregions problematic regions (PRs). Combined with our previous study on protein structure refinement, the qualities of the PRs are then\niteratively improved by assembling better-modeled fragments corresponding to these PRs from structures in the ensemble." + }, + { + "id": 161246, + "strid": "7404fb2f-3305-455b-b287-5fb5db365e8a", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 132.331, + 1013.257, + 798.926, + 56.72300000000007 + ], + "priority": 4, + "parents": [ + 161278 + ], + "children": [ + 161274, + 161256, + 161254, + 161253, + 161250, + 161249, + 161277, + 161276, + 161257, + 161255, + 161275 + ], + "area": 134085.312067, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 161275, + "strid": "44f5d7a4-81a1-47b7-9c7e-8ae054e6012c", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.863, + 1112.92, + 275.412, + 29.648999999999887 + ], + "priority": 5, + "parents": [ + 161246 + ], + "children": [], + "area": 144527.12996000002, + "iscrowd": 0, + "segmentation": [], + "text": "1.1. Process Flow" + }, + { + "id": 161255, + "strid": "6d0c4195-0c56-4f25-aa01-f0079331ce1e", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 140.834, + 1207.962, + 491.56299999999993, + 877.1579999999999 + ], + "priority": 6, + "parents": [ + 161246 + ], + "children": [], + "area": 170122.120308, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 161256, + "strid": "219f0cd3-d718-4e1a-bf8c-9a9dbe24b8f6", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 678.821, + 1149.283, + 486.869, + 989.9429999999998 + ], + "priority": 7, + "parents": [ + 161246 + ], + "children": [], + "area": 780157.435343, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 161253, + "strid": "5ce1437c-26fd-40cc-93e1-c3de72b0236f", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 124.866, + 2155.639, + 1047.404, + 727.5129999999999 + ], + "priority": 8, + "parents": [ + 161246 + ], + "children": [], + "area": 269166.019374, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 161274, + "strid": "d08d3b2b-0e23-4c1d-9f85-6a38775b5b76", + "image_id": 206796, + "image_name": "6439.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 129.824, + 2909.415, + 463.184, + 34.64800000000014 + ], + "priority": 9, + "parents": [ + 161246 + ], + "children": [], + "area": 377711.89296, + "iscrowd": 0, + "segmentation": [], + "text": "1.3. 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Department of Medical Biology and Genetics, Faculty of Medicine, University of Kocaeli, Kocaeli, 41380, Turkey\n2. Department of Neurology, Istanbul Faculty of Medicine, University of Istanbul, Istanbul, 34290, Turkey" + }, + { + "id": 90405, + "strid": "79bb0b3a-2f2f-4b61-a671-9f536e7afd41", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.654, + 611.735, + 331.118, + 60.10699999999997 + ], + "priority": 3, + "parents": [ + 90418 + ], + "children": [ + 90404 + ], + "area": 29763.354690000004, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 90404, + "strid": "7f128915-d26a-4baf-8d72-08194b930ea9", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.151, + 749.819, + 1544.988, + 514.598 + ], + "priority": 4, + "parents": [ + 90405 + ], + "children": [], + "area": 33855.077669, + "iscrowd": 0, + "segmentation": [], + "text": "Amyotrophic lateral sclerosis (ALS) is a fatal motor neuron\ndisease (MND), affecting either upper or lower motor\nneurons. Generally patients experience signs and symptoms\nof progressive muscle atrophy and weakness, problems with\nswallowing, leading to respiratory failure and death. Only\n5-10 % of patients survive more than 10 years and median\nsurvival is 3-5 years from onset (1)." + }, + { + "id": 90407, + "strid": "8448b00b-3a27-470c-bef2-3861c00bb858", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 42.449, + 1500.772, + 224.351, + 74.7840000000001 + ], + "priority": 5, + "parents": [ + 90418 + ], + "children": [ + 90406 + ], + "area": 63706.27062799999, + "iscrowd": 0, + "segmentation": [], + "text": "Objects" + }, + { + "id": 90406, + "strid": "a8652f62-f03b-47ab-b26f-a3d0270edfd7", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 42.745, + 1640.103, + 1549.938, + 223.74 + ], + "priority": 6, + "parents": [ + 90407 + ], + "children": [], + "area": 70106.202735, + "iscrowd": 0, + "segmentation": [], + "text": "The aim of the study was to determine whether saitohin gene\n1862063857 variant was associated with sporadic\namyotrophic lateral sclerosis (SALS)." + }, + { + "id": 90409, + "strid": "d61bd0f4-3c8e-42c3-9f0e-0081de1f5c38", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.203, + 2207.208, + 242.345, + 65.07400000000007 + ], + "priority": 7, + "parents": [ + 90418 + ], + "children": [ + 90415, + 90408 + ], + "area": 106394.04722400001, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 90408, + "strid": "0ab75aec-895a-4e71-aa55-4c88cc08e3c1", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 44.91, + 2329.725, + 1538.713, + 668.7930000000001 + ], + "priority": 8, + "parents": [ + 90409 + ], + "children": [], + "area": 104627.94974999999, + "iscrowd": 0, + "segmentation": [], + "text": "We had 597 sporadic ALS patients and 423 controls to\ngenotype. Genomic DNA was isolated from whole blood\nand a polymerase chain reaction and restriction fragment\nlenght polymorphism procedure was used to genotype the\nSTH gene rs62063857 variant (2). The amplified fragment\nwas digested Hinfl restriction endonuclease and run on an\n8% polyacrylimide gel followed by silver staining. SPSS\nstatistical analysis was used in the calculation of genotype\nand allele frequencies and association." + }, + { + "id": 90415, + "strid": "7dc896be-c51a-4184-a1df-30b8ec378d07", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 195.524, + 3160.868, + 1190.6970000000001, + 776.817 + ], + "priority": 9, + "parents": [ + 90409 + ], + "children": [], + "area": 618025.5548319999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 90417, + "strid": "eb1a6abd-4f11-46a6-a50f-04addcf030ec", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.941, + 4057.064, + 202.204, + 54.31399999999985 + ], + "priority": 10, + "parents": [ + 90418 + ], + "children": [ + 90410, + 90403, + 90416 + ], + "area": 198556.769224, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 90416, + "strid": "551bbbc8-057c-40d3-a430-0691cc36c0d3", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.0, + 4129.997, + 1512.499, + 420.27400000000034 + ], + "priority": 11, + "parents": [ + 90417 + ], + "children": [], + "area": 189979.86200000002, + "iscrowd": 0, + "segmentation": [], + "text": "Although ALS is a rare disease with a prevalance of 1-2 in\n100.000 worldwide, it is a devestating disorder. In our\nearlier studies, we found that STH rs62063857 variant was\nassociated with dementia (3) and Parkinson’s disease. In\nthis particular study, we did not find any association\nbetween the STH gene rs62063857 variant and SALS." + }, + { + "id": 90403, + "strid": "3a04ffd0-ddca-4985-8547-44e785f62858", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1657.717, + 606.172, + 1602.4389999999999, + 209.038 + ], + "priority": 12, + "parents": [ + 90417 + ], + "children": [], + "area": 1004861.6293240001, + "iscrowd": 0, + "segmentation": [], + "text": "In this study, the hypothesis was that whether STH gene\nrs62063857 variant could be used as a biomarker to\ndiferrantiate SALS from Dementia and Parkinson’s Disease." + }, + { + "id": 90410, + "strid": "e35ef409-ccad-4a7f-8b6b-a8dc1b82855b", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1653.461, + 932.343, + 1580.653, + 1724.5370000000003 + ], + "priority": 13, + "parents": [ + 90417 + ], + "children": [], + "area": 1541592.7891229999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 90412, + "strid": "68c841ef-f532-482a-a5b1-0a0dbffa7c98", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1656.315, + 2774.135, + 729.5949999999998, + 66.54300000000012 + ], + "priority": 14, + "parents": [ + 90418 + ], + "children": [ + 90411 + ], + "area": 4594841.412525, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion and conclusions" + }, + { + "id": 90411, + "strid": "045c8ae8-c291-49a1-9431-b2a2bd87d1aa", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1656.37, + 2916.744, + 1607.212, + 587.6199999999999 + ], + "priority": 15, + "parents": [ + 90412 + ], + "children": [], + "area": 4831207.25928, + "iscrowd": 0, + "segmentation": [], + "text": "The satiohin gene rs62063857 variant was not associated with\nSALS ( %2= 0.063, P=0.969). The AA, AG and GG genotype\nfrequencies in the sals were 61.5, 34.0 and 4.5 % in cases and\n60.8, 34.5 and 4.7 % in controls respectively. The A and G\nallele frequencies were 78.48 and 21.52% in cases and 78.0\nand 22.0 % in the controls respectively. There was no\nassociation on genders ( y2= 0.345, P=0.842 in male and\ny2=1.113, P=0.573 in female)." + }, + { + "id": 90414, + "strid": "a88e4c2a-f383-4aed-bb13-5e81f7223800", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1664.666, + 3565.387, + 521.5519999999999, + 66.66600000000017 + ], + "priority": 16, + "parents": [ + 90418 + ], + "children": [ + 90413 + ], + "area": 5935178.515742, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 90413, + "strid": "29ce1569-fdc1-4bee-8d45-985a5d54e630", + "image_id": 204009, + "image_name": "121316.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1657.356, + 3639.963, + 1531.7260000000003, + 130.09000000000015 + ], + "priority": 17, + "parents": [ + 90414 + ], + "children": [], + "area": 6032714.517828001, + "iscrowd": 0, + "segmentation": [], + "text": "This study was supported by the Kocaeli University research\nfund to 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Te\nits ge eh Fu span hs ue a ee\ntity nena oe hp spe edi 3 Oe\npp ae Fan acs, Ft) 4 er oe ch\nEee sr ann i cing pop\ntint se ea ey ou La\n\n \n\n \n\n \n\n \n\n \n\n \n\nmy yea\n\n \n\nae ee oer thea at sp ge ae sy" + }, + { + "id": 183692, + "strid": "2ed1dd68-02db-4aa0-8c0a-bb719396030a", + "image_id": 207669, + "image_name": "8572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 389.511, + 651.557, + 44.228999999999985, + 8.548999999999978 + ], + "priority": 29, + "parents": [ + 183716 + ], + "children": [ + 183702 + ], + "area": 253788.61862700002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183702, + "strid": "2b25d51f-305a-4e14-9f5b-f618b1a6e3fa", + "image_id": 207669, + "image_name": "8572.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 389.215, + 666.779, + 320.715, + 48.94200000000001 + ], + "priority": 30, + "parents": [ + 183692 + ], + "children": [], + "area": 259520.38848499997, + "iscrowd": 0, + "segmentation": [], + "text": "Veseleare sync (6 a ee cunaatiogs 0 espe Theoaimapbeniiig af Uns ET al as Be cased Hy ene\nttl aii cad ae, Ty ah en pl aa\nbtn i atk gig a ep of igh ne a" + }, + { + "id": 183704, + "strid": "967d6169-de6d-4ba8-99bc-d14313dfaa26", + "image_id": 207669, + "image_name": "8572.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 51.688, + 815.488, + 42.507999999999996, + 8.788000000000011 + ], + "priority": 31, + "parents": [ + 183716 + ], + "children": [ + 183703 + ], + "area": 42150.943744000004, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 183703, + "strid": "7895ff4b-6dc7-4146-85ac-ec0a7c2d1983", + "image_id": 207669, + "image_name": "8572.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 51.919, + 831.828, + 571.661, + 74.85400000000004 + ], + "priority": 32, + "parents": [ + 183704 + ], + "children": [], + "area": 43187.677932, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44898, + "strid": "932b7274-a70f-48d5-9644-b4d377a031f3", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 404.16, + 112.95, + 354.82, + 280.89 + ], + "priority": -1, + "parents": [], + "children": [ + 44886, + 44881, + 44883, + 44882, + 44889, + 44887, + 44885, + 44888, + 44884 + ], + "area": 45649.872, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44881, + "strid": "945b1baa-3ab3-4734-8c96-bcf7e4910e26", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1055.378, + 19.084, + 2683.398, + 110.314 + ], + "priority": 1, + "parents": [ + 44898 + ], + "children": [], + "area": 20140.833752, + "iscrowd": 0, + "segmentation": [], + "text": "Metabolic parameters and risk for psychosis in adolescents" + }, + { + "id": 44882, + "strid": "264c4ebd-e498-4c67-aba5-84803847cf04", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1165.692, + 137.672, + 2482.074, + 366.79499999999996 + ], + "priority": 2, + "parents": [ + 44898 + ], + "children": [], + "area": 160483.14902399998, + "iscrowd": 0, + "segmentation": [], + "text": "Caroline Demro,* Emily Kline,’ Kristin Bussell,° Elizabeth Thompson,’ Sabrina Ereshefsky,’*\nDanielle Denenny,* Greg Epstein,* Eryn Bentley,* Sara Pirmohamed,® Camille Wilson,’\nThomas Tsuji,’ Gloria Reeves, Jason Schiffman?\n\n‘University of Maryland, Baltimore County | University of Maryland, School of Medicine" + }, + { + "id": 44883, + "strid": "cf4b2923-2cae-4f0b-a087-971eb489e800", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 47.648, + 534.887, + 397.405, + 70.93499999999995 + ], + "priority": 3, + "parents": [ + 44898 + ], + "children": [ + 44890 + ], + "area": 25486.295776, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 44890, + "strid": "353af0c1-2b11-4446-9443-e8df24771320", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.1, + 612.047, + 1616.651, + 1347.209 + ], + "priority": 4, + "parents": [ + 44883 + ], + "children": [], + "area": 28827.4137, + "iscrowd": 0, + "segmentation": [], + "text": "Although schizophrenia and other psychoses are associated with\nincreased prevalence of metabolic syndrome (Galletly et al.,\n2012; Saha et al., 2007), the evidence to date on metabolic\nabnormalities within first-episode psychosis cohorts has yielded\ninconsistent findings (Ryan et al., 2003; Verma et al., 2009). To\nour knowledge, no studies have examined specific metabolic\nfunctioning in young people at clinical high risk (CHR) for\npsychosis. Given the early stage of illness represented by people\nat CHR, understanding metabolic risk factors in this phase of\nillness may be of particular interest to a potentially\ndevelopmentally mediated relation between the emergence of\nboth psychosis and metabolic risk parameters. Furthermore, in\naddition to the psychosis-risk construct, little is known\nregarding how specific metabolic parameters relate to specific\nclinical high-risk symptoms (positive, negative, disorganized,\ngeneral). The purpose of this study is to examine metabolic\nparameters in the context of clinical high-risk symptoms among\nyouth receiving community mental health services." + }, + { + "id": 44884, + "strid": "e6544e06-a10f-4a5e-a957-2235ac1a5640", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 49.673, + 2064.974, + 285.863, + 53.59900000000016 + ], + "priority": 5, + "parents": [ + 44898 + ], + "children": [ + 44891 + ], + "area": 102573.45350200002, + "iscrowd": 0, + "segmentation": [], + "text": "Methods:" + }, + { + "id": 44891, + "strid": "a20b8091-7309-4f4d-adb2-02f5e558a97c", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.33, + 2140.325, + 1618.921, + 673.0929999999998 + ], + "priority": 6, + "parents": [ + 44884 + ], + "children": [], + "area": 107722.55724999998, + "iscrowd": 0, + "segmentation": [], + "text": "Participants and guardians provided informed consent. Sixty-\neight adolescents (age 12 to 22) receiving mental health services\ncompleted the Structured Interview for Psychosis Risk\nSyndromes (SIPS; Miller et al., 2003) and were assessed for\nmetabolic parameters (e.g., cholesterol) using a fasting blood\ndraw. The relation of core psychosis-risk symptoms with various\nmetabolic parameters was examined using Pearson correlations.\nScatter plots were used to identify outlying data points and one\noutlier was removed from analyses." + }, + { + "id": 44888, + "strid": "1e4dc8e0-04f1-4cb7-9503-306d02c91197", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1731.459, + 540.928, + 395.41300000000024, + 68.28700000000003 + ], + "priority": 7, + "parents": [ + 44898 + ], + "children": [ + 44896 + ], + "area": 936594.6539520001, + "iscrowd": 0, + "segmentation": [], + "text": "Participants:" + }, + { + "id": 44896, + "strid": "efd2a1fa-9543-474f-b254-a18638720712", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1720.119, + 625.841, + 875.095, + 954.1249999999999 + ], + "priority": 8, + "parents": [ + 44888 + ], + "children": [], + "area": 1076520.995079, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44889, + "strid": "9b83cc17-0772-43b7-bacf-af1d646a2834", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2642.362, + 540.273, + 342.1350000000002, + 57.374000000000024 + ], + "priority": 9, + "parents": [ + 44898 + ], + "children": [ + 44894 + ], + "area": 1427596.844826, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion:" + }, + { + "id": 44894, + "strid": "f26c033a-383a-403a-9482-41de2c7db5b8", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2640.362, + 620.11, + 2108.452, + 891.382 + ], + "priority": 10, + "parents": [ + 44889 + ], + "children": [], + "area": 1637314.8798200001, + "iscrowd": 0, + "segmentation": [], + "text": "Preliminary findings suggest a relation between positive psychosis-risk symptoms\n(delusional ideas, suspiciousness, hallucinations, and disorganized communication)\nusing the SIPS and three metabolic measures: cholesterol, LDL, and blood pressure.\nSpecifically, overall cholesterol levels and LDL are lower as positive symptoms and\ndisorganized symptoms increase. Although the theoretical link between cholesterol\nand positive symptoms remains unknown, these findings are somewhat in line with\nprevious research among individuals in their first episode of psychosis (Verma et\nal., 2009). Verma and colleagues (2009) reported that patients demonstrated\nsignificantly lower (and presumably healthier) total and low-density lipoprotein\n(LDL) cholesterol as compared to healthy controls. Additionally, blood pressure is\npositively related to disorganized communication in our sample. The mechanism\nbehind the relation between these variables also warrants further investigation." + }, + { + "id": 44887, + "strid": "86725d80-3493-4d54-a7da-9009c8dbec25", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1733.106, + 1641.008, + 242.2639999999999, + 55.64599999999996 + ], + "priority": 11, + "parents": [ + 44898 + ], + "children": [ + 44897, + 44895 + ], + "area": 2844040.810848, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 44897, + "strid": "1fa3c96d-1b28-4f76-8433-c400150d6a3f", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1719.005, + 1725.077, + 2957.3540000000003, + 1341.457 + ], + "priority": 12, + "parents": [ + 44887 + ], + "children": [], + "area": 2965415.9883850003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 44895, + "strid": "f2b3a3ca-18fa-4669-8bae-21c413a70b7d", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1729.703, + 3078.785, + 2870.4459999999995, + 178.288 + ], + "priority": 13, + "parents": [ + 44887 + ], + "children": [], + "area": 5325383.650855, + "iscrowd": 0, + "segmentation": [], + "text": "P1 = delusional ideas; P2 = suspiciousness; P3 = grandiosity; P4 = hallucinations; PS = disorganized communication; P= positive symptoms; N = negative symptoms; D = disorganized symptoms;\nG = general symptoms; BP = blood pressure, systolic and diastolic; Chol = cholesterol\n\nCorrelation pair range (n=64-67)\n\n* Correlation is significant at the 0.05 level (2-tailed); ** Correlation is significant at the 0.01 level (2-tailed)" + }, + { + "id": 44886, + "strid": "03f0f06d-576e-46a0-9e8f-904fdd0d9342", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2642.935, + 3314.186, + 583.2939999999999, + 71.84900000000016 + ], + "priority": 14, + "parents": [ + 44898 + ], + "children": [ + 44893 + ], + "area": 8759178.17591, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments:" + }, + { + "id": 44893, + "strid": "9dea2c59-3375-4477-b640-08656abd3428", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2642.778, + 3392.331, + 2081.488, + 166.97299999999996 + ], + "priority": 15, + "parents": [ + 44886 + ], + "children": [], + "area": 8965177.735518, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported in part by funding from the Maryland Department of Health and Mental Hygiene, Mental Hygiene Administration\nthrough the 1915(c) Home and Community-Based Waiver Program MM00B3400369); Baltimore Mental Health Systems; a Research Seed\n\nFunding Initiative (RSFI) Management, Workforce Development and Evaluation (OPASS# 13-10954G) grant from the University of Maryland,\nBaltimore County; and the Passano Foundation." + }, + { + "id": 44885, + "strid": "d775026d-a0e1-420f-b613-7cb7c614881e", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 48.867, + 2971.455, + 352.179, + 54.927000000000135 + ], + "priority": 16, + "parents": [ + 44898 + ], + "children": [ + 44892 + ], + "area": 145206.09148499998, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 44892, + "strid": "c68a988c-3095-4bc3-b039-d61262628cc0", + "image_id": 202255, + "image_name": "118404.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 45.798, + 3045.08, + 1627.958, + 518.9859999999999 + ], + "priority": 17, + "parents": [ + 44885 + ], + "children": [], + "area": 139458.57384, + "iscrowd": 0, + "segmentation": [], + "text": "Galletly, C., Foley, D., Waterreus, A., Watts, G., Castle, D., McGrath, J., ... (2012). Cardiometabolic risk\nfactors in people with psychotic disorders: The second Australian national survey of psychosis. Australian\n& New Zealand Journal of Psychiatry, 46, 753-61.\n\nMiller, T.J., McGlashan, T.H., Rosen, J.L., Cadenhead, K., Ventura, J., McFarlane, W., et al., (2003). Prodromal\nassessment with the structured interview for prodromal syndromes and the scale of prodromal symptoms:\nPredictive validity, interrater reliability, and training to reliability. Schizophrenia Bulletin, 29, 703-715.\n\nRyan, M., Collins, P., & Thakore, J. (2003). Impaired fasting glucose tolerance in first-episode, drug-naive\npatients with schizophrenia. American Journal of Psychiatry, 160, 284-289.\n\nSaha, S., Chant, D., & McGrath, J. (2007). A systematic review of mortality in schizophrenia: Is the differential\nmortality gap worsening over time? Archives of General Psychiatry, 64, 1123-31.\n\nVerma, S., Subramaniam, M., Liew, A., & Poon, L. (2009). Metabolic risk factors in drug-naive patients with\nfirst-episode psychosis. The Journal of Clinical Psychiatry, 70, 997-1000." + }, + { + "id": 100381, + "strid": "e284b009-6093-4f93-8aba-23562ff10c43", + "image_id": 204383, + "image_name": "122026.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 166.75, + 115.07, + 255.42000000000002, + 316.24 + ], + "priority": -1, + "parents": [], + "children": [ + 100372, + 100360, + 100353, + 100374, + 100366, + 100370, + 100356, + 100354, + 100355, + 100363 + ], + "area": 19187.9225, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100353, + "strid": "5aca386c-c231-4bf6-8c2a-64f4b01e6f78", + "image_id": 204383, + "image_name": "122026.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 603.323, + 53.828, + 4403.411, + 387.90200000000004 + ], + "priority": 1, + "parents": [ + 100381 + ], + "children": [], + "area": 32475.670444, + "iscrowd": 0, + "segmentation": [], + "text": "Visual Perception and Illusions in a Driving Simulator —\nLittle Cars, Big Signs" + }, + { + "id": 100354, + "strid": "9268ffd7-c450-4fec-b0cb-277c4736e1b3", + "image_id": 204383, + "image_name": "122026.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 900.236, + 492.014, + 3800.0070000000005, + 275.36299999999994 + ], + "priority": 2, + "parents": [ + 100381 + ], + "children": [], + "area": 442928.715304, + "iscrowd": 0, + "segmentation": [], + "text": "stacy A. Balk, Vaughan W. Inman, & William A. 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This server is now public, and provides a wide range of tools\nto the scientific community, including tools that have been created at the Institut Pasteur i.e. TXSScan (https://10.1038/srep23080), alienTrimmer\n(https://10.1016/j.ygeno.2013.07.011), PhageTerm (doi:https://doi.org/10.1101/108100),\n\nSARTools Deseq2 (https://10.1371/journal.pone.0157022)...\n\nThe use of Galaxy as an execution hub for dedicated web interfaces simplifies their development, and facilitates their monitoring, while enabling\na high degree of customization." + }, + { + "id": 1724, + "strid": "0da9fd87-83a1-459e-a84f-b2dbba3db302", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 17.43, + 17.57, + 67.56, + 74.66999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 1710, + 1715, + 1714, + 1716, + 1721, + 1711 + ], + "area": 306.2451, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1710, + "strid": "d0e3e991-96b2-41e5-ae63-a8f1eac659a8", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 81.643, + 88.908, + 1265.509, + 210.52799999999996 + ], + "priority": 1, + "parents": [ + 1724 + ], + "children": [], + "area": 7258.715844, + "iscrowd": 0, + "segmentation": [], + "text": "LUNG ULTRASOUND DURING\nCONTINUOUS RENAL REPLACEMENT\nTHERAPY.\n\n7" + }, + { + "id": 1711, + "strid": "296d8463-6086-41bd-8cb7-b4b45e2bb529", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 87.491, + 402.362, + 1197.672, + 108.77299999999997 + ], + "priority": 2, + "parents": [ + 1724 + ], + "children": [], + "area": 35203.053742000004, + "iscrowd": 0, + "segmentation": [], + "text": "Bini A, Votino E, Vetrugno L, Giuliano G, , Sidoti A, Brogi E, Forfori F\nDepartment of Anaesthesia and Intensive Care, University of Pisa, Italy." + }, + { + "id": 1714, + "strid": "d542cb0a-7e58-4cc8-9103-a4fcd070707b", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.304, + 661.214, + 159.784, + 31.208999999999946 + ], + "priority": 3, + "parents": [ + 1724 + ], + "children": [ + 1717 + ], + "area": 52436.915056000005, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 1717, + "strid": "7aa21b9b-f01f-4264-a143-4a58cade4273", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.673, + 695.138, + 607.101, + 484.27200000000005 + ], + "priority": 4, + "parents": [ + 1714 + ], + "children": [], + "area": 52603.177874, + "iscrowd": 0, + "segmentation": [], + "text": "During continuous renal replacement therapy\n(CRRT), the maintenance of fluid balance is\nextremely important in order to prevent\nunderhydration. In fact, an excessive removal of\nfluids leads to hypotension and CRRT\ndiscontinuation. Lung ultrasound is an effective\nmethod of evaluating extravascular lung water\n(EVLW) (1). Ultrasonography of inferior vena cava\n(IVC) is a guide to estimate central venous pressure\n(2). The observation of B-lines resolution and the\ncollapse index of IVC might represent a valid guide\nto improve CRRT management. The aim of this\nwork was to evaluate the role of chest and IVC\nultrasound in the assessment of the variation of\nfluid status in patients undergoing CRRT." + }, + { + "id": 1715, + "strid": "1b4af26b-6076-4f51-8263-67b986c465f4", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.282, + 1204.589, + 110.795, + 28.190000000000055 + ], + "priority": 5, + "parents": [ + 1724 + ], + "children": [ + 1718 + ], + "area": 93093.047098, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 1718, + "strid": "00cdeb21-6911-4c4f-98e6-d0143f8e239a", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.626, + 1237.804, + 620.19, + 582.9380000000001 + ], + "priority": 6, + "parents": [ + 1715 + ], + "children": [], + "area": 84945.53730400001, + "iscrowd": 0, + "segmentation": [], + "text": "We enrolled patients undergoing CRRT during their\nICU stay. Patients were assessed for lung and IVC\nultrasound immediately before CRRT (TO) and after\n12 (T12), and 24 (T24) hours. Trained critical care\nphysicians performed lung-ultrasound evaluation of\nthe anterior and lateral chest wall bilaterally with\npatients in the supine position. All regions were\nscanned with ultrasound in order to count B-lines.\nB-lines were defined according to the International\nConsensus Conference on Lung Ultrasound (3). The\nreduction of IVC diameter was measured with the\ncollapse index, defined as the percentage of\ndiameter reduction during inspiration. | We also\nrecorded for each patient at TO and T24: PaO,/FiO,,\nLeukocytes (WBC), Procalcitonin (PCT), and the\nvolume of fluid removed. Student’s T-test and\nWilcoxon signed-rank test were used to valuate\nComet-Score." + }, + { + "id": 1716, + "strid": "9a8a840e-f287-4ac6-bc79-ae4a860aef9c", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 761.902, + 1229.813, + 96.44499999999994, + 25.09699999999998 + ], + "priority": 7, + "parents": [ + 1724 + ], + "children": [ + 1719, + 1723, + 1712 + ], + "area": 936996.9843260001, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 1723, + "strid": "78572afd-5ebe-4f55-862e-3016d649e7ff", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 77.391, + 1913.204, + 620.253, + 435.1229999999998 + ], + "priority": 8, + "parents": [ + 1716 + ], + "children": [ + 1722 + ], + "area": 148064.77076400002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1722, + "strid": "5143a484-3028-49ea-adf0-7d9ce6d73893", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 194.797, + 1856.201, + 329.58399999999995, + 26.403999999999996 + ], + "priority": 9, + "parents": [ + 1723 + ], + "children": [], + "area": 361582.386197, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. IVC collapsibili" + }, + { + "id": 1712, + "strid": "0799e574-649f-4731-97c1-22cfe1bef4d7", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 723.754, + 663.282, + 712.007, + 408.092 + ], + "priority": 10, + "parents": [ + 1716 + ], + "children": [ + 1713 + ], + "area": 480053.00062800007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1713, + "strid": "172d5b7b-6024-40d1-a7c6-f900ecd75d6b", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 831.357, + 1119.771, + 438.96399999999994, + 34.50500000000011 + ], + "priority": 11, + "parents": [ + 1712 + ], + "children": [], + "area": 930929.4592469999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Comet-Score during 24 hours" + }, + { + "id": 1719, + "strid": "17f7f362-f152-45c0-ac17-f068322b443a", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 760.762, + 1259.009, + 670.067, + 522.4670000000001 + ], + "priority": 12, + "parents": [ + 1716 + ], + "children": [], + "area": 957806.2048579999, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 14 patients undergoing CRRT were recruited.\nAdmission diagnosis was septic shock, acute kidney injury\nand intoxication. Reasons to perform CRRT were: fluid\noverload, correction of acid-base alteration and solute\ncontrol. The primary modality of CRRT performed was\nvenovenous hemodiafiltration (CVVHDF). PaO,/FiO,\nratio, PCT and WBC count improved in all patients from\nTO to T24. B-lines resolution was also reached in all\npatients as demonstrated by a Comet-Score from TO to\n124 (P<0.05; Figure 1). B-lines reduction correlated with\nweight loss. Not all patients were evaluated for IVC\nultrasound, because of open abdominal surgery. Moreover,\none of them suffered from a severe tricuspid valve failure,\nmaking the measure not reliable. Therefore, we measured\nthe IVC collapsibility index in 10 patients; the\ncollapsibility index did not significantly change before and\nafter CRRT (Table 1)." + }, + { + "id": 1721, + "strid": "3815b1a1-3f47-425e-9057-a3b239f0533d", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 765.814, + 1810.396, + 144.40499999999997, + 25.68399999999997 + ], + "priority": 13, + "parents": [ + 1724 + ], + "children": [ + 1720 + ], + "area": 1386426.602344, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 1720, + "strid": "fca4078c-7525-4085-98e3-7eeadfa95327", + "image_id": 200565, + "image_name": "10299.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 763.319, + 1840.878, + 659.4549999999999, + 495.34600000000023 + ], + "priority": 14, + "parents": [ + 1721 + ], + "children": [], + "area": 1405177.1540819998, + "iscrowd": 0, + "segmentation": [], + "text": "We found that fluid removal during CRRT can be clearly\nmonitored by chest ultrasound. The reduction of B-lines\ncorrelated with fluid loss due to CRRT. IVC may not be\nsensitive enough to detect rapid volume decrease.\nFurthermore, its applicability is limited in patients with\ncongestive heart failure, valvular heart disease and with\nmajor abdominal surgery. Sonography has become\nessential in Intensive Care Unit and represents an accurate\ndiagnostic tool for the the diagnosis of the common lung\nand heart diseases in ICU. Lung ultrasound is a non-\ninvasive, simple method performed at the bedside that\nprovides accurate information on EVLW variations and,\nconsequently, very useful for an appropriate management\nof CRRT.\n\nConflict of interest: None declared." + }, + { + "id": 131406, + "strid": "0ea80659-ac3c-44d4-b8ce-98cea3dcd36a", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 372.58, + 70.36, + 176.3, + 114.36 + ], + "priority": -1, + "parents": [], + "children": [ + 131379, + 131385, + 131383, + 131380, + 131381, + 131382, + 131384 + ], + "area": 26214.728799999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131379, + "strid": "572d32dd-9f94-4973-9f01-72db0fa822ee", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 634.27, + 122.741, + 3533.989, + 285.062 + ], + "priority": 1, + "parents": [ + 131406 + ], + "children": [], + "area": 77850.93407, + "iscrowd": 0, + "segmentation": [], + "text": "LexMapr: a rule-based text mining tool for ontology-driven\nharmonization of short biomedical specimen descriptions" + }, + { + "id": 131380, + "strid": "0d39d871-86f1-4190-973d-5579489f9af3", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 314.007, + 429.518, + 4046.213, + 123.32199999999995 + ], + "priority": 2, + "parents": [ + 131406 + ], + "children": [], + "area": 134871.658626, + "iscrowd": 0, + "segmentation": [], + "text": "Gurinder Gosal?, Emma Griffiths!, Damion Dooley’, Ivan Gil, Dan Fornika2, Heather Tate?, Maria Sanchez?, Ruth Timme?, William Hsiao” 2\n1University of British Columbia, Canada, 2BC Centre for Disease Control, Canada, 3US Food & Drug Administration, USA" + }, + { + "id": 131381, + "strid": "30613af3-1a88-40b9-9592-771f200f6a69", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 571.176, + 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205603, + "image_name": "15399.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3704.099, + 1663.204, + 367.576, + 60.68599999999992 + ], + "priority": 18, + "parents": [ + 131406 + ], + "children": [ + 131393, + 131395, + 131394, + 131396, + 131397 + ], + "area": 6160672.273196, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluation" + }, + { + "id": 131395, + "strid": "c3470538-bf58-453f-85c6-8cbff28951da", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3135.806, + 1740.934, + 1446.5679999999998, + 183.00600000000009 + ], + "priority": 19, + "parents": [ + 131384 + ], + "children": [], + "area": 5459231.282804, + "iscrowd": 0, + "segmentation": [], + "text": "LexMapr performance has been tested on foodborne pathogen sample data from two\ndifferent surveillance systems - The US FDA’s GenomeTrakr system and The US\nNational Antimicrobial Resistance Monitoring System (NARMS)’s Resistome Tracker\nplatform." + }, + { + "id": 131396, + "strid": "50c569a1-3bae-4b62-beb9-81a95b9b020a", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3133.606, + 1982.286, + 1448.8800000000006, + 196.94799999999987 + ], + "priority": 20, + "parents": [ + 131384 + ], + "children": [], + "area": 6211703.303316001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131393, + "strid": "5b8ff16f-99e9-4e6c-9030-4894e5ffedaf", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3321.074, + 2270.522, + 1181.6330000000003, + 176.39300000000003 + ], + "priority": 21, + "parents": [ + 131384 + ], + "children": [ + 131400 + ], + "area": 7540571.580628, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 131400, + "strid": "55352568-5cb0-42af-b0d0-1926992c68df", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 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"id": 131398, + "strid": "e7657c30-7aab-4a7c-95f8-4baa3106558e", + "image_id": 205603, + "image_name": "15399.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3162.767, + 2951.806, + 1412.87, + 126.07900000000018 + ], + "priority": 27, + "parents": [ + 131385 + ], + "children": [], + "area": 9335874.607201999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137121, + "strid": "aa7c14e7-a8dc-4214-89b1-eaaeb8f3d0cc", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 1028.52, + 417.18, + 546.03, + 97.80000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 137110, + 137107, + 137104, + 137109, + 137108, + 137105, + 137106, + 137111 + ], + "area": 429077.9736, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137104, + "strid": "32589798-2e28-4e6d-b3e2-e54bc61dbbf7", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 63.37, + 89.089, + 2250.418, + 107.564 + ], + "priority": 1, + "parents": [ + 137121 + ], + "children": [], + "area": 5645.56993, + "iscrowd": 0, + "segmentation": [], + "text": "Ue m4 eee) COM U4 eee el ip" + }, + { + "id": 137105, + "strid": "d6e9b3d4-40b1-4561-87e8-6581622e4761", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 69.355, + 250.834, + 1466.302, + 177.406 + ], + "priority": 2, + "parents": [ + 137121 + ], + "children": [], + "area": 17396.592070000002, + "iscrowd": 0, + "segmentation": [], + "text": "Zhou M', Bear J', Roberts PA', Janiak FK', Yoshimatsu T', Baden T'*\n\n'School of Life Sciences, University of Sussex, UK\n“Institute for Ophthalmic Research, University of Tuebingen, Germany" + }, + { + "id": 137106, + "strid": "56364309-3fae-42c3-97fa-2595ac818b2a", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 78.423, + 488.069, + 290.658, + 66.536 + ], + "priority": 3, + "parents": [ + 137121 + ], + "children": [ + 137114, + 137112, + 137115, + 137113 + ], + "area": 38275.835187000004, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 137112, + "strid": "9a499f64-93b6-4622-8217-9c5b5fd1aefe", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.801, + 579.995, + 1692.927, + 428.30499999999995 + ], + "priority": 4, + "parents": [ + 137106 + ], + "children": [], + "area": 47444.170995, + "iscrowd": 0, + "segmentation": [], + "text": "In the vertebrate retina, distinct types of RGCs extract specific features of the visual scene for transmission to the\nbrain. Here, we sought to determine the functional output channels of the zebrafish retina to chart what the fish's\neye tells the fish's brain. We generated a novel transgenic line in which the calcium reporter GCaMPé6f is tagged to\nthe membrane of zebrafish RGCs under the Islet2b promoter (Islet2b:mGCaMP6f) which allowed recording from\nboth RGC dendrites and somata. For this, we used two-photon population imaging of light-evoked calcium activity\nof RGCs in the in vivo zebrafish larval eye in response to spectrally defined full-field stimuli. We then assigned\nresponses to functional clusters, and for each cluster, computed the anatomical distribution across the eye and IPL\ndepth. Our data suggest a mixed code of colour and time differentially serves distinct regions in visual space,\nmirroring our earlier finding in bipolar cells that different parts of the eye harbour strongly different functional circuits\n(Zimmermann, Nevala, Yoshimatsu et al 2018, Curr Biol.)." + }, + { + "id": 137113, + "strid": "e2e83aa5-3aef-46b8-a9e9-e3cc52973a53", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 81.275, + 1015.776, + 1325.146, + 208.53200000000004 + ], + "priority": 5, + "parents": [ + 137106 + ], + "children": [], + "area": 82557.19440000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137114, + "strid": "9ae82669-17bf-46ce-b0b5-86908ce3c188", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.136, + 1231.778, + 1697.088, + 171.20800000000008 + ], + "priority": 6, + "parents": [ + 137106 + ], + "children": [], + "area": 98709.761808, + "iscrowd": 0, + "segmentation": [], + "text": "Taken together, our findings strongly suggest that the achromatic responses of RGCs are dominated by the red-\ngreen system. In comparison, UV responses are very region specific, with a notable specialization in the zebrafish’s\nacute zone (\"strike zone\"), which is used for prey capture (see Cluster 1). We further speculate that the sluggish B\nchannel could provide a useful subtraction signal against which both RG and UV-circuits could compute." + }, + { + "id": 137115, + "strid": "c5979194-725f-4e39-b9aa-c11b6144f3bc", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 154.19, + 1425.353, + 1473.627, + 462.66100000000006 + ], + "priority": 7, + "parents": [ + 137106 + ], + "children": [], + "area": 219775.17907, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137107, + "strid": "95dbcc34-6802-4c43-a041-221387e39601", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 76.345, + 1915.072, + 1397.961, + 55.77600000000007 + ], + "priority": 8, + "parents": [ + 137121 + ], + "children": [ + 137116 + ], + "area": 146206.17184, + "iscrowd": 0, + "segmentation": [], + "text": "Diverse RGC functional types occupy different parts of the eye" + }, + { + "id": 137116, + "strid": "062a4af4-a587-447d-a968-00cbca2f9482", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 62.367, + 1977.832, + 1720.231, + 1466.8589999999997 + ], + "priority": 9, + "parents": [ + 137107 + ], + "children": [], + "area": 123351.448344, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 137108, + "strid": "42765c4d-81cd-491b-ab9e-3057288cb8ca", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.804, + 3457.443, + 1136.121, + 54.51999999999998 + ], + "priority": 10, + "parents": [ + 137121 + ], + "children": [ + 137117 + ], + "area": 275917.78117200005, + "iscrowd": 0, + "segmentation": [], + "text": "Colour opponent RGCs dominate the retinal output" + }, + { + "id": 137117, + "strid": "830430bc-ce72-466a-b43f-82b26ceecb94", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 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"16004.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1859.286, + 3630.163, + 1125.5150000000003, + 56.771000000000186 + ], + "priority": 16, + "parents": [ + 137121 + ], + "children": [ + 137120 + ], + "area": 6749511.243618, + "iscrowd": 0, + "segmentation": [], + "text": "On-signals dominate in all wavebands except blue" + }, + { + "id": 137120, + "strid": "c58061fa-5625-47ac-92ea-6487b8f7d637", + "image_id": 205815, + "image_name": "16004.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1849.281, + 3696.807, + 1392.411, + 863.8010000000004 + ], + "priority": 17, + "parents": [ + 137109 + ], + "children": [], + "area": 6836434.945766999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94170, + "strid": "2856df59-2069-4d15-90c9-98a19e234d44", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 283.32, + 393.84, + 98.56, + 98.56 + ], + "priority": -1, + "parents": [], + "children": [ + 94150, + 94149, + 94147, + 94151, + 94146, + 94152, + 94148 + ], + "area": 111582.74879999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94146, + "strid": "75e0a8e4-71f0-406b-b0eb-d497ca5c1696", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 256.36, + 74.171, + 4257.646, + 266.556 + ], + "priority": 1, + "parents": [ + 94170 + ], + "children": [], + "area": 19014.477560000003, + "iscrowd": 0, + "segmentation": [], + "text": "A mechanistic study of cigarette smoke-induced COPD in C57BL/6 mice: the\nimpact of switching to pMRTP" + }, + { + "id": 94147, + "strid": "46d2bd2c-9ed6-4045-82eb-45cbda8ce776", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1391.584, + 347.819, + 1922.1270000000002, + 141.93099999999998 + ], + "priority": 2, + "parents": [ + 94170 + ], + "children": [], + "area": 484019.355296, + "iscrowd": 0, + "segmentation": [], + "text": "Veljkovic E.*, Phillips B.*, Peck M. J.*, Buettner A. §, Vuillaume G.*,. Hoeng J.*, Peitsch M.C.*\n\n*Philip Morris International, Philip Morris Products S.A., Neuchatel, Switzerland; SHistovia GmbH, Schéne Aussicht 5, 51491 Overath, Germany" + }, + { + "id": 94148, + "strid": "f0b92cee-1a04-4835-a842-4633264ffd64", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 856.896, + 546.934, + 389.0060000000001, + 63.235000000000014 + ], + "priority": 3, + "parents": [ + 94170 + ], + "children": [ + 94153 + ], + "area": 468665.5568639999, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 94153, + "strid": "25e9084e-c514-42ac-be9a-b9d923b5ec08", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.121, + 682.666, + 1801.422, + 403.70500000000004 + ], + "priority": 4, + "parents": [ + 94148 + ], + "children": [], + "area": 79954.524586, + "iscrowd": 0, + "segmentation": [], + "text": "Chronic obstructive pulmonary disease (COPD) is a chronic respiratory disorder characterized by a progressive, not fully reversible airflow\nobstruction, which is associated with an abnormal inflammatory response of the lungs to noxious particles or gases. The main risk factor for this\ndisease is tobacco smoking, whose pathogenic action may be potentiated by other harmful agents such as air pollution and individual\nsusceptibility. Suitable animal models play an important role in the understanding of the smoke-induced pathogenesis of COPD. It has been\nshown that the C57BL/6 mouse strain is a useful tool for the mechanistic investigation of this disease (Churg et al., 2008). Previously we have\ndemonstrated that the chronic exposure of C57BL/6 mice to the aerosol generated by the reference cigarette 3R4F at a concentration of 750 pg/|\ntotal particulate matter (TPM) resulted in emphysematous changes as early as after 2 months. Development of the progression of the pathology\nand the impact of cessation (switching from 3R4F aerosol to filtered air) have been followed at the molecular, cellular and tissue level for up to 7\nmonths of exposure (manuscript in preparation). This study assessed the impact of switching from the exposure to cigarette smoke from 3R4F to\nthe aerosol generated by the prototypic modified risk tobacco product (pMRTP) or filtered air. To assess the development of emphysema we\nevaluated pulmonary inflammation and function, histopathological changes, and a multi-platform of molecular changes (transcriptomics,\nproteomics, and lipidomics) at months 1, 2, 3, 4, 5 and 7." + }, + { + "id": 94149, + "strid": "7915dd88-2da0-4312-a673-1e8bb9e68398", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 617.01, + 1159.43, + 878.863, + 78.24700000000007 + ], + "priority": 5, + "parents": [ + 94170 + ], + "children": [ + 94154, + 94165 + ], + "area": 715379.9043, + "iscrowd": 0, + "segmentation": [], + "text": "Study design and end points" + }, + { + "id": 94165, + "strid": "1c91ff8c-fb7f-4021-ac35-18763d1f6ce7", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 194.296, + 1379.555, + 1710.524, + 375.115 + ], + "priority": 6, + "parents": [ + 94149 + ], + "children": [], + "area": 268042.01828, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94154, + "strid": "5e55717f-a23a-45cc-871c-867b54d53431", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 118.416, + 1963.996, + 1771.781, + 231.86799999999994 + ], + "priority": 7, + "parents": [ + 94149 + ], + "children": [], + "area": 232568.55033600001, + "iscrowd": 0, + "segmentation": [], + "text": "The mice were exposed to 3R4F (750 yg/l TPM), pMRTP (matched to the nicotine in 3R4F — 34.4 g/l) or filtered air for 4 hours per day, 5 days\nper week, for up to 7 months. After 2 months of exposure to 3R4F, switching and cessation groups were exposed to pMRTP or filtered air,\nrespectively. Animals were observed on a daily basis, body weight progression was monitored twice per week, exposure parameters (carboxy\nhaemoglobin in blood and nicotine metabolites in urine) were measured 3 times during the study. Dissections were performed after 1, 2, 3, 4,\n5,and 7 months of exposure. At each time point animals were allocated for the following end points: BALF (bronchoalveolar lavage fluid), for\nidentification of infiltrated inflammatory cells in lungs and multi-analyte profiling; histopathological evaluation and morphometry of lungs; lung\nfunction and ‘omics’ (transcripomics and lipidomics)." + }, + { + "id": 94150, + "strid": "a48e3d77-d899-4fc0-92ce-ad67f5beecfe", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 858.122, + 2262.566, + 379.582, + 59.34900000000016 + ], + "priority": 8, + "parents": [ + 94170 + ], + "children": [ + 94155 + ], + "area": 1941557.6610519998, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 94155, + "strid": "bff2eb18-9d2d-4d4a-85b7-3510460f2d72", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.994, + 2442.455, + 1800.062, + 366.2069999999999 + ], + "priority": 9, + "parents": [ + 94150 + ], + "children": [], + "area": 236903.48027, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94152, + "strid": "59083fc4-dd34-4f00-abce-d4f05c2a94ef", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3211.98, + 551.817, + 226.26099999999997, + 58.115999999999985 + ], + "priority": 10, + "parents": [ + 94170 + ], + "children": [ + 94164, + 94169, + 94166, + 94161, + 94159, + 94158, + 94160, + 94167, + 94157, + 94163, + 94162, + 94168 + ], + "area": 1772425.16766, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 94163, + "strid": "13dc21ab-2cba-4d46-96a0-481934ff348e", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2032.765, + 691.62, + 556.8880000000001, + 340.8539999999999 + ], + "priority": 11, + "parents": [ + 94152 + ], + "children": [], + "area": 1405900.9293000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94160, + "strid": "63ddc145-db05-443a-8b0a-7e9d4f124bc7", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2007.648, + 1048.088, + 779.6070000000002, + 203.59300000000007 + ], + "priority": 12, + "parents": [ + 94152 + ], + "children": [], + "area": 2104191.777024, + "iscrowd": 0, + "segmentation": [], + "text": "Carboxyhaemoglogin (HbCO) measurement in blood (%) -\nbiomarker of exposure\n\nAfter switching to aerosol from pMRTP or filtered air\n(cessation) levels of HbCO in blood of exposed animals are\nsubstantially lower compared to those found in blood of mice\ncontinuously exposed to 3R4F aerosol." + }, + { + "id": 94166, + "strid": "3611616a-4c4f-4a90-bd29-d42a4e78640a", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1989.959, + 1289.227, + 713.6310000000001, + 753.625 + ], + "priority": 13, + "parents": [ + 94152 + ], + "children": [], + "area": 2565508.871693, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94158, + "strid": "f5ef97c0-2e88-46af-8bbf-c5ca6cbffc4b", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1982.756, + 2046.422, + 827.595, + 532.8429999999998 + ], + "priority": 14, + "parents": [ + 94152 + ], + "children": [], + "area": 4057555.499032, + "iscrowd": 0, + "segmentation": [], + "text": "Histopathological evaluation of lungs\n\nDegeneration of alveolar architecture as indicative for pulmonary\nemphysema was greater in animals continuously exposed to 3R4F\nthan in those exposed to filtered air or pMRTP. In lungs of animals\ncontinuously exposed to 3R4F, a_ significant intra-alveolar\naccumulation of non-pigmented and _ brownish pigmented\nmacrophages was seen which did not occur in animals exposed to\nan aerosol from the pMRTP. After switching to pMRTP or fresh air,\na delayed interstitial accumulation of lymphocytis cells became\nevident. The level of emphysema was evaluated by the scoring of\nseverity and by morphometrical measurements performed in a\nblinded manner by an external pathologist. After the switch or\ncessation, the evaluation revealed a certain level of reduction of\nseverity compared to the emphysema seen in lungs from\ncontinuously exposed animals. However, even 5 months after the\nswitch some tissue degradation was still evident." + }, + { + "id": 94164, + "strid": "d0f7b3ee-1725-4bf9-84c6-5a7f6e12b054", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2769.995, + 688.766, + 865.9580000000001, + 531.2039999999998 + ], + "priority": 15, + "parents": [ + 94152 + ], + "children": [], + "area": 1907878.3761699998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94159, + "strid": "6425dfba-d124-42c5-bf56-8afaa3db242a", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2846.052, + 1220.647, + 784.6860000000001, + 327.5920000000001 + ], + "priority": 16, + "parents": [ + 94152 + ], + "children": [], + "area": 3474024.835644, + "iscrowd": 0, + "segmentation": [], + "text": "Lung inflammation\n\nThe absolute number of inflammatory cells in lung (A), the\nactivity of matrix metalloproteinase (B) and the levels of\ninflammation-related chemokines detected in bronchoalveolar\nlavage fluid (C) were dramatically increased even after 1\nmonth of exposure to 3R4F. Most of the inflammatory\nparameters measured reverted to the levels obtained with\ncontinuous exposure to filtered air or pMRTP-exposed animals\nafter the cessation or the switch." + }, + { + "id": 94167, + "strid": "7896e05d-6887-4b43-980d-e84de62fb863", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2824.698, + 1548.999, + 813.902, + 702.2740000000001 + ], + "priority": 17, + "parents": [ + 94152 + ], + "children": [], + "area": 4375454.377302, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94157, + "strid": "08a2c89b-9daf-4911-a90a-5e752c9f9532", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2841.844, + 2269.059, + 784.2739999999999, + 235.375 + ], + "priority": 18, + "parents": [ + 94152 + ], + "children": [], + "area": 6448311.704796, + "iscrowd": 0, + "segmentation": [], + "text": "Changes in the lipid profile in the lungs\n\nExposure to 3R4F resulted in clearly distinguishable lung lipid\nprofiles compared with sham exposure. These changes were\nalleviated by smoking cessation or switching to pMRTP within\none month, and reached control levels at the 7-month time\npoint." + }, + { + "id": 94169, + "strid": "bacf725e-0645-43cd-9e44-7fd68829cdff", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3755.987, + 697.494, + 715.6009999999997, + 477.20100000000014 + ], + "priority": 19, + "parents": [ + 94152 + ], + "children": [], + "area": 2619778.3965780004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94162, + "strid": "0f36ffef-0857-4baa-bb9a-ebb6e3a08b70", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3695.747, + 1205.193, + 871.8780000000002, + 337.5150000000001 + ], + "priority": 20, + "parents": [ + 94152 + ], + "children": [], + "area": 4454088.414171, + "iscrowd": 0, + "segmentation": [], + "text": "Pulmonary function: pressure-volume (P-V) loops\nExposure of mice to 3R4F cigarette smoke resulted in a leftward shift\nof the P-V loops for both the inflation and deflation phase of the\nmaneuver as compared to the results obtained with filtered air\nexposed animals. Measurements from pMRTP and filtered air\nexposed animals revealed very similar values during the course of the\nstudy, nearly overlapping at the 5'\" and 7° months. After the switch to\nthe aerosol from pMRTP or cessation, P-V loops shifted right, but did\nnot reach values obtained from animals continuously exposed to\nfiltered air or pMRTP" + }, + { + "id": 94168, + "strid": "bbc4729f-3835-47e4-8eba-b8177bab2e65", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3756.347, + 1557.344, + 755.373, + 810.5720000000001 + ], + "priority": 21, + "parents": [ + 94152 + ], + "children": [], + "area": 5849924.462368, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 94161, + "strid": "ad5759c5-a64f-477e-a199-9c479980cd77", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3717.248, + 2383.39, + 820.1380000000004, + 534.5630000000001 + ], + "priority": 22, + "parents": [ + 94152 + ], + "children": [], + "area": 8859651.710719999, + "iscrowd": 0, + "segmentation": [], + "text": "Measurement of the perturbation of biological processes\nPreviously we have developed the method for quantitative\nmeasurement of the perturbation of biological processes (Hoeng\net al, 2012; Martin et al, 2012). Relative biological impact factor\n(BIF) for lung tissue from 3R4F- and pMRTP-exposed vs. filtered\nair-exposed mice indicate strong perturbation of molecular\nnetworks caused by the exposure to 3R4F, while pMRTP had\nnegligible effects on overall BIF. Transcriptional perturbations\nwere dramatically reduced after the switch to pMRTP or filtered\nair. Upper Panel: Starplots showing the decomposition of the\noverall relative BIF into its main mechanistic components (from\ncell proliferation to inflammation) in the lung tissue for all\ntreatment groups Lower Panel: The bar plot shows BIF values\nrelative to the maximum response group (REF). The ‘delta' values\n(-1 to 1) indicate how similar the underlying network perturbations\nare with respect to the REF." + }, + { + "id": 94151, + "strid": "53d004c1-05b9-4e7c-823e-8e452c0563ed", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2686.128, + 2622.067, + 334.61400000000003, + 58.590000000000146 + ], + "priority": 23, + "parents": [ + 94170 + ], + "children": [ + 94156 + ], + "area": 7043207.586576001, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 94156, + "strid": "74f345e7-903b-4de3-b45d-ce5fed5270d3", + "image_id": 204147, + "image_name": "121518.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1989.398, + 2733.088, + 1681.278, + 187.26899999999978 + ], + "priority": 24, + "parents": [ + 94151 + ], + "children": [], + "area": 5437199.801024, + "iscrowd": 0, + "segmentation": [], + "text": "Churg A, Cosio M, Wright JL (2008) Mechanism of cigarette smoke-induced COPD: insights from animal models. Am J Physiol Lung Cell Mol Physiol 294: L612-L631\nHoeng J, Deehan R, Pratt D, Martin F, Sewer A, Thomson TM, Drubin DA, Waters CA, de Graaf D, Peitsch MC (2012) A network-based approach to quantifying the impact\nof biologically active substances. Drug Discov Today 17: 413-418\n\nMartin F, Thomson TM, Sewer A, Drubin DA, Mathis C, Weisensee D, Pratt D, Hoeng J, Peitsch MC (2012) Assessment of network\n\nperturbation amplitude by applying high-throughput data to causal biological networks. BMC Syst Biol 6: 54\n\nGebel S, Lichtner RB, Frushour B, Schlage WK, Hoang V, Talikka M, Hengstermann A, Mathis C, Veljkovic E, Peck M, Peitsch MC, Deehan R, Hoeng J, Westra JW (2013)\nConstruction of a Computable Network Model for DNA Damage, Autophagy, Cell Death, and Senescence Bioinformatics and Biology Insights 7: 97-117" + }, + { + "id": 135570, + "strid": "d9ae89f1-c135-4e0e-abc7-7eac44b43f11", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 770.19, + 90.35, + 154.28999999999996, + 208.75000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 135529, + 135519, + 135521, + 135528, + 135526, + 135523, + 135525, + 135520, + 135518, + 135527, + 135524, + 135522 + ], + "area": 69586.6665, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135518, + "strid": "4f79c8e8-c470-4663-91a1-5058e3ca5116", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1132.742, + 75.535, + 1649.086, + 249.381 + ], + "priority": 1, + "parents": [ + 135570 + ], + "children": [], + "area": 85561.66696999999, + "iscrowd": 0, + "segmentation": [], + "text": "Identifying Mis-assembled Bacterial\nGenomes using GC Skew" + }, + { + "id": 135519, + "strid": "28528883-e3fb-4f5f-855b-f2f7c5da29dd", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1229.323, + 347.98, + 1542.4150000000002, + 239.29099999999994 + ], + "priority": 2, + "parents": [ + 135570 + ], + "children": [], + "area": 427779.8175400001, + "iscrowd": 0, + "segmentation": [], + "text": "Jennifer Lu+?,Steven L. Salzberg?\n1Department of Biomedical Engineering, Johns Hopkins University\n2Center for Computational Biology, Johns Hopkins School of Medicine\n3Departments of Computer Science and Biostatistics, Johns Hopkins University" + }, + { + "id": 135520, + "strid": "745c9066-c856-4d21-ab10-d73688696a74", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 389.377, + 682.307, + 195.95700000000005, + 44.82000000000005 + ], + "priority": 3, + "parents": [ + 135570 + ], + "children": [ + 135530 + ], + "area": 265674.65273900004, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 135530, + "strid": "0ca39be5-a52a-4fc9-9235-cf77adc2bc8b", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 84.359, + 762.495, + 819.349, + 608.5500000000001 + ], + "priority": 4, + "parents": [ + 135520 + ], + "children": [], + "area": 64323.31570499999, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skew is the phenomena demonstrated by bacterial\ngenomes, where the two halves of the same chromosome\ncontain different proportions of the G and C nucleotide bases.\nWhile this phenomena was discovered and defined in the early\n1990s!, GC skew today provides a key to the analysis of the\n14,000+ complete bacterial genomes in NCBI’s Refseq library.\nIn order to analyze all 14,000+ genomes, we introduce a single\nmetric representing the degree of GC Skewnesss for each\ngenome. With this metric, we demonstrate how GC skew\npatterns are conserved within certain bacterial phyla, e.g.\nFirmicutes, but also divergent in other phyla, e.g.\nActinobacteria. However, we also discover that bacterial\ngenomes with outlier GC Skewness highlights potential\nbacterial mis-assemblies. Using our newly defined metric, we\nidentify multiple mis-assembled chromosomal sequences in\nNCBI's Refseq library of “complete” bacterial genomes." + }, + { + "id": 135524, + "strid": "fbca184a-9491-4816-b180-f3c98a55aac0", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 350.109, + 1434.652, + 273.39399999999995, + 54.49700000000007 + ], + "priority": 5, + "parents": [ + 135570 + ], + "children": [ + 135541, + 135547, + 135544, + 135548, + 135568, + 135545, + 135569, + 135542, + 135546, + 135567 + ], + "area": 502284.577068, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 135541, + "strid": "00d938c9-357c-448a-bf62-0c1bad869a20", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 84.956, + 1529.278, + 793.101, + 417.9169999999999 + ], + "priority": 6, + "parents": [ + 135524 + ], + "children": [], + "area": 129921.34176800001, + "iscrowd": 0, + "segmentation": [], + "text": "Bacterial chromosomes are replicated from the origin of\nreplication to the terminus bidirectionally using two different\nDNA polymerases and two different replication patterns.\nAlthough the total number of Guanine (G) and Cytosine (C)\nnucleotides are identical, the proportions of G vs C on each\nstrand are not the same. This is known as the GC skew\nphenomena and has been observed in most bacterial\ngenomes.\n\nIn any given DNA strand, GC skew is measured using the\nfollowing formula:" + }, + { + "id": 135542, + "strid": "aeab076d-a378-49d1-b5fd-1f067ddee01d", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 363.809, + 1942.835, + 199.18099999999998, + 54.86699999999996 + ], + "priority": 7, + "parents": [ + 135524 + ], + "children": [], + "area": 706820.8585150001, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skew = Gn\n\nG-C\n\n|" + }, + { + "id": 135544, + "strid": "8b9f7f88-6fe4-44e0-bda7-4af774814d12", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 68.15, + 1996.069, + 809.313, + 452.36900000000014 + ], + "priority": 8, + "parents": [ + 135524 + ], + "children": [], + "area": 136032.10235, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135567, + "strid": "a33e2ca6-d65c-4a97-a83d-549e1b90bdfa", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 209.078, + 2456.398, + 528.729, + 30.45699999999988 + ], + "priority": 9, + "parents": [ + 135524 + ], + "children": [], + "area": 513578.78104400006, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skew of E. coli str. K-12 substr. W3110" + }, + { + "id": 135545, + "strid": "e8218aca-5227-4bdb-8253-24d81a5d3747", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 59.735, + 2493.67, + 334.511, + 282.9670000000001 + ], + "priority": 10, + "parents": [ + 135524 + ], + "children": [], + "area": 148959.37745, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135546, + "strid": "741ae5a3-7e7e-4698-b448-fcdd01740277", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 408.972, + 2497.878, + 463.89699999999993, + 248.25300000000016 + ], + "priority": 11, + "parents": [ + 135524 + ], + "children": [], + "area": 1021562.161416, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135568, + "strid": "0c4d28b6-a2dc-42f9-bcaf-d3d3de0fe6fb", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.505, + 2776.803, + 437.35900000000004, + 73.096 + ], + "priority": 12, + "parents": [ + 135524 + ], + "children": [], + "area": 215216.11651499997, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skew of Staphylococcus aureus\nsubsp. aureus NCTC 8325" + }, + { + "id": 135569, + "strid": "66baf7ad-8174-4433-b329-191a222c2de9", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 541.666, + 2776.803, + 354.51699999999994, + 68.22299999999996 + ], + "priority": 13, + "parents": [ + 135524 + ], + "children": [], + "area": 1504099.773798, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skew of Mycobacterium\ntuberculosis H37Rv" + }, + { + "id": 135547, + "strid": "43d76a4e-d306-4602-814d-4becb57d8a8a", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 69.027, + 2871.388, + 479.916, + 250.82400000000007 + ], + "priority": 14, + "parents": [ + 135524 + ], + "children": [], + "area": 198203.299476, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135548, + "strid": "c66871cd-9665-4fa5-83b7-73a051883901", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 552.311, + 2870.483, + 332.573, + 248.8800000000001 + ], + "priority": 15, + "parents": [ + 135524 + ], + "children": [], + "area": 1585399.3362130001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135521, + "strid": "a71fc5a3-ed78-41e1-a8b3-5f75edac900f", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1053.337, + 676.053, + 797.3780000000002, + 45.861999999999966 + ], + "priority": 16, + "parents": [ + 135570 + ], + "children": [ + 135565, + 135564, + 135561, + 135531, + 135560 + ], + "area": 712111.638861, + "iscrowd": 0, + "segmentation": [], + "text": "Mis-assembled Bacterial Genomes" + }, + { + "id": 135531, + "strid": "e9c46c78-d9e3-4858-829e-4f6d9b8ee2d8", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 955.262, + 761.084, + 949.489, + 302.3190000000001 + ], + "priority": 17, + "parents": [ + 135521 + ], + "children": [], + "area": 727034.6240079999, + "iscrowd": 0, + "segmentation": [], + "text": "As all bacterial circular chromosomes exhibit the same GC Skew\nphenomena, GC skew has often been used to identify the origin and\nterminus of replication. In a typical bacterial genome, the origin and\nterminus exist at the point where GC Skew inverts from positive-to-\nnegative or negative-to-positive. These points split the genome in half.\n\nHowever, a misassembled bacterial genome may have > 2 inversion\npoints or have inversion points that do not split the genome in half." + }, + { + "id": 135564, + "strid": "3b9c8457-a1c8-4b24-9459-539b0dfc1b21", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1020.523, + 1123.211, + 403.9820000000001, + 72.81099999999992 + ], + "priority": 18, + "parents": [ + 135521 + ], + "children": [], + "area": 1146262.659353, + "iscrowd": 0, + "segmentation": [], + "text": "Potential Mis-assembly #1\nMore than 2 inversion points" + }, + { + "id": 135560, + "strid": "9c01c150-5305-4f0e-9ae8-1b27e02bb64e", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 965.103, + 1199.354, + 423.8269999999999, + 327.65599999999995 + ], + "priority": 19, + "parents": [ + 135521 + ], + "children": [], + "area": 1157500.143462, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135565, + "strid": "bc9ffd61-e1d0-44a1-a044-1d24d9a70fd4", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1479.7, + 1198.371, + 391.0640000000001, + 104.519 + ], + "priority": 20, + "parents": [ + 135521 + ], + "children": [], + "area": 1773229.5687000002, + "iscrowd": 0, + "segmentation": [], + "text": "Potential Mis-assembly #2\nUnbalanced leading/lagging\n\nstrands" + }, + { + "id": 135561, + "strid": "ad2e58d5-0770-4ddd-954d-3edd2de06c46", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1409.059, + 1316.773, + 477.5049999999999, + 299.69900000000007 + ], + "priority": 21, + "parents": [ + 135521 + ], + "children": [], + "area": 1855410.8466069999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135522, + "strid": "635848c6-222c-4ecc-88ce-7fe7f77144ca", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2310.38, + 679.18, + 297.0619999999999, + 42.735000000000014 + ], + "priority": 22, + "parents": [ + 135570 + ], + "children": [ + 135566, + 135532, + 135543, + 135559 + ], + "area": 1569163.8884, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 135532, + "strid": "d57201ee-0eb1-4ac8-bef6-cd88c96059ee", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1973.721, + 758.785, + 943.741, + 151.73400000000004 + ], + "priority": 23, + "parents": [ + 135522 + ], + "children": [], + "area": 1497629.8889849999, + "iscrowd": 0, + "segmentation": [], + "text": "We developed a “GC Skewness” Metric to better quantify GC Skew\npatterns across a whole bacterial genome with a single number and to\nallow isolation of mis-assembled bacterial genomes from a large set of\ncomplete bacterial genomes." + }, + { + "id": 135543, + "strid": "d674c246-b184-43bf-ae30-166ba513f91d", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2006.207, + 922.391, + 897.6000000000001, + 165.8449999999999 + ], + "priority": 24, + "parents": [ + 135522 + ], + "children": [], + "area": 1850507.280937, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135559, + "strid": "2f4fbf6f-ccf0-4179-b0be-b2620eba35f0", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2044.241, + 1117.719, + 857.719, + 468.558 + ], + "priority": 25, + "parents": [ + 135522 + ], + "children": [], + "area": 2284887.006279, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135566, + "strid": "8bd9c8f0-ff45-42c2-9116-cb1800ded75b", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2008.061, + 1588.943, + 414.8990000000001, + 61.81899999999996 + ], + "priority": 26, + "parents": [ + 135522 + ], + "children": [], + "area": 3190694.469523, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135525, + "strid": "a266d7c5-d11d-4ed9-9b01-50ff127b5919", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1700.729, + 1697.146, + 506.8230000000001, + 47.230999999999995 + ], + "priority": 27, + "parents": [ + 135570 + ], + "children": [ + 135555, + 135554, + 135556, + 135540, + 135553 + ], + "area": 2886385.419434, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skewness Patterns" + }, + { + "id": 135555, + "strid": "23f30793-3260-4bdf-b09f-450044d2619d", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 959.964, + 1765.351, + 1222.4560000000001, + 466.37800000000016 + ], + "priority": 28, + "parents": [ + 135525 + ], + "children": [], + "area": 1694673.407364, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135554, + "strid": "866252e6-eb59-4fad-bc97-a54625deaba8", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 959.964, + 2257.711, + 561.515, + 517.5039999999999 + ], + "priority": 29, + "parents": [ + 135525 + ], + "children": [], + "area": 2167321.282404, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135553, + "strid": "9241b81d-ae3f-4d10-a7eb-643521e1c92b", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1523.775, + 2256.412, + 740.6399999999999, + 469.79399999999987 + ], + "priority": 30, + "parents": [ + 135525 + ], + "children": [], + "area": 3438264.1953, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135556, + "strid": "3705c09f-ea2a-47ef-a7aa-49ea348e4989", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2273.357, + 1760.154, + 633.962, + 520.9410000000003 + ], + "priority": 31, + "parents": [ + 135525 + ], + "children": [], + "area": 4001458.4169779997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135540, + "strid": "ae1e71e4-66f5-43e3-8d00-5c828f12f3fa", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2303.609, + 2292.696, + 606.0170000000003, + 419.7040000000002 + ], + "priority": 32, + "parents": [ + 135525 + ], + "children": [], + "area": 5281475.139864, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skewness Patterns vary significantly\nbetween different bacterial clades.