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74273, - 74280, - 74299, - 74271, - 74292, - 74279, - 74272, - 74274, - 74270, - 74290, - 74284, - 74291 + 3, + 4, + 25, + 2, + 6, + 10 ], - "area": 22263.44, + "area": 44887.660200000006, "iscrowd": 0, "segmentation": [] }, { - "id": 74270, - "strid": "f13069b8-1989-4e49-9bcf-6ea9e78e0ddb", - "image_id": 203395, - "image_name": "120146.png", + "id": 2, + "strid": "e2f961c6-b4e4-43d2-89e8-be470dc4ad86", + "image_id": 1, + "image_name": "10109.png", "category_id": 1, "category_name": "Title", "bbox": [ - 591.451, - 53.843, - 3228.381, - 295.415 + 674.885, + 133.122, + 3987.147, + 110.827 ], "priority": 1, "parents": [ - 74300 + 1 ], "children": [], - "area": 31845.496193000003, + "area": 89842.04097, "iscrowd": 0, "segmentation": [], - "text": "Microalgal photosynthesis coupled to cell motion in a\nphotobioreactor: kinetic model and dynamic simulation" + "text": "Increased ER Stress and Altered Mitochondrial Dynamics in Aged Airway Smooth Muscle" }, { - "id": 74271, - "strid": "d355dbbc-0fa6-449e-8810-01634ff46e5b", - "image_id": 203395, - "image_name": "120146.png", + "id": 3, + "strid": "49643de0-2baf-463f-a204-4d61ff549b9c", + "image_id": 1, + "image_name": "10109.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 2217.447, - 354.028, - 1569.569, - 128.098 + 863.442, + 267.84, + 3612.255, + 170.45800000000003 ], "priority": 2, "parents": [ - 74300 + 1 ], "children": [], - "area": 785038.3265160001, + "area": 231264.30527999997, "iscrowd": 0, "segmentation": [], - "text": "Institutes for Desert Research,\nBen Gurion University of the Negev, Sede Boger, Israe/" + "text": "Pawan Sharma’, Shi Pan! and Deepak A Deshpande*\n1Center for Translational Medicine, Department of Medicine, Thomas Jefferson University, Philadelphia, PA 19107" }, { - "id": 74272, - "strid": "e35deed0-cf68-47d4-84dc-0a77200471e0", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 3, - "category_name": "Text", + "id": 4, + "strid": "0e657c71-6632-4f28-bd18-df942ed7c0af", + "image_id": 1, + "image_name": "10109.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 85.117, - 494.275, - 1990.53, - 552.0459999999999 + 1102.453, + 557.399, + 270.8890000000001, + 58.240999999999985 ], "priority": 3, "parents": [ - 74300 - ], - "children": [], - "area": 42071.205175, - "iscrowd": 0, - "segmentation": [], - "text": "SUMMARY: Modeling approaches for algal growth are needed to describe dense illuminated micro-\nalgal cultures, within which the light intensity varies in space through interaction with pigmented cells.\nIn addition to photosynthetic reactions, the motion of cells in the variable light field must be\naccounted for.\n\nAcyclic three-state model (Fig.1, model1) serves as the standard formalism for photosynthesis, in\nwhich a (generic) resting reaction center (O) is first activated (,), and then irreversibly inhibited (4;)\nby photon absorption. The activated reaction center (C) may return to the resting state, after either\nunproductive energy dissipation (k,), or productive energy transduction (k,,); the inhibited reaction\ncenter (f) may also recover to the resting state after a separate repair process (4). A more complex,\nbut realistic, model was also designed with 4 sequential steps (Fig.1, model2) for photon capture." - }, - { - "id": 74273, - "strid": "21dfc8fc-0520-4293-bc67-93a59e7cc16b", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 2099.391, - 490.318, - 1986.5729999999999, - 557.982 + 1 ], - "priority": 4, - "parents": [ - 74300 + "children": [ + 5 ], - "children": [], - "area": 1029369.196338, + "area": 614506.199747, "iscrowd": 0, "segmentation": [], - "text": "The models were tested on two cases: (i) static illuminated suspension at steady state, (ii) dynamic\nexposure to variable light in a mixed suspension (flashing mode, no steady state,), simulated by\nrandom cell motion. While the former represents a well-defined reference state (approximated at low\ncell density), the latter relates better to real life in a photobioreactor (substantial density).\n\nBoth models in the static mode (Fig.3) were able to reproduce most of the experimentally observed\nbehaviors at moderate to high irradiance/low density; however, as cell density increases they fail to\naccount for critical dynamic aspects of microalgal growth such as its dependence on mixing, and\nabsolute rate reduction at high cell densities.\n\nOnly model2 the more elaborate 4-steps activation model coupled to simulated stochastic motion of\nparticles can satisfactorily mimic experimental results for low irradiance/high density cultures." + "text": "Abstract" }, { - "id": 74274, - "strid": "23d7a297-f044-46e6-8e7a-1e7dfa672c5c", - "image_id": 203395, - "image_name": "120146.png", + "id": 5, + "strid": "da236d98-e599-4b2a-b590-adcd86856575", + "image_id": 1, + "image_name": "10109.png", "category_id": 3, "category_name": "Text", "bbox": [ - 82.465, - 1072.248, - 1791.327, - 857.481 + 123.782, + 636.672, + 2237.758, + 553.2719999999999 ], - "priority": 5, + "priority": 4, "parents": [ - 74300 + 4 ], "children": [], - "area": 88422.93132, + "area": 78808.533504, "iscrowd": 0, "segmentation": [], - "text": "METHOD: Photosynthesis was modeled as a 3 (mode!1) or 6 (model2) steps cycle as\ndescribed, and the respective steady state solutions for a single reaction center were\nused as static reference states. The kinetic parameters for both models (Fig. 1) were\nadjusted to match routine experimental P-/ curves obtained at low cells density and\nrelatively high incident light intensities.\n\nNext, the modeled RC was put in a more realistic context (locally variable light intensity at\ngiven pigment content and incident light intensity), and the steady states for the active\n\nstate (Css) were recalculated using light intensity either as space-average (C.,.; Fig.2),\nor space-integrated /ocal values of C, (); both values were compared in Fig. 3,\nshowing radical, model-dependent differences at moderate-to-high cells density.\n\nFinally, the random motion of cells in a stirred reactor was simulated by a diffusion-like\nrandom displacement dx at each elementary small time step af, so that (dx)? = 2Ddt. The\nmotion was coupled to the local catalytic reactions (model 1 or 2) at each step, and the\nproduct accumulated (Figs.4-6) . The time increments were recalculated at each step to\nreflect the local changes (e.g., L,), since the rate of catalytic steps vary wildly with light." + "text": "Rationale: It has been known that the respiratory functions decline with age resulting in reduced quality of life. However, age-dependent molecular\nchanges in respiratory cells such as airway smooth muscle (ASM) cells are not established. There are data suggesting that aging develops a greater\ninflammatory and lower anti-oxidant response compared to young, but whether these differences actually translate into loss of cellular functions is\nunknown. Endoplasmic reticulum (ER) stress and the unfolded protein response (UPR) along with mitochondrial homeostasis play fundamental roles in\nintracellular protein handling during inflammation. The UPR exists to improve protein folding for proper cellular homeostasis, and prevent cell damage\nfrom the accumulation of misfolded proteins. We investigated whether ER stress and mitochondrial homeostasis is changed with age in ASM cells.\nMethods & Results: ASM cells obtained from Young (12 months) and Aged (30 months) F344XBN rats were used to determine the ER stress markers at\nbaseline and after 24 to 120 hours of serum starvation using western blotting. Expression of hallmarks of UPR, BIP, and IRE1@ were measured in cell\nlysates obtained from Young and Aged ASM cells. MTT assay was used to measure the cell viability in ASM cells. Mitochondrial reactive oxygen species\n(ROS) generation was measured using a fluorescent assay. We found that ER stress or UPR hallmarks (BIP, IRE1) were induced in aged ASM cells\nwhen compared to Young. ROS generation was significantly higher in ASM cells from Old rats compared to Young. We also found greater cell death in\naged ASM cells at 72, 96 and 120 hours upon serum starvation when compared to Young. The induction of ER stress markers correlated with reduction\nof cell viability in aged ASM cells. Conclusions: Our results indicate that mitochondrial dysfunction along with increased ER stress/UPR in aged ASM\ncells contributes to reduced contractile responses of the airways with aging." }, { - "id": 74280, - "strid": "05d1dbb4-e2ea-42f8-a6a2-f141c238df3c", - "image_id": 203395, - "image_name": "120146.png", + "id": 6, + "strid": "7b4b981f-5ba0-4dd1-a6b7-8cecc6420563", + "image_id": 1, + "image_name": "10109.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3413.54, - 1091.946, - 655.7640000000001, - 48.480999999999995 + 525.459, + 1241.395, + 281.725, + 65.01299999999992 ], - "priority": 6, + "priority": 5, "parents": [ - 74300 + 1 ], "children": [ - 74278, - 74275, - 74276, - 74277 + 8, + 9, + 7 ], - "area": 3727401.3488399996, + "area": 652302.1753049999, "iscrowd": 0, "segmentation": [], - "text": "Suspension: variable L and" + "text": "Methods" }, { - "id": 74275, - "strid": "2004f017-e8f3-438b-b414-1de97dc0f8da", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", + "id": 7, + "strid": "2ce29f08-8573-4825-a629-e593afce9a46", + "image_id": 1, + "image_name": "10109.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1884.702, - 1076.612, - 1490.227, - 879.299 + 125.98, + 1334.275, + 316.593, + 43.728000000000065 ], - "priority": 7, + "priority": 6, "parents": [ - 74280 + 6 ], "children": [], - "area": 2029092.7896240002, + "area": 168091.96450000003, "iscrowd": 0, "segmentation": [] }, { - "id": 74276, - "strid": "3a137267-2893-4ca8-b919-5461d9597c45", - "image_id": 203395, - "image_name": "120146.png", + "id": 8, + "strid": "5596f9c7-6077-4b01-a3f2-d3f5fca9b6cf", + "image_id": 1, + "image_name": "10109.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 3384.198, - 1142.393, - 705.4829999999997, - 321.72699999999986 + 270.817, + 1401.91, + 717.044, + 491.336 ], - "priority": 8, + "priority": 7, "parents": [ - 74280 + 6 ], "children": [], - "area": 3866084.105814, + "area": 379661.06047, "iscrowd": 0, "segmentation": [] }, { - "id": 74277, - "strid": "d4cb642a-a589-4a71-922e-5044083bc280", - "image_id": 203395, - "image_name": "120146.png", + "id": 9, + "strid": "008a7890-8b87-4402-9141-621638413022", + "image_id": 1, + "image_name": "10109.png", "category_id": 4, "category_name": "List", "bbox": [ - 3409.247, - 1465.488, - 663.819, - 290.28300000000013 + 128.743, + 1926.707, + 1098.772, + 1273.615 ], - "priority": 9, + "priority": 8, "parents": [ - 74280 + 6 ], "children": [], - "area": 4996210.567536, + "area": 248050.039301, "iscrowd": 0, "segmentation": [] }, { - "id": 74278, - "strid": "502bb09b-0464-41cf-8f6f-0c8dcdf04856", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", + "id": 10, + "strid": "a5dcb7b2-9f80-48c4-81a5-a22757de9f35", + "image_id": 1, + "image_name": "10109.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 3538.328, - 1760.152, - 419.0749999999998, - 186.58999999999992 + 1687.573, + 1238.686, + 239.73700000000008, + 63.659000000000106 + ], + "priority": 9, + "parents": [ + 1 + ], + "children": [ + 12, + 17, + 11, + 20, + 18, + 22, + 21, + 15, + 14, + 23 + ], + "area": 2090373.049078, + "iscrowd": 0, + "segmentation": [], + "text": "Results" + }, + { + "id": 11, + "strid": "74c4bd46-e2f9-4469-85bc-effbf85e28db", + "image_id": 1, + "image_name": "10109.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1275.321, + 1384.733, + 1062.8090000000002, + 54.52800000000002 ], "priority": 10, "parents": [ - 74280 + 10 ], "children": [], - "area": 6227995.105856, + "area": 1765979.074293, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Aging ASM Cells Showed Reduced Cell Viability" }, { - "id": 74279, - "strid": "e3287f49-ddfe-45f6-83e3-444a1aa0251b", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 5, - "category_name": "Section", + "id": 12, + "strid": "4da3fbf3-a8c7-4881-b17c-8989113513e7", + "image_id": 1, + "image_name": "10109.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1592.614, - 1980.426, - 415.8899999999999, - 52.228000000000065 + 1311.368, + 1516.438, + 958.5619999999999, + 605.2309999999998 ], "priority": 11, "parents": [ - 74300 + 10 ], "children": [ - 74288, - 74282, - 74283, - 74281 + 13 ], - "area": 3154054.173564, + "area": 1988608.267184, "iscrowd": 0, - "segmentation": [], - "text": "Static controls" + "segmentation": [] }, { - "id": 74281, - "strid": "9e12d1a4-550e-46f8-80e8-cba68db33152", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", + "id": 13, + "strid": "ae86d187-55a2-49d7-9f2e-46085d4e81fd", + "image_id": 1, + "image_name": "10109.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 107.917, - 1976.602, - 1441.131, - 565.2630000000001 + 1285.796, + 2166.688, + 1067.9169999999997, + 203.98399999999992 ], "priority": 12, "parents": [ - 74279 + 12 ], "children": [], - "area": 213308.958034, + "area": 2785918.763648, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 1. Young and aged rat ASM cells were subjected to serum deprivation from 24 h\nto 120 h and cell viability was measured using MTT assay. Relative cell viability (percent\nof control) was calculated using the equation: (mean OD of treated cells/mean OD of control\ncells) X 100. Primary airway smooth muscle cell cultures from 3-4 young and aged rats were\ncompared to each other at given time points. One Way ANOVA with multiple comparison\ntest (Bonferroni) was used, *p<0.05; **p<0.01." }, { - "id": 74282, - "strid": "8d553348-00f2-40e8-afb9-c75e40b20076", - "image_id": 203395, - "image_name": "120146.png", + "id": 14, + "strid": "11d341a7-d2f4-42c0-b524-7322820668ab", + "image_id": 1, + "image_name": "10109.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1571.24, - 2064.998, - 444.5609999999999, - 142.5949999999998 + 1357.777, + 2419.443, + 897.2049999999999, + 57.58699999999999 ], "priority": 13, "parents": [ - 74279 + 10 ], "children": [], - "area": 3244607.45752, + "area": 3285064.058211, "iscrowd": 0, "segmentation": [], - "text": "Standard conditions:\nw =1cm; ¢=0.197 L/mg.cm;\none sided illumination." + "text": "Increased ER Stress Markers With Aging" }, { - "id": 74283, - "strid": "8034b25c-0042-4181-a657-6c587f940ba5", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 3, - "category_name": "Text", + "id": 15, + "strid": "edcd42bc-a31d-4bf3-b8eb-99e74d0b9614", + "image_id": 1, + "image_name": "10109.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1565.248, - 2249.533, - 480.51, - 257.6300000000001 + 1337.558, + 2513.958, + 968.848, + 371.17300000000023 ], "priority": 14, "parents": [ - 74279 + 10 ], - "children": [], - "area": 3521077.029184, + "children": [ + 16 + ], + "area": 3362564.634564, "iscrowd": 0, - "segmentation": [], - "text": "Conversion factors:\n1 E/m?.s = 0.54 phot/RC.s\n1 mg Chi/L = 0.038 uM RC\n100 mg Chi/L ~ 14 g DW/L\n1 uM O,/s ~ 1 uM CO,/s\n1pM CO,/s = 0.086 gDW/L.h" + "segmentation": [] }, { - "id": 74288, - "strid": "d3cbaad7-15fa-4c4a-bbad-03b41c2adb88", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 4, - "category_name": "List", + "id": 16, + "strid": "79681b1c-d58c-4448-bf5b-949274392fcd", + "image_id": 1, + "image_name": "10109.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 83.032, - 2560.972, - 1980.689, - 305.60300000000007 + 1287.51, + 2934.628, + 1069.631, + 270.8359999999998 ], "priority": 15, "parents": [ - 74279 + 15 ], "children": [], - "area": 212642.627104, + "area": 3778362.89628, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 2. Young and aged rat airway smooth muscle cells were used to measure ER\nstress markers and untranslated protein response (UPR). Young and aged rat ASM\ncells at sub-confluence were serum starved (F12 + 1% ITS) for 24, 48, 72, 96 and 120\nhours and protein lysates were obtained to perform western blotting for ER stress\nmarkers, IRE1q@ and BiP (GRP78). As shown in the figure (Top) there was a time-\ndependent increase in ER stress markers with aging. Data shown above are\nrepresentative of 3-4 different animals. Expression of GAPDH was used as loading\ncontrol (bottom image)." }, { - "id": 74284, - "strid": "0b3866d0-1721-4c03-82f0-87fa35cc3b66", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 5, - "category_name": "Section", + "id": 17, + "strid": "a5600e8a-2e3a-4d6f-a4ac-b1e272e166e5", + "image_id": 1, + "image_name": "10109.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3123.738, - 1982.618, - 944.3809999999999, - 64.08600000000001 + 2528.671, + 566.353, + 2039.4290000000005, + 48.813999999999965 ], "priority": 16, "parents": [ - 74300 - ], - "children": [ - 74287, - 74285, - 74289, - 74286 + 10 ], - "area": 6193179.186083999, + "children": [], + "area": 1432120.4068629998, "iscrowd": 0, "segmentation": [], - "text": "Photobioreactor: a dynamic state" + "text": "Aging Increases Reactive Oxygen Species and Decreases Mitochondrial Membrane Potential" }, { - "id": 74285, - "strid": "0f7a2512-ce09-467b-ae1b-96e0110ff661", - "image_id": 203395, - "image_name": "120146.png", + "id": 18, + "strid": "acd37db7-9ee3-4044-83d2-4a41261c5ae4", + "image_id": 1, + "image_name": "10109.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2137.434, - 1965.478, - 973.9369999999999, - 584.0990000000002 + 2418.688, + 634.982, + 2218.9709999999995, + 683.8209999999999 ], "priority": 17, "parents": [ - 74284 + 10 ], - "children": [], - "area": 4201079.503452, + "children": [ + 19 + ], + "area": 1535823.343616, "iscrowd": 0, "segmentation": [] }, { - "id": 74286, - "strid": "4e0b127e-4737-429e-8704-962b23d6911c", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", + "id": 19, + "strid": "d2391750-c3d2-439e-b74c-38edcdc55194", + "image_id": 1, + "image_name": "10109.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 3113.319, - 2038.774, - 974.1839999999997, - 231.21500000000015 + 2486.096, + 1331.982, + 2207.0130000000004, + 228.21000000000004 ], "priority": 18, "parents": [ - 74284 + 18 ], "children": [], - "area": 6347353.830906, + "area": 3311435.1222719997, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 3. A). Effect of aging on mitochondrial reactive oxygen species (ROS) generation and mitochondrial functions in rat ASM cells. ROS was measured by confocal microscopy in\nyoung and aged cells at baseline and 48 hours after serum deprivation stained with Mitosox Red. Average cellular ROS levels were determined from 45-50 cells in triplicate dishes\nprepared from three different rat cell cultures. Histogram (Y-axis) shows normalized mitoSox fluroscenece intensity elevation in cellular ROS compared to time-matched, young rat\nASM cells. B). Effect of aging on mitochondrial trans-membrane potential (A,,). Young and aged rat ASM cells were loaded with JC-10 dye and the potential-dependent accumulation\nin the mitochondria (reduced AW,, indicated by a decrease in Red:Green fluorescence) measured directly using a plate reader. C). Oxygen consumption rate (OCR, an indicator of\nmitochondrial respiration) was measured at basal condition using Seahorse XF analyzer in young and aged ASM cells. Data represent the average values from triplicates of three\nindependent primary young and aged rat ASM cells. t-test, “p<0.05; **p<0.01." }, { - "id": 74287, - "strid": "40dcd1e4-14ff-4fe4-b063-8d25486ecf75", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 4, - "category_name": "List", + "id": 20, + "strid": "6418ac3a-31fa-4588-a617-c4f57ab5c041", + "image_id": 1, + "image_name": "10109.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3127.705, - 2272.043, - 952.6040000000003, - 279.5129999999999 + 2550.804, + 1588.133, + 888.1869999999999, + 105.47199999999998 ], "priority": 19, "parents": [ - 74284 + 10 ], "children": [], - "area": 7106280.2513150005, + "area": 4051016.008932, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Altered Mitochondrial Dynamics in Aged\nAirway Smooth Muscle" }, { - "id": 74289, - "strid": "c065be81-5cb7-45eb-b246-4287edbea532", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 4, - "category_name": "List", + "id": 21, + "strid": "cab956a3-e0e7-4393-8402-c4210e903525", + "image_id": 1, + "image_name": "10109.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2126.752, - 2557.152, - 1898.5589999999997, - 372.4540000000002 + 2444.22, + 1682.315, + 1068.2350000000001, + 1531.851 ], "priority": 20, "parents": [ - 74284 + 10 ], "children": [], - "area": 5438428.130304, + "area": 4111947.9693, "iscrowd": 0, "segmentation": [] }, { - "id": 74291, - "strid": "2fcee63b-0300-4dbd-bf66-c7bdeea6d786", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 5, - "category_name": "Section", + "id": 22, + "strid": "870965c3-0aac-4513-843b-265d61c40e22", + "image_id": 1, + "image_name": "10109.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 157.538, - 2886.688, - 851.474, - 60.17500000000018 + 3615.911, + 1589.493, + 1027.1549999999997, + 106.68100000000004 ], "priority": 21, "parents": [ - 74300 - ], - "children": [ - 74295, - 74293 + 10 ], - "area": 454763.05414400005, + "children": [], + "area": 5747465.223123, "iscrowd": 0, "segmentation": [], - "text": "Simulation: density, light & QA" + "text": "Role of Superoxide in Functional Properties of\nAirway Smooth Muscle" }, { - "id": 74293, - "strid": "44ebf656-0d2e-487a-acae-564594b9d6b6", - "image_id": 203395, - "image_name": "120146.png", + "id": 23, + "strid": "69557e1a-e3b4-4503-8093-cc66187e6a92", + "image_id": 1, + "image_name": "10109.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 95.002, - 2964.952, - 967.9100000000001, - 744.0680000000002 + 3571.42, + 1673.521, + 1073.228, + 692.2140000000002 ], "priority": 22, "parents": [ - 74291 + 10 ], - "children": [], - "area": 281676.369904, + "children": [ + 24 + ], + "area": 5976846.36982, "iscrowd": 0, "segmentation": [] }, { - "id": 74295, - "strid": "4c3d8be1-c3da-4f53-a419-3faabb0fa987", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 4, - "category_name": "List", + "id": 24, + "strid": "f7cffab7-ee02-4aa5-9a36-5b2e608919be", + "image_id": 1, + "image_name": "10109.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 84.443, - 3725.839, - 1904.112, - 304.116 + 3523.017, + 2378.566, + 1173.6779999999999, + 327.6970000000001 ], "priority": 23, "parents": [ - 74291 + 23 ], "children": [], - "area": 314621.022677, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 74292, - "strid": "e6942d5c-385f-432a-9154-2a92e66e8ec8", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1121.338, - 2886.688, - 903.625, - 63.1840000000002 - ], - "priority": 24, - "parents": [ - 74300 - ], - "children": [ - 74294 - ], - "area": 3236952.948544, + "area": 8379728.453621998, "iscrowd": 0, "segmentation": [], - "text": "Simulation: mixing rate & density" - }, - { - "id": 74294, - "strid": "85473c4a-25fb-48f2-9a25-fbd0329ddc58", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1081.565, - 2956.662, - 982.4180000000001, - 762.721 - ], - "priority": 25, - "parents": [ - 74292 - ], - "children": [], - "area": 3197822.13603, - "iscrowd": 0, - "segmentation": [] + "text": "Figure 4. A). Young and aged rat ASM cells were labeled with mitotracker green, live cell\nimaging was performed using confocal microscopy. B). To further investigate the ultrastructural\ndetails, transmission electron microscopy was performed in ASM cells from young and aged rats\n(aged rats demonstrated increased swelling of mitochondria). C). Mitochondrial dynamics\nproteins Drp1 and Opa1 were measured using at basal and 24 h in young and aged rat ASM\ncells. D). To determine the role of ROS in determining ASM function, mouse tracheal rings were\nused with +Xanthine/Xanthine Oxidase (X/XO) at 30 min, 4 h, 24 h and isometric force to\nmethacholine (MCh) was measured using myograph. In a select set of experiments, airways\nwere treated with X/XO for 4 h, allowed to recover in fresh buffer for 30 min, and contractile\nresponses to MCh were measured." }, { - "id": 74290, - "strid": "18506b86-ade8-4f8f-bdc7-1935c4980dc1", - "image_id": 203395, - "image_name": "120146.png", + "id": 25, + "strid": "b95456e5-f5ba-4b4e-bca5-f089a7576464", + "image_id": 1, + "image_name": "10109.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2408.541, - 2942.168, - 1566.7489999999998, - 81.08899999999994 + 3546.905, + 2732.59, + 780.9580000000001, + 69.65200000000004 ], - "priority": 26, + "priority": 24, "parents": [ - 74300 + 1 ], "children": [ - 74297, - 74296, - 74298 + 26 ], - "area": 7086332.256888001, + "area": 9692237.13395, "iscrowd": 0, "segmentation": [], - "text": "Experimental support for predicted behavior" - }, - { - "id": 74296, - "strid": "cc76fba1-97dc-47df-acc1-65d477a5ef4c", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 2132.555, - 3035.762, - 958.3960000000002, - 737.3910000000001 - ], - "priority": 27, - "parents": [ - 74290 - ], - "children": [], - "area": 6473929.43191, - "iscrowd": 0, - "segmentation": [] + "text": "Summary & Conclusions" }, { - "id": 74298, - "strid": "987451c2-b3ad-4bf6-b234-1e15842733b0", - "image_id": 203395, - "image_name": "120146.png", + "id": 26, + "strid": "f9ac0b08-c523-40ec-b36a-508b924d3f70", + "image_id": 1, + "image_name": "10109.png", "category_id": 4, "category_name": "List", "bbox": [ - 2123.74, - 3786.166, - 1860.5100000000002, - 136.77300000000014 - ], - "priority": 28, - "parents": [ - 74290 - ], - "children": [], - "area": 8040832.18084, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 74297, - "strid": "0314c335-9a09-46d8-8002-2ae93cad17bb", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 3135.578, - 3029.387, - 956.2710000000002, - 737.3910000000001 + 3529.872, + 2820.066, + 1170.935, + 392.1399999999999 ], - "priority": 29, + "priority": 25, "parents": [ - 74290 + 25 ], "children": [], - "area": 9498879.230686, + "area": 9954472.011551999, "iscrowd": 0, "segmentation": [] }, { - "id": 74299, - "strid": "725abc11-d1dc-4969-b387-3cb5a2adf34a", - "image_id": 203395, - "image_name": "120146.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 201.83, - 3952.379, - 3810.556, - 298.4480000000003 - ], - "priority": 30, - "parents": [ - 74300 - ], - "children": [], - "area": 797708.6535700001, - "iscrowd": 0, - "segmentation": [], - "text": "FPURNSHCG HT, LATITH, DCI, AIAIO, 2U1O Tl. MalQQVOOK OF MICrOdalg\nCulture, 2nd ed. Richmond & Hu, eds. Wiley-Blackwell, pp. 205-22\n\n \n\nThe bottom line\nA research cycle has been completed: the models, instigated by earlier experimental results is mature for further\ncycles of investigation into the intricate coupling of photochemical reaction and motion in a light field\n\nay be reached at density and mixing rate such that Chl. VD = k *« LO" - }, - { - "id": 2552, - "strid": "16a4fc9f-bb1d-4d5a-beda-95e0cc0c1c28", - "image_id": 200605, - "image_name": "10362.png", + "id": 27, + "strid": "fe61a33a-90e5-4b8a-8da1-23682442966c", + "image_id": 2, + "image_name": "10295.png", "category_id": 9, "category_name": "Root", "bbox": [ - 115, - 70.12, - 353.64, - 239.21999999999997 + 11.71, + 11.01, + 63.6, + 65.14999999999999 ], "priority": -1, "parents": [], "children": [ - 2528, - 2529, - 2530, - 2532, - 2526, - 2531, - 2527, - 2544, - 2543 + 28, + 30, + 36, + 40, + 44, + 29, + 42 ], - "area": 8063.8, + "area": 128.9271, "iscrowd": 0, "segmentation": [] }, { - "id": 2544, - "strid": "250ab228-9ca0-41c4-8624-771929e8201c", - "image_id": 200605, - "image_name": "10362.png", + "id": 28, + "strid": "a7e3ae8c-dc5e-496f-b3ab-bb69cc137131", + "image_id": 2, + "image_name": "10295.png", "category_id": 1, "category_name": "Title", "bbox": [ - 607.712, - 43.017, - 2434.512, - 238.829 + 148.061, + 48.619, + 527.578, + 100.701 ], "priority": 1, "parents": [ - 2552 + 27 ], "children": [], - "area": 26141.947104000003, + "area": 7198.577759000001, "iscrowd": 0, "segmentation": [], - "text": "Cardiovascular response and serum IL-6 level\nIn concentric and eccentric exercise" + "text": "The AnaConDa® and Sevoflurane\nin the ICU\n\ndata on ambient pollution and staff exposure" }, { - "id": 2543, - "strid": "4f918559-156a-404f-a07a-344019aa9f88", - "image_id": 200605, - "image_name": "10362.png", + "id": 29, + "strid": "10a61b68-af78-4150-ae96-621ae2913b6f", + "image_id": 2, + "image_name": "10295.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 445.925, - 361.455, - 2706.726, - 187.46800000000002 + 126.964, + 188.335, + 417.35499999999996, + 51.16499999999999 ], "priority": 2, "parents": [ - 2552 + 27 ], "children": [], - "area": 161181.820875, + "area": 23911.76494, "iscrowd": 0, "segmentation": [], - "text": "Mayank Agarwal’, Prof. Shraddha Singh’, Prof. Sunita Tiwari’, Dr. Jagdish Narayan’, Dr. Shivani Pandey”\n‘Department of Physiology, Department of Biochemistry, King George’s Medical University, Lucknow" + "text": "tallied Re ela eh ald dad\nO. Thomas MD, Anesthesiologist-Intensivist\nDept. of Intensive Care, VieCuri Medical Center Venlo, the Netherlands" }, { - "id": 2526, - "strid": "83615ad0-1b9a-4195-a657-af7625122394", - "image_id": 200605, - "image_name": "10362.png", + "id": 30, + "strid": "91de2b22-71e2-4dd5-924e-7d736ed7aa69", + "image_id": 2, + "image_name": "10295.png", "category_id": 5, "category_name": "Section", "bbox": [ - 619.539, - 631.253, - 671.922, - 85.46400000000006 + 128.036, + 280.077, + 85.42700000000002, + 12.468999999999994 ], "priority": 3, "parents": [ - 2552 + 27 ], "children": [ - 2538, - 2545, - 2539 + 31, + 32, + 34 ], - "area": 391085.852367, + "area": 35859.938772, "iscrowd": 0, "segmentation": [], - "text": "INTRODUCTION" + "text": "introduction" }, { - "id": 2545, - "strid": "3bd989a0-d64a-4835-9036-07945b229adb", - "image_id": 200605, - "image_name": "10362.png", + "id": 31, + "strid": "91a1f7b0-2cfd-4d94-abc5-c1a50962bd2e", + "image_id": 2, + "image_name": "10295.png", "category_id": 3, "category_name": "Text", "bbox": [ - 17.061, - 754.367, - 1854.133, - 1237.801 + 127.007, + 296.694, + 336.252, + 204.47200000000004 ], "priority": 4, "parents": [ - 2526 + 30 ], "children": [], - "area": 12870.255387, + "area": 37682.21485800001, "iscrowd": 0, "segmentation": [], - "text": "Cardiovascular disease (CVD) has been a leading cause of morbidity and\nmortality in India; since 1990, its prevalence has increased by 23%\".\n\nThe higher levels of muscular strength are associated with a significantly\nbetter cardio-metabolic risk factor profile. Hence resistance exercise (RE)\nare strongly recommended for implementation in primary and secondary\nCVD prevention programs. Dynamic RE comprises of concentric (muscle\nshortening contractions) and eccentric (muscle lengthening contractions)\nphase (Fig. 1).\n\nContraction of the skeletal muscles promotes synthesis and secretion of\ncytokines and peptides from myocytes commonly termed as ‘myokines’.\nElevated plasma concentrations of muscle-derived interleukin-6 (IL-6)\npromotes a wide range of benefits in vascular reactivity, lipid and glucose\nmetabolism and the suppression of pro-inflammatory cytokines which may\nreduce the incidence of cardiovascular disease® (Fig. 2).\n\nThe present study aims at determining the cardiovascular response\nand serum IL-6 level in concentric and eccentric exercise." + "text": "The AneConDe® {Sedana. Medical, Uppesia, Hwaden) ie a\nreflection filer that can be used to administer volatile\nanesthetics to intubated patients on a conventional ventilator\noutside the OR. We have recently implemented sevoflurane\nas a sedative in our ICU and found that litle data are\navailable on staff exposure and ambient pollution when using\nthe AnaConDa® (Fig. 1). A risk analyses was performed, as\nrequested by our occupational health service. We have\nmeasured ambient pollution, staff exposure and peak values\nof sevoflurane on all connection points of the AnaConDa®\nsystem and FlurAbsorb scavenger in a Critical Care setting\n(Fig. 2). Aim of this study was to quantity ambient pollution\nand statf exposure to sevoflurane while using the AnaConDa®\nea rete Le ecureERety ohcende:" }, { - "id": 2538, - "strid": "46a4e540-e4bb-4b72-90d1-cabdf0d0b528", - "image_id": 200605, - "image_name": "10362.png", + "id": 32, + "strid": "2ac77e5f-219b-4a3e-a222-813b76f1ce5f", + "image_id": 2, + "image_name": "10295.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 17.223, - 2175.776, - 666.518, - 873.5830000000001 + 133.919, + 522.949, + 123.85999999999999, + 149.57100000000003 ], "priority": 5, "parents": [ - 2526 + 30 ], "children": [ - 2533 + 33 ], - "area": 37473.390047999994, + "area": 70032.807131, "iscrowd": 0, "segmentation": [] }, { - "id": 2533, - "strid": "86b9d12d-0a18-4cac-b66a-6ccffb7e64fe", - "image_id": 200605, - "image_name": "10362.png", + "id": 33, + "strid": "46c55203-5f0b-4d6c-83fc-52572f7595c6", + "image_id": 2, + "image_name": "10295.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 41.781, - 2021.408, - 652.556, - 143.84299999999985 + 134.67, + 673.389, + 115.846, + 8.955000000000041 ], "priority": 6, "parents": [ - 2538 + 32 ], "children": [], - "area": 84456.44764799999, + "area": 90685.29663, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: Types of dynamic\nmuscle contraction" + "text": "" }, { - "id": 2539, - "strid": "4a351538-2d0a-4771-834c-79bc1be7fd3e", - "image_id": 200605, - "image_name": "10362.png", + "id": 34, + "strid": "06ea2595-7d79-4e93-8851-27f2bde80dfa", + "image_id": 2, + "image_name": "10295.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 689.826, - 2171.48, - 1186.758, - 878.8809999999999 + 263.488, + 523.635, + 188.606, + 144.97800000000007 ], "priority": 7, "parents": [ - 2526 + 30 ], "children": [ - 2534 + 35 ], - "area": 1497943.3624800001, + "area": 137971.53888, "iscrowd": 0, "segmentation": [] }, { - "id": 2534, - "strid": "d0c73d7d-684d-4f1a-907d-e87eb0d661ba", - "image_id": 200605, - "image_name": "10362.png", + "id": 35, + "strid": "657abba3-8833-4933-83d1-da15acb5e888", + "image_id": 2, + "image_name": "10295.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 831.163, - 2024.916, - 999.884, - 143.84300000000007 + 265.416, + 673.094, + 71.96499999999997, + 9.172000000000025 ], "priority": 8, "parents": [ - 2539 + 34 ], "children": [], - "area": 1683035.257308, + "area": 178649.91710400002, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: Possible effects of IL-6 released\nfrom contracting the skeletal muscle" + "text": "" }, { - "id": 2527, - "strid": "b30db25d-366c-4916-8cc3-9f0b4cbeabbf", - "image_id": 200605, - "image_name": "10362.png", + "id": 36, + "strid": "bdc4b2b7-b7b1-4fe7-9d61-35d1f9e18df2", + "image_id": 2, + "image_name": "10295.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2549.842, - 634.2, - 383.11299999999983, - 88.41100000000006 + 130.728, + 705.647, + 60.521000000000015, + 13.211000000000013 ], "priority": 9, "parents": [ - 2552 + 27 ], "children": [ - 2541, - 2542, - 2546, - 2540 + 39, + 38, + 37 ], - "area": 1617109.7964, + "area": 92247.82101600002, "iscrowd": 0, "segmentation": [], - "text": "RESULTS" + "text": "Methods" }, { - "id": 2546, - "strid": "356de82f-984c-4bc8-9c1d-0f2a8db8eb78", - "image_id": 200605, - "image_name": "10362.png", + "id": 37, + "strid": "54863d16-3a54-4354-944b-69a55378f70c", + "image_id": 2, + "image_name": "10295.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1922.554, - 756.935, - 1648.6890000000003, - 220.85199999999998 + 128.499, + 722.873, + 327.6039999999999, + 189.40200000000004 ], "priority": 10, "parents": [ - 2527 + 36 ], "children": [], - "area": 1455248.41199, + "area": 92888.457627, "iscrowd": 0, "segmentation": [], - "text": "Serum IL-6 level and cardiovascular response to concentric\nexercise (CE) was significantly higher (except DBP) than eccentric\nexercise (EE)." + "text": "Since pollution data are patient independent and relate to\nthe integrity of the breathing circuit, only one intubated\nsubject was used to perform sampling. Air sampling was\nperformed by an independent institute (RPS). A Miran\nSapphiRe portal ambient analyzer was used for realtime\nmeasurements on eight different connecting points of the\nbreathing circuit and AnaConDa\" system, including the\nFlurAbsorb scavenger. Charcoal sorbent tubes (SKC226-\n01) were used for stationary and personal measurements\nand were analyzed in a laboratory (OSHA 103 method),\nStationary 8 hour measurements were performed on two\ndifferent locations in an ICU room (fig 2). These\nmeasurements were repeated with new sampling tubes." }, { - "id": 2542, - "strid": "3950d7f9-364d-4da9-b9f7-725ceba169fe", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 2, - "category_name": "Figure", + "id": 38, + "strid": "4aa2eb02-4e71-4e57-97bf-30087fb5427a", + "image_id": 2, + "image_name": "10295.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1946.877, - 1104.022, - 1590.5880000000002, - 910.72 + 131.593, + 922.866, + 323.937, + 206.53600000000006 ], "priority": 11, "parents": [ - 2527 - ], - "children": [ - 2535 + 36 ], - "area": 2149395.039294, + "children": [], + "area": 121442.705538, "iscrowd": 0, "segmentation": [] }, { - "id": 2535, - "strid": "f4ca23d8-6413-4981-84ac-fed75182c09c", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 6, - "category_name": "Caption", + "id": 39, + "strid": "7374a37a-f025-4d70-af3b-d555e4593867", + "image_id": 2, + "image_name": "10295.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1922.265, - 996.965, - 1645.4240000000002, - 84.20099999999991 + 481.67, + 279.928, + 217.83300000000003, + 248.04200000000003 ], "priority": 12, "parents": [ - 2542 + 36 ], "children": [], - "area": 1916430.9257250002, + "area": 134832.91976, "iscrowd": 0, "segmentation": [], - "text": "Fig. 3: Absolute change in blood pressure in response to CE and EE" + "text": "ee een ne ee\nmeasure direct exposure during an 8-hour\nshift. This was repeated by a second nurse\non @ consecutive &-hour shift with a new\nsampling tube. In this way, a total of four\nstationary, two personal and eight real time\nmeasurements were performed.\nAnalyzers were calibrated before and after\nLaboratory analyses were\naccording to ISOINEN standards. The\nSwedish occupational exposure guidelines\nwere used as a reference, since no national\nguidelines are avaliable. The exposure limit\nis Spm (ime weighted average (TWA)\n42mglm’ over an Shour period), North\nAmerican quidelines are more strict, with a\nmaximum of 2pm, while in the United\nKingdom it is more. liberal, allowing\naane ements eet" }, { - "id": 2540, - "strid": "414bef13-fb22-443c-ab95-caafcd9448b4", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 2, - "category_name": "Figure", + "id": 40, + "strid": "afbe4b4e-2471-4971-b16e-3eae228b7a5f", + "image_id": 2, + "image_name": "10295.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1931.656, - 2225.297, - 763.5839999999998, - 799.0990000000002 + 482.97, + 556.147, + 44.90700000000004, + 10.706999999999994 ], "priority": 13, "parents": [ - 2527 + 27 ], "children": [ - 2537 + 41 ], - "area": 4298508.301832, + "area": 268602.31659000006, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results" }, { - "id": 2537, - "strid": "e8a3fdc3-9d95-4df6-97f0-cacf47513b8f", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 6, - "category_name": "Caption", + "id": 41, + "strid": "4c158bfa-c380-4a7d-9946-644882ec73bb", + "image_id": 2, + "image_name": "10295.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1922.265, - 2070.525, - 652.5559999999998, - 133.3180000000002 + 482.692, + 569.696, + 217.67499999999995, + 104.73699999999997 ], "priority": 14, "parents": [ - 2540 + 40 ], "children": [], - "area": 3980097.7391250003, + "area": 274987.70163200004, "iscrowd": 0, "segmentation": [], - "text": "Figure 4: Absolute change\nin heart rate" + "text": "Our results are summarized in table 1. Time\nweighted measurements are expressed as\na percentage of exposure limits (NEN 689\nmodel). An exceeding can be ruled out i\nconcentrations are <10% of exposure limits,\nWe clearly show that peak concentrations\nand TWA are far below the allowed\nneninalionel eemane irais," }, { - "id": 2541, - "strid": "92761c3e-1fcd-464f-91d5-e875b2150c9d", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 2, - "category_name": "Figure", + "id": 42, + "strid": "b6ebf97b-9456-4ded-85f8-c0e44c6e455d", + "image_id": 2, + "image_name": "10295.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2753.587, - 2240.518, - 806.71, - 786.415 + 482.68, + 701.935, + 65.75600000000003, + 11.644000000000005 ], "priority": 15, "parents": [ - 2527 + 27 ], "children": [ - 2536 + 43 ], - "area": 6169461.238066, + "area": 338809.98579999997, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Discussion" }, { - "id": 2536, - "strid": "d6f46f5e-05af-49a3-a535-f5c152e2c416", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 6, - "category_name": "Caption", + "id": 43, + "strid": "d79438bd-b211-4ff6-bc9b-dc75228cd5b8", + "image_id": 2, + "image_name": "10295.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2813.39, - 2081.05, - 673.6060000000002, - 122.79300000000012 + 481.646, + 716.916, + 217.89799999999997, + 115.88400000000001 ], "priority": 16, "parents": [ - 2541 + 42 ], "children": [], - "area": 5854805.259500001, + "area": 345299.723736, "iscrowd": 0, "segmentation": [], - "text": "Figure 5: Absolute change\nin serum IL-6 level" + "text": "TNS GApORES 15 VOR S enesieics Shout\nbe reduced to a level as low as reasonably\nachievable’ (ALARA). Local differences in\nICU's necessitate quantification of exposure\nprior to routine use, in order to guarantee a\nsafe work environment. Furthermore,\nprotocols should be used to ensure a\nstandard way of care when using volatile\nanesthetics." }, { - "id": 2531, - "strid": "431b5032-aa8a-4274-a99b-5b107cc99d4f", - "image_id": 200605, - "image_name": "10362.png", + "id": 44, + "strid": "816119af-4305-445f-a4b3-d5f7a46ff284", + "image_id": 2, + "image_name": "10295.png", "category_id": 5, "category_name": "Section", "bbox": [ - 62.551, - 3121.491, - 1119.87, - 82.51699999999983 + 482.927, + 861.613, + 66.66600000000005, + 11.057000000000016 ], "priority": 17, "parents": [ - 2552 + 27 ], "children": [ - 2547 + 45 ], - "area": 195252.38354100002, + "area": 416096.18125100003, "iscrowd": 0, "segmentation": [], - "text": "MATERIALS AND METHOD" + "text": "" }, { - "id": 2547, - "strid": "8b862024-a12b-42f9-8daa-91b8434432b6", - "image_id": 200605, - "image_name": "10362.png", + "id": 45, + "strid": "f7453ae3-e2d4-49d4-8637-c28ccbcea9e5", + "image_id": 2, + "image_name": "10295.png", "category_id": 3, "category_name": "Text", "bbox": [ - 28.448, - 3242.071, - 1185.446, - 1546.799 + 482.14, + 875.891, + 218.09699999999998, + 119.21100000000001 ], "priority": 18, "parents": [ - 2531 + 44 ], "children": [], - "area": 92230.435808, + "area": 422302.08674, "iscrowd": 0, "segmentation": [], - "text": "The present non-randomised cross-over study\nwas conducted in the Exercise Physiology\nLaboratory, King George’s Medical University\n(KGMU), Lucknow after approval from the\nInstitutional Ethical Committee.\n\nTwenty-four apparently healthy males, aged 18-\n25 years, having body mass index (BMI) 18-23\nkg/m?,with sedentary lifestyle, voluntary\nparticipated in the study.\n\nAll participants done a session of concentric\nexercise (CE) for 45 minutes, followed by\neccentric exercise (EE) after a rest of 15 days.\n\nExercise was done on inclined (emphasised\nconcentric walk)/ declined (emphasised\neccentric walk) treadmill and with dumbbells.\n\nSystolic blood pressure (SBP), diastolic blood\npressure (DBP), mean arterial pressure (MAP),\npulse pressure (PP), heart rate (HR), and\nserum IL-6 level were measured/calculated just\nbefore and after the exercise sessions." + "text": "We concluded that sedation with\nsevoflurane and the AnaConDa® system\nwith the FlurAbsorb scavenger is safe in an\nICU setting. Occupational exposure is\nnegligible and meets _infornational\nstandards. These data highly contributed to\nstaff safely perception and awareness. Our\ndata may be helpful to those who want to\nfirgleanient-volallle srieethedion In ther GUL" }, { - "id": 2530, - "strid": "1ee16e67-17e4-463d-9d84-206d213acc1e", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 5, - "category_name": "Section", + "id": 46, + "strid": "53ca0a21-5b92-422e-8049-c7a337333a97", + "image_id": 3, + "image_name": "10301.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 1574.376, - 3115.597, - 580.5640000000001, - 82.51699999999983 - ], - "priority": 19, - "parents": [ - 2552 + 30.82, + 18.49, + 157.6, + 115.58 ], + "priority": -1, + "parents": [], "children": [ - 2548 + 48, + 49, + 61, + 59, + 50, + 52, + 55, + 47 ], - "area": 4905121.142472, + "area": 569.8617999999999, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 2548, - "strid": "d2cfb377-6575-4662-a292-7e789a2fd5f9", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 3, - "category_name": "Text", + "id": 47, + "strid": "7b47168e-a652-4662-9251-482d6755df66", + "image_id": 3, + "image_name": "10301.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 1271.086, - 3229.073, - 1164.6489999999997, - 348.355 + 89.379, + 149.978, + 1719.731, + 269.406 ], - "priority": 20, + "priority": 1, "parents": [ - 2530 + 46 ], "children": [], - "area": 4104429.483278, + "area": 13404.883662000002, "iscrowd": 0, "segmentation": [], - "text": "Based on our present findings, we may\nrecommend eccentric exercise training for\nreducing morbidity and mortality in elderly,\nfrail individuals or those at risk of\ncardiovascular diseases." + "text": "Genome Sequence Archive\n\na data repository for archiving sequence reads" }, { - "id": 2532, - "strid": "bccf8972-182d-4d0c-84f7-59c20c8e46f3", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 5, - "category_name": "Section", + "id": 48, + "strid": "35633ce6-1a03-4af7-a85e-cf1b133e32d4", + "image_id": 3, + "image_name": "10301.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1592.058, - 3651.956, - 536.3589999999999, - 100.19900000000007 + 82.332, + 474.055, + 2188.437, + 141.43599999999998 ], - "priority": 21, + "priority": 2, "parents": [ - 2552 - ], - "children": [ - 2550 + 46 ], - "area": 5814125.765448, + "children": [], + "area": 39029.896259999994, "iscrowd": 0, "segmentation": [], - "text": "DISCUSSION" + "text": "Yanqing Wang, Junwei Zhu, Tingting Chen, Sisi Zhang, Wenming Zhao”\nBeijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, P.R. China" }, { - "id": 2550, - "strid": "9b49d50d-55db-4e39-8bc0-eb000c8a3850", - "image_id": 200605, - "image_name": "10362.png", + "id": 49, + "strid": "31790e7a-7b32-4218-a66d-c399ac50d7e2", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1273.686, - 3772.403, - 1146.4509999999998, - 868.2869999999998 + 89.768, + 331.462, + 1548.757, + 87.20499999999998 ], - "priority": 22, + "priority": 3, "parents": [ - 2532 + 46 ], "children": [], - "area": 4804856.887457999, + "area": 29754.680816, "iscrowd": 0, "segmentation": [], - "text": "The lesser recruitment and discharge rate of\nmotor units during eccentric contractions\nrelative to concentric contractions* performed\nwith a similar absolute load might be a\npotential explanation for lesser cardiovascular\nresponse to CE as compared to EE.