\n\nSome species tend to have much higher GC\nSkewness tendencies, with large differences in\nGC Skew between the leading and lagging\nstrands (e.g. Escherichia coli and Salmonella\nenterica).\n\nOther bacterial species still exhibit GC Skew,\nbut to a lesser degree (e.g. Bordetella\npertussis)." + }, + { + "id": 135528, + "strid": "71e26ceb-a981-457b-962f-468241798b65", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1286.806, + 2781.11, + 341.0909999999999, + 33.92099999999982 + ], + "priority": 33, + "parents": [ + 135570 + ], + "children": [ + 135549, + 135550, + 135539 + ], + "area": 3578749.0346600004, + "iscrowd": 0, + "segmentation": [], + "text": "Salmonella enterica" + }, + { + "id": 135549, + "strid": "154281fb-2289-4bc2-b369-67e446d1bff7", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 951.03, + 2856.35, + 249.32799999999997, + 255.7449999999999 + ], + "priority": 34, + "parents": [ + 135528 + ], + "children": [], + "area": 2716474.5404999997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135539, + "strid": "acb40f4a-7c03-45f7-99ed-fd6c5937e844", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1210.323, + 2829.116, + 301.70900000000006, + 312.16399999999976 + ], + "priority": 35, + "parents": [ + 135528 + ], + "children": [], + "area": 3424144.164468, + "iscrowd": 0, + "segmentation": [], + "text": "Most genomes within a\nspecies align with few\nrearrangements. (left)\n\nHowever, the S. enterica\ngenome with the lowest GC\nSkewness aligns poorly to\nthe S. enterica genomes\nwith average/high GC\nSkewness. (right)" + }, + { + "id": 135550, + "strid": "9db9c4d2-4590-4b4c-bebe-bb6e07012412", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1527.601, + 2869.183, + 405.1579999999999, + 234.6619999999998 + ], + "priority": 36, + "parents": [ + 135528 + ], + "children": [], + "area": 4382966.819983, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135529, + "strid": "d03cf53e-31c3-4b08-a11d-e6123e941dcf", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2318.561, + 2780.167, + 265.712, + 34.86299999999983 + ], + "priority": 37, + "parents": [ + 135570 + ], + "children": [ + 135551, + 135552, + 135538 + ], + "area": 6445986.779687, + "iscrowd": 0, + "segmentation": [], + "text": "Escherichia coli" + }, + { + "id": 135551, + "strid": "c3660100-19aa-4ba0-b412-943465d13606", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1946.509, + 2857.267, + 246.57799999999997, + 260.328 + ], + "priority": 38, + "parents": [ + 135529 + ], + "children": [], + "area": 5561695.930903, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135538, + "strid": "a2c7bb85-c8cc-4330-a431-3600d723d6ed", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2210.573, + 2831.472, + 312.1640000000002, + 281.53600000000006 + ], + "priority": 39, + "parents": [ + 135529 + ], + "children": [], + "area": 6259175.553456, + "iscrowd": 0, + "segmentation": [], + "text": "The left plot shows how the\nE. coli genomes with high\nand average skewness align.\n\nThe right plots shows how\nthe E. coli genome with low\nGC Skewness aligns to the\nthe two E£. coli genomes with\naverage/high GC Skewness" + }, + { + "id": 135552, + "strid": "09d43e0a-b6cd-4839-a03c-92b6a83c099a", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2527.982, + 2868.809, + 421.68899999999985, + 231.5 + ], + "priority": 40, + "parents": [ + 135529 + ], + "children": [], + "area": 7252297.513438, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135523, + "strid": "70db9064-c504-456c-a0ec-d99a1e188f1f", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3285.995, + 685.434, + 356.4749999999999, + 46.90499999999997 + ], + "priority": 41, + "parents": [ + 135570 + ], + "children": [ + 135563, + 135535, + 135534, + 135558, + 135557, + 135533 + ], + "area": 2252332.69683, + "iscrowd": 0, + "segmentation": [], + "text": "Mis-assemblies" + }, + { + "id": 135563, + "strid": "3e248788-43d1-4609-8347-2858ebadf6d7", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3065.73, + 774.849, + 826.114, + 77.85800000000006 + ], + "priority": 42, + "parents": [ + 135523 + ], + "children": [], + "area": 2375477.8247700003, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skewness outliers within a certain clade are potentially\nmis-assembled bacterial genomes" + }, + { + "id": 135558, + "strid": "c970bb4d-08c8-4483-9d4f-0dbd6e5d5653", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3002.906, + 876.357, + 385.5329999999999, + 381.115 + ], + "priority": 43, + "parents": [ + 135523 + ], + "children": [], + "area": 2631617.693442, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135533, + "strid": "b498d5e3-207d-4f99-ad1e-89771db9da69", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3404.664, + 878.764, + 511.5720000000001, + 376.0099999999999 + ], + "priority": 44, + "parents": [ + 135523 + ], + "children": [], + "area": 2991896.155296, + "iscrowd": 0, + "segmentation": [], + "text": "This E. coli genome with a GC\nSkewness of 0.22 is likely\nmisassembled, with an unbalanced +/-\nGC Skew.\n\nTo prove this mis-assembly, we aligned\nthe reads used in the assembly back to\nthe complete genome. We expect\nreads to align concordantly at GC +/-\ninversions." + }, + { + "id": 135534, + "strid": "293d8a1c-5561-4c3e-a2b1-48cb12d970d2", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3021.727, + 1295.343, + 839.096, + 148.42499999999995 + ], + "priority": 45, + "parents": [ + 135523 + ], + "children": [], + "area": 3914172.917361, + "iscrowd": 0, + "segmentation": [], + "text": "However, for E. coli 0121 str. RV8352, at the first GC +/-\ninversion, there was a gap in coverage by concordant reads and\ncoverage by only discordant reads. This suggests the genome\nwas incorrectly assembled and contigs must be inverted." + }, + { + "id": 135557, + "strid": "a32f11ff-4aed-44f5-9b64-e6fec2f566f2", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3012.547, + 1453.566, + 891.185, + 536.53 + ], + "priority": 46, + "parents": [ + 135523 + ], + "children": [], + "area": 4378935.892602, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 135535, + "strid": "1067a208-fe2a-4b99-b728-73ce4f133628", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3004.529, + 2002.176, + 905.864, + 302.74000000000024 + ], + "priority": 47, + "parents": [ + 135523 + ], + "children": [], + "area": 6015595.855103999, + "iscrowd": 0, + "segmentation": [], + "text": "While GC Skew and GC Skewness plots isolate potential mis-\nassemblies, we require the original reads to prove that an assembly is\nincorrect.\n\nMany Refseq/NCBI assemblies are deposited and published without\nthe original reads used to generate the assembly. Without these\nreads, any structural anomaly could be dismissed as a variant of the\ngenomic strain." + }, + { + "id": 135526, + "strid": "cd45ef5c-59ad-4b67-9621-7b4947b19829", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3146.376, + 2377.288, + 637.19, + 54.24800000000005 + ], + "priority": 48, + "parents": [ + 135570 + ], + "children": [ + 135536 + ], + "area": 7479841.908288, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion and Significance" + }, + { + "id": 135536, + "strid": "d12f4a83-420d-44f0-9a5d-4659b7046f72", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3009.241, + 2460.409, + 897.6179999999999, + 301.5619999999999 + ], + "priority": 49, + "parents": [ + 135526 + ], + "children": [], + "area": 7403963.639569, + "iscrowd": 0, + "segmentation": [], + "text": "GC Skewness is a useful metric in identifying mis-assemblies and\nvalidating assemblies of bacterial genomes. We provide both the GC\nSkewness program for testing of future bacterial assemblies. We also\nprovide a list of threshold guidelines for expected GC Skewness of\ncommon bacterial species.\n\nFurthermore, we identify the significant importance in making read\ndata available for validating and supporting any genomic assembly." + }, + { + "id": 135527, + "strid": "6028123c-8166-4a2e-8668-b26355b73dbd", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3233.725, + 2809.437, + 458.8130000000001, + 53.32900000000018 + ], + "priority": 50, + "parents": [ + 135570 + ], + "children": [ + 135562, + 135537 + ], + "area": 9084946.662825, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 135537, + "strid": "940adb00-e05a-42c3-8997-531aea32b078", + "image_id": 205755, + "image_name": "15859.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3009.241, + 2897.439, + 733.8789999999999, + 58.89899999999989 + ], + "priority": 51, + "parents": [ + 135527 + ], + "children": 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"segmentation": [], + "text": "Developing sequence-based predictive models for protein-ligand and protein-protein\ninteractions using machine learning strategies" + }, + { + "id": 155752, + "strid": "4c58fc4d-8dea-4940-8dc8-ed013997bdf9", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 583.471, + 402.446, + 2422.356, + 152.66600000000005 + ], + "priority": 2, + "parents": [ + 155771 + ], + "children": [], + "area": 234815.57006600001, + "iscrowd": 0, + "segmentation": [], + "text": "David Medina Ortiz'?, Pedro Salinas*, Fabio Duran-Verdugo’, Alvaro Olivera-Nappa’, Roberto Uribe-Paredes'\n‘Departamento de Ingenieria en Computaci6n, Universidad de Magallanes, *Centre for Biotechnology and Bioengineering,\nUniversidad de Chile, “Escuela de Ingenieria en Bioinformatica, Universidad de Talca" + }, + { + "id": 155753, + "strid": "d32e2fe5-4377-4eee-8245-f7ef10c07467", + "image_id": 206582, + "image_name": "22958.png", + 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Current prediction methods use the\nstructural information of the interaction complexes. However, predicting the\nstructure of proteins requires enormous computational costs. Machine\nlearning methods emerge as an alternative to this bioinformatics challenge.\nNevertheless, exploring several alternatives for processing and developing\npredictive model training is necessary." + }, + { + "id": 155755, + "strid": "310ddf75-2d25-4316-bd34-71b1bcebef3f", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 111.318, + 1114.014, + 1570.925, + 52.36400000000003 + ], + "priority": 5, + "parents": [ + 155771 + ], + "children": [ + 155758, + 155765 + ], + "area": 124009.81045199999, + "iscrowd": 0, + "segmentation": [], + "text": "Numerical representation strategies of proteins and chemical compounds" + }, + { + "id": 155758, + "strid": "347dd401-f6fb-446c-9001-7f2ac27bf392", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 95.291, + 1181.711, + 1579.439, + 830.472 + ], + "priority": 6, + "parents": [ + 155755 + ], + "children": [], + "area": 112606.422901, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155765, + "strid": "dd2e4bae-9d63-480e-93c4-11ad545ce8f3", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.704, + 2065.096, + 1632.331, + 392.02700000000004 + ], + "priority": 7, + "parents": [ + 155755 + ], + "children": [], + "area": 164596.411584, + "iscrowd": 0, + "segmentation": [], + "text": "Different numerical representation strategies were explored for both protein\nsequences and chemical compounds. In the case of protein sequences,\namino acid coding methods were explored via physicochemical properties,\nsignal space transformations via FFT, and application of large language\nmodels via pre-trained models. While to represent the chemical compounds,\nmethods based on characterizations via RDKit or Mordred and pre-trained\nmodels such as Mol2Vec were used." + }, + { + "id": 155764, + "strid": "b987488c-cdc5-4cd5-bb6d-e0f24c9a8a84", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 485.104, + 2471.363, + 821.6609999999998, + 63.88299999999981 + ], + "priority": 8, + "parents": [ + 155771 + ], + "children": [ + 155766, + 155768 + ], + "area": 1198868.0767519998, + "iscrowd": 0, + "segmentation": [], + "text": "Protein-ligand complex representation" + }, + { + "id": 155766, + "strid": "cd690ecc-9f6a-491f-9701-9eac2da5a443", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 105.125, + 2559.701, + 1574.352, + 1215.328 + ], + "priority": 9, + "parents": [ + 155764 + ], + "children": [], + "area": 269088.567625, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155768, + "strid": "7053dad2-5025-4e9f-a16d-11bf3877a019", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 79.959, + 3822.177, + 1631.056, + 283.5239999999999 + ], + "priority": 10, + "parents": [ + 155764 + ], + "children": [], + "area": 305617.450743, + "iscrowd": 0, + "segmentation": [], + "text": "Once the proteins and chemical compounds are encoded linearly, strategies\nof concatenation and emulation of the structural complexes via\nrepresentations of PCA or Kernel PCA are applied. In this way, three\nrepresentations are created for each protein and ligand representation\ncombination to generate data sets and develop the predictive models." + }, + { + "id": 155757, + "strid": "29dc0a55-449c-4535-b442-4abf691308e6", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2415.652, + 599.317, + 398.2919999999999, + 51.025999999999954 + ], + "priority": 11, + "parents": [ + 155771 + ], + "children": [ + 155756, + 155759 + ], + "area": 1447741.309684, + "iscrowd": 0, + "segmentation": [], + "text": "Training strategies" + }, + { + "id": 155756, + "strid": "8c66b904-0922-402b-8770-55744a1523a5", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1814.056, + 651.765, + 1599.815, + 709.6249999999999 + ], + "priority": 12, + "parents": [ + 155757 + ], + "children": [], + "area": 1182338.20884, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155759, + "strid": "960b91bb-099b-462d-9bbc-abf4472be351", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1745.22, + 1377.764, + 1740.2460000000003, + 396.51199999999994 + ], + "priority": 13, + "parents": [ + 155757 + ], + "children": [], + "area": 2404501.28808, + "iscrowd": 0, + "segmentation": [], + "text": "The training of predictive models was based on applying machine learning\nmethods and deep learning architectures to explore predictive modeling\nstrategies, evaluated via classic performance metrics such as the Pearson\ncoefficient. Then, statistical methods are used to select the best combinations of\nalgorithms and numerical representations, whose hyperparameters are optimized\nin a tuning process via genetic algorithms. Finally, ensemble learning strategies\ncombine the hyperparameter-optimized models into a single predictive system." + }, + { + "id": 155760, + "strid": "7cee5aa9-a989-4055-99a6-2a5016c7175f", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1824.523, + 1791.899, + 1577.236, + 61.680000000000064 + ], + "priority": 14, + "parents": [ + 155771 + ], + "children": [ + 155761, + 155762 + ], + "area": 3269360.9391769995, + "iscrowd": 0, + "segmentation": [], + "text": "Exploring sequence-based approaches to protein ligand affinity prediction" + }, + { + "id": 155761, + "strid": "e3755445-7e79-4844-a53d-29ea9d769bd0", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1844.348, + 1862.389, + 1491.3249999999998, + 826.066 + ], + "priority": 15, + "parents": [ + 155760 + ], + "children": [], + "area": 3434893.4273719997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155762, + "strid": "d905ccc7-432f-4b39-a00a-9c2e78ae3ffa", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1751.829, + 2690.659, + 1724.8259999999998, + 279.76099999999997 + ], + "priority": 16, + "parents": [ + 155760 + ], + "children": [], + "area": 4713574.465311, + "iscrowd": 0, + "segmentation": [], + "text": "The best strategies to represent interaction complexes were combining large\nlanguage models for proteins and mol2vec for chemical compounds combined\nvia kernel-PCA methods. The performances of the optimized models reach a 0.7\n\nPearson coefficient. However, the assembled model achieves a 0.82 Pearson\ncoefficient." + }, + { + "id": 155763, + "strid": "cf969531-e6fc-4b1f-bd9a-d3e5610da8a4", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1782.669, + 2981.434, + 1660.9440000000002, + 72.69399999999996 + ], + "priority": 17, + "parents": [ + 155771 + ], + "children": [ + 155770 + ], + "area": 5314909.9673460005, + "iscrowd": 0, + "segmentation": [], + "text": "Exploring sequence-based approaches to protein networks predictive systems" + }, + { + "id": 155770, + "strid": "e1b9520b-24d8-43ac-ac74-0bbb93d2bc30", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1831.683, + 3084.605, + 1537.0680000000002, + 1336.9180000000001 + ], + "priority": 18, + "parents": [ + 155763 + ], + "children": [], + "area": 5650018.540215, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 155769, + "strid": "f964ea60-1391-4e02-b267-b07087c8afa9", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 812.749, + 4139.08, + 170.41100000000006, + 47.266999999999825 + ], + "priority": 19, + "parents": [ + 155771 + ], + "children": [ + 155767 + ], + "area": 3364033.13092, + "iscrowd": 0, + "segmentation": [], + "text": "Funding" + }, + { + "id": 155767, + "strid": "806d00c5-4220-4dda-a8b2-7e3cf2404759", + "image_id": 206582, + "image_name": "22958.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 28.988, + 4189.422, + 1728.219, + 218.21799999999985 + ], + "priority": 20, + "parents": [ + 155769 + ], + "children": [], + "area": 121442.96493599999, + "iscrowd": 0, + "segmentation": [], + "text": "The authors acknowledge funding by the MAG-2095 project, Ministry of Education, Chile. DMO\nacknowledges ANID for the project \"SUBVENCION A INSTALACION EN LA ACADEMIA CONVOCATORIA\nANO 2022\", Folio 85220004. DMO and AON gratefully acknowledge support from the Centre for\nBiotechnology and Bioengineering - CeBiB (PIA project FB0001, Conicyt, Chile). RUP acknowledges ANID\nfor project ACT210085, and GORE Magallanes for project FIC-R 40036196-0." + }, + { + "id": 34198, + "strid": "786a8182-f050-49b7-94e3-430928e31ecd", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 417.83, + 469.51, + 206.66000000000003, + 251.58000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 34174, + 34192, + 34177, + 34178, + 34176, + 34195, + 34175 + ], + "area": 196175.3633, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34174, + "strid": "f64c9e6a-a0aa-4d73-b710-e5a7193abd96", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 407.625, + 116.439, + 2955.401, + 242.71900000000002 + ], + "priority": 1, + "parents": [ + 34198 + ], + "children": [], + "area": 47463.447374999996, + "iscrowd": 0, + "segmentation": [], + "text": "Simultaneous EEG/fMRI Reveals Spatiotemporal Correlates of\nBaseball Pitch Recognition a=" + }, + { + "id": 34175, + "strid": "1946e18c-0b9e-4fbf-9838-9f0f0a5aea09", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 674.794, + 361.934, + 2264.18, + 254.86899999999997 + ], + "priority": 2, + "parents": [ + 34198 + ], + "children": [], + "area": 244230.891596, + "iscrowd": 0, + "segmentation": [], + "text": "Jordan Muraskin*,Jason Sherwin?, Paul Sajda*\n“Department of Biomedical Engineering, Columbia University, New York, NY 10027\nbUS Army Research Laboratory, Aberdeen, Maryland 21001" + }, + { + "id": 34176, + "strid": "b510028d-3d5c-4e1d-aecc-22900903c1c4", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 610.434, + 856.305, + 678.625, + 77.09299999999996 + ], + "priority": 3, + "parents": [ + 34198 + ], + "children": [ + 34179 + ], + "area": 522717.68636999995, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34179, + "strid": "dbcf7683-e722-4d52-8a20-9f0ef3bff5c2", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 142.618, + 990.38, + 1569.825, + 697.371 + ], + "priority": 4, + "parents": [ + 34176 + ], + "children": [], + "area": 141246.01484, + "iscrowd": 0, + "segmentation": [], + "text": "Hitting a baseball is often described as the most difficult thing to do in sports.\nThis rapid decision requires the batter to make a judgment in a fraction of a\nsecond based largely on the trajectory and spin of the ball. There has been\nrelatively little investigation into the neural correlates of this rapid decision\nmaking process [1-4]. Recently, our group identified neural correlates of pitch\nidentification using EEG [5]. These results showed the temporal evolution of\nthe decision making process, however, due to the poor spatial resolution of\nEEG we were unable to draw strong conclusions about which brain regions\nare recruited. In our current study, we use simultaneous EEG/fMRI to identify\nregions that are activated as well as their temporal order during the process of\nbaseball pitch identification. Here we present preliminary results from both\ntraditional BOLD fMRI and single trial variability analyses." + }, + { + "id": 34178, + "strid": "74adc301-b893-4372-9a19-3d7c3e5411ce", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 728.586, + 1821.614, + 445.8589999999999, + 78.02399999999989 + ], + "priority": 5, + "parents": [ + 34198 + ], + "children": [ + 34180, + 34191, + 34190 + ], + "area": 1327202.457804, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34180, + "strid": "bde41722-d2cb-4eae-b08d-c3d5422ce4da", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 141.957, + 1948.911, + 1589.8920000000003, + 989.6549999999997 + ], + "priority": 6, + "parents": [ + 34178 + ], + "children": [], + "area": 276661.558827, + "iscrowd": 0, + "segmentation": [], + "text": "7 subjects performed a Go/NoGo discrimination task classifying simulated\npitch trajectories (Fastball, Curveball, and Slider), while we simultaneously\nrecorded BOLD fMRI at 3x3x3 mm, using a 3T scanner, and scalp EEG, using\nour custom-built 43- channel EEG system [6]. Each trial consisted of a letter\ncue (“F”-Fastball, “C’’-Curveball, “S’’-Slider) and countdown bar, the\nsimulated pitch, and then a (+/-) feedback sign to indicate if the subject was\ncorrect on the trial (Fig. 1) . Subjects were instructed to respond when the\npitch matched the cue and before the pitch ended. There were a total 450 trials\nover 5 scans with a 60/40 split between Go/NoGo. We performed standard\npreprocessing on all data [6]. We used logistic regression with a sliding\nwindow [7] on stimulus-locked epochs to discriminate between combinations\nof Correct Go,Correct NoGo, and Incorrect NoGo trials using the EEG data.\nWe first analyzed the BOLD signal using a traditional event related analysis.\nFor the single-trial variability analysis, we analyzed the BOLD signal by\ncorrelating the trial-to-trial variability of the EEG classifiers within each class\nwith the BOLD data, similar to the approach of Goldman et al. (see [6] for\ndetails). Results are presented at the group level." + }, + { + "id": 34191, + "strid": "ed7e1782-56d1-48b9-9b77-9a64f3de82d7", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 301.086, + 2955.545, + 1333.054, + 457.346 + ], + "priority": 7, + "parents": [ + 34178 + ], + "children": [ + 34185 + ], + "area": 889873.22187, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34185, + "strid": "009518b6-ff99-438f-aed0-6c57e905b4cc", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 134.054, + 3414.94, + 1430.373, + 40.6909999999998 + ], + "priority": 8, + "parents": [ + 34191 + ], + "children": [], + "area": 457786.36676, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Baseball Go/NoGo paradigm example. RTs are collected during the pitch display." + }, + { + "id": 34190, + "strid": "538772d6-1f9c-4c5c-a718-90d0e8621fee", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 142.953, + 3491.755, + 785.473, + 1036.5439999999999 + ], + "priority": 9, + "parents": [ + 34178 + ], + "children": [ + 34188 + ], + "area": 499156.85251500004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34188, + "strid": "1e58c523-0384-46c7-abde-94275d36b464", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 933.217, + 3491.552, + 781.976, + 1109.9360000000001 + ], + "priority": 10, + "parents": [ + 34190 + ], + "children": [], + "area": 3258375.682784, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: The entire method was applied\nindependently for multiple temporal windows of\nEEG data spanning the trial. A) We first estimate\nw, which is a linear weighting on the EEG\nsensors that maximally discriminates stimulus\nconditions (Go vs NoGo). This determines a task-\nrelevant projection of the data, where the distance\nto the decision boundary reflects the decision\ncertainty of the classifier. B) From w we\ncompute yi which is the demeaned classifier\noutput, Yi = w'Xi — Ymean for each target trial, i.\nNote that ¥; contains no discriminating\ninformation about Go vs NoGo trials, and instead\nrepresents the single-trial variability of the task-\nrelevant EEG projection around the mean of all\nGos or NoGos. C) Given the ¥;’s and their\ncorresponding stimulus-onset time points we\nbuild regressors for an {MRI general linear\nmodel, including D) event-related average BOLD\nresponse to Go, E) RT variability, and F) residual\nEEG variability. Similar regressors were\nincluded for the NoGo stimuli, along with motion\nparameters, RETROICOR physiological\nregressors, and temporal derivatives. All model\nstimuli were convolved with the canonical HRF." + }, + { + "id": 34177, + "strid": "18ab52ba-b8ad-4df3-80f7-cbafbb0975a8", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2490.279, + 852.523, + 399.2049999999999, + 81.05799999999999 + ], + "priority": 11, + "parents": [ + 34198 + ], + "children": [ + 34182, + 34181, + 34189, + 34194 + ], + "area": 2123020.123917, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS" + }, + { + "id": 34181, + "strid": "d0a20d16-6f98-4b4d-9704-8c27382a23d3", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1917.483, + 1011.031, + 1023.5689999999997, + 275.4090000000001 + ], + "priority": 12, + "parents": [ + 34177 + ], + "children": [ + 34183 + ], + "area": 1938634.754973, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34183, + "strid": "b40e2e33-7b03-4f99-85b5-39700ce3b913", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1923.223, + 1312.874, + 1534.625, + 131.71900000000005 + ], + "priority": 13, + "parents": [ + 34181 + ], + "children": [], + "area": 2524949.472902, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1. Group average behavioral results (Mean and Standard Error (SE)). Go trials are\nconsidered correct if the subject responds before end of pitch duration (540-600ms). Incorrect RTs\n(4th column) combine incorrect Go trials and NoGo trials with a response." + }, + { + "id": 34182, + "strid": "72da30e6-4e7b-415a-996c-b9ba9a1ee6d5", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1877.489, + 1496.061, + 1586.926, + 489.56899999999996 + ], + "priority": 14, + "parents": [ + 34177 + ], + "children": [ + 34184 + ], + "area": 2808838.070829, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34184, + "strid": "3a888924-cbae-4df5-b35c-857f4b944ad7", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1891.089, + 2011.709, + 1507.725, + 174.827 + ], + "priority": 15, + "parents": [ + 34182 + ], + "children": [], + "area": 3804320.761101, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Group average Traditional BOLD fMRI Correct NoGo>Correct Go contrast. The\nactivation pattern exhibits the standard inhibition response with clusters located bilaterally in the\ninferior frontal gyrus, middle frontal gyrus, middle temporal gyrus, angular gyrus and lateral\noccipital cortex, also in the paracingulate gyrus, supplementary motor cortex, and precuneous." + }, + { + "id": 34194, + "strid": "f3a9952c-fb67-4f66-a224-2b45fa50856e", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1844.493, + 2287.838, + 1661.0769999999998, + 1200.4360000000001 + ], + "priority": 16, + "parents": [ + 34177 + ], + "children": [ + 34186 + ], + "area": 4219901.1761340005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34186, + "strid": "5a76b40b-d384-43c4-95a8-a3c5bbd94f43", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1901.419, + 3061.453, + 940.586, + 397.953 + ], + "priority": 17, + "parents": [ + 34194 + ], + "children": [], + "area": 5821104.901807, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Single-Trial Variability (STV) EEG/fMRI results.\nA) Group average single-trial EEG discrimination with\nstandard error bars. B) BOLD fMRI correlates of Correct\nGo trial EEG STV at 450ms. Clusters are located bilaterally\nin the culmen and uvula of the cerebellum.\n\nC) BOLD fMRI correlates of Correct NoGo trial EEG STV\nat 425ms. A large positively correlated activation is located\nin anterior cingulate cortex. Activations are thresholded at\n\nz > 2.3, and cluster corrected at p < 0.05." + }, + { + "id": 34189, + "strid": "a7742f05-e614-4a3b-bd0e-7cad2962a7c7", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1862.895, + 3616.809, + 1598.127, + 558.3559999999998 + ], + "priority": 18, + "parents": [ + 34177 + ], + "children": [ + 34187 + ], + "area": 6737735.402055, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34187, + "strid": "8ecbc881-9ad8-4432-99fc-3a78658ca819", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1911.791, + 4225.392, + 1572.809, + 307.4489999999996 + ], + "priority": 19, + "parents": [ + 34189 + ], + "children": [], + "area": 8078066.3970719995, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Group average Single Trial Variability (STV) EEG/fMRI results for Correct Go vs Correct\nNoGo with corresponding EEG discriminating scalp projection (forward model) at 650ms.\n\nA) Positively correlated STV cluster for Correct NoGo trials located in the precuneal and cuneal\nregions with EEG discriminating scalp projection at 600ms. Red indicates discrimination towards\nNoGo trials. Note the arrows that map the scalp projection to {MRI space. B) Negatively correlated\nSTV cluster for the Correct Go trials located in the right Inferior Frontal Gyrus with EEG\ndiscriminating scalp projection at 650ms." + }, + { + "id": 34192, + "strid": "39d5b165-9e62-4161-93e8-5406ae1a7b4d", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2390.952, + 4696.077, + 595.56, + 76.3140000000003 + ], + "priority": 20, + "parents": [ + 34198 + ], + "children": [ + 34193 + ], + "area": 11228094.695304, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34193, + "strid": "4335810e-32ab-4e8b-8469-571c4f903ecb", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1881.178, + 4831.306, + 1563.0619999999997, + 461.1800000000003 + ], + "priority": 21, + "parents": [ + 34192 + ], + "children": [], + "area": 9088546.558468, + "iscrowd": 0, + "segmentation": [], + "text": "Our work represents a first attempt to identify the spatiotemporal neural\ncorrelates of baseball pitch identification, simulated in a Go/NoGo paradigm.\nOur current results indicate an involvement of a cascade areas, specifically\nthose most associated with the visual processing of motion, motor planning\nand timing, response inhibition, error detection and self-monitoring networks.\nFuture analysis will include both a more rigorous analysis of error trials as\nwell as investigating group differences between experts (college or semi-pro\nplayers) and novices." + }, + { + "id": 34195, + "strid": "129c6f9a-3e2a-4c19-8267-f2779a73d372", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 655.052, + 4697.518, + 592.1079999999998, + 79.72699999999986 + ], + "priority": 22, + "parents": [ + 34198 + ], + "children": [ + 34197, + 34196 + ], + "area": 3077118.560936, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 34196, + "strid": "62cec404-26f0-4472-8da8-801ce6f1d243", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 144.235, + 4837.185, + 1530.6459999999997, + 348.8029999999999 + ], + "priority": 23, + "parents": [ + 34195 + ], + "children": [], + "area": 697691.3784750002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 34197, + "strid": "200cb1a0-fa50-471f-9933-0f19be8acee7", + "image_id": 201842, + "image_name": "117764.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 144.427, + 5216.346, + 1512.018, + 87.51599999999962 + ], + "priority": 24, + "parents": [ + 34195 + ], + "children": [], + "area": 753381.2037419999, + "iscrowd": 0, + "segmentation": [], + "text": "This work was supported by grants from the Army Research Office (W911NF-11-1-0219), the National Institutes of Health (RO1-MH085092), and the\nU.S. Army Research Laboratory Postdoctoral Fellowship Program administered by the Oak Ridge Associated Universities through a contract with the\nU.S. Army Research Laboratory." + }, + { + "id": 176796, + "strid": "ec8bbf46-95f5-4dad-b7e7-ba5fa81c19b5", + "image_id": 207399, + "image_name": "8017.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 435.51, + 516.64, + 328.53, + 140.80000000000007 + ], + "priority": -1, + "parents": [], + "children": [ + 176773, + 176771, + 176775, + 176768, + 176766, + 176774, + 176770, + 176769, + 176767, + 176777, + 176776, + 176772 + ], + "area": 225001.8864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 176766, + "strid": "01236e61-80f1-44c6-8f3e-c5d590f08d5c", + "image_id": 207399, + "image_name": "8017.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 651.068, + 89.685, + 3495.675, + 246.45099999999996 + ], + "priority": 1, + "parents": [ + 176796 + ], + "children": [], + "area": 58391.03358, + "iscrowd": 0, + "segmentation": [], + "text": "Association analysis of driver genes of hepatocellular carcinoma with\ncancer 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"children": [ + 176794, + 176795 + ], + "area": 14389504.03946, + "iscrowd": 0, + "segmentation": [], + "text": "Reference and Acknowledgement" + }, + { + "id": 176794, + "strid": "2c78dd1c-7771-48b1-b952-36ae2a2dcc9c", + "image_id": 207399, + "image_name": "8017.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3265.54, + 4170.531, + 1428.4300000000003, + 276.91600000000017 + ], + "priority": 29, + "parents": [ + 176777 + ], + "children": [], + "area": 13619035.80174, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 176795, + "strid": "185d3292-e2c3-4033-a5cb-63720567c397", + "image_id": 207399, + "image_name": "8017.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3266.211, + 4462.151, + 1420.7440000000001, + 158.88600000000042 + ], + "priority": 30, + "parents": [ + 176777 + ], + "children": [], + "area": 14574326.679860998, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgement This research was supported by grants KO1ES025434 awarded by NIEHS through\nfunds provided by the trans-NIH Big Data to Knowledge (BD2K) initiative (www.bd2k.nih.gov), P20\nCOBRE GM103457 awarded by NIH/NIGMS, and Medical Research Grant 14ADVC-64566 from Hawaii\nCommunity Foundation to L.X. Garmire." + }, + { + "id": 83678, + "strid": "3f837393-e3c7-4b9c-ac99-6e0341d0501c", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 24.51, + 46.48, + 196.89000000000001, + 212.85 + ], + "priority": -1, + "parents": [], + "children": [ + 83661, + 83673, + 83666, + 83660, + 83663, + 83672, + 83662 + ], + "area": 1139.2248, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83660, + "strid": "15bc7825-3005-4ee7-9cd2-11e77af47518", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 300.706, + 66.175, + 1875.781, + 291.774 + ], + "priority": 1, + "parents": [ + 83678 + ], + "children": [], + "area": 19899.21955, + "iscrowd": 0, + "segmentation": [], + "text": "Metatranscriptomics of colonic biopsies in\nInflammatory bowel disease" + }, + { + "id": 83661, + "strid": "9ec6ccee-fb2c-4916-978f-fac8af8d45b9", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 242.632, + 411.76, + 2770.848, + 282.09400000000005 + ], + "priority": 2, + "parents": [ + 83678 + ], + "children": [], + "area": 99906.15232, + "iscrowd": 0, + "segmentation": [], + "text": "aac ee Sta Ryo\\ara O'Callaghan, Aldert Zomer, lan B. Roy “Aine Fanning, Fergus Tene ele Marcus Claesson”\n\neee of Microbiology, TTA College Cork, Ireland. weet Pharmabiotic Centre, University College Cork, Ireland.\nRadboud SAIL Nijmegen, Medical Centre Netherlands\n\nae correspondence - feargal@umail.ucc.ie" + }, + { + "id": 83662, + "strid": "87f2fc8b-877b-4db5-ba6f-ece78ababf47", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1423.976, + 753.447, + 440.10799999999995, + 74.577 + ], + "priority": 3, + "parents": [ + 83678 + ], + "children": [ + 83664 + ], + "area": 1072890.445272, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 83664, + "strid": "45c1e3cc-4e7e-4547-82b4-33cad0f156a8", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 42.591, + 869.391, + 3229.0, + 279.8860000000001 + ], + "priority": 4, + "parents": [ + 83662 + ], + "children": [], + "area": 37028.232081, + "iscrowd": 0, + "segmentation": [], + "text": "Crohn’s disease (CD) and ulcerative colitis(UC) are inflammatory bowel diseases (IBD) characterized by chronic and relapsing inflammation of the gastrointestinal\ntract. They cause lifelong suffering, aS well as considerable drainage of health.care’resources. Although their aetiology is still\\unclear, there is a growing body of\nevidence for a significant microbial.factor. Previous research in this area has focused on examining the microbial and gene)»composition. While this has produced\nsome interesting results, there has-been no consistent population of bacteriacfound to be associated with health or disease in IBD. In this study we take a new.\napproach and focus on the global gene expression of these communities.through RNA sequencing of colonic biopsies." + }, + { + "id": 83663, + "strid": "6e90c87c-2551-4a45-8023-c518e7fac966", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1447.085, + 1188.303, + 325.61699999999996, + 86.13100000000009 + ], + "priority": 5, + "parents": [ + 83678 + ], + "children": [ + 83665 + ], + "area": 1719575.4467550002, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 83665, + "strid": "1f5b7c9a-02cd-49ce-9a15-658ee6230359", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 30.743, + 1310.377, + 3252.633, + 378.049 + ], + "priority": 6, + "parents": [ + 83663 + ], + "children": [], + "area": 40284.920111, + "iscrowd": 0, + "segmentation": [], + "text": "Colonic biopsies were-collected from 11 IBD patients (3 UC and-8 CD). Where possible, multiple biopsies.were collected from each patient from both inflamed and\nnon inflamed areas, of the colon. Total RNA from 19 colonic biopsies (13 CD and 6 UC) was extracted using ‘Trizol in conjunction with the Agilent ‘Totally, RNA’ isolation\nkit. Eukaryotic.RNA was depleted using the Ambion ‘Microbe*Enrich’ kit, followed by rRNA depletetion, with the Ambion ‘Microbe Express’ kit. CDNA)was synthesized\nand amplified before sequencing on a Illumina HiSeq 2000.Raw reads were quality-filtered beforevalignment against the SILVA database using, bowtie2, followed by\nalignment-against the hg20 version of the human genome using STAR. The remaining reads were aligned against the Integrated gene catalog (IGC) using bowtie2.\nThe gene counts from this alignment were used.as the basis of a differential gene expression.analysis with DESeq2 and a principle coordinates analysis (PCoA). The\nIGCrannotation was also used to provide information on the overall transcriptional activity of the microbes from these colonic biopsies:" + }, + { + "id": 83666, + "strid": "c21fecb8-ff82-4f99-afe8-8459e80d3014", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1467.482, + 1717.461, + 277.9279999999999, + 77.53800000000001 + ], + "priority": 7, + "parents": [ + 83678 + ], + "children": [ + 83667, + 83670, + 83676, + 83669 + ], + "area": 2520343.103202, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 83667, + "strid": "1b7c969b-1d9a-4335-9b53-19279e6975aa", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 23.46, + 1858.716, + 1448.944, + 698.5050000000001 + ], + "priority": 8, + "parents": [ + 83666 + ], + "children": [ + 83668 + ], + "area": 43605.47736, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83668, + "strid": "d6f04163-7ebb-4fdf-a81c-3b4bd79b0d8c", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 26.868, + 2574.239, + 1529.651, + 86.45100000000002 + ], + "priority": 9, + "parents": [ + 83667 + ], + "children": [], + "area": 69164.653452, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1. Relative contribution of bacterial phyla to the (non-r-RNA non-human) metatranscriptome of each\nsample based on IGC annotation." + }, + { + "id": 83669, + "strid": "a7449f8c-4c49-421c-9d24-20d334539338", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 25.841, + 2698.87, + 1576.584, + 752.5999999999999 + ], + "priority": 10, + "parents": [ + 83666 + ], + "children": [], + "area": 69741.49967, + "iscrowd": 0, + "segmentation": [], + "text": "Sequencing produced between 85>and 111 million reads per sample. After\nquality control, these were on-savérage 13% rRNA, 77% human and 8%\nbacterial. The PCoA in Figs2~shows a clear difference in the bacterial\nmetantranscriptome between,CD and UC. This split between the two conditions\nis also evident in the’ contribution of each phyla to the ‘bacterial\nmetatranscriptome (Fig.-1). As seen in Fig. 2, a global analysis ‘shows little\ndifference between(inflamed and non-inflamed within each condition. However\na differential gene_expression analysis reveals there are subtle, but signicant\ndifferences in\\sthe bacterial metatranscriptome between inflamed and\nnon-inflamed tissue. Fig. 3 displays the differences in-functional categories of\ngenes upvand down regulated in inflamed tissues. These diffrentially expressed\ngenes\\encode for a variety of functions including but not limited to ABC\ntransporters, iron-sulfur biogensis and histindine kinases. There were also\nsubstantial differences for poorly characterised genes." + }, + { + "id": 83670, + "strid": "de258c33-389c-4472-b1e6-873238ec1c31", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 116.627, + 3463.067, + 1341.251, + 639.2039999999997 + ], + "priority": 11, + "parents": [ + 83666 + ], + "children": [ + 83671 + ], + "area": 403887.115009, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83671, + "strid": "f8ff3517-19f7-4f42-aeaa-845fd9970582", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 41.216, + 4143.568, + 1506.439, + 127.48199999999997 + ], + "priority": 12, + "parents": [ + 83670 + ], + "children": [], + "area": 170781.298688, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3..?hé number of differentially expressed genes (grouped «into eggNOG functional categories)\nbetween inflamed and non-inflamed for CD and UC. “Poorlyscharacterised” eggNOG functiona\ncategories not show" + }, + { + "id": 83676, + "strid": "ecf99744-9619-492f-b281-434b795ad66f", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1682.599, + 1855.191, + 1416.146, + 1300.0690000000002 + ], + "priority": 13, + "parents": [ + 83666 + ], + "children": [ + 83677 + ], + "area": 3121542.521409, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83677, + "strid": "96c1cefe-1af7-4f4c-bb23-5624c94a2cc6", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1655.121, + 3195.683, + 1492.4229999999998, + 83.49200000000019 + ], + "priority": 14, + "parents": [ + 83676 + ], + "children": [], + "area": 5289242.042643, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2. PCoA plot based on bacterial gene counts consolidated based on function demonstrating the\ndifference between_CD and UC" + }, + { + "id": 83672, + "strid": "3ad3a356-94bf-403b-be48-8ee657103522", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2258.717, + 3384.099, + 470.2359999999999, + 77.61200000000008 + ], + "priority": 15, + "parents": [ + 83678 + ], + "children": [ + 83674 + ], + "area": 7643721.940983001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 83674, + "strid": "5de6ff08-970d-4f21-b2d2-9ef3125161fe", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1634.229, + 3515.545, + 1596.36, + 487.13200000000006 + ], + "priority": 16, + "parents": [ + 83672 + ], + "children": [], + "area": 5745205.589805, + "iscrowd": 0, + "segmentation": [], + "text": "We demonstrate that it is possible to carry out Illumina RNA-Seg to assess the\nbacterial metatranscriptomic activity of human colonic biopsies. These results\nhighlight the need for a large sample_size with high throughput in order to fully\nassess the bacterial metatranscriptome of colonic biopsies.\n\nThe study shows that bacterial transcriptional activity is different between CD\nand UC and that the differences between inflamed and non-inflamed within each\ncondition are much more-subtle than the differences between conditions them-\nselves." + }, + { + "id": 83673, + "strid": "b2bc65c5-2951-42d9-8271-3804f8db99e4", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2121.756, + 4020.21, + 735.029, + 86.7430000000004 + ], + "priority": 17, + "parents": [ + 83678 + ], + "children": [ + 83675 + ], + "area": 8529904.68876, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 83675, + "strid": "62290861-8a6e-42b1-bb2f-b59c2fef67a2", + "image_id": 203751, + "image_name": "120860.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1636.56, + 4149.463, + 1589.013, + 112.60699999999997 + ], + "priority": 18, + "parents": [ + 83673 + ], + "children": [], + "area": 6790845.16728, + "iscrowd": 0, + "segmentation": [], + "text": "| would likecto thank ECCB for providing me with a travel fellowship allowing me\nto attend this conference and of course to all my funding bodies for their support" + }, + { + "id": 98319, + "strid": "c50f941e-bb98-4ddf-bb6f-6d980f091320", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 40.84, + 158.85, + 93.85999999999999, + 315.12 + ], + "priority": -1, + "parents": [], + "children": [ + 98289, + 98293, + 98306, + 98299, + 98301, + 98294, + 98295, + 98300, + 98307, + 98288 + ], + "area": 6487.434, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98288, + "strid": "e93161a5-51da-47a5-9a56-0ef0a4631ec0", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 185.768, + 118.947, + 3004.157, + 464.5369999999999 + ], + "priority": 1, + "parents": [ + 98319 + ], + "children": [], + "area": 22096.546296, + "iscrowd": 0, + "segmentation": [], + "text": "CURRENT ASSESSMENT OF PATIENTS WITH\nSCHIZOPHRENIA READMITTED WITHA\nPSYCHOTIC RELAPSE" + }, + { + "id": 98289, + "strid": "9155fcbd-c227-4692-a226-c383f9220f11", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 700.952, + 697.526, + 1977.0999999999997, + 181.22500000000002 + ], + "priority": 2, + "parents": [ + 98319 + ], + "children": [], + "area": 488932.24475199997, + "iscrowd": 0, + "segmentation": [], + "text": "DR. ITORO UDO, DR. ANNA MARIA MEANEY\nCARLOW/ KILKENNY MENTAL HEALTH SERVICES, IRELAND" + }, + { + "id": 98293, + "strid": "4c1e6427-1411-4324-8be5-fb0c76b28b64", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 163.81, + 968.02, + 386.05400000000003, + 60.15000000000009 + ], + "priority": 3, + "parents": [ + 98319 + ], + "children": [ + 98296 + ], + "area": 158571.3562, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 98296, + "strid": "4ea8cffc-996c-46a9-a156-9e65c3eef5d4", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 149.446, + 1051.287, + 915.949, + 803.1859999999999 + ], + "priority": 4, + "parents": [ + 98293 + ], + "children": [], + "area": 157110.637002, + "iscrowd": 0, + "segmentation": [], + "text": "Current best practice encourages the\ndevelopment of recovery perspective in\nthe management of mental health\ndisorders.\n\nQuality Framework in Mental Health\nService envisions each patient receiving\nservice that ‘addresses prevention, early\ndetection, early intervention’\n\nWe sought to promote recovery and\nimprove management outcomes of\npatients with Schizophrenia through a\nsystematic review of assessment at the\npoint of readmission." + }, + { + "id": 98300, + "strid": "ec444576-2d7a-4f5b-8d41-e6749246d191", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 161.797, + 2105.249, + 127.48299999999998, + 58.85600000000022 + ], + "priority": 5, + "parents": [ + 98319 + ], + "children": [ + 98298 + ], + "area": 340622.97245299997, + "iscrowd": 0, + "segmentation": [], + "text": "Aim" + }, + { + "id": 98298, + "strid": "3f92f2f1-ebb4-4723-bc59-0a8d24e1d8b5", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 157.922, + 2190.095, + 920.142, + 643.0540000000001 + ], + "priority": 6, + "parents": [ + 98300 + ], + "children": [], + "area": 345864.18259, + "iscrowd": 0, + "segmentation": [], + "text": "As documentation reflects our actual\npractice we wanted to assess whether we\nwere appropriately identifying evidence\nbased reasons for relapse in patients with\nschizophrenia during their readmission.\nNICE guidelines for the management of\nSchizophrenia was used as the standard.\nRelapse factors considered were medication\ncompliance, alcohol use, illicit drug use,\ninsight, social support." + }, + { + "id": 98299, + "strid": "9d27a1bd-0346-4ae3-8f27-16b852f43318", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 164.521, + 2998.974, + 253.25999999999996, + 69.3449999999998 + ], + "priority": 7, + "parents": [ + 98319 + ], + "children": [ + 98303, + 98304 + ], + "area": 493394.20145399997, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 98303, + "strid": "2c9cfb5d-dc26-4184-9578-05ade6aee0f0", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 155.246, + 3071.986, + 909.59, + 715.4369999999999 + ], + "priority": 8, + "parents": [ + 98299 + ], + "children": [], + "area": 476913.538556, + "iscrowd": 0, + "segmentation": [], + "text": "We obtained a list of patients attending the\nservice who had been discharged from their\n2™4 or more admission during a specified\ntime period ( June 06- March 07).\n\nTheir psychiatric case notes were collected\nThese notes were reviewed using a template/\nexcel spreadsheet.\n\nThe most recent (index) and previous\nadmission were analyzed\n\nResults were analyzed using StatsDirect\nsoftware.\n\nWe included:" + }, + { + "id": 98304, + "strid": "626fb841-1fe9-4de5-b3f0-019cc2cd9d1f", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 155.246, + 3792.743, + 930.8660000000001, + 781.9280000000003 + ], + "priority": 9, + "parents": [ + 98299 + ], + "children": [], + "area": 588808.179778, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98294, + "strid": "43e7ea51-3edd-4d21-9584-096ac553baac", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1228.814, + 969.883, + 241.20000000000005, + 60.299999999999955 + ], + "priority": 10, + "parents": [ + 98319 + ], + "children": [ + 98315, + 98310, + 98309, + 98312, + 98316, + 98290, + 98318, + 98292, + 98313, + 98311, + 98314, + 98317 + ], + "area": 1191805.8087620002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 98290, + "strid": "1110b6a9-162c-4f69-80e0-eebb44509941", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1211.498, + 1066.766, + 643.702, + 526.6610000000001 + ], + "priority": 11, + "parents": [ + 98294 + ], + "children": [], + "area": 1292384.875468, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98309, + "strid": "7efcc5d7-ded6-497f-959a-adbee7f7db1e", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1911.672, + 1106.407, + 219.54599999999982, + 371.44000000000005 + ], + "priority": 12, + "parents": [ + 98294 + ], + "children": [], + "area": 2115087.282504, + "iscrowd": 0, + "segmentation": [], + "text": "41% had the\nreason for\nrelapse\ndocumented\nin the case\nformulation\nof index\nreadmission." + }, + { + "id": 98311, + "strid": "0d90c4c8-30e6-4a2d-a352-15f7badb6db7", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1217.295, + 1615.702, + 640.767, + 543.758 + ], + "priority": 13, + "parents": [ + 98294 + ], + "children": [], + "area": 1966785.96609, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98310, + "strid": "726db7d4-c1d1-424c-be7b-d35769f2b6c6", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1905.29, + 1652.718, + 218.26900000000023, + 200.39900000000011 + ], + "priority": 14, + "parents": [ + 98294 + ], + "children": [], + "area": 3148907.07822, + "iscrowd": 0, + "segmentation": [], + "text": "81% had\ncompliance to\nmedication\ndocumented on\nreadmission." + }, + { + "id": 98314, + "strid": "771bca23-cad5-47f0-be76-a9086f08561a", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1216.019, + 2206.688, + 673.954, + 496.53099999999995 + ], + "priority": 15, + "parents": [ + 98294 + ], + "children": [], + "area": 2683374.535072, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98312, + "strid": "14200081-5168-40f4-8622-cc6a78bb5f6d", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1928.266, + 2299.867, + 218.26899999999978, + 163.3829999999998 + ], + "priority": 16, + "parents": [ + 98294 + ], + "children": [], + "area": 4434755.340622, + "iscrowd": 0, + "segmentation": [], + "text": "53% had\nalcohol use\ndocumented on\nreadmission." + }, + { + "id": 98315, + "strid": "894a15b8-5e07-49ef-a6b5-91e9ce62f161", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1230.06, + 2769.775, + 632.7440000000001, + 540.6579999999999 + ], + "priority": 17, + "parents": [ + 98294 + ], + "children": [], + "area": 3406989.4365, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98313, + "strid": "8df2c8e4-de65-4b03-a2fa-f59b62cbb7f5", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1925.713, + 2908.724, + 222.09899999999993, + 199.12300000000005 + ], + "priority": 18, + "parents": [ + 98294 + ], + "children": [], + "area": 5601367.620212, + "iscrowd": 0, + "segmentation": [], + "text": "50% had illicit\ndrug use of\nalcohol\ndocumented on\nreadmission." + }, + { + "id": 98292, + "strid": "bc0e08e1-7a38-4baa-bbd4-555d9b67422d", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1232.528, + 3460.726, + 665.059, + 521.2080000000001 + ], + "priority": 19, + "parents": [ + 98294 + ], + "children": [], + "area": 4265441.695328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98318, + "strid": "8a285289-7499-44b3-99cb-63a397314d4e", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1901.14, + 3454.135, + 218.34500000000003, + 191.05200000000013 + ], + "priority": 20, + "parents": [ + 98294 + ], + "children": [], + "area": 6566794.213900001, + "iscrowd": 0, + "segmentation": [], + "text": "readmissions\nhad their social\nsupport level\ndocumented ." + }, + { + "id": 98316, + "strid": "22fef79c-150c-4a36-ac61-e1e5ca51935c", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1217.643, + 4036.001, + 710.9360000000001, + 547.0410000000002 + ], + "priority": 21, + "parents": [ + 98294 + ], + "children": [], + "area": 4914408.365643, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98317, + "strid": "17b88d39-8748-4d6d-89e9-12b2e6e08423", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1938.322, + 4114.709, + 205.29200000000014, + 113.1279999999997 + ], + "priority": 22, + "parents": [ + 98294 + ], + "children": [], + "area": 7975630.978297999, + "iscrowd": 0, + "segmentation": [], + "text": "80% had their\nlevel of insight\ndocumented." + }, + { + "id": 98295, + "strid": "26d26470-c818-4f01-99b1-0ae4d0fa596e", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2298.396, + 962.135, + 291.4090000000001, + 55.986999999999966 + ], + "priority": 23, + "parents": [ + 98319 + ], + "children": [ + 98297 + ], + "area": 2211367.23546, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 98297, + "strid": "487ee4f4-c41e-42fd-a7b5-985fe9ba159b", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2290.092, + 1027.168, + 925.6030000000001, + 1293.4329999999998 + ], + "priority": 24, + "parents": [ + 98295 + ], + "children": [], + "area": 2352309.219456, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 32 readmissions were recorded over\nthis period. 22 were male and 10 were female\ncases. 100% of patients had an ICD-10\ndiagnosis of Paranoid Schizophrenia. Why\nare other types of Schizophrenia not\npresenting as relapse cases?\n\nOnly 41% had the reason for relapse\ndocumented in their case formulation at the\ntime of admission.100% had it documented\nduring readmission and 22% had it\ndocumented or addressed in their discharge\nplan. This has important implications for GPs\nand follow up as it is the discharge plan that\nwe usually look at when reviewing patients at\nfollow up care.\n\nAlcohol history and illicit drug use often\nomitted in assessments.\n\nOnly 16% had a recovery plan meeting\ndocumented as having taken place while 13%\nhad received written information during their\nperiod of readmission." + }, + { + "id": 98301, + "strid": "0246ce46-e2b5-4c7b-a688-20cde11fafce", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2295.997, + 2497.824, + 343.70899999999983, + 60.30000000000018 + ], + "priority": 25, + "parents": [ + 98319 + ], + "children": [ + 98291, + 98302 + ], + "area": 5734996.4105279995, + "iscrowd": 0, + "segmentation": [], + "text": "Suggestions" + }, + { + "id": 98302, + "strid": "814e07d4-f8d8-4c02-a293-91ee68333d90", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2295.547, + 2575.574, + 923.163, + 519.8800000000001 + ], + "priority": 26, + "parents": [ + 98301 + ], + "children": [], + "area": 5912351.168978, + "iscrowd": 0, + "segmentation": [], + "text": "Better documentation by trainees re\nidentifying the reason for relapse in case\nformulation, case notes and discharge\nplanning.\n\nMore detailed explanation of degree of\ninsight possessed by patient.\n\nProvision of information by way of\nleaflets on medication/ treatment." + }, + { + "id": 98291, + "strid": "f3497d8c-d6b3-4f13-823e-128360494553", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2263.801, + 3147.191, + 987.712, + 610.3559999999998 + ], + "priority": 27, + "parents": [ + 98301 + ], + "children": [], + "area": 7124614.132990999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 98306, + "strid": "355e07e7-ae48-429f-8c0b-5634e8bead08", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2297.665, + 3833.858, + 306.0430000000001, + 55.340999999999894 + ], + "priority": 28, + "parents": [ + 98319 + ], + "children": [ + 98305 + ], + "area": 8808921.341570001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 98305, + "strid": "f72e566f-df82-4185-9779-6e88915d01fb", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2296.669, + 3922.305, + 905.3600000000001, + 367.7059999999997 + ], + "priority": 29, + "parents": [ + 98306 + ], + "children": [], + "area": 9008236.302044999, + "iscrowd": 0, + "segmentation": [], + "text": "There is a clear need for better\ndocumentation of reasons for relapse in\ncase formulation and at discharge\nplanning. This would improve the clinical\nmanagement including the prevention of\nrelapse of Schizophrenia." + }, + { + "id": 98307, + "strid": "945a26b9-4252-458d-b6de-16ce99aefc8d", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2295.796, + 4497.766, + 275.64699999999993, + 50.54500000000007 + ], + "priority": 30, + "parents": [ + 98319 + ], + "children": [ + 98308 + ], + "area": 10325953.191735998, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 98308, + "strid": "1fd05936-348b-4cd9-b867-2ffbce9df6d6", + "image_id": 204306, + "image_name": "12184.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2293.959, + 4577.711, + 773.1889999999999, + 47.49300000000039 + ], + "priority": 31, + "parents": [ + 98307 + ], + "children": [], + "area": 10501081.347849, + "iscrowd": 0, + "segmentation": [], + "text": "Available on request.: dr_itoro@ yahoo.com" + }, + { + "id": 121838, + "strid": "efeba22b-9a12-480d-98ac-e3db36303e0a", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 401.82, + 11.08, + 231.68, + 196.92999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 121829, + 121805, + 121826, + 121828, + 121804, + 121825, + 121803 + ], + "area": 4452.1656, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121803, + "strid": "18ed5c87-8164-4f5f-b694-9ba9917d78fc", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 671.454, + 19.406, + 3411.446, + 231.366 + ], + "priority": 1, + "parents": [ + 121838 + ], + "children": [], + "area": 13030.236323999998, + "iscrowd": 0, + "segmentation": [], + "text": "Identifying and Annotating Uninvestigated Preeclampsia-Related Genes\nUsing Linked Open Biomedical Data" + }, + { + "id": 121804, + "strid": "f88e4ced-eaf4-4015-9001-ef9ad5bd6f4d", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 484.333, + 268.779, + 3834.984, + 225.289 + ], + "priority": 2, + "parents": [ + 121838 + ], + "children": [], + "area": 130178.539407, + "iscrowd": 0, + "segmentation": [], + "text": "Tiffany J. Callahan’, Adrianne L. Stefanski*; William A. Baumgartner Jr.', Toyofumi Fujiwara; Jin-Dong Kim,\nAnn-Cirinctone?; Maricel Kann?, Lawrence Hunter’\n‘University of Colorado Anschutz Medical Campus | Aurora,.Colorfado,,USA;*Database Genterfor Life Science, Tokyo, Japan; *University of Maryland, Baltimore, Maryland, USA" + }, + { + "id": 121805, + "strid": "b29dfc80-4ff3-4167-9ed1-45f2e7d9485a", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 557.414, + 547.931, + 505.22299999999996, + 59.559999999999945 + ], + "priority": 3, + "parents": [ + 121838 + ], + "children": [ + 121837, + 121807, + 121806 + ], + "area": 305424.410434, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121806, + "strid": "02856e26-a510-4265-8530-eccffbd2eae4", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 53.827, + 641.52, + 1368.813, + 126.74199999999996 + ], + "priority": 4, + "parents": [ + 121805 + ], + "children": [], + "area": 34531.09704, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121807, + "strid": "9a53d5df-e6c6-49a2-a4fb-4771e25a07f1", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 60.25, + 787.396, + 694.114, + 870.364 + ], + "priority": 5, + "parents": [ + 121805 + ], + "children": [], + "area": 47440.609, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121837, + "strid": "bdea9f13-5ee8-4c1f-89e3-f134a61e0bb9", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 773.831, + 785.916, + 790.6850000000001, + 781.4620000000001 + ], + "priority": 6, + "parents": [ + 121805 + ], + "children": [ + 121836 + ], + "area": 608166.1641960001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121836, + "strid": "e5e328b3-6320-4ab2-af06-c5c7c39ef372", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 777.837, + 1577.307, + 771.6889999999999, + 72.80300000000011 + ], + "priority": 7, + "parents": [ + 121837 + ], + "children": [], + "area": 1226887.744959, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Pathopysiological differences between normal\nand preeclamptic pregnancies.”" + }, + { + "id": 121826, + "strid": "807ba9af-929c-43a1-b22f-7bb27f7c6bc8", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 610.214, + 1722.765, + 400.24300000000005, + 65.00999999999999 + ], + "priority": 8, + "parents": [ + 121838 + ], + "children": [ + 121827, + 121808 + ], + "area": 1051255.32171, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121808, + "strid": "9bd30a5e-35ff-4cf6-81cb-9a78f81a757e", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 44.168, + 1836.543, + 1523.567, + 651.028 + ], + "priority": 9, + "parents": [ + 121826 + ], + "children": [], + "area": 81116.431224, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121827, + "strid": "fb662df1-53cb-4af1-9d5b-839a05c277f9", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 138.627, + 2518.291, + 1342.863, + 119.92500000000018 + ], + "priority": 10, + "parents": [ + 121826 + ], + "children": [], + "area": 349103.12645700003, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation: Utilize publicly available data to identify and\nannotate the function of the PE ignorome" + }, + { + "id": 121825, + "strid": "114d71d7-336d-4c61-8912-e373ff20cecf", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3017.612, + 548.863, + 344.8119999999999, + 59.18700000000001 + ], + "priority": 11, + "parents": [ + 121838 + ], + "children": [ + 121819, + 121822, + 121833, + 121820, + 121832, + 121835, + 121830, + 121834, + 121831, + 121818, + 121821 + ], + "area": 1656255.5751560002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121830, + "strid": "4774de40-98e2-4163-85fc-a3f32a3d984f", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1680.9, + 643.075, + 1461.136, + 298.432 + ], + "priority": 12, + "parents": [ + 121825 + ], + "children": [], + "area": 1080944.7675, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121831, + "strid": "ad064d0f-a8a8-4524-9c1b-f766adbbf71c", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1672.036, + 997.647, + 901.2060000000001, + 178.764 + ], + "priority": 13, + "parents": [ + 121825 + ], + "children": [], + "area": 1668101.6992920002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121832, + "strid": "4dc4c513-279c-4028-94f1-1b178c391ed1", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1676.468, + 1236.984, + 1017.9190000000001, + 308.7739999999999 + ], + "priority": 14, + "parents": [ + 121825 + ], + "children": [], + "area": 2073764.092512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121822, + "strid": "7bddad5c-c042-4c88-9881-e5d7d8b2d383", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2550.764, + 679.424, + 2178.6130000000003, + 1870.2709999999997 + ], + "priority": 15, + "parents": [ + 121825 + ], + "children": [ + 121823 + ], + "area": 1733050.279936, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121823, + "strid": "318e1d7d-1da6-4d45-a100-26c88178c987", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3547.257, + 2569.141, + 1157.601, + 84.82400000000007 + ], + "priority": 16, + "parents": [ + 121822 + ], + "children": [], + "area": 9113403.396237, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Linked open biomedical data concepts used in the construction\nof the knowledge graph." + }, + { + "id": 121833, + "strid": "1f4a11ee-62c5-435c-b186-14cc826ea557", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1676.797, + 1612.241, + 567.1199999999999, + 50.039999999999964 + ], + "priority": 17, + "parents": [ + 121825 + ], + "children": [], + "area": 2703400.872077, + "iscrowd": 0, + "segmentation": [], + "text": "Publication Annotations" + }, + { + "id": 121834, + "strid": "9d9ec961-c189-4eb3-b2f3-b7b6323f3a79", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1988.465, + 1696.076, + 377.20399999999995, + 54.549999999999955 + ], + "priority": 18, + "parents": [ + 121825 + ], + "children": [], + "area": 3372587.76334, + "iscrowd": 0, + "segmentation": [], + "text": "Literature-Driven" + }, + { + "id": 121820, + "strid": "cc47c948-5b05-4ea4-8e7d-6270f805616d", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1684.085, + 1771.038, + 933.337, + 328.50999999999976 + ], + "priority": 19, + "parents": [ + 121825 + ], + "children": [], + "area": 2982578.53023, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121835, + "strid": "23410042-9a8d-48ee-9950-2fd7a8393fb4", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3078.976, + 1692.764, + 284.8409999999999, + 55.28600000000006 + ], + "priority": 20, + "parents": [ + 121825 + ], + "children": [], + "area": 5211979.729664, + "iscrowd": 0, + "segmentation": [], + "text": "Gene-Driven" + }, + { + "id": 121821, + "strid": "2d42e31f-86b6-4a7b-9dcb-39b5c8073a0d", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2729.146, + 1770.177, + 789.0239999999999, + 327.85900000000015 + ], + "priority": 21, + "parents": [ + 121825 + ], + "children": [], + "area": 4831071.4788420005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121819, + "strid": "76c45428-621b-4a96-a64c-ce750a9dcbb2", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1675.8, + 2169.687, + 1401.1830000000002, + 122.97200000000021 + ], + "priority": 22, + "parents": [ + 121825 + ], + "children": [], + "area": 3635961.4746, + "iscrowd": 0, + "segmentation": [], + "text": "Annotating Published and Experimental Evidence PE Genes\nConstruction of knowledge graph of biological mechanisms" + }, + { + "id": 121818, + "strid": "59efab06-1c9e-4bf3-8039-262c18d1b180", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1689.972, + 2298.681, + 1760.472, + 345.424 + ], + "priority": 23, + "parents": [ + 121825 + ], + "children": [], + "area": 3884706.526932, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121828, + "strid": "4ffcc8e0-bf89-42a4-81eb-18aa32067a9f", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1735.447, + 2736.109, + 323.21400000000017, + 65.3789999999999 + ], + "priority": 24, + "parents": [ + 121838 + ], + "children": [ + 121812, + 121814, + 121809, + 121811, + 121816, + 121817 + ], + "area": 4748372.155723, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121809, + "strid": "b0a03f3e-aada-427f-9323-8edd73a947d8", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 55.367, + 2806.52, + 2251.426, + 471.66100000000006 + ], + "priority": 25, + "parents": [ + 121828 + ], + "children": [], + "area": 155388.59284, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121811, + "strid": "6826d538-379a-43cb-9d62-dc240b3c0dc3", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 49.101, + 3294.05, + 1008.6850000000001, + 706.723 + ], + "priority": 26, + "parents": [ + 121828 + ], + "children": [ + 121810 + ], + "area": 161741.14905, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121810, + "strid": "41a15619-3922-4cf2-ba0b-397d4f97e3f4", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 46.781, + 4012.602, + 1046.559, + 146.09699999999975 + ], + "priority": 27, + "parents": [ + 121811 + ], + "children": [], + "area": 187713.534162, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Non-PE disease literature coverage of PE ignorome genes. The\nnumber of disease-annotated literature for each gene is shown on the x-axis.\nThe left y-axis shows the gene count and the right y-axis shows the number\nof disease-gene annotations." + }, + { + "id": 121812, + "strid": "bf6a97f8-6b6a-4ce4-968a-9bfcdd53f63e", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1070.932, + 3309.804, + 1273.5759999999998, + 683.096 + ], + "priority": 28, + "parents": [ + 121828 + ], + "children": [ + 121813 + ], + "area": 3544575.017328, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121813, + "strid": "9927115d-e508-4dbc-982d-b70f52fd0c8f", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1133.566, + 4014.152, + 1220.6699999999998, + 83.88900000000012 + ], + "priority": 29, + "parents": [ + 121812 + ], + "children": [], + "area": 4550306.226032, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Counts of disease classes representing the PE ignorome genes with published\nannotations to diseases other than PE (n=403)." + }, + { + "id": 121817, + "strid": "ebec3de1-7939-4fb1-acdb-97417cf12241", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 2344.304, + 2717.574, + 1401.7510000000002, + 680.1109999999999 + ], + "priority": 30, + "parents": [ + 121828 + ], + "children": [], + "area": 6370819.598496, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121814, + "strid": "9c7ddf71-95bb-4ea9-9bcb-b968fb35e9f8", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2354.251, + 3408.956, + 1331.52, + 71.85500000000002 + ], + "priority": 31, + "parents": [ + 121828 + ], + "children": [], + "area": 8025538.071956001, + "iscrowd": 0, + "segmentation": [], + "text": "Table provides the counts of significantly enriched concepts and 1 example for each concept type;\nUPR: Unfolded Protein Response; *Concepts enriched only for PE ignorome genes." + }, + { + "id": 121816, + "strid": "9458fcf4-79ae-4519-94f8-743d752ee535", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2406.97, + 3494.683, + 900.71, + 660.8389999999999 + ], + "priority": 32, + "parents": [ + 121828 + ], + "children": [ + 121815 + ], + "area": 8411597.140509998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 121815, + "strid": "4580f153-7c72-4613-9e49-1295173975ba", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3305.966, + 3543.867, + 410.6010000000001, + 209.69999999999982 + ], + "priority": 33, + "parents": [ + 121816 + ], + "children": [], + "area": 11715903.810522, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. t-SNE clustering\nof knowledge graph\nbiomedical concept\nannotations within the\ncontext of PE." + }, + { + "id": 121829, + "strid": "15cee4ca-758d-4c5d-8ca1-8548cbb3b1a4", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4021.998, + 2726.873, + 513.5940000000005, + 62.753999999999905 + ], + "priority": 34, + "parents": [ + 121838 + ], + "children": [ + 121824 + ], + "area": 10967477.752254, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 121824, + "strid": "6cc65751-2f49-4c7a-a488-e771ee642a43", + "image_id": 205242, + "image_name": "14502.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3809.735, + 2821.952, + 939.0819999999999, + 1214.755 + ], + "priority": 35, + "parents": [ + 121829 + ], + "children": [], + "area": 10750889.302720001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56979, + "strid": "d879f69e-c828-4ae0-8be0-9a562dc71530", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 688.34, + 78.27, + 582.12, + 194.04000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 56962, + 56963, + 56961, + 56972, + 56973, + 56960, + 56974, + 56959 + ], + "area": 53876.3718, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56959, + "strid": "dcbf69a8-71d0-4bfb-8529-dd273b1c155f", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 181.415, + 356.219, + 3595.92, + 205.94599999999997 + ], + "priority": 1, + "parents": [ + 56979 + ], + "children": [], + "area": 64623.469885, + "iscrowd": 0, + "segmentation": [], + "text": "A new perspective to invasive bacterial infections in The Gambia: Surveillance of etiological\nagents responsible for admission of patients in the clinic (2010-2013)" + }, + { + "id": 56960, + "strid": "7d2e2c8f-40a1-47e8-a34a-d3d82cfdecca", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 521.42, + 546.739, + 2913.407, + 171.06899999999996 + ], + "priority": 2, + "parents": [ + 56979 + ], + "children": [], + "area": 285080.64938, + "iscrowd": 0, + "segmentation": [], + "text": "Saffiatou Darboe!, Buntung Ceesay', Mamadou Jallow’, Gibril Bah’, Boto Jaiteh’, Ameh James’\n1. Medical Research Council Unit, The Gambia" + }, + { + "id": 56961, + "strid": "135ffd93-84ed-4a72-8a45-0b95886550b7", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 787.048, + 788.298, + 442.55600000000004, + 89.82799999999997 + ], + "priority": 3, + "parents": [ + 56979 + ], + "children": [ + 56964 + ], + "area": 620428.364304, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 56964, + "strid": "3e81b337-a16d-46d4-8ab9-f97d4085f850", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 65.848, + 949.399, + 1856.359, + 799.0379999999999 + ], + "priority": 4, + "parents": [ + 56961 + ], + "children": [], + "area": 62516.025352, + "iscrowd": 0, + "segmentation": [], + "text": "Between November 2003 and February 2005, a survey was conducted at\nthe Medical Research Council Unit (MRC) to access the causative\norganisms of bacteraemia among admitted patients. The study confirmed\nStreptococcus pneumoniae as the leading cause of bacteraemia and it led to\nthe introduction of pneumococcal conjugate vaccines into the national EPI.\nIt is important to continuously monitor the introduction of vaccine with a\nsurveillance system in order to identify changes in the incidence of\ninvasive bacterial infections. So, we monitored patients admitted for febrile\nillness at the MRC unit.\n\nObjectives: We set out to determine the main causes of bacteraemia in\nhospital admissions." + }, + { + "id": 56962, + "strid": "94adf310-d204-42e3-8af9-b78ddad7c4d4", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 594.559, + 1815.288, + 826.298, + 67.731 + ], + "priority": 5, + "parents": [ + 56979 + ], + "children": [ + 56965 + ], + "area": 1079295.817992, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and methods" + }, + { + "id": 56965, + "strid": "7ce0e9f4-b7b8-42f2-8e0b-633da88937af", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 90.704, + 1967.121, + 1815.771, + 871.018 + ], + "priority": 6, + "parents": [ + 56962 + ], + "children": [], + "area": 178425.743184, + "iscrowd": 0, + "segmentation": [], + "text": "Between January 2010 and June 2013, a total of 2,938 blood culture vials\nwere received for the purpose of identification of invasive bacterial\ninfections in Clinical Laboratories of MRC. 95.1% (2,793) of these blood\ncultures represents patients that were admitted. These patients were\ncategorized into three age groups: < 5, 6-14 and > 15 years old. Bacterial\nisolates were isolated using an automated blood culture system BACTEC\n9050 (Becton Dickinson, Temse, Belgium) along with commercially\nproduced BD BACTEC™ PEDS PLUS™ /F culture, BD BACTEC™\nPlus Aerobic/F and Plus Anaerobic/F vials. Identification was done using\nstandard microbiological procedures and further identification by\nbiochemical and serological methods. All procedures were performed in a\nlaboratory that is in compliance with GCLP standards." + }, + { + "id": 56963, + "strid": "88484e13-c966-4eb1-9aaa-345ba22582c6", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 874.818, + 2971.307, + 266.46299999999997, + 70.32600000000002 + ], + "priority": 7, + "parents": [ + 56979 + ], + "children": [ + 56968, + 56970, + 56975, + 56969 + ], + "area": 2599352.8471259996, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 56975, + "strid": "da58b0d0-a039-45b1-bcb3-a2def55241e2", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.006, + 3182.218, + 1809.922, + 654.2530000000002 + ], + "priority": 8, + "parents": [ + 56963 + ], + "children": [], + "area": 257778.75130799998, + "iscrowd": 0, + "segmentation": [], + "text": "Out of the admitted patients studied,1,557 (55.7%) were males and 1236\n(44.3) were females. The age range was 24 hours to 107 years old. A total\nof 732 (26.2%) organisms were isolated but 230 (8.2% ; figure 1)\nrepresents pathogenic agents. The three common pathogens were\nStaphylococcus aureus (60 ; 26.1%), Streptococcus pneumoniae (41;\n17.8%) and Escherichia coli (25; 10.9%). S. aureus was identified as the\nleading cause of admission among the age groups of < 5 and 6-14 years\nold, followed by S. pneumoniae. E. coli was largely responsible for the\nadmission of > 15 years old patients." + }, + { + "id": 56969, + "strid": "e275e4d6-4093-4acd-9904-7c00bbea1b34", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 123.605, + 4231.744, + 1781.563, + 1084.996 + ], + "priority": 9, + "parents": [ + 56963 + ], + "children": [ + 56971 + ], + "area": 523064.71712, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56971, + "strid": "1302e892-af25-4d15-827b-6e8ce5c18234", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 99.302, + 3993.233, + 1579.958, + 147.8130000000001 + ], + "priority": 10, + "parents": [ + 56969 + ], + "children": [], + "area": 396536.02336600004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Distribution of the outcome for the blood\ncultures" + }, + { + "id": 56968, + "strid": "58c082c3-f6cb-4c81-9034-9d8cd9848d8c", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1954.841, + 982.674, + 1745.9469999999997, + 1330.444 + ], + "priority": 11, + "parents": [ + 56963 + ], + "children": [ + 56966 + ], + "area": 1920971.424834, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56966, + "strid": "0be535f0-523d-45dd-a2bf-286696bda799", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2002.155, + 832.433, + 1397.07, + 71.16200000000003 + ], + "priority": 12, + "parents": [ + 56968 + ], + "children": [], + "area": 1666659.8931149999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Our location in the meningitis belt." + }, + { + "id": 56970, + "strid": "80a591c0-3b56-4fb4-aa2d-67a986653817", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2057.258, + 2678.45, + 1784.1750000000002, + 937.895 + ], + "priority": 13, + "parents": [ + 56963 + ], + "children": [ + 56967 + ], + "area": 5510262.690099999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 56967, + "strid": "5c8979ab-7044-497a-9236-884dded38843", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2005.158, + 2545.44, + 1181.924, + 72.5590000000002 + ], + "priority": 14, + "parents": [ + 56970 + ], + "children": [], + "area": 5104009.37952, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: The most isolated pathogens" + }, + { + "id": 56972, + "strid": "0aaa911b-5935-4ded-bfe1-b24ef4a2f0e8", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2703.468, + 3701.215, + 399.1500000000001, + 69.17200000000003 + ], + "priority": 15, + "parents": [ + 56979 + ], + "children": [ + 56976 + ], + "area": 10006116.31362, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 56976, + "strid": "1ed71f04-7f05-489d-963a-fb3452d00ae1", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2022.622, + 3843.593, + 1785.5890000000002, + 345.9920000000002 + ], + "priority": 16, + "parents": [ + 56972 + ], + "children": [], + "area": 7774135.760846, + "iscrowd": 0, + "segmentation": [], + "text": "These findings are in contrast with previous data in which S.\npneumoniae was identified as the leading cause of invasive disease. This\nreport is suggestive of a change in the pattern of etiology of bacteraemia\nand a new approach may be required in the prevention of staphylococcal\ninfection" + }, + { + "id": 56974, + "strid": "d65be162-3db5-4f0e-9c0d-ed97e39e2fe0", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2625.123, + 5212.756, + 603.741, + 79.4399999999996 + ], + "priority": 17, + "parents": [ + 56979 + ], + "children": [ + 56977 + ], + "area": 13684125.668988, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 56977, + "strid": "56541dd2-a615-4d4a-88b9-e397b2e9daee", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1997.818, + 5327.194, + 1647.9309999999998, + 190.5029999999997 + ], + "priority": 18, + "parents": [ + 56974 + ], + "children": [], + "area": 10642764.062692001, + "iscrowd": 0, + "segmentation": [], + "text": "We thank the entire staff of the Clinical laboratories and Clinical Services\ndepartments of the MRC.\nDr. Ousman Secka — Research Laboratories Manager, MRC" + }, + { + "id": 56973, + "strid": "7efabffe-2198-4252-a71b-18dfad150677", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2759.114, + 4354.502, + 339.6460000000002, + 58.63799999999992 + ], + "priority": 19, + "parents": [ + 56979 + ], + "children": [ + 56978 + ], + "area": 12014567.431228, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 56978, + "strid": "55d8cbcf-a305-4956-be29-c7809bfacca0", + "image_id": 202745, + "image_name": "119177.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2015.473, + 4513.282, + 1843.6570000000002, + 475.3239999999996 + ], + "priority": 20, + "parents": [ + 56973 + ], + "children": [], + "area": 9096398.012386, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9189, + "strid": "03e341e3-5510-4b17-8880-2b96aa2dbeed", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 33.09, + 412.09, + 178.79, + 191.56 + ], + "priority": -1, + "parents": [], + "children": [ + 9176, + 9178, + 9179, + 9175, + 9174, + 9177 + ], + "area": 13636.0581, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9174, + "strid": "bda93f35-cc6e-4f67-a7e0-a3541761d738", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 17.818, + 46.068, + 3284.426, + 298.231 + ], + "priority": 1, + "parents": [ + 9189 + ], + "children": [], + "area": 820.8396240000001, + "iscrowd": 0, + "segmentation": [], + "text": "EDAM - The ontology of bioinformatics operations, types of\ndata, topics, and data formats" + }, + { + "id": 9175, + "strid": "a46971b4-073b-4156-b37f-6dfa0bf280cf", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 337.517, + 367.512, + 2656.181, + 308.82 + ], + "priority": 2, + "parents": [ + 9189 + ], + "children": [], + "area": 124041.547704, + "iscrowd": 0, + "segmentation": [], + "text": "MatuS Kalas, Herve Méenager, Veit Schwammle, Jon Ison and EDAM Contributors\n1 : Bioinformatics and Biostatistics Hub of the C3BI, Institut Pasteur, Paris - France\n2 : Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark, Denmark\n3 : Computational Biology Unit (CBU), University of Bergen, Bergen, Norway\n\n4: Protein Research Group, Department for Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark" + }, + { + "id": 9176, + "strid": "afdabac7-7f54-4a43-ae29-1aad14ab9cd5", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 264.918, + 731.582, + 519.163, + 64.24900000000002 + ], + "priority": 3, + "parents": [ + 9189 + ], + "children": [ + 9180 + ], + "area": 193809.240276, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 9180, + "strid": "9d086e86-4ef5-48ed-9527-51ed5d7f21a3", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.939, + 846.61, + 3074.376, + 461.544 + ], + "priority": 4, + "parents": [ + 9176 + ], + "children": [], + "area": 99001.72679, + "iscrowd": 0, + "segmentation": [], + "text": "EDAM is an ontology of well established, familiar concepts that are prevalent within bioinformatics, including types of data and\ndata identifiers, data formats, operations, and topics. EDAM has a simple structure, and comprises a set of concepts with terms,\nsynonyms, definitions, relations, links, and some additional information (especially for data formats).\n\n3 consecutive stable versions of EDAM have been released since May 2016 (version 1.15), with version 1.18 being the current one.\nEDAM is developed in a participatory and transparent fashion, with a growing community of contributors. EDAM is used by\nmultiple bioinformatics projects, including ELIXIR bio.tools, Debian Med and the Common Workflow Language." + }, + { + "id": 9177, + "strid": "e27d0500-83a3-404d-a601-7f9d903e0fb0", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 202.141, + 1393.002, + 403.163, + 65.85899999999992 + ], + "priority": 5, + "parents": [ + 9189 + ], + "children": [ + 9187, + 9181 + ], + "area": 281582.817282, + "iscrowd": 0, + "segmentation": [], + "text": "Architecture" + }, + { + "id": 9181, + "strid": "5f5eac4a-d5c2-4ef2-8aca-9f4482504699", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 87.969, + 1524.875, + 1441.171, + 655.8490000000002 + ], + "priority": 6, + "parents": [ + 9177 + ], + "children": [], + "area": 134141.728875, + "iscrowd": 0, + "segmentation": [], + "text": "Concepts - All concepts have a name (term or label) and a definition.\nFurther, a concept may have relations (see below) to other EDAM\nconcepts, as well intrinsic properties, e.g. an identifier may have a\nregular expression defining its syntax.\n\nHierarchy - Every concept (excluding top-level concepts) is related to\none or more other concepts within the same branch by an is a\n(specialisation) relation. Hence EDAM has 4 primary hierarchies (for\nData, Format, Operation, and Topic).\n\nRelations - Concepts are related by defined relation types (see figure),\nwhich reflect well established or self-evident principles, and are used\nprimarily to define internal consistency of EDAM." + }, + { + "id": 9187, + "strid": "ef7d0a00-f2c7-4372-8c0a-ca84033546f5", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 450.397, + 2203.437, + 789.588, + 624.8119999999999 + ], + "priority": 7, + "parents": [ + 9177 + ], + "children": [], + "area": 992421.414489, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9178, + "strid": "6bc9258a-1dfb-4053-8d43-230f745de856", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1874.58, + 1397.543, + 304.25300000000016, + 61.28800000000001 + ], + "priority": 8, + "parents": [ + 9189 + ], + "children": [ + 9188 + ], + "area": 2619806.1569399997, + "iscrowd": 0, + "segmentation": [], + "text": "Overview" + }, + { + "id": 9188, + "strid": "1e54662e-d8db-4aeb-a311-44750eb947a1", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1695.762, + 1650.22, + 1539.035, + 1135.0019999999997 + ], + "priority": 9, + "parents": [ + 9178 + ], + "children": [], + "area": 2798380.36764, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 9179, + "strid": "3219977b-3ac3-4448-9477-3355668047a5", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 226.969, + 2926.757, + 678.7139999999999, + 79.47499999999991 + ], + "priority": 10, + "parents": [ + 9189 + ], + "children": [ + 9184, + 9182, + 9183, + 9186, + 9185 + ], + "area": 664283.109533, + "iscrowd": 0, + "segmentation": [], + "text": "Latest developments" + }, + { + "id": 9182, + "strid": "df1e70a0-d5d5-41df-b7bb-035d6b17c8c7", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.841, + 3052.078, + 2990.162, + 131.34799999999996 + ], + "priority": 11, + "parents": [ + 9179 + ], + "children": [], + "area": 319982.909598, + "iscrowd": 0, + "segmentation": [], + "text": "Contents evolution: Over the last year, 3 new versions have been published, introducing, correcting or deprecating terms: 74\nnew terms have been created, 44 terms were deprecated, and 109 have been modified (mostly for restructuration purposes)." + }, + { + "id": 9183, + "strid": "2912154a-97b0-44e5-b25e-90ee779489a5", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.494, + 3260.708, + 3000.084, + 200.41699999999992 + ], + "priority": 12, + "parents": [ + 9179 + ], + "children": [], + "area": 340724.421752, + "iscrowd": 0, + "segmentation": [], + "text": "Continuous Integration: The EDAM release process now includes automatic controls that check the EDAM ontology at every\nmodification for a number of potential errors. This continuous integration process has eliminated the need for many tedious\nmanual controls, and thus enabled a more frequent pace for the releases of EDAM." + }, + { + "id": 9184, + "strid": "45ce2029-9305-4a91-8fe7-624273baa544", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 103.672, + 3537.894, + 3018.616, + 193.17000000000007 + ], + "priority": 13, + "parents": [ + 9179 + ], + "children": [], + "area": 366780.54676799994, + "iscrowd": 0, + "segmentation": [], + "text": "New release formats, new interfaces: Starting in version 1.18, EDAM is now available in TSV and CSV formats, to facilitate its\nbrowsing with spreadsheet applications. It can be browsed online using WebProtégé as well as OLS at EBI and BioPortal at\nNCBO." + }, + { + "id": 9185, + "strid": "dbd6742d-7961-4d44-999c-37397f1c5e05", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 102.806, + 3819.299, + 3061.32, + 130.33600000000024 + ], + "priority": 14, + "parents": [ + 9179 + ], + "children": [], + "area": 392646.852994, + "iscrowd": 0, + "segmentation": [], + "text": "Integration in resource registries, catalogues, and repositories: EDAM is used in a large number of registries, including ELIXIR\nbio.tools, the IFB RAINBio registry of bioinformatics cloud appliances, SEQanswer’s SEOwiki," + }, + { + "id": 9186, + "strid": "f6804a84-a47e-4e99-85a8-08fd0d471a2a", + "image_id": 200868, + "image_name": "11175.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.018, + 4029.577, + 2810.573, + 129.89800000000014 + ], + "priority": 15, + "parents": [ + 9179 + ], + "children": [], + "area": 419148.540386, + "iscrowd": 0, + "segmentation": [], + "text": "Integration with Galaxy: Galaxy datatypes and tools can now be annotated respectively with EDAM data/format and\ntopic/operationsterms,toallowaneasierintegration. with service registries such_as_bio.tools." + }, + { + "id": 89310, + "strid": "64b0eb07-14ed-440c-a30b-43bae76350b0", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 38.12, + 44.36, + 124.19, + 131.95 + ], + "priority": -1, + "parents": [], + "children": [ + 89294, + 89295, + 89296, + 89292, + 89293, + 89298, + 89297, + 89291 + ], + "area": 1691.0031999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 89291, + "strid": "e113eeee-972d-4858-baa6-ddeae4420e9f", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 591.278, + 67.56, + 2394.8239999999996, + 114.936 + ], + "priority": 1, + "parents": [ + 89310 + ], + "children": [], + "area": 39946.74168, + "iscrowd": 0, + "segmentation": [], + "text": "Arginine HCL For Treatment Of CSF Leakage In Rat" + }, + { + "id": 89292, + "strid": "26daa5de-4922-46ac-b7ae-68cb6e056ec2", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 590.318, + 232.631, + 2085.0999999999995, + 332.35300000000007 + ], + "priority": 2, + "parents": [ + 89310 + ], + "children": [], + "area": 137326.266658, + "iscrowd": 0, + "segmentation": [], + "text": "Mostafa Jafari!, Sayed Ali Ahmadi*, Mohammad Reza Darabi’, Javad Javaheri*, Ali Chehrei>\n\n1 Student Research Committee, Arak University of Medical Science, Arak, Iran\n\n2 Department of Neurosurgery, Arak University of Medical Science, Arak, Iran\n\n3 Department of Anatomy, Arak University of Medical Science, Arak, Iran\n\n4 Department of Community Medicine, Arak University of Medical Science, Arak, Iran\n5 Thyroid Research Center, Arak University of Medical Science, Arak, Iran" + }, + { + "id": 89293, + "strid": "c00d7ef5-9804-4542-ba15-8725ac4271b1", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 723.954, + 625.853, + 366.5229999999999, + 54.634000000000015 + ], + "priority": 3, + "parents": [ + 89310 + ], + "children": [ + 89299 + ], + "area": 453088.78276199993, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 89299, + "strid": "f67eeacf-8e8b-4f76-b72f-5b6dd092c8a1", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 104.496, + 705.744, + 1614.463, + 1459.591 + ], + "priority": 4, + "parents": [ + 89293 + ], + "children": [], + "area": 73747.425024, + "iscrowd": 0, + "segmentation": [], + "text": "The dura mater is a collagenous connective tissue consisting of\nnumerous collagen fibers, fibroblasts;and few elastic fibers (1). The\ndura mater may be damaged by trauma or it may be opened in daily\nneurosurgical procedures require dural opening to gain access to the\ndiseases of the central nervous system. Cerebrospinal fluid leakage\ndue to dural damage ‘can lead to meningitis and many other life-\nthreatening complications (2). Various methods and materials have\nbeen developed for an accurate repair of the dura mater‘after cranial\nor spinal surgical interventions; however, none of these’ techniques\nprovides the satisfactory method for repair of the dura mater (3).\nThe amino~ acid arginine is of fundamental importance in wound\nhealing’ as it’s metabolites nitric oxide€\\~NO), proline, and\npolyamines affect all phases of the wound healing process. NO\nplays a major role in many _ other physiological and\npathophysiological processes, including wound healing. The effects\nof NO on wound repair are «diverse involving angiogenesis,\ninflammation, cell proliferation, matrix deposition, and\nremodeling as well as mediating apoptosis (4).\n\nIn the present study weé-evaluate the effects of arginine on, dural\nhealing after experimentally induced cerebrospinal fluid deakage.\nDural closure and:healing were evaluated histologically." + }, + { + "id": 89294, + "strid": "b852745f-340a-49af-81c4-f1a63bcabe86", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 794.49, + 2198.279, + 225.32899999999995, + 53.92500000000018 + ], + "priority": 5, + "parents": [ + 89310 + ], + "children": [ + 89300 + ], + "area": 1746510.68271, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 89300, + "strid": "4d3933a4-42e6-49c6-bb11-478e42214815", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.016, + 2290.078, + 1622.552, + 1389.411 + ], + "priority": 6, + "parents": [ + 89294 + ], + "children": [], + "area": 226754.363248, + "iscrowd": 0, + "segmentation": [], + "text": "Twenty eight adult male Wistar rats were used for this study. After\ngeneral\\Anesthesia, a midline incision was made»along the spinous\nprocesses of the thoracic area. After dissecting the fascia and the\nparaspinal muscles, the spinous processes were removed. A\nJaminectomy was performed with a highspeed drill. The dura mater\nwas opened longitudinally for 5 mm/and cerebrospinal fluid leaks\nwere observed with an operating) microscope. The 28 rats were\nrandomly assigned to control and systemic Arginine. Rats within\nsystemic arginine group(Group II), were given a 500 mg/kg/d dose\nof arginine by gavage one hour before operation and continued-for\n14 days. In the 14 ‘rats in the control group(Group I) , 2 ml of\nnormal saline was_given by gavage as vehicle. Subsets of ‘Seven rats\nfrom each group underwent histological examination of the\nduratomy site)at 7th day (designated Groups IA & (JIA) and 6 weeks\npostoperatively (designated Groups IB & HB). Criteria for the rate\nof collagen, neovascularization, and granulation formation were\nassessed according to the histological assessment scale described by\nOzisik et al (5). For descriptive statistics-analysis we used central\ntendency and dispersion measures sand for inferential statistics\nnonparametric tests." + }, + { + "id": 89295, + "strid": "34497042-d608-4009-9a01-a6722f10e443", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 815.403, + 3706.905, + 183.45799999999997, + 52.41899999999987 + ], + "priority": 7, + "parents": [ + 89310 + ], + "children": [ + 89308, + 89301, + 89304, + 89307 + ], + "area": 3022621.457715, + "iscrowd": 0, + "segmentation": [], + "text": "PRUNE" + }, + { + "id": 89301, + "strid": "e6ec6b53-3494-40df-a505-53a9cbadbbe5", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 95.592, + 3791.037, + 1623.596, + 901.4159999999997 + ], + "priority": 8, + "parents": [ + 89295 + ], + "children": [], + "area": 362392.808904, + "iscrowd": 0, + "segmentation": [], + "text": "At the end of the 1st week.Mann-Whitteny U test showed the rate of\ncellularity , and granulation formation were significant statistically\nbetween two “}supplementation enhances\nhydroxyproline content and tensile strength in wound tissues via a\nproline-dependent mechanism (7)..This study was the first animal\nstudy that examined the effect’ of arginine on dura mater\nhealing." + }, + { + "id": 89297, + "strid": "f6154d92-2bb9-4a1d-8fc5-9443c84b54c5", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2514.18, + 3990.607, + 323.6460000000002, + 55.62699999999995 + ], + "priority": 16, + "parents": [ + 89310 + ], + "children": [ + 89302 + ], + "area": 10033104.30726, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 89302, + "strid": "0dd22ac2-e4db-4ff4-8ca6-1324bb7f5183", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1854.847, + 4088.1, + 1617.432, + 201.20099999999957 + ], + "priority": 17, + "parents": [ + 89297 + ], + "children": [], + "area": 7582800.020699999, + "iscrowd": 0, + "segmentation": [], + "text": "Our finding indicated.that systemic arginine may help dural healing\nand prevent complications. Further studies with larger Sample size\nare required." + }, + { + "id": 89296, + "strid": "29c2ba74-260a-4fc1-bb64-4f3c963bd2a7", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2517.866, + 4324.702, + 317.23199999999997, + 52.8720000000003 + ], + "priority": 18, + "parents": [ + 89310 + ], + "children": [ + 89309 + ], + "area": 10889020.125932, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 89309, + "strid": "ae7bdab7-662e-4d26-bdb9-b5e81b5d20f1", + "image_id": 203967, + "image_name": "121240.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1874.135, + 4413.174, + 1612.34, + 267.0540000000001 + ], + "priority": 19, + "parents": [ + 89296 + ], + "children": [], + "area": 8270883.85449, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193738, + "strid": "1a70dfff-83f6-4373-b9ca-33a8d3a601f9", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 122.16, + 23.96, + 57.69, + 29.549999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 193726, + 193734, + 193725, + 193728, + 193723, + 193724, + 193727 + ], + "area": 2926.9536, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193723, + "strid": "ae973b79-a25b-452e-8b61-2829bf5c727a", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 191.096, + 28.7, + 367.8299999999999, + 61.89399999999999 + ], + "priority": 1, + "parents": [ + 193738 + ], + "children": [], + "area": 5484.4552, + "iscrowd": 0, + "segmentation": [], + "text": "Chilaiditi Syndrome\n- A false “Air Under Diaphragm”" + }, + { + "id": 193724, + "strid": "28cb6fe2-625c-43dd-91c8-62adcfac395f", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 37.104, + 107.622, + 384.434, + 58.658 + ], + "priority": 2, + "parents": [ + 193738 + ], + "children": [], + "area": 3993.2066879999998, + "iscrowd": 0, + "segmentation": [], + "text": "ees sa)\nSee CCR ar eV\n\nCe ten eee eed" + }, + { + "id": 193725, + "strid": "c7d064b1-e22a-49b6-aa17-be3cf0cb4381", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 37.3, + 194.156, + 131.63799999999998, + 21.095 + ], + "priority": 3, + "parents": [ + 193738 + ], + "children": [ + 193729 + ], + "area": 7242.0188, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 193729, + "strid": "878bcd65-377c-4605-841c-60466d74fe61", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.909, + 220.839, + 315.734, + 39.528999999999996 + ], + "priority": 4, + "parents": [ + 193725 + ], + "children": [], + "area": 8150.946650999999, + "iscrowd": 0, + "segmentation": [], + "text": "Preumeperoncum ls & sumgical emergency. Nevertheless,\npseudopneumoperitoneum can mimic one leading to unnecessary\nimaging, investigation and treatment." + }, + { + "id": 193726, + "strid": "c26e43d7-93f5-4325-9305-b3da6b502c42", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 37.49, + 265.3, + 174.335, + 23.696000000000026 + ], + "priority": 5, + "parents": [ + 193738 + ], + "children": [ + 193731 + ], + "area": 9946.097000000002, + "iscrowd": 0, + "segmentation": [], + "text": "Case Description" + }, + { + "id": 193731, + "strid": "f6a85816-5598-42d2-8e66-4bda9aa3cfa4", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.321, + 290.536, + 315.885, + 212.63600000000002 + ], + "priority": 6, + "parents": [ + 193726 + ], + "children": [], + "area": 10843.094056, + "iscrowd": 0, + "segmentation": [], + "text": "GO years old Punjabi lady with undertying disease of carcinoma of\npyrform fossa and larynx , hypertension and gastric ulcer\npresented to our emergency department complaining of shortness\nof breath for the past 5 days and progressively worsening.\nBreathlessness was not related to exertion. She claimed of having\n‘abdominal fullness’, no bowel output for 2 days but passing out\nflatus. She denied any abdominal pain. Her vital signs were normal.\nOn examination patient had fullness over right upper quadrant.\nRectal examination showed empty rectum. Chest x-ray erect done\nshowed elevated right diaphragm with bowel shadow under right\ndiaphragm. Initial diagnosis was to rule out right diaphragmatic\nhernia. Chest x-ray was then reported as bowel seen in between\nright hemidiaphragm and liver likely represent Chilaiditi Syndrome.\nPatient was treated conservatively with fluid and symptoms\nresolved after observation in the ward and discharged with no\nmore symptoms two days later." + }, + { + "id": 193727, + "strid": "ef581033-1a21-4fd8-a93e-6a1693567dd8", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 37.95, + 506.862, + 295.086, + 21.319000000000017 + ], + "priority": 7, + "parents": [ + 193738 + ], + "children": [ + 193733, + 193737 + ], + "area": 19235.412900000003, + "iscrowd": 0, + "segmentation": [], + "text": "Lessons Learnt & Conclusion" + }, + { + "id": 193733, + "strid": "39c7a763-438c-4f77-b88a-cf9ff6212c2e", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.98, + 533.685, + 315.781, + 66.44799999999998 + ], + "priority": 8, + "parents": [ + 193727 + ], + "children": [], + "area": 19735.671299999995, + "iscrowd": 0, + "segmentation": [], + "text": "Pecudepneumepertencum need to be considered If bowel shadow\nis noted under the right diaphragm while examination is not\nsuggestive of acute abdomen. Nevertheless, causes of acute\nabdomen need to be ruled out first. Treatment is conservative for\nChilaiditi syndrome." + }, + { + "id": 193737, + "strid": "ad6122ce-230b-4b46-8cf9-88d484a648d2", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 18.533, + 616.26, + 348.429, + 333.145 + ], + "priority": 9, + "parents": [ + 193727 + ], + "children": [], + "area": 11421.14658, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193728, + "strid": "5dc03378-7784-4c2b-8afb-81ca43101ed7", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 400.729, + 193.424, + 112.31900000000002, + 22.561000000000007 + ], + "priority": 10, + "parents": [ + 193738 + ], + "children": [ + 193735, + 193732, + 193730 + ], + "area": 77510.606096, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 193730, + "strid": "69666b80-4edb-4d33-babd-b2b7669bea66", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 401.33, + 220.622, + 311.87000000000006, + 199.312 + ], + "priority": 11, + "parents": [ + 193728 + ], + "children": [], + "area": 88542.22726, + "iscrowd": 0, + "segmentation": [], + "text": "Chilaldhi Syndrome was first described by Greek radiologist Dr\nDemetrius Chilaiditi in 1910 as one of the causes of\nnseudopneumoperitoneum and it occurs when bowel gas is\ninterposed between the liver and the hemidiaphragm resulting in\npain. Gas in this position may be misinterpreted as\ntrue pneumoperitoneum. A variety of gastrointestinal symptoms\nincluding abdominal pain, nausea, vomiting, and small bowel\nobstruction may present differing from one to another. The\nsyndrome can lead to severe complications, such as perforation,\nintestinal obstruction or bowel ischemia, hence awareness\nregarding this syndromes essential\n\nChilaiditi syndrome are relatively rare as only 8 cases have been\nreported in Chinese literature from year 1990 to 2013. There are\nvarious causes resulting in this rare phenomena e.g:" + }, + { + "id": 193735, + "strid": "b8fe6f2c-6fb3-4371-a90a-c27dc35cdb9a", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 401.192, + 420.769, + 311.88599999999997, + 52.786 + ], + "priority": 12, + "parents": [ + 193728 + ], + "children": [], + "area": 168809.156648, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 193732, + "strid": "267f3834-ce53-44c2-9ab9-6581c487bd2d", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 401.41, + 487.553, + 312.388, + 398.668 + ], + "priority": 13, + "parents": [ + 193728 + ], + "children": [], + "area": 195708.64973, + "iscrowd": 0, + "segmentation": [], + "text": "Cried syndrome con be diagnosed based on CXR erect.\nA characteristic marker of Chiladit is the observation of air below\nthe diaphragm, with visible haustral folds or valvulae conniventes,\nbetween the liver and the diaphragmatic surface.\n\nIn addition, the location ofthe air is not changed by altering the\nposition of the patient. It is important to differentiate true\npneumoperitoneum from Chilaidti sign. Pneumoperitoneum\nnormally shows crescent-shaped gas shadow under the\ndiaphragm without haustral folds or valvulae conniventes, and\naltering the posture of the patient changes the position ofthe gas.\nPatients with pneumoperitoneum usually exhibit injury to the\nhollow viscus and simultaneously shows signs of peritonitis,\n\nHowever in this case, patient did not posses any signs of\nperitonitis. Patient was only complaining of abdominal fullness. On\nexamination, the abdomen was soft, non-tender, bowel sound\npresent. Bedside ultrasound showed no free fluid in the int\nabdominal cavity\n\n \n\nIt is necessary for general practitioner and ED doctors to consider\nChiladiti syndrome as one of the differential diagnosis even though\nit is considered as a rare syndrome, most probably due to lack of\nexposure regarding this condition or not many cases have been\nreported by clinicians even though have been encountering in daily\npractice\n\nContinuous evidence based learning is crucial for us clinicians to\nkeep us up to date regarding rare disorders to provide optimal\ncare and treatment for patient." + }, + { + "id": 193734, + "strid": "6bdac5a1-c18b-4c2b-bfbb-06430cda7c51", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 401.658, + 891.109, + 116.91499999999996, + 21.54200000000003 + ], + "priority": 14, + "parents": [ + 193738 + ], + "children": [ + 193736 + ], + "area": 357921.05872200005, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 193736, + "strid": "7b16ed57-1e93-4713-8776-9135f334cb75", + "image_id": 208078, + "image_name": "9330.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 423.002, + 917.7, + 276.43700000000007, + 66.04499999999996 + ], + "priority": 15, + "parents": [ + 193734 + ], + "children": [], + "area": 388188.9354, + "iscrowd": 0, + "segmentation": [], + "text": "http://radiopaedia.org/articles/chilaiditi-syndrome\nintos rarelseases og/rare-diseases/chiaictis-syndrome/\nbets. ebmd com/s: to guides/chiaiits syndrome\nhttp://w. nebiri.nihgov/pubmed/26021542\n\nhttp://www. ncbi.nlm.nih.gov/pme/articles/PMC3997735/ _" + }, + { + "id": 86066, + "strid": "dd2a2a4e-60ea-418d-bafc-838bbd62b559", + "image_id": 203849, + "image_name": "121020.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 587.16, + 255.16, + 214.30000000000007, + 179.54999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 86052, + 86051, + 86053, + 86046, + 86047, + 86050, + 86048, + 86049 + ], + "area": 149819.7456, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86046, + "strid": "54a72dd2-6dbe-428b-835e-54c1c9744357", + "image_id": 203849, + "image_name": "121020.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 587.456, + 97.002, + 3562.2919999999995, + 75.79300000000002 + ], + "priority": 1, + "parents": [ + 86066 + ], + "children": [], + "area": 56984.406912, + "iscrowd": 0, + "segmentation": [], + "text": "Quantifying the Strength of the Relations between Facets of Positive Emotionality and Psychological Symptoms" + }, + { + "id": 86047, + "strid": "2d2b2bc4-683c-4c3a-be90-73c69edf6a2e", + "image_id": 203849, + "image_name": "121020.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1100.292, + 274.799, + 2535.269, + 170.262 + ], + "priority": 2, + "parents": [ + 86066 + ], + "children": [], + "area": 302359.14130799996, + "iscrowd": 0, + "segmentation": [], + "text": "Kasey Stanton, Sara M. 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"image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 126.985, + 643.077, + 196.67899999999997, + 49.398000000000025 + ], + "priority": 3, + "parents": [ + 159465 + ], + "children": [ + 159415 + ], + "area": 81661.132845, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 159415, + "strid": "42950fb9-415a-4427-9c04-95f26a1437ad", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 120.941, + 696.648, + 965.097, + 477.2019999999999 + ], + "priority": 4, + "parents": [ + 159405 + ], + "children": [], + "area": 84253.305768, + "iscrowd": 0, + "segmentation": [], + "text": "How should the next generation of genomics scientists be trained\nwhilst simultaneously pursuing high quality and diverse research?\n\nCGAT, the Computational Genomics Analysis and Training programme,\nwas set up in 2010 by the UK Medical Research Council to comple-\nment its investment in next-generation sequencing capacity. CGAT was\nconceived around the twin goals of training future leaders in genome\nbiology and medicine, and providing much needed capacity to UK sci-\nence for analysing genome scale datasets.\n\nHere we outline the training programme employed by CGAT and de-\nscribe how it dovetails with collaborative research projects to launch\nscientists on the road towards independent research careers in ge-\nnomics." + }, + { + "id": 159408, + "strid": "1e27c249-319a-4c0f-b585-2a6bdf6494d5", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.272, + 1228.141, + 446.5520000000001, + 54.57899999999995 + ], + "priority": 5, + "parents": [ + 159465 + ], + "children": [ + 159416, + 159417, + 159451, + 159418, + 159452 + ], + "area": 147710.97435200002, + "iscrowd": 0, + "segmentation": [], + "text": "Why and who to train?" + }, + { + "id": 159416, + "strid": "5dc15d49-eca6-412e-8d50-49e0307bdce1", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.908, + 1288.316, + 969.256, + 107.30199999999991 + ], + "priority": 6, + "parents": [ + 159408 + ], + "children": [], + "area": 151902.762928, + "iscrowd": 0, + "segmentation": [], + "text": "The CGAT programme is founded on the premise that many genomic\nprojects stall once standard processing of genomic data has completed\n(Figure 1)." + }, + { + "id": 159451, + "strid": "cf1948b5-d68b-444c-b09f-6e1ad72d2c1c", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 125.52, + 1443.897, + 969.6980000000001, + 513.1570000000002 + ], + "priority": 7, + "parents": [ + 159408 + ], + "children": [ + 159431 + ], + "area": 181237.95143999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159431, + "strid": "2b82d51d-a204-434f-93ef-478d016906e0", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 119.094, + 1971.223, + 950.537, + 60.81600000000003 + ], + "priority": 8, + "parents": [ + 159451 + ], + "children": [], + "area": 234760.831962, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: The bottleneck in genomic projects is often at the interpretation stage where\ndata needs to be put into the context of existing biological knowledge." + }, + { + "id": 159417, + "strid": "049ce077-0920-4eeb-9817-21b62d1fbf81", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 119.106, + 2077.414, + 973.931, + 175.21099999999979 + ], + "priority": 9, + "parents": [ + 159408 + ], + "children": [], + "area": 247432.47188400003, + "iscrowd": 0, + "segmentation": [], + "text": "This bottleneck is due to a shortage of individuals who can draw both\non their biological knowledge to ask the pertinent questions, and on\ntheir computational skills and statistical knowledge to perform the rele-\nvant analyses, thereby ensuring that the results of their analyses are in-\nterpreted appropriately." + }, + { + "id": 159452, + "strid": "5882ebf3-94be-48de-943b-51d6081b145a", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 284.826, + 2368.605, + 639.326, + 329.24400000000014 + ], + "priority": 10, + "parents": [ + 159408 + ], + "children": [ + 159432 + ], + "area": 674640.2877300001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159432, + "strid": "f9b5e4ff-b173-4a33-a649-a9dc694fa101", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 120.118, + 2723.443, + 600.829, + 35.34299999999985 + ], + "priority": 11, + "parents": [ + 159452 + ], + "children": [], + "area": 327134.526274, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: CGAT trains biologists in data analysis skills" + }, + { + "id": 159418, + "strid": "2daf22a4-de25-4001-828a-4424bcf436e8", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.607, + 2791.132, + 971.3, + 282.50700000000006 + ], + "priority": 12, + "parents": [ + 159408 + ], + "children": [], + "area": 322674.397124, + "iscrowd": 0, + "segmentation": [], + "text": "The CGAT programme recruits numerate biologists or medics with a\nstrong motivation to acquire deep computational and statistical skills.\nThe programme provides these individuals with the skills in computa-\ntion and statistics necessary for them to design and interpret genomic\nexperiments relevant to their chosen field of interest (Figure 2). CGAT\ntrains post-doctoral scientists so as to ensure that candidates have al-\nready attained sufficiently deep biological knowledge and experience in\nlaboratory research to permit them to design and execute experiments." + }, + { + "id": 159410, + "strid": "c285a70e-d215-4430-adae-64b9cdf95f69", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.918, + 3193.893, + 396.106, + 45.95699999999988 + ], + "priority": 13, + "parents": [ + 159465 + ], + "children": [ + 159430, + 159446 + ], + "area": 386199.153774, + "iscrowd": 0, + "segmentation": [], + "text": "Training as a cohort" + }, + { + "id": 159430, + "strid": "a83d75fc-a5be-4138-82e6-a9f56243f64b", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 118.299, + 3255.434, + 835.648, + 65.22699999999986 + ], + "priority": 14, + "parents": [ + 159410 + ], + "children": [], + "area": 385114.586766, + "iscrowd": 0, + "segmentation": [], + "text": "One of the attractive features of CGAT is the unique scientific\nenvironment:" + }, + { + "id": 159446, + "strid": "dcfb4163-63e6-410e-b032-97f6ddd0c176", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 120.697, + 3356.604, + 968.283, + 551.7329999999997 + ], + "priority": 15, + "parents": [ + 159410 + ], + "children": [], + "area": 405132.03298799996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159413, + "strid": "4ecc0b91-ed05-4fbd-bcd5-e28535713b1d", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.865, + 3971.346, + 296.274, + 41.92099999999982 + ], + "priority": 16, + "parents": [ + 159465 + ], + "children": [ + 159457, + 159456, + 159455, + 159453, + 159454 + ], + "area": 487939.42629, + "iscrowd": 0, + "segmentation": [], + "text": "Who is CGAT?" + }, + { + "id": 159453, + "strid": "0aca59b5-5d0f-4113-aa66-9961e5dc97d7", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 132.672, + 4021.404, + 140.12699999999998, + 129.54700000000003 + ], + "priority": 17, + "parents": [ + 159413 + ], + "children": [ + 159433 + ], + "area": 533527.711488, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159433, + "strid": "8fce8f57-b268-40b2-8b75-77268a8733fb", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 295.904, + 4038.68, + 214.33799999999997, + 54.409000000000106 + ], + "priority": 18, + "parents": [ + 159453 + ], + "children": [], + "area": 1195061.56672, + "iscrowd": 0, + "segmentation": [], + "text": "Prof. Chris Ponting\nDirector" + }, + { + "id": 159454, + "strid": "314d69f2-1fc5-4747-b83b-a91353e0a985", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 133.224, + 4172.295, + 136.635, + 152.59900000000016 + ], + "priority": 19, + "parents": [ + 159413 + ], + "children": [ + 159434 + ], + "area": 555849.8290799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159434, + "strid": "5bc8293b-3ca4-4c85-936d-e28d16d6c2a4", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 295.08, + 4182.122, + 168.173, + 58.53099999999995 + ], + "priority": 20, + "parents": [ + 159454 + ], + "children": [], + "area": 1234060.55976, + "iscrowd": 0, + "segmentation": [], + "text": "Dr David Sims\nLead Scientist" + }, + { + "id": 159455, + "strid": "837a0826-056c-4bd5-9cdf-121127f1bbfc", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 563.708, + 4021.812, + 135.26699999999994, + 135.47400000000016 + ], + "priority": 21, + "parents": [ + 159413 + ], + "children": [ + 159435 + ], + "area": 2267127.5988959996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159435, + "strid": "b00ea6ba-ac30-4aa7-a6aa-e12a6c5d8414", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 731.175, + 4037.856, + 206.09400000000005, + 56.88200000000006 + ], + "priority": 22, + "parents": [ + 159455 + ], + "children": [], + "area": 2952379.3608, + "iscrowd": 0, + "segmentation": [], + "text": "Dr Andreas Heger\nTechnical Director" + }, + { + "id": 159456, + "strid": "f51e5287-c39e-4775-b69a-a253c9cc2ea6", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 563.334, + 4172.497, + 134.93200000000002, + 134.7520000000004 + ], + "priority": 23, + "parents": [ + 159413 + ], + "children": [ + 159436 + ], + "area": 2350509.424998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159436, + "strid": "94cedd3d-113b-4f0a-9684-550fb1ef39e8", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 730.351, + 4182.946, + 260.50300000000004, + 60.17900000000009 + ], + "priority": 24, + "parents": [ + 159456 + ], + "children": [], + "area": 3055018.794046, + "iscrowd": 0, + "segmentation": [], + "text": "Sebastian Luna Valero\nIT manager and trainer" + }, + { + "id": 159457, + "strid": "5984392e-df38-4706-9d50-e5ba1124ba0a", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 487.43, + 4321.282, + 588.8309999999999, + 285.2349999999997 + ], + "priority": 25, + "parents": [ + 159413 + ], + "children": [ + 159437, + 159438 + ], + "area": 2106322.48526, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159437, + "strid": "884c427b-74db-4b22-a769-cca426f49fcc", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 119.828, + 4361.545, + 212.804, + 57.582000000000335 + ], + "priority": 26, + "parents": [ + 159457 + ], + "children": [], + "area": 522635.21426000004, + "iscrowd": 0, + "segmentation": [], + "text": "Reseach manager:\nAntonella Surdi" + }, + { + "id": 159438, + "strid": "a2ed2409-f6eb-4f64-a611-caeba0f73882", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 120.662, + 4453.342, + 298.76, + 119.33700000000044 + ], + "priority": 27, + "parents": [ + 159457 + ], + "children": [], + "area": 537349.1524039999, + "iscrowd": 0, + "segmentation": [], + "text": "Associate trainers:\nDr Caleb Webber,\nDr Christiana Kartsonaki\nDr Wilfried Haerty" + }, + { + "id": 159406, + "strid": "ab23ac1b-4ed0-4dbc-bb9f-03ccdb81ca80", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1159.945, + 634.816, + 508.69499999999994, + 51.97199999999998 + ], + "priority": 28, + "parents": [ + 159465 + ], + "children": [ + 159419, + 159458 + ], + "area": 736351.64512, + "iscrowd": 0, + "segmentation": [], + "text": "The CGAT training model" + }, + { + "id": 159419, + "strid": "00ba52a5-8c66-4f51-949e-c1cbeb3b2f20", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1164.791, + 704.086, + 977.5040000000001, + 176.92399999999998 + ], + "priority": 29, + "parents": [ + 159406 + ], + "children": [], + "area": 820113.0360259999, + "iscrowd": 0, + "segmentation": [], + "text": "The CGAT model is one of trainee-led, deep, immersive training. CGAT\ntraining fellowships last for a maximum of three years and are struc-\ntured into three phases: an initial assessment and basic training period,\nfollowed by project-based training and finally a collaborative research\nproject led and executed by the trainee (Figure 3)." + }, + { + "id": 159458, + "strid": "92dcb245-01eb-4154-bc33-7be55ce63676", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1200.7, + 882.536, + 857.4220000000003, + 426.573 + ], + "priority": 30, + "parents": [ + 159406 + ], + "children": [ + 159439 + ], + "area": 1059660.9752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159439, + "strid": "3f14e7ec-d9e6-459e-a5a8-18b00d3bd40e", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1165.409, + 1317.643, + 927.2649999999999, + 60.343000000000075 + ], + "priority": 31, + "parents": [ + 159458 + ], + "children": [], + "area": 1535593.010987, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: A CGAT fellowship has three phases: basic training, project based training\nand a transition project." + }, + { + "id": 159409, + "strid": "e976d302-1607-4185-bdd2-8d44dd250079", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1169.916, + 1453.518, + 452.529, + 46.26999999999998 + ], + "priority": 32, + "parents": [ + 159465 + ], + "children": [ + 159422, + 159448, + 159421, + 159460, + 159459, + 159447, + 159420 + ], + "area": 1700493.964488, + "iscrowd": 0, + "segmentation": [], + "text": "Phase 1: Basic training" + }, + { + "id": 159420, + "strid": "b74597a8-ab4e-43f7-9ffb-53ad501f8254", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1164.029, + 1520.883, + 974.9850000000001, + 71.64100000000008 + ], + "priority": 33, + "parents": [ + 159409 + ], + "children": [], + "area": 1770351.917607, + "iscrowd": 0, + "segmentation": [], + "text": "Upon arrival, CGAT fellows complete a self-assessment form (Figure 4)\ncontaining more than 250 questions covering the domains of" + }, + { + "id": 159447, + "strid": "86a21684-5ff7-4e93-a686-717e403f994b", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1163.262, + 1630.755, + 651.4179999999999, + 236.79099999999994 + ], + "priority": 34, + "parents": [ + 159409 + ], + "children": [], + "area": 1896995.32281, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159459, + "strid": "55a4cadc-0147-4bd7-9d8f-b847433889f9", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1167.847, + 1884.473, + 971.874, + 177.4920000000002 + ], + "priority": 35, + "parents": [ + 159409 + ], + "children": [ + 159440 + ], + "area": 2200776.139631, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159440, + "strid": "0d42daa4-74e9-42c9-a0a2-517a7d222f4e", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1164.088, + 2081.593, + 939.0049999999999, + 63.284999999999854 + ], + "priority": 36, + "parents": [ + 159459 + ], + "children": [], + "area": 2423157.4321839996, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: The CGAT training assesment spreadsheet is filled out at the start of a Fel-\nlowship and then every six months." + }, + { + "id": 159421, + "strid": "0dedeb19-dc5a-4a2a-aed6-beda846cb839", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1165.272, + 2180.615, + 966.8530000000001, + 180.26099999999997 + ], + "priority": 37, + "parents": [ + 159409 + ], + "children": [], + "area": 2541009.6022799998, + "iscrowd": 0, + "segmentation": [], + "text": "Based on this initial self-assessment, the fellows and CGAT trainers to-\ngether develop a personalised training plan. In the initial training phase,\nthe fellows make use of a range of self-study materials including text-\nbooks, online courses and exercises as well as in-house materials\n(Figure 4)." + }, + { + "id": 159448, + "strid": "f2efe911-3a2b-41f4-817b-99c53b7be34e", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1165.664, + 2397.103, + 454.25299999999993, + 380.8739999999998 + ], + "priority": 38, + "parents": [ + 159409 + ], + "children": [], + "area": 2794216.671392, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159460, + "strid": "60e99cb8-c0f3-48cf-bb2c-8311710bf104", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1643.262, + 2375.834, + 463.3889999999999, + 271.10199999999986 + ], + "priority": 39, + "parents": [ + 159409 + ], + "children": [ + 159441 + ], + "area": 3904117.7305079997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159441, + "strid": "de247d49-7d58-41ec-a05f-cbb663f63fd9", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1631.413, + 2672.072, + 425.41600000000017, + 89.68899999999985 + ], + "priority": 40, + "parents": [ + 159460 + ], + "children": [], + "area": 4359252.997736, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: CGAT makes use of training\nresources provided externally and\ncreated internally." + }, + { + "id": 159422, + "strid": "4e75979f-b4d2-4493-8865-584e962f642a", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1161.176, + 2792.409, + 966.8530000000001, + 281.3159999999998 + ], + "priority": 41, + "parents": [ + 159409 + ], + "children": [], + "area": 3242478.312984, + "iscrowd": 0, + "segmentation": [], + "text": "As fellows progress they are challenged by more complex scripting ex-\nercises with genomics relevance. During this process fellows are guid-\ned towards adoption of a common coding style and software engineer-\ning best-practices. Fellows receive regular code reviews from trainers\nto help develop their skills. Once fellows are sufficiently confident writ-\ning their own scripts to answer biological questions, they learn to cre-\nate pipelines to analyse large-scale datasets and to generate automat-\ned reports for reproducible research." + }, + { + "id": 159411, + "strid": "cfeac02b-4d3d-45d9-843e-8d5500a9ca92", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1168.887, + 3189.971, + 741.613, + 55.49499999999989 + ], + "priority": 42, + "parents": [ + 159465 + ], + "children": [ + 159423, + 159462, + 159461, + 159424 + ], + "area": 3728715.6322769998, + "iscrowd": 0, + "segmentation": [], + "text": "Reproducible computational research" + }, + { + "id": 159423, + "strid": "fa99b672-8052-41c2-b190-b79279b67292", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1163.634, + 3260.087, + 950.6190000000001, + 73.9699999999998 + ], + "priority": 43, + "parents": [ + 159411 + ], + "children": [], + "area": 3793548.076158, + "iscrowd": 0, + "segmentation": [], + "text": "CGAT instills in its fellows practices for reproducible computational re-\nsearch (Figure 5) following guidelines published by the community:" + }, + { + "id": 159461, + "strid": "3d2cf302-9d72-432f-b7b1-a7d9e648c770", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1276.546, + 3370.6, + 431.80099999999993, + 154.26299999999992 + ], + "priority": 44, + "parents": [ + 159411 + ], + "children": [ + 159442 + ], + "area": 4302725.9476, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159442, + "strid": "7ae001fa-7ca9-4d03-8d8a-927eea1fbe46", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1167.346, + 3530.043, + 654.656, + 33.302000000000135 + ], + "priority": 45, + "parents": [ + 159461 + ], + "children": [], + "area": 4120781.5758780004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Sandve et al. (2013) PloS Computational Biology" + }, + { + "id": 159424, + "strid": "857e4bcf-8e46-475e-b5d9-de43b7e44c91", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1163.68, + 3582.967, + 961.9159999999999, + 412.69399999999996 + ], + "priority": 46, + "parents": [ + 159411 + ], + "children": [], + "area": 4169427.0385600002, + "iscrowd": 0, + "segmentation": [], + "text": "CGAT shares a central code repository that contains hundreds of\nscripts designed for the analysis of genomic datasets and is publicly\navailable on GitHub (https://github.com/CGATOxford). All scripts,\nmodules and pipelines follow a common style guide and incorporate\nunit tests and regression tests to ensure accurate and consistent func-\ntionality. This provides a valuable learning experience for new fellows\nenabling them to become familiar with the diverse array of tools al-\nready implemented, while established fellows acquire the skills to\nmanage and sustainably develop a large codebase under collabora-\ntive development. Indeed a recent review from the Software Sustain-\nability Institute (http://software.ac.uk) praised CGAT code development\npractices highly." + }, + { + "id": 159462, + "strid": "07ab9ab6-dfb1-4203-a8bd-40e3184f068b", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1171.467, + 4008.234, + 943.3339999999998, + 556.9079999999999 + ], + "priority": 47, + "parents": [ + 159411 + ], + "children": [ + 159443 + ], + "area": 4695513.859278, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159443, + "strid": "cb859964-42fb-4432-9305-85e51201a7dc", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1160.497, + 4570.824, + 977.363, + 63.57999999999993 + ], + "priority": 48, + "parents": [ + 159462 + ], + "children": [], + "area": 5304427.539528, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6: To achieve throughput, reproducibility and synergy, CGAT adopts a philosophy\nof complete automation at all stages." + }, + { + "id": 159407, + "strid": "0e89d7a1-f987-455c-97ca-8c898e7df36e", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2217.468, + 634.466, + 622.5709999999999, + 55.00300000000004 + ], + "priority": 49, + "parents": [ + 159465 + ], + "children": [ + 159449, + 159425, + 159426, + 159463 + ], + "area": 1406908.0520879999, + "iscrowd": 0, + "segmentation": [], + "text": "Phase 2: Project based training" + }, + { + "id": 159425, + "strid": "71a135a2-4264-4fe8-b9c3-389313d21e2c", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2214.229, + 713.97, + 951.3579999999997, + 140.00299999999993 + ], + "priority": 50, + "parents": [ + 159407 + ], + "children": [], + "area": 1580893.07913, + "iscrowd": 0, + "segmentation": [], + "text": "The second phase of the fellowship is project-based learning. CGAT\ncollaborates with scientists across the United Kingdom to analyse and\ninterpret genome-scale datasets to answer important questions in ge-\nnomic medicine (Figure 7)." + }, + { + "id": 159463, + "strid": "be35ba3b-ea2c-44f8-b9a2-ee4ed68293cc", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2209.901, + 894.413, + 922.0540000000001, + 473.4069999999999 + ], + "priority": 51, + "parents": [ + 159407 + ], + "children": [ + 159444 + ], + "area": 1976564.183113, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159444, + "strid": "998406b1-eeda-4999-ad9a-ae22515a0cb2", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2210.535, + 1367.552, + 940.0, + 64.36300000000006 + ], + "priority": 52, + "parents": [ + 159463 + ], + "children": [], + "area": 3023021.5603199997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 7: CGAT collaborates with groups across the UK from a large variety of fields\nand using different types of data" + }, + { + "id": 159426, + "strid": "b57f20c4-f1dc-4127-a956-e625555b43b6", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2211.454, + 1494.964, + 972.058, + 348.5250000000001 + ], + "priority": 53, + "parents": [ + 159407 + ], + "children": [], + "area": 3306044.117656, + "iscrowd": 0, + "segmentation": [], + "text": "We select projects where fellows can make a substantial contribution to\nthe biological interpretation of the question being investigated, and\nwhere the data analysis provides a novel and challenging piece of work\nfor the fellow. As a consequence CGAT fellows provide a substantial\ncontribution to these collaborative projects, which is appropriately ac-\nknowledged with (joint) first author publications. Indeed, this author-\nship model is stipulated by CGAT when the collaboration is first for-\nmalised.\n\nThis model simultaneously provides:" + }, + { + "id": 159449, + "strid": "87c6a59e-236b-4515-bbba-bcd5d7db44a1", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2215.732, + 1872.275, + 952.0419999999999, + 308.34799999999996 + ], + "priority": 54, + "parents": [ + 159407 + ], + "children": [], + "area": 4148459.6303000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159414, + "strid": "30324d3c-200a-4c6c-8d88-ce103474bd67", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2220.848, + 2313.66, + 608.8029999999999, + 48.75599999999986 + ], + "priority": 55, + "parents": [ + 159465 + ], + "children": [ + 159450, + 159427 + ], + "area": 5138287.18368, + "iscrowd": 0, + "segmentation": [], + "text": "Phase 3: The transition project" + }, + { + "id": 159427, + "strid": "1ae9b7f4-8c5d-4b02-8a81-69fa4db118d6", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2212.865, + 2373.058, + 978.2660000000001, + 519.8589999999999 + ], + "priority": 56, + "parents": [ + 159414 + ], + "children": [], + "area": 5251256.991169999, + "iscrowd": 0, + "segmentation": [], + "text": "The final phase of the training aims to re-introduce Fellows to their field\nof interest (Figure 3). As CGAT fellows’ training may take them away\nfrom their main area of biological interest we consider it important for\nthem to be assisted in their transition towards independent research in\ntheir chosen field towards the end of their fellowship\n\nFellows are required to contact potential collaborators and with them\ndesign a genomics experiment that addresses a key question in their\nfield, or provides pilot data for a future fellowship or grant application.\n\nFellows are then asked to submit a grant proposal to CGAT detailing\nthe background, experimental design and sequencing costs for the\nproject. If their project passes internal review they are awarded limited\nfunds for next-generation sequencing on that project. This process is in-\ntended to provide the fellow with valuable experience in" + }, + { + "id": 159450, + "strid": "c04b24a4-e398-451b-b71c-4611f1a983d2", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2215.838, + 2925.573, + 480.85300000000007, + 137.67999999999984 + ], + "priority": 57, + "parents": [ + 159414 + ], + "children": [], + "area": 6482595.825174, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159412, + "strid": "25263c31-6415-4cdd-8fcd-9285de410dd7", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2219.505, + 3189.971, + 431.346, + 52.97200000000021 + ], + "priority": 58, + "parents": [ + 159465 + ], + "children": [ + 159429, + 159464, + 159428 + ], + "area": 7080156.584355, + "iscrowd": 0, + "segmentation": [], + "text": "Individualized training" + }, + { + "id": 159428, + "strid": "34618b10-c6dd-493a-8bbc-7d68697c2bb7", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2212.311, + 3250.291, + 973.4949999999999, + 215.21100000000024 + ], + "priority": 59, + "parents": [ + 159412 + ], + "children": [], + "area": 7190654.532501001, + "iscrowd": 0, + "segmentation": [], + "text": "Formal training continues through the three years of the fellowships.\nFellows manage an individual training budget from which they fund ex-\nternal training opportunities such as courses, workshops and confer-\nences. The choice of courses and training materials is driven by the ex-\nisting skills and interests of each fellow, in consultation with trainers,\nsuch that each fellow’s time in CGAT is different (Figure 8)." + }, + { + "id": 159464, + "strid": "8045f1cd-1494-4204-9249-7d4f7662d1ee", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2307.532, + 3485.079, + 691.9830000000002, + 519.3380000000002 + ], + "priority": 60, + "parents": [ + 159412 + ], + "children": [ + 159445 + ], + "area": 8041931.315028001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 159445, + "strid": "242aebbe-41c9-4eb0-a411-228ad15baf09", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2214.776, + 3999.152, + 623.067, + 32.21199999999999 + ], + "priority": 61, + "parents": [ + 159464 + ], + "children": [], + "area": 8857225.869951999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 8: Skill trajectories differ for each fellow (colours)" + }, + { + "id": 159429, + "strid": "476f2c17-98e3-45db-8145-5669668ff6eb", + "image_id": 206729, + "image_name": "6331.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2210.287, + 4044.969, + 969.3429999999998, + 554.7269999999999 + ], + "priority": 62, + "parents": [ + 159412 + ], + "children": [], + "area": 8940542.396102998, + "iscrowd": 0, + "segmentation": [], + "text": "Within CGAT we hold a weekly journal club, which covers both new de-\nvelopments in genomics, to ensure that fellows keep up-to-date with\nthe broader field, and landmark papers in the field, so that everyone\nappreciates the history of the field. We also hold regular teaching ses-\nsions, led by CGAT trainers and associate trainers, addressing both\nspecific and general topics; these have included molecular evolution\nand population genetics as well as parallelisation, object-oriented pro-\ngramming and information theory.\n\nThroughout their time in CGAT fellows attend scheduled monthly meet-\nings with senior staff to plan and review their training. To monitor their\ntraining progress, the fellows update their skills assessment spread-\nsheet every six months.\n\nA strong emphasis is placed on the development of general, transfer-\nable skills of managing oneself, a project and a group of collaborators." + }, + { + "id": 24466, + "strid": "744e9b72-9879-468b-9cfe-f132f2804dd4", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 10.77, + 18.84, + 56.28, + 79.07 + ], + "priority": -1, + "parents": [], + "children": [ + 24467, + 24451, + 24465, + 24450, + 24449, + 24464, + 24452, + 24459, + 24460, + 24463, + 24461 + ], + "area": 202.9068, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24449, + "strid": "954685e7-915b-40b0-bde7-4b5e44eb4213", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 83.716, + 32.915, + 983.689, + 46.69599999999999 + ], + "priority": 1, + "parents": [ + 24466 + ], + "children": [], + "area": 2755.51214, + "iscrowd": 0, + "segmentation": [], + "text": "Neuro-endocrinology of the skin, brain-skin axis and hormesis as possible mechanisms of therapeu!\nmodalities using mechanical tactile stimulation (MTS).\n\ncua Cie Brainakin axin and etrene reamniiy" + }, + { + "id": 24450, + "strid": "d56c1ee8-54c7-45d2-9401-80e8f6c573a3", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 84.508, + 80.525, + 601.535, + 17.385000000000005 + ], + "priority": 2, + "parents": [ + 24466 + ], + "children": [], + "area": 6805.0067, + "iscrowd": 0, + "segmentation": [], + "text": "Tanya Zilberter, PhD; Ferry Anya, M.Ed; Borbon Roger, D.C., D.A.C.N.B., F.A.C.F.N., C.C.C.N." + }, + { + "id": 24459, + "strid": "ca039b93-97fe-4c63-ab47-bb68a39f84fb", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 88.813, + 136.978, + 324.896, + 189.85499999999996 + ], + "priority": 3, + "parents": [ + 24466 + ], + "children": [ + 24453 + ], + "area": 12165.427114000002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24453, + "strid": "e5c0b3ae-ad7c-4751-8fab-7609539f0e36", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 97.122, + 113.931, + 261.6, + 14.26100000000001 + ], + "priority": 4, + "parents": [ + 24459 + ], + "children": [], + "area": 11065.206581999999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 MTS effects on relaxation, pain and sleep" + }, + { + "id": 24460, + "strid": "b9e65ca8-4252-42db-a1a2-179467f376d1", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 89.16, + 344.666, + 328.308, + 186.10899999999998 + ], + "priority": 5, + "parents": [ + 24466 + ], + "children": [ + 24454 + ], + "area": 30730.42056, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24454, + "strid": "0c2b3435-a7ac-419c-bb28-baa8b3da666f", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 110.206, + 331.777, + 222.86399999999998, + 14.437000000000012 + ], + "priority": 6, + "parents": [ + 24460 + ], + "children": [], + "area": 36563.816062, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 MTS effect on heart rate variability" + }, + { + "id": 24461, + "strid": "eb1dbb5b-8e3a-4b02-8e3d-c97d800dc478", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 103.666, + 560.744, + 318.136, + 188.47000000000003 + ], + "priority": 7, + "parents": [ + 24466 + ], + "children": [ + 24455 + ], + "area": 58130.087504, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24455, + "strid": "dd3a1022-5d72-4c9b-af34-3dce1f0433ce", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 110.221, + 543.738, + 226.44399999999996, + 14.408000000000015 + ], + "priority": 8, + "parents": [ + 24461 + ], + "children": [], + "area": 59931.34609800001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 MTS effects on neck and back pain" + }, + { + "id": 24451, + "strid": "0a689695-b74a-416f-bfde-4e8103159428", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 418.796, + 128.082, + 340.0729999999999, + 551.068 + ], + "priority": 9, + "parents": [ + 24466 + ], + "children": [], + "area": 53640.229272, + "iscrowd": 0, + "segmentation": [], + "text": "ee ee en ee\nstimulation (MTS),a technique developed over 40 years ago by Ian\nKurnetsov and modified in 1990s in USA (Zilberter, Roman, 1999, Fi\n1), Recently; Swedish and German researchers reported pain slioving\nand pro,parasympathetie efeets ofthis method (Olsson, von Scheele\n2011, Fig. 2; Hohmann et al, 2012, Fig. 3). We discuss this promising\nmodality (curently favored by many massage therapists) from the\nstandpoints ofthe following hypotheses, which may apply to other\nbodywork techniques.