\n\nExercise-induced IL-6 levels majorly depends\non exercise intensity, duration and\ncarbohydrate availability’. EE might have\ncaused less physical exertion resulting in less\nenergy expenditure as compared to CE.\nTherefore, EE induced a lower IL-6 response." + "text": "a data repository for archiving sequence reads" }, { - "id": 2529, - "strid": "6116d2c4-b75d-40e8-a149-28e965c351e8", - "image_id": 200605, - "image_name": "10362.png", + "id": 50, + "strid": "991a74fa-82d2-4c5a-b08d-2968b9ae6f42", + "image_id": 3, + "image_name": "10301.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2602.888, - 3121.491, - 848.7440000000001, - 76.62300000000005 + 581.338, + 708.678, + 344.544, + 65.54700000000003 ], - "priority": 23, + "priority": 4, "parents": [ - 2552 + 46 ], "children": [ - 2549 + 51 ], - "area": 8124891.466008, + "area": 411981.45116399997, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Instruction" }, { - "id": 2549, - "strid": "c1752f7d-3121-4f85-b6e8-6751e5c5df9c", - "image_id": 200605, - "image_name": "10362.png", + "id": 51, + "strid": "98147df4-d077-4aa9-a6e1-7918a42163e1", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2500.727, - 3239.472, - 1050.2640000000001, - 332.75700000000006 + 68.311, + 810.062, + 1403.434, + 667.2319999999999 ], - "priority": 24, + "priority": 5, "parents": [ - 2529 + 50 ], "children": [], - "area": 8101035.096144, + "area": 55336.145282000005, "iscrowd": 0, "segmentation": [], - "text": "Future studies should involve various\npopulations for comparison, including\nathletes vs. non-athletes, females vs.\nmales and those of differing ages such as\nthe elderly vs. younger populations." + "text": "Genome Sequence Archive (GSA; http://bigd.big.ac.cn/gsa\nor http://gsa.big.ac.cn) is a data repository for archiving raw\nsequence data. As a core database resource of BIG Data\nCenter (http://bigd.big.ac.cn), GSA is built based on INSDC\ndata standards and structures and provides data archival\nservices for scientific communities not only in China but also\nthroughout the world. GSA accepts raw sequence reads\nproduced by a variety of sequencing platforms, stores both\nsequence reads and metadata, and provides free and\nunrestricted access to all publicly available data for worldwide\nscientific communities." }, { - "id": 2528, - "strid": "ad2fef36-ce7b-4993-86c0-29922c8d20c7", - "image_id": 200605, - "image_name": "10362.png", + "id": 52, + "strid": "78f300e5-ef8d-4e96-af84-ae7639b89a2d", + "image_id": 3, + "image_name": "10301.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2747.292, - 3651.956, - 571.723, - 82.51699999999983 + 250.365, + 1528.174, + 988.903, + 78.13499999999999 ], - "priority": 25, + "priority": 6, "parents": [ - 2552 + 46 ], "children": [ - 2551 + 53, + 54 ], - "area": 10032989.503152, + "area": 382601.28351000004, "iscrowd": 0, "segmentation": [], - "text": "REFERENCES" - }, - { - "id": 2551, - "strid": "e09a0d3b-f67e-44cb-97bb-263969e0070e", - "image_id": 200605, - "image_name": "10362.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 2492.928, - 3764.604, - 1055.4629999999997, - 873.4869999999996 - ], - "priority": 26, - "parents": [ - 2528 - ], - "children": [], - "area": 9384886.720511999, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 197370, - "strid": "c3d09bce-f92c-4ebd-93a4-ba3d98b17e91", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 0, - 0, - 266.85, - 212.73 - ], - "priority": -1, - "parents": [], - "children": [ - 197354, - 197360, - 197359, - 197356, - 197355, - 197358, - 197357 - ], - "area": 0, - "iscrowd": 0, - "segmentation": [] + "text": "Data submission and retrieval" }, { - "id": 197354, - "strid": "d35332d8-5e51-448f-990b-f7ff1d39d696", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 1, - "category_name": "Title", + "id": 53, + "strid": "fc0b76c0-f1dc-49b3-a3dc-7f7afebd079b", + "image_id": 3, + "image_name": "10301.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 193.124, - 500.618, - 3136.235, - 162.40799999999996 + 66.534, + 1648.366, + 1398.228, + 358.93499999999995 ], - "priority": 1, + "priority": 7, "parents": [ - 197370 + 52 ], "children": [], - "area": 96681.350632, + "area": 109672.383444, "iscrowd": 0, "segmentation": [], - "text": "Bibliometria da producao de dissertacoes e teses relacionadas a macrofitas\naquaticas nos ultimos dez anos" + "text": "Designed for compatibility, GSA follows INSDC data\nstandards and structures. All data are organized into four\nobjects, i.e., BioProject, BioSample, Experiment, and Run.\nBased on these standardized data objects, GSA not only\nfacilitates data submission and deposition, but also enables\ndata sharing and exchange." }, { - "id": 197355, - "strid": "a4c2701c-18c2-4085-b937-dee19f8687ad", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 0, - "category_name": "Author Info", + "id": 54, + "strid": "57676155-5fb6-47ff-b57f-09a22dc1688b", + "image_id": 3, + "image_name": "10301.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 89.231, - 704.33, - 3344.991, - 184.53700000000003 + 88.107, + 2031.719, + 1338.071, + 1137.848 ], - "priority": 2, + "priority": 8, "parents": [ - 197370 + 52 ], "children": [], - "area": 62848.07023, + "area": 179008.665933, "iscrowd": 0, - "segmentation": [], - "text": "Jordano Henrique de Pietro’; Rener Luciano de S. Ferraz?; Joao Teixeira Neto?; Fernanda G. Acre?; Marcelo de A. Barbosa?\n\n1-Discente do Curso Técnico em Meio Ambiente do Senac - SP, Unidade de Jaboticabal, Turma 7; 2- Docentes do Curso Técnico em Meio\nAmbiente do Senac - SP, Unidade de Jaboticabal; 7>- Doutorando em Agronomia (Ciéncia do Solo) UNESP." + "segmentation": [] }, { - "id": 197356, - "strid": "3f9e6f23-5462-4aca-8883-9eb91d5994f0", - "image_id": 208232, - "image_name": "9738.png", + "id": 55, + "strid": "e0482828-6b62-48b0-adb0-51253ab919d1", + "image_id": 3, + "image_name": "10301.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1352.653, - 915.016, - 739.5469999999998, - 112.90199999999993 + 249.262, + 3223.285, + 1031.996, + 71.81700000000001 ], - "priority": 3, + "priority": 9, "parents": [ - 197370 + 46 ], "children": [ - 197361 + 56, + 57, + 58 ], - "area": 1237699.137448, + "area": 803442.46567, "iscrowd": 0, "segmentation": [], - "text": "INTRODUCAO" + "text": "Data structure and organization" }, { - "id": 197361, - "strid": "aa832d26-e644-47ef-b36b-2758bb15bb08", - "image_id": 208232, - "image_name": "9738.png", + "id": 56, + "strid": "80265e93-711e-4277-9064-08e2d406e8df", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 39.371, - 1066.717, - 3453.735, - 724.154 + 71.192, + 3327.148, + 1397.454, + 251.14800000000014 ], - "priority": 4, + "priority": 10, "parents": [ - 197356 + 55 ], "children": [], - "area": 41997.715007000006, - "iscrowd": 0, - "segmentation": [], - "text": "Em decorréncia de atividades antropicas, sobretudo aquelas voltadas para os segmentos da industria, tem-se\nverificado, na contemporaneidade, expressivo aumento da poluicao das aguas. De fato, isto tem ocorrido no\nplaneta, principalmente em virtude de perdas ocorridas durante os processos produtivos. Neste sentido, a\ncomunidade cientifica tem buscado alternativas para remediar os danos oriundos destas praticas. Para tanto,\npesquisas estao sendo realizadas utilizando plantas macrofitas aquaticas para remocao dos _poluentes em\nambientes aquaticos, sendo esta estratéegia bastante promissora. A utilizagao de macrofitas aquaticas para\nremediagao da poluigao de ambientes aquaticos @€ uma técnica ecologicamente correta,. simples e\nextremamente sustentavel, sendo seu uso amplamente recomendado, notadamente por possuir baixo custo e\nelevada eficiéncia. objetivou-se com este trabalho realizar um levantamento bibliometrico visando diagnosticar o\ngrau de interesse das instituig¢6es de ensino superior brasileiras sobre o tema macrofitas aquaticas para\nrecuperacao de aguas poluidas." - }, - { - "id": 197357, - "strid": "7febc24c-0d44-44e7-93da-3e7d918c6261", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 568.043, - 1832.09, - 817.523, - 74.04899999999998 - ], - "priority": 5, - "parents": [ - 197370 - ], - "children": [ - 197362, - 197363 - ], - "area": 1040705.89987, - "iscrowd": 0, - "segmentation": [], - "text": "\"1 =a\n\nTODOLOGIA" - }, - { - "id": 197362, - "strid": "f0b7f287-1d95-4805-ad6f-1a6691483e55", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 40.967, - 1969.255, - 3455.627, - 591.9200000000001 - ], - "priority": 6, - "parents": [ - 197357 - ], - "children": [], - "area": 80674.469585, - "iscrowd": 0, - "segmentation": [], - "text": "Para a o desenvolvimento deste trabalho, realizou-se um levantamento bibliometrico, utilizando-se da Biblioteca\nDigital Brasileira de Teses e Dissertacgoes (BDTD). Para tanto, utilizou-se o campo de busca avancgada do portal,\nacessando-se os campos, resumo, titulo e assunto, sendo inseridas.nestes campos as palavras chave,\nmacrofitas e macrofitas aquaticas. Para o periodo de busca foi definido o critério a partir do ano de defesa,\npreenchendo-se os campos “a partir de” e “até” (Figura 1). Apos obtencgao dos titulos, foi realizada criteriosa\ntriagem para verificagao de ocorréncias de titulos repetidos, sendo estes eliminados do banco de dados quando\ndetectados. As variaveis extraidas dos dados consistiram em, numero de teses e dissertacédes publicadas em\nfuncgao dos anos de defesa, das regides, dos estados e das universidades. Os dados foram submetidos a analise\ndescritiva e os resultados expressos atraves de histogramas de frequéncias." - }, - { - "id": 197363, - "strid": "0ee6f8ec-aabe-4341-9e7c-85e7b1a549cd", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 48.776, - 2567.039, - 3415.965, - 406.3539999999998 - ], - "priority": 7, - "parents": [ - 197357 - ], - "children": [ - 197365 - ], - "area": 125209.89426400002, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 197365, - "strid": "c332b69f-f911-4740-a6cb-b0b300c2c1fd", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 54.691, - 3004.166, - 3437.315, - 55.23700000000008 - ], - "priority": 8, - "parents": [ - 197363 - ], - "children": [], - "area": 164300.84270600002, - "iscrowd": 0, - "segmentation": [], - "text": "Figura 1. Telas obtidas a partir do mecanismo de busca avancada da base online da BDTD. Jaboticabal, SP, 2014." - }, - { - "id": 197358, - "strid": "e0666dd4-2488-492a-85d0-5d3885841339", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 619.822, - 3113.864, - 729.103, - 74.50500000000011 - ], - "priority": 9, - "parents": [ - 197370 - ], - "children": [ - 197364, - 197369 - ], - "area": 1930041.412208, + "area": 236866.32041599997, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "GSA accepts data submissions from all over the world,\ncovers the spectrum of sequence reads generated by a\nvariety of sequencing platforms, and accommodates several\ncommonly used file formats, like FASTQ, BAM, and VCF." }, { - "id": 197369, - "strid": "14965028-6d62-484b-881f-793844857c5a", - "image_id": 208232, - "image_name": "9738.png", + "id": 57, + "strid": "a9d962bc-d72a-4580-ba6b-5b706c9cde01", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 39.691, - 3245.666, - 3457.143, - 125.70600000000013 + 1521.005, + 741.389, + 1397.0730000000003, + 477.2320000000001 ], - "priority": 10, + "priority": 11, "parents": [ - 197358 + 55 ], "children": [], - "area": 128823.72920600002, + "area": 1127656.3759450002, "iscrowd": 0, "segmentation": [], - "text": "Verificou-se que maior producao de teses e disserta¢oes ocorreu no ano de 2011 (Figura 1A), na regiao Sudeste\n(Figura 1B), no estado de Sao Paulo (Figura 1C), na Universidade Federal de Sao Carlos (Figura 1D)." + "text": "Since its inception in August 2015, GSA presents a dramatic\nincrease on data submissions in terms of the numbers of\nBioProjects and BioSamples, Experiments, and Runs, as well\nas file size. As of December 2016, GSA houses a total of 198\nBioProjects, 8674 BioSamples, 9263 Experiments and 10,745\nRuns for more than 80 species, submitted by more than 160\ndata providers from a total of 39 institutions, and archives\nmore than 200 TBs of sequence data." }, { - "id": 197364, - "strid": "1b64b688-843c-4f6c-8cb5-87a185b99987", - "image_id": 208232, - "image_name": "9738.png", + "id": 58, + "strid": "d9240aeb-3c1d-404a-b803-167ac1829b58", + "image_id": 3, + "image_name": "10301.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 46.988, - 3385.498, - 3465.87, - 496.68100000000004 - ], - "priority": 11, - "parents": [ - 197358 - ], - "children": [ - 197366 - ], - "area": 159077.780024, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 197366, - "strid": "53c58c4e-0c09-4b7d-8b08-e237e7c8c274", - "image_id": 208232, - "image_name": "9738.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 44.019, - 3891.193, - 3449.56, - 55.6550000000002 + 1653.259, + 1277.223, + 1110.989, + 1399.114 ], "priority": 12, "parents": [ - 197364 + 55 ], "children": [], - "area": 171286.424667, + "area": 2111580.419757, "iscrowd": 0, - "segmentation": [], - "text": "Figura 1..Producao de teses e dissertacoes em funcao do ano de publicacao (A), regiao (B), estado (C) e" + "segmentation": [] }, { - "id": 197359, - "strid": "60c9b9f0-d0b6-4852-9c31-f0facb6b1fa4", - "image_id": 208232, - "image_name": "9738.png", + "id": 59, + "strid": "ed559d9d-011b-4de2-bd63-bfa5ea9b1eaa", + "image_id": 3, + "image_name": "10301.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2519.237, - 4000.06, - 692.6790000000001, - 93.96799999999985 + 2046.379, + 2732.497, + 335.83600000000024, + 76.11599999999999 ], "priority": 13, "parents": [ - 197370 + 46 ], "children": [ - 197367 + 60 ], - "area": 10077099.15422, + "area": 5591724.478363, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Reference" }, { - "id": 197367, - "strid": "828b2855-0246-48f6-a83f-8195a8fb6e79", - "image_id": 208232, - "image_name": "9738.png", + "id": 60, + "strid": "5c204b28-51d3-4cba-8fba-825ad37da3f2", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 52.522, - 4158.911, - 3454.702, - 190.09599999999955 + 1519.139, + 2836.882, + 1401.381, + 335.12699999999995 ], "priority": 14, "parents": [ - 197359 + 59 ], "children": [], - "area": 218434.323542, + "area": 4309618.084598, "iscrowd": 0, "segmentation": [], - "text": "Com base na analise bibliometrica, conclui-se que as institui¢c¢oes de ensino superior brasileiras possuem\ninteresse sobre o tema macrofitas aquaticas para recuperacao de aguas poluidas, sobretudo no estado de Sao\nPaulo, na regiao Sudeste, tendo a maior frequéncia de producoées bibliograficas ocorrido no ano de 2011." + "text": "Yanqing Wang et al. GSA: Genome Sequence Archive.\nGenomics Proteomics Bioinformatics 2017, 15(1):14-18.\n\nBIG Data Center Members. The BIG Data Center: from\ndeposition to integration to translation. Nucleic Acids Res\n2017, 45(D1):D18-D24." }, { - "id": 197360, - "strid": "56a14e36-b2a8-4340-922d-35006aa378ed", - "image_id": 208232, - "image_name": "9738.png", + "id": 61, + "strid": "a6d042bf-e1f2-4608-aace-0272c9de8670", + "image_id": 3, + "image_name": "10301.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1197.102, - 4388.848, - 1047.573, - 75.2510000000002 + 1938.942, + 3215.96, + 549.3899999999999, + 75.69399999999996 ], "priority": 15, "parents": [ - 197370 + 46 ], "children": [ - 197368 + 62 ], - "area": 5253898.718496, + "area": 6235559.91432, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Correspondence" }, { - "id": 197368, - "strid": "bf233e3c-3d28-47b1-8dca-d0ddd3022d2b", - "image_id": 208232, - "image_name": "9738.png", + "id": 62, + "strid": "4db2ad91-a408-479f-bb1b-48ef352fa046", + "image_id": 3, + "image_name": "10301.png", "category_id": 3, "category_name": "Text", "bbox": [ - 49.524, - 4531.849, - 2749.749, - 54.952000000000226 + 1518.964, + 3323.222, + 1406.4390000000003, + 246.78999999999996 ], "priority": 16, "parents": [ - 197360 + 61 ], "children": [], - "area": 224435.28987600002, + "area": 5047854.582008, "iscrowd": 0, "segmentation": [], - "text": "Ao Servico Nacional de Aprendizagem Comercial e ao Grupo de Pesquisa Agroecoenergia." + "text": "We sincerely thank Prof. Jingchu Luo and Prof. Weimin Zhu\nfor their valuable suggestions and constructive discussions on\nthis work.\n\nIf have any question, please contact Yanqing Wang." }, { - "id": 151214, - "strid": "3ebfbb3f-fa47-4576-8792-54b37bf4b383", - "image_id": 206381, - "image_name": "21277.png", + "id": 63, + "strid": "82ea0859-4e0d-49db-806c-5724c03fed4b", + "image_id": 4, + "image_name": "10329.png", "category_id": 9, "category_name": "Root", "bbox": [ - 2636.69, - 211.22, - 356.6199999999999, - 277.36 + 13.17, + 22.55, + 63.36, + 63.35000000000001 ], "priority": -1, "parents": [], "children": [ - 151198, - 151211, - 151213, - 151212, - 151200, - 151197, - 151201 + 65, + 66, + 72, + 70, + 76, + 74, + 64, + 68, + 79 ], - "area": 556921.6618, + "area": 296.9835, "iscrowd": 0, "segmentation": [] }, { - "id": 151198, - "strid": "fc72ff78-e6b2-4608-bb02-6f15245389cb", - "image_id": 206381, - "image_name": "21277.png", + "id": 64, + "strid": "3dfdd099-c42b-41ba-992f-f1bc9c00280c", + "image_id": 4, + "image_name": "10329.png", "category_id": 1, "category_name": "Title", "bbox": [ - 82.521, - 537.3, - 2420.807, - 254.606 + 93.114, + 44.982, + 651.184, + 35.623999999999995 ], "priority": 1, "parents": [ - 151214 + 63 ], "children": [], - "area": 44338.533299999996, + "area": 4188.453948, "iscrowd": 0, "segmentation": [], - "text": "Comparison of Deconvolution Techniques\nfor Spatially Resolved Transcriptomics Data" + "text": "Update Notifications for Biological Databases" }, { - "id": 151197, - "strid": "3dc9a539-f5de-4a62-ad1c-bd30ca351f5c", - "image_id": 206381, - "image_name": "21277.png", + "id": 65, + "strid": "18d9bc86-be57-4391-b169-015a96c9616d", + "image_id": 4, + "image_name": "10329.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 64.616, - 113.596, - 2412.019, - 362.106 + 282.409, + 93.771, + 297.26, + 74.57000000000001 ], "priority": 2, "parents": [ - 151214 + 63 ], "children": [], - "area": 7340.119136, + "area": 26481.774339, "iscrowd": 0, "segmentation": [], - "text": "Carolin Walter *, Sarah Sandmann *, Ada Anike PohImann *, Alina Sophie\nDisch *, Kornelius Kerl *, and Julian Varghese *\n\n“Institute of Medical Informatics, University of Munster, Germany\n*Dep. of Paediatric Haematology and Oncology, University of Munster, Germany" + "text": "Suzanne Paley and Peter D Karp\n‘SRI International, Menlo Park CA.\nBioCyc.org, EcoCyc.org, MetaCyc.org" }, { - "id": 151200, - "strid": "a861956d-1dbc-489d-9fde-bcaefc2f2295", - "image_id": 206381, - "image_name": "21277.png", + "id": 66, + "strid": "00ccf8a2-2c0b-448b-8fd8-2d19472027e5", + "image_id": 4, + "image_name": "10329.png", "category_id": 5, "category_name": "Section", "bbox": [ - 123.684, - 880.881, - 613.537, - 92.88599999999997 + 92.069, + 195.546, + 43.56699999999999, + 23.35499999999999 ], "priority": 3, "parents": [ - 151214 + 63 ], "children": [ - 151199 + 67 ], - "area": 108950.885604, + "area": 18003.724674, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Goal" }, { - "id": 151199, - "strid": "4236b639-89f9-4abf-bd9c-dc9786dbfa07", - "image_id": 206381, - "image_name": "21277.png", + "id": 67, + "strid": "65bb88b2-68d4-42c1-beba-0a553793fb39", + "image_id": 4, + "image_name": "10329.png", "category_id": 3, "category_name": "Text", "bbox": [ - 116.351, - 990.877, - 1488.621, - 862.863 + 193.567, + 192.048, + 555.334, + 30.12100000000001 ], "priority": 4, "parents": [ - 151200 + 66 ], "children": [], - "area": 115289.52982699999, + "area": 37174.155216, "iscrowd": 0, "segmentation": [], - "text": "Spatially Resolved Transcriptomics (ST) is a\nmolecular profiling technique that allows insight\ninto tumor heterogeneity and the composition of\ntumor microenvironment data [1]. Current ST\ntechniques typically provide a multi-cell resolution\nwith cell mixtures for small spatial areas (‘spots’).\nComputational deconvolution methods can then be\nemployed to approximate the expression and type\nof the involved cells per spot. While the algorithms\nSTdeconvolve (SD) [2] and SPOTlight (SL) [3] offer\nfunctions for spot-wise ST deconvolution, the Seurat\n[4] pipeline uses an integration approach (SI) to\npredict the cell composition for each ST spot." + "text": "To ensure that biologists get the greatest value from curated data collections by making them\naware of new information of particular interest to them as soon as it becomes available." }, { - "id": 151201, - "strid": "505d628d-5894-4312-9731-4328c3b429d2", - "image_id": 206381, - "image_name": "21277.png", + "id": 68, + "strid": "45772309-cc01-4230-a5ba-440971cb8891", + "image_id": 4, + "image_name": "10329.png", "category_id": 5, "category_name": "Section", "bbox": [ - 121.24, - 1914.849, - 435.09799999999996, - 105.10799999999995 + 151.805, + 253.486, + 140.582, + 22.456999999999994 ], "priority": 5, "parents": [ - 151214 + 63 ], "children": [ - 151205, - 151206 + 69 ], - "area": 232156.29275999998, + "area": 38480.44223, "iscrowd": 0, "segmentation": [], - "text": "Methods" + "text": "Basic Approach" }, { - "id": 151205, - "strid": "8542c430-8a5f-4dbb-a82b-99eb13bfd535", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 3, - "category_name": "Text", + "id": 69, + "strid": "6fd2388c-0b2f-465f-a582-e82532d8e7e0", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 122.563, - 2028.405, - 1487.922, - 603.6859999999999 + 54.525, + 292.286, + 333.922, + 223.06700000000006 ], "priority": 6, "parents": [ - 151201 + 68 ], "children": [], - "area": 248607.402015, + "area": 15936.89415, "iscrowd": 0, - "segmentation": [], - "text": "Three computational deconvolution and integration\nalgorithms for ST data were compared on a set of\neight original human 10X Visium retinoblastoma\nSamples (Figure 1). Matched single-cell RNA-seq\n(ScCRNA) data with detailed annotations was\navailable as reference dataset. Deconvolutions for\ndifferent topic numbers and levels of details for the\nreference annotation were created and the run time\nof the algorithms was tested with basic R functions." + "segmentation": [] }, { - "id": 151206, - "strid": "59896358-4e04-4794-a76f-2016631674cc", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 2, - "category_name": "Figure", + "id": 70, + "strid": "08ced5a6-606e-4641-bc8f-292f15578bdd", + "image_id": 4, + "image_name": "10329.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 102.523, - 2634.595, - 1502.952, - 608.6950000000002 + 89.172, + 551.104, + 277.47, + 17.624000000000024 ], "priority": 7, "parents": [ - 151201 + 63 ], "children": [ - 151207 + 71 ], - "area": 270106.583185, + "area": 49143.045888, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 151207, - "strid": "6c1a74b2-bcfe-49f9-ba55-bc2f04d4e890", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 6, - "category_name": "Caption", + "id": 71, + "strid": "d96ce7ab-d9ca-4178-b26e-e3126ac185b2", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 120.058, - 3255.816, - 1495.437, - 170.33399999999983 + 55.856, + 582.092, + 336.32, + 271.62 ], "priority": 8, "parents": [ - 151206 + 70 ], "children": [], - "area": 390886.757328, + "area": 32513.330752, "iscrowd": 0, - "segmentation": [], - "text": "Figure 1: Analysis workflow. After a preprocessing step with\nSpaceRanger 1.3.0, spot-wise deconvolutions were calculated for\nthe ST data and annotated based on the matched scRNA data." + "segmentation": [] }, { - "id": 151213, - "strid": "32742b30-232d-4694-b5f8-8181bd96a50c", - "image_id": 206381, - "image_name": "21277.png", + "id": 72, + "strid": "15d463a4-d803-410e-ae66-4f1031ab8b9f", + "image_id": 4, + "image_name": "10329.png", "category_id": 5, "category_name": "Section", "bbox": [ - 125.068, - 3493.783, - 360.708, - 87.67200000000003 + 104.757, + 869.087, + 243.74, + 21.482999999999947 ], "priority": 9, "parents": [ - 151214 + 63 ], "children": [ - 151204, - 151202, - 151208 + 73 ], - "area": 436960.452244, + "area": 91042.946859, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Sample Gene Notifications" }, { - "id": 151208, - "strid": "7213763c-7e9b-4216-982e-8458a39b0490", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 3, - "category_name": "Text", + "id": 73, + "strid": "9ec6e5f9-5f59-4981-99d5-3cba113e8d1c", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 125.068, - 3596.485, - 1480.407, - 603.6860000000001 + 64.404, + 900.869, + 330.957, + 166.84600000000012 ], "priority": 10, "parents": [ - 151213 + 72 ], "children": [], - "area": 449805.18598, + "area": 58019.567076, "iscrowd": 0, - "segmentation": [], - "text": "The Seurat integration approach and SPOTlight both\nindicated a high proportion of tumor cells (general\ntumor or tumor cones) in most of the ST clusters.\nFor most STdeconvolve cell types, correlation\nresults were high for the different tumor types as\nwell. The Seurat integration indicated a notable\npresence of glia cells in clusters 1 and 6, and\nbipolar cells in cluster 6 (Figure 2), which matched\nthe marker-based expert annotation of the dataset." + "segmentation": [] }, { - "id": 151202, - "strid": "d7de070e-afea-451f-a8a4-41c55ba4a559", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 2, - "category_name": "Figure", + "id": 74, + "strid": "fc525209-7938-4ff6-b963-b9fe158e6d19", + "image_id": 4, + "image_name": "10329.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1656.304, - 846.659, - 1515.5100000000002, - 857.974 + 489.694, + 255.492, + 249.402, + 18.657999999999987 ], "priority": 11, "parents": [ - 151213 + 63 ], "children": [ - 151203 + 75 ], - "area": 1402324.688336, + "area": 125112.899448, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "What Can Be Subscribed To" }, { - "id": 151203, - "strid": "a580cb48-441a-48da-bb1b-52ec67a96c61", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 6, - "category_name": "Caption", + "id": 75, + "strid": "d9f17b11-43af-4adb-994a-831aa99080cb", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1666.082, - 1711.966, - 1500.843, - 153.9949999999999 + 450.13, + 288.229, + 310.784, + 241.05699999999996 ], "priority": 12, "parents": [ - 151202 + 74 ], "children": [], - "area": 2852275.737212, + "area": 129740.51977, "iscrowd": 0, - "segmentation": [], - "text": "Figure 2: Deconvolution results per ST cluster. a) Seurat\nintegration (prediction scores), b) SPOTlight (deconvolution\nmatrix), c) STdeconvolve (correlation to reference cell types)." + "segmentation": [] }, { - "id": 151204, - "strid": "53b91410-0dfa-4351-b02c-143191cc7e6a", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 3, - "category_name": "Text", + "id": 76, + "strid": "44731f7a-14bb-4cdf-8eba-78a39e65fd2b", + "image_id": 4, + "image_name": "10329.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1665.593, - 1880.615, - 1530.506, - 676.3280000000002 + 484.514, + 550.667, + 259.79599999999994, + 21.086000000000013 ], "priority": 13, "parents": [ - 151213 + 63 ], - "children": [], - "area": 3132339.179695, + "children": [ + 77, + 78 + ], + "area": 266805.87083800003, "iscrowd": 0, "segmentation": [], - "text": "In contrast, SPOTlight mainly identified tumor cells\nand B cells in the dataset. STdeconvolve's cell types\nusually showed correlations of 0.5 or higher with\nmultiple reference cell types, with a general trend for\nhigh tumor and tumor cones proportions, and bipolar\ncells. This pattern was similar for all eight samples.\n\nMedian run times in minutes were comparable\nbetween algorithms (SL=6.06, SI=8.76, SD=13.8). All\nthree algorithms are integrated in the R/Bioconductor\nenvironment and include detailled documentation." + "text": "How to Subscribe to Objects" }, { - "id": 151212, - "strid": "879dce14-0b4a-438e-a08c-1d2a0507f6d4", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 5, - "category_name": "Section", + "id": 77, + "strid": "786c66d5-222e-499d-acd9-0922d396d277", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1660.583, - 2642.11, - 1224.906, - 92.68199999999979 + 447.253, + 580.088, + 309.344, + 79.93899999999996 ], "priority": 14, "parents": [ - 151214 + 76 ], - "children": [ - 151209 - ], - "area": 4387442.950130001, + "children": [], + "area": 259446.09826399997, "iscrowd": 0, - "segmentation": [], - "text": "Discussion & Conclusion" + "segmentation": [] }, { - "id": 151209, - "strid": "5c1a92a5-09ba-4fec-aebe-aab6113e9bca", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 3, - "category_name": "Text", + "id": 78, + "strid": "9c0afc44-d540-4d8c-9fa5-69b2120da79f", + "image_id": 4, + "image_name": "10329.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1660.583, - 2747.317, - 1540.525, - 748.971 + 463.381, + 673.384, + 293.20400000000006, + 179.42700000000002 ], "priority": 15, "parents": [ - 151212 + 76 ], "children": [], - "area": 4562147.905811001, + "area": 312033.351304, "iscrowd": 0, - "segmentation": [], - "text": "Deconvoluted cell types and marker-based annotation\nof ST clusters by domain experts varied depending on\nthe cell proportions and composition of the underlying\ntissue, with higher concordance for transcriptionally\ndistinct cell types, and cell types with a _ high\nfrequency in both ST and scRNA data. The Seurat\nintegration generally yielded the most accurate\nresults for the eight retinoblastoma samples. Further\nresearch is required to achieve more consistent and\nreliable results for less frequent or more similar cell\ntypes; an improved resolution of ST data is desirable." + "segmentation": [] }, { - "id": 151211, - "strid": "4f9040b4-4815-4b2d-9b9f-69b3bd0c8226", - "image_id": 206381, - "image_name": "21277.png", + "id": 79, + "strid": "17d08626-a964-4c3e-93ce-514980c4423f", + "image_id": 4, + "image_name": "10329.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1668.098, - 3566.425, - 566.1120000000001, - 105.20699999999988 + 479.151, + 870.137, + 264.30199999999996, + 20.66700000000003 ], "priority": 16, "parents": [ - 151214 + 63 ], "children": [ - 151210 + 80 ], - "area": 5949146.40965, + "area": 416927.01368699997, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Sample Pathway Notification" }, { - "id": 151210, - "strid": "5824ffb1-2d9e-4161-bf15-8d53c908a6d7", - "image_id": 206381, - "image_name": "21277.png", - "category_id": 3, - "category_name": "Text", + "id": 80, + "strid": "c5c1a5bf-5d02-4129-8ecd-fe3c1e22cfb7", + "image_id": 4, + "image_name": "10329.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1660.583, - 3679.147, - 1538.0210000000002, - 511.0039999999999 + 441.671, + 900.672, + 329.88899999999995, + 155.35500000000002 ], "priority": 17, "parents": [ - 151211 + 79 ], "children": [], - "area": 6109528.962701, + "area": 397800.702912, "iscrowd": 0, - "segmentation": [], - "text": "[1] Ahmed R et al. Single-Cell RNA Sequencing with Spatial\nTranscriptomics of Cancer Tissues. Int J Mol Sci. (2022). [2] Miller B\net al. Reference-free cell type deconvolution of multi-cellular pixel-\nresolution spatially resolved transcriptomics data. Nat. Commun.\n(2022). [3] Elosua-Bayes M et al. SPOTlight: seeded NMF regression\nto deconvolute spatial transcriptomics spots with single-cell\ntranscriptomes. Nucleic Acids Res. (2021). [4] Hao et al. Integrated\nanalysis of multimodal single-cell data. Cell (2021)." + "segmentation": [] }, { - "id": 97274, - "strid": "dda94b02-4bc4-40c8-bb21-c83b0bf87231", - "image_id": 204262, - "image_name": "121745.png", + "id": 81, + "strid": "565ed524-9dc0-404c-bef8-11ec9e93fd17", + "image_id": 5, + "image_name": "10334.png", "category_id": 9, "category_name": "Root", "bbox": [ - 47.06, - 78.85, - 143.42, - 209.6 + 2998.26, + 92.35, + 179.95999999999958, + 125.47 ], "priority": -1, "parents": [], "children": [ - 97259, - 97258, - 97262, - 97264, - 97260, - 97261, - 97257, - 97263 + 83, + 88, + 84, + 82, + 92 ], - "area": 3710.681, + "area": 276889.311, "iscrowd": 0, "segmentation": [] }, { - "id": 97257, - "strid": "69b9fbdf-8d44-4cb8-b19e-a3c0014a6285", - "image_id": 204262, - "image_name": "121745.png", + "id": 82, + "strid": "7d3e9edf-def2-4d99-b47b-518b563dc8a3", + "image_id": 5, + "image_name": "10334.png", "category_id": 1, "category_name": "Title", "bbox": [ - 298.543, - 95.039, - 2297.667, - 233.051 + 50.236, + 67.957, + 2823.8, + 171.981 ], "priority": 1, "parents": [ - 97274 + 81 ], "children": [], - "area": 28373.228177, + "area": 3413.8878519999994, "iscrowd": 0, "segmentation": [], - "text": "First approach to the identification of clinically relevant non tuberculous\nmycobacteria (NTM) from solid media by matrix-assisted laser\ndesorption/ionization spectrometry (MALDI-TOF MS) protein analysis" + "text": "Residue data and intrinsic disorder: extending InterPro functionality to improve\nprotein sequence annotation" }, { - "id": 97258, - "strid": "cac60cee-e20b-42c1-86ea-97faca9dcefe", - "image_id": 204262, - "image_name": "121745.png", + "id": 83, + "strid": "3211b633-3665-4337-8425-16ee01797885", + "image_id": 5, + "image_name": "10334.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 283.89, - 350.34, - 2333.487, - 107.08800000000002 + 47.832, + 293.289, + 1896.235, + 155.625 ], "priority": 2, "parents": [ - 97274 + 81 ], "children": [], - "area": 99458.02259999998, + "area": 14028.599447999999, "iscrowd": 0, "segmentation": [], - "text": "M. B. Orlandoni', R. Paul’, J. Monteserin', G. Lafuente’, V. Ritacco'?, B. Lopez!\nTINEI-ANLIS Dr. C. Malbran, Vélez Sarsfield 563; 2CONICET, Buenos Aires, Argentina. Email: borlandoni@anlis.gov.ar" + "text": "Alex Mitchell, Hsin-Yu Chang, Neil Rawlings, Lorna Richardson,\nAmaia Sangrador-Vegas & Robert D. Finn" }, { - "id": 97259, - "strid": "0d030c63-6723-46a5-9daa-cf6aaf161d2e", - "image_id": 204262, - "image_name": "121745.png", + "id": 84, + "strid": "9c4b03fb-a06f-47c8-b675-e884fa85858d", + "image_id": 5, + "image_name": "10334.png", "category_id": 5, "category_name": "Section", "bbox": [ - 166.979, - 518.945, - 325.278, - 48.09000000000003 + 148.802, + 745.27, + 330.27, + 53.932000000000016 ], "priority": 3, "parents": [ - 97274 + 81 ], "children": [ - 97270 + 86, + 85 ], - "area": 86652.91715500002, + "area": 110897.66653999999, "iscrowd": 0, "segmentation": [], "text": "Introduction" }, { - "id": 97270, - "strid": "eb6cf6ec-ce8a-4219-9142-a767fb8faf3e", - "image_id": 204262, - "image_name": "121745.png", + "id": 85, + "strid": "4ece69ca-049d-4fad-980e-18245c108d0d", + "image_id": 5, + "image_name": "10334.png", "category_id": 3, "category_name": "Text", "bbox": [ - 162.357, - 604.561, - 2833.233, - 264.57499999999993 + 147.595, + 814.604, + 1463.148, + 462.501 ], "priority": 4, "parents": [ - 97259 + 84 ], "children": [], - "area": 98154.710277, + "area": 120231.47738000001, "iscrowd": 0, "segmentation": [], - "text": "NTM comprise a large group of environmental organisms, many of which are opportunistic human pathogens. Species identification of acid- fast\nbacilli isolated from clinical specimens continues posing a challenge to diagnostic laboratories. Recently, the widespread implementation of\nMALDI-TOF MS in different health care settings has allowed reduction of turnaround time and cost of bacterial identification [1]. As a national\nreference centre for infectious diseases, our institute counts with a MALDI-TOF equipment which is being applied to identification of other\nmicrobial pathogens. However, there is less experience in its use for the speciation of mycobacteria [2]." + "text": "InterPro = (http://www.ebi.ac.uk/interpro/) is a_ freely\navailable database used to classify protein sequences into\nfamilies and to predict the presence of important domains\nand sites. The resource is based around diagnostic\nsignatures, provided by different member databases,\nagainst which protein sequences are searched to\ndetermine their potential functions." }, { - "id": 97260, - "strid": "a04d1dc0-4e18-42ad-8dcb-f8e043fbfcfb", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 5, - "category_name": "Section", + "id": 86, + "strid": "acb13e50-88e1-4930-9946-0f12e5ea21b9", + "image_id": 5, + "image_name": "10334.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 150.477, - 897.511, - 251.80299999999997, - 57.92700000000002 + 121.172, + 1333.171, + 1486.903, + 941.3440000000003 ], "priority": 5, "parents": [ - 97274 + 84 ], "children": [ - 97271 + 87 ], - "area": 135054.762747, + "area": 161542.996412, "iscrowd": 0, - "segmentation": [], - "text": "Objective" + "segmentation": [] }, { - "id": 97271, - "strid": "9f65b25d-1346-4ed9-ac18-7e1a8a7d1a77", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 3, - "category_name": "Text", + "id": 87, + "strid": "079f1257-0aed-4846-91bd-b67b2c2b0115", + "image_id": 5, + "image_name": "10334.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 147.541, - 980.12, - 1884.263, - 47.071000000000026 + 139.41, + 2305.997, + 1463.113, + 203.32900000000018 ], "priority": 6, "parents": [ - 97260 + 86 ], "children": [], - "area": 144607.88492, + "area": 321479.04176999995, "iscrowd": 0, "segmentation": [], - "text": "To evaluate MALDI-TOF MS protein analysis for identification of clinically relevant NTM species." + "text": "Figure 1: Fourteen different member databases with differing methods of\nsignature production and biological focuses make up the InterPro\nresource. Databases with a Y provide some form of residue-specific\nannotation." }, { - "id": 97261, - "strid": "7f80026b-fe6d-4af6-91e5-f33f99df5093", - "image_id": 204262, - "image_name": "121745.png", + "id": 88, + "strid": "0b87e26c-9a95-4d2e-86e3-8aa013d40c20", + "image_id": 5, + "image_name": "10334.png", "category_id": 5, "category_name": "Section", "bbox": [ - 175.94, - 1084.631, - 227.44, - 45.858999999999924 + 133.125, + 2590.304, + 835.554, + 53.82499999999982 ], "priority": 7, "parents": [ - 97274 + 81 ], "children": [ - 97266, - 97272 + 90, + 89 ], - "area": 190829.97814000002, + "area": 344834.22000000003, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Annotation of intrinsic disorder" }, { - "id": 97272, - "strid": "5fa6de45-31bb-41d4-b6e2-7e3d1788c414", - "image_id": 204262, - "image_name": "121745.png", + "id": 89, + "strid": "25e4325d-e839-49a4-849a-c42dfe6c6926", + "image_id": 5, + "image_name": "10334.png", "category_id": 3, "category_name": "Text", "bbox": [ - 170.484, - 1173.002, - 1519.485, - 691.0900000000001 + 135.072, + 2654.598, + 1467.109, + 397.53899999999976 ], "priority": 8, "parents": [ - 97261 + 88 ], "children": [], - "area": 199978.072968, + "area": 358561.861056, "iscrowd": 0, "segmentation": [], - "text": "We selected 57 clinical isolates from our diagnostic routine (47 from patients\nwith proven mycobacteriosis). The isolates had been unambiguously identified\nby phenotypic tests and PRA-hsp65 as belonging to 13 NTM species. We\nre-cultured the bacilli on the L6wenstein—Jensen slants routinely used in our\nlab instead of doing it on the costly 7H11 Middlebrook agar suggested by the\nmanufacturers. We extracted proteins according to Saleeb et al. [3], with\nminor modifications. We spotted duplicate samples onto a steel target plate\nin the MALDI Biotyper system, Bruker Daltonics. Each spot was measured\nusing 240 laser shots. Spectra were analyzed against the Bruker database\nv1. According to the manufacturers, optimal identification to the species-level\nis achieved with scores 1.7 to 22.0 while scores <1.7 are considered\nunreliable. The whole MALDI-TOF procedure, including reading of results,\nwas completed in one working day." + "text": "InterPro has recently added prediction of intrinsically\ndisordered regions (IDRs) -— polypeptide segments that\nhave little or no three-dimensional structure - through\nintegration of MobiDB Lite. This tool combines eight\ndifferent prediction methods to generate consensus IDR\nannotations, focusing on long disordered regions." }, { - "id": 97266, - "strid": "5bb8ab63-e8e7-490f-a87d-bf8a8c0e00c9", - "image_id": 204262, - "image_name": "121745.png", + "id": 90, + "strid": "371b7111-2c9a-4f24-9ba5-71c6d75906ca", + "image_id": 5, + "image_name": "10334.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1755.985, - 1100.433, - 1284.961, - 751.038 + 133.738, + 3108.269, + 1488.583, + 991.3610000000003 ], "priority": 9, "parents": [ - 97261 + 88 ], - "children": [], - "area": 1932343.841505, + "children": [ + 91 + ], + "area": 415693.67952199996, "iscrowd": 0, "segmentation": [] }, { - "id": 97262, - "strid": "44c9709e-9198-44cb-b08b-c4c7f0f48894", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 5, - "category_name": "Section", + "id": 91, + "strid": "092fa1ef-0fd3-4e79-a468-ae356e82976a", + "image_id": 5, + "image_name": "10334.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 184.21, - 1937.388, - 197.49000000000004, - 45.863000000000056 + 148.387, + 4143.611, + 1463.432, + 158.53099999999995 ], "priority": 10, "parents": [ - 97274 + 90 ], - "children": [ - 97265, - 97267, - 97273 - ], - "area": 356886.24348, + "children": [], + "area": 614858.005457, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Figure 2: MobiDB Lite IDR annotations in InterPro. IDRs have a wide\nrange of potential functions, from acting as flexible linkers between\ndomains, to interacting with other proteins and modifying their activity." }, { - "id": 97273, - "strid": "0065d7c0-927e-4930-ba3c-ce83ff650865", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 3, - "category_name": "Text", + "id": 92, + "strid": "cb83ccc2-c172-42dd-ae01-01d6a2570291", + "image_id": 5, + "image_name": "10334.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 179.952, - 2027.054, - 2806.557, - 261.73099999999977 + 1703.683, + 747.528, + 664.654, + 52.797000000000025 ], "priority": 11, "parents": [ - 97262 + 81 ], - "children": [], - "area": 364772.421408, + "children": [ + 99, + 94, + 96, + 98, + 93 + ], + "area": 1273550.745624, "iscrowd": 0, "segmentation": [], - "text": "MALDI-TOF MS identified 49/57 (86%) isolates to the species level with different degrees of certitude: 41/49 (84%) yielded scores >1.7 and\n8/49 (14%) scores <1.7. Of the 8 isolates which remained unidentified, 4 belong to species represented by only one spectrum in the Bruker\ndatabase. Seeking to improve accuracy, we assessed different extraction conditions in parallel experiments using 8 isolates from different\nNTM species. The best condition included 0.5% tween 80 and 100% formic acid. This modified protocol yielded higher scores with extracts\nobtained from Lowenstein-Jensen medium, thus allowing better NTM identification without compromising budget or routine lab workflow." + "text": "Residue-level annotation" }, { - "id": 97265, - "strid": "83eff33a-cc1e-44a2-8ef7-2fc8eb2c26fd", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 7, - "category_name": "Table", + "id": 93, + "strid": "759d5d59-3335-49dd-a9b1-a1438ae6cf2d", + "image_id": 5, + "image_name": "10334.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 170.599, - 2375.424, - 1403.96, - 762.1089999999999 + 1702.457, + 814.468, + 1465.9929999999997, + 328.783 ], "priority": 12, "parents": [ - 97262 + 92 ], "children": [], - "area": 405244.95897599997, + "area": 1386596.7478760001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Two recently added member databases, CDD and SLFD,\nprovide specific residue-level annotation, enabling\nidentification of important amino acids, such as those\ncomprising ligand-binding or active sites. These provide\nan additional tier to the annotations provided by InterPro." }, { - "id": 97267, - "strid": "37658b50-2c76-4231-b848-a9fbe5f726ce", - "image_id": 204262, - "image_name": "121745.png", + "id": 94, + "strid": "7a47d12e-fc2e-4c3e-bc00-e71000819d3d", + "image_id": 5, + "image_name": "10334.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1725.328, - 2401.441, - 1129.335, - 757.8069999999998 + 1773.154, + 1202.854, + 1299.8340000000003, + 740.5829999999999 ], "priority": 13, "parents": [ - 97262 + 92 ], - "children": [], - "area": 4143273.3976479997, + "children": [ + 95 + ], + "area": 2132845.3815160003, "iscrowd": 0, "segmentation": [] }, { - "id": 97263, - "strid": "0202ccf8-1af7-4c5c-81c5-9094a8aa68a7", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 5, - "category_name": "Section", + "id": 95, + "strid": "509a23b4-6759-4024-a784-c65e26dceaf6", + "image_id": 5, + "image_name": "10334.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 166.371, - 3258.637, - 286.51700000000005, - 48.20199999999977 + 1689.095, + 1964.874, + 1462.1700000000003, + 103.33499999999981 ], "priority": 14, "parents": [ - 97274 + 94 + ], + "children": [], + "area": 3318858.84903, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 3: CDD and SLFD profiles are annotated with residue information\nfor specific amino acids important for function, binding, etc." + }, + { + "id": 96, + "strid": "d2c2b60c-d945-4a20-a46f-cc2855af6bf6", + "image_id": 5, + "image_name": "10334.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1740.949, + 2138.221, + 1376.7850000000003, + 637.3939999999998 + ], + "priority": 15, + "parents": [ + 92 ], "children": [ - 97268 + 97 ], - "area": 542142.696327, + "area": 3722533.7117290003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 97, + "strid": "b23a0dc6-e5bb-41cc-af8c-471aaeb59f9a", + "image_id": 5, + "image_name": "10334.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1689.578, + 2823.365, + 1459.5390000000002, + 105.09000000000015 + ], + "priority": 16, + "parents": [ + 96 + ], + "children": [], + "area": 4770295.38997, "iscrowd": 0, "segmentation": [], - "text": "Comments" + "text": "Figure 4: When a sequence matches a relevant profile in InterProScan,\nthe appropriate matching amino acids are highlighted in the output." }, { - "id": 97268, - "strid": "71205f31-7de2-4964-8fbe-c5c19bef6416", - "image_id": 204262, - "image_name": "121745.png", + "id": 98, + "strid": "154a69c3-24cc-418b-adb7-817adac43be7", + "image_id": 5, + "image_name": "10334.png", "category_id": 3, "category_name": "Text", "bbox": [ - 164.454, - 3350.264, - 2822.847, - 201.29399999999987 + 1702.709, + 3002.663, + 1465.8299999999997, + 526.9479999999999 ], - "priority": 15, + "priority": 17, "parents": [ - 97263 + 92 ], "children": [], - "area": 550964.3158560001, + "area": 5112661.3140670005, "iscrowd": 0, "segmentation": [], - "text": "MALDI-TOF MS shows promise as a powerful tool for simple and inexpensive identification of clinically relevant NTM. We find the Bruker\ndatabase still deficient regarding both number of NTM species represented and number of spectra per NTM species. To maximize the accuracy\nof the method, we are currently evaluating our improved version of the extraction protocol and building a customized NTM database using\n\nmanufacturer-recommended criteria." + "text": "More specific functional annotation & increased\ncoverage\n\nThe new per-residue and IDR developments in InterPro\nenable greater coverage of sequence and residue space &\nmore richly-detailed annotation of protein sequences.