\n\n \n\n \n\n \n\n \n\nMTS may trigger beneficial physiological and endocrinological effects\nFor example. new hypothesis of Yeutaneous-hypothalamic-pitutary-\nadrenal axis” is gaining acceptances It was shown that practically all\nclements of the hypothalamie-pititary-adrenal axis are expressed in the\nskin including receptors of eaticotropin-teleasing hormone,\nproopiomelanocortin, ACTH, beta-endorphin, and glucocorticoids\n(Fig)\n\n \n\n \n\nThe most directly fesearched modality using MTS is acupuncture,\nHowever, a rowing body of evidence exists showing that acupuncture of\nnon-specific points, as well as skin stimulation of other kinds, have\nbeneticial health effects. Recently, an old concept of skin projection of|\nviscera (Zakharin, 1860s; Head 1990s) has been revived to hypothesize\nmechanisms of acupuncture and other bodywork siodalities, A\ncomparison of Heads papers with the Yellow Teacher's Inner Classic\nmanual on acupuncture revealed paallels between acupoints and points\nof maximal sensitivity within Zakharin-Head zones (Beissner, Henke,\n2011, Fig. 5). Interestingly, the mechanisns of MTS can he partially\nexplained by the known non-specific effects of acupuncture (Fig 6).\n\n \n\n \n\nLast decade brought forward the idea of hormesis explaining the U-\nshaped strength-response curve of many physical influences. [tis\nobserved that physical and physiofopical stressors, when repeatedly\napplied with a weaker Strength, work as both specific and non-specific\nprotectors fom harmful impacts, EJ. Calabrese i one ofthe pioneers in\nthe field who boadened the applicability of hormesis from phacmacology\nand toxicology to neuroprotection, MTS can be an adequate-strength\nstressor cicting beneficial hormetic and neurvendocrtialogical\nresponses and initiating reflexes positively affecting visceral organs.\nImportantly, some data on neurochemical consequences of MTS,\ngpetifcally, imitating massage in mice, showed that the stronger MTS\nelicited a weaker response - selease of Dopghthie in mice brain. (Fig. 7)." + }, + { + "id": 24452, + "strid": "6ed8b06d-0445-4629-b5bc-61fbb9d96105", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 429.515, + 690.952, + 272.8190000000001, + 38.750999999999976 + ], + "priority": 10, + "parents": [ + 24466 + ], + "children": [], + "area": 296774.24828, + "iscrowd": 0, + "segmentation": [], + "text": "Massage therapy, acupuncture and\nMTS share common mechanisms" + }, + { + "id": 24463, + "strid": "d9ef51c4-87b2-4c2e-845c-fac6d1dc1a07", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 791.347, + 88.353, + 259.894, + 151.08799999999997 + ], + "priority": 11, + "parents": [ + 24466 + ], + "children": [ + 24462 + ], + "area": 69917.881491, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 24462, + "strid": "fbce722c-b221-454a-a5eb-7c32b93db8d1", + "image_id": 201482, + "image_name": "117190.png", + "category_id": 6, + 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"parents": [ + 102451 + ], + "children": [], + "area": 75003.23265800001, + "iscrowd": 0, + "segmentation": [], + "text": "UNIVERSITY OF\n(28 (28)\n\n&; TORONTO\n\nAlison L. Chasteen, Timothy K. Lam, ¥. Eric T. Taylor, & Jay Pratt" + }, + { + "id": 102442, + "strid": "915d30e0-cd6c-4b15-b941-f81151eb9bfa", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 120.317, + 1129.394, + 1545.599, + 1180.5649999999998 + ], + "priority": 3, + "parents": [ + 102451 + ], + "children": [], + "area": 135885.297898, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102443, + "strid": "d730918b-f6f2-4cdb-9006-b15ec4583aea", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 362.265, + 2390.566, + 1058.5010000000002, + 546.52 + ], + "priority": 4, + "parents": [ + 102451 + ], + "children": [], + "area": 866018.3919899999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102449, + "strid": "6b9e7291-663f-41ec-90eb-66a4dc3ae528", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2687.994, + 275.38, + 396.12300000000005, + 60.815 + ], + "priority": 5, + "parents": [ + 102451 + ], + "children": [], + "area": 740219.78772, + "iscrowd": 0, + "segmentation": [], + "text": "Vertical Axis" + }, + { + "id": 102445, + "strid": "94986b72-2e23-4760-a9f6-21440485c7a6", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2101.402, + 407.262, + 1521.92, + 884.529 + ], + "priority": 6, + "parents": [ + 102451 + ], + "children": [], + "area": 855821.181324, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102447, + "strid": "10f24540-8f20-4312-93ac-c1c7773d8a88", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1934.099, + 1360.522, + 1591.066, + 1340.241 + ], + "priority": 7, + "parents": [ + 102451 + ], + "children": [], + "area": 2631384.2396779996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102450, + "strid": "50f8d1cd-6833-4da5-b989-a2a672518091", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4211.874, + 278.334, + 482.6760000000004, + 57.391999999999996 + ], + "priority": 8, + "parents": [ + 102451 + ], + "children": [], + "area": 1172307.737916, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 102446, + "strid": "a891b51a-48a8-4f96-85ee-cd8e90f19c24", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3763.004, + 406.793, + 1514.4409999999998, + 888.38 + ], + "priority": 9, + "parents": [ + 102451 + ], + "children": [], + "area": 1530763.686172, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102448, + "strid": "fa732b69-8e43-44ae-99da-e66beca90de7", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3643.266, + 1354.863, + 1586.31, + 1342.713 + ], + "priority": 10, + "parents": [ + 102451 + ], + "children": [], + "area": 4936126.302558, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 102444, + "strid": "2efd49d5-8b51-41c0-b494-5bca1a95bda5", + "image_id": 204454, + "image_name": "122154.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1994.072, + 2765.764, + 1599.22, + 124.17200000000003 + ], + "priority": 11, + "parents": [ + 102451 + ], + "children": [], + "area": 5515132.551008, + "iscrowd": 0, + "segmentation": [], + "text": "* The critical interaction between cue valence and target position was\nonly significant in the vertical target — semantic processing condition" + }, + { + "id": 83626, + "strid": "515502ce-b5fc-4464-b6b3-a1c28a47cb41", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 17.88, + 38.01, + 141.84, + 136.59 + ], + "priority": -1, + "parents": [], + "children": [ + 83604, + 83601, + 83606, + 83602, + 83609, + 83605, + 83608, + 83603 + ], + "area": 679.6188, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83601, + "strid": "67ae4306-47b8-4215-8fb5-7874a424cd5e", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 161.79, + 243.095, + 2457.822, + 160.67599999999996 + ], + "priority": 1, + "parents": [ + 83626 + ], + "children": [], + "area": 39330.34005, + "iscrowd": 0, + "segmentation": [], + "text": "guration content-based‘Gene Ontology Functional similarity measures:\nHow good are these measures? cO\n\nQ" + }, + { + "id": 83602, + "strid": "95f22a14-875f-4816-b675-da28d61dc7e4", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1012.419, + 430.747, + 734.8670000000001, + 41.827 + ], + "priority": 2, + "parents": [ + 83626 + ], + "children": [], + "area": 436096.446993, + "iscrowd": 0, + "segmentation": [], + "text": "Gaston K. Mazandu, Nicola J. Mulder" + }, + { + "id": 83603, + "strid": "8051735d-4a3d-4f2c-8aaa-fd56f4ce9d0f", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1092.969, + 519.652, + 449.6859999999999, + 51.00999999999999 + ], + "priority": 3, + "parents": [ + 83626 + ], + "children": [ + 83623 + ], + "area": 567963.526788, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 83623, + "strid": "ad4c22e6-2de1-4b21-87e7-413f47fb9517", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 38.785, + 618.739, + 2682.781, + 233.51999999999998 + ], + "priority": 4, + "parents": [ + 83603 + ], + "children": [], + "area": 23997.792115, + "iscrowd": 0, + "segmentation": [], + "text": "The current increase in Gene Ontology (GO) annotations of proteins in the existing genome databases and _ their use in different analyses have fostered the improvement of Several biomedical and biological\napplications. To integrate this functional data into»different analyses, several protein functional similarity measures’ based on GO term information content (IC) have been proposed and evaluated, especially in the\ncontext of annotation-based measures. it is not'clear whether a specific functional similarity measure associated/with a given approach is the most appropriate, given a biological data set or an application.\n\nWe show that, in general, a specific functional similarity measure often used with a given term IC or term semantic similarity approach is not always the best for different.biological data and application by assessing the\nperformance of a number of different functional similarity measures using different types of biological data in order to infer the best functional similarity measure.for each different term IC and semantic similarity\napproach. This should help researchers choose the most appropriate measure for the biological application under consideration." + }, + { + "id": 83604, + "strid": "eee492c9-f173-4245-90de-2e1f35a69b88", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 933.662, + 901.921, + 790.249, + 48.60699999999997 + ], + "priority": 5, + "parents": [ + 83626 + ], + "children": [ + 83622, + 83618, + 83621, + 83617, + 83620, + 83625, + 83619, + 83616, + 83624 + ], + "area": 842089.364702, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 83620, + "strid": "12150e11-46fd-4f4d-af06-3ab645a18dec", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 21.509, + 1015.42, + 1305.979, + 141.07299999999998 + ], + "priority": 6, + "parents": [ + 83604 + ], + "children": [], + "area": 21840.66878, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83625, + "strid": "ec2a0124-22a0-4047-b66e-9482587206fe", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 26.493, + 1176.93, + 1267.911, + 147.80099999999993 + ], + "priority": 7, + "parents": [ + 83604 + ], + "children": [], + "area": 31180.40649, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83621, + "strid": "1d17ea3e-f8b4-4664-9038-e8612de22403", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 22.083, + 1326.279, + 1307.112, + 158.95000000000005 + ], + "priority": 8, + "parents": [ + 83604 + ], + "children": [], + "area": 29288.219157, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83622, + "strid": "38187280-96b8-4911-9ad9-5a97981527c8", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 21.143, + 1532.143, + 1306.157, + 140.6790000000001 + ], + "priority": 9, + "parents": [ + 83604 + ], + "children": [], + "area": 32394.099449, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83624, + "strid": "8507b37e-f173-418d-94ad-36b187526216", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 169.563, + 1678.913, + 855.6740000000001, + 560.8130000000001 + ], + "priority": 10, + "parents": [ + 83604 + ], + "children": [], + "area": 284681.525019, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83616, + "strid": "61b949c6-94f2-485c-aefc-a3e3571ea59b", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1384.757, + 1014.172, + 1346.3939999999998, + 174.28700000000003 + ], + "priority": 11, + "parents": [ + 83604 + ], + "children": [], + "area": 1404381.776204, + "iscrowd": 0, + "segmentation": [], + "text": "Assessing different functional similarity measures\n\nWe assess different functional similarity measures on different types of functional data, including sequence\nsimilarity, Pfam domain and Enzyme Commission (EC) similarity data on a selected set of proteins, and\nhuman protein-protein interaction (PPI) and co-expression networks. Depending on these\\biological data,\ndifferent performance measures are used to elucidate the 'best' semantic similarity measurevor approach." + }, + { + "id": 83617, + "strid": "916f944b-5d14-4007-8580-0fe79baba3da", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1383.776, + 1225.732, + 1348.8330000000003, + 202.58300000000008 + ], + "priority": 12, + "parents": [ + 83604 + ], + "children": [], + "area": 1696138.524032, + "iscrowd": 0, + "segmentation": [], + "text": "Correlation with‘EC, Pfam and Sequence similarity\nThe comparison of different semantic similarity measures is performed using Pearson's correlation measures\nwith sequence, Pfam domain and Enzyme Commission (EC) similarity.datay A measure with a higher\ncorrelationyis better, since it captures these similarities well and it is likely to-be an unbiased measure. To\ncompare different measures, we ran the CESSM online tool at http://dbydi-fc.ul.pt/tools/cessm/ for BP and\nMF using*a dataset of selected proteins with known relationships." + }, + { + "id": 83618, + "strid": "b017b967-875c-4410-9d90-9d532ef635a2", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1385.007, + 1465.308, + 1345.9230000000002, + 269.93399999999997 + ], + "priority": 13, + "parents": [ + 83604 + ], + "children": [], + "area": 2029461.837156, + "iscrowd": 0, + "segmentation": [], + "text": "Performance evaluation using a PPI network\n\nWe used a human PPI network with a set of 5366 and 5580,interactions with both interacting partners were\namong 29844 and 31683 proteins annotated with respectsto the GO BP and CC ontologies, respectively are\nconsidered as a positive set, while the negative set consists of the same number of interactions randomly\nselected among annotated human proteins pairs. This_is consistent as the chance of randomly selecting a\ndetected PPI is very small (less than 0.0012%),The classification power of different functional similarity\nmeasures was tested using Receiver Operator Characteristic (ROC) curve analysis, which assesses the\nArea Under the Curve (AUC)." + }, + { + "id": 83619, + "strid": "bb504463-9537-47fd-8f28-e8298b6268e5", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1382.885, + 1772.893, + 1349.9979999999998, + 456.3499999999999 + ], + "priority": 14, + "parents": [ + 83604 + ], + "children": [], + "area": 2451707.136305, + "iscrowd": 0, + "segmentation": [], + "text": "Clustering power on a gene expression dataset\n\nWe use the human co-expression.network retrieved from the Bossi et al.[4] and the STRING ‘human\nnetwork.We retrieved 7228 co-expressed protein pairs of which a total of 6995 pairs have both ‘proteins\nfound among 29844 human proteins annotated with BP terms. We partitioned these co-expressed proteins\ninto different clusters using the,Blondel et al. Method [5] and the corresponding partition is considered to be a\nground truth. We assessed)the clustering power of a given functional similarity measure by comparing this\nclustering result to_the \\ground truth using Normalized Mutual Information (NI),and»yRank Index (RI) of\nnairwise cluster membhershins [4] as defined helow\n\nPo\n\n: (nn X my\n\nsol GA 2x y 5 nylos (Te) Xx (a+b)\n5 Ig 1=1 j= J Z\n\nNI (p9,q°) Prd _ wl j=l\n\n7 2\nHp) +H (ae 3 ey pand RI (p?, g°) = —————\n(A) +H a\") (So log (“!))+ (do log (:5)) n(n 7 1)\n4=1" + }, + { + "id": 83605, + "strid": "726463b8-2e42-43e9-abf8-b45fa504ac30", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1188.965, + 2251.512, + 283.75299999999993, + 63.69999999999982 + ], + "priority": 15, + "parents": [ + 83626 + ], + "children": [ + 83607, + 83613, + 83610, + 83612, + 83611 + ], + "area": 2676968.96508, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 83610, + "strid": "dc29e5bb-5e66-4ea7-a5bf-49692d1b0c40", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 19.437, + 2363.503, + 1403.54, + 258.27 + ], + "priority": 16, + "parents": [ + 83605 + ], + "children": [], + "area": 45939.407811000005, + "iscrowd": 0, + "segmentation": [], + "text": "The comparison of different functional.similarity measures using Pearson's correlation measures with sequence,\nPfam domain and EC similarity was.achieved by running the CESSM online tool and results are shown in Figure\n1 for the BP, MF and CC ontologies),Except for the Resnik approach, these results show that inygeneral there is a\ngood correlation between EC; Pfam domain, sequence similarity and functional similarity measures for BP, MF\nand CC, especially when-using measures other than Max and Avg. For EC in particular, the.MF ontology tends to\ndisplay higher levels of correlation. It is likely that the effect of the normalization factors ‘a serious drawback of\nthe Resnik approach.as this has an impact on its performance and makes it inconsistent.with the hierarchy under\nconsideration." + }, + { + "id": 83612, + "strid": "8afef273-7ab4-407f-8aef-6528e8300c25", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 32.712, + 2622.083, + 1372.891, + 739.2109999999998 + ], + "priority": 17, + "parents": [ + 83605 + ], + "children": [ + 83614 + ], + "area": 85773.57909600002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83614, + "strid": "18549599-3ac9-4ccf-92ba-346b3a3c0e53", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 42.537, + 3349.891, + 1351.509, + 73.37199999999984 + ], + "priority": 18, + "parents": [ + 83612 + ], + "children": [], + "area": 142494.313467, + "iscrowd": 0, + "segmentation": [], + "text": "Figure’1: Performance*evaluation in terms of Pearson's correlation values.Performance evaluation,in terms of Pearson's correlation\nvalues. These different Pearson's correlation values with Enzyme Commission (EC), Pfam and Sequencessimilarity are obtained from the\nCESSM online took." + }, + { + "id": 83611, + "strid": "aa1b54c8-bcb1-4588-a841-6b12a6ba4c99", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1456.039, + 2363.923, + 1279.262, + 130.52599999999984 + ], + "priority": 19, + "parents": [ + 83605 + ], + "children": [], + "area": 3441964.0809969995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83613, + "strid": "e7973c60-4bca-4a5c-ac9e-d8849166bdd5", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1446.021, + 2496.544, + 1270.242, + 646.0540000000001 + ], + "priority": 20, + "parents": [ + 83605 + ], + "children": [ + 83615 + ], + "area": 3610055.0514239995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83615, + "strid": "f64a3db9-f40b-4265-9b15-470de11476bc", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1528.756, + 3139.686, + 1136.0829999999999, + 24.932999999999993 + ], + "priority": 21, + "parents": [ + 83613 + ], + "children": [], + "area": 4799813.810616001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Performance evaluation in terms of clustering. power (RI and NI) and Area Under the Curve (AUC) values." + }, + { + "id": 83607, + "strid": "662493af-2a35-4229-9e48-2bbee730b7cb", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1456.845, + 3178.71, + 1278.211, + 240.1010000000001 + ], + "priority": 22, + "parents": [ + 83605 + ], + "children": [], + "area": 4630887.769950001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 83608, + "strid": "f0edf682-2c40-405e-9c9a-77b53f525f46", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1316.395, + 3463.806, + 1410.078, + 356.86400000000003 + ], + "priority": 23, + "parents": [ + 83626 + ], + "children": [], + "area": 4559736.89937, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions and Future Work\n\nWe have carried out a quantitative performance evaluation of several different semantic similarity measures\nbetween GO terms for different term IC families or semantic similarity approaches andedifferent biological data.\nResults indicate that a’measure used for a given biological data type was not alwayssthe most appropriate even\nfor the ‘well’ studied*family measures, namely annotation-based measures. In fact,though the SimGIC or the BMA\nor ABM measure:was‘confirmed to be the best measure, in general, when using.EC, Pfam domain and sequence\nsimilarity data, this measure was not the best for applications related toyPRI and co-expression data (e.g.,\nassessing protein-protein interaction or clustering co-expressed proteins), where the Avg measure showed overall\nbest performance. This is also the case for the topology-based approaches where, in general, the initial measure\nsuggested for use does not provide the overall best performance." + }, + { + "id": 83609, + "strid": "def84f11-7e19-4a37-a6c3-7279d3729bf5", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1309.796, + 3851.492, + 1415.6650000000002, + 70.92099999999982 + ], + "priority": 24, + "parents": [ + 83626 + ], + "children": [], + "area": 5044668.815632001, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements: This work was supported by the National Research Foundation (NRF) in South Africa through the\nCBIO research group at UCT and by AIMS-NEI in South Africa & Ghana.." + }, + { + "id": 83606, + "strid": "14b94561-c8a8-4cf4-a814-1afde2644213", + "image_id": 203748, + "image_name": "120854.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 21.635, + 3464.383, + 1241.028, + 341.48 + ], + "priority": 25, + 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The preliminary\nstudy involved 25 university students of 1-4 courses of St. Petersburg State\nUniversity, Department of Psychology at the age of 18 to 25 years.\n\nIn an empirical study, 60 people were interviewed between the ages of 15\nto 19 years, high school students with different levels of intellectual\ndevelopment of the three schools:" + }, + { + "id": 197231, + "strid": "f4d06ec9-ca79-4de3-b865-1d47095bb399", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 156.331, + 1242.551, + 1378.154, + 150.13599999999997 + ], + "priority": 7, + "parents": [ + 197220 + ], + "children": [], + "area": 194249.24038099998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197221, + "strid": "c3b477ae-a63b-4a6a-8561-14f9b0d40862", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 150.547, + 1441.133, + 239.069, + 64.77500000000009 + ], + "priority": 8, + "parents": [ + 197246 + ], + "children": [ + 197241, + 197245, + 197240, + 197244 + ], + "area": 216958.249751, + "iscrowd": 0, + "segmentation": [], + "text": "Stimuli" + }, + { + "id": 197240, + "strid": "650e6f73-b290-4404-bb4a-ec08f0a0b41d", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 153.535, + 1547.869, + 983.0480000000001, + 694.3700000000001 + ], + "priority": 9, + "parents": [ + 197221 + ], + "children": [ + 197235 + ], + "area": 237652.06691499997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197235, + "strid": "05e15923-dadb-4c3e-8c3f-1b7b0c451645", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 154.115, + 2252.365, + 408.212, + 50.26299999999992 + ], + "priority": 10, + "parents": [ + 197240 + ], + "children": [], + "area": 347123.231975, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Text example" + }, + { + "id": 197241, + "strid": "97d7301c-28f6-4bb6-b111-bc934fd2d3a4", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1166.967, + 1543.33, + 579.9169999999999, + 697.8209999999999 + ], + "priority": 11, + "parents": [ + 197221 + ], + "children": [ + 197236 + ], + "area": 1801015.18011, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197236, + "strid": "37e19e2f-884d-49a0-999f-1b8aa74946f6", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1181.426, + 2252.869, + 467.826, + 51.26800000000003 + ], + "priority": 12, + "parents": [ + 197241 + ], + "children": [], + "area": 2661598.011194, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Comics example" + }, + { + "id": 197245, + "strid": "8b2a71ad-8a5c-40f1-ad03-30ece68ca669", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.727, + 2347.794, + 1617.001, + 198.16699999999992 + ], + "priority": 13, + "parents": [ + 197221 + ], + "children": [], + "area": 363267.122238, + "iscrowd": 0, + "segmentation": [], + "text": "Stimuli was 8 texts (Russian fairy-tales) and 8 comics (Herluf Bidstrup) with\ndifferent levels of wavelet blur.\n\nStudents watched all 8+8 stimuli, high school students watched 3 texts (1, 3\nand 5 level of blur) and 2 comics (1 and 3)." + }, + { + "id": 197244, + "strid": "d852f6a1-451d-401e-be6d-b41a5d0663a0", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 162.914, + 2556.007, + 722.901, + 514.2919999999999 + ], + "priority": 14, + "parents": [ + 197221 + ], + "children": [ + 197239 + ], + "area": 416409.32439799997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197239, + "strid": "8ea37364-272d-4f61-9443-5451521cc4e7", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 159.724, + 3099.419, + 350.203, + 48.791999999999916 + ], + "priority": 15, + "parents": [ + 197244 + ], + "children": [], + "area": 495051.60035599995, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Blur levels" + }, + { + "id": 197222, + "strid": "2808eb62-1cce-45c4-bc6d-183f1099319c", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1900.312, + 609.672, + 513.3270000000002, + 63.91999999999996 + ], + "priority": 16, + "parents": [ + 197246 + ], + "children": [ + 197232 + ], + "area": 1158567.017664, + "iscrowd": 0, + "segmentation": [], + "text": "Collected data:" + }, + { + "id": 197232, + "strid": "f1704809-63a0-4cbe-ae50-e9afb2e30cb4", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1901.724, + 680.672, + 1174.1629999999998, + 250.59299999999996 + ], + "priority": 17, + "parents": [ + 197222 + ], + "children": [], + "area": 1294450.278528, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197223, + "strid": "5e1602b2-0c7a-4493-80ae-5aaf5e6624e8", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1895.189, + 986.642, + 374.79600000000005, + 62.90599999999995 + ], + "priority": 18, + "parents": [ + 197246 + ], + "children": [ + 197230 + ], + "area": 1869873.0653380002, + "iscrowd": 0, + "segmentation": [], + "text": "Procedure:" + }, + { + "id": 197230, + "strid": "89d7e5da-af44-4a33-b0bd-0a2681a08734", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1893.26, + 1056.739, + 1237.039, + 301.9200000000001 + ], + "priority": 19, + "parents": [ + 197223 + ], + "children": [], + "area": 2000681.6791400001, + "iscrowd": 0, + "segmentation": [], + "text": "Task was to read text and watch comics. Subjects were\nnot limited in time. After each stimul, they were\ninterviewed about meaning and they were ask to scale\n(1-8) how they understand what they seen and how\nclearly they could perceive. They also were asked to retell\nthe story. For each trial we collected eye-tracking data." + }, + { + "id": 197224, + "strid": "a76dda93-bca5-49c1-988d-4e16571134d6", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1899.993, + 1404.925, + 320.42999999999984, + 64.74199999999996 + ], + "priority": 20, + "parents": [ + 197246 + ], + "children": [ + 197233 + ], + "area": 2669347.6655249996, + "iscrowd": 0, + "segmentation": [], + "text": "Methods:" + }, + { + "id": 197233, + "strid": "d03ff99f-265b-49d7-8673-96c69c2050c5", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1900.739, + 1475.682, + 1220.7779999999998, + 250.5809999999999 + ], + "priority": 21, + "parents": [ + 197224 + ], + "children": [], + "area": 2804886.328998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197225, + "strid": "be4892d4-47bb-49c1-a377-e368ef3f014c", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1901.476, + 1767.546, + 265.7739999999999, + 65.99299999999994 + ], + "priority": 22, + "parents": [ + 197246 + ], + "children": [ + 197228, + 197243, + 197242 + ], + "area": 3360946.297896, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 197242, + "strid": "3f6bd918-6f33-4db9-949d-0c1eaa38b8f6", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1874.93, + 1859.277, + 1015.0550000000001, + 472.01900000000023 + ], + "priority": 23, + "parents": [ + 197225 + ], + "children": [ + 197237 + ], + "area": 3486014.22561, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197237, + "strid": "a5b10016-eef7-4375-81d8-4df24e6dbcc6", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1894.005, + 2347.218, + 922.848, + 103.11099999999988 + ], + "priority": 24, + "parents": [ + 197242 + ], + "children": [], + "area": 4445642.62809, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4 Eye-tracking heatmap of reading text\namong groups B (left) and C (right)" + }, + { + "id": 197243, + "strid": "70df1f0c-044a-489e-bea5-d6a635304e0b", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1872.602, + 2461.512, + 958.2540000000001, + 562.6480000000001 + ], + "priority": 25, + "parents": [ + 197225 + ], + "children": [ + 197238 + ], + "area": 4609432.294224001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197238, + "strid": "786cc723-d4ff-41d1-8363-d5b20eb3f367", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1888.985, + 3073.829, + 1115.168, + 101.13700000000017 + ], + "priority": 26, + "parents": [ + 197243 + ], + "children": [], + "area": 5806416.8735650005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5 Eye-tracking heatmap of viewing comics (part)\namong groups CandA" + }, + { + "id": 197228, + "strid": "2ddb816f-34c5-40fd-8523-a7169f591388", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3225.177, + 660.297, + 1227.569, + 1336.996 + ], + "priority": 27, + "parents": [ + 197225 + ], + "children": [], + "area": 2129574.697569, + "iscrowd": 0, + "segmentation": [], + "text": "We found specific features of perception and\nunderstanding texts and images by group C students as\ncompared to their (group B).\n\nThe subjects of both groups bring their life experience\nin the plot while they retell the story.\n\nGroup C students are more focused on the emotional\naspect in the analysis of texts and images, on notions of\nsecurity events. They show a lower level of cognitive and\nvolitional activity when viewing a high degree of visual\nstimuli complexity. Group B students are more related to\nthe identification of main characters of the plot and\ntheir actions, security concepts are not fundamental in\nthe interpretation of the story the students.\n\nNormally developing peers (group A) are focused on the\nidentification of the key figures in terms of the changes\nhappening to them, ie, for their important procedural\nside event analysis.\n\nThis study can be used in general and special\neducation. It is proved that in the process of teaching\nstudents with mild mental retardation becomes\nexpedient to use simple visual stimuli in the form of\ntexts and a series of scene images, which contribute\nto the optimization of correctional and developmental\nwork process." + }, + { + "id": 197226, + "strid": "1f4d6303-d22f-4d9e-b079-8082e767b3e7", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3225.433, + 2045.016, + 399.578, + 66.51499999999987 + ], + "priority": 28, + "parents": [ + 197246 + ], + "children": [ + 197229 + ], + "area": 6596062.091928001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion:" + }, + { + "id": 197229, + "strid": "86de815f-037e-4bba-9811-876a6e778600", + "image_id": 208226, + "image_name": "9724.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3225.181, + 2116.44, + 1368.841, + 550.7849999999999 + ], + "priority": 29, + "parents": [ + 197226 + ], + "children": [], + "area": 6825902.07564, + "iscrowd": 0, + "segmentation": [], + "text": "Like normally developing students,adolescents with mixed\nspecific developmental disorders have the ability to identify key\nfigures in the plot and their action.Interpretation of non-verbal\nmeans of communication between characters becomes the\nleading cognitive basis for comprehension the plot of pictures\nby adolescents with mild mental retardation. In the analysis of\nadditional statements sustainable handling their own life\nexperience was identified, which becomes the dominant motive\nof their own security. Students with mild mental retardation\nhave low volitional activity and low speed of recognition when\nreading texts." + }, + { + "id": 78442, + "strid": "8a94217d-0728-4fa7-accd-0ee4aac60e46", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 101.79, + 366.72, + 415.69, + 93.86999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 78425, + 78428, + 78427, + 78426, + 78424 + ], + "area": 37328.4288, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78424, + "strid": "b2893463-523e-463e-af40-a2c733ad8bda", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 86.562, + 36.622, + 3468.97, + 298.091 + ], + "priority": 1, + "parents": [ + 78442 + ], + "children": [], + "area": 3170.073564, + "iscrowd": 0, + "segmentation": [], + "text": "FlatNJ: A novel network-based approach to visualize\nevolutionary and biogeographical relationships" + }, + { + "id": 78425, + "strid": "8ddae178-507e-428f-adc6-4d35bc272598", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 716.624, + 389.417, + 2202.9210000000003, + 83.63100000000003 + ], + "priority": 2, + "parents": [ + 78442 + ], + "children": [], + "area": 279065.568208, + "iscrowd": 0, + "segmentation": [], + "text": "Monika Balvocitté!, Andreas Spillner? and Vincent Moulton?" + }, + { + "id": 78426, + "strid": "9193aad4-860e-4e82-9c86-1c2ebe49ec11", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.138, + 532.706, + 68.92499999999998, + 303.975 + ], + "priority": 3, + "parents": [ + 78442 + ], + "children": [ + 78431, + 78432, + 78430, + 78429, + 78433 + ], + "area": 45353.52342800001, + "iscrowd": 0, + "segmentation": [], + "text": "ope} Tay" + }, + { + "id": 78429, + "strid": "afdb49e9-a3b5-4b5a-bf1c-79eeec3fc263", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 212.846, + 540.742, + 843.365, + 856.451 + ], + "priority": 4, + "parents": [ + 78426 + ], + "children": [], + "area": 115094.771732, + "iscrowd": 0, + "segmentation": [], + "text": "Motivation\n\nSplit networks are a type of phy-\nlogenetic-network designed to vi-\nsualize evolutionary scenarios by\nindicating possible conflict in the\ndata [1]. Such conflicts may be\ncaused by horizontal gene trans-\nfer, recombination, homoplasy or\nmethodological issues..Here we\npresent FlatNJ, a newsmethod for\ncomputing planar split networks,\nand its application to three\ndatasets." + }, + { + "id": 78430, + "strid": "64e40891-c43a-4df2-8031-cd38b219fa85", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1151.717, + 540.707, + 1143.4559999999997, + 599.064 + ], + "priority": 5, + "parents": [ + 78426 + ], + "children": [], + "area": 622741.4439190001, + "iscrowd": 0, + "segmentation": [], + "text": "Algorithm\n\nFlatNJ?;[2] computes networks from «small\nbuilding blocks (4-taxa networks) that are\nestimated from sequence data (similar to QNet\n[5]). This approach is more ‘complex than\ncommonly used distance matrices (e.g., [3],\n[4]), but more informative) was com-\nputed for fluorescent proteins\nfrom corals and their recon-\nstructed ancestral sequences [8]:\n\nRed= {R1_2,mcl1, Kaede}, -pre-\nRed={Red,G1 2}, Red/Green=\n{pre-Red, R2, mc2, me¢3,> mc4},\nALL= ({Red/Green, mb5,G5 2}.\nFlatNJ placed nodes. for all of the\nancestral sequences inside. Note\nthat NeighborNet cannot do this." + }, + { + "id": 78439, + "strid": "766494e6-3d95-4ee5-add5-69283fe7aa5a", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 955.557, + 3303.666, + 974.279, + 823.8239999999996 + ], + "priority": 12, + "parents": [ + 78427 + ], + "children": [], + "area": 3156841.1719620004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78434, + "strid": "779ab514-4f16-452a-b564-54f60ba5bb07", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2101.247, + 1592.022, + 1471.1659999999997, + 747.913 + ], + "priority": 13, + "parents": [ + 78427 + ], + "children": [], + "area": 3345231.4514339995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78436, + "strid": "90d112b9-9bf0-47eb-afff-dd2edea2b481", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2017.507, + 2362.349, + 1523.5459999999998, + 468.2399999999998 + ], + "priority": 14, + "parents": [ + 78427 + ], + "children": [], + "area": 4766055.643943001, + "iscrowd": 0, + "segmentation": [], + "text": "Phylogeography\n\nAykollari (oak gall wasp) is a species native to the Mediterra-\nnean and was introduced to the regions further to the north\nby three dipersal routes indicated in [6] (see the map @).\n\nA split network (see <) computed with FlatNJ for mitochond-:\nrial DNA sequences of-A-kollari agrees with these routes and\nreflects the geographicdistribution of the sampling locations." + }, + { + "id": 78437, + "strid": "bf4a7384-3261-4ef3-8725-62714f5f1e05", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2033.12, + 2894.69, + 770.4850000000001, + 722.02 + ], + "priority": 15, + "parents": [ + 78427 + ], + "children": [], + "area": 5885252.1328, + "iscrowd": 0, + "segmentation": [], + "text": "Recombination\nCirculating Recombinant Form\nof HIV-1 named CRF49 is a re-\ncombinant of subtypes J (48%\nof genome), A (23%), C (18%)\nand K (5%) [7].\n\nA split network computed with\nFlatNJ (see ») has 3. splits\ngrouping CRF49 with eachcof\nthe 3 subtypes that contributed\nmost to CRF49." + }, + { + "id": 78438, + "strid": "19248096-f04e-4abe-a976-b2d42badfce2", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2025.765, + 2882.057, + 1523.2410000000002, + 1298.9859999999999 + ], + "priority": 16, + "parents": [ + 78427 + ], + "children": [], + "area": 5838370.198605, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 78428, + "strid": "e2658624-4c9e-42ea-804d-63dab920f6ae", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 85.888, + 4215.812, + 69.59799999999998, + 446.1980000000003 + ], + "priority": 17, + "parents": [ + 78442 + ], + "children": [ + 78441 + ], + "area": 362087.66105600004, + "iscrowd": 0, + "segmentation": [], + "text": "ATR Te" + }, + { + "id": 78441, + "strid": "0507a4f6-dcb6-4b9d-83db-84cf8d7e77f3", + "image_id": 203561, + "image_name": "120474.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 215.353, + 4216.937, + 1532.75, + 474.0529999999999 + ], + "priority": 18, + "parents": [ + 78428 + ], + "children": [], + "area": 908130.033761, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192572, + "strid": "a6c88f2c-f425-4060-9d7f-4c6b8d38f69f", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 26.67, + 36.95, + 63.86, + 204.33999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 192559, + 192561, + 192558, + 192564, + 192560, + 192563, + 192562 + ], + "area": 985.4565000000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192563, + "strid": "5358367a-d9b3-45f8-8159-342904cfa9f1", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 122.863, + 40.565, + 2956.608, + 205.429 + ], + "priority": 1, + "parents": [ + 192572 + ], + "children": [], + "area": 4983.937594999999, + "iscrowd": 0, + "segmentation": [], + "text": "VITAMIN D STATUS IN KIDNEY TRASPLANT RECIPIENTS :\nAN ITALIAN COHORT REPORT" + }, + { + "id": 192564, + "strid": "b99f81b4-c5ed-4ec4-878b-b42ba3686373", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 29.499, + 271.893, + 3112.129, + 375.53299999999996 + ], + "priority": 2, + "parents": [ + 192572 + ], + "children": [], + "area": 8020.571606999999, + "iscrowd": 0, + "segmentation": [], + "text": "Yuri Battaglia (1), Silvia Forcellini(1), Elena Cojocaru (1), Fulvio Fiorini (2), Antonio Granata (3),\n\nLuigi Russo (4), Alda Storari (1), Domenico Russo (4)\n1 Nephrology and Dialysis Unit, Sant’ Anna University-Hospital, Ferrara, Italy; 2 Nephrology Unit, Rovigo Hospital, Italy\n3 Nephrology and Dialysis Unit, San Giovanni di Dio Hospital, Agrigento, Italy; 4 Department of Public Health, Federico II University,\n\nNaples, Italy" + }, + { + "id": 192562, + "strid": "47e18e37-8462-4bce-89f7-9b978bfc9574", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 47.351, + 677.037, + 758.379, + 58.27999999999997 + ], + "priority": 3, + "parents": [ + 192572 + ], + "children": [ + 192571 + ], + "area": 32058.378987, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION AND AIMS" + }, + { + "id": 192571, + "strid": "bc803995-ee88-4dce-9599-028747a32e2d", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 35.444, + 772.263, + 1478.355, + 1125.9880000000003 + ], + "priority": 4, + "parents": [ + 192562 + ], + "children": [], + "area": 27372.089772000003, + "iscrowd": 0, + "segmentation": [], + "text": "Abnormal low levels of vitamin D are frequent in both general\npopulation and in patients with chronic kidney disease.\n\nIn kidney transplant recipients, serum vitamin D levels are\nreported to increase from early post-transplant period. In this\npopulation, however, the assessment of vitamin D levels is not\nroutinely performed despite the pleiotropic action of the\nhormone involved in both bone health control and in the\nreduction of diabetes, cardiovascular disease and cancer.\n\nTherefore, it is clinically relevant to assess calcidiol\nconcentration and find any potential factor which may affect its\nconcentration.\n\nThe aim of this cross-sectional study is to assess the levels of\nserum calcidiol and find out any potential factor associated with\nlow calcidiol concentration in kidney transplant patients." + }, + { + "id": 192561, + "strid": "e7b1a61e-feb2-43a0-b94e-00f840a861b2", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 43.696, + 1921.51, + 296.66499999999996, + 58.233999999999924 + ], + "priority": 5, + "parents": [ + 192572 + ], + "children": [ + 192570 + ], + "area": 83962.30096, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 192570, + "strid": "2502725d-e1c8-469f-8c14-0f065fc29ed3", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 37.965, + 2016.714, + 1474.921, + 958.172 + ], + "priority": 6, + "parents": [ + 192561 + ], + "children": [], + "area": 76564.54701000001, + "iscrowd": 0, + "segmentation": [], + "text": "132 kidney transplant recipients, followed in one nephrology\nunit, were enrolled.\n\nThe analyzed variables were immunosuppressive agents,\nsupplementary intake of calcidiol or 1-25-dihydroxyvitamin D,\nintact PTH, eGFR, serum calcium, serum phosphorus, urinary\ncalcium excretion, urinary phosphorus excretion, lactate\ndehydrogenase, creatine phosphokinase, total protein, albumin.\n\nOn the basis of serum calcidiol levels patients were classified as\nsuffering from hormone insufficiency (< 30 ng/mL), deficiency\n(< 20 ng/mL) or severe deficiency (<10 ng/mL). Hip and\nlumbar spine BMD was measured by dual-energy X-ray\nabsorptiometry (DXA)." + }, + { + "id": 192558, + "strid": "01161aa1-9f94-49e2-810a-d84023918829", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 51.006, + 3012.48, + 316.144, + 71.26899999999978 + ], + "priority": 7, + "parents": [ + 192572 + ], + "children": [ + 192567, + 192566 + ], + "area": 153654.55488, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS 1" + }, + { + "id": 192567, + "strid": "5da7371c-5c60-4a38-b435-e1b7e62b31c3", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.116, + 3111.272, + 1493.364, + 1029.527 + ], + "priority": 8, + "parents": [ + 192558 + ], + "children": [], + "area": 143479.419552, + "iscrowd": 0, + "segmentation": [], + "text": "Cohort clinical characteristics and blood chemistry are listed in\nTab 1.\n\nPrimary renal diseases were: glomerulonephritis (40.9%),\nADPKD (18.2%), hypertension (3%), diabetes mellitus (4.5%),\ninterstitial nephritis (9.8%), other diseases (23.6%).\n\nMean serum calcidiol levels were 17.5+8.7 ng/mL. Vitamin D\ninsufficiency, deficiency and severe deficiency was observed in\n19.7 %, 34.5 %, 34.1%, respectively. No differences were\nobserved between males (15.9+8.8 ng/mL) and females\n(14.5+8,5 ng/mL), seasonal blood collections (winter/autumn\n15.4+8.6 ng/mL VS summer/spring 16.0+9.6 ng/mL) or\nexposure to sunlight (outdoor job 16.5+8.9 ng/mL VS indoor job\n13.1+8.0 ng/mL)." + }, + { + "id": 192566, + "strid": "175f3de0-165f-4c89-be32-285d377967c8", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1567.934, + 707.735, + 1456.8459999999998, + 1446.17 + ], + "priority": 9, + "parents": [ + 192558 + ], + "children": [ + 192565 + ], + "area": 1109681.76949, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 192565, + "strid": "8eb4d79a-23c8-45d2-af58-e30aa84aae3a", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1562.013, + 659.053, + 1324.011, + 42.28399999999999 + ], + "priority": 10, + "parents": [ + 192566 + ], + "children": [], + "area": 1029449.3536889999, + "iscrowd": 0, + "segmentation": [], + "text": "Tab 1: CLINICAL CHARACTERISTICS AND BLOOD CHEMISTRY OF PATIENTS." + }, + { + "id": 192560, + "strid": "8b5d202a-5bda-4546-ab8c-00393d000eb9", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1587.866, + 2235.826, + 300.34799999999996, + 69.05000000000018 + ], + "priority": 11, + "parents": [ + 192572 + ], + "children": [ + 192569 + ], + "area": 3550192.087316, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS 2" + }, + { + "id": 192569, + "strid": "1798085d-ec56-4e1b-86f1-079b611eab43", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1585.717, + 2333.415, + 1520.3560000000002, + 818.6530000000002 + ], + "priority": 12, + "parents": [ + 192560 + ], + "children": [], + "area": 3700135.8335550004, + "iscrowd": 0, + "segmentation": [], + "text": "Only 9.8 % of the patients had normal calcidiol levels. In an\nunivariate analysis, calcidiol levels were associated with eGFR\n(r= ,180; p=0.04), PTH (r= -,334; p=0.01), serum calcium (r= ,\n208; p=0.02) and PTH (r=-0.254, P<0.001).\n\nOn multiple regression analysis, PTH (Beta= -252; p=0.003) and\nserum calcium (Beta= ,180; p=0.03) predicted levels of calcidiol/\nOn multiple regression analysis, levels of calcidiol were expected\nwith PTH (Beta= -252; p=0.003) and serum calcium (Beta= ,180;\np=0.03).\n\nIn 53% of the patients, BMD T-score from lumbar spine\n(-1.48+0.95) and hip (-1.27+1.4) was considered osteopenia\naccording to WHO." + }, + { + "id": 192559, + "strid": "972cb524-58ab-4d6f-94ce-9b64ef883e0d", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1598.83, + 3260.322, + 420.99400000000014, + 59.228999999999814 + ], + "priority": 13, + "parents": [ + 192572 + ], + "children": [ + 192568 + ], + "area": 5212700.62326, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 192568, + "strid": "1b947424-6389-4594-87bb-1c16f5ffd1c7", + "image_id": 208021, + "image_name": "9240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1596.212, + 3350.128, + 1479.942, + 549.8789999999999 + ], + "priority": 14, + "parents": [ + 192559 + ], + "children": [], + "area": 5347514.515136, + "iscrowd": 0, + "segmentation": [], + "text": "Low levels of calcidiol are very frequent in kidney transplant\npatients. Less than 10% of the patients have normal serum\nconcentration of calcidiol. By contrast, PTH and calcium serum\nconcentrations influence calcidiol levels.\n\nThese findings should be taken into account in kidney transplant\nrecipients with low calcidiol levels, who may benefit from oral\nvitamin D supplementation" + }, + { + "id": 100976, + "strid": "43248889-1a05-4c06-b7bb-670c7d050fbc", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 185.73, + 5.49, + 76.51000000000002, + 41.129999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 100974, + 100962, + 100973, + 100959, + 100970, + 100956, + 100971, + 100957, + 100958, + 100972, + 100963, + 100961, + 100975, + 100960 + ], + "area": 1019.6577, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100959, + "strid": "a1bafba3-602b-46c3-a34c-ea85a26012f1", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 293.706, + 12.817, + 395.158, + 24.446999999999996 + ], + "priority": 1, + "parents": [ + 100976 + ], + "children": [], + "area": 3764.429802, + "iscrowd": 0, + "segmentation": [], + "text": "Temporal Yoking in Target Detection" + }, + { + "id": 100960, + "strid": "7db035fa-f845-4edb-ba6e-5eac2a0a1abd", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 324.009, + 39.889, + 335.59899999999993, + 37.451 + ], + "priority": 2, + "parents": [ + 100976 + ], + "children": [], + "area": 12924.395001, + "iscrowd": 0, + "segmentation": [], + "text": "Mary C. Potter, Carl Erick Hagmann & Quan Wan\nMassachusetts Institute of Technology" + }, + { + "id": 100971, + "strid": "bbbcf31e-ea7e-483a-b9bc-9f928e600beb", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 26.461, + 81.555, + 53.59, + 8.548000000000002 + ], + "priority": 3, + "parents": [ + 100976 + ], + "children": [ + 100964 + ], + "area": 2158.026855, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 100964, + "strid": "99d7cfd1-1f39-448c-8b45-d07bf49430d5", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 26.069, + 92.421, + 150.064, + 136.757 + ], + "priority": 4, + "parents": [ + 100971 + ], + "children": [], + "area": 2409.323049, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 100972, + "strid": "4e7ac33f-9706-4fcf-8a93-f005ea7edd39", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 5, + "category_name": 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Timing, p01; dso,\noc OOIsMRodality. 2, See finote." + }, + { + "id": 100974, + "strid": "6952d600-66e0-4b8f-bc7b-281333fa4d1c", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 810.288, + 78.513, + 44.14499999999998, + 8.463999999999999 + ], + "priority": 21, + "parents": [ + 100976 + ], + "children": [ + 100967 + ], + "area": 63618.14174400001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 100967, + "strid": "265163b5-90ae-4e0f-af29-3a2fee68e359", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 810.009, + 89.666, + 160.08299999999997, + 219.60200000000003 + ], + "priority": 22, + "parents": [ + 100974 + ], + "children": [], + "area": 72630.266994, + "iscrowd": 0, + "segmentation": [], + "text": "enn et aa me Nance onset ovon'y\n250-500 ms is sulicent to get the\nbenef of having the nae before the\npce, Spoken and written names\nfave similar esl. Destin is Wel\nShove che in all ondion eorpng\n‘litle witha nae delay of 13\nBecause the spoken name unfold\nover a half second o ore, detection\n0128s before the sequence (Exp. 4) was\nfomevhat lower than forthe writen\nname, prodcing a ore ral shit\nfom before wo after he age pir.\n‘Overall the high vel of deco\nsupose hypothesis af Pte ta\nNs) tha feedforward processing\nrafficlen fe arive a a conceptual\nofseenes objets and" + }, + { + "id": 100975, + "strid": "bd812692-5b72-4c19-870d-7a6028faaaf6", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 809.948, + 333.236, + 51.03899999999999, + 9.055000000000007 + ], + "priority": 23, + "parents": [ + 100976 + ], + "children": [ + 100969, + 100968 + ], + "area": 269903.83172799996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 100968, + "strid": "537d7b26-09aa-4cb4-8c14-131e622425ef", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 809.29, + 346.15, + 158.73699999999997, + 114.51999999999998 + ], + "priority": 24, + "parents": [ + 100975 + ], + "children": [], + "area": 280135.7335, + "iscrowd": 0, + "segmentation": [], + "text": "‘Detection in this study requid a.\nmatch betneen amodal conceptual\ninformation about a nanne and @\nscene. The nani needed to be resent\nonly $00 ms paken) or 250.\nwrites) before the RSVP sequence to\ngive an advance beneiindaig that\nthe meaning ofthe mame Was\nundersibod and matched tothe" + }, + { + "id": 100969, + "strid": "da544420-fe34-4b8c-950d-003e2e2e97ab", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 809.824, + 474.068, + 159.79100000000005, + 33.40499999999997 + ], + "priority": 25, + "parents": [ + 100975 + ], + "children": [], + "area": 383911.644032, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 100970, + "strid": "687de58d-4b0f-4a27-893a-ddf9a10e4015", + "image_id": 204402, + "image_name": "122057.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 810.189, + 512.245, + 159.851, + 33.525999999999954 + ], + "priority": 26, + "parents": [ + 100976 + ], + "children": [], + "area": 415015.26430499996, + "iscrowd": 0, + "segmentation": [], + "text": "mac aa ce tn Po\naesig ts BEIT" + }, + { + "id": 50999, + "strid": "783e948f-864c-4443-bcb4-a951f82cc43c", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 581.06, + 111.59, + 257.56000000000006, + 416.04999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 50970, + 50974, + 50971, + 50969, + 50973, + 50972, + 50975 + ], + "area": 64840.4854, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50969, + "strid": "22411eb6-ab1c-4adb-b14f-65acb2e9e7ad", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1114.586, + 77.596, + 3354.1409999999996, + 279.512 + ], + "priority": 1, + "parents": [ + 50999 + ], + "children": [], + "area": 86487.41525600001, + "iscrowd": 0, + "segmentation": [], + "text": "MULTIPLE IMPAIRMENTS OF CUTANEOUS piebeeereraliahed\nFUNCTION BY ADRIAMYCIN\n\n{> ¢" + }, + { + "id": 50970, + "strid": "dc6a0656-9aa4-4dcf-bd7d-bff9c23ae95c", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 931.026, + 423.857, + 3729.6040000000003, + 362.94800000000004 + ], + "priority": 2, + "parents": [ + 50999 + ], + "children": [], + "area": 394621.887282, + "iscrowd": 0, + "segmentation": [], + "text": "Boros,K, <“Katona,M, Oszlacs,O, Dux,M, Santha,P, Jancso,G_\nDepartment of Boe) and *Department of Boel taalecy University of Szeged, tr 10, H-6720,\n2 syeteXeo fen Ul at eee] a) ow" + }, + { + "id": 50971, + "strid": "71565513-354f-453c-8d5c-081498d61255", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 136.775, + 877.368, + 705.438, + 72.976 + ], + "priority": 3, + "parents": [ + 50999 + ], + "children": [ + 50976 + ], + "area": 120002.00820000001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50976, + "strid": "1093ba0d-2439-4980-8d74-04a9fba91dd3", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.725, + 1068.502, + 1353.104, + 440.8989999999999 + ], + "priority": 4, + "parents": [ + 50971 + ], + "children": [], + "area": 174940.48995, + "iscrowd": 0, + "segmentation": [], + "text": "Despite of their chronic cardiotoxic effects, anthracyclines are still commonly used\nfor the treatment of various malignancies as first line chemotherapeutics. Previously\nwe have shown, that chemosensitive cardiac sensory nerves exert a protective effect\nagainst ischemia/reperfusion injury? and adriamycin-induced cardiomypathy?. In this\nstudy we examined the effects of cardiotoxic doses of adriamycin on the morphology\nand function of cutaneous chemosensitive afferent nerves which express the\ntransient receptor potential vanilloid type 1 (TRPV1) and/or the transient receptor\npotential ankyrin type 1 (TRPA1) receptors." + }, + { + "id": 50973, + "strid": "ca4e490e-92bf-49f5-aff9-c93657d11149", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 144.425, + 1737.061, + 1215.67, + 81.44699999999989 + ], + "priority": 5, + "parents": [ + 50999 + ], + "children": [ + 50993, + 50997, + 50995, + 50977, + 50996, + 50994 + ], + "area": 250875.034925, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50977, + "strid": "e38c54e8-5ce2-4d39-a582-1a792197a160", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 141.696, + 1870.663, + 1373.498, + 252.36200000000008 + ], + "priority": 6, + "parents": [ + 50973 + ], + "children": [], + "area": 265065.464448, + "iscrowd": 0, + "segmentation": [], + "text": "This study conformed fully with the “Principles of laboratory animal care” (NIH publication No. 85-23,revised\n1985) and was approved in advance by the Animal Research Ethics Committee of the University of Szeged.\nAdriamycin treatment\n\nAdult male Wistar rats weighing 250-280 g at the start of the experiments were used in this study. Two groups\nof animals received cumulative doses of 7.5 and 15 mg/kg of adriamycin (Pharmacia Italia, Milan, Italy) by the\nintravenous injection of 2.5 mg/kg of the drug three times a week for 1 and 2 weeks, respectively. The control\nrats received equivalent amounts of the vehicle (saline)." + }, + { + "id": 50993, + "strid": "638e1ab7-2f35-41f5-a914-28184fb4d747", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 144.357, + 2131.99, + 1374.501, + 466.6970000000001 + ], + "priority": 7, + "parents": [ + 50973 + ], + "children": [], + "area": 307767.68042999995, + "iscrowd": 0, + "segmentation": [], + "text": "Measurement of chemically-induced neurogenic cutaneous vasodilatation and plasma extravasation\nAnimals were anesthetized with chloral hydrate (400 mg/kg, i.p.). Body temperature was kept at 37.5 + 0.5 °C\nwith a heating pad. Cutaneous blood flow (CuBF) was measured with a flow probe of a Laser Doppler Blood\nFlow (LDF) Monitor (Moor Instruments Ltd, England) positioned over the dorsum of the foot. After a stable\nLDF signal was attained, 20 uls of mustard oil (0.2% in ethanol, allyl-isothiocyanate, Merck) were applied with\nthe aid of a small trough mounted onto the skin, and CuBF was recorded for 15-25 min. This procedure was\nrepeated 45 min later using a higher concentration of mustard oil (1%). For quantitative analysis, the relative\nincreases of CuBF were determined by calculating the mean of the recorded LDF signal values of consecutive 1\nmin intervals after mustard oil challenge. The relative increases in the CuBF values were determined by\ndividing the actual CuBF data with the corresponding control CuBF value (mean of a 3 min period before the\napplication of mustard oil). Neurogenic plasma extravasation was evoked by painting the skin with capsaicin\nor mustard oil, and quantified using the Evans blue technique?. Tissue dye content was expressed in yg /g\ntissue as meantS.E.M." + }, + { + "id": 50994, + "strid": "87364e77-f98a-4d08-8e9b-13b3ab13a3ea", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 146.418, + 2606.098, + 1369.0029999999997, + 251.55299999999988 + ], + "priority": 8, + "parents": [ + 50973 + ], + "children": [], + "area": 381579.656964, + "iscrowd": 0, + "segmentation": [], + "text": "Measurement of mechanical and thermal nociceptive paw withdrawal thresholds and carregeenan-induced\nhyperalgesia\n\nThe nociceptive withdrawal response to radiant heat stimulation was measured with Hargreaves’ method’.\nMechanical nociceptive threshold was measured with a dynamic plantar aesthesiometer (UgoBasile). For the\nassessment of carrageenan-induced hyperalgesia 3 mg carrageenan in 0.1 ml physiological saline was given\ninto the plantar skin of the right hind paw of the rats. Thermal and mechanical nociceptive thresholds of both\nhind paws were measured before and three hours after the injection of carrageenan." + }, + { + "id": 50995, + "strid": "970c5442-dc12-4d8c-980c-500a0bdae720", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 147.682, + 2863.971, + 1369.003, + 396.92300000000023 + ], + "priority": 9, + "parents": [ + 50973 + ], + "children": [], + "area": 422956.96522199997, + "iscrowd": 0, + "segmentation": [], + "text": "Measurement of ex vivo CGRP release\n\nThe animals were anaesthetized with chloral hydrate (400 mg/kg, i.p.), decapitated, and the sciatic and\nsaphenous nerves removed. The nerves were carefully freed from the epineurium washed with oxygenated\nSIF at room temperature for 30 minutes, and then placed into Eppendorf tubes in a water bath filled with\noxygenated SIF containing 16 4M Tiorphan (Sigma) and 0.1% serum bovine albumin (Sigma). After ten\nminutes the SIF samples were carefully collected by a pipette into siliconised Eppendorf tubes, and replaced\nby 400 ul modified SIF containing 60 mM potassium or 10uM capsaicin. After incubation for 10 min, the\nsuperfusates were collected and the wet tissue weight of the nerves was measured. All samples were\nimmediately frozen at -70 °C for later analysis. The CGRP content of the samples was measured with enzyme-\nlinked immunoassay (ELISA, SPlbio, France ). The data were expressed as mean + S.E.M. of the ratio of the\ncapsaicin- or high potassium induced CGRP release compared to that of the basal values." + }, + { + "id": 50996, + "strid": "becca605-cfd5-4cdc-8182-cf81bf7f3f2a", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 142.815, + 3267.094, + 1375.599, + 322.59000000000015 + ], + "priority": 10, + "parents": [ + 50973 + ], + "children": [], + "area": 466590.02961, + "iscrowd": 0, + "segmentation": [], + "text": "Immunchistochemistry\n\nFor morphological studies rats were deeply anaesthetized with ether and perfused transcardially with saline\nfollowed by a formaldehyde fixative. The plantar skin was dissected out, postfixed for 3 hours, immersed into\na buffered sucrose solution, and sections cut in a cryostat at 15 um were processed for standard\nimmunohistochemical examination using a rabbit polyclonal antiserum raised against the TRPV1-receptor\n(1:1000-1:1500, Alomone Laboratories, Jerusalem, Israel) and a mouse polyclonal antiserum raised against\nTubulin 3 (1:1000, Sigma ). Specimens were analyzed by using a Zeiss LSM 700 Axio Observer Z1 confocal laser\nscanning microscope at an objective magnification of 40X. Epidermal nerve fiber density was evaluated by\nusing stereological methods>." + }, + { + "id": 50997, + "strid": "1738a6af-3edd-40e8-b1f4-4e3fd553d6ae", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 145.438, + 3597.552, + 1370.353, + 213.7489999999998 + ], + "priority": 11, + "parents": [ + 50973 + ], + "children": [], + "area": 523220.76777599996, + "iscrowd": 0, + "segmentation": [], + "text": "Statistics\n\nFor statistical comparison of blood flow values, two way ANOVA was performed with pairwise comparisons\nbased on estimated marginal means using Bonferroni correction. For comparisons of tissue Evans blue dye\ncontents one way ANOVA was used. For comparison of paw withdrawal latency values independent sample t-\ntest was used. Student-t test was used to analyze the results of in vitro CGRP release experiments, and\nimmunohistochemical findings. In all comparisons p< 0.05 was accepted as a significant difference." + }, + { + "id": 50972, + "strid": "d16e189d-9897-4d08-ac47-591a3a6a1855", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1598.937, + 673.28, + 384.64599999999996, + 74.49699999999996 + ], + "priority": 12, + "parents": [ + 50999 + ], + "children": [ + 50988, + 50990, + 50979, + 50978, + 50982, + 50983, + 50986, + 50984, + 50989, + 50987, + 50998, + 50985, + 50981, + 50991 + ], + "area": 1076532.3033599998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50983, + "strid": "1aa072e2-8cc5-498a-af56-1ea8a6d2c26a", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1584.561, + 1055.057, + 1422.233, + 736.712 + ], + "priority": 13, + "parents": [ + 50972 + ], + "children": [], + "area": 1671802.1749769999, + "iscrowd": 0, + "segmentation": [], + "text": "Effect of adriamycin on chemically-induced neurogenic cutaneous vasodilatation and\nplasma extravasation\n\nIn control rats, cutaneous applications of mustard oil at concentrations of 0.2 and 1%\nproduced dose-dependent increases in skin blood by 54+11% and 121+11%, respectively.\nAdriamycin treatment resulted in dose-dependent decreases of mustard oil-induced\ncutaneous vasodilatation. After the administration of a cumulative dose of 7.5 mg/kg\nadriamycin, the increase in blood flow elicited with 1% mustard oil was reduced by 51%,\nwhereas the vasodilatatory effect of 0.2% mustard oil was not affected significantly.\nHowever, in animals treated with a cumulative dose of 15 mg/kg adriamycin, the increase\nin skin blood flow was markedly and significantly reduced in response to both the 0.2 and\n1% concentrations of mustard oil, and amounted to 43 % and 29%, respectively.\n\nIn control rats, cutaneous applications of both mustard oil (5%) and capsaicin (1%)\nresulted in marked plasma protein extravasation. After a cumulative dose of 15 mg/kg\nadriamycin, these responses were practically completely abolished. Similarly, in\nadriamycin treated animals, cutaneous application of capsaicin produced little or no\nextravasation" + }, + { + "id": 50989, + "strid": "1d89830e-b5bf-4081-b968-7735300ac956", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1620.26, + 1846.545, + 1125.635, + 2764.718 + ], + "priority": 14, + "parents": [ + 50972 + ], + "children": [], + "area": 2991883.0017, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50982, + "strid": "a8f42b54-206e-4436-ac83-13e1a2b6e9e5", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2494.701, + 2279.023, + 377.65999999999985, + 368.3119999999999 + ], + "priority": 15, + "parents": [ + 50972 + ], + "children": [], + "area": 5685480.957123, + "iscrowd": 0, + "segmentation": [], + "text": "Plasma extravasation induced by\nmustard oil (5%) and capsaicin\n(1%) in control animals (dark\nblue bars), in rats given a\ncumulative dose of 7.5 mg/kg\n(light blue bar) and 15 mg/kg\n(open bars) adriamycin.\n\nEach bar reflects the mean\ncutaneous dye content of 6-10\nanimals.\n\n* Significant difference, p<0.05" + }, + { + "id": 50984, + "strid": "3c410b8a-7f20-4b12-8ab9-e9e029dfb8b8", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3070.704, + 1050.605, + 769.462, + 60.412000000000035 + ], + "priority": 16, + "parents": [ + 50972 + ], + "children": [], + "area": 3226096.97592, + "iscrowd": 0, + "segmentation": [], + "text": "EFFECT OF ADRIAMYCIN PRETREATMENT ON CHEMICALLY-EVOKED\nCUTANEOUS SENSORY NEUROGENIC VASODILATATION" + }, + { + "id": 50998, + "strid": "6820fd84-1955-4d14-99c9-a7ede6e138a5", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 3081.194, + 1142.862, + 758.5839999999998, + 445.595 + ], + "priority": 17, + "parents": [ + 50972 + ], + "children": [], + "area": 3521379.5372280004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50985, + "strid": "f37ca471-db48-43a2-9c59-c4ac3db3e0bf", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3078.653, + 1608.624, + 750.3849999999998, + 62.00199999999995 + ], + "priority": 18, + "parents": [ + 50972 + ], + "children": [], + "area": 4952395.103472, + "iscrowd": 0, + "segmentation": [], + "text": "Values (meantS.E.M.) are expressed as percentage changes in skin\nblood flow. * Significantly different from the control, p<0.05." + }, + { + "id": 50990, + "strid": "1f90c959-d471-4dec-857c-bf4d935f5850", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2939.692, + 1685.554, + 1009.6689999999999, + 1419.815 + ], + "priority": 19, + "parents": [ + 50972 + ], + "children": [], + "area": 4955009.609368, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50986, + "strid": "eef8a478-d4ce-466d-bf72-207ddba8e1a9", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3708.213, + 1754.886, + 244.82900000000018, + 378.37199999999984 + ], + "priority": 20, + "parents": [ + 50972 + ], + "children": [], + "area": 6507491.078718, + "iscrowd": 0, + "segmentation": [], + "text": "CuBF RECORDINGS\n\nApplication of 0.2%\nmustard oil (arrow)\nalmost doubles the\nbasal blood flow in\nthe control rat, but\nhardly results in any\nchanges in the blood\nflow of the\nadriamycin treated\nrat." + }, + { + "id": 50988, + "strid": "bfb694f0-fb77-4938-9b94-d9b8d3642212", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2914.8, + 3163.243, + 1028.846, + 129.8989999999999 + ], + "priority": 21, + "parents": [ + 50972 + ], + "children": [], + "area": 9220220.6964, + "iscrowd": 0, + "segmentation": [], + "text": "Axonal release of CGRP induced by depolaristaion(green) and by 10u.M capsaicin(pink) in\ncontrol animals (light colored bars) and rats treated with 15 mg/kg adriamycin (dark bars) is\nmeasured in the saphenous (left) and sciatic (right) nerves. * significantly different of\ncontrol, p<0.05. Each Bar show a Mean+S.E.M. of 5-8 animals" + }, + { + "id": 50978, + "strid": "bda55f07-4908-4ba1-8e41-4d3f21bbd802", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2889.192, + 3360.652, + 1058.5280000000002, + 508.692 + ], + "priority": 22, + "parents": [ + 50972 + ], + "children": [], + "area": 9709568.873184001, + "iscrowd": 0, + "segmentation": [], + "text": "Effect of adriamycin treatment on axonal! CGRP release\n\nIn sciatic nerves obtained from control rats, capsaicin (10 uM)\nelicited an increase by 325 + 32% of CGRP release as compared to\nthe basal release. In sciatic nerves of rats pretreated with\nadriamycin (15 mg/kg), capsaicin-induced release of CGRP was\nsignificantly reduced and amounted to only 163 + 28% as\ncompared to the basal value. In contrast, high potassium induced\nCGRP release was similar in control and adriamycin-treated rats\n(346+38%vs336+40%). Similarly, in the saphenous nerves,\ncapsaicin-induced but not high potassium-induced release of\nCGRP was markedly reduced after adriamycin treatment." + }, + { + "id": 50979, + "strid": "aed79912-d457-4701-abaf-003372d26957", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2885.033, + 3915.885, + 1065.2729999999997, + 698.116 + ], + "priority": 23, + "parents": [ + 50972 + ], + "children": [], + "area": 11297457.449205, + "iscrowd": 0, + "segmentation": [], + "text": "Effect of adriamycin treatment on intraepidermal nerve fiber\ndensity\n\nDouble immunostaining with antibodies against tubulin 3 and\nTRPV1 revealed that almost all intraepidermal axons are TRPV1-\npositive. Adriamycin treatment resulted in a marked reduction of\nintraepidermal nerve fibers. Quantitative estimation using\nstereological methods demonstrated that in control animals the\ndensity of TRPV1-immunoreactive nerve fibers amounted to\n1.065+0.03 um/um3(total fiber length/unit epidermal volume). In\nrats treated with adriamycin, the density of TRPV1-\nimmunoreactive intraepidermal axons decreased to 0.417+0.12\nuum/um3?. In accord with these findings, the density of tubulin-\nimmunoreactive axons was markedly reduced after adriamycin\ntreatment (control: 1.075+£0.03 um/um?, adriamycin: 0.503+0.06\num/um?." + }, + { + "id": 50991, + "strid": "2ebb76f8-723f-4d52-902c-f30dbc497d1a", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 4026.061, + 1039.603, + 1348.2149999999997, + 718.827 + ], + "priority": 24, + "parents": [ + 50972 + ], + "children": [], + "area": 4185505.0937830005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 50987, + "strid": "551fa0c4-fa22-4373-8a17-fbe190a2d6c5", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4030.942, + 1769.194, + 1324.3019999999997, + 131.95299999999997 + ], + "priority": 25, + "parents": [ + 50972 + ], + "children": [], + "area": 7131518.400748, + "iscrowd": 0, + "segmentation": [], + "text": "Heat withdrawal latencies (s) and mechanical nociceptive threshold (g) were measured before (BASAL) and 3 hours\nafter the injection of 3mg carrageenan (CARR) into the plantar skin of the right paw. The profound heat hyperalgesia\nand mechanical allodynia, that develops in the control rats, is practically missing in the adriamycin-treated group\n(number of animals=4/group),*significantly different from basal, p<0.05" + }, + { + "id": 50981, + "strid": "4c8cec21-e4f6-450b-ab06-f8120545d420", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4056.316, + 2077.512, + 1385.8890000000001, + 928.2359999999999 + ], + "priority": 26, + "parents": [ + 50972 + ], + "children": [], + "area": 8427045.165792, + "iscrowd": 0, + "segmentation": [], + "text": "Effect of adriamycin on nociceptive mechanical and thermal paw withdrawal\nthresholds and on carrageenan-hyperalgesia\n\nTo test the nociceptive functions of cutaneous sensory nerves, paw withdrawal reflex\nresponses to radiating heat and punctate mechanical stimuli were studied by\nHargreaves’ method, and dynamic von Frey aesthesiometer. In control rats, paw\nwithdrawal latency to radiant heat stimuli was 10.65+0.51 s. In rats treated with a\ncumulative dose of 15 mg/kg adriamycin, nociceptive heat withdrawal latencies were\nsignificantly increased to 15.03+0.54 s. (n=10 for each group). In contrast, there were\nno significant changes in the mechanical nociceptive threshold.\n\nTo examine the effect of adriamycin on carrageenan-induced hyperalgesia, heat\nwithdrawal latencies were measured before and three hours after the injection of\ncarrageenan into the plantar skin of the right paw. In controls, heat withdrawal\nlatencies decreased significantly from 11.574043 s to 4.25+ 0.13 s indicative of thermal\nhyperalgesia. In adriamycin-pretreated animals the basal heat withdrawal latency was\nsignificantly elevated as compared to the control (16.07+ 0.57s vs11.57+0.43 s), and it\ndid not change significantly after carrageenan injection (14.23+1.83 s).