\nSuch annotations will increasingly become available from\nInterPro as the residue information provided by other\nmember databases is deployed." }, { - "id": 97264, - "strid": "583429ae-b7ca-4a67-957a-18725eb9ab7f", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 5, - "category_name": "Section", + "id": 99, + "strid": "754c0bf8-7753-44b2-9f22-ec81043922e2", + "image_id": 5, + "image_name": "10334.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 167.924, - 3596.915, - 236.903, - 38.19200000000001 + 1686.304, + 3577.829, + 1490.7640000000001, + 508.5749999999998 ], - "priority": 16, + "priority": 18, "parents": [ - 97274 + 92 ], "children": [ - 97269 + 100 ], - "area": 604008.3544600001, + "area": 6033307.354016, "iscrowd": 0, - "segmentation": [], - "text": "References" + "segmentation": [] }, { - "id": 97269, - "strid": "7f2fc8c4-36f8-4d1c-9a17-749dfec79890", - "image_id": 204262, - "image_name": "121745.png", - "category_id": 3, - "category_name": "Text", + "id": 100, + "strid": "1753cf77-4efa-4beb-b19c-45b43c0df021", + "image_id": 5, + "image_name": "10334.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 165.373, - 3646.506, - 2819.25, - 238.69000000000005 + 1704.147, + 4121.751, + 1458.797, + 156.64300000000003 ], - "priority": 17, + "priority": 19, "parents": [ - 97264 + 99 ], "children": [], - "area": 603033.636738, + "area": 7024069.601397, "iscrowd": 0, "segmentation": [], - "text": "Clark AE, Kaleta EJ, Arora A, Wolk DM. Matrix-assisted laser desorption ionization-time of flight mass spectrometry: a fundamental shift in the routine practice of clinical microbiology. Clin\nMicrobiol Rev. 2013 Jul;26(3):547-603.\n\nMather CA, Rivera SF, Butler-Wu SM. Comparison of the Bruker Biotyper and Vitek MS matrix-assisted laser desorption ionization-time of flight mass spectrometry systems for identification\nof mycobacteria using simplified protein extraction protocols. J Clin Microbiol. 2014 Jan;52(1):130-8.\n\nSaleeb PG1, Drake SK, Murray PR, Zelazny AM. Identification of mycobacteria in solid-culture media by matrix-assisted laser desorption ionization-time of flight mass spectrometry. J Clin\nMicrobiol. 2011 May;49(5):1790-4." + "text": "Figure 5: Coverage of UniProtKB: (A) sequences with residue annotation\nvia SFLD/CDD; (B) sequences with predicted IDRs; & (C) proportion of all\nUniProtKB amino acid residues predicted to fall within IDRs." }, { - "id": 2088, - "strid": "9f94f2d2-daa5-4c52-8f0f-267b6ffc4e28", - "image_id": 200585, - "image_name": "10329.png", + "id": 101, + "strid": "8487bd9f-22de-4101-ba61-e481ab31c3d6", + "image_id": 6, + "image_name": "10362.png", "category_id": 9, "category_name": "Root", "bbox": [ - 13.17, - 22.55, - 63.36, - 63.35000000000001 + 115, + 70.12, + 353.64, + 239.21999999999997 ], "priority": -1, "parents": [], "children": [ - 2073, - 2075, - 2078, - 2076, - 2072, - 2071, - 2074, - 2079, - 2077 + 104, + 122, + 110, + 120, + 118, + 126, + 103, + 124, + 102 ], - "area": 296.9835, + "area": 8063.8, "iscrowd": 0, "segmentation": [] }, { - "id": 2071, - "strid": "0a348522-8748-49e4-9178-447b6ec9296d", - "image_id": 200585, - "image_name": "10329.png", + "id": 102, + "strid": "faddd0af-5170-4328-a1e3-42ffce0e401b", + "image_id": 6, + "image_name": "10362.png", "category_id": 1, "category_name": "Title", "bbox": [ - 93.114, - 44.982, - 651.184, - 35.623999999999995 + 607.712, + 43.017, + 2434.512, + 238.829 ], "priority": 1, "parents": [ - 2088 + 101 ], "children": [], - "area": 4188.453948, + "area": 26141.947104000003, "iscrowd": 0, "segmentation": [], - "text": "Update Notifications for Biological Databases" + "text": "Cardiovascular response and serum IL-6 level\nIn concentric and eccentric exercise" }, { - "id": 2072, - "strid": "2c28da07-1bf5-4169-9ab1-f156604bada3", - "image_id": 200585, - "image_name": "10329.png", + "id": 103, + "strid": "d59cc79e-9148-493d-bf92-aecd04d10ff8", + "image_id": 6, + "image_name": "10362.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 282.409, - 93.771, - 297.26, - 74.57000000000001 + 445.925, + 361.455, + 2706.726, + 187.46800000000002 ], "priority": 2, "parents": [ - 2088 + 101 ], "children": [], - "area": 26481.774339, + "area": 161181.820875, "iscrowd": 0, "segmentation": [], - "text": "Suzanne Paley and Peter D Karp\n‘SRI International, Menlo Park CA.\nBioCyc.org, EcoCyc.org, MetaCyc.org" + "text": "Mayank Agarwal’, Prof. Shraddha Singh’, Prof. Sunita Tiwari’, Dr. Jagdish Narayan’, Dr. Shivani Pandey”\n‘Department of Physiology, Department of Biochemistry, King George’s Medical University, Lucknow" }, { - "id": 2073, - "strid": "588b8770-9209-4e90-b9f2-3dce4ae51492", - "image_id": 200585, - "image_name": "10329.png", + "id": 104, + "strid": "465049c8-4113-4c96-bd2e-151fbca85368", + "image_id": 6, + "image_name": "10362.png", "category_id": 5, "category_name": "Section", "bbox": [ - 92.069, - 195.546, - 43.56699999999999, - 23.35499999999999 + 619.539, + 631.253, + 671.922, + 85.46400000000006 ], "priority": 3, "parents": [ - 2088 + 101 ], "children": [ - 2080 + 108, + 105, + 106 ], - "area": 18003.724674, + "area": 391085.852367, "iscrowd": 0, "segmentation": [], - "text": "Goal" + "text": "INTRODUCTION" }, { - "id": 2080, - "strid": "b0a54317-ceab-4249-b2f3-082d94276b95", - "image_id": 200585, - "image_name": "10329.png", + "id": 105, + "strid": "0b57376b-f258-4e7c-af7b-63369be39067", + "image_id": 6, + "image_name": "10362.png", "category_id": 3, "category_name": "Text", "bbox": [ - 193.567, - 192.048, - 555.334, - 30.12100000000001 + 17.061, + 754.367, + 1854.133, + 1237.801 ], "priority": 4, "parents": [ - 2073 + 104 ], "children": [], - "area": 37174.155216, + "area": 12870.255387, "iscrowd": 0, "segmentation": [], - "text": "To ensure that biologists get the greatest value from curated data collections by making them\naware of new information of particular interest to them as soon as it becomes available." + "text": "Cardiovascular disease (CVD) has been a leading cause of morbidity and\nmortality in India; since 1990, its prevalence has increased by 23%\".\n\nThe higher levels of muscular strength are associated with a significantly\nbetter cardio-metabolic risk factor profile. Hence resistance exercise (RE)\nare strongly recommended for implementation in primary and secondary\nCVD prevention programs. Dynamic RE comprises of concentric (muscle\nshortening contractions) and eccentric (muscle lengthening contractions)\nphase (Fig. 1).\n\nContraction of the skeletal muscles promotes synthesis and secretion of\ncytokines and peptides from myocytes commonly termed as ‘myokines’.\nElevated plasma concentrations of muscle-derived interleukin-6 (IL-6)\npromotes a wide range of benefits in vascular reactivity, lipid and glucose\nmetabolism and the suppression of pro-inflammatory cytokines which may\nreduce the incidence of cardiovascular disease® (Fig. 2).\n\nThe present study aims at determining the cardiovascular response\nand serum IL-6 level in concentric and eccentric exercise." }, { - "id": 2074, - "strid": "3d87155f-95d0-4faf-9507-63fefebcd166", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 5, - "category_name": "Section", + "id": 106, + "strid": "a53dc8e9-5e26-4aa4-a3d7-6f79f14de287", + "image_id": 6, + "image_name": "10362.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 151.805, - 253.486, - 140.582, - 22.456999999999994 + 17.223, + 2175.776, + 666.518, + 873.5830000000001 ], "priority": 5, "parents": [ - 2088 + 104 ], "children": [ - 2081 + 107 ], - "area": 38480.44223, + "area": 37473.390047999994, "iscrowd": 0, - "segmentation": [], - "text": "Basic Approach" + "segmentation": [] }, { - "id": 2081, - "strid": "7cc74b46-58b6-4f94-a964-116c207e1d13", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 107, + "strid": "c07a50b6-f6f2-4696-bf0e-e2f4b0b11ab5", + "image_id": 6, + "image_name": "10362.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 54.525, - 292.286, - 333.922, - 223.06700000000006 + 41.781, + 2021.408, + 652.556, + 143.84299999999985 ], "priority": 6, "parents": [ - 2074 + 106 ], "children": [], - "area": 15936.89415, + "area": 84456.44764799999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 1: Types of dynamic\nmuscle contraction" }, { - "id": 2076, - "strid": "a7d08de6-a97b-45b2-996a-4d84682c0537", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 5, - "category_name": "Section", + "id": 108, + "strid": "cd64928e-0c46-49a4-85c9-e773e142fffd", + "image_id": 6, + "image_name": "10362.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 89.172, - 551.104, - 277.47, - 17.624000000000024 + 689.826, + 2171.48, + 1186.758, + 878.8809999999999 ], "priority": 7, "parents": [ - 2088 + 104 ], "children": [ - 2083 + 109 ], - "area": 49143.045888, + "area": 1497943.3624800001, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 2083, - "strid": "a791884f-eeb2-4a1e-afe0-f6797d48a941", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 109, + "strid": "7f21ea51-f981-419f-85ce-9650783412cb", + "image_id": 6, + "image_name": "10362.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 55.856, - 582.092, - 336.32, - 271.62 + 831.163, + 2024.916, + 999.884, + 143.84300000000007 ], "priority": 8, "parents": [ - 2076 + 108 ], "children": [], - "area": 32513.330752, + "area": 1683035.257308, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 2: Possible effects of IL-6 released\nfrom contracting the skeletal muscle" }, { - "id": 2078, - "strid": "a20d490b-99a8-4be1-88c1-d4e25bf0962d", - "image_id": 200585, - "image_name": "10329.png", + "id": 110, + "strid": "5e8141df-6a46-42de-abc3-57c45b28325f", + "image_id": 6, + "image_name": "10362.png", "category_id": 5, "category_name": "Section", "bbox": [ - 104.757, - 869.087, - 243.74, - 21.482999999999947 + 2549.842, + 634.2, + 383.11299999999983, + 88.41100000000006 ], "priority": 9, "parents": [ - 2088 + 101 ], "children": [ - 2086 + 116, + 111, + 114, + 112 ], - "area": 91042.946859, + "area": 1617109.7964, "iscrowd": 0, "segmentation": [], - "text": "Sample Gene Notifications" + "text": "RESULTS" }, { - "id": 2086, - "strid": "aa756f2c-1982-4358-aad3-b22c1719d069", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 111, + "strid": "19ef33ca-a977-47a0-8294-149cf07a9b19", + "image_id": 6, + "image_name": "10362.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 64.404, - 900.869, - 330.957, - 166.84600000000012 + 1922.554, + 756.935, + 1648.6890000000003, + 220.85199999999998 ], "priority": 10, "parents": [ - 2078 + 110 ], "children": [], - "area": 58019.567076, + "area": 1455248.41199, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Serum IL-6 level and cardiovascular response to concentric\nexercise (CE) was significantly higher (except DBP) than eccentric\nexercise (EE)." }, { - "id": 2075, - "strid": "ae6d748f-abb6-46c2-9b00-8e0c4ec69095", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 5, - "category_name": "Section", + "id": 112, + "strid": "2c7d1670-384c-4fc8-8cc6-219d2b4e58a1", + "image_id": 6, + "image_name": "10362.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 489.694, - 255.492, - 249.402, - 18.657999999999987 + 1946.877, + 1104.022, + 1590.5880000000002, + 910.72 ], "priority": 11, "parents": [ - 2088 + 110 ], "children": [ - 2082 + 113 ], - "area": 125112.899448, + "area": 2149395.039294, "iscrowd": 0, - "segmentation": [], - "text": "What Can Be Subscribed To" + "segmentation": [] }, { - "id": 2082, - "strid": "319d741c-5cdd-4df2-b2f3-7628825024d3", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 113, + "strid": "cc3e6716-9bdc-44b7-8ea4-d9e2548494a5", + "image_id": 6, + "image_name": "10362.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 450.13, - 288.229, - 310.784, - 241.05699999999996 + 1922.265, + 996.965, + 1645.4240000000002, + 84.20099999999991 ], "priority": 12, "parents": [ - 2075 + 112 ], "children": [], - "area": 129740.51977, + "area": 1916430.9257250002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Fig. 3: Absolute change in blood pressure in response to CE and EE" }, { - "id": 2077, - "strid": "48050eaf-f23c-4a46-9f2e-f49aaac901cc", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 5, - "category_name": "Section", + "id": 114, + "strid": "7e3d699a-2fa1-4ad1-9483-1a4d31548a50", + "image_id": 6, + "image_name": "10362.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 484.514, - 550.667, - 259.79599999999994, - 21.086000000000013 + 1931.656, + 2225.297, + 763.5839999999998, + 799.0990000000002 ], "priority": 13, "parents": [ - 2088 + 110 ], "children": [ - 2087, - 2084 + 115 ], - "area": 266805.87083800003, + "area": 4298508.301832, "iscrowd": 0, - "segmentation": [], - "text": "How to Subscribe to Objects" + "segmentation": [] }, { - "id": 2084, - "strid": "bd767e03-6114-424d-9f32-3f5691287cd1", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 115, + "strid": "348a6aec-a1f0-44ed-a57e-161004607b13", + "image_id": 6, + "image_name": "10362.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 447.253, - 580.088, - 309.344, - 79.93899999999996 + 1922.265, + 2070.525, + 652.5559999999998, + 133.3180000000002 ], "priority": 14, "parents": [ - 2077 + 114 ], "children": [], - "area": 259446.09826399997, + "area": 3980097.7391250003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 4: Absolute change\nin heart rate" }, { - "id": 2087, - "strid": "96202150-491a-4826-bf99-5996d5abf198", - "image_id": 200585, - "image_name": "10329.png", + "id": 116, + "strid": "155d04a1-74f0-4025-89ca-179597521c55", + "image_id": 6, + "image_name": "10362.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 463.381, - 673.384, - 293.20400000000006, - 179.42700000000002 + 2753.587, + 2240.518, + 806.71, + 786.415 ], "priority": 15, "parents": [ - 2077 + 110 ], - "children": [], - "area": 312033.351304, + "children": [ + 117 + ], + "area": 6169461.238066, "iscrowd": 0, "segmentation": [] }, { - "id": 2079, - "strid": "d131c2cc-1d87-42ca-a157-fb46da16881f", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 5, - "category_name": "Section", + "id": 117, + "strid": "a532e3ee-2db6-49e0-8478-c83c59ef96f0", + "image_id": 6, + "image_name": "10362.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 479.151, - 870.137, - 264.30199999999996, - 20.66700000000003 + 2813.39, + 2081.05, + 673.6060000000002, + 122.79300000000012 ], "priority": 16, "parents": [ - 2088 - ], - "children": [ - 2085 + 116 ], - "area": 416927.01368699997, + "children": [], + "area": 5854805.259500001, "iscrowd": 0, "segmentation": [], - "text": "Sample Pathway Notification" + "text": "Figure 5: Absolute change\nin serum IL-6 level" }, { - "id": 2085, - "strid": "575d48f3-a452-430c-803d-55d065fc6ab4", - "image_id": 200585, - "image_name": "10329.png", - "category_id": 4, - "category_name": "List", + "id": 118, + "strid": "07cac158-727f-4128-a0da-547e82d76c1b", + "image_id": 6, + "image_name": "10362.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 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"segmentation": [] + "segmentation": [], + "text": "The present non-randomised cross-over study\nwas conducted in the Exercise Physiology\nLaboratory, King George’s Medical University\n(KGMU), Lucknow after approval from the\nInstitutional Ethical Committee.\n\nTwenty-four apparently healthy males, aged 18-\n25 years, having body mass index (BMI) 18-23\nkg/m?,with sedentary lifestyle, voluntary\nparticipated in the study.\n\nAll participants done a session of concentric\nexercise (CE) for 45 minutes, followed by\neccentric exercise (EE) after a rest of 15 days.\n\nExercise was done on inclined (emphasised\nconcentric walk)/ declined (emphasised\neccentric walk) treadmill and with dumbbells.\n\nSystolic blood pressure (SBP), diastolic blood\npressure (DBP), mean arterial pressure (MAP),\npulse pressure (PP), heart rate (HR), and\nserum IL-6 level were measured/calculated just\nbefore and after the exercise sessions." }, { - "id": 135604, - "strid": "1ed236e0-47da-43c8-bc3d-18ee397972b3", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 1, - "category_name": "Title", + "id": 120, + "strid": "ab49bc2b-ca2c-48f2-9fcb-bcfa52aa8308", + "image_id": 6, + "image_name": "10362.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 363.14, - 32.268, - 2192.175, - 85.229 + 1574.376, + 3115.597, + 580.5640000000001, + 82.51699999999983 ], - "priority": 1, + "priority": 19, "parents": [ - 135630 + 101 ], - "children": [], - "area": 11717.801519999999, + "children": [ + 121 + ], + "area": 4905121.142472, "iscrowd": 0, "segmentation": [], - "text": "KBBQ: A reference-free method for base quality score recalibration" + "text": "" }, { - "id": 135605, - "strid": "9c1c525b-dd85-43c0-8ddf-5a7ab2507577", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 0, - "category_name": "Author Info", + "id": 121, + "strid": "bc162304-cdc2-4223-b343-c31e61e5dae0", + "image_id": 6, + "image_name": "10362.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 361.158, - 133.354, - 1553.9470000000001, - 175.47399999999996 + 1271.086, + 3229.073, + 1164.6489999999997, + 348.355 ], - "priority": 2, + "priority": 20, "parents": [ - 135630 + 120 ], "children": [], - "area": 48161.86393200001, + "area": 4104429.483278, "iscrowd": 0, "segmentation": [], - "text": "Adam J Orr }* W@AdamJOrr, Reed A Cartwright }* Y@MinionLab\n\n1School of Life Sciences, Arizona State University\nBiodesign Institute, Arizona State University" + "text": "Based on our present findings, we may\nrecommend eccentric exercise training for\nreducing morbidity and mortality in elderly,\nfrail individuals or those at risk of\ncardiovascular diseases." }, { - "id": 135606, - "strid": "ffbae175-a64c-47d7-a002-25823447cab5", - "image_id": 205757, - "image_name": "15862.png", + "id": 122, + "strid": "6f144faa-7230-45cd-a7da-ea52fa69a2cc", + "image_id": 6, + "image_name": "10362.png", "category_id": 5, "category_name": "Section", "bbox": [ - 66.686, - 467.965, - 269.154, - 37.83600000000001 + 1592.058, + 3651.956, + 536.3589999999999, + 100.19900000000007 ], - "priority": 3, + "priority": 21, "parents": [ - 135630 + 101 ], "children": [ - 135629, - 135613 + 123 ], - "area": 31206.71399, + "area": 5814125.765448, "iscrowd": 0, "segmentation": [], - "text": "Introduction" - }, - { - "id": 135613, - "strid": "8d4cba18-7787-4f9c-ac0e-e45c26a6bc3e", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 60.568, - 577.304, - 1090.414, - 395.467 - ], - "priority": 4, - "parents": [ - 135606 - ], - "children": [], - "area": 34966.148671999996, - "iscrowd": 0, - "segmentation": [] + "text": "DISCUSSION" }, { - "id": 135629, - "strid": "bff905e0-d9f8-47cc-8064-07523586fe4e", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 7, - "category_name": "Table", + "id": 123, + "strid": "4664df95-7ef8-4a3e-b833-9d32e65019f8", + "image_id": 6, + "image_name": "10362.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1635.042, - 554.631, - 406.962, - 411.66700000000003 + 1273.686, + 3772.403, + 1146.4509999999998, + 868.2869999999998 ], - "priority": 5, + "priority": 22, "parents": [ - 135606 + 122 ], "children": [], - "area": 906844.9795019999, + "area": 4804856.887457999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The lesser recruitment and discharge rate of\nmotor units during eccentric contractions\nrelative to concentric contractions* performed\nwith a similar absolute load might be a\npotential explanation for lesser cardiovascular\nresponse to CE as compared to EE.\n\nExercise-induced IL-6 levels majorly depends\non exercise intensity, duration and\ncarbohydrate availability’. EE might have\ncaused less physical exertion resulting in less\nenergy expenditure as compared to CE.\nTherefore, EE induced a lower IL-6 response." }, { - "id": 135607, - "strid": "ce9869ad-babc-4cd9-99af-b61a6c8a8071", - "image_id": 205757, - "image_name": "15862.png", + "id": 124, + "strid": "f5971143-d0ed-4778-94cb-951cb189049d", + "image_id": 6, + "image_name": "10362.png", "category_id": 5, "category_name": "Section", "bbox": [ - 63.771, - 1044.034, - 1144.91, - 45.11699999999996 + 2602.888, + 3121.491, + 848.7440000000001, + 76.62300000000005 ], - "priority": 6, + "priority": 23, "parents": [ - 135630 + 101 ], "children": [ - 135618, - 135619, - 135617, - 135626, - 135625 + 125 ], - "area": 66579.092214, + "area": 8124891.466008, "iscrowd": 0, "segmentation": [], - "text": "Base Quality Score Recalibration - BQSR" + "text": "" }, { - "id": 135617, - "strid": "bd40c9d8-653e-4809-80ee-4db1f8df3a2b", - "image_id": 205757, - "image_name": "15862.png", + "id": 125, + "strid": "d31ebc1a-fb77-4c05-a08f-515bc3dc81b4", + "image_id": 6, + "image_name": "10362.png", "category_id": 3, "category_name": "Text", "bbox": [ - 39.089, - 1156.199, - 2076.017, - 285.337 + 2500.727, + 3239.472, + 1050.2640000000001, + 332.75700000000006 ], - "priority": 7, + "priority": 24, "parents": [ - 135607 + 124 ], "children": [], - "area": 45194.662711000004, + "area": 8101035.096144, "iscrowd": 0, "segmentation": [], - "text": "Base Quality Score Recalibration is a technique to improve calibration of the original quality scores. However,\nBQSR normally requires a reference genome and a database of variable sites. Our reference-free\nmethod uses a method similar to the lighter (Song, Florea, and Langmead 2014) error corrector to find\nerroneous bases rather than comparing the sequence to a reference. You can use your favorite error corrector\nand use those corrections as input to kbbq." + "text": "Future studies should involve various\npopulations for comparison, including\nathletes vs. non-athletes, females vs.\nmales and those of differing ages such as\nthe elderly vs. younger populations." }, { - "id": 135625, - "strid": "ccb585fd-8f38-4c63-af3b-f96b3b130ad9", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 3, - "category_name": "Text", + "id": 126, + "strid": "90540df4-e216-4e4e-85e1-e4999a14472d", + "image_id": 6, + "image_name": "10362.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 273.567, - 1476.727, - 775.4259999999999, - 46.82899999999995 + 2747.292, + 3651.956, + 571.723, + 82.51699999999983 ], - "priority": 8, + "priority": 25, "parents": [ - 135607 + 101 ], - "children": [], - "area": 403983.77520900004, + "children": [ + 127 + ], + "area": 10032989.503152, "iscrowd": 0, "segmentation": [], - "text": "GATK BQSR - Reference Required" + "text": "REFERENCES" }, { - "id": 135618, - "strid": "6586cb13-490e-4fac-9566-1b95a66f95a4", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 2, - "category_name": "Figure", + "id": 127, + "strid": "29429134-3f07-428f-9d9d-d3a541e4fe33", + "image_id": 6, + "image_name": "10362.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 74.564, - 1544.873, - 1175.278, - 371.70900000000006 + 2492.928, + 3764.604, + 1055.4629999999997, + 873.4869999999996 ], - "priority": 9, + "priority": 26, "parents": [ - 135607 + 126 ], "children": [], - "area": 115191.910372, + "area": 9384886.720511999, "iscrowd": 0, "segmentation": [] }, { - "id": 135626, - "strid": "648c0158-98b2-43f3-ae06-f29b0ae6e5a0", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 3, - "category_name": "Text", + "id": 128, + "strid": "b6a3d6a8-f78d-4e9f-bab7-e43f3a93d009", + "image_id": 7, + "image_name": "10382.