\n\nIn control rats, mechanical nociceptive threshold decreased significantly after injection\nof carrageenan (control: 49+ 1.16 g, carrageenan: 19.33+5.6 g). However, in adriamycin-\ntreated animals only slight, non-significant decreases in mechanical nociceptive\nthreshold were observed (control: 48.6 +2.92, carrageenan: 39,2 g)." + }, + { + "id": 50975, + "strid": "595a7cf7-f6f4-4adb-83a6-8c04444c13bb", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4055.906, + 3215.602, + 647.9430000000002, + 75.41400000000021 + ], + "priority": 27, + "parents": [ + 50999 + ], + "children": [ + 50980 + ], + "area": 13042179.445411999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50980, + "strid": "01efe5e2-32de-4dfe-8bc2-d41b9cb6be06", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4061.488, + 3401.347, + 1378.1330000000003, + 923.0639999999999 + ], + "priority": 28, + "parents": [ + 50975 + ], + "children": [], + "area": 13814530.024336, + "iscrowd": 0, + "segmentation": [], + "text": "Administration of adriamycin at doses inducing cardiomyopathy in animal models\nresulted in multiple impairments of cutaneous sensory functions mediated by afferent\nnerves which express the nociceptive ion channels TRPV1 and TRPA1. Cutaneous\nneurogenic vasodilatation and plasma extravasation were significantly reduced after\nadriamycin, Pretreatment with adriamycin increased nociceptive heat withdrawal\nthreshold and reduced carrageenan-induced heat hyperalgesia. Adriamycin treatment\ndecreased capsaicin-induced axonal peptide release, while depolarization-induced\nCGRP release was not affected. Quantitative immunohistochemistry revealed a\nprofound reduction in epidermal nerve fiber density which, at least in part, may be\nresponsible for these functional impairments. The adriamycin-induced sensory\nchanges appeared prior to the manifestations of the cardiotoxic effects. The present\nfindings, therefore, suggest that sensory testing may be utilized for monitoring\nanthracycline-induced neurotoxic effects on cutaneous chemosensitive afferent nerves\nwhich show great resemblance in function and neurochemical phenotype with cardiac\nafferent nerves exerting a protective effect against adriamycin-induced (experimental)\ncardiomyopathy." + }, + { + "id": 50974, + "strid": "957752e4-0641-4250-b2b7-2ca763aea39c", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 140.547, + 3968.2, + 557.138, + 76.95299999999997 + ], + "priority": 29, + "parents": [ + 50999 + ], + "children": [ + 50992 + ], + "area": 557718.6054, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 50992, + "strid": "4e59fdb5-cf72-43ec-9250-4bc085f5ed64", + "image_id": 202505, + "image_name": "118788.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 140.668, + 4085.824, + 1373.601, + 527.9320000000002 + ], + "priority": 30, + "parents": [ + 50974 + ], + "children": [], + "area": 574744.6904320001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141921, + "strid": "a435c822-fd95-494e-8939-32d2a1cd79ca", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 7.8, + 92.23, + 108.05, + 168.54999999999995 + ], + "priority": -1, + "parents": [], + "children": [ + 141915, + 141920, + 141918, + 141892, + 141917, + 141916, + 141891, + 141893, + 141919 + ], + "area": 719.394, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141891, + "strid": "a86e0ede-ab31-49f6-a935-5ec2b530071d", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 79.244, + 63.309, + 3718.764, + 77.20599999999999 + ], + "priority": 1, + "parents": [ + 141921 + ], + "children": [], + "area": 5016.858396, + "iscrowd": 0, + "segmentation": [], + "text": "SARS-CoV-2 spike protein predicted to form complexes with host receptor protein orthologues from a broad range of mammals" + }, + { + "id": 141892, + "strid": "faf9a515-9f79-4e22-9b22-93f9a227ffd6", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 76.671, + 181.692, + 3641.557, + 105.51499999999999 + ], + "priority": 2, + "parents": [ + 141921 + ], + "children": [], + "area": 13930.507332000001, + "iscrowd": 0, + "segmentation": [], + "text": "Lam SD', Bordin N?, Waman VP?2, Scholes HM?, Ashford P?, Sen N@°, van Dorp L*, Rauer C?, Dawson NL?, Pang CSM?, Abbasian M?, Sillitoe I, Edwards SJL®, Fraternali F®, Lees JG’, Santini JM?, Orengo CA?\n\n1 Department of Applied Physics, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, Selangor, 43600, Malaysia 2 Institute of Structural and Molecular Biology, University College London, London, WC1E 6BT, UK 3 Indian Institute of Science Education and Research, Pune, 411008, India 4 UCL Genetics Institute, University College London, London, WC1E 6BT, UK\n5 Department of Science and Technology Studies, University College London, London, WC1E 6BT, UK 6 Randall Division of Cell and Molecular Biophysics, Guy's Campus, New Hunt's House, King’s College London, London, SE1 1UL, UK 7 Department of Biological and Medical Sciences, Faculty of Health and Life Sciences, Oxford Brookes University, Oxford, OX3 OBP, UK" + }, + { + "id": 141893, + "strid": "b58cdccd-3eb2-4799-9b9d-5867f7f88e02", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 88.961, + 373.184, + 787.818, + 606.6200000000001 + ], + "priority": 3, + "parents": [ + 141921 + ], + "children": [], + "area": 33198.821824, + "iscrowd": 0, + "segmentation": [], + "text": "The ongoing COVID-19 global pandemic has a\nzoonotic origin, necessitating investigations into how\nSARS-CoV-2 infects animals, and how the virus can be\ntransmitted across species. Given the role that the\nstability of the complex, formed between the S-protein\nand its receptors, could contribute to the viral host\nrange, zoonosis and anthroponosis, there is a clear\nneed to study these interactions.\n\nIn this study, we performed a comprehensive analysis\nof the major protein that SARS-CoV-2 uses for cell\nentry. We predicted structures of ACE2 orthologues\nfrom 215 vertebrate species and modelled S-\nprotein:ACE2 complexes. We calculated relative\nchanges in energy (AAG) of S-protein:ACE2\ncomplexes, in silico, following mutations from animal\nresidues to those in human." + }, + { + "id": 141915, + "strid": "f78a8c61-bee8-458b-bbc6-ebb507a4fbd2", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 79.763, + 1022.982, + 535.187, + 23.29600000000005 + ], + "priority": 4, + "parents": [ + 141921 + ], + "children": [ + 141894, + 141903 + ], + "area": 81596.113266, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 141894, + "strid": "79538ac8-b2c6-4ec7-bf89-12df628cebdf", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 68.89, + 1070.028, + 823.457, + 177.25900000000001 + ], + "priority": 5, + "parents": [ + 141915 + ], + "children": [], + "area": 73714.22892000001, + "iscrowd": 0, + "segmentation": [], + "text": "We aligned protein sequences of 247 vertebrate orthologues? of ACE2. Most\northologues have >60% sequence identity with human ACE2. For each ACE2\northologue, we generated a 3-dimensional model of the protein structure using\nFunMod modelling platform??. We were able to build high-quality models\n(nDOPE <-1) for 236 orthologues. Despite sharing > 60% sequence, we observed\nhigh structure similarity (score > 90 out of 100) between ACE2 proteins." + }, + { + "id": 141903, + "strid": "3f48a9e7-7251-4890-a0c3-9a0714d8da0e", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 163.111, + 1268.806, + 514.474, + 398.817 + ], + "priority": 6, + "parents": [ + 141915 + ], + "children": [ + 141908 + ], + "area": 206956.215466, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141908, + "strid": "c7fb1236-1e28-462d-869a-74a4322aaa48", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 71.848, + 1674.489, + 630.845, + 22.069999999999936 + ], + "priority": 7, + "parents": [ + 141903 + ], + "children": [], + "area": 120308.685672, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1 Pairwise sequence identities and SSAP scores for ACE2 orthologues." + }, + { + "id": 141916, + "strid": "207fc344-fa96-4def-a74d-0677c81146b5", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1022.46, + 357.496, + 733.665, + 54.077999999999975 + ], + "priority": 8, + "parents": [ + 141921 + ], + "children": [ + 141895, + 141902, + 141904, + 141913 + ], + "area": 365525.36016, + "iscrowd": 0, + "segmentation": [], + "text": "IDENTIFICATION OF CRITICAL S-PROTEIN:ACE2 INTERFACE\nRESIDUES" + }, + { + "id": 141902, + "strid": "42c1c370-9744-4910-b20f-c7382aad6bf9", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1018.859, + 440.326, + 820.2400000000001, + 296.06600000000003 + ], + "priority": 9, + "parents": [ + 141916 + ], + "children": [], + "area": 448630.10803400003, + "iscrowd": 0, + "segmentation": [], + "text": "20 ACE2 residues directly contacting the S-protein were identified in a structure\nof the complex (PDB ID 6MOJ)* and we refer to these as ‘Direct Contact’ (DC)\nresidues.\n\nWe also identified a more extended set of both DC residues and residues within\n8A of DC residues likely to be influencing binding. These residues have been\nidentified using a variety of approaches, including mutagenesis*®*®’, alanine\nscanning®, highly conserved residues®, sites under positive selection’®*? and\npredicted allosteric sites!?13.4, This larger set includes 42 residues that could\ninfluence the binding affinity." + }, + { + "id": 141904, + "strid": "50dcf93d-ec21-45a4-a469-8cdd72cb30b9", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1009.6, + 759.317, + 888.3650000000001, + 522.45 + ], + "priority": 10, + "parents": [ + 141916 + ], + "children": [ + 141909 + ], + "area": 766606.4432, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141909, + "strid": "0a01928f-fd87-4270-8649-a962f036fa33", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1021.302, + 1313.206, + 662.333, + 21.538999999999987 + ], + "priority": 11, + "parents": [ + 141904 + ], + "children": [], + "area": 1341179.9142119999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2 Overview of SARS-CoV-2 S-protein: human ACE2 complex and interface." + }, + { + "id": 141913, + "strid": "c284d0b8-3234-4cdf-a98e-241731ecace7", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1018.081, + 1336.281, + 821.868, + 126.22499999999991 + ], + "priority": 12, + "parents": [ + 141916 + ], + "children": [], + "area": 1360442.296761, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141895, + "strid": "e256f79c-b7ac-41f9-8b58-42c8dbaf862c", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1017.13, + 1516.146, + 820.6439999999999, + 85.97199999999998 + ], + "priority": 13, + "parents": [ + 141916 + ], + "children": [], + "area": 1542117.5809799999, + "iscrowd": 0, + "segmentation": [], + "text": "After analysing the orthologue interfaces, we removed models that were missing\n> 10 DCEX residues. 21 models were removed from the analysis, leaving 215\nmodels to take forward for further analysis." + }, + { + "id": 141917, + "strid": "b7bd1bbd-cc7f-4f04-b5db-852f5a5f39b9", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1982.62, + 359.839, + 806.1109999999999, + 51.98200000000003 + ], + "priority": 14, + "parents": [ + 141921 + ], + "children": [ + 141905, + 141901, + 141900 + ], + "area": 713423.99818, + "iscrowd": 0, + "segmentation": [], + "text": "CHANGES IN THE ENERGY OF THE S-PROTEIN:ACE2 COMPLEX IN\nVERTEBRATES" + }, + { + "id": 141900, + "strid": "639e6e06-f72d-4a72-9011-bfab976d658a", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1976.024, + 442.08, + 823.8089999999997, + 292.583 + ], + "priority": 15, + "parents": [ + 141917 + ], + "children": [], + "area": 873560.6899199999, + "iscrowd": 0, + "segmentation": [], + "text": "To increase our confidence in assessing changes in the energy of the S-\nprotein:ACE2 complexes complex, following mutations from animal residues to\nthose in human, we developed multiple protocols using different, established\nmethods. We correlated these stability measures with experimental infection\nphenotypes in the literature, from in vivo1S19 and in vitro2°-22 studies of animals.\n\nProtocol 2, which uses animal 3D models and calculates the change in energy\n(AAG) using mCSM-PPI28, following mutation of the animal residues, correlated\nbest with the number of mutations, chemical changes induced by mutations and\ninfection phenotypes, so we chose to focus our analysis employing this protocol." + }, + { + "id": 141905, + "strid": "fce4ba0a-e1a8-42b0-880f-d7b7d953b3fb", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2200.068, + 772.279, + 337.99699999999984, + 369.903 + ], + "priority": 16, + "parents": [ + 141917 + ], + "children": [ + 141910 + ], + "area": 1699066.3149720002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141910, + "strid": "41e68019-e67c-43a2-941e-381b1be69f16", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1977.232, + 1160.517, + 817.768, + 44.452 + ], + "priority": 17, + "parents": [ + 141905 + ], + "children": [], + "area": 2294611.348944, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3 Changes in energy of S-protein:ACE2 complex for animals that can be infected by SARS-\nCoVv-2." + }, + { + "id": 141901, + "strid": "29ee8e57-309b-4dd9-8556-8efeff24881d", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1974.389, + 1209.497, + 822.175, + 72.73700000000008 + ], + "priority": 18, + "parents": [ + 141917 + ], + "children": [], + "area": 2388017.572333, + "iscrowd": 0, + "segmentation": [], + "text": "The one-sided P value is reported from a Mann-Whitney test of the hypothesis that AAG values\nfrom infected animals is lower than for not infected animals, against the null hypothesis that there\nis no difference between the two distributions." + }, + { + "id": 141918, + "strid": "39c6464d-cb5c-4494-b387-601f92671c10", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1983.044, + 1305.591, + 765.7650000000001, + 22.996000000000095 + ], + "priority": 19, + "parents": [ + 141921 + ], + "children": [ + 141906, + 141914, + 141896 + ], + "area": 2589044.399004, + "iscrowd": 0, + "segmentation": [], + "text": "NALYSES OF\n\nS-PROTEIN:ACE2 INTERACTIONS" + }, + { + "id": 141896, + "strid": "fc1750e7-5492-44eb-adc2-4252a6147ff4", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1975.305, + 1357.634, + 821.7029999999997, + 354.904 + ], + "priority": 20, + "parents": [ + 141918 + ], + "children": [], + "area": 2681741.22837, + "iscrowd": 0, + "segmentation": [], + "text": "We analysed 12 animals for structural analyses because they are likely to come\ninto frequent contact with humans (cat, dog, etc) or because our energy\ncalculations suggested risk but currently available COVID-19 infection data was\nambiguous or suggested no infection (marmoset, capuchin, squirrel monkey, etc)\nor where we predicted large energy changes despite experimental evidence of\ninfection (horseshoe bat).\n\nACE2 Lys353 hotpot is highly conserved and a key mediator of the SARS-CoV and\nSARS-CoV-2 S-protein interfaces??. This have previously been identified?? as key\nto understanding why the SARS-CoV-2 S-protein binds to human ACE2 with high\naffinity and how the viral S-protein has evolved to bind with much higher affinity\nto human ACE2 than SARS-CoV423.24," + }, + { + "id": 141906, + "strid": "a2e6446b-4ecd-41f8-9982-1c1b43b32ad2", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2904.977, + 349.533, + 927.2489999999998, + 612.184 + ], + "priority": 21, + "parents": [ + 141918 + ], + "children": [ + 141911 + ], + "area": 1015385.325741, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141911, + "strid": "cd783a39-e872-4f17-b199-ef8723a8fa31", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2941.386, + 981.942, + 818.5349999999999, + 45.9849999999999 + ], + "priority": 22, + "parents": [ + 141906 + ], + "children": [], + "area": 2888270.451612, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4 Predicted interactions at the S-protein RBD (purple) interface with ACE2 (tan) around the\nLys353 hotspot in human and five other species." + }, + { + "id": 141914, + "strid": "6f8ff83a-485a-4484-a723-10a7486c529c", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2920.963, + 1029.825, + 841.0769999999998, + 224.55500000000006 + ], + "priority": 23, + "parents": [ + 141918 + ], + "children": [], + "area": 3008080.7214750005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141919, + "strid": "75b4d6e0-de12-4942-91ca-bf85dca094f7", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2946.903, + 1276.42, + 807.259, + 52.53899999999999 + ], + "priority": 24, + "parents": [ + 141921 + ], + "children": [ + 141897, + 141907, + 141899 + ], + "area": 3761485.92726, + "iscrowd": 0, + "segmentation": [], + "text": "CHANGES IN THE ENERGY OF THE S-PROTEIN:ACE2 COMPLEX IN\nVie a=)-7- We" + }, + { + "id": 141897, + "strid": "1823ef19-c35e-490f-bdc6-3f889cf9fd5c", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2940.553, + 1354.243, + 822.8339999999998, + 384.29099999999994 + ], + "priority": 25, + "parents": [ + 141919 + ], + "children": [], + "area": 3982223.3163789995, + "iscrowd": 0, + "segmentation": [], + "text": "Our protocol considers mutations from animal to human, lower AAG values\ncorrespond to stabilisation of the animal complex relative to the human complex,\nand therefore higher risk of infection. We consider animals that have AAG values\nless than, or equal to, the AAG = 3.72 for horseshoe bat to be at risk.\n\nIn general, we see a high infection risk for most mammals (AAG Range -0.391 —\n6.465, Average AAG 1.632). Of the 35 birds tested (AAG Range 1.267 — 7.275.\nAverage AAG 4.733), only 6 species show an infection risk. Similarly, out of 72 fish\nin this study (AAG Range 0.664 — 9.830, Average AAG 5.791), only 10 species\nshow a low change in energy of the complex, suggesting that most have no\nsusceptibility to infection. Of the 14 reptiles and amphibians investigated (AAG\nRange 2.533 — 8.032, Average AAG 4.743), only turtle and crocodile show any\nrisk." + }, + { + "id": 141899, + "strid": "eea1b5db-3848-497c-8196-102cbfd1e271", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3910.602, + 349.173, + 822.4359999999997, + 145.53999999999996 + ], + "priority": 26, + "parents": [ + 141919 + ], + "children": [], + "area": 1365476.632146, + "iscrowd": 0, + "segmentation": [], + "text": "Humans are likely to come into contact with 26 of these species in domestic,\nagricultural or zoological settings. Our protocol predicted them to be at risk of\ninfection. Most of them have been demonstrated to be infected in vivo and in\nvitro experiments. We also calculated change in energy of the complex for the\nSARS-CoV S-protein and found it to be highly correlated with SARS-CoV-2." + }, + { + "id": 141907, + "strid": "b294300a-21df-4ec7-9e5e-697d9422d041", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3856.155, + 512.051, + 939.2140000000004, + 590.2490000000001 + ], + "priority": 27, + "parents": [ + 141919 + ], + "children": [ + 141912 + ], + "area": 1974548.0239050002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 141912, + "strid": "dc1de109-32c7-4ada-9bf9-837deebcd321", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3912.438, + 1126.795, + 820.0680000000002, + 47.51800000000003 + ], + "priority": 28, + "parents": [ + 141907 + ], + "children": [], + "area": 4408515.576210001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5 Mammals that humans come into contact with that are at risk of infection by SARS-CoV-2.\nNumbers represent the change in binding energy (AAG) of the S-protein:ACE2." + }, + { + "id": 141920, + "strid": "7711d109-23cd-4d5d-b4a4-65a583cdf096", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3921.024, + 1206.167, + 171.5630000000001, + 20.95399999999995 + ], + "priority": 29, + "parents": [ + 141921 + ], + "children": [ + 141898 + ], + "area": 4729409.755008, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 141898, + "strid": "12976140-bf63-4a05-ba9b-dd2a6c39f20c", + "image_id": 206017, + "image_name": "16991.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3910.321, + 1250.258, + 822.8339999999998, + 207.96900000000005 + ], + "priority": 30, + "parents": [ + 141920 + ], + "children": [], + "area": 4888910.112818, + "iscrowd": 0, + "segmentation": [], + "text": "In summary, our results suggest that SARS-CoV-2 can infect a broad range of\nmammals, but few fish, birds or reptiles. Our work is not aiming to provide an\nabsolute measure of risk of infection. Rather, it should be considered an efficient\nmethod to screen a large number of animals and suggest possible susceptibility,\nand thereby guide further studies. Any predictions of possible risk should be\nconfirmed by experimental studies and computationally expensive molecular\ndynamics." + }, + { + "id": 162022, + "strid": "ce649621-3f7e-4074-a862-0869e0e29acb", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 174.25, + 130.17, + 181.02999999999997, + 268.19000000000005 + ], + "priority": -1, + "parents": [], + "children": [ + 161986, + 161984, + 161985, + 161987, + 161988, + 161989 + ], + "area": 22682.122499999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 161984, + "strid": "e3495a21-b811-4fc9-be08-0121a819617e", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 422.739, + 181.982, + 2487.291, + 246.371 + ], + "priority": 1, + "parents": [ + 162022 + ], + "children": [], + "area": 76930.888698, + "iscrowd": 0, + "segmentation": [], + "text": "Network guided integration of omics data\nin prostate cancer broccoli intervention study" + }, + { + "id": 161985, + "strid": "817b4213-200e-45c9-9a9b-86396b65d377", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 311.332, + 547.152, + 2170.638, + 50.55799999999999 + ], + "priority": 2, + "parents": [ + 162022 + ], + "children": [], + "area": 170345.92646400002, + "iscrowd": 0, + "segmentation": [], + "text": "WIK TOR JURKOWSKI, PERLA TRONCOSO-REY, MONIKA PIWOWAR, MARIA TRAKA" + }, + { + "id": 161986, + "strid": "8c324a79-1e0e-4061-87c9-ce4ef9ab39a1", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 446.807, + 987.564, + 787.3050000000001, + 64.99799999999993 + ], + "priority": 3, + "parents": [ + 162022 + ], + "children": [ + 162007, + 161990, + 162011, + 162009, + 162003, + 162006, + 162005, + 162008, + 162010, + 162004 + ], + "area": 441250.508148, + "iscrowd": 0, + "segmentation": [], + "text": "Broceoli and Cancer" + }, + { + "id": 161990, + "strid": "488982db-3d95-4458-811f-12c8a999ab69", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 159.899, + 1167.441, + 1378.681, + 236.1690000000001 + ], + "priority": 4, + "parents": [ + 161986 + ], + "children": [], + "area": 186672.64845900002, + "iscrowd": 0, + "segmentation": [], + "text": "Aims\nProvide for the first time evidence in humans for the critical role of sulforaphane (SF) in\n\nregulating metabolism\nIdentify the underlying mechanisms by which SF can reduce the risk of aggressive\n\nprostate cancer" + }, + { + "id": 162009, + "strid": "cea02204-800b-46fa-b924-ea6609d3952a", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 144.98, + 1470.431, + 166.653, + 107.4079999999999 + ], + "priority": 5, + "parents": [ + 161986 + ], + "children": [], + "area": 213183.08638, + "iscrowd": 0, + "segmentation": [], + "text": "Vitamins\nC,A,E, K, B1, B2\nFolates\nMinerals" + }, + { + "id": 162010, + "strid": "63ffc2d0-9fd3-45be-ab9f-f4089cd4f7fe", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 327.386, + 1470.819, + 242.474, + 170.77600000000007 + ], + "priority": 6, + "parents": [ + 161986 + ], + "children": [], + "area": 481525.54913400003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162011, + "strid": "340cec1e-c572-4764-8bc3-b4906efd3a87", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 145.257, + 1667.36, + 305.348, + 77.99900000000002 + ], + "priority": 7, + "parents": [ + 161986 + ], + "children": [], + "area": 242195.71151999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 162003, + "strid": "cbecc9ee-2865-4269-9295-a8eaeb3bf0cb", + "image_id": 206823, + "image_name": "6496.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 615.181, + 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"id": 40178, + "strid": "f4d9d716-204c-4012-9edd-551ba3a5d33c", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 154.453, + 251.963, + 2169.074, + 247.37700000000004 + ], + "priority": 2, + "parents": [ + 40194 + ], + "children": [], + "area": 38916.441239, + "iscrowd": 0, + "segmentation": [], + "text": "Monteserin J', Charchaflie A', Gravina E2, Vazquez L?, Ritacco V'4\n\n'INEI ANLIS “Carlos G. Malbrdn” & 2Hospital Paroissien de La Matanza, Argentina,\n3Instituto Nacional de Salud, Peru, CONICET, Argentina" + }, + { + "id": 40179, + "strid": "5dec2b5f-3652-4df5-8727-2c07064fcc62", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 246.918, + 724.983, + 333.12299999999993, + 61.56700000000001 + ], + "priority": 3, + "parents": [ + 40194 + ], + "children": [ + 40185 + ], + "area": 179011.352394, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 40185, + "strid": "7c516e2a-f85e-4370-8f98-da2d1da6ebad", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.083, + 823.418, + 1328.034, + 287.20899999999995 + ], + "priority": 4, + "parents": [ + 40179 + ], + "children": [], + "area": 128521.551694, + "iscrowd": 0, + "segmentation": [], + "text": "There is scarce knowledge on the population structure\nof Mycobacterium tuberculosis in Peru, a country that\nranks among those with the heaviest burdens of\ntuberculosis and multidrug-resistant tuberculosis. in\nSouth America." + }, + { + "id": 40180, + "strid": "38694825-93d4-4411-a7c3-21f884977804", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 248.569, + 1194.623, + 213.504, + 55.646999999999935 + ], + "priority": 5, + "parents": [ + 40194 + ], + "children": [ + 40186 + ], + "area": 296946.244487, + "iscrowd": 0, + "segmentation": [], + "text": "Purpose" + }, + { + "id": 40186, + "strid": "b5dce7f0-56f9-4013-9a9a-029645341da2", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.856, + 1273.87, + 1326.806, + 123.9659999999999 + ], + "priority": 6, + "parents": [ + 40180 + ], + "children": [], + "area": 197266.41271999996, + "iscrowd": 0, + "segmentation": [], + "text": "To get an insight into the strain family composition of\nM. tuberculosis in the city of Lima." + }, + { + "id": 40181, + "strid": "44f7bf08-2146-4371-a38a-611bd0181d5c", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 243.469, + 1473.19, + 236.25100000000003, + 47.13499999999999 + ], + "priority": 7, + "parents": [ + 40194 + ], + "children": [ + 40187 + ], + "area": 358676.09611, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 40187, + "strid": "8d43a687-ccb8-454d-8e69-74b148b353ed", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.492, + 1549.214, + 1331.716, + 1024.8689999999997 + ], + "priority": 8, + "parents": [ + 40181 + ], + "children": [], + "area": 242439.597288, + "iscrowd": 0, + "segmentation": [], + "text": "We used a_ well-characterized DNA _ collection\nconserved in our laboratory originated from 140\nisolates from the same number of adult patients with\nAFB smear-positive pulmonary tuberculosis recruited\nconsecutively in Lima City (Eastern and Northern\ndistricts). The sarnple had been selected according to\nthe cluster sampling procedure as part of the national\nsurvey on tuberculosis drug resistance carried out in\n1999. Of these isolates, 22 (15.7%) fulfilled the definition\nof multidrug-resistance, 21 (15%) had other drug\nresistance profiles, and 97 (69.3%) were fully drug-\nsusceptible. Spoligotyping [1] was used for genotype\nassignation [2] according to the SITVIT database\n). DNAs\nidentified as orphan were characterized by 186110\nRFLP [3]. BioNumerics 5.1 (Applied Maths, Sint-Martens-\nLatem, Belgium) was used for genotype analysis [4]." + }, + { + "id": 40182, + "strid": "c8740b90-d04d-459c-8975-e8816f545847", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 247.35, + 2679.817, + 218.54099999999997, + 60.08399999999983 + ], + "priority": 9, + "parents": [ + 40194 + ], + "children": [ + 40190, + 40191, + 40192, + 40189 + ], + "area": 662852.73495, + "iscrowd": 0, + "segmentation": [], + "text": "Findings" + }, + { + "id": 40190, + "strid": "6350fde6-e89f-496f-ab93-9a4c625a6c3e", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.816, + 2761.681, + 1130.672, + 57.983000000000175 + ], + "priority": 10, + "parents": [ + 40182 + ], + "children": [], + "area": 427552.40569600003, + "iscrowd": 0, + "segmentation": [], + "text": "The spoligo family composition is shown below" + }, + { + "id": 40192, + "strid": "2a50101d-0aa4-46eb-b399-b6e23fa1ee60", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 90.378, + 2893.768, + 1403.062, + 848.1199999999999 + ], + "priority": 11, + "parents": [ + 40182 + ], + "children": [], + "area": 261532.964304, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40191, + "strid": "0104619d-a41f-49eb-9bbe-90744ec6224c", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1660.727, + 810.671, + 1311.169, + 825.637 + ], + "priority": 12, + "parents": [ + 40182 + ], + "children": [], + "area": 1346303.217817, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 40189, + "strid": "83919385-4f1c-487d-80c6-3ded0f29c613", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1662.213, + 1729.829, + 1325.4949999999997, + 500.97500000000014 + ], + "priority": 13, + "parents": [ + 40182 + ], + "children": [], + "area": 2875344.2515769997, + "iscrowd": 0, + "segmentation": [], + "text": "Of 14 spoligo patterns classified as “orphan”, 9\n(marked with an arrow in the figure above) have at\nleast one match in SITVIT, in our database or in this\nvery study, and are therefore candidates to lose their\n“orphan” status. IS6110 RFLP patterns are fully\ncongruent with spoligotypes and putative family.\n\nNo association was found between genotype and\ndrug resistance or multidrug-resistance." + }, + { + "id": 40184, + "strid": "75691516-89c7-4504-88c2-e8ded3a44da4", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1763.454, + 2301.314, + 326.63699999999994, + 49.46799999999985 + ], + "priority": 14, + "parents": [ + 40194 + ], + "children": [ + 40188 + ], + "area": 4058261.3785559996, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 40188, + "strid": "7d5c6ba6-e818-448d-aee5-38a8bc7dcecf", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1660.822, + 2379.356, + 1332.1049999999998, + 840.1759999999999 + ], + "priority": 15, + "parents": [ + 40184 + ], + "children": [], + "area": 3951686.790632, + "iscrowd": 0, + "segmentation": [], + "text": "Three features distinguish the M. tuberculosis\ngenotype profile in this city from those in other South\nAmerican sites: i) the ample predominance of the\nHaarlem genotype, to our knowledge, comparable\nonly to that found in the city of Medellin, Colombia, ii)\nthe relatively low frequency of the LAM genotype,\nwhich is largely the most prevalent in other parts of\nthe sub-continent [2], and iii) the relatively high\nproportion of Beijing strains, which is rather Unusual in\nthe region and approaches only frequencies found in\nBuenaventura, a main Colombian port in the Pacific\ncoast [5], although the association of Beijing with\nmultidrug-resistance found in that port city was absent\nin our Peruvian sample." + }, + { + "id": 40183, + "strid": "acc132f2-372d-46fb-bd7d-77c2c47b6e60", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1763.875, + 3292.791, + 300.61799999999994, + 53.121000000000095 + ], + "priority": 16, + "parents": [ + 40194 + ], + "children": [ + 40193 + ], + "area": 5808071.725125, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 40193, + "strid": "c22dda79-557b-4452-a3b9-ae5779837d08", + "image_id": 202080, + "image_name": "118099.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1663.8, + 3360.628, + 1326.773, + 437.12699999999995 + ], + "priority": 17, + "parents": [ + 40183 + ], + "children": [], + "area": 5591412.8664, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167849, + "strid": "8163306a-f734-4d4a-84ae-7e99deef9099", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 134.44, + 50.91, + 81.82, + 91.45000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 167840, + 167835, + 167838, + 167836, + 167839, + 167837 + ], + "area": 6844.340399999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167835, + "strid": "c6ef7490-1f9c-42d0-bee5-cbb01234fc4b", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 251.38, + 30.887, + 1630.029, + 114.71199999999999 + ], + "priority": 1, + "parents": [ + 167849 + ], + "children": [], + "area": 7764.37406, + "iscrowd": 0, + "segmentation": [], + "text": "ASSESSING MANAGEMENT OF PERIOPERATIVE PAIN AT THE PRIZREN\nREGIONAL HOSPITAL IN KOSOVO" + }, + { + "id": 167836, + "strid": "37f9122a-bed6-4455-8d19-7bdefe0f9c7a", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 74.673, + 200.517, + 828.516, + 147.73899999999998 + ], + "priority": 2, + "parents": [ + 167849 + ], + "children": [], + "area": 14973.205941, + "iscrowd": 0, + "segmentation": [], + "text": "A. Bytygi', M. Bojaxhiu2, A. Bytygi®, A. Kopf*, W. Meissner®, R. Zaslansky®.\n‘Emergency and Anaesthesia, Regional Hospital of Prizren, Prizen, Kosovo.\n\n2Gynaecology and Obstetrics, Regional Hospital of Prizren, Prizen, Kosovo.\n\n3Continuing Nursing Education, Regional Hospital of Prizren, Prizen, Kosovo.\n\n4Anethesiology & Intenstive Care, Charite University Hospital, Berlin, Germany.\n\nSAnethesiology & Intenstive Care, University Hospital Jena, Jena, Germany.\n\n6Anethesiology & Intensive Care, University Hospital Jena, Jena, Germany." + }, + { + "id": 167837, + "strid": "8c57fb8f-47a3-4d69-8ad7-f1d7f0060db8", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 134.099, + 412.115, + 302.23, + 32.339 + ], + "priority": 3, + "parents": [ + 167849 + ], + "children": [ + 167841 + ], + "area": 55264.209384999995, + "iscrowd": 0, + "segmentation": [], + "text": "Background and aims" + }, + { + "id": 167841, + "strid": "c6cd6240-19ac-41e0-ad1a-e0bc39e09bda", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 57.002, + 468.945, + 455.243, + 222.54699999999997 + ], + "priority": 4, + "parents": [ + 167837 + ], + "children": [], + "area": 26730.80289, + "iscrowd": 0, + "segmentation": [], + "text": "Data about pain-related Patient\nReported Outcomes (PROs) and\nperioperative pain management\nwas collected in one hospital in\nKosovo assessing need for\noptimizing management." + }, + { + "id": 167840, + "strid": "e6a08704-e8c2-4607-b55f-e3695ad09ce8", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 222.413, + 780.984, + 121.57, + 26.98199999999997 + ], + "priority": 5, + "parents": [ + 167849 + ], + "children": [ + 167842 + ], + "area": 173700.99439200002, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167842, + "strid": "64ca14cb-d66b-4e62-a003-a77d83f39a8a", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 66.995, + 833.206, + 435.208, + 390.56100000000004 + ], + "priority": 6, + "parents": [ + 167840 + ], + "children": [], + "area": 55820.63597, + "iscrowd": 0, + "segmentation": [], + "text": "Prizren Regional Hospital has\n521 beds; is the second largest\nhospital in Kosovo. PAIN OUT\nmethodology was used to\ncollect data.\n\nPAIN OUT is an international\nregistry, providing\nstandardized and_ validated\ntools to assess pain\nmanagement after surgery." + }, + { + "id": 167838, + "strid": "228d9483-1f2b-42f7-b40b-c81e61037d69", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 737.663, + 369.429, + 101.26700000000005, + 25.899 + ], + "priority": 7, + "parents": [ + 167849 + ], + "children": [ + 167847, + 167848, + 167845, + 167844, + 167843 + ], + "area": 272514.104427, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 167843, + "strid": "7225eaf3-7b26-41ca-b0c7-9483d5daeacf", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 560.689, + 420.138, + 454.63800000000003, + 563.749 + ], + "priority": 8, + "parents": [ + 167838 + ], + "children": [], + "area": 235566.75508199996, + "iscrowd": 0, + "segmentation": [], + "text": "Findings were obtained from 139\nGeneral Surgery (GS) and 92\nObstetric & Gynaecological\n(OBGYN) patients on the first\nday after surgery, during\n\nNovember 2014 - February\n2015.\nAll patients gave\n\nconsent. Patients filled in the\nInternational Pain Outcomes\nquestionnaire in Albanian. Most\ncommon GS procedures were\nlaparoscopic & open\ncholecystectomy (n=61 & 22)\nand herniectomy (n=32);" + }, + { + "id": 167847, + "strid": "368fb1af-7f92-4344-8e15-423283de6a88", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 546.262, + 1077.96, + 480.297, + 307.43499999999995 + ], + "priority": 9, + "parents": [ + 167838 + ], + "children": [], + "area": 588848.58552, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167844, + "strid": "fb3fb5a7-ef43-4a54-9031-bf771dc79ec1", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1072.804, + 404.76, + 452.58400000000006, + 515.002 + ], + "priority": 10, + "parents": [ + 167838 + ], + "children": [], + "area": 434228.14704, + "iscrowd": 0, + "segmentation": [], + "text": "for OBGYN, Caesarean Delivery\n(n=81). General anaesthesia was\nthe most common form. of\nanaesthesia; wound infiltration\nwas used with n=9 patients;\n\nIM diclofenac was the most\ncommonly administered\nanalgesic after surgery;\ntramadol is the only opioid\navailable outside the operating\nroom, administered to n=40 of\nGS and to n=4 of OBGYN\npatients." + }, + { + "id": 167848, + "strid": "7068a4a7-409b-4938-9a26-69d30d541b35", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1059.364, + 994.07, + 487.2180000000001, + 306.8750000000001 + ], + "priority": 11, + "parents": [ + 167838 + ], + "children": [], + "area": 1053081.97148, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 167845, + "strid": "8069dfc5-84a8-4b8f-9e6f-97974741089c", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1601.091, + 420.261, + 451.9569999999999, + 326.474 + ], + "priority": 12, + "parents": [ + 167838 + ], + "children": [], + "area": 672876.104751, + "iscrowd": 0, + "segmentation": [], + "text": "PROs_ indicate severe pain:\npatients on both wards reported\nbeing >40% (average) of the\ntime in severe pain, >50%\nreported worst pain of >7 (0-10\nscale); >30% reported\ninterference with coughing at a\nlevel of >7 (0-10 scale); > 65%\nwished for more pain treatment." + }, + { + "id": 167839, + "strid": "47953438-2e0d-4c66-bc29-0b923d629b80", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1741.23, + 800.615, + 169.33799999999997, + 27.513000000000034 + ], + "priority": 13, + "parents": [ + 167849 + ], + "children": [ + 167846 + ], + "area": 1394054.85645, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 167846, + "strid": "364b9af1-7b54-42b5-bbae-b625d003516c", + "image_id": 207054, + "image_name": "6884.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1599.442, + 863.553, + 452.826, + 388.8360000000001 + ], + "priority": 14, + "parents": [ + 167839 + ], + "children": [], + "area": 1381202.937426, + "iscrowd": 0, + "segmentation": [], + "text": "Patients after GS and OBGYN\nsurgical procedures at the\nPrizen Regional Hospital\nreported severe pain-related\noutcomes. Plans to improve\nmanagement are currently being\ndeveloped.\n\nCarried out as part of the IASP\nPost-Operative Pain\nImprovement project." + }, + { + "id": 154497, + "strid": "e0e2fee7-a082-4767-ada0-5f21579ec902", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 79.38, + 43.01, + 268.19, + 93.86000000000001 + ], + "priority": -1, + "parents": [], + "children": [ + 154466, + 154473, + 154468, + 154470, + 154495, + 154467, + 154472, + 154469, + 154465, + 154471 + ], + "area": 3414.1337999999996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154465, + "strid": "14ff8888-c2a7-40a8-ad8f-31f5ecb98e6b", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 143.629, + 156.25, + 2195.271, + 221.322 + ], + "priority": 1, + "parents": [ + 154497 + ], + "children": [], + "area": 22442.03125, + "iscrowd": 0, + "segmentation": [], + "text": "ELIXIR biovalidato\n\n=\\2" + }, + { + "id": 154466, + "strid": "e7883463-497f-4e02-b519-f36b07db3f76", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 154.504, + 405.056, + 2332.615, + 122.66500000000002 + ], + "priority": 2, + "parents": [ + 154497 + ], + "children": [], + "area": 62582.77222399999, + "iscrowd": 0, + "segmentation": [], + "text": "Isuru SMe hain Marcos Casado’, Danielle Welter’, SN dos*, Melanie Courtot?, Ton La\n1 The European Bioinformatics Institute (EMBL-EBI); 2 Luxembourg National Data aie Esch-sur-Alzette, Luxembourg; =\n3 Ontario Institute for Cancer Research, Department of Medical Biophysics, University of Toronto 4 Sonne Y." + }, + { + "id": 154467, + "strid": "37df8869-9ddb-41c4-b88b-b283cbbd15dc", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.898, + 767.369, + 3052.839, + 475.659 + ], + "priority": 3, + "parents": [ + 154497 + ], + "children": [], + "area": 90471.270362, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction\n\nTo improve the FAIRness of ever increasing amounts of complex biomedical data, validation of both the structure\nand the content of data is required. The ELIXIR biovalidator* allows to verify syntactic and semantic compliance\nof JSON documents by extending the existing JSON Schema syntax.\n\nThe ELIXIR biovalidator is an extension of widely used JSON Schema validation library, AJV? to support validation\nuse cases important for life sciences such as ontology, taxonomy and identifier validation. The ELIXIR\nbiovalidator can be run as a service or a one time command. The service provide an API for programmatic users\nand a web based UI for ad hoc use." + }, + { + "id": 154468, + "strid": "cfaee5d7-511e-4506-8070-6f11f2151546", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 284.413, + 1341.762, + 1169.369, + 84.34799999999996 + ], + "priority": 4, + "parents": [ + 154497 + ], + "children": [ + 154480, + 154482, + 154481 + ], + "area": 381614.555706, + "iscrowd": 0, + "segmentation": [], + "text": "TAXONOMY VALIDATIO" + }, + { + "id": 154480, + "strid": "079e3949-2d11-413c-a85c-c8a4fdd1ae6c", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 349.469, + 1503.63, + 477.76399999999995, + 50.830999999999904 + ], + "priority": 5, + "parents": [ + 154468 + ], + "children": [], + "area": 525472.07247, + "iscrowd": 0, + "segmentation": [], + "text": "isValidTaxonomy" + }, + { + "id": 154481, + "strid": "6953bf11-b495-4bee-9beb-42c410d2d627", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 175.001, + 1622.235, + 1332.187, + 137.9469999999999 + ], + "priority": 6, + "parents": [ + 154468 + ], + "children": [], + "area": 283892.747235, + "iscrowd": 0, + "segmentation": [], + "text": "Checks if the given taxonomy exists in European Nucleotide\nArchive's (ENA)? Taxonomy Browser*." + }, + { + "id": 154482, + "strid": "3876ad13-d6bf-4b41-8582-3dc901da47d0", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 333.638, + 1833.117, + 1084.36, + 102.19800000000009 + ], + "priority": 7, + "parents": [ + 154468 + ], + "children": [], + "area": 611597.489646, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154470, + "strid": "3efb502e-a7ee-40ff-958c-6984e5e3843b", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 295.422, + 2016.059, + 1147.927, + 86.45999999999981 + ], + "priority": 8, + "parents": [ + 154497 + ], + "children": [ + 154485, + 154483, + 154484 + ], + "area": 595588.1818980001, + "iscrowd": 0, + "segmentation": [], + "text": "IDENTIFIER VALIDATION" + }, + { + "id": 154483, + "strid": "c621d2e9-1dde-4eb9-8df7-62483e2628b6", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 309.533, + 2180.14, + 540.784, + 43.19399999999996 + ], + "priority": 9, + "parents": [ + 154470 + ], + "children": [], + "area": 674825.27462, + "iscrowd": 0, + "segmentation": [], + "text": "isValididentifier" + }, + { + "id": 154484, + "strid": "66e42d7a-3d3e-447d-8160-6f9c9b0f0b05", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.323, + 2318.028, + 1378.716, + 197.88599999999997 + ], + "priority": 10, + "parents": [ + 154470 + ], + "children": [], + "area": 362361.091044, + "iscrowd": 0, + "segmentation": [], + "text": "Evaluates if a given identifier has a correct format using\nidentifiers.org® resolution API. Checks if given identifier belong\nto the list of allowable identifier types in the schema." + }, + { + "id": 154485, + "strid": "c72ba120-f2e6-4382-888c-3bc4c59226c1", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 253.581, + 2547.972, + 1207.704, + 107.40299999999979 + ], + "priority": 11, + "parents": [ + 154470 + ], + "children": [], + "area": 646117.287732, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 154469, + "strid": "e0a4618d-b0ff-4c0a-a637-28c4186c6261", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1842.294, + 1339.206, + 1159.1450000000002, + 84.34799999999996 + ], + "priority": 12, + "parents": [ + 154497 + ], + "children": [ + 154474, + 154476, + 154475, + 154477, + 154478, + 154479 + ], + "area": 2467211.178564, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 154475, + "strid": "fe8002ed-b45f-4995-937e-1c52ae8dd6df", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1699.879, + 1493.487, + 508.41399999999976, + 53.36999999999989 + ], + "priority": 13, + "parents": [ + 154469 + ], + "children": [], + "area": 2538747.188073, + "iscrowd": 0, + "segmentation": [], + "text": "graphRestriction" + }, + { + "id": 154476, + "strid": "85f460c4-349d-4965-b781-205012967ea3", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2271.894, + 1494.06, + 413.922, + 42.25199999999995 + ], + "priority": 14, + "parents": [ + 154469 + ], + "children": [], + "area": 3394345.94964, + "iscrowd": 0, + "segmentation": [], + "text": "i1sChildTermOft" + }, + { + "id": 154477, + "strid": "db3d787f-79dd-432b-ad1f-2202cbd5dcee", + "image_id": 206522, + "image_name": "22586.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2743.73, + 1495.349, + 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An initial\nproposal must be approved by the Heads of Nodes\nafter which a nascent Community is helped in\norganising a workshop to write a strategic white\npaper for the HoNs. If this document is approved the\nCommunity becomes part of ELIXIR and is given an\ninitial Implementation Study to establish itself.\nCommunities relating to human data also become\nmembers of the Human Data Communities,\ncoordinated from the Hub." + }, + { + "id": 125635, + "strid": "7127be72-aeb4-46fa-adf5-891a59d6e697", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 29.099, + 544.885, + 195.713, + 19.440000000000055 + ], + "priority": 5, + "parents": [ + 125644 + ], + "children": [ + 125631, + 125640, + 125643 + ], + "area": 15855.608615, + "iscrowd": 0, + "segmentation": [], + "text": "Where we are now" + }, + { + "id": 125643, + "strid": "ffdefeee-836c-4156-b42a-d50a73db5cfd", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.628, + 572.666, + 357.041, + 55.024 + ], + "priority": 6, + "parents": [ + 125635 + ], + "children": [], + "area": 16966.948248, + "iscrowd": 0, + "segmentation": [], + "text": "ELIXIR Currently recognises ten Communities (see\nfigure). Three more are progressing through the\nrecognition process:" + }, + { + "id": 125640, + "strid": "2d86981c-063c-47af-bcaf-84d292be586b", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 29.948, + 628.144, + 215.505, + 56.821000000000026 + ], + "priority": 7, + "parents": [ + 125635 + ], + "children": [], + "area": 18811.656512, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 125631, + "strid": "604955f5-9251-4be0-a068-1a761c5df1f0", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.001, + 685.439, + 356.719, + 37.902000000000044 + ], + "priority": 8, + "parents": [ + 125635 + ], + "children": [], + "area": 19878.416439, + "iscrowd": 0, + "segmentation": [], + "text": "We expect to add two new Communities in 2020 so\nwe need to start planning the process for that now." + }, + { + "id": 125636, + "strid": "a7a04113-bac8-4555-b202-e3a29e2b4860", + 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new Communities means\nthat the hub can provide less time to each.\n\nFinancial constraints will also mean that the calls for\nCommunity-led implementation studies will become\nmore competitive over time." + }, + { + "id": 125632, + "strid": "b23568ef-33d7-4d95-b193-6340b1684d99", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 436.3, + 290.587, + 358.34200000000004, + 233.48000000000002 + ], + "priority": 11, + "parents": [ + 125636 + ], + "children": [ + 125641 + ], + "area": 126783.1081, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 125641, + "strid": "3a065cc7-9d74-406c-994e-3af77b5055f5", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 439.742, + 524.857, + 158.22600000000006, + 10.192999999999984 + ], + "priority": 12, + "parents": [ + 125632 + ], + "children": [], + "area": 230801.666894, + "iscrowd": 0, + "segmentation": [], + "text": "Process for approval of new ELDR Commurties" + }, + { + "id": 125633, + "strid": "8dce468a-02c8-493d-8fe1-2421ddd757aa", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 431.576, + 543.65, + 321.677, + 172.58299999999997 + ], + "priority": 13, + "parents": [ + 125636 + ], + "children": [ + 125642 + ], + "area": 234626.2924, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 125642, + "strid": "a10cdfde-b374-48d3-b2e9-99746e0428b1", + "image_id": 205387, + "image_name": "15028.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 428.793, + 721.234, + 363.1070000000001, + 9.495000000000005 + ], + "priority": 14, + "parents": [ + 125633 + ], + "children": [], + "area": 309260.090562, + "iscrowd": 0, + "segmentation": [], + "text": "The current portfolio of ELIMIR Communities ~ thase marked with the ELIXIR jogo were Use Cases in EXCELERATE" + }, + { + "id": 125637, + "strid": 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"priority": -1, + "parents": [], + "children": [ + 99518, + 99504, + 99521, + 99495, + 99508, + 99514, + 99498, + 99494, + 99506, + 99497, + 99496, + 99499, + 99510, + 99500, + 99505 + ], + "area": 12267.0099, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99499, + "strid": "0db11165-e2ab-4fc5-9a55-e63dfb543b36", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 659.75, + 14.193, + 1676.02, + 133.391 + ], + "priority": 1, + "parents": [ + 99522 + ], + "children": [], + "area": 9363.83175, + "iscrowd": 0, + "segmentation": [], + "text": "Tree consistent PBWT and their application to reconstructing\nAncestral Recombination Graphs and_ demographic inference" + }, + { + "id": 99500, + "strid": "9940d00a-b275-4930-8fcb-70c201f21a1a", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1413.322, + 141.803, + 925.4759999999999, + 113.267 + ], + "priority": 2, + "parents": [ + 99522 + ], + "children": [], + "area": 200413.29956599997, + "iscrowd": 0, + "segmentation": [], + "text": "Vladimir Sh€Kur and _ Richard Durbin\n\naN vs3@sanger.ac.uk" + }, + { + "id": 99498, + "strid": "c394b10b-82de-418d-aecb-8cae1c362dbc", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 62.793, + 379.402, + 223.50099999999998, + 45.004999999999995 + ], + "priority": 3, + "parents": [ + 99522 + ], + "children": [ + 99488 + ], + "area": 23823.789785999998, + "iscrowd": 0, + "segmentation": [], + "text": "SUMMARY" + }, + { + "id": 99488, + "strid": "d42be104-a3f1-429a-814b-3c7b48024abd", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 51.48, + 459.581, + 1497.077, + 480.63800000000003 + ], + "priority": 4, + "parents": [ + 99498 + ], + "children": [], + "area": 23659.22988, + "iscrowd": 0, + "segmentation": [], + "text": "The positional Burrows-Wheeler transform PBWY is a representation of a set of haplotypes that\nsupports very efficient data compression and fast haplotype matching (R. Durbin, Bioinformatics,\n30(9), 2014). We introduce a modification of PBWI which we call a tree consistent PBW7, or\nshortly tcPBWJ. This modification has a natural and tractable connection with local coalescent\ntrees. The tcPBWJ shows some improvement in the compression rate compared to PBWI, which\nsuggests that it has better consistency with the genealogy giving rise to the haplotypes.\n\nWe suggest a new framework for fast ARG inference. It is based on the natural tree properties of\ntcPBW9 data processing. These genealogical networks represent possible histories of the set of\nmutations and recombinations that could have given rise to the data. This process is close to linear\nin the size of the data set, potentially enabling very rapid genetic inference on large data sets. We\nwill present applications to real and simulated datasets." + }, + { + "id": 99497, + "strid": "7301a368-248e-4be3-84c0-d0971d143a4e", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 59.967, + 1000.794, + 279.426, + 47.948999999999955 + ], + "priority": 5, + "parents": [ + 99522 + ], + "children": [ + 99489 + ], + "area": 60014.613798, + "iscrowd": 0, + "segmentation": [], + "text": "MOTIVATION" + }, + { + "id": 99489, + "strid": "9bcaac56-421d-477e-8394-c059931080c6", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.386, + 1083.645, + 1494.995, + 439.61900000000014 + ], + "priority": 6, + "parents": [ + 99497 + ], + "children": [], + "area": 54600.53697, + "iscrowd": 0, + "segmentation": [], + "text": "Ancestral Recombination Graph (ARS) is a genealogical network which contains the full\ninformation about relation of a set of haplotypes. The ARG inference would be of a high value in\nmany researches. The state space of ARGs is huge and very complex, which makes it impossible\nfor the precise statistical inference. Computationally effective inference of ARG involves\napproximations and heuristic approaches. For example markovian approximation (G. McVean, N.\nCardin, Philos Trans R Soc Lond B Biol Sci, 360(1459), 2005) is broadly used. It considers the ARG\nas a sequence of local trees and recombinations are considered as prune-and-regraft transitions.\n\nModern algorithms can treat few hundreds of samples. Our approach is based on the special\ntransformation tcPBW7T of the input data. It can be applied to thousands of samples. It is capable\nto catch major topological properties of ARG and it is linear in the data size." + }, + { + "id": 99496, + "strid": "0444dc06-d34e-4227-9ac3-ec0d39d5369d", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.473, + 1578.464, + 660.262, + 46.50500000000011 + ], + "priority": 7, + "parents": [ + 99522 + ], + "children": [ + 99490 + ], + "area": 95454.453472, + "iscrowd": 0, + "segmentation": [], + "text": "NOTATIONS AND ASSUMPTIONS" + }, + { + "id": 99490, + "strid": "957206c6-e698-4bb3-ba32-f82b82c53b2e", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 54.04, + 1668.388, + 1499.374, + 265.26199999999994 + ], + "priority": 8, + "parents": [ + 99496 + ], + "children": [], + "area": 90159.68751999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99495, + "strid": "d9132960-8645-418a-934e-62058f153061", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 59.051, + 1997.253, + 995.515, + 50.93900000000008 + ], + "priority": 9, + "parents": [ + 99522 + ], + "children": [ + 99492, + 99491 + ], + "area": 117939.786903, + "iscrowd": 0, + "segmentation": [], + "text": "POSITIONAL BURROWS WHEELER TRANSFORM" + }, + { + "id": 99491, + "strid": "c254db1a-83bf-46ef-a5bf-356844f462bd", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.497, + 2080.462, + 1495.647, + 296.779 + ], + "priority": 10, + "parents": [ + 99495 + ], + "children": [], + "area": 102976.627614, + "iscrowd": 0, + "segmentation": [], + "text": "Positional Burrows Wheeler Transform [R. Durbin] is a transformation of genomic data which\nallows efficient data compression and opens possibility for fast and accurate imputation, phasing\netc. We introduce a natural modification of the PBWZ rules which we call a tree consistent PBWT\n(shortly tcPBWJ).\n\nDefinition. We define a map o from the set BM = {0, 1)! of binary columns of length M to the set\nTT of permutations 7 of length M to be tree consistent if it satisfies the requirements that for any\n\nye pM" + }, + { + "id": 99492, + "strid": "a087fd34-3c48-476c-b722-eb3860e07700", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 51.049, + 2381.729, + 1494.095, + 259.7669999999998 + ], + "priority": 11, + "parents": [ + 99495 + ], + "children": [], + "area": 121584.88372099999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99494, + "strid": "99661c07-0c03-43c1-92d3-1dbc511f6140", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 56.539, + 2707.44, + 399.821, + 43.077999999999975 + ], + "priority": 12, + "parents": [ + 99522 + ], + "children": [ + 99493 + ], + "area": 153075.95016, + "iscrowd": 0, + "segmentation": [], + "text": "tcPBWT EXAMPLE" + }, + { + "id": 99493, + "strid": "975f6fe6-bc1e-4185-bb5e-e6ac0fe44e49", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 333.089, + 2780.238, + 909.2930000000001, + 502.71500000000015 + ], + "priority": 13, + "parents": [ + 99494 + ], + "children": [], + "area": 926066.6951819999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99521, + "strid": "ac1c1bff-8ca1-4038-b2ac-47930ca4caa6", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 60.795, + 3339.425, + 1276.539, + 54.94599999999991 + ], + "priority": 14, + "parents": [ + 99522 + ], + "children": [ + 99519, + 99520 + ], + "area": 203020.34287500003, + "iscrowd": 0, + "segmentation": [], + "text": "PREDICTION QUALITY AND RUN-TIME: PBWT anp tcPBWT" + }, + { + "id": 99520, + "strid": "b75fd637-4da9-41fd-9cc1-7ac10b70ae67", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.931, + 3427.189, + 1501.688, + 217.183 + ], + "priority": 15, + "parents": [ + 99521 + ], + "children": [], + "area": 174550.16295899998, + "iscrowd": 0, + "segmentation": [], + "text": "The initial idea to use PBWJ for data compression relies on the prediction of a column k + 1 based\non the PBWYT build at position k. The haplotypes carrying mutation (or, the symbol 1) at the\ncolumn tend to stay together. They usually form a small number of “blocks” of ones. Here we\ncompare how tcPBWI improves (decreases) the number of such blocks relatively to PBWT. The\nincrease in the run-time turns out to be very small." + }, + { + "id": 99519, + "strid": "308275aa-21e4-41e0-85ca-1d069c8b48b0", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 396.67, + 3654.398, + 829.808, + 176.15200000000004 + ], + "priority": 16, + "parents": [ + 99521 + ], + "children": [], + "area": 1449590.0546600001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99518, + "strid": "dee89c82-fa28-4c4c-9555-b35df8147833", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 53.449, + 3897.684, + 761.096, + 59.596000000000004 + ], + "priority": 17, + "parents": [ + 99522 + ], + "children": [ + 99517, + 99516, + 99515 + ], + "area": 208327.31211600002, + "iscrowd": 0, + "segmentation": [], + "text": "tcPBWIT AND PERFECT PHYLOGENY" + }, + { + "id": 99517, + "strid": "c3a9babb-fdfd-4283-b48a-7bb1f13ba270", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 50.966, + 3984.596, + 1462.596, + 86.91199999999981 + ], + "priority": 18, + "parents": [ + 99518 + ], + "children": [], + "area": 203078.919736, + "iscrowd": 0, + "segmentation": [], + "text": "In case of the perfect phylogeny and if there occurred at least one mutation at every edge of the\ncorresponding genealogical tree, then tcPBWYI will find the correct topology in linear time." + }, + { + "id": 99516, + "strid": "d6eb8184-41d9-4050-804a-c97b7c42270c", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 564.65, + 4083.503, + 319.01300000000003, + 257.61699999999973 + ], + "priority": 19, + "parents": [ + 99518 + ], + "children": [], + "area": 2305749.96895, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99515, + "strid": "18361c63-158c-409e-97ad-e970a4db23af", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 46.653, + 4349.564, + 1442.863, + 221.27099999999973 + ], + "priority": 20, + "parents": [ + 99518 + ], + "children": [], + "area": 202920.209292, + "iscrowd": 0, + "segmentation": [], + "text": "Lemma. Let H be a set of haplotypes derived from mutations on some coalescent tree without\nrecombination. Consider a tcPBWd derived from H. Then for any 0 < i < k, the column i of H\npermuted by ag, that is (/q, (0) [i], Mg, (2) i, -- «May (M—1) [i]),contains only one block of ones.\n\nThis follows because each permutation o(yk+1) will not break the block of ones established by\no(yk ), although it can either move this block or permute some haplotypes within it." + }, + { + "id": 99506, + "strid": "b70d4b22-c09d-49c3-9d7a-66be450f54c4", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1607.417, + 376.226, + 422.30500000000006, + 56.601 + ], + "priority": 21, + "parents": [ + 99522 + ], + "children": [ + 99501 + ], + "area": 604752.068242, + "iscrowd": 0, + "segmentation": [], + "text": "tcPBWT AND ARG" + }, + { + "id": 99501, + "strid": "5d0f4b60-9a97-4b54-b8a1-c5e6774b5f91", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1599.307, + 468.098, + 1490.4000000000003, + 459.036 + ], + "priority": 22, + "parents": [ + 99506 + ], + "children": [], + "area": 748632.408086, + "iscrowd": 0, + "segmentation": [], + "text": "In ARG neighbouring local trees are quite similar, so our idea is to keep as much branches of a\ncurrent local tree as possible while moving from a site k to the following site k + 1.\n\nThe algorithms presents the new column k + 1 as a set of several branches of local tree at the\nprevious position k. If there is only one branch in this representation then we claim this new\ncolumn to be consistent with the current tree and copy the local tree from the previous position.\nOtherwise we find the minimal number of prune-and-regraft operations to generate a consistent\ntree. “Backward run” would help to improve the inference.\n\nWe applied our programme to the chromosome 20 from 1000 Genome Project. The dataset\ncontained 5006 haplotypes and about 866 thousands SNPs. It took about 27 minutes for a\nMacBook Pro laptop to build an ARS." + }, + { + "id": 99505, + "strid": "3aa60140-04d5-4583-bcd0-af167971f500", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1607.062, + 983.375, + 1242.112, + 53.40599999999995 + ], + "priority": 23, + "parents": [ + 99522 + ], + "children": [ + 99502 + ], + "area": 1580344.5942499998, + "iscrowd": 0, + "segmentation": [], + "text": "DEMOGRAPHIC INFERENCE FROM AG: CLUSTER DENSITY" + }, + { + "id": 99502, + "strid": "09be3714-8aeb-4bb0-bbc9-4177dbb5f79d", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1596.023, + 1070.385, + 1502.952, + 513.4590000000001 + ], + "priority": 24, + "parents": [ + 99505 + ], + "children": [], + "area": 1708359.078855, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99504, + "strid": "a7e162c6-36fa-4605-bce8-ef77cc6c147c", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1611.871, + 1660.891, + 603.8420000000001, + 48.44399999999996 + ], + "priority": 25, + "parents": [ + 99522 + ], + "children": [ + 99507, + 99503 + ], + "area": 2677142.0370610002, + "iscrowd": 0, + "segmentation": [], + "text": "CLUSTER DENSITY: EXAMPLE" + }, + { + "id": 99503, + "strid": "88f7153a-1ab1-4baf-9827-b88d64b2607a", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1602.874, + 1741.207, + 1491.6590000000003, + 130.18700000000013 + ], + "priority": 26, + "parents": [ + 99504 + ], + "children": [], + "area": 2790935.4289180003, + "iscrowd": 0, + "segmentation": [], + "text": "We applied our algorithms to the 1000 Genome Project data (5006 haplotypes) and computed\ncluster density (indeed sampled 1 in 50 positions). We present the comparison of GBR to FIN, TSI,\nCHS and YRI populations." + }, + { + "id": 99507, + "strid": "9b40aa11-46f5-4ab7-8b33-a9d704acf79a", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1745.846, + 1896.911, + 1212.989, + 455.683 + ], + "priority": 27, + "parents": [ + 99504 + ], + "children": [], + "area": 3311714.481706, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99508, + "strid": "577e6424-6623-4ba4-829f-0454097c0c06", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1609.763, + 2443.656, + 1292.7929999999997, + 56.090000000000146 + ], + "priority": 28, + "parents": [ + 99522 + ], + "children": [ + 99509 + ], + "area": 3933707.0135279996, + "iscrowd": 0, + "segmentation": [], + "text": "DEMOGRAPHIC INFERENCE FROM ARS: IMBALANCE DENSITY" + }, + { + "id": 99509, + "strid": "db581d06-dec1-4049-af29-7adcc8df901f", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1598.813, + 2529.098, + 1498.754, + 676.79 + ], + "priority": 29, + "parents": [ + 99508 + ], + "children": [], + "area": 4043554.7606740003, + "iscrowd": 0, + "segmentation": [], + "text": "Cluster density allows to compare two particular haplotypes. Another summary statistic imbalance\ndensity is designed to compare two populations. Let the set of haplotypes be divided in two\npopulations P; and P27: H = Pj U Pp. For each branch B of each local tree compute the quantity\nBOP,| |BAP. 4\n1(B) =! AP | [BN Pol .\nIP4| [Pol (Son Boral)\n|P1I [Po\nDefinition. Imbalance density is the vector J(P1, P2) = {tz,..., tg} such that y is a mean value of\nI(B) over all branches of all local trees possessing k leaves:\n1\nke = gE 1(B).\n#HB:BeET € ARS(H), |B] =k} TEARS) BETIBI=k\nQualitative analysis of shapes of this distribution for simulated data shows that this statistics has\nstrong signal for different demographical scenarios. tcPBW7’s prediction is very close to the true\nanswer.\n\n \n\n \n\n \n\nIt is not clear yet how to generalise this definition for a set with more than two populations." + }, + { + "id": 99510, + "strid": "90d38776-aef6-4c32-aecd-2b3f68e9dd94", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1607.147, + 3259.208, + 665.3589999999999, + 46.884000000000015 + ], + "priority": 30, + "parents": [ + 99522 + ], + "children": [ + 99511, + 99512 + ], + "area": 5238026.359576, + "iscrowd": 0, + "segmentation": [], + "text": "IMBALANCE DENSITY: EXAMPLE" + }, + { + "id": 99511, + "strid": "b2a31817-3bf3-40f4-bde5-bb34d4654066", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1598.961, + 3341.762, + 1501.811, + 173.1840000000002 + ], + "priority": 31, + "parents": [ + 99510 + ], + "children": [], + "area": 5343347.109282, + "iscrowd": 0, + "segmentation": [], + "text": "We simulated three sets of haplotypes with different demographic histories. Each set contains two\npopulations with 50 haplotypes in each. The first two had a split 250 and 500 generations ago\nrespectively. The third one had only migration rate of 30 and the populations never merged in one\npopulation." + }, + { + "id": 99512, + "strid": "257d1a21-a396-4717-8221-875efa17bb5e", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1745.075, + 3530.093, + 1226.088, + 529.0610000000001 + ], + "priority": 32, + "parents": [ + 99510 + ], + "children": [], + "area": 6160277.041975, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 99514, + "strid": "91a4b563-7313-4129-bd8d-0ee893e4ffa1", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1612.882, + 4135.262, + 743.4969999999998, + 49.34599999999955 + ], + "priority": 33, + "parents": [ + 99522 + ], + "children": [ + 99513 + ], + "area": 6669689.645084, + "iscrowd": 0, + "segmentation": [], + "text": "PROJECT STATE AND FUTURE PLANS" + }, + { + "id": 99513, + "strid": "2464b64b-d407-4395-915c-7c6ef92c6440", + "image_id": 204350, + "image_name": "121970.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1597.945, + 4224.818, + 1497.9549999999997, + 363.4449999999997 + ], + "priority": 34, + "parents": [ + 99514 + ], + "children": [], + "area": 6751026.79901, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195684, + "strid": "45222e7e-a461-42ed-bf72-fa1c36da6d40", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 185.05, + 78.41, + 127.38999999999999, + 174.33 + ], + "priority": -1, + "parents": [], + "children": [ + 195669, + 195673, + 195670, + 195674, + 195668, + 195671, + 195672 + ], + "area": 14509.7705, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195668, + "strid": "10f994f7-2e7e-4dcd-9077-60b143a81f11", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 564.612, + 152.277, + 2211.729, + 216.87600000000003 + ], + "priority": 1, + "parents": [ + 195684 + ], + "children": [], + "area": 85977.42152399999, + "iscrowd": 0, + "segmentation": [], + "text": "rexposome\nA bioinformatic tool for characterizing multiple environmental factors\nand its association with different omics biomarkers and disease" + }, + { + "id": 195669, + "strid": "a5868a43-fc10-42f8-a4c7-60c3e8c473a5", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 456.658, + 409.027, + 2434.105, + 185.776 + ], + "priority": 2, + "parents": [ + 195684 + ], + "children": [], + "area": 186785.451766, + "iscrowd": 0, + "segmentation": [], + "text": "Carles Hernandez-Ferrer ‘**, Martine Vrijheid*’, Juan R Gonzalez”\n\n1.1SGlobal, Centre for Research in Environmental Epidemiology (CREAL) / 2. Universitat Pompeu Fabra (UPF) / 3. CIBER Epidemiologia y Salud Publica (CIBERESP)\n* Contact information: chernandez@creal.cat / www.creal.cat/brge" + }, + { + "id": 195670, + "strid": "ae088628-f1c6-4021-89b7-e60d2cd5084b", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 121.059, + 801.797, + 575.913, + 68.84699999999998 + ], + "priority": 3, + "parents": [ + 195684 + ], + "children": [ + 195675 + ], + "area": 97064.743023, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195675, + "strid": "9dc5745e-a356-4c66-a146-b294918b0d1f", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.905, + 874.199, + 3118.733, + 387.76599999999996 + ], + "priority": 4, + "parents": [ + 195670 + ], + "children": [], + "area": 101324.035095, + "iscrowd": 0, + "segmentation": [], + "text": "Exposome encompasses the totality of human environmental exposures from conception onwards, complementing the genome. The overall aim of\nHELIX is to exploit novel tools and methods to characterise early-life exposure to a wide range of environmental hazards, and to integrate and link\nthese exposures with data on major child health outcomes in population studies, thus developing an Early-Life Exposome approach. For that, HELIX\nfocuses on the most critical periods of life during pregnancy and the first years of childhood. One of the HELIX objectives is to determine molecular\nsignatures associated with environmental exposures through analysis of metabolites, proteins, RNA transcripts and DNA methylation. To achieve\nthis goal two different approaches will be followed: single-integration, that corresponds to integrate the exposome with each single-omic, and\ncross-omics, that corresponds to the integration of the exposome with all omics." + }, + { + "id": 195671, + "strid": "9f37feb3-8c31-46fc-bf38-ab484c5d0ae5", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 121.832, + 1312.785, + 377.692, + 67.25999999999999 + ], + "priority": 5, + "parents": [ + 195684 + ], + "children": [ + 195682, + 195676, + 195683 + ], + "area": 159939.22212, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195676, + "strid": "7800f28d-b4ed-4a9d-a56a-5eda7a41de42", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.392, + 1385.888, + 3118.243, + 338.91499999999996 + ], + "priority": 6, + "parents": [ + 195671 + ], + "children": [], + "area": 159920.38809599998, + "iscrowd": 0, + "segmentation": [], + "text": "In order to implement the required pipelines to analyse the exposome and its integration with omics data, three R packages have been developed:\nMultiDataSet and rexposome and CTDq. MultiDataSet is a package implementing a class to encapsulate datasets from multiple omics with no\nsamples restriction. It aims to be the new master class in Bioconductor for multi omics analysis. rexposome includes tools to find associations\nbetween the exposome and transcriptome data, methylome data, preoteome data or phenotypes. It also includes tools to integrate the exposome\nwith multiple omics data (genome, transcriptome, methylome, proteome) with and without supervision (figure 1). CTDq was developed to query\n“The Comparative Toxicogenomics Database” and “DisGeNET” to enrich and visualize the results obtained by rexposome." + }, + { + "id": 195682, + "strid": "3f24d701-5a04-4bb0-b8f4-d11e59f2e0a1", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 290.071, + 1734.638, + 1145.1280000000002, + 1168.158 + ], + "priority": 7, + "parents": [ + 195671 + ], + "children": [ + 195680 + ], + "area": 503168.179298, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195680, + "strid": "dc3acb30-33a5-458b-9ed4-c69edfe2439b", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 115.043, + 2930.526, + 1520.48, + 190.0909999999999 + ], + "priority": 8, + "parents": [ + 195682 + ], + "children": [], + "area": 337136.502618, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 1 - rexposome is an R package conceived to perform massive association and integration analysis\nin HELIX framework. It uses standard and well known pipelines to discover associations between\nexposome and omics data, also with phenotypes (uni-variant and multi-variant). It also brings two\nstrategies to deal with muli omics analysis (crossomics): multi canonical correlation for non supervised\nanalysis and multiple co-inertia for phenotype-supervised analysis." + }, + { + "id": 195683, + "strid": "34c16fab-090f-4e32-a5e8-459167a47fad", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1959.811, + 1853.399, + 1024.8770000000002, + 881.7670000000003 + ], + "priority": 9, + "parents": [ + 195671 + ], + "children": [ + 195681 + ], + "area": 3632311.7475889996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 195681, + "strid": "96678f94-0b58-468e-99c1-927335c3e722", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1708.543, + 2930.78, + 1522.11, + 190.5 + ], + "priority": 10, + "parents": [ + 195683 + ], + "children": [], + "area": 5007363.65354, + "iscrowd": 0, + "segmentation": [], + "text": "FIGURE 2 - The subset of the HELIX’s Spanish cohort includes 88 exposures grouped in 13 families for 730\nsubjects. lt also includes 4 phenotypes for 657 subjects, gene expression data for 124 subjects (Affymetrix\nHTA 2.0), methylation data for 209 subjects (Illumina 450k), SNP data for 396 subjects (Illumina HumanCore\nBeadChip) and proteome data including 47 analytes for 125 subjects (two R&S System Quantikine Human\nkits)." + }, + { + "id": 195672, + "strid": "d58cca55-e784-4804-8a2e-1cffb5b0793e", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 122.275, + 3170.978, + 333.17500000000007, + 67.61400000000003 + ], + "priority": 11, + "parents": [ + 195684 + ], + "children": [ + 195677 + ], + "area": 387731.33495000005, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195677, + "strid": "beac7b9b-c3ce-4814-bb18-cf5360f0944d", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.534, + 3259.097, + 3117.609, + 612.8600000000001 + ], + "priority": 12, + "parents": [ + 195672 + ], + "children": [], + "area": 376536.51279800007, + "iscrowd": 0, + "segmentation": [], + "text": "Package performace was tested by analysing a subset of the HELIX’s Spanish cohort. This included a set of 4 phenotypes (sex, age, chest whistling\nand wheezing), 88 exposures, SNP data, gene expresion data, methylation data and proteome data (figure 2). Ex WAS (Exposome-Wide Association\nStudy) showed association between Monoisobutyl phthalate, Vanadium in PM1o and Cotinine with chest whistling (P-Value < 0.05). Vanadium in\nPM10, Mono-(2-ethyl-5-oxohexyl), Mono(2-ethyl-5-carboxypentyl) and Mono-(2-ethyl-5-hydroxyhexyl) phthalates where linked to wheezing (P-Value\n< 0.05).