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 1525.542, - 1476.727, - 487.568, - 45.45100000000002 + 43.49, + 15.43, + 145.47, + 145.47 ], - "priority": 10, + "priority": -1, + "parents": [], + "children": [ + 141, + 135, + 130, + 129, + 136, + 131, + 144, + 133 + ], + "area": 671.0507, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 129, + "strid": "2df55bc2-19fd-4de0-b5af-36ae116bc818", + "image_id": 7, + "image_name": "10382.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 254.084, + 195.318, + 1432.444, + 290.004 + ], + "priority": 1, "parents": [ - 135607 + 128 ], "children": [], - "area": 2252809.061034, + "area": 49627.178712, "iscrowd": 0, "segmentation": [], - "text": "Reference Free BQSR" + "text": "Retrospective analysis of trends in outcome following\nOut of Hospital Cardiac Arrest\nfrom a UK regional cardiac arrest centre,\nwith a focus on haematological parameters" }, { - "id": 135619, - "strid": "e3069419-5085-403b-af8d-8b05c664e81f", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 2, - "category_name": "Figure", + "id": 130, + "strid": "09c740c4-ea4f-48c8-ad50-1a8e1e67e024", + "image_id": 7, + "image_name": "10382.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1397.909, - 1543.331, - 740.3330000000001, - 371.70900000000006 + 409.865, + 523.192, + 1119.861, + 45.11800000000005 ], - "priority": 11, + "priority": 2, "parents": [ - 135607 + 128 ], "children": [], - "area": 2157436.294879, + "area": 214438.08908, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A. Skorko, M. Thomas. Bristol Royal Infirmary, Bristol, United Kingdom" }, { - "id": 135612, - "strid": "e7f0f6a3-262e-423c-a22a-67dd3c5a5a52", - "image_id": 205757, - "image_name": "15862.png", + "id": 131, + "strid": "9322d167-0668-440e-9402-cfa846f44ce6", + "image_id": 7, + "image_name": "10382.png", "category_id": 5, "category_name": "Section", "bbox": [ - 63.193, - 2006.668, - 804.073, - 49.30599999999981 + 844.608, + 637.805, + 252.9079999999999, + 42.089000000000055 ], - "priority": 12, + "priority": 3, "parents": [ - 135630 + 128 ], "children": [ - 135623, - 135624, - 135620, - 135614 + 132 ], - "area": 126807.37092399999, + "area": 538695.2054399999, "iscrowd": 0, "segmentation": [], - "text": "Methods: Hierarchical Linear Model" + "text": "Introduction" }, { - "id": 135623, - "strid": "1fb4ab52-6ecf-41a4-8555-47ffda1bffd3", - "image_id": 205757, - "image_name": "15862.png", + "id": 132, + "strid": "41e18591-649a-4f16-bb8e-324aa442f7c9", + "image_id": 7, + "image_name": "10382.png", "category_id": 3, "category_name": "Text", "bbox": [ - 44.361, - 2163.619, - 1193.214, - 276.19399999999996 + 113.902, + 702.938, + 1722.916, + 418.4440000000001 ], - "priority": 13, + "priority": 4, "parents": [ - 135612 + 131 ], "children": [], - "area": 95980.302459, + "area": 80066.044076, "iscrowd": 0, "segmentation": [], - "text": "The recalibration uses a hierarchical linear model to predict the\ntrue probability of error given a set of covariates. Each\ncovariate causes the predicted quality score to shift up or down\nfrom the predicted score one level above it in the hierarchy.\nThe relevant covariates are:" + "text": "The Bristol Royal Infirmary is a tertiary centre for the management of out of hospital cardiac arrests (OHCA), covering a metropolitan population of\n1,000,000 in the South West of England. Since 2008 there has been a steady rise in the number of patients treated at our centre.\n\nAn ongoing matter for debate in the treatment of patients following OHCA is what the optimal antiplatelet drug strategy that should be delivered,\ngiven the concerns of both bleeding and clotting complications.\n\nThere is often reticence on the part of the intensive care teams to give full antiplatelet therapy to OHCA survivors, due to the perceived risk of\nbleeding. Studies vary in the rates of bleeding seen in this population, from 0 to 56% (1). However rates of acute in-stent thrombosis in this population\nare as high as 10%, compared to 2% in the acute ST elevation (STEMI) population(2).\n\nTherefore the need to balance the bleeding and thrombosis risks is of upmost importance.\n\nWe present the overall survival of patients treated following out of hospital cardiac arrest, alongside haematological parameters in the first 24 hours,\nin one UK centre over the period January 2009 to August 2016." }, { - "id": 135614, - "strid": "e5d4d64d-dc0b-46a9-8d8a-a0ceab0f47c6", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 4, - "category_name": "List", + "id": 133, + "strid": "6f3cbb5e-51c6-4b40-9c3b-1d2561642002", + "image_id": 7, + "image_name": "10382.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 74.22, - 2459.627, - 1098.519, - 298.62699999999995 + 888.667, + 1154.52, + 161.81100000000004, + 41.44800000000009 ], - "priority": 14, + "priority": 5, "parents": [ - 135612 + 128 ], - "children": [], - "area": 182553.51593999998, + "children": [ + 134 + ], + "area": 1025983.82484, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Method" }, { - "id": 135624, - "strid": "bee5c1d1-2764-4e26-8710-eb46cc4dbdae", - "image_id": 205757, - "image_name": "15862.png", + "id": 134, + "strid": "520f392f-bcb0-4ede-ab0b-e7a2f0ddb2e2", + "image_id": 7, + "image_name": "10382.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1447.101, - 2129.604, - 570.076, - 40.81700000000001 + 115.156, + 1219.807, + 1712.494, + 293.42599999999993 ], - "priority": 15, + "priority": 6, "parents": [ - 135612 + 133 ], "children": [], - "area": 3081752.078004, + "area": 140468.09489200002, "iscrowd": 0, "segmentation": [], - "text": "Hierarchical Linear Model" + "text": "To understand why OHCA survivors may be at risk of bleeding and to try to quantify whether this impacts survival to hospital discharge, we\nretrospectively analysed laboratory parameters of coagulation (PT and APTT) and platelet count, alongside the haemoglobin value and stratified these\nby survival to hospital discharge.\n\nRoutinely collected data was used to identify patients for this analysis. Data was extracted for those coded as ‘Anoxic or ischaemic coma or\nencephalopathy’ with ‘Acute myocardial infarction’ or ‘Ventricular tachycardia or fibrillation’. Our electronic records began in December 2008 and\ncontinue to the present day. Data for 2016 is available up to and including August. Parameters of ‘status at hospital discharge’, lowest platelet count,\nAPTT and lowest haemoglobin within 24 hours of admission were extracted from the database." }, { - "id": 135620, - "strid": "10a5f993-a03f-4f78-8e1d-73c68755468c", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 2, - "category_name": "Figure", + "id": 135, + "strid": "ff77f3c0-6db9-48c4-aec0-3419c709ebdd", + "image_id": 7, + "image_name": "10382.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1410.917, - 2169.641, - 644.9099999999999, - 638.248 + 895.181, + 1547.228, + 147.096, + 45.48700000000008 ], - "priority": 16, + "priority": 7, "parents": [ - 135612 + 128 ], "children": [], - "area": 3061183.370797, + "area": 1385049.1082680002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results" }, { - "id": 135611, - "strid": "49b77396-6618-4fdc-92a4-bc17dd454aed", - "image_id": 205757, - "image_name": "15862.png", + "id": 136, + "strid": "acefc230-3e06-4f49-b2a4-6844a48bbaa0", + "image_id": 7, + "image_name": "10382.png", "category_id": 5, "category_name": "Section", "bbox": [ - 64.457, - 2873.954, - 463.985, - 45.514000000000124 + 684.81, + 1625.581, + 569.52, + 38.274000000000115 ], - "priority": 17, + "priority": 8, "parents": [ - 135630 + 128 ], "children": [ - 135615 + 139, + 137 ], - "area": 185246.452978, + "area": 1113214.1246099998, "iscrowd": 0, "segmentation": [], - "text": "Methods:" + "text": "Rates of admission and survival" }, { - "id": 135615, - "strid": "fd975c72-c291-470a-88b6-db3651a68484", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 4, - "category_name": "List", + "id": 137, + "strid": "c3af23c1-eea0-4c61-a388-edea307b098e", + "image_id": 7, + "image_name": "10382.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 51.365, - 2982.223, - 2114.764, - 231.5880000000002 + 122.563, + 1785.421, + 927.83, + 627.3170000000002 ], - "priority": 18, + "priority": 9, "parents": [ - 135611 + 136 ], - "children": [], - "area": 153181.884395, + "children": [ + 138 + ], + "area": 218826.554023, "iscrowd": 0, "segmentation": [] }, { - "id": 135610, - "strid": "0a11f867-b945-46b0-814d-5ba335686b82", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 5, - "category_name": "Section", + "id": 138, + "strid": "daa8fc32-4e5f-4e7e-ba8d-db41d13eee03", + "image_id": 7, + "image_name": "10382.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 64.457, - 3291.161, - 247.796, - 49.30600000000004 + 249.53, + 1723.906, + 661.183, + 58.21900000000005 ], - "priority": 19, + "priority": 10, "parents": [ - 135630 - ], - "children": [ - 135616 + 137 ], - "area": 212138.36457699997, + "children": [], + "area": 430166.26418, "iscrowd": 0, "segmentation": [], - "text": "Next Steps" + "text": "Figure 1: Number of OHCA patients admitted to the BRI and\nmortality rate by year (2009-2016)" }, { - "id": 135616, - "strid": "f940cda5-39c8-42d4-9fd5-90fc48dafacd", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 4, - "category_name": "List", + "id": 139, + "strid": "dbe43955-2120-4bfa-a192-21cd5bda27a5", + "image_id": 7, + "image_name": "10382.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 52.889, - 3407.309, - 1404.764, - 179.78499999999985 + 1083.105, + 1936.725, + 734.8820000000001, + 484.1419999999998 ], - "priority": 20, + "priority": 11, "parents": [ - 135610 + 136 ], - "children": [], - "area": 180209.16570100002, + "children": [ + 140 + ], + "area": 2097676.5311249997, "iscrowd": 0, "segmentation": [] }, { - "id": 135608, - "strid": "0a4b4218-e4c8-492c-a79f-5136910033c2", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 5, - "category_name": "Section", + "id": 140, + "strid": "4de2ea9b-6b86-4e5a-8493-d2d80f8ad927", + "image_id": 7, + "image_name": "10382.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2254.297, - 467.43, - 1743.3430000000003, - 49.93599999999998 + 1091.807, + 1728.072, + 729.194, + 178.519 ], - "priority": 21, + "priority": 12, "parents": [ - 135630 - ], - "children": [ - 135622 + 139 ], - "area": 1053726.0467100001, + "children": [], + "area": 1886721.106104, "iscrowd": 0, "segmentation": [], - "text": "Results: GATK BQSR is vulnerable to false negatives in the known sites input." + "text": "Figure 1 demonstrates an upward trend in the number of\npatients been treated by our unit, at the same time as hospital\nmortality has shown a downward trend. The outcomes for\nsurvival in our unit are consistently below the national\n\naverage(3)." }, { - "id": 135622, - "strid": "adb89a8e-ca27-4e69-a9ce-51d116830d3f", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 2, - "category_name": "Figure", + "id": 141, + "strid": "b01ed46d-73e4-458b-99b6-d63dbe94b953", + "image_id": 7, + "image_name": "10382.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2231.193, - 568.375, - 2094.8769999999995, - 1665.239 + 561.397, + 2468.079, + 817.522, + 43.21199999999999 ], - "priority": 22, + "priority": 13, "parents": [ - 135608 + 128 ], "children": [ - 135627 + 142, + 143 ], - "area": 1268154.321375, + "area": 1385572.1463630002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Parameters of coagulation and platelet count" }, { - "id": 135627, - "strid": "1b6752c9-b4d9-4b0e-97f7-c9908251c2f3", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 6, - "category_name": "Caption", + "id": 142, + "strid": "53e3a68a-aadf-4a9e-8dd8-2d66feb59375", + "image_id": 7, + "image_name": "10382.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2224.676, - 2263.859, - 2078.8489999999997, - 52.702999999999975 + 116.411, + 2544.049, + 1684.953, + 69.30200000000013 ], - "priority": 23, + "priority": 14, "parents": [ - 135622 + 141 ], "children": [], - "area": 5036352.784684, + "area": 296155.288139, "iscrowd": 0, "segmentation": [], - "text": "KBBQ doesn't require a priori knowledge of variable sites, so is unaffected by misspecification of known sites." + "text": "Analysing the differences between survivors and non survivors as regards the coagulation parameters in the first 24 hours, demonstrates that there is\nno clinically significant difference in haemoglobin level, platelet counts, PT, or APTT parameters (see table above)." }, { - "id": 135609, - "strid": "ce973dad-cac4-4e9e-91b7-894c1c46d38d", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 5, - "category_name": "Section", + "id": 143, + "strid": "028f21d9-3a10-4166-a3e9-eea66e251158", + "image_id": 7, + "image_name": "10382.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2253.002, - 2386.24, - 1388.649, - 53.52399999999989 + 116.202, + 2633.298, + 1008.576, + 130.5619999999999 ], - "priority": 24, + "priority": 15, "parents": [ - 135630 - ], - "children": [ - 135621 + 141 ], - "area": 5376203.49248, + "children": [], + "area": 305994.494196, "iscrowd": 0, - "segmentation": [], - "text": "Results: Similar performance, no reference or variants required" + "segmentation": [] }, { - "id": 135621, - "strid": "f81445b9-0a5d-4688-a0a3-d8514e3bef53", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 2, - "category_name": "Figure", + "id": 144, + "strid": "5edee22e-90d6-47ab-bed2-38e636f8c2fa", + "image_id": 7, + "image_name": "10382.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2282.102, - 2487.538, - 1985.5119999999997, - 1668.038 + 855.014, + 2800.468, + 225.1250000000001, + 40.391999999999825 ], - "priority": 25, + "priority": 16, "parents": [ - 135609 + 128 ], "children": [ - 135628 + 145 ], - "area": 5676815.444875999, + "area": 2394439.346552, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion" }, { - "id": 135628, - "strid": "7ca0f71c-e7b5-49fd-8969-579e6e1dcf05", - "image_id": 205757, - "image_name": "15862.png", - "category_id": 6, - "category_name": "Caption", + "id": 145, + "strid": "e637c674-b71f-45d6-be4c-2e674e91e224", + "image_id": 7, + "image_name": "10382.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2226.628, - 4182.646, - 1793.862, - 56.60699999999997 + 113.991, + 2866.477, + 1707.336, + 308.8249999999998 ], - "priority": 26, + "priority": 17, "parents": [ - 135621 + 144 ], "children": [], - "area": 9313196.697688, + "area": 326752.579707, "iscrowd": 0, "segmentation": [], - "text": "Both methods improve calibration and resolution, while KBBQ has relaxed input requirements." + "text": "Our data demonstrates that absolute platelet count, haemoglobin, PT and APTT in the first 24 hours do not differ between survivors and non-survivors\nof OHCA. Abnormalities in platelet count or coagulation markers within the first 24 hours of admission do not explain differences between survivors\nand non survivors of OHCA.\n\nHowever, absolute values do not give an indication as to the function of platelets or of the coagulation cascade. An analysis of platelet function and\nthe coagulation cascade as a whole may provide better insights into the risks of bleeding in this population.\n\nWe therefore propose to carry out a prospective analysis of thromoelastometric coagulation assessment and platelet inhibition, and correlate this with\nbleeding events and administration of antiplatelet therapy." }, { - "id": 190145, - "strid": "fc87dded-4dbf-4ed3-94d0-90164e7e4704", - "image_id": 207919, - "image_name": "9118.png", + "id": 146, + "strid": "74f39814-61b2-4460-b45b-feeb123b19d7", + "image_id": 8, + "image_name": "10418.png", "category_id": 9, "category_name": "Root", "bbox": [ - 62.81, - 96.24, - 196.58999999999997, - 218.43 + 7.21, + 43.58, + 35.56, + 53.34 ], "priority": -1, "parents": [], "children": [ - 190117, - 190118, - 190135, - 190114, - 190116, - 190115, - 190136 + 151, + 167, + 149, + 148, + 154, + 147 ], - "area": 6044.8344, + "area": 314.2118, "iscrowd": 0, "segmentation": [] }, { - "id": 190114, - "strid": "a880c669-2252-468b-975e-463bda378731", - "image_id": 207919, - "image_name": "9118.png", + "id": 147, + "strid": "744fba02-f59f-41ed-a046-faa97409a5ef", + "image_id": 8, + "image_name": "10418.png", "category_id": 1, "category_name": "Title", "bbox": [ - 385.651, - 123.261, - 2768.09, - 220.93799999999996 + 64.033, + 33.911, + 451.70399999999995, + 19.457 ], "priority": 1, "parents": [ - 190145 + 146 ], "children": [], - "area": 47535.727911, + "area": 2171.423063, "iscrowd": 0, "segmentation": [], - "text": "Contrasting approaches to predicting ADPKD progression\nand outcomes" + "text": "Blood tests in the intensive care uni necessary cost" }, { - "id": 190115, - "strid": "cb74d5ec-dceb-451a-8d94-b2fdd4c2b08d", - "image_id": 207919, - "image_name": "9118.png", + "id": 148, + "strid": "b2e41a19-f76c-4c5f-a7f4-7b1c5f65297f", + "image_id": 8, + "image_name": "10418.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 707.914, - 424.69, - 2125.6040000000003, - 224.66300000000007 + 63.49, + 63.666, + 453.33899999999994, + 13.879999999999995 ], "priority": 2, "parents": [ - 190145 + 146 ], "children": [], - "area": 300643.99666, + "area": 4042.15434, "iscrowd": 0, "segmentation": [], - "text": "O’Reilly R', McEwan P2*%, Bennett H?, Robinson R'\n\n1 Otsuka Pharmaceutical Europe Ltd, Wexham, UK; ?Health Economics & Outcomes Research Ltd, Monmouth, UK;\n3 School of Human & Health Sciences, Swansea University, Swansea, UK" + "text": "E Cumber; | Channon; A Wong: John Radcliffe Hospital, Oxford, United Kingdom" }, { - "id": 190116, - "strid": "f98ddfa3-46ac-4cb4-9a6c-79dc1b425887", - "image_id": 207919, - "image_name": "9118.png", + "id": 149, + "strid": "45127812-4ea1-4306-bdc9-ac2a0ec643ba", + "image_id": 8, + "image_name": "10418.png", "category_id": 5, "category_name": "Section", "bbox": [ - 117.504, - 963.074, - 682.204, - 50.823999999999955 + 77.149, + 107.904, + 67.108, + 14.025999999999996 ], "priority": 3, "parents": [ - 190145 + 146 ], "children": [ - 190128 + 150 ], - "area": 113165.047296, + "area": 8324.685696, "iscrowd": 0, "segmentation": [], - "text": "NTRODUCTION AND AIMS" + "text": "Background" }, { - "id": 190128, - "strid": "40f6e378-ae8e-48b0-a184-33a1a3adcce1", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 3, - "category_name": "Text", + "id": 150, + "strid": "5505ce65-029f-4d5e-88dc-ba799778588a", + "image_id": 8, + "image_name": "10418.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 117.257, - 1077.482, - 1054.279, - 1736.672 + 73.475, + 128.344, + 683.257, + 112.643 ], "priority": 4, "parents": [ - 190116 + 149 ], "children": [], - "area": 126342.306874, + "area": 9430.0754, "iscrowd": 0, - "segmentation": [], - "text": "Autosomal dominant polycystic kidney disease (ADPKD) is a\nmajor cause of end-stage renal disease (ESRD) [1],\ncharacterised by progressive development of kidney cysts\nleading to complications such as pain, haematuria and\nhypertension, and declining renal function.\n\nGiven the heterogeneous nature of progression, an\nunderstanding of a patient’s risk of, and likely rate of\nprogression towards, ESRD is important to inform treatment\ndecisions.\n\nRates of ADPKD progression are linked to factors such as\nage, gender, genetic mutation and hypertension, in addition\nto total kidney volume (TKV) [2,3].\n\nThe imaging classification of ADPKD was developed from\nMayo clinic observations to inform patient selection for\nClinical trial inclusion; risk of renal progression is stratified by\ncyst distribution, age and height-adjusted TKV (classes\n1A-E, 2A-B) [4]. The Mayo classification may be used to\npredict future eGFR for class 1 individuals via a published\nmodel [4] and to prioritise patients likely to benefit most from\ntreatment [5].\n\nThe ADPKD Outcomes Model (OM) [6] utilises multivariate\nregression equations incorporating age, gender and TKV\nderived from the placebo arm of the TEMPO 3:4 trial [7] to\npredict underlying ADPKD progression; the model can also\nbe used to evaluate the impact of therapeutic intervention on\nprogression to ESRD and to simulate long-term outcomes\nsuch as ESRD management and life-expectancy [8].\n\nThis study aimed to contrast predictions of ADPKD\nprogression made based on the Mayo classification and\nusing the ADPKD OM, in terms of renal function decline\n(measured by estimated glomerular filtration rate (eGFR)).\n\nThe study also illustrates how predicted renal function\ntrajectories may be utilised to estimate ESRD incidence and\nconsequent requirements for care within the ADPKD OM." + "segmentation": [] }, { - "id": 190117, - "strid": "811ce9a1-0009-42a6-9712-5dc392751538", - "image_id": 207919, - "image_name": "9118.png", + "id": 151, + "strid": "6eb856e5-b9d3-4f64-ad49-8ef9e79e0e40", + "image_id": 8, + "image_name": "10418.png", "category_id": 5, "category_name": "Section", "bbox": [ - 114.502, - 2926.872, - 277.933, - 52.83199999999988 + 72.629, + 279.733, + 50.40400000000001, + 12.22199999999998 ], "priority": 5, "parents": [ - 190145 + 146 ], "children": [ - 190127, - 190122, - 190138, - 190141, - 190126, - 190142, - 190131 + 153, + 152 ], - "area": 335132.69774399995, + "area": 20316.728057, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Methods" }, { - "id": 190131, - "strid": "deaefbcc-e874-408c-8450-fbc9593f6199", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 3, - "category_name": "Text", + "id": 152, + "strid": "56fc4ee7-26d1-4e33-b3da-74ac1ef15378", + "image_id": 8, + "image_name": "10418.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 118.731, - 3038.611, - 1053.08, - 866.6689999999999 + 70.809, + 296.702, + 213.88999999999996, + 59.27800000000002 ], "priority": 6, "parents": [ - 190117 + 151 ], "children": [], - "area": 360777.322641, + "area": 21009.171918, "iscrowd": 0, - "segmentation": [], - "text": "Being a population enriched for likelihood of rapid\nprogression, approximately 90% of patients in the TEMPO\n3:4 trial were classified as 1C, 1D or 1E at baseline.\n\nTime-dependent renal decline trajectories and time to ESRD\n(eGFR<15 ml/min/m?) were predicted utilising the ADPKD\nOM and Mayo classification for each TEMPO 3:4 subgroup\n(1C-1E).\n\nTable 1 presents the mean baseline characteristics observed\nfor each subgroup; despite having similar levels of renal\nfunction at baseline, there was a trend of higher TKV ata\nyounger age in the mean profiles of 1E versus 1D and 1D\nversus 1C [9]. Gender distribution was assumed to be equal.\n\nRegression coefficients of the ADPKD OM’s natural history\nprogression equations and the Mayo classification model\nwere sampled to account for parameter uncertainty in rates\nof progression and to present a range of simulated renal\nfunction trajectories for each patient profile." + "segmentation": [] }, { - "id": 190138, - "strid": "61c26d88-290f-462f-90dd-13fabf871fc6", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 7, - "category_name": "Table", + "id": 153, + "strid": "d8e07c24-ad8a-4b96-ae53-ea803fe97874", + "image_id": 8, + "image_name": "10418.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 111.545, - 4053.508, - 1070.039, - 321.6859999999997 + 418.877, + 272.906, + 354.704, + 76.144 ], "priority": 7, "parents": [ - 190117 - ], - "children": [ - 190129 + 151 ], - "area": 452148.54985999997, + "children": [], + "area": 114314.046562, "iscrowd": 0, "segmentation": [] }, { - "id": 190129, - "strid": "467a9628-3a37-4a3b-b198-35f40dbdd9de", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 6, - "category_name": "Caption", + "id": 154, + "strid": "21cd5863-5821-484d-9824-159be1391a93", + "image_id": 8, + "image_name": "10418.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 125.886, - 3963.374, - 920.663, - 77.59299999999985 + 73.349, + 375.055, + 40.318, + 11.814999999999998 ], "priority": 8, "parents": [ - 190138 + 146 ], - "children": [], - "area": 498933.299364, + "children": [ + 159, + 163, + 165, + 157, + 155, + 161 + ], + "area": 27509.909195, "iscrowd": 0, "segmentation": [], - "text": "Table 1. Mean baseline characteristics of TEMPO 3:4 patients\nclassified as 1C, 1D and 1E at baseline" + "text": "" }, { - "id": 190141, - "strid": "b7faf8b6-011f-4315-a533-fadea16eb44b", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 3, - "category_name": "Text", + "id": 155, + "strid": "762665b0-6da7-44f5-b99c-22b916ab229a", + "image_id": 8, + "image_name": "10418.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 128.309, - 4388.428, - 750.998, - 63.00799999999981 + 55.307, + 396.655, + 343.26, + 205.62200000000007 ], "priority": 9, "parents": [ - 190117 + 154 ], - "children": [], - "area": 563074.808252, + "children": [ + 156 + ], + "area": 21937.798085, "iscrowd": 0, - "segmentation": [], - "text": "eGFR: estimated glomerular filtration rate, TKV: total kidney volume\nN=1,273; remaining patients classified as 1B (96) or 2 (42)" + "segmentation": [] }, { - "id": 190122, - "strid": "2058b3e9-876d-4fef-8741-6f9b43a52c63", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 7, - "category_name": "Table", + "id": 156, + "strid": "c40a2de6-5094-40f7-98cb-177b4f8fb0fc", + "image_id": 8, + "image_name": "10418.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1251.941, - 1078.579, - 1066.2160000000001, - 318.9559999999999 + 73.441, + 608.131, + 297.813, + 14.986999999999966 ], "priority": 10, "parents": [ - 190117 - ], - "children": [ - 190119 + 155 ], - "area": 1350317.271839, + "children": [], + "area": 44661.748771, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 1 Average number of investigations per day and their annual cost" }, { - "id": 190119, - "strid": "13519310-b87a-498d-ba67-60d4bcbb7993", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 6, - "category_name": "Caption", + "id": 157, + "strid": "a3d870c4-59ed-4783-9207-9f91a9d53da1", + "image_id": 8, + "image_name": "10418.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1265.453, - 988.634, - 1036.882, - 79.71499999999992 + 54.665, + 652.804, + 345.032, + 222.336 ], "priority": 11, "parents": [ - 190122 + 154 ], - "children": [], - "area": 1251069.861202, + "children": [ + 158 + ], + "area": 35685.53066, "iscrowd": 0, - "segmentation": [], - "text": "Table 2. TKV boundaries of Mayo class 1C, 1D and 1E for mean ages\nobserved in each TEMPO 3:4 subgroup" + "segmentation": [] }, { - "id": 190142, - "strid": "dbad0314-4b63-4e3a-af74-7a574bfdf1be", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 3, - "category_name": "Text", + "id": 158, + "strid": "e5e691e6-97cd-4d5e-b7aa-77c9b0d39fa0", + "image_id": 8, + "image_name": "10418.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1267.009, - 1415.013, - 803.0969999999998, - 59.59699999999998 + 69.462, + 883.552, + 309.089, + 29.998000000000047 ], "priority": 12, "parents": [ - 190117 + 157 ], "children": [], - "area": 1792834.206117, + "area": 61373.289024000005, "iscrowd": 0, "segmentation": [], - "text": "TKV: total kidney volume\n* TKV range based on bounds of each Mayo class and height 1.66-1.8m" + "text": "‘Figure 2 Qualitative feedback from survey of AICU MDT stoff on frequency\nibeetinaions" }, { - "id": 190126, - "strid": "70c8288f-28c4-4130-9bf6-96a265954ff1", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 3, - "category_name": "Text", + "id": 159, + "strid": "39d144b7-b91b-4e0e-a88a-5d0552612576", + "image_id": 8, + "image_name": "10418.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1265.309, - 1542.364, - 1039.7169999999999, - 603.6259999999997 + 49.951, + 940.673, + 360.538, + 188.64100000000008 ], "priority": 13, "parents": [ - 190117 + 154 ], - "children": [], - "area": 1951567.050476, + "children": [ + 160 + ], + "area": 46987.557023, "iscrowd": 0, - "segmentation": [], - "text": "The impact of within-class variation of TKV was assessed in\nthe ADPKD OM using the age-dependent upper and lower\nbounds of the Mayo classification (Table 2), while all other\ncharacteristics were held constant. Heights of 1.66m (lower)\nand 1.8m (upper) were utilised based on the TEMPO 3:4\ndata to convert height-adjusted TKV boundaries of each\nMayo class to TKV values.\n\nFinally, long-term outcomes were predicted within the\nADPKD OM (parameterised to a UK setting [8]) for cohorts\nof patients with each TEMPO 3:4 subgroup profile.\n\nThe following outcomes were estimated over a lifetime\nhorizon:" + "segmentation": [] }, { - "id": 190127, - "strid": "2dd323cf-fe0c-4ffa-9447-40975ae849f1", - "image_id": 207919, - "image_name": "9118.png", - "category_id": 4, - "category_name": "List", + "id": 160, + "strid": "12c19e98-68eb-4ce2-91c1-0ebe33411254", + "image_id": 8, + "image_name": "10418.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1340.928, - 2189.427, - 890.9170000000001, - 217.92700000000013 + 73.329, + 1140.896, + 236.75799999999998, + 13.603000000000065 ], "priority": 14, "parents": [ - 190117 + 159 ], "children": [], - "area": 2935863.9682560004, + "area": 83660.76278399999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 3 Clotting results throughout patient MGP MetaGénoPolis, INRA, Université Paris-Saclay, 78350 Jouy en Josas, France ©CentraleSupélec, Université Paris-Saclay, 92290 Chatenay-Malabry, France ¢King’s College London, Centre for Host-Microbiome Interactions, London, UK" }, { - "id": 176467, - "strid": "fe0fe7c5-87c5-47b7-8bfc-87937920d841", - "image_id": 207388, - "image_name": "8001.png", + "id": 186, + "strid": "9c4860b9-96d1-43f5-855d-9150d0cef529", + "image_id": 10, + "image_name": "10488.png", "category_id": 5, "category_name": "Section", "bbox": [ - 371.48, - 752.126, - 442.659, - 94.56500000000005 + 473.532, + 574.782, + 395.95700000000005, + 70.654 ], "priority": 3, "parents": [ - 176483 + 183 ], "children": [ - 176474 + 187 ], - "area": 279399.76648, + "area": 272177.670024, "iscrowd": 0, "segmentation": [], - "text": "Background" + "text": "Introduction" }, { - "id": 176474, - "strid": "c907907a-2a70-40c1-a549-148ffad5218d", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 187, + "strid": "355381cc-6ffb-4da4-b70a-1e8531c5529f", + "image_id": 10, + "image_name": "10488.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 124.95, - 940.292, - 921.836, - 1249.5590000000002 + 94.989, + 685.119, + 1157.211, + 947.8550000000001 ], "priority": 4, "parents": [ - 176467 + 186 ], "children": [], - "area": 117489.4854, + "area": 65078.768691000005, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Metagenomic shotgun sequencing is a culture-free technology that\nallows strain-level characterization of complex microbial communities.\n\nRecent analysis pipelines can capture intra-species gene content\nvariability and SNPs within and between metagenomic samples. [1,2,3]\n\nHowever, these tools rely on sparse reference genomes databases which\nlimit the scope of the analysis.\n\nNielsen et al. [4] showed that genomes of microbial organisms can be\nreconstituted by binning co-abundant genes obtained from de novo\nmetagenomics assembly. This method groups core genes and highly\nprevalent accessory genes but misses rare accessory genes or assigns them\nto small separated clusters. Moreover, Pearson correlation used to detect\nrelated genes is highly sensitive to outliers and may miss some relevant\nrelations.\n\nWe propose a new method that reconstitutes species pangenomes by\nbinning co-abundant genes across metagenomic samples. It distinguishes\ncore genes from accessory and shared genes even when rarely observed.\nThe method relies on a new robust score that is only limited by the number\nof reads mapped on a gene and its prevalence across samples." }, { - "id": 176469, - "strid": "def26749-dfad-4034-bca2-0d7112cba01f", - "image_id": 207388, - "image_name": "8001.png", + "id": 188, + "strid": "fdc15e7f-537c-4bfe-8ea4-b87eef825242", + "image_id": 10, + "image_name": "10488.png", "category_id": 5, "category_name": "Section", "bbox": [ - 398.668, - 2324.272, - 388.706, - 93.12300000000005 + 526.32, + 1754.642, + 300.145, + 70.24700000000007 ], "priority": 5, "parents": [ - 176483 + 183 ], "children": [ - 176478 + 189, + 191 ], - "area": 926612.869696, + "area": 923503.1774400001, "iscrowd": 0, "segmentation": [], - "text": "Objectives" + "text": "Rationale" }, { - "id": 176478, - "strid": "895fc80a-1a1a-429d-9ecd-e3f8ade26361", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 189, + "strid": "8c4cef2c-c7ae-4c10-a239-8aeea403ec0e", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 132.926, - 2492.891, - 916.1660000000002, - 541.6280000000002 + 97.65, + 1889.374, + 1154.376, + 772.0820000000001 ], "priority": 6, "parents": [ - 176469 + 188 ], - "children": [], - "area": 331370.02906599996, + "children": [ + 190 + ], + "area": 184497.37110000002, "iscrowd": 0, "segmentation": [] }, { - "id": 176470, - "strid": "4372bd54-8df1-4044-a22d-26987f9f6e00", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 5, - "category_name": "Section", + "id": 190, + "strid": "28e193a4-6b01-4d44-845a-b3eba8c7a5d0", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 436.281, - 3208.183, - 318.757, - 72.4369999999999 + 113.935, + 2704.459, + 947.393, + 40.603000000000065 ], "priority": 7, "parents": [ - 176483 - ], - "children": [ - 176477 + 189 ], - "area": 1399669.287423, + "children": [], + "area": 308132.536165, "iscrowd": 0, "segmentation": [], - "text": "Methods" + "text": "Figure 1. Simple model illustrating the rationale behind the method" }, { - "id": 176477, - "strid": "d1707e60-2aff-4623-89af-666ca6e476ea", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 191, + "strid": "c988dd86-bba7-4b4c-ac2d-ea84394d808b", + "image_id": 10, + "image_name": "10488.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 128.525, - 3382.406, - 935.916, - 1175.4139999999998 + 107.906, + 2748.528, + 1104.707, + 357.4290000000001 ], "priority": 8, "parents": [ - 176470 + 188 ], "children": [], - "area": 434723.73115, + "area": 296582.662368, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "5 samples carry different strains from the same species. Three core genes (red, blue,\norange) are present in all the strains. Two accessory genes (green, purple) are present\nonly in some strains. The abundance of the species in each sample ranges from 1 to 3\ncopies.\n\nAfter shotgun sequencing, a raw gene abundance matrix is built.\n\nA strict proportionality relationship is expected between two core genes, the\nproportionality coefficient being equal to the ratio of their length. In contrast, such\nrelationship between a core and an accessory gene should be observed only in the\nsubset of samples where the accessory gene is present." }, { - "id": 176468, - "strid": "bb830d33-99e3-4a92-98de-a5d3a1f29595", - "image_id": 207388, - "image_name": "8001.png", + "id": 192, + "strid": "8390c72e-8160-4d27-9785-680c2bde6858", + "image_id": 10, + "image_name": "10488.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1902.759, - 755.418, - 276.90700000000015, - 76.70100000000002 + 2154.695, + 574.179, + 282.8789999999999, + 69.56000000000006 ], "priority": 9, "parents": [ - 176483 + 183 ], "children": [ - 176475, - 176479 + 201, + 197, + 193, + 195, + 199, + 203 ], - "area": 1437378.398262, + "area": 1237180.620405, "iscrowd": 0, "segmentation": [], - "text": "Results" + "text": "Methods" }, { - "id": 176475, - "strid": "9b9f45b5-7c48-4963-826b-fe99ada1e682", - "image_id": 207388, - "image_name": "8001.png", + "id": 193, + "strid": "2d17bb45-a02b-4601-8835-b9064808265f", + "image_id": 10, + "image_name": "10488.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1143.561, - 929.631, - 2050.327, - 1290.1530000000002 + 1428.067, + 679.054, + 751.2339999999999, + 503.352 ], "priority": 10, "parents": [ - 176468 + 192 ], "children": [ - 176476 + 194 ], - "area": 1063089.755991, + "area": 969734.6086179999, "iscrowd": 0, "segmentation": [] }, { - "id": 176476, - "strid": "4a9cf750-fb12-45d6-a0da-82308b0811d8", - "image_id": 207388, - "image_name": "8001.png", + "id": 194, + "strid": "0ab9c2d8-8b88-4c25-9bd6-5927b1d943a1", + "image_id": 10, + "image_name": "10488.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1134.208, - 2239.25, - 2040.8020000000001, - 214.5079999999998 + 1416.578, + 1190.273, + 529.7640000000001, + 88.2940000000001 ], "priority": 11, "parents": [ - 176475 + 193 ], "children": [], - "area": 2539775.264, + "area": 1686114.545794, "iscrowd": 0, "segmentation": [], - "text": "Figure 1. NODDI and DTI indices for whole brain comparison analysis between control and ALS groups.\nA: Neurite Density Index (NDI). B: Orientation Dispersion Index (ODI). C: Isometric Compartment (ISO).\nD: Fractional Anisotropy (FA). Results were accepted as significant for p<0.05 after FWE correction at\ncluster level, clusters formed with p<0.001. The diffusion data was analysed using NODDI toolbox.\"" + "text": "Figure 2. structuration of MSPs\n(Metagenomic Species Pan-genomes)" }, { - "id": 176479, - "strid": "d011c3d7-9810-4f9a-9f73-c73c95d0708b", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 195, + "strid": "23450ca2-fc81-4acb-bfab-79f94933bb04", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1123.275, - 2478.867, - 2078.7, - 631.2780000000002 + 2328.536, + 706.878, + 849.8800000000001, + 472.9989999999999 ], "priority": 12, "parents": [ - 176468 + 192 ], - "children": [], - "area": 2784449.3294250006, + "children": [ + 196 + ], + "area": 1645990.870608, "iscrowd": 0, "segmentation": [] }, { - "id": 176471, - "strid": "254e9468-41a7-4de1-bd8f-88597cbf1adc", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 5, - "category_name": "Section", + "id": 196, + "strid": "16d88554-93c3-47d0-bc4e-5d442588e50a", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1453.73, - 3203.295, - 404.183, - 78.32999999999993 + 2337.575, + 1191.795, + 835.748, + 86.77199999999993 ], "priority": 13, "parents": [ - 176483 - ], - "children": [ - 176481 + 195 ], - "area": 4656726.04035, + "children": [], + "area": 2785910.197125, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Figure 3.a. Illustration of a core gene in the MSP\ncorresponding to R. bromii" }, { - "id": 176481, - "strid": "2f5dbd4f-9c7a-4906-932b-eb1329902570", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 197, + "strid": "9fb1541f-ac6f-4784-b1c5-9e115bde2d5f", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1142.379, - 3378.324, - 1001.924, - 1215.324 + 1400.244, + 1316.465, + 852.4100000000001, + 478.058 ], "priority": 14, "parents": [ - 176471 + 192 ], - "children": [], - "area": 3859326.3927959995, + "children": [ + 198 + ], + "area": 1843372.2174599997, "iscrowd": 0, "segmentation": [] }, { - "id": 176472, - "strid": "d6fbb669-4545-47ad-bf7d-cfd38ade975d", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 5, - "category_name": "Section", + "id": 198, + "strid": "d66db996-aaa8-4f8b-80ee-ed6b8c401f63", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2502.516, - 3205.575, - 413.442, - 73.58599999999979 + 1408.148, + 1805.576, + 832.3509999999999, + 88.02500000000009 ], "priority": 15, "parents": [ - 176483 - ], - "children": [ - 176480 + 197 ], - "area": 8022002.7266999995, + "children": [], + "area": 2542518.233248, "iscrowd": 0, "segmentation": [], - "text": "Conclusion" + "text": "Figure 3.b. Illustration of an accessory gene in the MSP\ncorresponding to R. bromii" }, { - "id": 176480, - "strid": "ab718b05-f698-4835-ba54-148b75753fbe", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 199, + "strid": "f8ec4e07-a02e-45d5-8fcc-b2af67c74e53", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2212.089, - 3374.529, - 952.9409999999998, - 451.2199999999998 + 2323.477, + 1316.465, + 854.9389999999999, + 475.528 ], "priority": 16, "parents": [ - 176472 + 192 ], - "children": [], - "area": 7464758.481081, + "children": [ + 200 + ], + "area": 3058776.1488049994, "iscrowd": 0, "segmentation": [] }, { - "id": 176473, - "strid": "17c2d394-fd48-411b-8755-97a6f605211f", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 5, - "category_name": "Section", + "id": 200, + "strid": "542edc08-0043-4d84-a3fa-9cdaa0daf7ee", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2505.782, - 3952.617, - 414.16899999999987, - 79.72499999999991 + 2338.88, + 1806.871, + 834.94, + 85.43599999999992 ], "priority": 17, "parents": [ - 176483 - ], - "children": [ - 176482 + 199 ], - "area": 9904396.531494, + "children": [], + "area": 4226054.44448, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Figure 3.c. Illustration of a shared accessory gene in the\nMSP corresponding to R. bromii" }, { - "id": 176482, - "strid": "53f3d376-c958-489a-8d10-931a8e50c1e9", - "image_id": 207388, - "image_name": "8001.png", - "category_id": 4, - "category_name": "List", + "id": 201, + "strid": "c77634f3-f958-4133-8ff3-add371210061", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2214.566, - 4125.34, - 971.0079999999998, - 309.08299999999963 + 1672.876, + 1928.127, + 1252.1049999999998, + 724.634 ], "priority": 18, "parents": [ - 176473 - ], - "children": [], - "area": 9135837.70244, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 2799, - "strid": "918ff108-0b53-4007-81d6-1683f0dddefd", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 43.49, - 15.43, - 145.47, - 145.47 + 192 ], - "priority": -1, - "parents": [], "children": [ - 2783, - 2788, - 2784, - 2789, - 2782, - 2785, - 2786, - 2787 + 202 ], - "area": 671.0507, + "area": 3225517.383252, "iscrowd": 0, "segmentation": [] }, { - "id": 2788, - "strid": "88ac3ae2-cffe-4c92-9721-03c459e3bba8", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 1, - "category_name": "Title", + "id": 202, + "strid": "5bb83901-e281-405e-b8bc-20a561fbc774", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 254.084, - 195.318, - 1432.444, - 290.004 + 1695.435, + 2674.354, + 990.172, + 48.95600000000013 ], - "priority": 1, + "priority": 19, "parents": [ - 2799 + 201 ], "children": [], - "area": 49627.178712, + "area": 4534193.373989999, "iscrowd": 0, "segmentation": [], - "text": "Retrospective analysis of trends in outcome following\nOut of Hospital Cardiac Arrest\nfrom a UK regional cardiac arrest centre,\nwith a focus on haematological parameters" + "text": "Figure 4. Workflow for Metagenomics Species Pan-genomes generation" }, { - "id": 2789, - "strid": "5237fef1-c279-4c3d-99ee-6f55dbbec5cb", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 0, - "category_name": "Author Info", + "id": 203, + "strid": "182a13cc-1e80-4e54-901c-67195c40669c", + "image_id": 10, + "image_name": "10488.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 409.865, - 523.192, - 1119.861, - 45.11800000000005 + 1449.829, + 2729.729, + 1691.6919999999998, + 380.69000000000005 ], - "priority": 2, + "priority": 20, "parents": [ - 2799 + 192 ], "children": [], - "area": 214438.08908, + "area": 3957640.2663409994, "iscrowd": 0, - "segmentation": [], - "text": "A. Skorko, M. Thomas. Bristol Royal Infirmary, Bristol, United Kingdom" + "segmentation": [] }, { - "id": 2782, - "strid": "8359ed8f-06b3-4303-802f-471fbb57d631", - "image_id": 200614, - "image_name": "10382.png", + "id": 204, + "strid": "b856c749-887c-4dbb-b154-d70d8e2ab328", + "image_id": 10, + "image_name": "10488.png", "category_id": 5, "category_name": "Section", "bbox": [ - 844.608, - 637.805, - 252.9079999999999, - 42.089000000000055 + 3874.53, + 575.049, + 223.32100000000037, + 64.38099999999997 ], - "priority": 3, + "priority": 21, "parents": [ - 2799 + 183 ], "children": [ - 2790 + 205, + 211, + 209, + 206, + 208 ], - "area": 538695.2054399999, + "area": 2228044.60197, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Results" }, { - "id": 2790, - "strid": "6c47c714-4cbe-4955-bd89-9d76d4f46b42", - "image_id": 200614, - "image_name": "10382.png", + "id": 205, + "strid": "be574a45-9999-43b2-9a9a-ceea632c9c84", + "image_id": 10, + "image_name": "10488.png", "category_id": 3, "category_name": "Text", "bbox": [ - 113.902, - 702.938, - 1722.916, - 418.4440000000001 + 3349.325, + 690.399, + 1274.4920000000002, + 428.2130000000001 ], - "priority": 4, + "priority": 22, "parents": [ - 2782 + 204 ], "children": [], - "area": 80066.044076, + "area": 2312370.6306749997, "iscrowd": 0, "segmentation": [], - "text": "The Bristol Royal Infirmary is a tertiary centre for the management of out of hospital cardiac arrests (OHCA), covering a metropolitan population of\n1,000,000 in the South West of England. Since 2008 there has been a steady rise in the number of patients treated at our centre.\n\nAn ongoing matter for debate in the treatment of patients following OHCA is what the optimal antiplatelet drug strategy that should be delivered,\ngiven the concerns of both bleeding and clotting complications.\n\nThere is often reticence on the part of the intensive care teams to give full antiplatelet therapy to OHCA survivors, due to the perceived risk of\nbleeding. Studies vary in the rates of bleeding seen in this population, from 0 to 56% (1). However rates of acute in-stent thrombosis in this population\nare as high as 10%, compared to 2% in the acute ST elevation (STEMI) population(2).\n\nTherefore the need to balance the bleeding and thrombosis risks is of upmost importance.\n\nWe present the overall survival of patients treated following out of hospital cardiac arrest, alongside haematological parameters in the first 24 hours,\nin one UK centre over the period January 2009 to August 2016." + "text": "The method has been implemented as a C++ multithreaded program. It can process\nlarge datasets of thousands of samples and millions of genes in few hours on a\nregular single node server..\n\nWe used it to structure the integrated catalog of reference genes of the human gut\nmicrobiome (IGC) [5]. Among the 9.9 million genes, 4.7 million with enough mapped\nreads and enough prevalence across the 1267 samples were kept.\n\n1068 Metagenomic Species Pan-genomes (MSP) with at least 200 genes in their core\ngenes set were discovered." }, { - "id": 2783, - "strid": "79c32a5a-be41-4738-ab19-46600b829515", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 5, - "category_name": "Section", + "id": 206, + "strid": "d51dc466-d7a7-42a9-ab24-45942b66a7a2", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 888.667, - 1154.52, - 161.81100000000004, - 41.44800000000009 + 3351.229, + 1145.075, + 639.1240000000003, + 425.4580000000001 ], - "priority": 5, + "priority": 23, "parents": [ - 2799 + 204 ], "children": [ - 2791 + 207 ], - "area": 1025983.82484, + "area": 3837408.547175, "iscrowd": 0, - "segmentation": [], - "text": "Method" + "segmentation": [] }, { - "id": 2791, - "strid": "a4af9008-c3d7-4758-8d56-5df967c838df", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 3, - "category_name": "Text", + "id": 207, + "strid": "acbe101b-7b5c-4c12-a4e3-52da660821cc", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 115.156, - 1219.807, - 1712.494, - 293.42599999999993 + 4040.879, + 1245.508, + 559.5320000000002, + 81.53199999999993 ], - "priority": 6, + "priority": 24, "parents": [ - 2783 + 206 ], "children": [], - "area": 140468.09489200002, + "area": 5032947.121532, "iscrowd": 0, "segmentation": [], - "text": "To understand why OHCA survivors may be at risk of bleeding and to try to quantify whether this impacts survival to hospital discharge, we\nretrospectively analysed laboratory parameters of coagulation (PT and APTT) and platelet count, alongside the haemoglobin value and stratified these\nby survival to hospital discharge.