\n\nSingle-omics association analyses found three BDEs (Polybrominated diphenyl ethers: BDE153, BDE209 and BDE47) were associated with genes\nenriched in synaptic transmission, neurogenesis, cell development, cell differentiation, neuron development, neuron projection development and\nneuron projection morphogenesis (P-Value < 10e€-5). This analysis also reveal associations between Pb (Metal) and DDT (Organochlorine) with\nmultiple RNA regulation and metabolic processes, respectively. Cross-omic analysis found a significant correlation between genes RP11, RNU6 and\nHTR3E with particle matter." + }, + { + "id": 195673, + "strid": "2e2fca7f-7c2f-48b9-8fbc-c37274cae7ed", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 113.692, + 3924.922, + 514.011, + 67.48999999999978 + ], + "priority": 13, + "parents": [ + 195684 + ], + "children": [ + 195678 + ], + "area": 446232.23202399997, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195678, + "strid": "919d440d-7a82-4306-85de-e97df6a77f14", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 112.092, + 3999.457, + 3119.659, + 170.721 + ], + "priority": 14, + "parents": [ + 195673 + ], + "children": [], + "area": 448307.134044, + "iscrowd": 0, + "segmentation": [], + "text": "R package MultiDataSet was released with Bioconductor 3.3. Package rexposome is currently being used within HELIX project and its release is\nplaned with Bioconductor 3.4. CTDq package is still in development, and it is planed to be released with rexposome in Bioconductor 3.4. Current\nversion of rexposome and CTDq are available upon request." + }, + { + "id": 195674, + "strid": "fcb2c8ab-38b5-4080-984e-6e7cc9e4c0c6", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 121.747, + 4200.951, + 341.834, + 67.43299999999999 + ], + "priority": 15, + "parents": [ + 195684 + ], + "children": [ + 195679 + ], + "area": 511453.181397, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 195679, + "strid": "a68feb88-be7f-499a-b358-6a4b1f27179e", + "image_id": 208161, + "image_name": "9532.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 115.677, + 4279.618, + 3118.001, + 113.57600000000002 + ], + "priority": 16, + "parents": [ + 195674 + ], + "children": [], + "area": 495053.3713860001, + "iscrowd": 0, + "segmentation": [], + "text": "This work has been supported by the Spanish Ministry of Economy and Competitiveness (MTM2015-68140-R) and HELIX Project supported by\nEuropean Comission FP7 (GA#308333)." + }, + { + "id": 181281, + "strid": "864c8c00-c037-45fb-940f-bfaf34881bc9", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 198.58, + 578.59, + 337.91999999999996, + 232.31999999999994 + ], + "priority": -1, + "parents": [], + "children": [ + 181269, + 181271, + 181267, + 181266, + 181270, + 181264, + 181268, + 181265 + ], + "area": 114896.40220000001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181264, + "strid": "7c1267d2-1dda-4283-b234-e9621cd97ef3", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 607.101, + 66.746, + 2856.074, + 418.772 + ], + "priority": 1, + "parents": [ + 181281 + ], + "children": [], + "area": 40521.563345999995, + "iscrowd": 0, + "segmentation": [], + "text": "Elevation in liver enzymes are associated with increased\nIL-2 and predicts severe outcomes of dengue virus\ninfection in a Sri Lankan cohort" + }, + { + "id": 181265, + "strid": "94fefa9d-404e-43e8-9b98-754311296d81", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 672.764, + 584.437, + 2399.052, + 268.6070000000001 + ], + "priority": 2, + "parents": [ + 181281 + ], + "children": [], + "area": 393188.17386800004, + "iscrowd": 0, + "segmentation": [], + "text": "Senaratne UTN1, Carr JM? and Noordeen F*\n\n1. Department of Microbiology, Faculty of Medicine, University of Peradeniya, Sri Lanka\n2. Microbiology and Infectious Diseases, School of Medicine, Flinders University, Australia" + }, + { + "id": 181266, + "strid": "bbd812a4-a6af-4231-ab7e-b81c229f71dd", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 400.179, + 957.88, + 428.7610000000001, + 99.6350000000001 + ], + "priority": 3, + "parents": [ + 181281 + ], + "children": [ + 181276 + ], + "area": 383323.46051999996, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 181276, + "strid": "f72d5733-c157-40aa-90b7-faa18af93e46", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 49.164, + 1093.327, + 1133.127, + 950.4269999999999 + ], + "priority": 4, + "parents": [ + 181266 + ], + "children": [], + "area": 53752.328628, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181269, + "strid": "94e0ca96-bae4-4642-9a59-0042a405d00a", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 209.178, + 2108.404, + 814.498, + 74.96099999999979 + ], + "priority": 5, + "parents": [ + 181281 + ], + "children": [ + 181278 + ], + "area": 441031.731912, + "iscrowd": 0, + "segmentation": [], + "text": "Materials and methods" + }, + { + "id": 181278, + "strid": "857e9209-ec3a-4d54-a538-cbc18f52af2c", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.191, + 2236.196, + 1134.055, + 801.2840000000001 + ], + "priority": 6, + "parents": [ + 181269 + ], + "children": [], + "area": 110000.717436, + "iscrowd": 0, + "segmentation": [], + "text": "A total of 67 DENV infected patients (DF=24\nand DHF=43) either confirmed by ELISA for\nanti-DENV IgM or RT-PCR from General\nHospital, Kandy, Sri Lanka were selected for\nthe IL-2 and TNF-a evaluation.\n\nClinical, haematological parameters and liver\nenzymes AST and ALT were tested on\nadmission. Five mL of blood was collected\nfrom DF/DHF suspected patients on fever\ndays 5 or less (onset of fever as day 1)." + }, + { + "id": 181270, + "strid": "4e167824-f6ea-42e0-9278-8e84ebaefe57", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 477.538, + 3104.269, + 269.74199999999996, + 80.15599999999995 + ], + "priority": 7, + "parents": [ + 181281 + ], + "children": [ + 181277, + 181280, + 181272 + ], + "area": 1482406.409722, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 181272, + "strid": "5a6ba102-d15f-438f-a784-4571e746a066", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 41.93, + 3226.336, + 1138.485, + 879.9569999999999 + ], + "priority": 8, + "parents": [ + 181270 + ], + "children": [], + "area": 135280.26848, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181280, + "strid": "92793c74-e663-466f-9dc3-61f67938f51d", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1228.896, + 939.282, + 1086.4750000000001, + 1538.268 + ], + "priority": 9, + "parents": [ + 181270 + ], + "children": [ + 181279 + ], + "area": 1154279.892672, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181279, + "strid": "0d003743-2dba-4ffe-9cd4-f6334f206e32", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1227.652, + 2549.026, + 1091.2020000000002, + 107.9409999999998 + ], + "priority": 10, + "parents": [ + 181280 + ], + "children": [], + "area": 3129316.8669519997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Liver enzymes, AST and ALT (U/L) levels and IL-2\nin DF and DHF patients." + }, + { + "id": 181277, + "strid": "fefcc9a8-b7c9-4172-bc56-8822ae98693f", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1226.283, + 2659.963, + 893.7890000000002, + 104.01499999999987 + ], + "priority": 11, + "parents": [ + 181270 + ], + "children": [], + "area": 3261867.407529, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181267, + "strid": "525a0b25-996f-4e49-b97c-1a76cc602681", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2748.352, + 967.855, + 369.471, + 76.68299999999999 + ], + "priority": 12, + "parents": [ + 181281 + ], + "children": [ + 181275 + ], + "area": 2660006.22496, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 181275, + "strid": "40ddea87-da0b-4d7f-b315-2db8a955e146", + "image_id": 207580, + "image_name": "8461.png", + 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0, + "segmentation": [], + "text": "This work was supported by National Science\nFoundation of Sri Lanka (Grant No: NSF/SCH/12/03)\nand National Research Council of Sri Lanka (Grant\nNo: 11-129)." + }, + { + "id": 181268, + "strid": "04b77f6d-a938-4cb7-aa3a-e3c6c2e1d306", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1577.369, + 2873.007, + 391.548, + 77.39699999999993 + ], + "priority": 16, + "parents": [ + 181281 + ], + "children": [ + 181273 + ], + "area": 4531792.178583, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 181273, + "strid": "aba73f0f-b4d9-46fe-ac35-b0458dbe577b", + "image_id": 207580, + "image_name": "8461.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1230.39, + 3000.385, + 1083.4460000000001, + 635.7129999999997 + ], + "priority": 17, + "parents": [ + 181268 + ], + "children": [], + "area": 3691643.7001500004, + "iscrowd": 0, + "segmentation": [] + }, 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+ "children": [], + "area": 95966.55006000001, + "iscrowd": 0, + "segmentation": [], + "text": "The active compound in\nGleevec is Imatinib Mesylate.\nHowever it appears in many\ndatabases as Imatinib." + }, + { + "id": 37191, + "strid": "e3dd87d1-7c90-4f40-adc6-c3dcec6396c7", + "image_id": 201969, + "image_name": "117951.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 218.123, + 548.134, + 169.57099999999997, + 48.971000000000004 + ], + "priority": 10, + "parents": [ + 37196 + ], + "children": [], + "area": 119560.632482, + "iscrowd": 0, + "segmentation": [], + "text": "Lens A would be used for\nquestion 1 and activate the\nstructure links." + }, + { + "id": 37192, + "strid": "f081dbc9-ad45-4ae3-a8c8-4c2c70ae15b4", + "image_id": 201969, + "image_name": "117951.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 220.316, + 638.036, + 181.996, + 68.70600000000002 + ], + "priority": 11, + "parents": [ + 37196 + ], + "children": [], + "area": 140569.539376, + "iscrowd": 0, + "segmentation": [], + "text": "Lens B would be used for\nquestion 2 and activates the\nstructure'links and the drug\nname links." + }, + { + "id": 37187, + "strid": "421b5020-f216-4862-9eb8-4a918e81ab9d", + "image_id": 201969, + "image_name": "117951.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 226.163, + 753.52, + 176.88, + 134.48699999999997 + ], + "priority": 12, + "parents": [ + 37196 + ], + "children": [], + "area": 170418.34376000002, + "iscrowd": 0, + "segmentation": [], + "text": "Question 3 could be\nanswered with either lens,\nresulting in different\nanswers.\n\nIt could also involve links\nbetween genes and proteins\nand across species\ncontrolled lenses)" + }, + { + "id": 37189, + "strid": "de5a06b5-b885-4472-a4b0-816b8eeb167d", + "image_id": 201969, + "image_name": "117951.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 451.284, + 437.036, + 273.36, + 69.43599999999998 + ], + "priority": 13, + "parents": [ + 37196 + ], + "children": [], + "area": 197227.354224, + "iscrowd": 0, + "segmentation": [], + "text": "A Scientific Lens relates database records\nunder a set of scientific assumptions.\nChanging the lens varies the activated links\nand the resulting data retrieved." + }, + { + "id": 37188, + "strid": "d6970b15-e4c3-469c-a4aa-8e85039fa7b6", + "image_id": 201969, + "image_name": "117951.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 435.204, + 545.942, + 312.098, + 339.87300000000005 + ], + "priority": 14, + "parents": [ + 37196 + ], + "children": [], + "area": 237596.14216800002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86588, + "strid": "49a26216-e6cf-47f7-bb48-fa5bcc14559e", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 33.12, + 29.36, + 197.12, + 112.64 + ], + "priority": -1, + "parents": [], + "children": [ + 86566, + 86565, + 86567, + 86569, + 86571, + 86568, + 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"text": "Richard Webb, Steve Potter, Steve Evans', Shareen H@Doak', Neenu Singh‘\nDept of Biomedical Sciences, Cardiff Metropolitan University, Cardiff CF5 2YB; ‘Institute of Life Science, Swansea University, Swansea SA2 8PP" + }, + { + "id": 86567, + "strid": "062b1bea-e220-4379-8704-b5a7d1b461bc", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 98.805, + 525.057, + 320.57, + 45.075000000000045 + ], + "priority": 3, + "parents": [ + 86588 + ], + "children": [ + 86574, + 86572 + ], + "area": 51878.256885, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 86572, + "strid": "b237e9ea-80dd-432c-824b-1a292791f134", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.171, + 592.513, + 1169.274, + 1190.8310000000001 + ], + "priority": 4, + "parents": [ + 86567 + ], + "children": [], + "area": 56982.56772300001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86574, + "strid": "7a41e92b-2826-4305-96dc-68f6ae036088", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 44.82, + 1907.877, + 1255.843, + 594.6399999999999 + ], + "priority": 5, + "parents": [ + 86567 + ], + "children": [ + 86573 + ], + "area": 85511.04714, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86573, + "strid": "0f8db46f-12ad-45c0-bde4-58c65cb83536", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 86.569, + 1830.516, + 1176.557, + 51.166999999999916 + ], + "priority": 6, + "parents": [ + 86574 + ], + "children": [], + "area": 158465.939604, + "iscrowd": 0, + "segmentation": [], + "text": "Table 1: Physico-chemical characterisation of Fe,O,-USPIONSs." + }, + { + "id": 86568, + "strid": "c8141f87-ce91-4c0d-b513-a0f38bcb6442", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 117.616, + 2551.487, + 224.64600000000002, + 44.53699999999981 + ], + "priority": 7, + "parents": [ + 86588 + ], + "children": [ + 86575 + ], + "area": 300095.694992, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 86575, + "strid": "841bde17-1da0-4f65-9836-86d83792abe1", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 115.838, + 2621.796, + 1139.967, + 910.5239999999999 + ], + "priority": 8, + "parents": [ + 86568 + ], + "children": [], + "area": 303703.60504799994, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86569, + "strid": "9cc053ae-d9a4-4bd9-9838-6586578024cb", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 106.538, + 3552.006, + 195.757, + 43.76800000000003 + ], + "priority": 9, + "parents": [ + 86588 + ], + "children": [ + 86583, + 86577, + 86578, + 86576, + 86584, + 86580, + 86581 + ], + "area": 378423.615228, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 86576, + "strid": "47db268c-e888-4fb1-9af7-08395037d07c", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.843, + 3617.422, + 1168.819, + 650.6960000000004 + ], + "priority": 10, + "parents": [ + 86569 + ], + "children": [], + "area": 368409.10874600004, + "iscrowd": 0, + "segmentation": [], + "text": "A. Physico-chemical properties were characterised\nfor Fe,0,-USPIONs)(Table 1). Size and crystallinity\nof the USPION were determined using TEM; it was\n~10 nm in sizezand had a crystalline core. DLS\nrevealed that the hydrodynamic size of the USPION\nwas lowest in the presence of 10% serum-containing\nmedia{P<0.05 v. 1% serum- containing media/PBS).\nAgglomeration was considerably higher in-RBS than\nin\\serum-containing media. The zeta potential for the\nFe,0,-USPIONs was approximately néutral\n(between -30mV and +30mV)." + }, + { + "id": 86577, + "strid": "5eb1b771-2ea0-41a6-9490-a9e56cd21aa3", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1318.763, + 597.015, + 999.931, + 294.30499999999995 + ], + "priority": 11, + "parents": [ + 86569 + ], + "children": [], + "area": 787321.2924449999, + "iscrowd": 0, + "segmentation": [], + "text": "B. Gelsolin was detected in monocytic\nprotein extracts using Western blot (Fig\n2b); accordingly, [Ca?*], exhibited an\ninverse relationship with actin\npolymerisation (P<0.05; Fig 2a)." + }, + { + "id": 86578, + "strid": "461a2ea6-816a-4a67-8d58-c4d159032aab", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1293.046, + 960.806, + 1071.771, + 696.2849999999999 + ], + "priority": 12, + "parents": [ + 86569 + ], + "children": [ + 86579 + ], + "area": 1242366.355076, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86579, + "strid": "50712a92-514c-457a-86e7-65e50b7078bc", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1302.351, + 1665.908, + 1046.982, + 116.25999999999999 + ], + "priority": 13, + "parents": [ + 86578 + ], + "children": [], + "area": 2169596.9497080003, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2: FITC-phalloidin flow.cytometry data illustrating the relationship\nbetween [Ca?*], and THP+1 cellular F-actin content (A); representative\nimage demonstrating.gelsolin expression in THP-1 monocytes (B)." + }, + { + "id": 86580, + "strid": "ea792f42-f1d1-4899-b68e-1b61dc7ab5ba", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1330.284, + 1866.062, + 956.527, + 296.80499999999984 + ], + "priority": 14, + "parents": [ + 86569 + ], + "children": [], + "area": 2482392.421608, + "iscrowd": 0, + "segmentation": [], + "text": "C. Thapsigargin (24-72h) induced\nsignificant increases in [Ca?*], (P<0.05;\nFig 3a), decreases in F-actin content\n(P<0.05; Fig 3b), and losses in cell\nviability (P<0.05; Fig 3c)." + }, + { + "id": 86581, + "strid": "5ae2431e-94f8-42a7-8a4f-14948e8ae5af", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1333.708, + 2188.845, + 1029.741, + 1380.7760000000003 + ], + "priority": 15, + "parents": [ + 86569 + ], + "children": [ + 86582 + ], + "area": 2919280.08726, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86582, + "strid": "6b857926-4454-47ab-8ee0-ad336173239f", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1320.899, + 3579.555, + 977.393, + 156.18100000000004 + ], + "priority": 16, + "parents": [ + 86581 + ], + "children": [], + "area": 4728230.619944999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3: Fluo-4/F1TC-phalloidin flow cytometry data illustrating the\nimpact of thapsigargin (100nM) on THP-1 [Ca?*]; (A) , cellular F-\nactin content (B) and cell viability (C), respectively (light grey bars:\n24h,dark grey bars: 48h; black bars: 72h; * P<0.05)" + }, + { + "id": 86583, + "strid": "c6be99a2-80a0-4bac-be4e-723e9d2ccb9b", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1340.506, + 3770.076, + 925.3970000000002, + 472.65399999999954 + ], + "priority": 17, + "parents": [ + 86569 + ], + "children": [], + "area": 5053809.498456, + "iscrowd": 0, + "segmentation": [], + "text": "D:\n\nIn contrast, Fe,O,-USPIONs induced\nonly transient non-significant\nincreases in [Ca?*], (Fig 4a);sand had\nno significant effect on> actin poly-\nmerisation (Fig 4b;,P>0.05 in both\ncases). However, cell viability was\nsignificantly reduced after 72h Fe,0,-\nUSPION treatment (P<0.05; Fig 4c)." + }, + { + "id": 86584, + "strid": "04140c39-f985-43e8-8a66-aece46980a6a", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2402.736, + 518.133, + 1103.409, + 1711.932 + ], + "priority": 18, + "parents": [ + 86569 + ], + "children": [ + 86585 + ], + "area": 1244936.811888, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86585, + "strid": "8cc6ef06-3543-421f-acbc-d322c7cd67d5", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2412.662, + 2254.38, + 1057.1079999999997, + 157.00700000000006 + ], + "priority": 19, + "parents": [ + 86584 + ], + "children": [], + "area": 5439056.959559999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 4: Fluo-4/FITC-phalloidin flow cytometry data illustrating the impact\nof Fe,O,-USPIONs (50yg/mb) ‘on THP-1 [Ca?*], (A) , cellular F-actin\ncontent (B) and cell viability (C), respectively (light grey bars: 24h; dark\ngrey bars: 48h; black.bars: 72h; * P<0.05)." + }, + { + "id": 86570, + "strid": "4052ab3a-9f6a-4e47-8469-c3701357ee5e", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2373.132, + 2427.982, + 291.7550000000001, + 43.15700000000015 + ], + "priority": 20, + "parents": [ + 86588 + ], + "children": [ + 86586 + ], + "area": 5761921.779624, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 86586, + "strid": "d1bb18de-78e1-4e07-9475-cc511245b499", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2372.85, + 2494.962, + 1121.5769999999998, + 1308.658 + ], + "priority": 21, + "parents": [ + 86570 + ], + "children": [], + "area": 5920170.5817, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 86571, + "strid": "7cc080e3-a757-4600-b19e-f5230cb54791", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2414.845, + 3817.011, + 220.5039999999999, + 39.93100000000004 + ], + "priority": 22, + "parents": [ + 86588 + ], + "children": [ + 86587 + ], + "area": 9217489.928295, + "iscrowd": 0, + "segmentation": [], + "text": "References:" + }, + { + "id": 86587, + "strid": "562d2f3b-4604-4569-be26-0c512cdfc5ab", + "image_id": 203869, + "image_name": "121074.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2415.77, + 3862.209, + 1063.6889999999999, + 434.741 + ], + "priority": 23, + "parents": [ + 86571 + ], + "children": [], + "area": 9330208.63593, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82129, + "strid": "52202830-6c9e-48a9-ac91-f511d7f8512a", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 60.44, + 18.41, + 52.74000000000001, + 62.05 + ], + "priority": -1, + "parents": [], + "children": [ + 82117, + 82114, + 82128, + 82116, + 82127, + 82126, + 82122, + 82113, + 82115, + 82112 + ], + "area": 1112.7004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82112, + "strid": "b584e5cf-d38c-4e14-a5de-1509dff989ca", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 147.803, + 12.252, + 539.755, + 60.92499999999999 + ], + "priority": 1, + "parents": [ + 82129 + ], + "children": [], + "area": 1810.882356, + "iscrowd": 0, + "segmentation": [], + "text": "Healthcare-associated infections (HAI) research\nTCE CHE leur NA" + }, + { + "id": 82113, + "strid": "550d4894-7f99-45f1-81af-fcbc5e411189", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 171.702, + 83.312, + 491.529, + 50.013999999999996 + ], + "priority": 2, + "parents": [ + 82129 + ], + "children": [], + "area": 14304.837023999999, + "iscrowd": 0, + "segmentation": [], + "text": "A ORC i ee oe\nSee ae Ca a Cee age can ag\nees EEC Lee rma Rtcl |" + }, + { + "id": 82114, + "strid": "71c2b01b-ca31-4948-a2b1-543c1db9ea61", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 171.015, + 164.145, + 31.311000000000007, + 14.045999999999992 + ], + "priority": 3, + "parents": [ + 82129 + ], + "children": [ + 82118 + ], + "area": 28071.257175, + "iscrowd": 0, + "segmentation": [], + "text": "PTT aa" + }, + { + "id": 82118, + "strid": "8506c765-1ae8-491c-b550-f436dd876305", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.521, + 188.619, + 205.5, + 22.688999999999993 + ], + "priority": 4, + "parents": [ + 82114 + ], + "children": [], + "area": 15565.028499, + "iscrowd": 0, + "segmentation": [], + "text": "To describe sclentiic output of HAI research\nin Asian countries" + }, + { + "id": 82115, + "strid": "732e0855-85f2-42e6-b8e2-7a542f781fea", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 101.392, + 232.841, + 172.252, + 14.429000000000002 + ], + "priority": 5, + "parents": [ + 82129 + ], + "children": [ + 82119 + ], + "area": 23608.214672, + "iscrowd": 0, + "segmentation": [], + "text": "Methods and Materials" + }, + { + "id": 82119, + "strid": "dba46ad8-b638-4450-97d9-9a5f444cda9a", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.486, + 257.565, + 207.75100000000003, + 147.849 + ], + "priority": 6, + "parents": [ + 82115 + ], + "children": [], + "area": 21245.50659, + "iscrowd": 0, + "segmentation": [], + "text": "Relevent queries regarding health care\nassociated infections (HAI) were\nconducted in Pubmed, filtered by Asian\ncountries. All years data were included\nfor bibliometric analysis. Number of\npublications by year, research trends,\ntop productive countries, citation\nanalysis, and most dominant journals\nwere analyzed. Pubmed resuits were\nanalyzed descriptively with Microsoft\nExcel. Network analysis was performed\nwith VOSViewer," + }, + { + "id": 82116, + "strid": "ddcbedc4-c2cf-4271-88df-6e2f831c6b60", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 160.376, + 435.977, + 53.69800000000001, + 14.319000000000017 + ], + "priority": 7, + "parents": [ + 82129 + ], + "children": [ + 82120 + ], + "area": 69920.24735199999, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 82120, + "strid": "71a8a5a3-e638-4dab-bffa-af608816cc39", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.913, + 459.471, + 207.39, + 273.827 + ], + "priority": 8, + "parents": [ + 82116 + ], + "children": [], + "area": 37636.648023, + "iscrowd": 0, + "segmentation": [], + "text": "Asian countries produced 4,968 HAI\npublications. Majority ofthe publications\n(68%) appeared inthe last decade. The\naverage annual growth rate was 14.8%.\n\nJapan was the most productive country that\ncontributes about 13.5% of total\npublications, folowed by China (11.9%), and\nTaiwan (11.794) Asian HAI research were\ncited in 76,727 articles with an average of\n15.9 cations per publication.\n\nThe top two most highly cited articles were\npublished in the New England Journal of\nMedicine folowed by the Journal of Clinical\nMicrobiology. The top three productive\njournals were Journal of Hospital Infection\n(319 papers: 6.4%), American Journal of\nInfection Control (203 papers: 4.1%) and\nInfection Control and Hospital Epidemiology\n(171 papers: 3.5%). The ton top journals\nvonttined 26%: of ail Avian MA literatures." + }, + { + "id": 82117, + "strid": "7d489122-48f6-445b-bd5b-f24c14162ac5", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 142.586, + 767.08, + 89.012, + 14.586999999999989 + ], + "priority": 9, + "parents": [ + 82129 + ], + "children": [ + 82121 + ], + "area": 109374.86888000001, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 82121, + "strid": "e54dd895-1103-47a6-b470-aa3e1d239be5", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.838, + 797.471, + 201.62200000000004, + 125.51099999999997 + ], + "priority": 10, + "parents": [ + 82117 + ], + "children": [], + "area": 66060.90269799999, + "iscrowd": 0, + "segmentation": [], + "text": "There was increasing research activity of\nHAI in Asian region over the last decade.\nJapan, China and Taiwan are the leading\ncountries that contributes around 25% of\ntotal HAl research in Asian counties,\nEmerging research topics in the last years\ninclude ventiator associated pneumonia,\nMASA (methicillin resistant staphylococcus\naureus), acinetobacter baumann,\ncarbapenems and tertiary care center." + }, + { + "id": 82126, + "strid": "a756a68b-a133-4e60-8cda-a8d8229f66a6", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 317.96, + 158.583, + 429.771, + 189.63200000000003 + ], + "priority": 11, + "parents": [ + 82129 + ], + "children": [ + 82123 + ], + "area": 50423.05067999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82123, + "strid": "bbd735e7-70a5-4feb-8b66-f6c77091b3b2", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 405.883, + 356.612, + 261.205, + 11.259000000000015 + ], + "priority": 12, + "parents": [ + 82126 + ], + "children": [], + "area": 144742.748396, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. Publication growth of Asian HAI research in Pubmed" + }, + { + "id": 82127, + "strid": "2e2e6ac9-8bc4-4870-8180-0cf5fe768102", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 316.58, + 374.623, + 440.75600000000003, + 222.728 + ], + "priority": 13, + "parents": [ + 82129 + ], + "children": [ + 82124 + ], + "area": 118598.14933999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82124, + "strid": "865e9d42-defe-49cd-ae9b-8b4ae61cb5b7", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 404.325, + 603.848, + 242.60999999999996, + 10.860000000000014 + ], + "priority": 14, + "parents": [ + 82127 + ], + "children": [], + "area": 244150.84259999997, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. Network of Asian HAI research topics by period" + }, + { + "id": 82128, + "strid": "3cc04c95-bd39-440f-b13a-1bb115b7681f", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 317.624, + 619.509, + 439.80099999999993, + 287.938 + ], + "priority": 15, + "parents": [ + 82129 + ], + "children": [ + 82125 + ], + "area": 196770.926616, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 82125, + "strid": "6d198d2f-b08e-4d6e-a3bf-928ab526f918", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 405.184, + 917.4, + 241.022, + 11.422000000000025 + ], + "priority": 16, + "parents": [ + 82128 + ], + "children": [], + "area": 371715.8016, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. Density map of Asian HAI research (1963-2017)" + }, + { + "id": 82122, + "strid": "95cf207e-d0e8-47b2-8bf6-4c12864ce300", + "image_id": 203694, + "image_name": "12076.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 421.51, + 970.95, + 372.17499999999995, + 127.77099999999996 + ], + "priority": 17, + "parents": [ + 82129 + ], + "children": [], + "area": 409265.1345, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157673, + "strid": "71174931-e4a0-495e-b7a6-2a5588bc80b2", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 173.67, + 216.7, + 133.22, + 98.46000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 157654, + 157655, + 157653, + 157651, + 157652, + 157649, + 157656, + 157671, + 157650 + ], + "area": 37634.289, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157649, + "strid": "2001e8ba-85b0-4f2d-8081-412ff59bc925", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 504.545, + 117.357, + 1889.5749999999998, + 236.802 + ], + "priority": 1, + "parents": [ + 157673 + ], + "children": [], + "area": 59211.887565000005, + "iscrowd": 0, + "segmentation": [], + "text": "Four-class classification of {NIRS signals for\ndecoding answers to multiple-choice questions" + }, + { + "id": 157650, + "strid": "20e09577-7a8f-433b-8aa0-58aa33bb5148", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 343.983, + 388.725, + 2406.332, + 244.89 + ], + "priority": 2, + "parents": [ + 157673 + ], + "children": [], + "area": 133714.79167500001, + "iscrowd": 0, + "segmentation": [], + "text": "Noman Naseer!, Keum-Shik Hong?!, Yong-I] Shin*, M. Jawad Khan! and M. Raheel Bhutta!\n'Department of Cogno-Mechatronics Engineering, Pusan National University, Korea\nSchool of Mechanical Engineering, Pusan National University, Korea\n3Department of Rehabilitation Medicine, Pusan National University School of Medicine, Yangsan, Korea" + }, + { + "id": 157651, + "strid": "0bb10086-53ca-425f-bc8f-5bec8831f90f", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 73.325, + 761.365, + 492.25900000000007, + 73.20100000000002 + ], + "priority": 3, + "parents": [ + 157673 + ], + "children": [ + 157659 + ], + "area": 55827.088625000004, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 157659, + "strid": "ca1f6bc3-d1e7-45ab-9a22-8470fc71094a", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.785, + 861.535, + 1427.583, + 792.333 + ], + "priority": 4, + "parents": [ + 157651 + ], + "children": [], + "area": 70460.639975, + "iscrowd": 0, + "segmentation": [], + "text": "Decision decoding is of particular importance to the people suffering from the\ntotally locked-in syndrome (LIS), amyotrophic lateral sclerosis (ALS),\nanarthria, vegetative state and other such motor disabilities, as despite of being\nfully conscious they cannot communicate naturally (Sorger et al. 2009). Brain-\ncomputer interface (BCI) can provide a means of communication for such\npeople by bypassing the central nervous system (Wolpaw et al. 2002).\n\nFunctional near-infrared spectroscopy (f[NIRS)-based BCIs (Naseer and Hong,\n2015) have shown to work well for binary decoding and communication in yes\nand no (Naseer et al. 2014). However, multiple decision-based communication\nhas not been performed using fNIRS yet.\n\nThis works presents a method by which four different fNIRS signals can be\nreliably originated to encode four distinct information units to answer four-\nchoice questions." + }, + { + "id": 157654, + "strid": "002d0040-d9fc-4b63-b342-9910a4fe8d16", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 71.607, + 1721.286, + 301.58000000000004, + 73.76999999999998 + ], + "priority": 5, + "parents": [ + 157673 + ], + "children": [ + 157667, + 157668, + 157669, + 157666, + 157658, + 157670 + ], + "area": 123256.126602, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 157666, + "strid": "09d94c54-3e54-449e-8bfe-8b3dfe4ab393", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 76.798, + 1811.035, + 1456.403, + 311.423 + ], + "priority": 6, + "parents": [ + 157654 + ], + "children": [], + "area": 139083.86593, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157667, + "strid": "c6fa118c-b9ee-414c-85b5-ebb40cc4ec18", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 76.413, + 2183.895, + 987.1669999999999, + 98.71300000000019 + ], + "priority": 7, + "parents": [ + 157654 + ], + "children": [], + "area": 166877.968635, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157670, + "strid": "626b686a-b89a-4d4b-a113-4a8ec658b50e", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 75.683, + 2343.573, + 887.547, + 44.18299999999999 + ], + "priority": 8, + "parents": [ + 157654 + ], + "children": [], + "area": 177368.635359, + "iscrowd": 0, + "segmentation": [], + "text": "Optode Placement and Channel Configuration" + }, + { + "id": 157668, + "strid": "1cdacd8a-4cd4-4802-91ab-1aef8ad8fc89", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 75.516, + 2450.325, + 1460.059, + 205.19500000000016 + ], + "priority": 9, + "parents": [ + 157654 + ], + "children": [], + "area": 185038.7427, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157669, + "strid": "6ea67b73-c3a0-48f6-8ac2-1846f09ff466", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 74.79, + 2717.641, + 1457.895, + 257.663 + ], + "priority": 10, + "parents": [ + 157654 + ], + "children": [], + "area": 203252.37039000003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157658, + "strid": "c3aa80f0-e582-4126-8e09-225fabdcd501", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 220.83, + 3009.824, + 1158.782, + 543.395 + ], + "priority": 11, + "parents": [ + 157654 + ], + "children": [ + 157664 + ], + "area": 664659.4339200001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157664, + "strid": "e28d58a4-887b-407a-8a07-93ada7ca95c6", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 205.463, + 3572.896, + 1164.735, + 61.63500000000022 + ], + "priority": 12, + "parents": [ + 157658 + ], + "children": [], + "area": 734097.930848, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Optode placement and channel configuration: Blue circles represent the emitters and green\nsquares represent the detectors." + }, + { + "id": 157652, + "strid": "dd84034c-aae4-4002-b5ab-778549ba26a5", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1584.928, + 758.012, + 950.0780000000002, + 95.00800000000004 + ], + "priority": 13, + "parents": [ + 157673 + ], + "children": [ + 157660 + ], + "area": 1201394.443136, + "iscrowd": 0, + "segmentation": [], + "text": "Experimental paradigm" + }, + { + "id": 157660, + "strid": "bd35aadd-8b27-49fd-b9d0-91369b302419", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1590.534, + 859.77, + 1324.348, + 316.568 + ], + "priority": 14, + "parents": [ + 157652 + ], + "children": [], + "area": 1367493.41718, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157653, + "strid": "e26f794f-700f-4ed5-9c74-ae826f856645", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1581.589, + 1230.933, + 1211.5900000000001, + 92.86400000000003 + ], + "priority": 15, + "parents": [ + 157673 + ], + "children": [ + 157661 + ], + "area": 1946830.0925369998, + "iscrowd": 0, + "segmentation": [], + "text": "Preprocessing & Classification" + }, + { + "id": 157661, + "strid": "17f52733-29bf-4f09-b2ef-139ea63e6f31", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1599.107, + 1327.495, + 1327.2669999999998, + 517.2759999999998 + ], + "priority": 16, + "parents": [ + 157653 + ], + "children": [], + "area": 2122806.5469649998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157655, + "strid": "2bb8c8bf-d376-4e7a-9e31-70039008cbd8", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1587.678, + 1938.224, + 290.71299999999997, + 71.83799999999997 + ], + "priority": 17, + "parents": [ + 157673 + ], + "children": [ + 157662, + 157657 + ], + "area": 3077275.6038720002, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 157662, + "strid": "f4e60cad-237d-4cef-b6d8-e944f67d4f09", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1607.515, + 2054.062, + 1293.0779999999997, + 153.69799999999987 + ], + "priority": 18, + "parents": [ + 157655 + ], + "children": [], + "area": 3301935.47593, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157657, + "strid": "5a6527c0-4833-4b66-bb32-2a61973d200e", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1632.702, + 2269.505, + 1202.5360000000003, + 691.6840000000002 + ], + "priority": 19, + "parents": [ + 157655 + ], + "children": [ + 157663 + ], + "area": 3705425.35251, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157663, + "strid": "4fcd15c8-0b0c-4772-839d-df622594b1c7", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1690.105, + 2982.85, + 1187.2059999999997, + 208.26299999999992 + ], + "priority": 20, + "parents": [ + 157657 + ], + "children": [], + "area": 5041329.69925, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. Decoding ratio of each option for all subjects: Correctly decoded answers\nrelative to the total number of times an option was selected. For example, for Subject 1,\nthe options A, B, C and D were selected 4, 5, 6, and 5 times, respectively, and were\ncorrectly decoded 3, 3, 3, and 4 times, respectively. This indicates that RI, LI, MA and\nMC were correctly classified 3/4, 3/5, 3/6 and 4/5 times, respectively, by Subject 1." + }, + { + "id": 157656, + "strid": "fcdec1c0-4cd1-4b37-b86e-284389643ab3", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1585.848, + 3324.407, + 460.62300000000005, + 73.96900000000005 + ], + "priority": 21, + "parents": [ + 157673 + ], + "children": [ + 157665 + ], + "area": 5272004.192136, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 157665, + "strid": "f497cbd5-6a33-4ec9-a39f-4dff5f259668", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1598.541, + 3425.591, + 1318.729, + 205.98000000000002 + ], + "priority": 22, + "parents": [ + 157656 + ], + "children": [], + "area": 5475947.662730999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 157671, + "strid": "15abdead-0f97-4058-bd8a-974cd6f5cadf", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 73.92, + 3699.226, + 292.075, + 56.95400000000018 + ], + "priority": 23, + "parents": [ + 157673 + ], + "children": [ + 157672 + ], + "area": 273446.78592, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 157672, + "strid": "0b7b1d55-f8ac-4766-8d88-466b29a72ee1", + "image_id": 206659, + "image_name": "6204.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 74.547, + 3760.265, + 2802.415, + 170.89300000000003 + ], + "priority": 24, + "parents": [ + 157671 + ], + "children": [], + "area": 280316.474955, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95054, + "strid": "18c10d25-cf2d-4d20-bac7-11add18971ae", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 73.52, + 25.54, + 540.34, + 65.03999999999999 + ], + "priority": -1, + "parents": [], + "children": [ + 95031, + 95027, + 95051, + 95026, + 95029, + 95028, + 95030 + ], + "area": 1877.7007999999998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95026, + "strid": "0c933358-dc88-46ab-9fa2-ef3f2af383eb", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 126.255, + 131.0, + 3305.978, + 93.72300000000001 + ], + "priority": 1, + "parents": [ + 95054 + ], + "children": [], + "area": 16539.405, + "iscrowd": 0, + "segmentation": [], + "text": "NEON Citizen Science: Building a network through partnerships and collaborations" + }, + { + "id": 95027, + "strid": "db0e3694-c5ef-4909-acfd-089daf0d773b", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 121.184, + 276.329, + 2951.446, + 45.512 + ], + "priority": 2, + "parents": [ + 95054 + ], + "children": [], + "area": 33486.653536, + "iscrowd": 0, + "segmentation": [], + "text": "Authors: Sarah Newman', Sandra Henderson’, Rebecca Cheng! and Andrew D. Richardson? (1) NEON, Inc, Boulder, CO, (2) Harvard University, Cambridge, MA" + }, + { + "id": 95028, + "strid": "4af5858c-1a76-49c3-bc65-c4e477aca2f7", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1035.601, + 513.637, + 325.71299999999997, + 50.87900000000002 + ], + "priority": 3, + "parents": [ + 95054 + ], + "children": [ + 95035, + 95033, + 95034, + 95032 + ], + "area": 531922.990837, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 95032, + "strid": "270eea92-9406-467a-affa-ef1c61c65962", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 163.439, + 626.668, + 1939.2229999999997, + 139.25800000000004 + ], + "priority": 4, + "parents": [ + 95028 + ], + "children": [], + "area": 102421.99125199999, + "iscrowd": 0, + "segmentation": [], + "text": "Citizen science projects and activities are a cornerstone of the National Ecological Observatory Network (NEON)\nEducation and Public Engagement program. These programs provide an important bridge between science and\neducation at multiple levels." + }, + { + "id": 95033, + "strid": "1c2f086d-10e2-4ad3-b10e-dbbeb33b63e0", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 164.354, + 814.103, + 1184.536, + 91.91600000000005 + ], + "priority": 5, + "parents": [ + 95028 + ], + "children": [], + "area": 133801.084462, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95034, + "strid": "10e1fd30-736e-488c-a826-4d926e0bf5ab", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 164.351, + 908.296, + 626.615, + 184.2829999999999 + ], + "priority": 6, + "parents": [ + 95028 + ], + "children": [], + "area": 149279.355896, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95035, + "strid": "f7907e93-4841-497c-8ab4-b404177b22ef", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1267.659, + 860.762, + 998.2460000000001, + 230.86400000000003 + ], + "priority": 7, + "parents": [ + 95028 + ], + "children": [], + "area": 1091152.696158, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95029, + "strid": "365f005c-8277-4c34-a931-7a163299f1f3", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2651.53, + 511.909, + 335.64300000000003, + 66.25999999999999 + ], + "priority": 8, + "parents": [ + 95054 + ], + "children": [ + 95052 + ], + "area": 1357342.07077, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 95052, + "strid": "8b3d8f0e-b453-49a1-aa44-a4598106fa2e", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2391.459, + 665.645, + 843.4589999999998, + 373.13699999999994 + ], + "priority": 9, + "parents": [ + 95029 + ], + "children": [], + "area": 1591862.7260549997, + "iscrowd": 0, + "segmentation": [], + "text": "NEON’s current citizen science programs are\nProject BudBurst (budburst.org), Citizen Science\nAcademy (citizenscienceacademy.org), and a\npartnership with the PhenoCam project.\n\nThe continental-scale reach of NEON citizen\nscience is a direct result of collaboration with\nexternal partners." + }, + { + "id": 95030, + "strid": "61822f90-adad-4190-8b57-5ce15b997988", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3853.449, + 513.882, + 329.19299999999976, + 51.539999999999964 + ], + "priority": 10, + "parents": [ + 95054 + ], + "children": [ + 95053 + ], + "area": 1980218.0790179998, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 95053, + "strid": "dd824f32-381e-4e66-b170-88ca7620c9db", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3393.83, + 620.099, + 1240.0560000000005, + 467.4420000000001 + ], + "priority": 11, + "parents": [ + 95030 + ], + "children": [], + "area": 2104510.58917, + "iscrowd": 0, + "segmentation": [], + "text": "As a result of external collaborations, NEON Citizen Science programs\nhave been able to reach broader audiences and communities. These\nprograms provide the foundation and templates that can be customized\nto meet the needs of communities unique to external collaborators.\n\nThis approach supports strong connections between local\nenvironmental interests with continental scale ecology concepts such\nas plant phenology and climate change. External collaborations expand\nopportunities to include lay audiences in relevant scientific processes\nand supports learning through participation." + }, + { + "id": 95031, + "strid": "1df3b963-8026-4d55-a15f-4af066a4c13a", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1311.803, + 1187.819, + 2189.4620000000004, + 88.2940000000001 + ], + "priority": 12, + "parents": [ + 95054 + ], + "children": [ + 95039, + 95041, + 95037, + 95044, + 95040, + 95046, + 95047, + 95038, + 95050, + 95042, + 95045, + 95048, + 95036, + 95043, + 95049 + ], + "area": 1558184.527657, + "iscrowd": 0, + "segmentation": [], + "text": "NEON Citizen Science Programs and External Collaborations" + }, + { + "id": 95036, + "strid": "3f91ea10-3e9a-4d80-8c3a-f02cc5ba1f05", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 218.486, + 1375.78, + 1137.3450000000003, + 722.142 + ], + "priority": 13, + "parents": [ + 95031 + ], + "children": [], + "area": 300588.66907999996, + "iscrowd": 0, + "segmentation": [], + "text": "Project BudBurst Collaborations\n\nProject BudBurst is a national citizen science plant phenology\nprogram that engages people from all walks of life in collection of\ndata about the timing of leafing, flowering, and fruiting of plants.\n\nProject BudBurst external collaborations have grown organically\nthrough the request of the community. To support the interest of a\nbroad range of partners, the model for this program includes\ncreation of templates for resources that can be customized for\neach partner organization. These resources are utilized by the\npartners for engaging their diverse audiences in citizen science\nand plant phenology.\n\nbudburst.org" + }, + { + "id": 95041, + "strid": "98c1dadd-e1e6-4f0d-9513-c93b60c5fa68", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 294.593, + 2158.846, + 1038.535, + 1004.6129999999998 + ], + "priority": 14, + "parents": [ + 95031 + ], + "children": [], + "area": 635980.919678, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95037, + "strid": "cf054adf-a019-44c2-95a0-746f85099a6a", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1590.155, + 1375.612, + 1159.155, + 722.1570000000002 + ], + "priority": 15, + "parents": [ + 95031 + ], + "children": [], + "area": 2187436.29986, + "iscrowd": 0, + "segmentation": [], + "text": "Citizen Science Academy Collaborations\n\nCitizen Science Academy is an online professional development\nprogram that provides resources for educators to support effective\nimplementation of citizen science projects and activities that focus\non ecology and environmental sciences.\n\nExternal collaborators worked with NEON Citizen Science staff to\ndevelop Intro to Citizen Science, a professional development\ncourse that provides an overview of citizen science (past, present,\nand future), highlighting programs such as CoCoRaHS, FrogWatch\nUSA, Picture Post, eBird, and Project BudBurst.\n\ncitizenscienceacademy.org" + }, + { + "id": 95042, + "strid": "bbff5653-cd60-44d5-a410-9fe356782fb0", + "image_id": 204174, + "image_name": "121576.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1672.857, + 2166.674, + 1051.074, + 1015.3220000000001 + ], + "priority": 16, + "parents": [ + 95031 + ], + "children": [], + "area": 3624535.767618, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 95038, + "strid": "29973a50-bf00-45d2-bf04-bfe900e1440c", + "image_id": 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specific project components from the National Human Genome Research Institute\n(U41HG007823 and 2U41HG007234), the Biotechnology and Biological Sciences Research Council (BB/N019563/1 and BB/M011615/1), Open Targets, the Wellcome Trust (WT104947/Z/14/Z, WT200990/Z/16/Z,\n\nWT201535/Z/16/Z, WT108749/Z/15/A) and the European Molecular Biology Laboratory. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant\nagreement n° 733161 (MultipleMS). We also receive funding from the 'Save the Tasmanian Devil Program’." + }, + { + "id": 175656, + "strid": "c4f7946a-32e9-4c27-8819-cee5acafbdf0", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 389.85, + 35.66, + 87.15999999999997, + 227.96 + ], + "priority": -1, + "parents": [], + "children": [ + 175638, + 175634, + 175635, + 175632, + 175637, + 175636, + 175633, + 175654 + ], + "area": 13902.051, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175632, + "strid": "087a90a9-9fa2-42d0-a110-92babe53b5a6", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 580.755, + 31.577, + 1135.429, + 177.411 + ], + "priority": 1, + "parents": [ + 175656 + ], + "children": [], + "area": 18338.500635, + "iscrowd": 0, + "segmentation": [], + "text": "PREDICTORES DE COMPLICACIONES EN\nCOLECISTECTOMiIA POR LAPAROSCOPIA EN UNA\nCOHORTE DE 1234 PACIENTES. HOSPITAL SAN JOSE.\nBOGOTA, COLOMBIA." + }, + { + "id": 175633, + "strid": "d2f8c9af-dc48-41d9-a2e1-ab507ac87ab6", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 549.255, + 240.823, + 1186.402, + 164.86800000000002 + ], + "priority": 2, + "parents": [ + 175656 + ], + "children": [], + "area": 132273.236865, + "iscrowd": 0, + "segmentation": [], + "text": "AUTORES: Aldana Guillermo MD FACS’, Martinez L?, Hosman M%, Ardila D%, Marifio I* Ricardo M4\n1. Cirujano Hepatobiliar y de trasplantes, Jefe de la Unidad de Trasplantes Hospital de San José; Profesor Asociado\nFundacion Universitaria de Ciencias de la Salud - FUCS, Bogota DC.\n2. Cirujano adscrito Hospital de San José, Instructor asistente Fundaci6n Universitaria de Ciencias de la Salud - FUCS,\nBogota DC\n3. Residente de cuarto afo, Cirugia General Fundacion Universitaria de Ciencias de la Salud - FUCS, Bogota DC\n4. Residente de segundo ano, Cirugia General, Fundacion Universitaria de Ciencias de la Salud - FUCS, Bogota DC" + }, + { + "id": 175634, + "strid": "ba1542b9-57b6-459a-b0d2-7ca5f803d4cf", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 368.923, + 498.84, + 170.53999999999996, + 22.234999999999957 + ], + "priority": 3, + "parents": [ + 175656 + ], + "children": [ + 175639 + ], + "area": 184033.54932, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175639, + "strid": "648bdf62-a69a-4fc3-90c2-52e66f1ad335", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 81.288, + 540.812, + 764.185, + 90.75999999999999 + ], + "priority": 4, + "parents": [ + 175634 + ], + "children": [], + "area": 43961.525856, + "iscrowd": 0, + "segmentation": [], + "text": "Los factores de riesgo para conversion a laparotomia y complicaciones de la\ncolecistectomia laparoscopica han sido bien estudiados (1-3), sin embargo no se\nconoce actualmente un modelo de prediccion para tales desenlaces que permita\nimplementar medidas preventivas pre e intraoperatorias." + }, + { + "id": 175635, + "strid": "f492ed0d-77f2-4392-88e8-92afb1d1103a", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 393.628, + 650.904, + 112.238, + 18.706000000000017 + ], + "priority": 5, + "parents": [ + 175656 + ], + "children": [ + 175640 + ], + "area": 256214.039712, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175640, + "strid": "50686254-7e7c-46ee-9eb5-7add216bc8a2", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 83.052, + 690.328, + 762.479, + 43.327 + ], + "priority": 6, + "parents": [ + 175635 + ], + "children": [], + "area": 57333.121056, + "iscrowd": 0, + "segmentation": [], + "text": "Desarrollar un modelo de prediccion para complicaciones de colecistectomia y\nconversion incluyendo variables clinicas, bioquimicas y quirtrgicas." + }, + { + "id": 175636, + "strid": "81acfafb-446d-40c1-bfe4-3436b282a979", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 317.071, + 749.221, + 281.30100000000004, + 22.58000000000004 + ], + "priority": 7, + "parents": [ + 175656 + ], + "children": [ + 175641, + 175642 + ], + "area": 237556.251691, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175641, + "strid": "1de6cf65-7c13-4017-b8bd-cfdff28ca4f0", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 82.656, + 791.402, + 769.31, + 160.32500000000005 + ], + "priority": 8, + "parents": [ + 175636 + ], + "children": [], + "area": 65414.12371200001, + "iscrowd": 0, + "segmentation": [], + "text": "Estudio analitico retrospectivo que incluyo pacientes con colelitiasis llevados a\ncolecistectomia por laparoscopia en un periodo de 18 meses en un hospital de IV nivel\nde Colombia. Se realiz6 un andlisis multivariado por medio de regresi6n logistica usando\nel procedimiento backward para determinar la probabilidad de conversi6n, lesi6n de via\nbiliar, sangrado, coleccién intra-abdominal y un punto compuesto de\ncomplicacién/conversi6n; el modelo fue evaluado por medio del estadistico R2; para las\nvariables significativas se calculé el OR con su respectivo IC95%." + }, + { + "id": 175642, + "strid": "016a1072-72d3-4a61-8b57-80562f2b27ab", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 173.358, + 960.265, + 573.779, + 469.168 + ], + "priority": 9, + "parents": [ + 175636 + ], + "children": [ + 175643 + ], + "area": 166469.61987, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175643, + "strid": "65915df6-14be-4640-8de5-20aed49ddd7f", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 308.434, + 1433.594, + 299.0330000000001, + 15.576000000000022 + ], + "priority": 10, + "parents": [ + 175642 + ], + "children": [], + "area": 442169.13179600006, + "iscrowd": 0, + "segmentation": [], + "text": "Tabla 1. Caracteristicas basales dela pobladon" + }, + { + "id": 175637, + "strid": "c2528aa0-83f1-49cd-bfb2-711db480e94c", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 383.958, + 1479.284, + 150.02399999999994, + 18.605000000000018 + ], + "priority": 11, + "parents": [ + 175656 + ], + "children": [ + 175645, + 175644, + 175649, + 175647 + ], + "area": 567982.9260720001, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175644, + "strid": "3e87b1af-e76c-43ac-a2bf-7077de7c8a48", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.842, + 1516.764, + 764.975, + 347.4680000000001 + ], + "priority": 12, + "parents": [ + 175637 + ], + "children": [], + "area": 122618.235288, + "iscrowd": 0, + "segmentation": [], + "text": "Se incluyeron 1234 pacientes llevados a colecistectomia por laparoscopia (69,2%\nmujeres) con una edad mediana de 48 afos. Los antecedentes mas frecuentes fueron\ncirugia abdominal previa e HTA (Grafica 1). 11,4% de los pacientes tenian colédoco\naumentado de tamafio y a 11,6% se les realizo CPRE preoperatoria (Tabla 1). En los\npacientes sometidos a cirugia de urgencia los hallazgos mas frecuente de complicaci6n\nde la colelitiasis fueron la colecistitis, plastron vesicular y piocolecisto (Grafica 2). La\nincidencia de conversi6n fue de 4,3% y la complicaci6n mas frecuente fue la colecci6én\nintra-abdominal (2,6%). La lesion de la via biliar se present6 en forma global en el 1.1%\nde los casos, sin embargo solo 1 paciente presento lesion biliar compleja (Strassberg E)\nrequiriendo cirugia, para un porcentaje de lesién biliar significativa del 0.08%. La\nmortalidad global fue de 0,3% (Grafica 3). Como variables predictoras de la ocurrencia\nde alguna complicacion o conversién se encontraron el sexo masculino, la edad, ERC,\nbilirrubina total, CPRE, cirugia urgente, piocolecisto, sindrome de Mirizzi y plastron\n(Tabla 2). La colecistitis fue el hallazgo quirtirgico relacionado con colelitiasis mas\nfrecuente en todas las complicaciones excepto en lesién intestinal y vascular." + }, + { + "id": 175645, + "strid": "a9ceadf1-5519-49f0-a7a8-3f7429e005a8", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 183.35, + 1932.703, + 564.624, + 232.21900000000005 + ], + "priority": 13, + "parents": [ + 175637 + ], + "children": [ + 175646 + ], + "area": 354361.09505, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175646, + "strid": "434ca45c-2b74-4709-b7b4-7dba4a6d2df4", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 182.875, + 2173.029, + 513.415, + 41.95199999999977 + ], + "priority": 14, + "parents": [ + 175645 + ], + "children": [], + "area": 397392.678375, + "iscrowd": 0, + "segmentation": [], + "text": "Grafico 1. Antecedentes en poblacién total vs antecedentes en los\npacientes con complicaciones." + }, + { + "id": 175647, + "strid": "251e46f3-4d8f-4259-9324-7d420586d3cf", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1090.941, + 494.883, + 464.45000000000005, + 360.12500000000006 + ], + "priority": 15, + "parents": [ + 175637 + ], + "children": [ + 175648 + ], + "area": 539888.154903, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175648, + "strid": "1a0301ae-8a39-4b19-8184-4099e0ac0950", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1182.38, + 864.593, + 342.6880000000001, + 17.83699999999999 + ], + "priority": 16, + "parents": [ + 175647 + ], + "children": [], + "area": 1022277.47134, + "iscrowd": 0, + "segmentation": [], + "text": "Grafica 3. Incidencia de complicaciones y conversién" + }, + { + "id": 175649, + "strid": "55706323-cd92-48ee-83b4-c94e5356caa5", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1064.796, + 908.382, + 559.4199999999998, + 301.04100000000005 + ], + "priority": 17, + "parents": [ + 175637 + ], + "children": [ + 175650 + ], + "area": 967241.520072, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175650, + "strid": "2fb34344-68ce-4fde-9f5f-df9b7e05515e", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1237.994, + 1214.913, + 359.92499999999995, + 19.159000000000106 + ], + "priority": 18, + "parents": [ + 175649 + ], + "children": [], + "area": 1504055.004522, + "iscrowd": 0, + "segmentation": [], + "text": "Grafica 2. Hallazgos quirurgicos segiin tipo de cirugia" + }, + { + "id": 175638, + "strid": "ed726b77-2801-4cf3-acb7-02ea2c348f8c", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1260.39, + 1268.533, + 177.91699999999992, + 18.740999999999985 + ], + "priority": 19, + "parents": [ + 175656 + ], + "children": [ + 175652, + 175651 + ], + "area": 1598846.30787, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175651, + "strid": "1b8517af-b31f-4a94-8cc2-d618bef228d3", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 926.25, + 1312.4, + 780.614, + 256.57899999999995 + ], + "priority": 20, + "parents": [ + 175638 + ], + "children": [], + "area": 1215610.5, + "iscrowd": 0, + "segmentation": [], + "text": "El manejo de patologia vesicular aguda en centros de alta concentraci6n, disminuye la\npresencia de complicaciones y de morbi mortalidad en poblaciones con mayor riesgo de\npresentarlas. La probabilidad de complicacién/conversién depende del sexo, la edad,\nERC, bilirrubina total, CPRE, cirugia urgente, y de los hallazgos quirurgicos como\npiocolecisto, sindrome de mirizzi y plastron. La lesion biliar compleja, en nuestra\ninstitucidn se encuentra muy por debajo (0.08%) del porcentaje aceptado para la misma\n(0.7%) en presencia de conocidos factores de riesgo para presentarse. Este trabajo y los\nmodelos desarrollados se presentan como una herramienta con validez estadistica para\nlos cirujanos generales, que permite conocer la probabilidad de ocurrencia de\ncomplicaciones y de conversi6n en la colecistectomia por laparoscopia y de esta forma\ngenerar estrategias para prevenirlas." + }, + { + "id": 175652, + "strid": "b2acdc8a-f41d-41ab-ab99-4c2f416bbd60", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 923.662, + 1598.961, + 799.9390000000001, + 353.33799999999997 + ], + "priority": 21, + "parents": [ + 175638 + ], + "children": [ + 175653 + ], + "area": 1476899.5151820001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 175653, + "strid": "06f67380-70be-4ae6-be69-83fa2407bb88", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1107.035, + 1953.8, + 472.1020000000001, + 13.769999999999982 + ], + "priority": 22, + "parents": [ + 175652 + ], + "children": [], + "area": 2162924.983, + "iscrowd": 0, + "segmentation": [], + "text": "Tabla 2. Modelos de prediccion para conversion y complicaciones de colecistectomia" + }, + { + "id": 175654, + "strid": "a4a2a745-5856-4564-af1a-aafe28907804", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1043.538, + 2032.941, + 160.538, + 18.886999999999944 + ], + "priority": 23, + "parents": [ + 175656 + ], + "children": [ + 175655 + ], + "area": 2121451.185258, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 175655, + "strid": "ca53f82a-ed8a-4398-865e-382084b63f75", + "image_id": 207359, + "image_name": "7459.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 947.628, + 2085.47, + 413.15, + 80.26899999999978 + ], + "priority": 24, + "parents": [ + 175654 + ], + "children": [], + "area": 1976249.76516, + "iscrowd": 0, + "segmentation": [], + "text": "Licciardelio A, Arena M, Nicosia A, Di Stefano B, Call G, Arena G, et al.\nProoperative risk factors for conversion from laparoscopic 10 open\ncholecystectomy. Eur Rev Med Pharmacol Sci. 2014;18(2 Supp) 60-8.\n\nTakada T, Strasberg SM, Solomkin JS, Pitt HA, Gomi H, Yoshida M, et al. TG13:\nUpdated ‘Tokyo Guidelines for the management of acute cholangitis and\ncholecystitis. J Hepatobiliary Pancreas Sci. 2013;20(1):1-7." + }, + { + "id": 110568, + "strid": "7ca7cc83-18c4-4f01-a398-5f2f9ef5b4ef", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 607.66, + 124.66, + 279.75, + 237.17999999999998 + ], + "priority": -1, + "parents": [], + "children": [ + 110546, + 110549, + 110542, + 110547, + 110551, + 110543, + 110550, + 110544, + 110548, + 110545 + ], + "area": 75750.89559999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110542, + "strid": "6ae30f79-3217-4b2d-9f05-5915aab939d3", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 962.839, + 28.49, + 3675.2, + 131.161 + ], + "priority": 1, + "parents": [ + 110568 + ], + "children": [], + "area": 27431.28311, + "iscrowd": 0, + "segmentation": [], + "text": "MRI guided drug delivery for location specific neuromodulation" + }, + { + "id": 110543, + "strid": "8ddd9e9e-4707-47f1-a350-fddd0d362121", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1250.868, + 160.035, + 3093.364, + 255.417 + ], + "priority": 2, + "parents": [ + 110568 + ], + "children": [], + "area": 200182.66038, + "iscrowd": 0, + "segmentation": [], + "text": "Megan Rich, BAY Jennifer Sherwood, BS’, Yuping Bao, PhD’, Farah D Lubin, PhD’, Mark Bolding, PhD\n. Department of Neurobiology, University of Alabama at Birmingham, Birmingham, AL, 35294, USA\n\n2. Department of Radiology/ University of Alabama at Birmingham, Birmingham, AL, 35294, USA\nepartment of ChemicalandeBiological Engineering, University of Alabama at Tuscaloosa, Tuscaloosa, AL, 35487, USA" + }, + { + "id": 110544, + "strid": "e2d5f551-ef5d-42f7-8769-85d27e97440e", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 377.837, + 483.941, + 378.909, + 66.44999999999999 + ], + "priority": 3, + "parents": [ + 110568 + ], + "children": [ + 110553 + ], + "area": 182850.815617, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 110553, + "strid": "81d19ed4-c9c2-4b79-8b6a-279785031aa0", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 21.927, + 578.471, + 1064.288, + 448.50199999999995 + ], + "priority": 4, + "parents": [ + 110544 + ], + "children": [], + "area": 12684.133617, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110545, + "strid": "99e0e9ba-bc88-4420-ab6e-0fc7d66d9b10", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 374.029, + 1088.279, + 384.991, + 67.74900000000002 + ], + "priority": 5, + "parents": [ + 110568 + ], + "children": [ + 110554 + ], + "area": 407047.906091, + "iscrowd": 0, + "segmentation": [], + "text": "Significance" + }, + { + "id": 110554, + "strid": "dbe44576-ae56-4bed-8901-3a421dd5c3de", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 28.386, + 1209.273, + 1066.091, + 524.856 + ], + "priority": 6, + "parents": [ + 110545 + ], + "children": [], + "area": 34326.423378, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110546, + "strid": "84862a11-fe3e-411b-9924-a83f14a1760c", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 240.451, + 1786.897, + 658.886, + 67.84300000000007 + ], + "priority": 7, + "parents": [ + 110568 + ], + "children": [ + 110555, + 110556 + ], + "area": 429661.17054699996, + "iscrowd": 0, + "segmentation": [], + "text": "Cluster configuration" + }, + { + "id": 110555, + "strid": "9de91172-e333-4802-876c-d9cac49abf1c", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 33.382, + 1906.917, + 1083.069, + 1156.2469999999998 + ], + "priority": 8, + "parents": [ + 110546 + ], + "children": [ + 110564 + ], + "area": 63656.70329399999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110564, + "strid": "94e4a76e-2dbe-4b3d-ae25-8bc9968bd02e", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 37.791, + 3115.864, + 1065.484, + 179.83199999999988 + ], + "priority": 9, + "parents": [ + 110555 + ], + "children": [], + "area": 117751.61642399999, + "iscrowd": 0, + "segmentation": [], + "text": "(a) TEM image of 50 nm NC, (b and c) T,-\nweighted images of free nanoparticles\n(top) and NCs (bottom)." + }, + { + "id": 110556, + "strid": "2ddd0acb-3b04-4229-b8a9-f463854931e9", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1122.642, + 459.946, + 839.731, + 3130.966 + ], + "priority": 10, + "parents": [ + 110546 + ], + "children": [], + "area": 516354.69733200007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110547, + "strid": "9445e13f-bc70-46e4-9669-2798015444c8", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2451.523, + 483.449, + 861.7290000000003, + 66.75799999999998 + ], + "priority": 11, + "parents": [ + 110568 + ], + "children": [ + 110557, + 110558 + ], + "area": 1185186.3428270002, + "iscrowd": 0, + "segmentation": [], + "text": "Drug clustering and release" + }, + { + "id": 110557, + "strid": "814e03f5-3b01-4468-91c6-f6106eac744c", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1978.744, + 603.102, + 1158.572, + 1030.969 + ], + "priority": 12, + "parents": [ + 110547 + ], + "children": [ + 110565 + ], + "area": 1193384.463888, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110565, + "strid": "697c9b3f-b8a3-4085-8aad-844f18ffb8c1", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3152.581, + 623.579, + 628.7049999999999, + 524.1949999999999 + ], + "priority": 13, + "parents": [ + 110557 + ], + "children": [], + "area": 1965883.307399, + "iscrowd": 0, + "segmentation": [], + "text": "(a) Glutamate and NBQX\ncolorimetry before and\nafter FUS exposure. (c)\nT, weighted image of\nultrasound treated (red\narrow) and control (blue\narrow) NCs showing US\ninduced contrast change." + }, + { + "id": 110558, + "strid": "88bf3a30-4c91-4dd8-80d7-d77dfd26889b", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3158.452, + 1184.179, + 615.5450000000001, + 444.8789999999999 + ], + "priority": 14, + "parents": [ + 110547 + ], + "children": [], + "area": 3740172.5309080007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 110550, + "strid": "65287af2-384d-48d3-b426-dbead8b6c106", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2164.307, + 1701.222, + 1015.7719999999999, + 57.531999999999925 + ], + "priority": 15, + "parents": [ + 110568 + ], + "children": [ + 110561 + ], + "area": 3681966.6831539995, + "iscrowd": 0, + "segmentation": [], + "text": "Nanocluster MRI contrast in vivo" + }, + { + "id": 110561, + 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(b-\nc) Change in MRI\ncontrast after FUS\ntriggered glutamate\nrelease." + }, + { + "id": 110563, + "strid": "ff49afbf-59bc-44ba-aed4-b1b32210a263", + "image_id": 204790, + "image_name": "13086.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3305.678, + 2341.465, + 2272.4760000000006, + 1090.0029999999997 + ], + "priority": 26, + "parents": [ + 110549 + ], + "children": [], + "area": 7740129.33827, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 351, + "strid": "71783d72-52bb-47ad-a972-8d635d0e8af8", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 65.72, + 82.75, + 88.71000000000001, + 96.09 + ], + "priority": -1, + "parents": [], + "children": [ + 335, + 333, + 347, + 334, + 338, + 336, + 337 + ], + "area": 5438.33, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 333, + "strid": "86fedb8c-d909-4077-ac6f-8ca742b3d04f", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 263.856, + 118.232, + 2782.9620000000004, + 288.722 + ], + "priority": 1, + "parents": [ + 351 + ], + "children": [], + "area": 31196.222592, + "iscrowd": 0, + "segmentation": [], + "text": "Motor Unit Number Index (MUNIX) of six muscles:\nNormal values and effects of age and gender" + }, + { + "id": 334, + "strid": "899408a2-e67e-4283-a1aa-77ac4305e457", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 642.804, + 513.22, + 2119.301, + 370.928 + ], + "priority": 2, + "parents": [ + 351 + ], + "children": [], + "area": 329899.86888, + "iscrowd": 0, + "segmentation": [], + "text": "Taha Omer*?!, B Nasseroleslami?\nFiona Molloy? Gerard Mullins*, Orla Hardiman?\n1. Academic Unit of Neurology, Trinity College &\n2. Clinical Neurophysiology Dept, Beaumont Hospital, Dublin, Ireland" + }, + { + "id": 335, + "strid": "36f1449e-f1c2-4bec-8dbb-b8f233b42e2c", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 100.375, + 1115.311, + 355.577, + 66.57199999999989 + ], + "priority": 3, + "parents": [ + 351 + ], + "children": [ + 339 + ], + "area": 111949.34162499999, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 339, + "strid": "e607f250-4d72-430a-bfc5-e4f4ecbe04c7", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 101.098, + 1193.461, + 886.072, + 1574.2860000000003 + ], + "priority": 4, + "parents": [ + 335 + ], + "children": [], + "area": 120656.520178, + "iscrowd": 0, + "segmentation": [], + "text": "Motor Unit Number index\n(MUNIX) is a neurophysiological\nmeasure estimated by a\nnoninvasive method that\nrequires minimal electric\nstimulation. It provides an index\nof the number of lower motor\nneurons in a muscle. The\ntechnique involves utilizing the\nsurface-recorded compound\nmuscle action potential (CMAP)\nand electromyographic (EMG)\ninterference pattern to compute\nthe motor unit number index\n(MUNIX). Previous studies\nestablished its role in\nlongitudinal follow up of lower\nmotor neuron loss and in\nmonitoring disease progression\nin ALS." + }, + { + "id": 336, + "strid": "671cfbfb-b121-4235-8b89-e693aca7533e", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 102.888, + 2935.902, + 269.81899999999996, + 64.39800000000014 + ], + "priority": 5, + "parents": [ + 351 + ], + "children": [ + 349, + 340, + 350, + 348 + ], + "area": 302069.084976, + "iscrowd": 0, + "segmentation": [], + "text": "Methods:" + }, + { + "id": 340, + "strid": "b61cc707-8a2b-4182-9968-822328ae5445", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 97.743, + 3013.788, + 888.8420000000001, + 1265.8709999999996 + ], + "priority": 6, + "parents": [ + 336 + ], + "children": [], + "area": 294576.680484, + "iscrowd": 0, + "segmentation": [], + "text": "We have performed MUNIX ina\ncohort of 40 healthy controls\naged 23-80 (Table1) in\nBeaumont Hospital, Dublin,\nIreland. The same examiner\nperformed MUNIX test using\nKeypoint. NET® software. The\nright APB, ADM, BB, TA, EDB &\nAH muscles were investigated.\nMUNIX, CMAP & MUSIX\nmeasures were obtained for\neach muscle.\n\nDescriptive statistics, ANOVA\nand Spearman’s correlation\ntests were used as appropriate\nfor statistical analysis of data." + }, + { + "id": 349, + "strid": "8a2e905f-8eeb-44da-b4d1-144e055306cd", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1081.649, + 1084.525, + 934.261, + 875.3209999999999 + ], + "priority": 7, + "parents": [ + 336 + ], + "children": [ + 343 + ], + "area": 1173075.381725, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 343, + "strid": "ce82fbf4-d2ef-45ef-9d47-8eba99ef5d48", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1097.328, + 1973.128, + 821.942, + 151.9559999999999 + ], + "priority": 8, + "parents": [ + 349 + ], + "children": [], + "area": 2165168.601984, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: MUNIX value is strongly determined\nby CMAP, a relation not affected by age or\ngender" + }, + { + "id": 350, + "strid": "fbc2b97b-4797-4417-bdaa-5f9ff35cee5c", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2055.978, + 1085.964, + 480.6880000000001, + 875.0250000000001 + ], + "priority": 9, + "parents": [ + 336 + ], + "children": [ + 344 + ], + "area": 2232718.092792, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 344, + "strid": "d082477a-ce67-4ff9-9b20-a363f528ff0a", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2055.913, + 1978.031, + 511.32699999999977, + 142.1010000000001 + ], + "priority": 10, + "parents": [ + 350 + ], + "children": [], + "area": 4066659.647303, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: a negative\ncorrelation exists\nbetween MUNIX and MUSIX" + }, + { + "id": 348, 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224.35300000000007, + 62.80000000000018 + ], + "priority": 13, + "parents": [ + 351 + ], + "children": [ + 346, + 341 + ], + "area": 3410581.7026770003, + "iscrowd": 0, + "segmentation": [], + "text": "Results:" + }, + { + "id": 346, + "strid": "c7a3c0f0-57a4-4965-8fc5-efc67d052358", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1123.873, + 3107.244, + 1360.232, + 1185.7050000000004 + ], + "priority": 14, + "parents": [ + 337 + ], + "children": [], + "area": 3492147.6360120005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 341, + "strid": "f287f34c-a020-4da3-9081-23fa79b01db5", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2622.108, + 1127.593, + 566.1309999999999, + 785.258 + ], + "priority": 15, + "parents": [ + 337 + ], + "children": [], + "area": 2956670.6260440005, + "iscrowd": 0, + "segmentation": [], + "text": "Aims: To establish\nMUNIX normative\ndata profile of\ncontrols and to\ndetermine the\ndegree of variance,\nthe effect of gender,\nand whether MUNIX\ndeclines in normal\nageing." + }, + { + "id": 338, + "strid": "db0edf57-9a5b-42ed-b157-9ca9df4a4951", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2642.81, + 2211.449, + 351.64300000000003, + 64.97800000000007 + ], + "priority": 16, + "parents": [ + 351 + ], + "children": [ + 342 + ], + "area": 5844439.53169, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions:" + }, + { + "id": 342, + "strid": "9383808c-b52e-41e0-b52e-eff64bcda1a7", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2640.711, + 2285.039, + 554.6240000000003, + 1668.223 + ], + "priority": 17, + "parents": [ + 338 + ], + "children": [], + "area": 6034127.622729, + "iscrowd": 0, + "segmentation": [], + "text": "Our study\nestablished MUNIX\ndata profile of a\ncohort of normal\ncontrols and\ndetermined the\ndegree of variance\nas well as the\neffects of gender\nand age, in line with\nprevious findings by\nNeuwirth et al in\n2011 (ref 3).\n\nWe propose MUNIX\nas an alternative to\nother invasive and\ntime consuming\nmethods of\nmeasuring lower\nmotor neurons in\nmuscles." + }, + { + "id": 347, + "strid": "5e039a0f-29a1-4b91-902b-f3105f2d7809", + "image_id": 200510, + "image_name": "10041.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 86.069, + 4370.412, + 3106.678, + 234.23400000000038 + ], + "priority": 18, + "parents": [ + 351 + ], + "children": [], + "area": 376156.99042800005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128106, + "strid": "cb7cd69e-61af-4563-b9a7-bad8cd454ee9", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 16.54, + 18.17, + 40.22, + 221.26 + ], + "priority": -1, + "parents": [], + "children": [ + 128095, + 128104, + 128100, 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"iscrowd": 0, + "segmentation": [], + "text": "Nathan Dunn; Deepak Unni; Colin Diesh; Helena Rasche; Anthony Bretaudeau; Nomi Harris; lan Holmes\n(ND, DU) Lawrence Berkeley National Lab; (CD, RB, IH) University California at Berkeley; (AB) INRA, BIPAA/GenOuest, France; (HR) University of Freiburg, Germany" + }, + { + "id": 128101, + "strid": "94e0105f-da71-4f87-a7be-79fb2c97d0b4", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 119.763, + 357.874, + 2067.358, + 112.83499999999998 + ], + "priority": 3, + "parents": [ + 128106 + ], + "children": [], + "area": 42860.063862, + "iscrowd": 0, + "segmentation": [], + "text": "Apollo is a real-time collaborative, web-based genomic annotation editor built on top of the JBrowse genome viewer. To\naccommodate a diverse array of both large and small genome annotation projects, we have added (or are near releasing) several new\nfeatures:" + }, + { + "id": 128092, + "strid": "419af81f-997c-4034-a1ca-02682146ccf5", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 122.075, + 478.118, + 1611.517, + 119.64399999999995 + ], + "priority": 4, + "parents": [ + 128106 + ], + "children": [], + "area": 58366.25485, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128095, + "strid": "c6b46e59-d993-4a19-a323-3be5d31814d9", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 110.632, + 672.428, + 1607.221, + 988.717 + ], + "priority": 5, + "parents": [ + 128106 + ], + "children": [], + "area": 74392.054496, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128093, + "strid": "f640ccfe-e9d0-41ad-a0fa-c1690a2ab15c", + "image_id": 205493, + "image_name": 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}, + { + "id": 128097, + "strid": "777ca77c-81ec-4c4b-aaff-bb40842994bc", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1461.493, + 1775.561, + 1271.44, + 796.4509999999998 + ], + "priority": 9, + "parents": [ + 128106 + ], + "children": [], + "area": 2594969.972573, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128104, + "strid": "b840c976-d031-41b7-847e-456bc8a85929", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2961.376, + 1821.076, + 360.4989999999998, + 55.065000000000055 + ], + "priority": 10, + "parents": [ + 128106 + ], + "children": [], + "area": 5392890.760576, + "iscrowd": 0, + "segmentation": [], + "text": "Getting Apollo" + }, + { + "id": 128103, + "strid": "644de12d-0131-4392-971e-15a9f3f74eb0", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2810.792, + 1885.918, + 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NIH (GM080203, HG004483) and was made possible\nby a very active group of contributors and collaborators from the GMOD, Galaxy,\nJBrowse, and Apollo communities. We encourage you to get involved." + }, + { + "id": 128102, + "strid": "4c2ccd78-5e25-4a7f-8d43-110a462022bd", + "image_id": 205493, + "image_name": "15240.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1820.385, + 3808.926, + 618.3239999999998, + 145.3760000000002 + ], + "priority": 16, + "parents": [ + 128106 + ], + "children": [], + "area": 6933711.75651, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179671, + "strid": "2c1fa238-8147-4077-a44b-2c1f663c8f62", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 79.88, + 217.33, + 160.92000000000002, + 254.78 + ], + "priority": -1, + "parents": [], + "children": [ + 179649, + 179655, + 179654, + 179651, + 179653, + 179650, + 179652 + ], + "area": 17360.3204, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179649, + "strid": "0612f5e8-2906-4862-93b9-9ad48ab0f1de", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 372.47, + 326.209, + 2658.87, + 182.38299999999998 + ], + "priority": 1, + "parents": [ + 179671 + ], + "children": [], + "area": 121503.06623000001, + "iscrowd": 0, + "segmentation": [], + "text": "A Multiparameter Platform for the Analysis of DNA Double-strand\nBreaks and Associated Biomarkers after Genome Editing" + }, + { + "id": 179650, + "strid": "fee41172-5740-42d5-8cae-5f9106ef85d7", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 751.16, + 497.414, + 1835.1550000000002, + 224.12099999999998 + ], + "priority": 2, + "parents": [ + 179671 + ], + "children": [], + "area": 373637.50023999996, + "iscrowd": 0, + "segmentation": [], + "text": "Stefan Rédiger', Jens Schneider', Lysann Sauer’, Annika Reddig?, Peter Schierack’,\nDirk Roggenbuck', Christian Schréder'\n\n1 BTU Cottbus - Senftenberg, Germany 2 Medipan GmbH, Germany 3 Otto-von-Guericke-University, Germany\nStefan.Roediger @b-tu.de" + }, + { + "id": 179651, + "strid": "8cd8e297-69d5-443b-bc73-9c3eeeadba09", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 131.242, + 786.314, + 315.62800000000004, + 44.68500000000006 + ], + "priority": 3, + "parents": [ + 179671 + ], + "children": [ + 179657 + ], + "area": 103197.42198799999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 179657, + "strid": "5f8823ab-eeec-4902-901e-dc2cdb2ffeed", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.937, + 845.496, + 3081.86, + 314.50200000000007 + ], + "priority": 4, + "parents": [ + 179651 + ], + "children": [], + "area": 106479.229752, + "iscrowd": 0, + "segmentation": [], + "text": "Programmable sequence-specific DNA nuclease technologies are molecular tools to modify endogenous genomic sequences (genome editing).\nThis empowers scientists to understand fundamental cellular processes and offers new approaches for precision medicine (e. g., gene therapy). In\nparticular, the clustered regulatory interspaced short palindromic repeats (CRISPR/Cas9) nuclease system is intensively investigated. Cas9 guided\nby small RNAs (sgRNA) induces DNA double-strand breaks (DSB) at target specific genomic loci, which are predominantly repaired by non-\nhomologous end joining. This may lead to gene interruption caused by indel mutations. However, the cellular delivery of the CRISPR/Cas9\ncomponents and potential off-target effects need to be investigated [1]." + }, + { + "id": 179652, + "strid": "5c139bc3-4ec4-4461-af04-62a2a992aefa", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 129.921, + 1193.929, + 222.591, + 45.003999999999905 + ], + "priority": 5, + "parents": [ + 179671 + ], + "children": [ + 179666, + 179659, + 179658, + 179669 + ], + "area": 155116.449609, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 179658, + "strid": "31c1ac9b-fad3-43fb-a1c2-7fc1bb2b1804", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 125.291, + 1254.619, + 3086.106, + 363.85799999999995 + ], + "priority": 6, + "parents": [ + 179652 + ], + "children": [], + "area": 157192.46912899998, + "iscrowd": 0, + "segmentation": [], + "text": "We extended our automatized imaging platform [1-4] for a multiparametric analysis of cellular responses upon genome editing via CRISPR/Cas9 or\netoposide (ETP) treatment. Digital image analysis of the DSB biomarkers yH2AX and 53BP1, the nucleus size, GFP (transfection control) and Cas9\n(endonuclease) were used to describe the alteration of the cell phenotype (Fig. 1 & 5). Specific sgRNAs for Splicing Factor Proline/Glutamine-Rich\n(SFPQ) were designed and cloned into px458 containing the sgRNA scaffold, Cas9 and GFP. Human cells were transfected with px458-SFPQ112\nor control plasmid (px458) by PolyFect®. The transfection efficiency was evaluated by GFP. For quantification we used immunofluorescence or\nfluorescence in situ hybridization (for fluorescence dye assignment and target encoding see [1]). Image data were analyzed with the open bioimage\ninformatics platform Icy [5] and the R statistical computing language [6]." + }, + { + "id": 179659, + "strid": "af9e01ed-aa81-4269-bd62-acb87b356389", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 113.523, + 1706.569, + 3097.632, + 417.8539999999998 + ], + "priority": 7, + "parents": [ + 179652 + ], + "children": [], + "area": 193734.83258699998, + "iscrowd": 0, + "segmentation": [], + "text": "At first, we used the HEK2993 cells as in vitro model to implement all methods. Using the dye assignment matrix we were able to detect four targets\nin a single assay simultaneously [1]. The biomarkers yH2AX, 53BP1, nucleus size, GFP and Cas9 were quantified (Fig. 2 - 4). An enlargement of\nthe nuclei size in dependence of the ETP concentration could be observed (Fig. 2). Cells expressing Cas9 were recognized and verified by\nexpression of GFP (Fig. 5). The transfection efficiency with PolyFect® ranged between 5 and 25 % (Fig. 4). The functionality of the SFPQ sgRNA\nwas verified by T7 endonuclease assay detecting indel mutations [1]. Additionally, we used Caco-2, LoVo, HepG2, HeLa and HEp-2 cells. HeLa and\nHEp-2 could also be transfected (Fig. 4) whereas Caco-2 and LoVo were not transfectable. Surprisingly, we found that the number of yH2AX foci is\nmainly caused by the transfection procedure. The transfected cells showed a higher number of DSBs than untransfected cells. However, an\nincrease of foci due to CRISPR/Cas9 treatment was not observable in the current setting (Fig. 4)." + }, + { + "id": 179666, + "strid": "008ef561-e20a-4826-9d1f-4795e12ad22b", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 180.835, + 2188.438, + 921.395, + 1329.589 + ], + "priority": 8, + "parents": [ + 179652 + ], + "children": [ + 179661 + ], + "area": 395746.18573, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179661, + "strid": "43dc3c17-b242-4550-a0af-baefebc87b11", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 148.241, + 3551.687, + 946.108, + 326.55499999999984 + ], + "priority": 9, + "parents": [ + 179666 + ], + "children": [], + "area": 526505.632567, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Measurement of automated indirect\nimmunofluorescence assays. The software classifies cell\nstructures according to unique patterns. We used a multi-\nparameter fluorescence staining with labeled secondary\nantibodies (see [1]). Topleft: glass-slide mounted with fixed\nhuman cells (N ~ 50 - 1000) cells. Right: The image acquisition,\nquality control and analysis is done automatically. Bottom:\nEvaluation of antibody pattern classification for DBS\nenumeration." + }, + { + "id": 179669, + "strid": "a865d490-9786-459c-a264-c10c6107c301", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1132.884, + 2715.603, + 953.335, + 952.529 + ], + "priority": 10, + "parents": [ + 179652 + ], + "children": [ + 179662 + ], + "area": 3076463.189052, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179662, + "strid": "64644fb3-089d-42b6-b2df-51c6918563ba", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1134.293, + 3696.466, + 937.0020000000002, + 184.58199999999988 + ], + "priority": 11, + "parents": [ + 179669 + ], + "children": [], + "area": 4192875.5085379994, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Semi-automatic foci quantification after 16 h ETP\ntreatment by Icy. All cell lines showed considerable\ndifferences in their yYH2AX and 53BP1 foci formation upon ETP\ntreatment. HEK293 and LoVo showed a similar level of YH2AX\nand 53BP1 foci. (n = 3-5; HEK293: n = 2; HeLa: n = 8)" + }, + { + "id": 179653, + "strid": "bfaf203d-ba3c-4986-b9b0-808a84791dba", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.643, + 1646.913, + 195.016, + 43.64599999999996 + ], + "priority": 12, + "parents": [ + 179671 + ], + "children": [ + 179667, + 179668, + 179670 + ], + "area": 198688.525059, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 179667, + "strid": "818af7da-0b88-40e4-9e67-abdd079b0529", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1128.417, + 2146.95, + 932.6570000000002, + 394.30999999999995 + ], + "priority": 13, + "parents": [ + 179653 + ], + "children": [ + 179664 + ], + "area": 2422654.87815, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179664, + "strid": "f6966128-8c6b-47f5-80a5-9818f1d5f9d7", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1135.222, + 2545.317, + 932.8880000000001, + 108.85100000000011 + ], + "priority": 14, + "parents": [ + 179667 + ], + "children": [], + "area": 2889499.855374, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 Mean nucleus size in dependence of the cell line and\nthe ETP concentration after 16 h. Treated cells showed\nslightly enlarged nuclei. LoVo cells have the smallest nuclei." + }, + { + "id": 179668, + "strid": "e4c9f153-512d-4459-8fb2-ebc43ecbdc9f", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2108.2, + 2131.599, + 1079.9229999999998, + 352.4079999999999 + ], + "priority": 15, + "parents": [ + 179653 + ], + "children": [ + 179665 + ], + "area": 4493837.0117999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179665, + "strid": "d7e34ec0-9a44-4c58-bfc1-1368311a6274", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2149.484, + 2497.332, + 1010.127, + 257.5279999999998 + ], + "priority": 16, + "parents": [ + 179668 + ], + "children": [], + "area": 5367975.176688, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4 Transfection of human cell lines by PolyFect®. A HEK293\n(n = 3) and HEp-2 cells (n = 3) showed a higher transfection\nefficiency as HeLa cells (n = 2). B Quantification of yH2AX foci per\ncell dependent on the plasmid. HEK293 cells transfected with px458\n(n = 3) and px458-SFPQ112 (n = 5) showed significantly more\nVH2AX foci per cell as the untransfected cells (n = 5) (Student's t-\ntest, P <0.05)." + }, + { + "id": 179670, + "strid": "ad3bd627-f80b-4446-8628-3090a3796ac3", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2171.983, + 2755.961, + 998.0389999999998, + 710.0720000000001 + ], + "priority": 17, + "parents": [ + 179653 + ], + "children": [ + 179663 + ], + "area": 5985900.440663, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 179663, + "strid": "1140d9e2-2b8b-4236-b5dc-8c0bdaae323a", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2155.468, + 3476.386, + 1005.5909999999999, + 407.942 + ], + "priority": 18, + "parents": [ + 179670 + ], + "children": [], + "area": 7493238.778647999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 5 Overview of transfected HEK293 cells after genome\nediting via CRISPR/Cas9. HEK293 cells were transfected with\npx458-SFPQ112. After 48 hours cells were stained with an anti-\nyH2AX and an anti-CRISPR/Cas9 antibody (1h, @RT) followed by\nimmunofluorescence detection via fluorescent-labeled secondary\nantibody. Nucleus was counter-stained with DAPI. Quantification of\nDSBs (yH2AX foci) caused by Cas9 was performed in a semi-\nautomatically via VideoScan platform in combination with Icy [5].\nCas9 and GFP expressing HEK293 cells appear yellow / green.\nThe inset shows a detailed view of cells which showed DSBs (red\ndots) as detected via WH2AX." + }, + { + "id": 179654, + "strid": "18e4c2a7-7adc-49f2-a1e3-3f5288fae3b6", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 128.962, + 3900.304, + 722.796, + 45.346000000000004 + ], + "priority": 19, + "parents": [ + 179671 + ], + "children": [ + 179660 + ], + "area": 502991.004448, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion and Conclusion" + }, + { + "id": 179660, + "strid": "f11fde36-b1c7-4b74-9029-bc2360f180d4", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 126.197, + 3960.193, + 3081.457, + 244.90499999999975 + ], + "priority": 20, + "parents": [ + 179654 + ], + "children": [], + "area": 499764.476021, + "iscrowd": 0, + "segmentation": [], + "text": "Our platform can analyze DSBs and associated biomarkers to assess individual differences even in large sample collection screenings under reproducible\nconditions. The co-localization of Cas9 and yH2AX should be visualized to exclude off-target effects mediated by CRISPR/Cas9. To get a higher transfection\nefficiency viral transfection will be used in future. So far, fluorescence in situ hybridization was ambiguous for the detection of site-specific DSBs. Therefore,\nfurther investigations are necessary. Furthermore, the nuclei size due to ETP treatment is an interesting result. This will be evaluated for the CRSIPR/Cas9\n\nsamples, too." + }, + { + "id": 179655, + "strid": "cdaa0b50-0b1a-49b6-a943-3754d705f3f7", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 117.34, + 4237.417, + 487.033, + 57.21399999999994 + ], + "priority": 21, + "parents": [ + 179671 + ], + "children": [ + 179656 + ], + "area": 497218.51078000007, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgments" + }, + { + "id": 179656, + "strid": "f3dcdb0c-f5e8-4316-9602-a5bac15f7397", + "image_id": 207517, + "image_name": "8345.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 116.632, + 4298.86, + 1848.388, + 50.11899999999969 + ], + "priority": 22, + "parents": [ + 179655 + ], + "children": [], + "area": 501384.63951999997, + "iscrowd": 0, + "segmentation": [], + "text": "This work was in part funded by the BMBF InnoProfile Transfer-Project 03 IPT 611X." + }, + { + "id": 197922, + "strid": "bab0844b-73a5-440e-86c2-2a0dca76783d", + "image_id": 208254, + "image_name": "9777.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 96.16, + 265.36, + 317.86, + 206.97999999999996 + ], + "priority": -1, + "parents": [], + "children": [ + 197899, + 197903, + 197911, + 197910, + 197898, + 197902, + 197897, + 197900, + 197901 + ], + "area": 25517.0176, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197910, + "strid": "0c58218e-6496-49c4-a63b-dbb5ecce89db", + "image_id": 208254, + "image_name": "9777.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 216.637, + 74.225, + 3161.632, + 135.119 + ], + "priority": 1, + "parents": [ + 197922 + ], + "children": [], + "area": 16079.881324999998, + "iscrowd": 0, + "segmentation": [], + "text": "sciApps.org - a federated platform powered by Cyverse" + }, + { + "id": 197911, + "strid": "8061f407-3a88-43c4-aa4d-30fdc5cf8c1d", + "image_id": 208254, + "image_name": "9777.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 984.837, + 258.681, + 1894.5170000000003, + 118.40699999999998 + ], + "priority": 2, + "parents": [ + 197922 + ], + "children": [], + "area": 254758.61999699997, + "iscrowd": 0, + "segmentation": [], + "text": "Zhenyuan Lu?, Liya Wang’, Peter Van Buren’, and Doreen Ware? 2\n1Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, USA 11724; USDA-ARS NEA, Ithaca, NY, USA 14853" + }, + { + "id": 197899, + "strid": "8399ecd7-9fa2-4a1b-8985-1b231fe39ced", + "image_id": 208254, + "image_name": "9777.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1888.181, + 433.038, + 439.62699999999995, + 73.51400000000001 + ], + "priority": 3, + "parents": [ + 197922 + ], + "children": [ + 197907, + 197893 + ], + "area": 817654.1238780001, + "iscrowd": 0, + "segmentation": [], + "text": "1. 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3070.69737, + "iscrowd": 0, + "segmentation": [], + "text": "Child Occupational Self Assessment - A suitable\noutcome measure in Paediatric Neuro-oncology?" + }, + { + "id": 33313, + "strid": "11100bf0-2ba4-4b28-a8b4-c4826919c793", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 191.262, + 153.976, + 821.5710000000001, + 61.28 + ], + "priority": 2, + "parents": [ + 33326 + ], + "children": [], + "area": 29449.757712, + "iscrowd": 0, + "segmentation": [], + "text": "Claire Hedley, Advanced OT, Paediatric Neurology & Gillian Matheson,\nAdvanced OT, Paediatric Oncology and Haematology, Royal Hospital for Sick Children, Glasgow.\nGontacts — Claire.hedley@ggc.scot.nhs.uky- Gillian.matheson@ggc.scot.nhs.uk" + }, + { + "id": 33314, + "strid": "0a171a6b-9726-4eda-b2e9-57e6662c1d31", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 46.765, + 259.876, + 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Child Occupation Self Assessment (COSA)." + }, + { + "id": 33315, + "strid": "861291cc-67c1-49a0-a77f-a0c1f818fd71", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 548.689, + 260.113, + 91.005, + 18.802999999999997 + ], + "priority": 11, + "parents": [ + 33326 + ], + "children": [ + 33317 + ], + "area": 142721.14185699998, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 33317, + "strid": "9c329a40-4dbb-4ddd-abf7-045db65b81e7", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 537.966, + 290.275, + 474.461, + 625.856 + ], + "priority": 12, + "parents": [ + 33315 + ], + "children": [], + "area": 156158.08065, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 33320, + "strid": "3731a482-508f-4a5e-9746-bce045c43c0f", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 548.23, + 1009.752, + 134.36199999999997, + 19.689000000000078 + ], + "priority": 13, + "parents": [ + 33326 + ], + "children": [ + 33321 + ], + "area": 553576.33896, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 33321, + "strid": "cd669807-dfa6-4715-b6e2-3b43221cc384", + "image_id": 201805, + "image_name": "117712.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 537.736, + 1040.4, + 477.0690000000001, + 281.36699999999996 + ], + "priority": 14, + "parents": [ + 33320 + ], + "children": [], + "area": 559460.5344, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87788, + "strid": "b5cf5018-a442-40b7-8d67-2ff58efdd5d6", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 390.92, + 57.92, + 190.07999999999998, + 133.76 + ], + "priority": -1, + "parents": [], + "children": [ + 87765, + 87776, + 87773, + 87777, + 87764, + 87783, + 87767, + 87775, + 87763, + 87762 + ], + "area": 22642.0864, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87762, + "strid": "f6df35a2-5900-4e34-80f4-1d6dd4d9f973", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 695.294, + 0.413, + 3287.565, + 247.134 + ], + "priority": 1, + "parents": [ + 87788 + ], + "children": [], + "area": 287.15642199999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 87763, + "strid": "113809d2-c4f1-474e-be9d-c0aac67ea92b", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 535.19, + 308.796, + 3607.039, + 346.67799999999994 + ], + "priority": 2, + "parents": [ + 87788 + ], + "children": [], + "area": 165264.53124, + "iscrowd": 0, + "segmentation": [], + "text": "JEANNE M. O. ELOUNDOUSMBEBI', SABRINA KLEESSEN '?, MICHAEL MERET’?, THOMAS DEGENKOLBE’, LOTHAR\nWILLMITZER?,)ZORAN NIKOLOSKI!\nMax Planck Institute for Molecular Plant Physielogy,\n‘Systems Biology and Mathematical Modeling Group, 7?Genescand Small Molecules Group" + }, + { + "id": 87767, + "strid": "dcd0fdab-b501-467b-84c7-7bf0380c6fd7", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 77.536, + 718.766, + 528.74, + 62.86699999999996 + ], + "priority": 3, + "parents": [ + 87788 + ], + "children": [ + 87766 + ], + "area": 55730.240576, + "iscrowd": 0, + "segmentation": [], + "text": "INTRODUCTION" + }, + { + "id": 87766, + "strid": "c3d40460-58dd-4ab5-a1dc-d720425daf38", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 80.633, + 816.975, + 1064.087, + 1372.781 + ], + "priority": 4, + "parents": [ + 87767 + ], + "children": [], + "area": 65875.145175, + "iscrowd": 0, + "segmentation": [], + "text": "Knowledge of the biochemical reactions through\nwhich compounds are transformed is prerequisite to\nunderstanding the underlying mechanisms, behavior\nand control of biochemical systems» Therefore, re-\nsearchers have focused on finding’ the set of chemi-\ncal reactions taking place in-a'system, based on some\ninvolved components read*euts, known as biochem-\nical network reconstruction problem. Existing ap-\nproaches neglect the stoichiometry and directed hy-\npergraph structure of biochemical reactions [1].\n\nHere we propose~a method for identifying the reac-\ntion substrates-and their stoichiometries (i.e., substrate\ncomplexes).sOur approach combines techniques from\nfitting.and variable selection methods: least absolute\nshrinkage and selection operator (LASSO) [2] together\nwith mathematical programming which, under the as-\nsumption of mass action kinetic, can be*used to in-\nfer time-resolved set of substrates together with their\nstoichiometry. The approach is validated on synthetic\ndata from a paradigmatic network. In addition, by us-\ning metabolomics profiles obtained from a glycine hy-\ndrothermal reaction, we. show that the predicted sub-\nstrate complexes are inline with chemical principles,\nthus, shedding lighton prebiotic chemistry." + }, + { + "id": 87764, + "strid": "a2fa3fb8-e37a-4970-8187-2707061da02f", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1226.941, + 708.097, + 843.4980000000003, + 73.21500000000003 + ], + "priority": 5, + "parents": [ + 87788 + ], + "children": [ + 87770, + 87771, + 87769, + 87768 + ], + "area": 868793.241277, + "iscrowd": 0, + "segmentation": [], + "text": "MATERIALS & METHODS" + }, + { + "id": 87768, + "strid": "d04ec0b5-0838-4a22-adba-d9cbc620910a", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1311.707, + 805.014, + 717.704, + 212.12299999999993 + ], + "priority": 6, + "parents": [ + 87764 + ], + "children": [], + "area": 1055942.498898, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87769, + "strid": "941fc2b6-9410-4d62-96db-d508de26ff08", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1357.586, + 1021.292, + 708.588, + 712.014 + ], + "priority": 7, + "parents": [ + 87764 + ], + "children": [], + "area": 1386491.721112, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87770, + "strid": "11e84db1-e115-4266-84b6-8c06b75a9f2f", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1350.215, + 1760.505, + 954.682, + 541.413 + ], + "priority": 8, + "parents": [ + 87764 + ], + "children": [], + "area": 2377060.258575, + "iscrowd": 0, + "segmentation": [], + "text": "P\nBe =aremin{ |G — SS Bye ¥f ll + Atl Bella}\nBe G=1,j#k\n\nProblem:\nmin || Br — 6:3,\nBy fa\nP\nPri = argmin{||Y¢ 444 — S> 85,241 Y@yrllo+\nPeta j=1,j4k\n+ Av41||Be+1|]1}-" + }, + { + "id": 87771, + "strid": "742abf02-1125-4846-a776-d2f8c63c1a16", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1306.966, + 2330.751, + 989.922, + 900.2200000000003 + ], + "priority": 9, + "parents": [ + 87764 + ], + "children": [], + "area": 3046212.311466, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87765, + "strid": "5858253e-b571-45e3-8d50-54df9caad11c", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2384.653, + 717.249, + 349.2959999999998, + 67.11400000000003 + ], + "priority": 10, + "parents": [ + 87788 + ], + "children": [ + 87786, + 87787 + ], + "area": 1710389.979597, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS 1" + }, + { + "id": 87787, + "strid": "0483ebb1-e8c8-4b20-8098-29f41ebea202", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2455.848, + 835.824, + 1030.254, + 819.218 + ], + "priority": 11, + "parents": [ + 87765 + ], + "children": [], + "area": 2052656.6987519998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87786, + "strid": "2bbbab10-d812-42fd-b3e7-b1559bc5306f", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3624.023, + 814.221, + 859.0990000000002, + 714.531 + ], + "priority": 12, + "parents": [ + 87765 + ], + "children": [ + 87785 + ], + "area": 2950755.631083, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87785, + "strid": "6f148749-74e3-4088-8918-317ced2c4c8a", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 3619.038, + 1575.28, + 869.069, + 56.49800000000005 + ], + "priority": 13, + "parents": [ + 87786 + ], + "children": [], + "area": 5700998.18064, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Paradigmatic network and parameters" + }, + { + "id": 87783, + "strid": "cd7bd6c8-8729-4bdf-8e3b-da589e16bc2e", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2381.072, + 1733.141, + 355.6039999999998, + 68.13000000000011 + ], + "priority": 14, + "parents": [ + 87788 + ], + "children": [ + 87782, + 87784 + ], + "area": 4126733.5071520004, + "iscrowd": 0, + "segmentation": [], + "text": "RESULTS 2" + }, + { + "id": 87782, + "strid": "d2e7b83b-5372-4b4a-8aed-967bcfc972c5", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2384.395, + 1881.033, + 1181.4680000000003, + 432.0419999999999 + ], + "priority": 15, + "parents": [ + 87783 + ], + "children": [ + 87781 + ], + "area": 4485125.680035, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87781, + "strid": "9732bc3a-b92e-4132-9095-a54e907c20d7", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2386.057, + 2366.249, + 1093.3980000000001, + 93.05499999999984 + ], + "priority": 16, + "parents": [ + 87782 + ], + "children": [], + "area": 5646004.990192999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: R? and residual sum of squares (RSS) for the glycine\nHTR at 180 °C" + }, + { + "id": 87784, + "strid": "073bb8ab-9147-406f-8ae8-775ff168dfed", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3577.495, + 1856.107, + 1023.607, + 606.52 + ], + "priority": 17, + "parents": [ + 87783 + ], + "children": [], + "area": 6640213.511965, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 87776, + "strid": "a679a9c3-f8ab-4d60-a3d7-a40387e48fc4", + "image_id": 203909, + "image_name": "121142.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2384.9, + 2538.374, + 353.703, + 70.34999999999991 + ], + "priority": 18, + "parents": [ + 87788 + ], + "children": [ + 87779 + ], + "area": 6053768.1526, + "iscrowd": 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M. Murali®, and Anna Ritz’\n\n'Biology and *Mathematics Departments, Reed College, Portland, OR, USA\n3Computer Science Department, Virginia Tech, Blacksburg, VA, USA\n‘Current Affiliation: CS Department, University of Maryland College Park, College Park, MD, USA" + }, + { + "id": 128142, + "strid": "ffd03da5-cd1b-4c0a-b723-42929b73358d", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 127.504, + 580.249, + 1281.42, + 64.26800000000003 + ], + "priority": 3, + "parents": [ + 128165 + ], + "children": [ + 128150, + 128151, + 128152, + 128148, + 128149 + ], + "area": 73984.068496, + "iscrowd": 0, + "segmentation": [], + "text": "Background: Signaling Pathway Representations" + }, + { + "id": 128148, + "strid": "bd007100-d760-4f20-896a-bf5630f4073c", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 162.613, + 660.9, + 1380.43, + 690.215 + ], + "priority": 4, + "parents": [ + 128142 + ], + "children": [], + "area": 107470.9317, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128149, + "strid": "d691f638-6b84-40c9-958e-00a9d1960934", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 162.079, + 1362.295, + 1382.187, + 110.38799999999992 + ], + "priority": 5, + "parents": [ + 128142 + ], + "children": [], + "area": 220799.41130500002, + "iscrowd": 0, + "segmentation": [], + "text": "When are two molecules connected in a network? We computed\ndistances between all pairs of nodes in Reactome representations." + }, + { + "id": 128150, + "strid": "70db7dec-9bf8-4c47-903c-8838cc90c3c9", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 131.729, + 1488.33, + 901.847, + 458.00599999999986 + ], + "priority": 6, + "parents": [ + 128142 + ], + "children": [], + "area": 196056.22257, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128151, + "strid": "937aec46-6287-47a6-8ee9-826b32fe3215", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1059.283, + 1480.011, + 520.887, + 487.16100000000006 + ], + "priority": 7, + "parents": [ + 128142 + ], + "children": [], + "area": 1567750.4921129998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128152, + "strid": "0ca7a366-b563-40cd-9dfd-31064cc1f1ec", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 134.344, + 1972.033, + 1429.93, + 542.9429999999998 + ], + "priority": 8, + "parents": [ + 128142 + ], + "children": [], + "area": 264930.801352, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128144, + "strid": "ce15555c-1494-40a5-b368-d5f6744fc8f7", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 123.864, + 2559.938, + 932.8699999999999, + 71.3760000000002 + ], + "priority": 9, + "parents": [ + 128165 + ], + "children": [ + 128157, + 128158, + 128160, + 128159, + 128161 + ], + "area": 317084.160432, + "iscrowd": 0, + "segmentation": [], + "text": "Methods: B-Relaxation Distance [4]" + }, + { + "id": 128158, + "strid": "d49f8b40-e36a-4146-80e8-0aa9e4992e90", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 132.325, + 2661.238, + 978.06, + 275.817 + ], + "priority": 10, + "parents": [ + 128144 + ], + "children": [], + "area": 352148.31834999996, + "iscrowd": 0, + "segmentation": [], + "text": "B-relaxation distance relaxes B-connectivity in\nhypergraphs while preserving hypergraph\ntopology by iteratively lifting the B-connectivity\nrestriction on hyperedges. Given a set S of\nsource nodes, the algorithm computes two sets:" + }, + { + "id": 128159, + "strid": "de82bb9c-9b9a-40f4-a13b-accf2b4a82f9", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 147.375, + 2942.338, + 972.6689999999999, + 164.11299999999983 + ], + "priority": 11, + "parents": [ + 128144 + ], + "children": [], + "area": 433627.06275000004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128157, + "strid": "d1dc0e32-4bb6-4276-87e0-12d91f3df4ef", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1169.006, + 2661.112, + 436.26700000000005, + 420.451 + ], + "priority": 12, + "parents": [ + 128144 + ], + "children": [], + "area": 3110855.8946720003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128160, + "strid": "5dccd9ed-e498-4285-8667-0318c2b74a3b", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 99.137, + 3115.498, + 1460.083, + 226.25599999999986 + ], + "priority": 13, + "parents": [ + 128144 + ], + "children": [], + "area": 308861.12522600003, + "iscrowd": 0, + "segmentation": [], + "text": "The algorithm then computes B, and R; from the heads of each\nrestrictive hyperedge in the previous iteration (e.g., Ro). This process\ncontinues until no new nodes are reachable; this set is exactly the set of\nreachable nodes in the bipartite graph." + }, + { + "id": 128161, + "strid": "7467992c-859a-4d12-9a12-7f074af3708b", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 136.076, + 3350.421, + 1429.783, + 877.7140000000004 + ], + "priority": 14, + "parents": [ + 128144 + ], + "children": [], + "area": 455911.88799599995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 128143, + "strid": "2c701d84-179b-40ed-be88-e235c822abf1", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1740.088, + 579.804, + 1180.099, + 56.45100000000002 + ], + "priority": 15, + "parents": [ + 128165 + ], + "children": [ + 128154, + 128153, + 128155, + 128156 + ], + "area": 1008909.982752, + "iscrowd": 0, + "segmentation": [], + "text": "Results: Pathway influence across Reactome" + }, + { + "id": 128153, + "strid": "cb8b02c5-79f0-447f-9b5a-eac56621e93a", + "image_id": 205495, + "image_name": "15242.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1723.232, + 677.04, + 752.9360000000001, + 699.154 + ], + "priority": 16, + "parents": [ + 128143 + ], + "children": [], + "area": 1166696.9932799998, + "iscrowd": 0, + "segmentation": [], + "text": "We compute the influence score S,\nof a source pathway S (w/ nodes Ps)\non target pathway T (w/ nodes P7)\nfor B-relaxation distance up to k\n(denoted Bex):\n\n“reachable” overlap _ initial overlap\n| (Bex(Ps) N Pr) \\ (Ps Pr) |\n\n|B C9/C12 with short 5’ end\n\n=> growth kinetics confirmed the importance of the NP\nsegment 5’ end length in influenza virus cycle." + }, + { + "id": 163344, + "strid": "8e291995-f54f-4f55-876f-4b788eba9783", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1175.197, + 3404.354, + 857.1800000000001, + 248.13099999999986 + ], + "priority": 23, + "parents": [ + 163329 + ], + "children": [], + "area": 4000786.6077379994, + "iscrowd": 0, + "segmentation": [], + "text": "Minireplicon assays\n\ntranscription and replication processes were only\nmarginally affected and could not account for the\ndifferences observed in growth kinetics" + }, + { + "id": 163358, + "strid": "42fade99-4b70-44c7-bd08-ea76bafd2905", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2151.7, + 2867.126, + 1041.6260000000002, + 823.7350000000001 + ], + "priority": 24, + "parents": [ + 163329 + ], + "children": [], + "area": 6169195.0142, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 163345, + "strid": "d12a9681-5a70-4240-9287-3082d7ca66b2", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 59.084, + 3740.96, + 696.469, + 111.89199999999983 + ], + "priority": 25, + "parents": [ + 163329 + ], + "children": [], + "area": 221030.88064000002, + "iscrowd": 0, + "segmentation": [], + "text": "3 Level of NP protein expression\nat 6h.p.i. at m.o.i = 2" + }, + { + "id": 163357, + "strid": "b3e2bd2d-7564-4a85-9c01-28c0f781815b", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 26.794, + 3859.522, + 549.979, + 594.9769999999999 + ], + "priority": 26, + "parents": [ + 163329 + ], + "children": [], + "area": 103412.032468, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 163346, + "strid": "9233c725-4d90-4e70-978a-493a2cfdc19f", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 572.872, + 4008.131, + 564.026, + 372.2109999999998 + ], + "priority": 27, + "parents": [ + 163329 + ], + "children": [], + "area": 2296146.022232, + "iscrowd": 0, + "segmentation": [], + "text": "A8 with long 5’ end < A1/A10 with\nshort 5’ end\n\nsimilar MRNA levels\n=> translation,\n\nrather than transcription,\ncould be mainly affected in A8&" + }, + { + "id": 163347, + "strid": "d30e657c-a21a-4799-bfac-6f44f68be5f5", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1203.12, + 3737.465, + 1307.0969999999998, + 53.73199999999997 + ], + "priority": 28, + "parents": [ + 163329 + ], + "children": [], + "area": 4496618.8908, + "iscrowd": 0, + "segmentation": [], + "text": "4 Consequences of less NP on transcription/replication switch" + }, + { + "id": 163359, + "strid": "18e38031-783e-4ff1-8375-6f666d9522fa", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1186.79, + 3855.451, + 1248.768, + 515.1729999999998 + ], + "priority": 29, + "parents": [ + 163329 + ], + "children": [], + "area": 4575610.69229, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 163348, + "strid": "d92c5e3e-479d-410d-98ef-36e559cd90c8", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2532.78, + 3862.101, + 678.152, + 516.9680000000003 + ], + "priority": 30, + "parents": [ + 163329 + ], + "children": [], + "area": 9781852.170780001, + "iscrowd": 0, + "segmentation": [], + "text": "For all segments\nat 6 h.p.i. at m.o.i. = 2\n\nmRNA-Ct/vRNA-Ct ratio:\nmoderate but consistent reduction for A8\ni.e.\nless vVRNA or more mRNA for A8&\n\n=> for A8: reduction or delay\nin viral genome replication" + }, + { + "id": 163330, + "strid": "bda85fc3-b789-4430-a72e-2d356b6f23b3", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 31.76, + 4466.444, + 346.98, + 53.92199999999957 + ], + "priority": 31, + "parents": [ + 163360 + ], + "children": [ + 163351, + 163350, + 163349 + ], + "area": 141854.26144000003, + "iscrowd": 0, + "segmentation": [], + "text": "CONCLUSIONS" + }, + { + "id": 163349, + "strid": "06088ec9-95c6-4bbc-b93f-bbdf551bbdd2", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 500.744, + 4465.887, + 2766.508, + 47.9409999999998 + ], + "priority": 32, + "parents": [ + 163330 + ], + "children": [], + "area": 2236266.119928, + "iscrowd": 0, + "segmentation": [], + "text": "Using an original approach that aimed at exchanging the NC regions of influenza virus type A by those of type C and reciprocally, we showed the" + }, + { + "id": 163350, + "strid": "3479d637-0ea1-4fee-9059-57c305185e7b", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 35.163, + 4521.351, + 3232.089, + 99.34799999999996 + ], + "priority": 33, + "parents": [ + 163330 + ], + "children": [], + "area": 158984.26521299998, + "iscrowd": 0, + "segmentation": [], + "text": "importance of the proximal panhandle and of the strength of the initial distal panhandle in type specificity for the NP segment. Our results in an influenza virus infectious\ncontext also showed that the length of the 5’ NC region of type A NP segment seems to be involved in the translation regulation at the mRNA level and that the amount of NP" + }, + { + "id": 163351, + "strid": "7d11d694-183c-4bdc-98ae-028fee10ceb1", + "image_id": 206873, + "image_name": "6562.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 36.104, + 4629.62, + 1138.069, + 42.50799999999981 + ], + "priority": 34, + "parents": [ + 163330 + ], + "children": [], + "area": 167147.80048, + "iscrowd": 0, + "segmentation": [], + "text": "produced subsequently affects the replication of the genome." + }, + { + "id": 134882, + "strid": "d46d4285-1033-4765-bc11-778026b97129", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 326.22, + 84.62, + 249.63, + 239.23000000000002 + ], + "priority": -1, + "parents": [], + "children": [ + 134870, + 134880, + 134879, + 134866, + 134881, + 134868, + 134869, + 134865, + 134867, + 134864 + ], + "area": 27604.736400000005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134864, + "strid": "98990ecc-e5d1-41aa-ba28-3de5986adc77", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 858.785, + 20.846, + 1821.4570000000003, + 318.649 + ], + "priority": 1, + "parents": [ + 134882 + ], + "children": [], + "area": 17902.23211, + "iscrowd": 0, + "segmentation": [], + "text": "Liver function tests and fibrosis scores in a rural\n\npopulation in Africa: estimation of the burden\nof disease and associated risk factors" + }, + { + "id": 134865, + "strid": "0cd9d9f1-8d3b-4c77-b5d8-622a9c5856ef", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 215.268, + 370.966, + 3134.752, + 331.21500000000003 + ], + "priority": 2, + "parents": [ + 134882 + ], + "children": [], + "area": 79857.108888, + "iscrowd": 0, + "segmentation": [], + "text": "Geraldine A O’Hara!**, Jolynne Mokaya2\", Jeffrey P Hau '3, Louise O Downs 24, Anna L McNaughton 2, Alex Karabarinde?, Gershim Asiki®-5,\nJanet Seeley*, Philippa C Matthews?4* Robert Newton®#\n\n'Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical Medicine #Nuffield Department of Medicine, University of Oxford ? Medical Research Council/Uganda Virus Research\nInstitute and London School of Hygiene and Tropical Medicine Uganda Research Unit Department of Infectious Diseases and Microbiology, Oxford University Hospitals NHS Foundation Trust *African\nPopulation and Health Research Center “Department of Global Health and Development, London School of Hygiene and Tropical Medicine 7Department of Health Sciences, University of York\n*These authors contributed equally * These authors contributed equally" + }, + { + "id": 134866, + "strid": "6440c8b9-a89d-4b68-9e3a-6fc2aea7fb2b", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 477.385, + 872.716, + 332.217, + 61.722999999999956 + ], + "priority": 3, + "parents": [ + 134882 + ], + "children": [ + 134871 + ], + "area": 416621.52766, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 134871, + "strid": "0e2be394-6bf4-4a11-8dcb-2d344d73045d", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 60.217, + 955.38, + 1172.638, + 869.945 + ], + "priority": 4, + "parents": [ + 134866 + ], + "children": [], + "area": 57530.11746, + "iscrowd": 0, + "segmentation": [], + "text": "Liver disease is a major cause of morbidity\nand mortality in sub-Saharan Africa (1).\nHowever, its prevalence, distribution and\naetiology have not been well characterised\n(2). In resource limited settings, imaging\nand/or liver biopsy are not routinely\navailable and therefore using laboratory\nparameters is important for evaluation of\nliver disease. We examined liver function\ntests (LFTs) and calculated liver fibrosis\nscores ina rural population in Uganda. _" + }, + { + "id": 134867, + "strid": "9c381e0e-7e17-455d-9bc1-c5dd0018beff", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2290.891, + 859.503, + 241.10300000000007, + 56.92700000000002 + ], + "priority": 5, + "parents": [ + 134882 + ], + "children": [ + 134872 + ], + "area": 1969027.687173, + "iscrowd": 0, + "segmentation": [], + "text": "Methods" + }, + { + "id": 134872, + "strid": "f2074fa5-fd44-44bd-aa05-e4a2b8f5f3f5", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1351.231, + 940.35, + 2119.938, + 867.4320000000001 + ], + "priority": 6, + "parents": [ + 134867 + ], + "children": [], + "area": 1270630.07085, + "iscrowd": 0, + "segmentation": [], + "text": "A cross-sectional survey of LFTs was undertaken in 2011 in a rural population in\nKyamulibwa, in the Kalungu district of South-Western Uganda as part of the\nsurvey of the General Population Cohort (GPC). The GPC is a community-\nbased cohort established in 1989 with funding from the UK Medical Research\nCouncil (MRC) in collaboration with the Uganda Virus Research Institute (UVRI),\n(3). We classified abnormal LFTs based on reference ranges set in America and\nin Africa. We derived fibrosis scores (AST to Platelet Ratio Index, fibrosis-4,\nGGT to platelet ratio, red cell distribution width to platelet ratio, and S-index)\nto evaluate the potential prevalence of liver disease. We collected information\nabout alcohol intake, and infection with HIV, HBV and HCV, to determine the\ncontribution made by these factors to liver inflammation or fibrosis." + }, + { + "id": 134868, + "strid": "42ea7f34-5599-47e1-9c2f-1247b6124684", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1339.942, + 1883.195, + 192.17000000000007, + 47.0619999999999 + ], + "priority": 7, + "parents": [ + 134882 + ], + "children": [ + 134873 + ], + "area": 2523372.07469, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 134873, + "strid": "a92e2965-e135-4156-b212-5292703e9d13", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 47.279, + 1950.545, + 2773.157, + 803.5659999999998 + ], + "priority": 8, + "parents": [ + 134868 + ], + "children": [], + "area": 92219.817055, + "iscrowd": 0, + "segmentation": [], + "text": "Data were available for 8,099 participants (median age 30 years; 56% female). The prevalence of\nHBV, HCV and HIV infection were 3%, 0.2% and 8%, respectively. The prevalence of abnormal LFTs\nwas higher based on the American reference range compared to the African reference range (e.g. for\nAST 13% vs 3%, respectively). The prevalence of AST/ALT ratio >2 was 11%, suggestive of alcoholic\nhepatitis. The highest prevalence of fibrosis was suggested by the GPR score, with 24% of the\npopulation falling above the threshold for fibrosis. By multivariate analysis, elevated LFTs and fibrosis\nscores were most consistently associated with older age (p<0.001), male sex (p=0.002), being under-\nweight (p<0.001), infection with HIV or HBV (p<0.001), and alcohol consumption (p<0.001). Based on\npopulation attributable risk, the highest proportion of elevated fibrosis scores was associated with\n\nalcohol use (e.g. 64% of elevated S-index scores). L" + }, + { + "id": 134869, + "strid": "ee5b0bfd-121e-469a-b764-15f0056f88f2", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 920.714, + 2811.867, + 291.87800000000004, + 48.528999999999996 + ], + "priority": 9, + "parents": [ + 134882 + ], + "children": [ + 134874 + ], + "area": 2588925.3130380004, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 134874, + "strid": "11f2f9ce-7106-4350-afd5-e92150f7d5cf", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 49.721, + 2889.632, + 2028.978, + 699.587 + ], + "priority": 10, + "parents": [ + 134869 + ], + "children": [], + "area": 143675.392672, + "iscrowd": 0, + "segmentation": [], + "text": "Our results suggest a significant burden of chronic liver disease attributable\nto alcohol, with important contributions also made by blood borne virus\ninfection. However, other factors may also be significant that were not\nexamined in this study, including prescribed and _ over-the-counter\nmedications, aflatoxin exposure, schistosomiasis infection. Further studies are\nrequired to correlate liver function tests and fibroscan scores with the\npresence of underlying liver disease. This is important for planning\nindividual patient care, and also for assessing liver health at a population\nlevel." + }, + { + "id": 134879, + "strid": "86567b63-c837-4428-876e-2bdc75c791d6", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2884.094, + 1866.931, + 653.8649999999998, + 1099.049 + ], + "priority": 11, + "parents": [ + 134882 + ], + "children": [ + 134875 + ], + "area": 5384404.495514, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134875, + "strid": "d3a8e6f1-08cc-40b1-838d-117635aaadf0", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2218.958, + 2782.251, + 594.7019999999998, + 202.26499999999987 + ], + "priority": 12, + "parents": [ + 134879 + ], + "children": [], + "area": 6173698.114458, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 1: Study area (Kyamulibwa,\nKalungu District South-Western\nUganda). Map obtained from\nAsiki et al (3)." + }, + { + "id": 134880, + "strid": "3bdabd0f-0ff6-4f7d-9e99-0ed2aa179089", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2163.979, + 3017.697, + 1348.8889999999997, + 912.3959999999997 + ], + "priority": 13, + "parents": [ + 134882 + ], + "children": [ + 134876 + ], + "area": 6530232.9363629995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134876, + "strid": "8cea2f31-52d2-4242-8816-b879e564d9e3", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2172.288, + 3953.422, + 1356.944, + 475.1640000000002 + ], + "priority": 14, + "parents": [ + 134880 + ], + "children": [], + "area": 8587971.169536, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 2: Liver function tests and hepatic fibrosis scores among adults in the\nUganda General Population Cohort. Distribution of (A) ALT, (B) AST and (C)\nGGT. Dashed vertical lines indicate upper limit of normal (ULN) based on\nAmerican reference range, ARR (blue) and local reference range, LRR (red).\nNote no LRR for GGT. (D) Proportion of the population with an elevated\nGPR score, and among those with elevated GPR the proportion with a\ndefined risk factor for fibrosis. (E) Proportion of the population with an\nelevated AST/ALT ratio, and among those with an elevated ratio the\nproportion with a self-reported history of alcohol intake. ~~" + }, + { + "id": 134881, + "strid": "56857a7e-6ec5-451f-b54e-4361ca86a400", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 108.738, + 3655.682, + 1101.171, + 941.5519999999997 + ], + "priority": 15, + "parents": [ + 134882 + ], + "children": [ + 134877 + ], + "area": 397511.54931599996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134877, + "strid": "772152ba-3e43-42de-b3dc-c3201e4c0f96", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 14.46, + 4612.368, + 1484.044, + 104.08799999999974 + ], + "priority": 16, + "parents": [ + 134881 + ], + "children": [], + "area": 66694.84128000001, + "iscrowd": 0, + "segmentation": [], + "text": "Fig 3: Forrest plots to show relationship between host factors and elevated LFTs\nand fibrosis scores in the Uganda General Population Cohort." + }, + { + "id": 134870, + "strid": "c229872e-583f-40e3-882e-54fba6edb49c", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1579.012, + 3703.469, + 227.03399999999988, + 43.389000000000124 + ], + "priority": 17, + "parents": [ + 134882 + ], + "children": [ + 134878 + ], + "area": 5847821.992628, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 134878, + "strid": "0f4b4d6d-8a4b-448d-a50d-23f24627c6de", + "image_id": 205730, + "image_name": "15758.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1308.485, + 3757.875, + 780.6919999999998, + 803.0429999999997 + ], + "priority": 18, + "parents": [ + 134870 + ], + "children": [], + "area": 4917123.069375, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134581, + "strid": "6c0a21aa-e919-4c55-a357-6aadcd4f4494", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 38.76, + 22.18, + 117.07000000000002, + 117.07 + ], + "priority": -1, + "parents": [], + "children": [ + 134576, + 134577, + 134539, + 134575, + 134538, + 134540, + 134542, + 134555 + ], + "area": 859.6967999999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134538, + "strid": "bde8db3d-40b9-46a8-b63b-7e4e822d2d4d", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 147.551, + 189.181, + 1981.705, + 154.41800000000003 + ], + "priority": 1, + "parents": [ + 134581 + ], + "children": [], + "area": 27913.845730999998, + "iscrowd": 0, + "segmentation": [], + "text": "tailfindr: Alignment-free poly(A) length measurement\nfor Oxford Nanopore RNA and DNA sequencing" + }, + { + "id": 134539, + "strid": "253ba62f-12a2-4452-a85f-8817d229bd20", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 154.665, + 366.996, + 1696.169, + 184.83399999999995 + ], + "priority": 2, + "parents": [ + 134581 + ], + "children": [], + "area": 56761.43633999999, + "iscrowd": 0, + "segmentation": [], + "text": "Adnan M. Niazi, Maximilian Krause, Kornel Labun, Yamila N. Torres Cleuren,\nFlorian S. Miller, Eivind Valen\n\nValen Lab | Computational Biology Unit | University of Bergen | Norway" + }, + { + "id": 134540, + "strid": "ae4fe84c-2c0c-4c59-9298-4a4d1040ed09", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 161.836, + 750.225, + 230.55600000000004, + 54.76200000000006 + ], + "priority": 3, + "parents": [ + 134581 + ], + "children": [ + 134541 + ], + "area": 121413.41310000002, + "iscrowd": 0, + "segmentation": [], + "text": "Highlights" + }, + { + "id": 134541, + "strid": "0fc4370b-4fa8-4edd-8344-792898bd9850", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 159.139, + 824.404, + 936.715, + 117.64200000000005 + ], + "priority": 4, + "parents": [ + 134540 + ], + "children": [], + "area": 131194.828156, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134555, + "strid": "802031f6-3384-411a-916e-2f710adbde16", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 157.026, + 1127.376, + 267.475, + 54.5 + ], + "priority": 5, + "parents": [ + 134581 + ], + "children": [ + 134560, + 134580, + 134557, + 134569, + 134570, + 134556, + 134573, + 134572, + 134561, + 134562, + 134571, + 134568, + 134558, + 134559 + ], + "area": 177027.343776, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 134556, + "strid": "2224120f-7d52-4fdc-ba51-6fc4e5df50f5", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.004, + 1210.291, + 1099.228, + 76.73700000000008 + ], + "priority": 6, + "parents": [ + 134555 + ], + "children": [], + "area": 188810.237164, + "iscrowd": 0, + "segmentation": [], + "text": "A poly(A) tail is a stretch of adenosines at 3° -end of mRNA transcripts; its length\naffects nuclear export, stability and translation of mRNA." + }, + { + "id": 134568, + "strid": "2d83f636-6449-4cf2-a361-be9b1153b33e", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 150.353, + 1297.777, + 813.182, + 154.16800000000012 + ], + "priority": 7, + "parents": [ + 134555 + ], + "children": [], + "area": 195124.66528100002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134557, + "strid": "bfff5cd4-c901-4f30-82a5-23cd423ed2c1", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 157.096, + 1528.959, + 1090.306, + 79.48900000000003 + ], + "priority": 8, + "parents": [ + 134555 + ], + "children": [], + "area": 240193.34306400002, + "iscrowd": 0, + "segmentation": [], + "text": "Ittumina-based poly(A) tail profiling strategies do not allow for transcript\nisoform-specific poly(A) tail length assignment" + }, + { + "id": 134569, + "strid": "df5be163-6433-4f27-8504-e83dc3040832", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 150.879, + 1644.702, + 1110.046, + 224.2070000000001 + ], + "priority": 9, + "parents": [ + 134555 + ], + "children": [], + "area": 248150.993058, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134558, + "strid": "c4a90162-271b-4ecb-8d05-8821c5e7124b", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 154.723, + 1901.476, + 1059.923, + 119.53999999999996 + ], + "priority": 10, + "parents": [ + 134555 + ], + "children": [], + "area": 294202.071148, + "iscrowd": 0, + "segmentation": [], + "text": "Illumina sequencing captures only partial transcript information proximal to\nthe poly(A) tail. A partial transcript may map to multiple isoforms, thereby,\nmaking isoform-specific poly(A)-tail length assignment difficult." + }, + { + "id": 134559, + "strid": "ff02fa3f-50b9-4ea3-a328-6b95afb08c31", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.135, + 2101.767, + 1101.662, + 81.91800000000012 + ], + "priority": 11, + "parents": [ + 134555 + ], + "children": [], + "area": 328159.390545, + "iscrowd": 0, + "segmentation": [], + "text": "Transcript isoform-specific poly(A) tail length assignment is possible with\nlong read sequencing" + }, + { + "id": 134570, + "strid": "cf404325-21f6-4085-8bc2-77b38716e876", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 155.339, + 2225.686, + 1113.697, + 178.01299999999992 + ], + "priority": 12, + "parents": [ + 134555 + ], + "children": [], + "area": 345735.837554, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134560, + "strid": "6da2f101-9428-4202-a682-a64e871decd4", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 158.185, + 2433.36, + 1029.868, + 82.20499999999993 + ], + "priority": 13, + "parents": [ + 134555 + ], + "children": [], + "area": 384921.0516, + "iscrowd": 0, + "segmentation": [], + "text": "Asingle long read can capture the poly(A) tail and its associated full length\ntranscript, which can then be mapped unambiguously to a single gene" + }, + { + "id": 134580, + "strid": "5fbf346b-7501-4efe-98ec-e5af65173e6c", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 158.507, + 2516.702, + 1100.929, + 38.23999999999978 + ], + "priority": 14, + "parents": [ + 134555 + ], + "children": [], + "area": 398914.88391400006, + "iscrowd": 0, + "segmentation": [], + "text": "isoform. This makes transcript isoform-specific tail-length assignment possible." + }, + { + "id": 134561, + "strid": "28dcd29a-1e25-40ff-ae64-369802c43d38", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 156.755, + 2629.239, + 1092.3469999999998, + 263.078 + ], + "priority": 15, + "parents": [ + 134555 + ], + "children": [], + "area": 412146.359445, + "iscrowd": 0, + "segmentation": [], + "text": "Nanopore sequencing can capture the raw signal for both the poly(A) tail\nand the associated full-length transcript\n\nNanopore sequencing detects characteristic changes in the voltage applied\nacross a pore suspended in a membrane as an RNA/DNA molecule translocates\nthrough it. Homopolymer regions in the read are sequenced the same way as\nnon-homopolymers regions, and the signal for the entire read can be captured." + }, + { + "id": 134571, + "strid": "1588b2c3-3e9d-4ffa-be71-5712db2fd744", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 153.884, + 2918.164, + 1117.269, + 459.52199999999993 + ], + "priority": 16, + "parents": [ + 134555 + ], + "children": [], + "area": 449058.748976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134562, + "strid": "f17ef7c2-0ec4-4751-879b-483da93740cf", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 153.896, + 3429.912, + 1059.462, + 155.8449999999998 + ], + "priority": 17, + "parents": [ + 134555 + ], + "children": [], + "area": 527849.737152, + "iscrowd": 0, + "segmentation": [], + "text": "Current basecallers cannot accurately basecall homopolymer regions\n\nAs there is no transition in signal from one base to another within the poly(A)\ntail, the basecallers cannot accurately basecall the poly(A) region." + }, + { + "id": 134572, + "strid": "59e1e847-e27d-4ccc-a452-426f2c9ed1b6", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 148.859, + 3617.887, + 1122.849, + 243.04399999999987 + ], + "priority": 18, + "parents": [ + 134555 + ], + "children": [], + "area": 538555.040933, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134573, + "strid": "3160169f-729d-4239-9045-cc8bd21962c1", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 153.411, + 3911.211, + 637.702, + 518.0530000000003 + ], + "priority": 19, + "parents": [ + 134555 + ], + "children": [ + 134563 + ], + "area": 600022.7907209999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134563, + "strid": "b6149aa0-29f7-408a-aa12-31d087d8c835", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 762.76, + 3997.166, + 508.2639999999999, + 321.1800000000003 + ], + "priority": 20, + "parents": [ + 134573 + ], + "children": [], + "area": 3048878.3381600003, + "iscrowd": 0, + "segmentation": [], + "text": "Guppy's flipflop basecaller\nunderestimates the poly(A)\ntail length especially on\nlonger poly(A) tails, thereby,\nnecessitating the use of\ntools such as tailfindr to\ncorrectly estimate poly(A)\ntail length." + }, + { + "id": 134542, + "strid": "4f9a4eea-1354-4d37-a878-15c3b6c3357e", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1540.304, + 753.904, + 168.33799999999997, + 47.456999999999994 + ], + "priority": 21, + "parents": [ + 134581 + ], + "children": [ + 134545, + 134554, + 134544, + 134550, + 134548, + 134546, + 134547, + 134553, + 134543, + 134551, + 134549, + 134552 + ], + "area": 1161241.346816, + "iscrowd": 0, + "segmentation": [], + "text": "Method" + }, + { + "id": 134543, + "strid": "a344ce97-bac4-405d-9d7c-b593132b071c", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1537.277, + 819.781, + 738.7179999999998, + 236.64599999999996 + ], + "priority": 22, + "parents": [ + 134542 + ], + "children": [], + "area": 1260230.476337, + "iscrowd": 0, + "segmentation": [], + "text": "Oxford Nanopore Direct RNA Sequencing intrinsically\ncontains the full poly(A) tail region of the sequenced\ntranscripts. The adapter containing the motor\nprotein (red) is ligated to the poly(A) tail (green) by\nsplint oligo ligation. The poly(A) tail precedes the\ntranscript (yellow) in sequencing direction (3’ to 5’)." + }, + { + "id": 134550, + "strid": "e298b49a-b5fc-41b9-9b54-9633317b93ac", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2310.98, + 861.664, + 821.9569999999999, + 180.20800000000008 + ], + "priority": 23, + "parents": [ + 134542 + ], + "children": [], + "area": 1991288.27072, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134544, + "strid": "3c5e04eb-6858-4137-8d2b-ea336f932dbb", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1553.854, + 1108.113, + 195.90599999999995, + 35.11500000000001 + ], + "priority": 24, + "parents": [ + 134542 + ], + "children": [], + "area": 1721845.8175020001, + "iscrowd": 0, + "segmentation": [], + "text": "The Algorithm" + }, + { + "id": 134545, + "strid": "65898ade-f462-4af8-a376-01d7e87a485f", + "image_id": 205719, + 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[ + 134566, + 134574 + ], + "area": 5615074.933539, + "iscrowd": 0, + "segmentation": [], + "text": "Challenges ahead" + }, + { + "id": 134566, + "strid": "1791e37e-29c7-4f97-8785-372ae174d36d", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1537.598, + 3730.75, + 698.7309999999998, + 278.7359999999999 + ], + "priority": 40, + "parents": [ + 134576 + ], + "children": [], + "area": 5736393.7385, + "iscrowd": 0, + "segmentation": [], + "text": "The spread in the poly(A)-tail measurements is\nvery large due to the spread in the translocation\nrate, which is stochastic in nature. This means that\ncurrently a large number of measurements\n(around 200-500) per transcript are required to get\na robust estimate of that transcripts’ poly(A) tail\nlength profile." + }, + { + "id": 134574, + "strid": "cf12d331-bc9b-4bbb-84f2-772ef8537cb2", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2309.121, + 3637.117, + 805.3289999999997, + 399.4430000000002 + ], + "priority": 41, + "parents": [ + 134576 + ], + "children": [], + "area": 8398543.244157001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 134577, + "strid": "97fad31a-0ea0-4562-a4c4-1dfb4c0afd92", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1541.849, + 4287.125, + 391.374, + 51.01900000000023 + ], + "priority": 42, + "parents": [ + 134581 + ], + "children": [ + 134567 + ], + "area": 6610099.394125, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgment" + }, + { + "id": 134567, + "strid": "ac1e4b45-0976-46d2-a729-16dbae593546", + "image_id": 205719, + "image_name": "15704.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1542.223, + 4367.259, + 1492.475, + 54.65400000000045 + ], + "priority": 43, + "parents": [ + 134577 + ], + "children": [], + "area": 6735287.276757, + "iscrowd": 0, + "segmentation": [], + "text": "Adnan Niazi has been supported by Oxford Nanopore Technologies with a travel grant." + }, + { + "id": 146801, + "strid": "2c92270e-8905-4dac-9642-2fe7a874c8d7", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 144.93, + 527.18, + 274.9, + 335.24 + ], + "priority": -1, + "parents": [], + "children": [ + 146782, + 146785, + 146786, + 146783, + 146784, + 146787, + 146781 + ], + "area": 76404.19739999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146781, + "strid": "6d191fbe-d5c5-4ccd-83ec-31e1aab7e8d0", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 113.541, + 424.654, + 2449.178, + 259.697 + ], + "priority": 1, + "parents": [ + 146801 + ], + "children": [], + "area": 48215.639813999995, + "iscrowd": 0, + "segmentation": [], + "text": "scAnnotatR: Framework to accurately classify cell\ntypes in single-cell RNA-sequencing data" + }, + { + "id": 146782, + "strid": "abdb5681-c8bd-485b-8fec-659a0c489211", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 111.43, + 705.465, + 1762.986, + 168.909 + ], + "priority": 2, + "parents": [ + 146801 + ], + "children": [], + "area": 78609.96495000001, + "iscrowd": 0, + "segmentation": [], + "text": "Nguyen, V., Griss, J.\n\nDepartment of Dermatology, Medical University of Vienna, Vienna, Austria" + }, + { + "id": 146783, + "strid": "295c68fc-01d0-4724-a1fe-4f931d0a000d", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 115.653, + 893.376, + 386.379, + 73.89800000000002 + ], + "priority": 3, + "parents": [ + 146801 + ], + "children": [ + 146788 + ], + "area": 103321.614528, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 146788, + "strid": "08d675a6-c10e-45f7-89ae-882e009236aa", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 117.072, + 977.522, + 1526.6419999999998, + 929.5460000000002 + ], + "priority": 4, + "parents": [ + 146783 + ], + "children": [], + "area": 114440.45558400001, + "iscrowd": 0, + "segmentation": [], + "text": "Single-cell RNA-sequencing has become a key tool for biomedical\nresearch. One of the main steps in analyzing single-cell RNA-\nsequencing data is to classify the observed cell types. While most\nexisting tools show good sensitivity and specificity in classifying cell\ntypes, they often fail to adequately not-classify cells that are not\npresent in the used reference and do not scale to the continuously\nincreasing size of current scRNA-seq datasets. Therefore, we\ndeveloped scAnnotatR to solve all mentioned issues. The package\nperforms comparable accuracy, sensitivity and specificity to other\navailable cell annotation methods while being able to reveal unknown\npopulations. scAnnotatR also works on large datasets (up to more\nthan 600,000 cells). In terms of functionality, scAnnotatR supports\nboth Seurat and Bioconductor’s SingleCellExperiment (SCE) objects,\nand provides user-friendly pipelines suitable for a wide range of\nusers. scAnnotatR’s prediction returns all detailed information that\ncan be used in further analyses.\n\nThe package is available at: https://github.com/grisslab/scAnnotatR" + }, + { + "id": 146784, + "strid": "be5d6afe-c3e6-4bbf-bfe5-218dcd2dfd9d", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 116.859, + 1930.657, + 476.564, + 76.91399999999999 + ], + "priority": 5, + "parents": [ + 146801 + ], + "children": [ + 146796 + ], + "area": 225614.64636299998, + "iscrowd": 0, + "segmentation": [], + "text": "Software design" + }, + { + "id": 146796, + "strid": "eecc7e73-3476-4c94-bf20-ff27aeaf59c3", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 128.344, + 2014.71, + 1311.229, + 1211.9809999999998 + ], + "priority": 6, + "parents": [ + 146784 + ], + "children": [ + 146791 + ], + "area": 258575.94024, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146791, + "strid": "9fd5b570-49e2-4394-b158-3e6dc0e0bef0", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 498.849, + 3031.182, + 1106.099, + 167.40099999999984 + ], + "priority": 7, + "parents": [ + 146796 + ], + "children": [], + "area": 1512102.109518, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1: Functional structure of scAnnotatR. The package\nsupports two basic pipelines: 1) classifying cells using pre-trained\nmodels, and 2) training new classification models to extend the\nexisting classifier database." + }, + { + "id": 146785, + "strid": "1877b7db-ea50-4ca6-a5e7-874d74b6c2c1", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 118.85, + 3257.12, + 369.33399999999995, + 73.09700000000021 + ], + "priority": 8, + "parents": [ + 146801 + ], + "children": [ + 146790 + ], + "area": 387108.71199999994, + "iscrowd": 0, + "segmentation": [], + "text": "Key features" + }, + { + "id": 146790, + "strid": "b2bebf64-afb5-4203-83c0-11edacdfe8e5", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 107.725, + 3353.468, + 1495.658, + 480.3000000000002 + ], + "priority": 9, + "parents": [ + 146785 + ], + "children": [], + "area": 361252.3403, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146786, + "strid": "97e76cca-dddb-4cc9-9793-6053ac61299c", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 120.132, + 3867.548, + 224.42199999999997, + 62.83800000000019 + ], + "priority": 10, + "parents": [ + 146801 + ], + "children": [ + 146800, + 146797, + 146798, + 146799 + ], + "area": 464616.276336, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 146797, + "strid": "877faa4e-88b3-4b4c-9036-89f7617e3baf", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 122.618, + 3959.604, + 839.798, + 469.5229999999997 + ], + "priority": 11, + "parents": [ + 146786 + ], + "children": [ + 146792 + ], + "area": 485518.723272, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146792, + "strid": "39d2570b-825f-4826-916a-4299ad5ff4e2", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 118.337, + 4456.499, + 1510.902, + 128.28399999999965 + ], + "priority": 12, + "parents": [ + 146797 + ], + "children": [], + "area": 527368.722163, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2: Example where scAnnotatR’s prediction was projected onto an UMAP plot using\nthe DimPlot function in Seurat package. scAnnotaR’s prediction is directly integrated into\nthe input (Seurat/SCE) object and can be reused in downstream analyses." + }, + { + "id": 146800, + "strid": "c15bc128-9afe-489d-a9c8-c06e3f9fb5da", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 1672.426, + 968.78, + 1519.27, + 952.4069999999999 + ], + "priority": 13, + "parents": [ + 146786 + ], + "children": [ + 146795 + ], + "area": 1620212.86028, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146795, + "strid": "76e3a9d1-1f1e-4bd9-85f7-25162de02859", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1672.0, + 1928.827, + 1509.3180000000002, + 164.7099999999998 + ], + "priority": 14, + "parents": [ + 146800 + ], + "children": [], + "area": 3224998.744, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: An illustration of detailed prediction output by scAnnotatR. scAnnotatR's\nprediction output consisting of each cell type prediction probability, the ambiguous\nprediction, the most probable predicted cell type, and the most dominant cell type in\nclusters (if cluster information was provided)." + }, + { + "id": 146799, + "strid": "21423f94-14b5-4d82-ae9f-382c837481c8", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1659.066, + 2131.136, + 1557.443, + 1005.239 + ], + "priority": 15, + "parents": [ + 146786 + ], + "children": [ + 146794 + ], + "area": 3535695.278976, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146794, + "strid": "a83102f4-8191-4fca-8142-131bc8168bef", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1700.508, + 3137.231, + 1487.146, + 324.6700000000001 + ], + "priority": 16, + "parents": [ + 146799 + ], + "children": [], + "area": 5334886.4133480005, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4: Benchmark results when classifying distinct cell populations in six pancreas\ndatasets. The benchmark was performed in a six-fold cross-validation scheme where one\ndataset was used for training and the other five for testing. All metrics were ordered by\nthe tools’ median accuracy. scAnnotatR was consistently among the tools with the highest\naccuracy (a), sensitivity (b), and specificity (c) throughout all datasets while being able to\ncorrectly not-classify unknown cell types (d). SingleR, scClassify, SciBet (default settings),\nand clustifyr, showed high accuracy and sensitivity, but they failed in not-classifying\nunknown cells." + }, + { + "id": 146798, + "strid": "24e51949-f68d-4ead-a827-bdbaea94507a", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1660.975, + 3464.123, + 1557.8250000000003, + 638.6290000000004 + ], + "priority": 17, + "parents": [ + 146786 + ], + "children": [ + 146793 + ], + "area": 5753821.699925, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 146793, + "strid": "9de79f1c-d6d9-4d8f-99bb-63d902f069db", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1705.259, + 4092.235, + 1483.978, + 205.88800000000037 + ], + "priority": 18, + "parents": [ + 146798 + ], + "children": [], + "area": 6978320.563865, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5: Runtime estimation in large datasets. (a) Prediction runtime of all tools measured\nover five large datasets. (b) Size of five large datasets in increasing order. SciBet and\nclustifyr were the fastest evaluated tools, followed by CHETAH, Garnett and scAnnotatR\nwho processed the largest dataset in hours. SingleR was significantly slower than the other\ntools and needed several days to process the three largest datasets." + }, + { + "id": 146787, + "strid": "614ba01e-5232-44d1-ace5-a9a9536767d3", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1702.626, + 4302.285, + 335.991, + 64.1210000000001 + ], + "priority": 19, + "parents": [ + 146801 + ], + "children": [ + 146789 + ], + "area": 7325182.30041, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion" + }, + { + "id": 146789, + "strid": "58c10ba7-6c36-4e4c-8c9f-f32e338d96a1", + "image_id": 206198, + "image_name": "18745.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1700.507, + 4382.719, + 1490.2760000000003, + 214.21100000000024 + ], + "priority": 20, + "parents": [ + 146787 + ], + "children": [], + "area": 7452844.338533, + "iscrowd": 0, + "segmentation": [], + "text": "scAnnotatR is also among the few tools to provide a dedicated\ninfrastructure to train new cell classifiers. We explicitly provide\nfunctions that greatly simplify the training and, most importantly,\nevaluation of new cell types. -" + }, + { + "id": 181332, + "strid": "5d05a85c-edf5-4b92-b205-51e97003dc94", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 40.21, + 591.48, + 81.5, + 236.34000000000003 + ], + "priority": -1, + "parents": [], + "children": [ + 181312, + 181322, + 181313, + 181316, + 181314, + 181323, + 181315, + 181311, + 181325, + 181324 + ], + "area": 23783.4108, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181311, + "strid": "c9038d58-5499-4b1e-aff6-1021351e1647", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 79.683, + 74.255, + 3384.826, + 461.193 + ], + "priority": 1, + "parents": [ + 181332 + ], + "children": [], + "area": 5916.861165, + "iscrowd": 0, + "segmentation": [], + "text": "ce of pneumocystis pneumonia in HIV-infected\n4 adults in sub-Saharan Africa:\nOA Ouriia taunt eeuelN ac" + }, + { + "id": 181312, + "strid": "d86af7ef-26a9-4bc3-9f5f-393b3affb4de", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 153.804, + 579.371, + 3255.801, + 233.34199999999998 + ], + "priority": 2, + "parents": [ + 181332 + ], + "children": [], + "area": 89109.577284, + "iscrowd": 0, + "segmentation": [], + "text": "Sean Wasserman'?, Mark Engel?, Rulan Griesel?, Marc Mendelson!\noe eet >) >) >)\n\nDivision of Infectious Diseases and HIV Medicine, 7Department of Medicine, University of Cape Town" + }, + { + "id": 181313, + "strid": "c40e098c-7bb7-4adc-aa11-36a4bb86294b", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 57.162, + 897.533, + 392.171, + 81.23500000000001 + ], + "priority": 3, + "parents": [ + 181332 + ], + "children": [ + 181318 + ], + "area": 51304.781346, + "iscrowd": 0, + 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"Results" + }, + { + "id": 181331, + "strid": "226e17a7-e72f-4ca6-94a0-a5870beb46b8", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 99.788, + 2387.014, + 1596.036, + 1379.3649999999998 + ], + "priority": 9, + "parents": [ + 181315 + ], + "children": [], + "area": 238195.353032, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181330, + "strid": "3f392b5b-a1c4-4ddd-9b90-0e02caad0c95", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 108.766, + 3848.526, + 1520.996, + 1104.5990000000002 + ], + "priority": 10, + "parents": [ + 181315 + ], + "children": [], + "area": 418588.778916, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181324, + "strid": "315cdc9c-efa2-4366-b918-f054cc1e0551", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2135.032, + 923.671, + 1008.4389999999999, + 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"segmentation": [], + "text": "Prevalence varies with clinical setting" + }, + { + "id": 181327, + "strid": "aaefaf64-6eb7-4879-bf1c-41fbffcac5fb", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1935.159, + 2415.977, + 1398.4900000000002, + 623.0059999999999 + ], + "priority": 14, + "parents": [ + 181325 + ], + "children": [], + "area": 4675299.635343, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 181322, + "strid": "98a4de00-6700-43da-9b84-83895657806f", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 2261.367, + 3162.988, + 747.9259999999999, + 62.1869999999999 + ], + "priority": 15, + "parents": [ + 181332 + ], + "children": [ + 181321 + ], + "area": 7152676.684596, + "iscrowd": 0, + "segmentation": [], + "text": "High mortality and case fatality" + }, + { + "id": 181321, + "strid": "3e6df87c-9ebc-4e62-9e04-7575d4cc475c", + "image_id": 207582, + 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"text": "Conclusions" + }, + { + "id": 181317, + "strid": "c55d29ce-eeba-4c6e-8081-cfcbabdfbf0b", + "image_id": 207582, + "image_name": "8463.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1796.955, + 4607.406, + 1692.9520000000002, + 339.4840000000004 + ], + "priority": 21, + "parents": [ + 181316 + ], + "children": [], + "area": 8279301.248729999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180484, + "strid": "81f7ebbb-6aee-4a80-acaa-d47f682e518e", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 623.49, + 65.86, + 188.51999999999998, + 249.33999999999997 + ], + "priority": -1, + "parents": [], + "children": [ + 180462, + 180465, + 180469, + 180467, + 180466, + 180468, + 180464, + 180463 + ], + "area": 41063.0514, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180462, + "strid": "db9e7eaf-28c7-4ca7-afb3-b5ad57f9f41f", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 888.081, + 143.54, + 3303.0789999999997, + 285.41200000000003 + ], + "priority": 1, + "parents": [ + 180484 + ], + "children": [], + "area": 127475.14674, + "iscrowd": 0, + "segmentation": [], + "text": "Stratification of Phaco-Trabectome Surgery Results Using A\nGlaucoma Severity Index" + }, + { + "id": 180463, + "strid": "69bb3fd3-90e4-4de1-a4f0-d9370d8e82a0", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 872.047, + 435.365, + 3328.734, + 189.20600000000002 + ], + "priority": 2, + "parents": [ + 180484 + ], + "children": [], + "area": 379658.74215500004, + "iscrowd": 0, + "segmentation": [], + "text": "Pritha Roy,’ Ralitsa T. Loewen,? Hardik A. Parikh,” Yalong Dang,’ Joel S. Schuman,\" Nils A. Loewen *\n1. Dept of Ophthalmology, University of Pittsburgh School of Medicine 2. Dept of Ophthalmology, Rutgers New Jersey Medical School" + }, + { + "id": 180464, + "strid": "f233a508-f96e-46ed-abcc-ae132a4ea5d2", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 190.881, + 726.396, + 224.92500000000004, + 71.88300000000004 + ], + "priority": 3, + "parents": [ + 180484 + ], + "children": [ + 180470 + ], + "area": 138655.194876, + "iscrowd": 0, + "segmentation": [], + "text": "Purpose" + }, + { + "id": 180470, + "strid": "769768f9-2ba1-4628-a1f3-3a7a99a38f3e", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 190.502, + 809.609, + 1477.184, + 321.32799999999986 + ], + "priority": 4, + "parents": [ + 180464 + ], + "children": [], + "area": 154232.13371800003, + "iscrowd": 0, + "segmentation": [], + "text": "To stratify the outcomes of phacoemulsification combined with trabectome\nsurgery (AIT-Phaco) using a glaucoma severity index (GI) based on\n\npreoperative IOP, number of preoperative medications (meds), and visual\n\nfield (VF) damage ." + }, + { + "id": 180465, + "strid": "681264c6-1db8-49c0-92de-8c58bae7e250", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 190.881, + 1183.204, + 577.386, + 67.2460000000001 + ], + "priority": 5, + "parents": [ + 180484 + ], + "children": [ + 180471 + ], + "area": 225851.162724, + "iscrowd": 0, + "segmentation": [], + "text": "Patients and Methods" + }, + { + "id": 180471, + "strid": "ad49be1f-08e4-4590-9e2e-180f2ba91baa", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 182.591, + 1275.846, + 1500.516, + 1097.5390000000002 + ], + "priority": 6, + "parents": [ + 180465 + ], + "children": [], + "area": 232957.996986, + "iscrowd": 0, + "segmentation": [], + "text": "Only subjects with phaco-trabectome were included while eyes with other\nconcurrent surgery or follow up less than 12 months were excluded. All eyes\nunderwent trabectome surgery first followed by phacoemulsification and\nlens implantation. A glaucoma index was created to capture the severity of\nglaucoma. VF was separated into: mild (1 point), moderate (2 points), and\nadvanced (3 points). Meds was divided into groups with values 1 to 4: $1, 2,\n3, or 24. Baseline IOP was divided into: <20 mmHg (1 point), 20-29 mmHg (2\npoints), >30 mmHg (3points). GI was then defined as VF*meds*IOP and\nseparated into: <3 (Group 1), 3-5 (Group 2), 6-11 (Group 3), 212 (Group 4).\nLinear regression was used to determine association between GI and IOP\nafter 1 year. Success was defined as IOPS21 mmHg or 20% IOP reduction\nfrom baseline in any two consecutive visits after 3 months and no secondary\n\nglaucoma surgery." + }, + { + "id": 180467, + "strid": "b0b4efc3-cb67-4e7c-80ac-0f9870a2d216", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 191.455, + 2445.108, + 817.919, + 69.51600000000008 + ], + "priority": 7, + "parents": [ + 180484 + ], + "children": [ + 180476, + 180472, + 180474, + 180473, + 180475 + ], + "area": 468128.1521400001, + "iscrowd": 0, + "segmentation": [], + "text": "Key Steps of Surgical Technique" + }, + { + "id": 180475, + "strid": "3dcfb7fb-6c01-456a-adf6-eaeb1649350c", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 223.552, + 2596.274, + 604.616, + 333.90999999999985 + ], + "priority": 8, + "parents": [ + 180467 + ], + "children": [], + "area": 580402.2452479999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180472, + "strid": "93db1701-fd49-48fd-965a-937df806e367", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 872.365, + 2562.524, + 545.106, + 146.24800000000005 + ], + "priority": 9, + "parents": [ + 180467 + ], + "children": [], + "area": 2235456.24926, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180473, + "strid": "5eb99fdf-b067-449c-a006-0940787a487b", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 870.852, + 2712.373, + 595.081, + 143.88799999999992 + ], + "priority": 10, + "parents": [ + 180467 + ], + "children": [], + "area": 2362075.451796, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180474, + "strid": "1919e854-a034-4a7e-b01f-cd682bd34cb1", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 869.531, + 2858.806, + 712.0999999999999, + 111.3420000000001 + ], + "priority": 11, + "parents": [ + 180467 + ], + "children": [], + "area": 2485820.439986, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180476, + "strid": "8fc79843-7e93-4c9d-aefb-3555b335f050", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 213.611, + 3003.164, + 1377.433, + 534.0720000000001 + ], + "priority": 12, + "parents": [ + 180467 + ], + "children": [], + "area": 641508.865204, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180466, + "strid": "7875c5ce-e242-474c-a854-173c99909e46", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1904.005, + 725.346, + 203.50599999999986, + 67.83500000000004 + ], + "priority": 13, + "parents": [ + 180484 + ], + "children": [ + 180478, + 180481, + 180480, + 180477, + 180482, + 180479 + ], + "area": 1381062.4107300001, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 180477, + "strid": "c27cfddd-bdce-4140-ba5b-4757e103758d", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1901.2, + 807.19, + 1426.7840000000003, + 567.874 + ], + "priority": 14, + "parents": [ + 180466 + ], + "children": [], + "area": 1534629.628, + "iscrowd": 0, + "segmentation": [], + "text": "498 cases were analyzed. Linear regression showed that IOP reduction\nwas associated with GI group after adjusting for age, diagnosis, and visual\nacuity (LogMar).\n\nMean IOP reduction after one year for GI groups 1 to 4 was 2.9+4.4, 3.6\n+5.0, 3.9+5.3, and 9.2+7.6 mmHg, respectively. A higher Gl was\nassociated with a higher preoperative IOP while postoperative IOPs were\n\nsimilar." + }, + { + "id": 180478, + "strid": "4874897e-109d-4011-8090-d3bfa4daad72", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1866.849, + 1392.643, + 1491.9110000000003, + 675.808 + ], + "priority": 15, + "parents": [ + 180466 + ], + "children": [], + "area": 2599854.191907, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180479, + "strid": "fd95a22f-1288-41e1-9888-cf6a65399959", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1904.715, + 2109.676, + 1402.992, + 509.21900000000005 + ], + "priority": 16, + "parents": [ + 180466 + ], + "children": [], + "area": 4018331.5223399997, + "iscrowd": 0, + "segmentation": [], + "text": "Patients in a higher GI group are expected to have a greater IOP\nreduction by 1.7+0.2 mmHg than those in a lower GI group. Therefore, a\n\nlarger absolute reduction of intraocular pressure (IOP) was seen.\n\nLog-rank test suggested statistically significant difference in survival\n\ndistributions between GI groups." + }, + { + "id": 180480, + "strid": "00336ff7-7ce5-4ae2-ae20-345ff2558aac", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1894.614, + 2700.552, + 1457.636, + 892.1169999999997 + ], + "priority": 17, + "parents": [ + 180466 + ], + "children": [], + "area": 5116503.626928001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180481, + "strid": "4d7f491f-97af-4bd6-8f68-bd40bd169a00", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3490.67, + 804.579, + 1269.5689999999995, + 118.601 + ], + "priority": 18, + "parents": [ + 180466 + ], + "children": [], + "area": 2808519.77793, + "iscrowd": 0, + "segmentation": [], + "text": "There was an overall decrease in the number of medications in all\ngroups." + }, + { + "id": 180482, + "strid": "cdf4060d-dabc-4313-a57f-3236d5fff366", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3474.523, + 950.051, + 1316.67, + 888.522 + ], + "priority": 19, + "parents": [ + 180466 + ], + "children": [], + "area": 3300974.0506730005, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 180468, + "strid": "e5baf74f-9b5d-4364-b6e6-f5b16928c33a", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3489.009, + 1926.687, + 280.1010000000001, + 63.659000000000106 + ], + "priority": 20, + "parents": [ + 180484 + ], + "children": [ + 180483 + ], + "area": 6722228.283183, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion" + }, + { + "id": 180483, + "strid": "fad88e10-f432-402e-95cd-99583d86c121", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3485.25, + 2015.404, + 1353.8500000000004, + 573.2310000000002 + ], + "priority": 21, + "parents": [ + 180468 + ], + "children": [], + "area": 7024186.791, + "iscrowd": 0, + "segmentation": [], + "text": "AIT-Phaco had a mixed indication of a visually significant cataract and\nthe need to lower IOP or an interest in lowering the number of\nglaucoma medications. A substantial pressure reduction was seen in\npatients with more advanced glaucoma which suggests that the\ntrabecular meshwork is the primary impediment to outflow and its\nablation benefits those eyes relatively more than in mild glaucoma.\n\nHigher GI groups are expected to have a greater reduction of IOP." + }, + { + "id": 180469, + "strid": "fdfe2935-cbd0-4ab5-a5d8-0dcbd0e73198", + "image_id": 207549, + "image_name": "8424.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3501.18, + 2666.585, + 215.9050000000002, + 67.94999999999982 + ], + "priority": 22, + "parents": [ + 180484 + ], + "children": [], + "area": 9336194.0703, + "iscrowd": 0, + "segmentation": [], + "text": "Funding" + }, + { + "id": 198002, + "strid": "7b6d4d62-bf62-45b2-a2c0-4832f5140d50", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 21.1, + 50.26, + 114.94, + 325.66 + ], + "priority": -1, + "parents": [], + "children": [ + 197976, + 197973, + 197979, + 197974, + 197978, + 197972, + 197971, + 197975, + 197977 + ], + "area": 1060.486, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197971, + "strid": "398c1408-b979-4600-848c-6e0f4b4c5878", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 141.935, + 78.338, + 2449.835, + 241.258 + ], + "priority": 1, + "parents": [ + 198002 + ], + "children": [], + "area": 11118.90403, + "iscrowd": 0, + "segmentation": [], + "text": "GeneliASE: Detection of condition-dependent and\nstatic allele-specific expression from RNA-seg data" + }, + { + "id": 197972, + "strid": "7a1ef767-64d6-4b7a-94ba-bfa1f830666a", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 182.736, + 317.822, + 2359.363, + 111.75900000000001 + ], + "priority": 2, + "parents": [ + 198002 + ], + "children": [], + "area": 58077.520992, + "iscrowd": 0, + "segmentation": [], + "text": "Daniel Edsgard\"t, Maria Jesus Iglesias*', Sarah-Jayne Reilly2t, Anders Hamsten?, Per Tornvall?, Jacob Odeberg'**, Olof Emanuelsson‘*\nKTH Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Stockholm, Sweden; 2Karolinska Institute, Department of Medicine, Centre for Molecular Medicine, Stockholm, Sweden\ntEqual contribution. +Co-corresponding authors: jacob1@kth.se, olofem@kth.se. Presenting author: daniel.edsgard@ki.se" + }, + { + "id": 197973, + "strid": "bd5b4a48-0b89-45c4-b7d8-fac087e6fd86", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 101.641, + 477.297, + 360.222, + 53.39999999999998 + ], + "priority": 3, + "parents": [ + 198002 + ], + "children": [ + 197982, + 197980, + 197995 + ], + "area": 48512.94437700001, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 197980, + "strid": "ca05e371-3b4b-49b5-ae83-244ea36ebdad", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 98.145, + 558.675, + 1247.806, + 134.16100000000006 + ], + "priority": 4, + "parents": [ + 197973 + ], + "children": [], + "area": 54831.15787499999, + "iscrowd": 0, + "segmentation": [], + "text": "Many organisms, including most mammals, have diploid genomes. One\ninteresting aspect is the difference in expression between the maternal and\npaternal haplotype, so called allele-specific expression (ASE)." + }, + { + "id": 197982, + "strid": "93745fdd-9bcb-4a42-b3a4-fee8ca1f9a2a", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 102.767, + 731.48, + 1246.819, + 285.6700000000001 + ], + "priority": 5, + "parents": [ + 197973 + ], + "children": [], + "area": 75172.00516, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197995, + "strid": "4b6a0ede-df5f-45d6-83af-a2bedd91b6f0", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 101.236, + 1092.476, + 1212.589, + 297.0819999999999 + ], + "priority": 6, + "parents": [ + 197973 + ], + "children": [ + 197989 + ], + "area": 110597.90033600002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197989, + "strid": "4a42ce70-a62b-45b0-8853-3a38246928d8", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 129.144, + 1415.769, + 1241.134, + 122.54299999999989 + ], + "priority": 7, + "parents": [ + 197995 + ], + "children": [], + "area": 182838.071736, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 1. (A) Allele-specific gene (B) Condition-dependent ASE, here\nexpression occuring due to a cis- caused by a transcription factor present\nregulatory heterozygous variant. in condition 2 which alters the ASE." + }, + { + "id": 197979, + "strid": "1ba08984-96da-4609-9170-891d2ff5369b", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 99.235, + 1625.419, + 505.01199999999994, + 54.537000000000035 + ], + "priority": 8, + "parents": [ + 198002 + ], + "children": [ + 197983, + 197996 + ], + "area": 161298.45446500002, + "iscrowd": 0, + "segmentation": [], + "text": "Method overview" + }, + { + "id": 197996, + "strid": "6ae4965d-46b7-4732-8be5-7059e51f0d7d", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 102.767, + 1718.339, + 1268.634, + 441.4899999999998 + ], + "priority": 9, + "parents": [ + 197979 + ], + "children": [ + 197990 + ], + "area": 176588.54401299998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197990, + "strid": "cdf67748-aad4-418e-8895-001aca75ef4f", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 97.573, + 2200.083, + 509.01200000000006, + 46.746000000000095 + ], + "priority": 10, + "parents": [ + 197996 + ], + "children": [], + "area": 214668.69855899998, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 2. GeneiASE overview." + }, + { + "id": 197983, + "strid": "ba35e000-e04d-4bfe-8b64-fb6c39282b85", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 96.275, + 2253.321, + 1269.933, + 416.8180000000002 + ], + "priority": 11, + "parents": [ + 197979 + ], + "children": [], + "area": 216938.479275, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197978, + "strid": "bbc3c398-d49b-4889-abdf-024d3f946bfe", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 105.78, + 2736.882, + 917.312, + 56.71799999999985 + ], + "priority": 12, + "parents": [ + 198002 + ], + "children": [ + 197981, + 197997 + ], + "area": 289507.37796, + "iscrowd": 0, + "segmentation": [], + "text": "Performance on simulated data" + }, + { + "id": 197997, + "strid": "38b22631-7105-46f5-a1d9-53058a32d5da", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 96.275, + 2819.467, + 681.712, + 967.3820000000001 + ], + "priority": 13, + "parents": [ + 197978 + ], + "children": [ + 197991 + ], + "area": 271444.18542500003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197991, + "strid": "dd0d5118-b716-4477-9af1-e7967d50501d", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 776.689, + 2818.168, + 571.34, + 49.34299999999985 + ], + "priority": 14, + "parents": [ + 197997 + ], + "children": [], + "area": 2188840.085752, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3. GeneiASE performance." + }, + { + "id": 197981, + "strid": "b35f1f82-e4ae-48e0-ba7d-ee1e41d2fccb", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 779.857, + 2871.043, + 618.4490000000001, + 830.0529999999999 + ], + "priority": 15, + "parents": [ + 197978 + ], + "children": [], + "area": 2239002.980851, + "iscrowd": 0, + "segmentation": [], + "text": "Left column (A—D) relate to static ASE\nand right column (E-H) to icd-ASE.\n(A, E) The p-value distributions of\nGeneiASE are uniform under the null\nhypothesis of no static ASE and no\nicd-ASE, respectively, implying that\nobserved FDRs reflect expected FDRs.\nColors indicate simulation replicates.\n(B, F) ROC curves show that\nGeneiASE outperforms MBASED for\nstatic ASE and that they are on par for\nicd-ASE. Color indicates effect size.\n(C, G) Performance of GeneiASE and\nMBASED in terms of Matthew’s cor-\nrelation coefficient (MCC) at common\nsignificance level cutoffs (a).\n\n(D, H) Performance of GeneiASE and\nMBASED at common significance\nlevels, sampling all effect sizes." + }, + { + "id": 197974, + "strid": "32cc9aa1-12c9-46b4-87ff-a10e45bc7ec8", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1474.648, + 479.107, + 700.5319999999999, + 64.26100000000002 + ], + "priority": 16, + "parents": [ + 198002 + ], + "children": [ + 197988, + 198001 + ], + "area": 706514.179336, + "iscrowd": 0, + "segmentation": [], + "text": "Application on real data" + }, + { + "id": 198001, + "strid": "3998c8a1-8768-46a3-ba54-7facaee60fac", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1476.58, + 547.093, + 666.1300000000001, + 521.997 + ], + "priority": 17, + "parents": [ + 197974 + ], + "children": [ + 197994 + ], + "area": 807826.58194, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197994, + "strid": "611c536d-a60d-45da-a390-9703672f3881", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2176.471, + 541.899, + 392.14699999999993, + 49.34299999999996 + ], + "priority": 18, + "parents": [ + 198001 + ], + "children": [], + "area": 1179427.458429, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. Study design." + }, + { + "id": 197988, + "strid": "4fe12d5c-23b0-4201-b1b3-f047a5c1017f", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 2176.471, + 593.838, + 507.7130000000002, + 433.69900000000007 + ], + "priority": 19, + "parents": [ + 197974 + ], + "children": [], + "area": 1292471.185698, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197975, + "strid": "d6aa502a-c48b-4785-83c2-21d48a3c7666", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1482.512, + 1124.551, + 662.952, + 62.172000000000025 + ], + "priority": 20, + "parents": [ + 198002 + ], + "children": [ + 197987, + 198000 + ], + "area": 1667160.3521119999, + "iscrowd": 0, + "segmentation": [], + "text": "Validation by qRT-PCR" + }, + { + "id": 198000, + "strid": "005a735e-3bc8-46bf-879a-a82e43c29e91", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1490.863, + 1208.029, + 1149.1719999999998, + 446.68399999999997 + ], + "priority": 21, + "parents": [ + 197975 + ], + "children": [ + 197993 + ], + "area": 1801005.739027, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197993, + "strid": "878948df-1419-4d49-952d-2e133a8596a0", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1486.968, + 1665.101, + 1156.963, + 94.78999999999996 + ], + "priority": 22, + "parents": [ + 198000 + ], + "children": [], + "area": 2475951.903768, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 5. Correlation of ASE effect sizes from RNA-seq and real-time\nquantitative RT-PCR." + }, + { + "id": 197987, + "strid": "5d4410dc-650a-407b-bf11-7c583e522f1b", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1486.968, + 1761.19, + 1182.9329999999998, + 307.74400000000014 + ], + "priority": 23, + "parents": [ + 197975 + ], + "children": [], + "area": 2618833.17192, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197976, + "strid": "0edbea41-beb1-4c79-bd31-d294de964738", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1480.112, + 2129.34, + 1150.73, + 128.70699999999988 + ], + "priority": 24, + "parents": [ + 198002 + ], + "children": [ + 197999, + 197985, + 197986, + 197998 + ], + "area": 3151661.6860800004, + "iscrowd": 0, + "segmentation": [], + "text": "Haplotype information is not necessary\nfor ASE detection" + }, + { + "id": 197998, + "strid": "13f8fa1f-b2a4-4cef-9cef-de8620de3bad", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1479.177, + 2290.978, + 177.894, + 193.4760000000001 + ], + "priority": 25, + "parents": [ + 197976 + ], + "children": [ + 197992 + ], + "area": 3388761.9651059997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197992, + "strid": "a50d698e-e595-4d38-af38-9b58f4161ff9", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1662.265, + 2285.784, + 990.7549999999999, + 50.641999999999825 + ], + "priority": 26, + "parents": [ + 197998 + ], + "children": [], + "area": 3799578.7407600004, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 6. Impact of including haplotype phase information." + }, + { + "id": 197986, + "strid": "5eb98742-a1e6-4de6-841d-7747ba20d3d3", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1662.265, + 2336.425, + 929.7259999999999, + 132.44700000000012 + ], + "priority": 27, + "parents": [ + 197976 + ], + "children": [], + "area": 3883757.5026250007, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197999, + "strid": "d821464d-c561-4b21-a05a-1a01ba0f8ed9", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1477.879, + 2484.454, + 375.2660000000001, + 179.1930000000002 + ], + "priority": 28, + "parents": [ + 197976 + ], + "children": [], + "area": 3671722.393066, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197985, + "strid": "1b6e4698-3175-4130-b778-c2e841132dcf", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1855.742, + 2506.528, + 814.1589999999999, + 177.89399999999978 + ], + "priority": 29, + "parents": [ + 197976 + ], + "children": [], + "area": 4651469.283775999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 197977, + "strid": "88079d4f-2b59-4267-91c7-9de62db23261", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1476.84, + 2736.882, + 287.9549999999999, + 66.53499999999985 + ], + "priority": 30, + "parents": [ + 198002 + ], + "children": [ + 197984 + ], + "area": 4041936.81288, + "iscrowd": 0, + "segmentation": [], + "text": "Summary" + }, + { + "id": 197984, + "strid": "5fe029e6-0954-4f2c-b9b8-eb6d89ce722e", + "image_id": 208257, + "image_name": "9783.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1483.072, + 2814.273, + 1169.948, + 801.174 + ], + "priority": 31, + "parents": [ + 197977 + ], + "children": [], + "area": 4173769.486656, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55518, + "strid": "7ef3ad56-29ec-4b67-b222-b57b92bc02a5", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 674.21, + 215.29, + 204.08999999999992, + 143.42 + ], + "priority": -1, + "parents": [], + "children": [ + 55509, + 55511, + 55515, + 55506, + 55508, + 55507, + 55510, + 55516, + 55517 + ], + "area": 145150.6709, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55506, + "strid": "de546190-9e32-4f39-9d9c-7a2ff1cf0449", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 902.887, + 80.255, + 3704.2700000000004, + 87.875 + ], + "priority": 1, + "parents": [ + 55518 + ], + "children": [], + "area": 72461.196185, + "iscrowd": 0, + "segmentation": [], + "text": "Emergency Awake Craniotomy for Cerebral Abscess in a Patient With Unrepaired Cyanotic Congenital Heart Disease" + }, + { + "id": 55507, + "strid": "bb6faab1-2ece-4ad7-a6f8-3973e655c9ce", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1183.411, + 222.207, + 3146.6010000000006, + 118.293 + ], + "priority": 2, + "parents": [ + 55518 + ], + "children": [], + "area": 262962.208077, + "iscrowd": 0, + "segmentation": [], + "text": "Nicolai Goettel, M.D.', Corinne D'Antico, M.D.', André Hofer, M.D.', Daniel Tobler, M.D.2, Daniel Zumofen, M.D.°, Luzius A. Steiner, M.D., Ph.D.!\n\n'Department of Anesthesia, Surgical Intensive Care, Prehospital Emergency Medicine and Pain Therapy, Department of Cardiology, and “Department of Neurosurgery, University Hospital Basel, Basel, Switzerland" + }, + { + "id": 55508, + "strid": "3e932db1-2a6d-4415-87a4-34a0f9724da7", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 63.135, + 443.732, + 1742.803, + 1184.236 + ], + "priority": 3, + "parents": [ + 55518 + ], + "children": [], + "area": 28015.01982, + "iscrowd": 0, + "segmentation": [], + "text": "Background: Congenital heart disease (CHD) affects about 0.6% of newborns.\nAdvances in surgical and medical treatment have shifted mortality largely to adulthood.\nCHD patients are at high risk for long-term cardiac and noncardiac complications, and\nthe perioperative management of these patients may be challenging. This case report\ndescribes the multidisciplinary management of a nighttime emergency awake\ncraniotomy (AC) for stereotactic evacuation of an intracerebral abscess in an adult with\nunrepaired tricuspid atresia (TA) with palliative shunts.\n\nCase description: A 39-year-old man (weight 75 kg; height 180 cm; BMI 23 kg/m?)\npresented to the emergency department at 7 p.m. with right frontal headache, fever, and\nparesthesia of the left side of the body. The patient’s medical history revealed cyanotic\nCHD — a complex form of unrepaired TA (Fig. 1). Baseline peripheral oxygen saturation\n(SpO,) on room air was 80%. He was in sinus rhythm, and left ventricular function was\nmildly decreased with an ejection fraction of 46%.\n\nEmergency contrast-enhanced computed tomography of the brain and Gadolinium-\nenhanced magnetic resonance imaging led to the diagnosis of an acute intracerebral\nabscess (Fig. 2). Emergency surgical evacuation of the abscess by computer-assisted\nstereotactic craniotomy was indicated. After interdisciplinary consensus involving the\nanesthetic and neurosurgical team, as well as the treating cardiologist, we decided to\nperform the procedure as an AC." + }, + { + "id": 55515, + "strid": "e0cdb463-93ef-4892-8ddf-a6bbaea564d7", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 129.052, + 1737.161, + 1074.389, + 971.7080000000001 + ], + "priority": 4, + "parents": [ + 55518 + ], + "children": [ + 55512 + ], + "area": 224184.101372, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55512, + "strid": "2e15f960-7294-4c98-ad6f-d2a9c1a62174", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1270.871, + 2025.22, + 474.99800000000005, + 406.71699999999987 + ], + "priority": 5, + "parents": [ + 55515 + ], + "children": [], + "area": 2573793.3666200005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1 Schematic illustration of\nthe patient's cardiovascular\nanatomy showing (A) tricuspid\natresia, (B) transposition of the\ngreat arteries, (C) atrial septum\ndefect, (D) ventricular septum\ndefect, (E) _ single-ventricle\nphysiology, (F) major aorto-\npulmonary collateral arteries,\nand (G) Blalock-Taussig shunt." + }, + { + "id": 55516, + "strid": "a48040bd-9196-4cef-b882-3981991e70be", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1968.376, + 481.252, + 870.3410000000001, + 1009.521 + ], + "priority": 6, + "parents": [ + 55518 + ], + "children": [ + 55513 + ], + "area": 947284.886752, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55513, + "strid": "f2fbd554-e8ec-4aa7-87d0-d606d1900d0f", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2909.408, + 745.475, + 645.415, + 482.83000000000004 + ], + "priority": 7, + "parents": [ + 55516 + ], + "children": [], + "area": 2168890.9288, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2 (A) Contrast-enhanced computed\ntomography (CT) scan and (B) gadolinium-\nenhanced magnetic resonance imaging\n(MRI) revealed a 2.7 x 2.9 x 3.2 cm ring-\nenhancing lesion within the right superior\ntemporal gyrus with significant surrounding\nedema and a small area of central\nhemorrhage. (C) Diffusion-weighted\nimaging (DWI) and (D) apparent diffusion\ncoefficient (ADC) MRI showed a diffusion-\nrestricted core, supporting the differential\ndiagnosis of acute cerebral abscess." + }, + { + "id": 55509, + "strid": "b075ece8-1201-4a1f-9c18-bce516ca8be9", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1878.943, + 1576.514, + 1753.082, + 1216.4240000000002 + ], + "priority": 8, + "parents": [ + 55518 + ], + "children": [], + "area": 2962179.944702, + "iscrowd": 0, + "segmentation": [], + "text": "Intraoperative management: Upon arrival in the operating room, the patient was\ncomfortably installed in the supine position with routine anesthesia monitoring. An\narterial line was inserted in the left radial artery. The peripheral intravenous line was\nequipped with an air-eliminating filter to prevent paradoxical embolism. Supplemental\noxygen at 4 l/min was administered via nasal cannula to the spontaneously breathing\npatient. Expiratory carbon dioxide and respiratory rate were measured. Fentanyl 50 yg\nand midazolam 1 mg IV were administered during preparation for surgery. Prior to fixing\nthe head in the Mayfield frame, conscious sedation was initiated using a target-\ncontrolled infusion (TCI) of propofol and remifentanil with target effect-site\nconcentrations (Cet) of 0.5 g/ml and 1.0 ng/ml, respectively. After increasing the Cet of\npropofol to 1.0 ug/ml due to patient discomfort during head pinning, the patient lost\nconsciousness for a short period of time. Bradypnea and oxygen desaturation to a Sp0,\nof 80% occurred, and assisted mask-bag ventilation was required temporarily. The\nneurosurgeon then applied local anesthesia to the incision site using 20 ml of a 1:1\nmixture of 0.5% bupivacaine and 1% lidocaine with 1:100,000 epinephrine. For\nremainder of the procedure, Cet of propofol (0.5 wg/ml) and remifentanil (0.5—1.5 ng/ml)\nwere adjusted to the patient's clinical level of sedation and pain and bispectral index\n(BIS) monitoring. The patient was hemodynamically stable throughout the intervention.\nRespiratory rate stayed at 12-15 breath/min, and SpO, ranged between 80 and 88%.\nRelevant intraoperative events are shown in Fig. 3." + }, + { + "id": 55510, + "strid": "0f56c16d-4875-4206-81b5-a9e37e6df169", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3703.252, + 436.876, + 1756.5530000000003, + 971.8390000000002 + ], + "priority": 9, + "parents": [ + 55518 + ], + "children": [], + "area": 1617861.9207519998, + "iscrowd": 0, + "segmentation": [], + "text": "Discussion: Patients with CHD, especially those with complex defects, have increased\nperioperative morbidity. The main objective in the management of this patient\nundergoing emergency craniotomy was to maintain pulmonary blood flow through the\naorto-pulmonary anastomosis (Blalock-Taussig shunt) in order to provide optimal oxygen\ndelivery, maintain systemic and pulmonary vascular resistance, and myocardial\ncontractility. We decided that these goals may best be achieved using a conscious\nsedation technique for AC.\n\nAC has evolved into a standard of care for neurosurgical procedures that require awake\nfunctional mapping of the motor, sensory, visual, or language cortex when tumors are\nlocated in close proximity to eloquent areas of the brain, as well as for functional\nneurosurgery and epilepsy surgery. However, the practice of AC has spread to include\nroutine procedures that do not involve awake functional cortical mapping or\nelectrophysiological recording. Cautious patient selection focusing on airway\nassessment, ability to cooperate, risk of sedation failure and intraoperative surgical\ncomplications, as well as adequate preoperative psychological preparation of the patient\nare key elements for successful AC." + }, + { + "id": 55517, + "strid": "15797a36-03f3-4f69-8a0e-25174f0f56dc", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3909.62, + 1487.013, + 1351.3940000000002, + 943.393 + ], + "priority": 10, + "parents": [ + 55518 + ], + "children": [ + 55514 + ], + "area": 5813655.765059999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 55514, + "strid": "50888aad-c34c-415e-8e4a-fde1a1051081", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 4281.736, + 2448.535, + 583.1449999999995, + 40.139000000000124 + ], + "priority": 11, + "parents": [ + 55517 + ], + "children": [], + "area": 10483980.456759999, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3 Intraoperative anesthesia record." + }, + { + "id": 55511, + "strid": "4215028a-5c75-428a-8e64-ab53675881ce", + "image_id": 202681, + "image_name": "11909.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3704.537, + 2563.623, + 1753.132, + 247.163 + ], + "priority": 12, + "parents": [ + 55518 + ], + "children": [], + "area": 9497036.257551, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions: The evidence from the literature regarding the use of AC in cardiac\npatients is scarce. In our patient, we favored AC primarily because of the underlying\ncomplex cyanotic CHD, and in order to preserve as much functional cardiovascular\ncapacity as possible." + }, + { + "id": 111438, + "strid": "5601a2b2-9c70-49dc-ab5c-b30a08e7f681", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 444.46, + 304.13, + 376.74000000000007, + 280.96000000000004 + ], + "priority": -1, + "parents": [], + "children": [ + 111414, + 111410, + 111411, + 111412, + 111429, + 111417, + 111416, + 111415, + 111409, + 111413 + ], + "area": 135173.6198, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111409, + "strid": "8119f500-32a9-4f25-af47-cd83c447c990", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 1061.156, + 147.124, + 3350.8, + 304.61799999999994 + ], + "priority": 1, + "parents": [ + 111438 + ], + "children": [], + "area": 156121.51534399998, + "iscrowd": 0, + "segmentation": [], + "text": "Predicting the impacts of anthropogenic disturbances\non marine populations" + }, + { + "id": 111410, + "strid": "70001d27-0516-4d87-8d7b-769311a5da18", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 1566.693, + 474.427, + 2346.2079999999996, + 184.71500000000003 + ], + "priority": 2, + "parents": [ + 111438 + ], + "children": [], + "area": 743281.459911, + "iscrowd": 0, + "segmentation": [], + "text": "Jacob Nabe-Nielsen', Floris M van Beest', Volker Grimm2, Richard M Sibly3,\nJonas Teilmann’, and Paul M Thompson‘" + }, + { + "id": 111429, + "strid": "12f06b00-7b1c-4714-8eb9-63f340feb094", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 151.741, + 848.523, + 1623.009, + 497.69999999999993 + ], + "priority": 3, + "parents": [ + 111438 + ], + "children": [], + "area": 128755.72854300002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111411, + "strid": "51af2ed3-c8a3-4280-87a6-df2916c9591c", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 147.113, + 1455.844, + 384.118, + 74.731 + ], + "priority": 4, + "parents": [ + 111438 + ], + "children": [ + 111419, + 111418 + ], + "area": 214173.57837200002, + "iscrowd": 0, + "segmentation": [], + "text": "The Challenge" + }, + { + "id": 111418, + "strid": "a4f55bdf-da19-4e80-817a-ad9a03fa89ca", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 147.742, + 1549.76, + 775.996, + 554.1000000000001 + ], + "priority": 5, + "parents": [ + 111411 + ], + "children": [], + "area": 228964.64192, + "iscrowd": 0, + "segmentation": [], + "text": "Marine populations are increasingly\ninfluenced by anthropogenic\ndisturbances that cause animals to\nchange behaviour and move away\nfrom potential foraging grounds, but\nalso by disturbances with more direct\nhealth effects. When predicting how\npopulations are influenced by these" + }, + { + "id": 111419, + "strid": "85b786ff-a791-451e-85f8-62f14f6d7f2f", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1000.697, + 1452.28, + 760.6050000000001, + 551.5350000000001 + ], + "priority": 6, + "parents": [ + 111411 + ], + "children": [], + "area": 1453292.2391599999, + "iscrowd": 0, + "segmentation": [], + "text": "disturbances it is important to use\nmodels that maintain their predictive\npower in novel environments. This\nrequires process-based models that\nbuild directly on the mechanisms\nthat determine system behaviour,\nsuch as spatially explicit individual-\nbased/agent-based models." + }, + { + "id": 111412, + "strid": "046bf1e8-8269-414b-8527-253280337881", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 152.632, + 2201.786, + 616.0159999999998, + 63.041999999999916 + ], + "priority": 7, + "parents": [ + 111438 + ], + "children": [ + 111431, + 111420, + 111421, + 111432, + 111430 + ], + "area": 336063.000752, + "iscrowd": 0, + "segmentation": [], + "text": "Individual-Based Model" + }, + { + "id": 111420, + "strid": "febb5e7a-276d-429a-aad8-55627d4f1756", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 142.545, + 2296.677, + 770.4, + 761.7440000000001 + ], + "priority": 8, + "parents": [ + 111412 + ], + "children": [], + "area": 327379.822965, + "iscrowd": 0, + "segmentation": [], + "text": "We developed a model, termed\nDEPONS, to simulate how\nmovements of individual animals\nwere influenced by disturbances,\nand how this influenced their fitness\nand population dynamics.\nMovements (V) were simulated as a\ncombination of correlated random\nwalk (Ws), spatial memory behaviour\n(Vp) that enabled animals to return to\nknown foraging grounds, and bias" + }, + { + "id": 111430, + "strid": "421ac969-c21b-4aa8-b9ef-cdbb017b4e03", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1002.539, + 2199.118, + 770.2569999999998, + 216.90200000000004 + ], + "priority": 9, + "parents": [ + 111412 + ], + "children": [], + "area": 2204701.560602, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111421, + "strid": "b38379fc-e194-4ad8-8965-63e87c5ff9af", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 999.508, + 2439.504, + 768.2360000000001, + 608.0969999999998 + ], + "priority": 10, + "parents": [ + 111412 + ], + "children": [], + "area": 2438303.764032, + "iscrowd": 0, + "segmentation": [], + "text": "away from a sound source (Vp). The\nlength of vector Vp was determined\nby the received sound level, a\nresponse threshold T, below which\nanimals did not react to sound, and\ncoefficient c. Population carrying\ncapacity emerged from competition\nfor dynamically replenishing, patchily\ndistributed food items." + }, + { + "id": 111431, + "strid": "99d8a2bf-2f10-45ac-94d6-7f718d4f2943", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 260.522, + 3161.506, + 629.3230000000001, + 580.9140000000002 + ], + "priority": 11, + "parents": [ + 111412 + ], + "children": [], + "area": 823641.8661319999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111432, + "strid": "dc5ef07f-ca3c-4eac-94f8-0b4412affce1", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1093.166, + 3173.609, + 576.0730000000001, + 561.5499999999997 + ], + "priority": 12, + "parents": [ + 111412 + ], + "children": [], + "area": 3469281.4560939996, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111413, + "strid": "2e843c57-18e0-43f0-a10a-85190e4464be", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1944.626, + 859.101, + 757.2639999999999, + 62.33000000000004 + ], + "priority": 13, + "parents": [ + 111438 + ], + "children": [ + 111435, + 111423, + 111422 + ], + "area": 1670630.141226, + "iscrowd": 0, + "segmentation": [], + "text": "Harbour Porpoise Case Study" + }, + { + "id": 111422, + "strid": "1b3abc18-f10a-4d0a-9864-46b300583042", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1938.433, + 948.253, + 776.9319999999998, + 901.3919999999999 + ], + "priority": 14, + "parents": [ + 111413 + ], + "children": [], + "area": 1838124.907549, + "iscrowd": 0, + "segmentation": [], + "text": "To test the model we assessed the\npopulation impacts of wind-farm\nconstruction noise on harbour\nporpoises (Phocoena phocoena) in\nthe North Sea. We calibrated the\nmodel to produce fine-scale\nmovements and home range sizes\nthat closely resembled those of\nundisturbed, free-ranging animals. To\nsimulate impacts of construction\nnoise we subsequently calibrated T\nand cin a virtual landscape\nrepresenting the Gemini offshore" + }, + { + "id": 111423, + "strid": "a62daf55-95c0-450c-b455-d969296a68a9", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2788.192, + 851.81, + 772.2629999999999, + 931.654 + ], + "priority": 15, + "parents": [ + 111413 + ], + "children": [], + "area": 2375009.82752, + "iscrowd": 0, + "segmentation": [], + "text": "wind-farm construction site in the\nNetherlands. This ensured that local\npopulation densities recovered at\nthe same rate after construction in\nthe model as observed in the field\nusing acoustic recorders (C-PODs).\nThese record the echo-location clicks\nthat porpoises emit while foraging.\n\nParameters related to time of birth,\ngestation and cost of lactation were\nobtained from literature. Observed\nporpoise densities were used as a\nproxy of food availability." + }, + { + "id": 111435, + "strid": "b8e20a0d-0226-4993-b4c0-a3a18fa8d93e", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1945.152, + 1895.688, + 1624.4160000000002, + 517.7049999999999 + ], + "priority": 16, + "parents": [ + 111413 + ], + "children": [], + "area": 3687401.304576, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111414, + "strid": "4a49ffaa-956e-4b25-9ce6-c7fc08f93c48", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1944.345, + 2495.451, + 594.3170000000002, + 63.96799999999985 + ], + "priority": 17, + "parents": [ + 111438 + ], + "children": [ + 111424, + 111425, + 111433, + 111434 + ], + "area": 4852017.674595, + "iscrowd": 0, + "segmentation": [], + "text": "Impacts of Wind-Farms" + }, + { + "id": 111424, + "strid": "cd03c701-784e-4aca-a3ba-d892e93716fe", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1939.691, + 2581.656, + 766.1859999999999, + 482.11299999999983 + ], + "priority": 18, + "parents": [ + 111414 + ], + "children": [], + "area": 5007614.908296, + "iscrowd": 0, + "segmentation": [], + "text": "Local population densities recovered\n2-6 after construction of individual\nturbine foundations in Gemini and\nthere was no decrease in population\ndensity beyond 9 km from the\nconstruction sites. These patterns\nwere reproduced by the model." + }, + { + "id": 111425, + "strid": "6a2ec5f7-463c-453a-b49d-0f81264d86e6", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2788.663, + 2489.13, + 756.4459999999999, + 608.7280000000001 + ], + "priority": 19, + "parents": [ + 111414 + ], + "children": [], + "area": 6941344.73319, + "iscrowd": 0, + "segmentation": [], + "text": "To investigate impacts on the\npopulation level we simulated the\nconstruction of 65 wind farms (3,900\nturbines) in the North Sea,\ncorresponding to the EU 2020\nrenewable energy target. This did\nnot cause a decrease in the\npopulation relative to the\nundisturbed baseline scenario." + }, + { + "id": 111433, + "strid": "fa410fb1-b1e8-41e8-ae10-005a350e8cad", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2058.425, + 3178.762, + 553.855, + 551.029 + ], + "priority": 20, + "parents": [ + 111414 + ], + "children": [], + "area": 6543243.169850001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111434, + "strid": "2db28f08-b081-41f6-a77b-607ba343caf1", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2761.021, + 3160.11, + 701.3269999999998, + 600.0660000000003 + ], + "priority": 21, + "parents": [ + 111414 + ], + "children": [], + "area": 8725130.07231, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111415, + "strid": "eb3f06fc-e2db-42ef-a9da-a18d170895e7", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3735.385, + 855.306, + 606.1440000000002, + 62.14700000000005 + ], + "priority": 22, + "parents": [ + 111438 + ], + "children": [ + 111426, + 111427, + 111436 + ], + "area": 3194897.20281, + "iscrowd": 0, + "segmentation": [], + "text": "Marine Spatial Planning" + }, + { + "id": 111426, + "strid": "f3ffd737-f592-4073-86a4-c8c6c6d4ab0d", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3728.452, + 945.143, + 764.1140000000005, + 325.1300000000001 + ], + "priority": 23, + "parents": [ + 111415 + ], + "children": [], + "area": 3523920.3086360004, + "iscrowd": 0, + "segmentation": [], + "text": "To test if population impacts of\ndisturbances can be reduced\nthrough spatial planning, we altered\nthe order that wind farms were\nconstructed in and the time between" + }, + { + "id": 111427, + "strid": "4706c9fa-eeed-4c64-9e62-a1081f941943", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 4580.04, + 847.386, + 686.0879999999997, + 401.0329999999999 + ], + "priority": 24, + "parents": [ + 111415 + ], + "children": [], + "area": 3881061.77544, + "iscrowd": 0, + "segmentation": [], + "text": "individual constructions, using an\nexaggerated 200-km response\ndistance. This demonstrated the\nimportance of allowing local\npopulation densities to recover\nbetween construction events." + }, + { + "id": 111436, + "strid": "e7babe55-b0c6-4e41-af3f-d09cc32e05dc", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 3728.56, + 1343.936, + 1589.6039999999998, + 1067.6090000000002 + ], + "priority": 25, + "parents": [ + 111415 + ], + "children": [], + "area": 5010946.012159999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111416, + "strid": "484c5633-9ec7-4b8b-897b-064c4c7cf6b8", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3746.847, + 2505.463, + 314.5590000000002, + 57.45400000000018 + ], + "priority": 26, + "parents": [ + 111438 + ], + "children": [ + 111437 + ], + "area": 9387586.525161002, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusions" + }, + { + "id": 111437, + "strid": "8f5f54d7-e690-4811-994f-10ab21a0a8b4", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 3745.61, + 2598.678, + 1570.114, + 491.1260000000002 + ], + "priority": 27, + "parents": [ + 111416 + ], + "children": [], + "area": 9733634.30358, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 111417, + "strid": "daaa7bbc-b3d6-4d2f-9d30-1ef53d08fd8a", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3725.077, + 3144.212, + 522.1109999999999, + 64.36999999999989 + ], + "priority": 28, + "parents": [ + 111438 + ], + "children": [ + 111428 + ], + "area": 11712431.804324001, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 111428, + "strid": "72a2e3e6-a395-425d-bae5-839101c1da21", + "image_id": 204826, + "image_name": "13208.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3719.247, + 3231.046, + 1636.5030000000002, + 298.3209999999999 + ], + "priority": 29, + "parents": [ + 111417 + ], + "children": [], + "area": 12017058.142361999, + "iscrowd": 0, + "segmentation": [], + "text": "This study is part of the DEPONS project (www.depons.au.dk) funded by the offshore\nwind developers: Vattenfall, Forewind, ENECO Luchterduinen, @rsted, and Scottish Power\nRenewables.\n\nWe confirm we have permission to use images from participants included in this poster.\nSee Nabe-Nielsen et al. (2018): Cons. Letters, e12563 for details about DEPONS model." + }, + { + "id": 144828, + "strid": "bdac417e-ce56-4ea7-90ef-7a789cfeda56", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 230.28, + 19.72, + 319.25, + 176.31 + ], + "priority": -1, + "parents": [], + "children": [ + 144816, + 144817, + 144814, + 144813, + 144815, + 144812, + 144811 + ], + "area": 4541.1215999999995, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144811, + "strid": "ca44332e-a885-489e-8123-149c37f3275e", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 783.905, + 70.977, + 1832.4329999999998, + 79.357 + ], + "priority": 1, + "parents": [ + 144828 + ], + "children": [], + "area": 55639.225185, + "iscrowd": 0, + "segmentation": [], + "text": "Identifying persistent structures in multiscale ‘omics data" + }, + { + "id": 144812, + "strid": "88747f64-5ca9-44a3-a2b7-a1d1922c51be", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 765.148, + 166.206, + 1878.6039999999998, + 187.57200000000003 + ], + "priority": 2, + "parents": [ + 144828 + ], + "children": [], + "area": 127172.188488, + "iscrowd": 0, + "segmentation": [], + "text": "Fan Zheng}, She Zhang?, Akshat Singhal', Christopher Churas', Song Cao’,\nDexter Pratt’, lver Bahar?, Trey Ideker'’\n\n1- Division of Genetics, Department of Medicine, University of California San Diego, CA 92093, USA\n2- Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, PA 15123, USA" + }, + { + "id": 144813, + "strid": "3778062f-6075-48eb-ac22-628d525f2622", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 104.943, + 460.479, + 219.09300000000002, + 48.19999999999999 + ], + "priority": 3, + "parents": [ + 144828 + ], + "children": [ + 144818, + 144825 + ], + "area": 48324.047696999995, + "iscrowd": 0, + "segmentation": [], + "text": "Abstract" + }, + { + "id": 144818, + "strid": "216488f8-c10e-4279-a8a3-40d08a7e3d44", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 107.441, + 521.65, + 1528.254, + 566.8379999999999 + ], + "priority": 4, + "parents": [ + 144813 + ], + "children": [], + "area": 56046.597649999996, + "iscrowd": 0, + "segmentation": [], + "text": "In any ‘omics study, significant patterns in data often become apparent only when looking at the right\nscale. For instance, when clustering single-cell transcriptomes, is the analysis tuned to discover broad\nor specific cell types? Likewise, protein communities revealed from protein networks can vary widely in\nsizes depending on the method. Here, we use the concept of “persistent homology” drawn from mathe-\nmatical topology, to develop a computational method, termed HiDeF (Hierarchical community Decoding\nFramework) for identifying robust structures in data at all scales simultaneously. HiDeF outperformed al-\nternative approaches that do not consider the persistence of structures in benchmark experiments with\nsimulated data and real-world datasets of single-cell transcriptomics and protein interactions. Compara-\ntive analysis of protein-protein interaction networks found significant differences in the distributions of\ncommunity sizes across networks generated with different measurement approaches. HiDeF could facil-\nitate biological discovery within large ‘omics data, such as expanding the catalog of identified cell types\nin single-cell transcriptomics data and identifying protein modules from multi-omics protein networks.\nThe method has been integrated into CDAPS (Community Detection APplication and Service), a Cytos-\ncape-based software framework, and also available as a Python package." + }, + { + "id": 144825, + "strid": "98371995-490e-45aa-9bbe-c92aba814460", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 117.456, + 1150.263, + 1037.823, + 488.1970000000001 + ], + "priority": 5, + "parents": [ + 144813 + ], + "children": [ + 144819 + ], + "area": 135105.290928, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144819, + "strid": "f406a675-ff41-4f54-b2f8-398078789b2d", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1167.284, + 1149.275, + 466.8029999999999, + 476.6399999999999 + ], + "priority": 6, + "parents": [ + 144825 + ], + "children": [], + "area": 1341530.3191000002, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 1. Identification of persistent\ncommunities with HiDeF. (a)\n‘Omics data often contain commu-\nnity structures at different spatial\nresolutions. (b) Pan-resolution\ncommunity detection yields a can-\ndidate pool of communities. Per-\nsistent communities that are ro-\nbustly identified across a wide\nrange of resolutions. (c) Set con-\ntainment analysis defines the hier-\narchical relationships between\ncommunities." + }, + { + "id": 144815, + "strid": "5f3ebfdf-f4b1-47e8-8305-4bf086a700ed", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 110.907, + 1684.392, + 510.935, + 61.82099999999991 + ], + "priority": 7, + "parents": [ + 144828 + ], + "children": [ + 144826 + ], + "area": 186810.863544, + "iscrowd": 0, + "segmentation": [], + "text": "Single-cell clustering" + }, + { + "id": 144826, + "strid": "1cfa0087-3f2e-49f3-997e-a84e2e300e84", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 107.338, + 1775.783, + 1465.528, + 1121.8740000000003 + ], + "priority": 8, + "parents": [ + 144815 + ], + "children": [ + 144822 + ], + "area": 190608.99565399997, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144822, + "strid": "aced481b-1d81-4c3e-8796-4cd3a7c96ae3", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 114.141, + 2913.076, + 1464.426, + 252.90599999999995 + ], + "priority": 9, + "parents": [ + 144826 + ], + "children": [], + "area": 332501.40771600005, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 2. A hierarchy of mouse cell types from single-cell transcriptomes (Tabula Muris). (a-b) Recovery of indi-\nvidual reference cell types by HiDeF (y axis) in comparison to alternative tools (x-axis). (c) Recovery of refer-\nence cell types among the top N ranked cell communities. (d) Hierarchy of putative cell types identified by\nHiDeF. Color gradients on vertices indicating the extent of the optimal match to a reference type. (e-f) HiDeF\ncaptured cell populations uncharacterized in the original analysis, e.g. a cluster joining epidermal cells from\nskin and tongue, and a cluster joining astrocytes and neuron cells that is difficult to distinguish via 2D projec-\n\ntion." + }, + { + "id": 144814, + "strid": "80f04111-72a6-4a49-9114-69716265857d", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1697.765, + 456.907, + 584.6180000000002, + 59.460999999999956 + ], + "priority": 10, + "parents": [ + 144828 + ], + "children": [ + 144824 + ], + "area": 775720.712855, + "iscrowd": 0, + "segmentation": [], + "text": "Protein module analysis" + }, + { + "id": 144824, + "strid": "540dbf4d-a8ea-4685-aae3-92ba08cca0e0", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1717.974, + 524.665, + 1504.697, + 964.3609999999999 + ], + "priority": 11, + "parents": [ + 144814 + ], + "children": [ + 144820 + ], + "area": 901360.8287099999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144820, + "strid": "c3cf71aa-ae0b-4b3b-895a-0fd372a34e3b", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1694.431, + 1513.743, + 1499.3020000000001, + 223.058 + ], + "priority": 12, + "parents": [ + 144824 + ], + "children": [], + "area": 2564933.065233, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 3. Hierarchical structure of protein networks. (a-b) Recovery of cellular components in Gene Ontology by\ncommunity detection methods (colored traces) versus number of top communities examined. HC.1-3 represent\nhierarchical clustering of pairwise distances generated by network embedding tools (Mashup, DSD, and\ndeepNF). (c) Distributions of community sizes for three human protein networks of different data types. (d) Hier-\narchical structures identified for BioPlex 2.0 or STRING databases. (e) 27 public databases of protein-protein in-\nteraction networks were analyzed by HiDeF and profiled by the maximum depths of their resulting hierarchies." + }, + { + "id": 144816, + "strid": "aa9d950e-30ed-4d04-bc80-2be1e7b059f2", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1698.259, + 1769.851, + 530.9360000000001, + 60.00299999999993 + ], + "priority": 13, + "parents": [ + 144828 + ], + "children": [ + 144827 + ], + "area": 3005665.389409, + "iscrowd": 0, + "segmentation": [], + "text": "Cytoscape integration" + }, + { + "id": 144827, + "strid": "701e0d58-2efc-4d4d-8118-427bd0d18a04", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1703.321, + 1847.915, + 980.1030000000001, + 979.0169999999998 + ], + "priority": 14, + "parents": [ + 144816 + ], + "children": [ + 144821 + ], + "area": 3147592.425715, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 144821, + "strid": "51b190d9-bc80-4e4f-a1ac-e0735740e028", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2713.702, + 1860.075, + 475.384, + 517.8569999999997 + ], + "priority": 15, + "parents": [ + 144827 + ], + "children": [], + "area": 5047689.24765, + "iscrowd": 0, + "segmentation": [], + "text": "Fig. 4. HiDeF has been integrated\ninto the CDAPS (Community De-\ntection APplication and Service)\nsoftware framework in Cytoscape.\n(a) A hierarchy network generated\nby multiscale community detec-\ntion. (b-c) Protein communities can\nbe annotated by functional enrich-\nment services. (d) The interaction\nnetwork supporting a community\ncan be easily generated and visu-\nalized, and compared to gene sets\nin existing databases (node\ncolors)." + }, + { + "id": 144817, + "strid": "a1f90fd9-cc3b-4c7c-bac3-9f26ed2b2165", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1692.786, + 2878.466, + 271.33100000000013, + 45.86799999999994 + ], + "priority": 16, + "parents": [ + 144828 + ], + "children": [ + 144823 + ], + "area": 4872626.946276, + "iscrowd": 0, + "segmentation": [], + "text": "References" + }, + { + "id": 144823, + "strid": "475faaf2-fbc8-4424-896d-3fa6b32b1d47", + "image_id": 206125, + "image_name": "18119.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1686.225, + 2957.023, + 1482.205, + 185.56500000000005 + ], + "priority": 17, + "parents": [ + 144817 + ], + "children": [], + "area": 4986206.108175, + "iscrowd": 0, + "segmentation": [], + "text": "Zheng, F., Zhang, S., Churas, C., Pratt, D., Bahar, |., & Ideker, T. (2020). Identifying persistent structures in\nmultiscale ‘omics data. bioRxiv\n\nSinghal, A., Cao, S., Churas, C., Pratt, D., Fortunato, S., Zheng, F., & Ideker, T. (2020). Multiscale community\ndetection in Cytoscape. 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