\n\nRoutinely collected data was used to identify patients for this analysis. Data was extracted for those coded as ‘Anoxic or ischaemic coma or\nencephalopathy’ with ‘Acute myocardial infarction’ or ‘Ventricular tachycardia or fibrillation’. Our electronic records began in December 2008 and\ncontinue to the present day. Data for 2016 is available up to and including August. Parameters of ‘status at hospital discharge’, lowest platelet count,\nAPTT and lowest haemoglobin within 24 hours of admission were extracted from the database." + "text": "Figure 5. Lowest taxonomic rank\nassigned to MSPs" }, { - "id": 2784, - "strid": "d6cd2a15-a6ad-4b1a-a624-44708a7069dc", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 5, - "category_name": "Section", + "id": 208, + "strid": "fa8313b6-5f15-4c1a-98a2-51a16b3c0bd1", + "image_id": 10, + "image_name": "10488.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 895.181, - 1547.228, - 147.096, - 45.48700000000008 + 4043.177, + 1327.834, + 554.2469999999998, + 120.40200000000004 ], - "priority": 7, + "priority": 25, "parents": [ - 2799 + 204 ], "children": [], - "area": 1385049.1082680002, + "area": 5368667.888618001, "iscrowd": 0, "segmentation": [], - "text": "Results" + "text": "Taxonomic annotation of MSPs was\nperformed by comparing core genes\nagainst KEGG GENES and RefSeq." }, { - "id": 2785, - "strid": "9bde04e9-4b3a-4ee1-b058-0a9ca877a330", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 5, - "category_name": "Section", + "id": 209, + "strid": "3587bef7-b8a1-403a-bf70-1ecd36ca54ed", + "image_id": 10, + "image_name": "10488.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 684.81, - 1625.581, - 569.52, - 38.274000000000115 + 3324.989, + 1630.51, + 719.7170000000001, + 491.057 ], - "priority": 8, + "priority": 26, "parents": [ - 2799 + 204 ], "children": [ - 2794, - 2795 + 210 ], - "area": 1113214.1246099998, + "area": 5421427.81439, "iscrowd": 0, - "segmentation": [], - "text": "Rates of admission and survival" + "segmentation": [] }, { - "id": 2794, - "strid": "1ff46b20-aec1-4756-88ba-2ae6451da061", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 2, - "category_name": "Figure", + "id": 210, + "strid": "8f5d957b-80e7-446b-b904-4f2db4fbf69f", + "image_id": 10, + "image_name": "10488.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 122.563, - 1785.421, - 927.83, - 627.3170000000002 + 4050.471, + 1675.548, + 594.7019999999998, + 84.72900000000004 ], - "priority": 9, + "priority": 27, "parents": [ - 2785 - ], - "children": [ - 2796 + 209 ], - "area": 218826.554023, + "children": [], + "area": 6786758.583108, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 6. composition of MSPs matching\nknown species" }, { - "id": 2796, - "strid": "d4db7943-bc0c-4c85-8691-b1e15f6d347c", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 6, - "category_name": "Caption", + "id": 211, + "strid": "36ae22aa-ebaa-427e-9f4c-27d2a66d8434", + "image_id": 10, + "image_name": "10488.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 249.53, - 1723.906, - 661.183, - 58.21900000000005 + 4051.137, + 1759.689, + 594.0489999999995, + 245.779 ], - "priority": 10, + "priority": 28, "parents": [ - 2794 + 204 ], "children": [], - "area": 430166.26418, + "area": 7128741.216393, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: Number of OHCA patients admitted to the BRI and\nmortality rate by year (2009-2016)" + "text": "The method discovered very few new genes\nfor well-characterized species like E. coli that\nhave thousands of sequenced strains.\nHowever, many previously unknown\naccessory genes genes were discovered for\nspecies with just a few representatives." }, { - "id": 2795, - "strid": "d23ede7e-f44c-48b1-9199-188191bfeef1", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 7, - "category_name": "Table", + "id": 212, + "strid": "506f2ebf-e635-4195-b906-e66923eb6000", + "image_id": 10, + "image_name": "10488.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1083.105, - 1936.725, - 734.8820000000001, - 484.1419999999998 + 3809.008, + 2227.556, + 355.6090000000004, + 74.08500000000004 ], - "priority": 11, + "priority": 29, "parents": [ - 2785 + 183 ], "children": [ - 2797 + 213 ], - "area": 2097676.5311249997, + "area": 8484778.624448, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion" }, { - "id": 2797, - "strid": "5b003b36-aee2-495f-85c3-53be9078234f", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 6, - "category_name": "Caption", + "id": 213, + "strid": "992c58e1-94e5-457c-b07c-7baf8ef71504", + "image_id": 10, + "image_name": "10488.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1091.807, - 1728.072, - 729.194, - 178.519 + 3346.225, + 2337.459, + 1270.7069999999999, + 280.76200000000017 ], - "priority": 12, + "priority": 30, "parents": [ - 2795 + 212 ], "children": [], - "area": 1886721.106104, + "area": 7821663.742275, "iscrowd": 0, "segmentation": [], - "text": "Figure 1 demonstrates an upward trend in the number of\npatients been treated by our unit, at the same time as hospital\nmortality has shown a downward trend. The outcomes for\nsurvival in our unit are consistently below the national\n\naverage(3)." + "text": "Our approach enables an efficient and informative reconstitution of pan-genomes\nfrom shotgun metagenomic data without referring to genomes from isolated\nstrains. It gives an overview of the genetic variation of microbes in a given\necosystem. Identification of core genes sets and accessory modules can be used for\na more accurate counting of microbes abundance and their optional functional\nunits." }, { - "id": 2786, - "strid": "1e75dc3f-6d2c-4189-a52e-aa77857c3890", - "image_id": 200614, - "image_name": "10382.png", + "id": 214, + "strid": "60601ff6-ac69-4b0c-b742-a3d876361d55", + "image_id": 10, + "image_name": "10488.png", "category_id": 5, "category_name": "Section", "bbox": [ - 561.397, - 2468.079, - 817.522, - 43.21199999999999 + 3815.723, + 2712.131, + 349.0779999999995, + 76.36099999999988 ], - "priority": 13, + "priority": 31, "parents": [ - 2799 + 183 ], "children": [ - 2792, - 2798 + 215 ], - "area": 1385572.1463630002, + "area": 10348740.635713, "iscrowd": 0, "segmentation": [], - "text": "Parameters of coagulation and platelet count" + "text": "References" }, { - "id": 2792, - "strid": "2c512526-2a81-4448-9c3c-bfa54936d1ec", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 3, - "category_name": "Text", + "id": 215, + "strid": "109bfe70-aba5-42d7-941c-192cb0e1be86", + "image_id": 10, + "image_name": "10488.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 116.411, - 2544.049, - 1684.953, - 69.30200000000013 + 3351.435, + 2823.882, + 1195.726, + 283.25199999999995 ], - "priority": 14, + "priority": 32, "parents": [ - 2786 + 214 ], "children": [], - "area": 296155.288139, + "area": 9464056.97067, "iscrowd": 0, - "segmentation": [], - "text": "Analysing the differences between survivors and non survivors as regards the coagulation parameters in the first 24 hours, demonstrates that there is\nno clinically significant difference in haemoglobin level, platelet counts, PT, or APTT parameters (see table above)." + "segmentation": [] }, { - "id": 2798, - "strid": "fce579ff-db87-4be4-91fa-6db8a81a590b", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 116.202, - 2633.298, - 1008.576, - 130.5619999999999 + "id": 216, + "strid": "7fa18c2a-3ed5-4029-a58d-1e8d9e5c95c2", + "image_id": 11, + "image_name": "10629.png", + "category_id": 9, + "category_name": "Root", + "bbox": [ + 2376.89, + 108.93, + 198.09000000000015, + 186.76 ], - "priority": 15, - "parents": [ - 2786 + "priority": -1, + "parents": [], + "children": [ + 217, + 236, + 238, + 226, + 232, + 222, + 218, + 219 ], - "children": [], - "area": 305994.494196, + "area": 258914.6277, "iscrowd": 0, "segmentation": [] }, { - "id": 2787, - "strid": "fb9ec2d5-e1f1-4b2a-8f25-bbef110d13d0", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 5, - "category_name": "Section", + "id": 217, + "strid": "132e75a4-91c2-4f1e-8672-03d40aecb4ad", + "image_id": 11, + "image_name": "10629.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 855.014, - 2800.468, - 225.1250000000001, - 40.391999999999825 + 204.089, + 184.82, + 2054.586, + 302.867 ], - "priority": 16, + "priority": 1, "parents": [ - 2799 - ], - "children": [ - 2793 + 216 ], - "area": 2394439.346552, + "children": [], + "area": 37719.72898, "iscrowd": 0, "segmentation": [], - "text": "Conclusion" + "text": "A crisis of protection and safe passage:\nviolence experienced by migrants/refugees travelling\nalong the Western Balkan corridor to Northern Europe" }, { - "id": 2793, - "strid": "35cd035d-9afe-4683-8ff8-c1cabce04dc9", - "image_id": 200614, - "image_name": "10382.png", - "category_id": 3, - "category_name": "Text", + "id": 218, + "strid": "a7210153-6318-4ede-ade9-1c7655fdf29e", + "image_id": 11, + "image_name": "10629.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 113.991, - 2866.477, - 1707.336, - 308.8249999999998 + 153.029, + 576.004, + 2158.4, + 207.159 ], - "priority": 17, + "priority": 2, "parents": [ - 2787 + 216 ], "children": [], - "area": 326752.579707, + "area": 88145.316116, "iscrowd": 0, "segmentation": [], - "text": "Our data demonstrates that absolute platelet count, haemoglobin, PT and APTT in the first 24 hours do not differ between survivors and non-survivors\nof OHCA. Abnormalities in platelet count or coagulation markers within the first 24 hours of admission do not explain differences between survivors\nand non survivors of OHCA.\n\nHowever, absolute values do not give an indication as to the function of platelets or of the coagulation cascade. An analysis of platelet function and\nthe coagulation cascade as a whole may provide better insights into the risks of bleeding in this population.\n\nWe therefore propose to carry out a prospective analysis of thromoelastometric coagulation assessment and platelet inhibition, and correlate this with\nbleeding events and administration of antiplatelet therapy." + "text": "'Médecins Sans Frontiéres *International Union Against TB and Lung Disease; 7London School of Hygiene and Tropical Medicine." }, { - "id": 111378, - "strid": "03785966-2900-4fcb-bfdf-30bc195ec322", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 9, - "category_name": "Root", + "id": 219, + "strid": "a189018a-4397-4f01-9aa7-eef7f03b33f2", + "image_id": 11, + "image_name": "10629.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 758.72, - 702.05, - 442.4100000000001, - 194.04000000000008 + 688.639, + 907.708, + 307.605, + 57.18799999999999 + ], + "priority": 3, + "parents": [ + 216 ], - "priority": -1, - "parents": [], "children": [ - 111362, - 111361, - 111368, - 111366, - 111367, - 111364 + 221, + 220 ], - "area": 532659.3759999999, + "area": 625083.129412, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Background" }, { - "id": 111361, - "strid": "bea4fdef-8847-4cd7-8962-6e1fa2aa455d", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 1, - "category_name": "Title", + "id": 220, + "strid": "50df78d6-b317-47a5-a87e-f966f0e97290", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1002.008, - 338.615, - 3538.808, - 296.98199999999997 + 158.173, + 1015.683, + 1356.895, + 141.76499999999987 ], - "priority": 1, + "priority": 4, "parents": [ - 111378 + 219 ], "children": [], - "area": 339294.93892000004, + "area": 160653.627159, "iscrowd": 0, "segmentation": [], - "text": "OPTIC NERVE LYMPHOMA:\nADDRESSING LIMITATIONS OF AN ACTIVE INTERVENTION" + "text": "To curb the influx of migrants/refugees, during 2015 and 2016, European\ncountries instituted restrictive migration policies often characterized by building\nof razor-wire border fences and border closures." }, { - "id": 111362, - "strid": "00b8a350-8e00-4380-b076-360fbf0422a9", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 0, - "category_name": "Author Info", + "id": 221, + "strid": "e80e9fc0-fbb7-4177-a9d1-662437c1681c", + "image_id": 11, + "image_name": "10629.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1484.951, - 674.455, - 2584.023, - 227.59399999999994 + 148.488, + 1193.562, + 1379.58, + 1182.0990000000002 ], - "priority": 2, + "priority": 5, "parents": [ - 111378 + 219 ], "children": [], - "area": 1001532.6267050001, + "area": 177229.634256, "iscrowd": 0, - "segmentation": [], - "text": "Rohan Bir Singh, Parul Ichhpujani, Sahil Thakur\nDepartment of Ophthalmology, Government Medical College & Hospital, Sector 32-A, Chandigarh, India.\nEmail : dr.rohandhaliwal@gmail.com; itsdrparul@gmail.com" + "segmentation": [] }, { - "id": 111368, - "strid": "75c25ae0-28c0-47f3-bdb9-eb6b9e99f232", - "image_id": 204823, - "image_name": "13199.png", + "id": 222, + "strid": "0bc56c0d-0908-44a7-8650-ef3f4f606ae8", + "image_id": 11, + "image_name": "10629.png", "category_id": 5, "category_name": "Section", "bbox": [ - 220.466, - 1017.112, - 309.64099999999996, - 70.52900000000011 + 1785.517, + 909.159, + 423.048, + 55.813999999999965 ], - "priority": 3, + "priority": 6, "parents": [ - 111378 + 216 ], "children": [ - 111363 + 224, + 225, + 223 ], - "area": 224238.614192, + "area": 1623318.850203, "iscrowd": 0, "segmentation": [], - "text": "Purpose :" + "text": "Study objectives" }, { - "id": 111363, - "strid": "00056b9f-32ec-45b6-9419-5e5886d23f54", - "image_id": 204823, - "image_name": "13199.png", + "id": 223, + "strid": "03e2cccb-7841-41f9-bd60-7879a022cbaf", + "image_id": 11, + "image_name": "10629.png", "category_id": 3, "category_name": "Text", "bbox": [ - 216.141, - 1103.743, - 1543.588, - 443.451 + 1585.624, + 1027.355, + 796.9469999999999, + 186.7840000000001 ], - "priority": 4, + "priority": 7, "parents": [ - 111368 + 222 ], "children": [], - "area": 238564.11576299998, + "area": 1628998.74452, "iscrowd": 0, "segmentation": [], - "text": "Studying limitations of active intervention in a rare\ncase of refractory optic nerve lymphoma ina\nCHOP(cyclophosphamide, doxorubicin, vincristine,\nand prednisone) treated NHL (Non Hodgkin\nLymphoma) & B-cell Type IV(Ann Arbor Staging)" + "text": "Among migrants/refugees who received mental\nhealth care, and who were traveling along the\n\nBalkan route to Northern Europe we report\non:" }, { - "id": 111364, - "strid": "0ed44e3e-0ab7-4ae1-8ea6-6849275bfd14", - "image_id": 204823, - "image_name": "13199.png", + "id": 224, + "strid": "6c0a5826-db25-4cc3-80ab-6197d6ba4ad4", + "image_id": 11, + "image_name": "10629.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1589.231, + 1275.958, + 817.6900000000003, + 440.721 + ], + "priority": 8, + "parents": [ + 222 + ], + "children": [], + "area": 2027792.008298, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 225, + "strid": "0dda4923-eebf-43ff-84c3-9c749af42f15", + "image_id": 11, + "image_name": "10629.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1586.418, + 1751.118, + 815.5260000000001, + 619.268 + ], + "priority": 9, + "parents": [ + 222 + ], + "children": [], + "area": 2778005.115324, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 226, + "strid": "c64911da-b5bf-47f9-808f-282d1f786783", + "image_id": 11, + "image_name": "10629.png", "category_id": 5, "category_name": "Section", "bbox": [ - 213.756, - 1591.603, - 308.08400000000006, - 69.38799999999992 + 2677.899, + 911.286, + 221.5079999999998, + 42.11800000000005 ], - "priority": 5, + "priority": 10, "parents": [ - 111378 + 216 ], "children": [ - 111375, - 111370, - 111372, - 111369, - 111371, - 111374 + 228, + 231, + 229, + 230, + 227 ], - "area": 340214.69086800003, + "area": 2440331.8681139997, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 111369, - "strid": "828bafe8-2711-44a0-bd32-e760ffa5884e", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 4, - "category_name": "List", + "id": 227, + "strid": "febc31ca-ac7a-4025-ad0b-362c4e0af115", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 213.585, - 1684.559, - 1617.012, - 705.2920000000001 + 2464.137, + 1027.109, + 551.953, + 47.59999999999991 ], - "priority": 6, + "priority": 11, "parents": [ - 111364 + 226 ], "children": [], - "area": 359796.534015, + "area": 2530937.2899329998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Design: A cross-sectional study" }, { - "id": 111370, - "strid": "8806ebe5-36c9-4882-ba2e-4e1a60e7a49a", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 4, - "category_name": "List", + "id": 228, + "strid": "249fad42-bb2c-4563-81a8-f511680b7461", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 219.32, - 2407.054, - 1585.474, - 346.9119999999998 + 2464.137, + 1110.155, + 545.8759999999997, + 45.57400000000007 ], - "priority": 7, + "priority": 12, "parents": [ - 111364 + 226 ], "children": [], - "area": 527915.08328, + "area": 2735574.011235, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Period: July 2015 and June 2016" }, { - "id": 111371, - "strid": "d0dc425c-d6df-4cae-909e-35708a082ea0", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 4, - "category_name": "List", + "id": 229, + "strid": "0e713de1-f8fc-416e-a454-91ec5901f9de", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 213.585, - 2765.434, - 1622.746, - 702.4250000000002 + 2464.137, + 1194.214, + 563.0929999999998, + 239.01099999999997 ], - "priority": 8, + "priority": 13, "parents": [ - 111364 + 226 ], "children": [], - "area": 590655.2208900001, + "area": 2942706.903318, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Site:\n\nMédecins sans Frontieres (MSF)\nmental health clinics in Serbia — a\nmain transit hub to European\ncountries." }, { - "id": 111372, - "strid": "f607cf6b-1ea6-4696-b0dc-1bffe80daa5f", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 4, - "category_name": "List", + "id": 230, + "strid": "442de04c-df5f-424e-9e10-f6adcbe19d4d", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 216.453, - 3490.796, - 1668.619, - 794.1709999999998 + 2462.112, + 1477.786, + 559.0419999999999, + 246.0999999999999 ], - "priority": 9, + "priority": 14, "parents": [ - 111364 + 226 ], "children": [], - "area": 755593.266588, + "area": 3638474.644032, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Mental health clinics:\nConducted according to MSF\nguidelines by experienced\npsychologists\n\nSupported by cultural mediators." }, { - "id": 111374, - "strid": "d9a30f86-ffd1-4a71-a009-8335f20b31c2", - "image_id": 204823, - "image_name": "13199.png", + "id": 231, + "strid": "73a69638-cb74-41d0-9da4-020d1d5ad176", + "image_id": 11, + "image_name": "10629.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2003.712, - 999.473, - 1600.7649999999999, - 1761.183 + 2448.832, + 1752.56, + 671.835, + 617.6169999999997 ], - "priority": 10, + "priority": 15, + "parents": [ + 226 + ], + "children": [], + "area": 4291725.00992, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 232, + "strid": "795b580f-fd13-4102-a0c3-347addd58ddb", + "image_id": 11, + "image_name": "10629.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 970.639, + 2482.44, + 183.6439999999999, + 42.81899999999996 + ], + "priority": 16, "parents": [ - 111364 + 216 ], "children": [ - 111376 + 235, + 234, + 233 ], - "area": 2002656.043776, + "area": 2409553.07916, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results" }, { - "id": 111376, - "strid": "9fb57c01-a1e6-4677-be5a-982003895736", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 6, - "category_name": "Caption", + "id": 233, + "strid": "585d6562-a23a-4051-a119-3080cec62b11", + "image_id": 11, + "image_name": "10629.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2023.216, - 2811.853, - 1562.7329999999997, - 195.0369999999998 + 153.831, + 2590.828, + 1796.402, + 348.8879999999999 ], - "priority": 11, + "priority": 17, "parents": [ - 111374 + 232 ], "children": [], - "area": 5688985.979247999, + "area": 398549.66206799995, "iscrowd": 0, - "segmentation": [], - "text": "Figure 1: A: OU: Normal Adnexa, B: Unremarkable posterior segment;\nC:HVF 30-2 revealed peripheral field loss in OD with enlargement of\nblind spot with progressive constriction in follow up field." + "segmentation": [] }, { - "id": 111375, - "strid": "b7cbef57-0396-44d0-8f66-0a2e46691d7d", - "image_id": 204823, - "image_name": "13199.png", + "id": 234, + "strid": "dd43ba9b-f13a-456e-8168-1afc217e9240", + "image_id": 11, + "image_name": "10629.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 3932.139, - 992.646, - 1198.0140000000001, - 1774.836 + 151.934, + 2954.227, + 1400.582, + 782.212 ], - "priority": 12, + "priority": 18, "parents": [ - 111364 + 232 ], - "children": [ - 111377 - ], - "area": 3903222.049794, + "children": [], + "area": 448847.525018, "iscrowd": 0, "segmentation": [] }, { - "id": 111377, - "strid": "c24bfcc0-bfe5-4278-99cd-6156d1e44715", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 6, - "category_name": "Caption", + "id": 235, + "strid": "9d987790-6074-4c1a-b381-71e2c2c40f51", + "image_id": 11, + "image_name": "10629.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3629.832, - 2814.291, - 1774.8359999999998, - 260.8620000000001 + 1667.029, + 3213.203, + 1444.6259999999997, + 526.7599999999998 ], - "priority": 13, + "priority": 19, "parents": [ - 111375 + 232 ], "children": [], - "area": 10215403.529112, + "area": 5356502.583887, "iscrowd": 0, - "segmentation": [], - "text": "Figure 2: A: MRI showing focal areas of thickening and signal change in the\nintracanalicular segment of left optic nerve approximately 11mm x 6.5mm,B:\nT2 sequence showing multiple sclerosed skull metastases ,C:Follow up imaging\nshowed bilateral optic nerve involvement with several newer metastases" + "segmentation": [] }, { - "id": 111367, - "strid": "0e040537-3975-4f26-a68e-cb9f356e4391", - "image_id": 204823, - "image_name": "13199.png", + "id": 236, + "strid": "e74baffa-1ac3-4a89-9bfd-86ccc361224b", + "image_id": 11, + "image_name": "10629.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1939.252, - 3167.069, - 259.616, - 66.08399999999983 + 2416.386, + 2483.808, + 311.25, + 42.5920000000001 ], - "priority": 14, + "priority": 20, "parents": [ - 111378 + 216 ], "children": [ - 111365 + 237 ], - "area": 6141744.892388, + "area": 6001838.877888, "iscrowd": 0, "segmentation": [], - "text": "Results:" + "text": "Conclusions" }, { - "id": 111365, - "strid": "ce5cc94f-9f81-4767-9897-4d379833e073", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 3, - "category_name": "Text", + "id": 237, + "strid": "84476a93-33ce-4132-9499-207b5bf8a1b7", + "image_id": 11, + "image_name": "10629.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1934.531, - 3254.394, - 3424.577, - 346.942 + 2031.844, + 2592.085, + 1082.9920000000002, + 548.7150000000001 ], - "priority": 15, + "priority": 21, "parents": [ - 111367 + 236 ], "children": [], - "area": 6295726.079213999, + "area": 5266712.35474, "iscrowd": 0, - "segmentation": [], - "text": "The patient underwent repeat imaging, which showed bilateral optic nerve involvement with several newer\nmetastasis in skull. BCVA reduced to 20/120 in OD and PL negative in OS. The visual field constriction was noted on\nsubsequent visits in right eye with compromised auditory function.The patient’s general physical condition also\ndeteriorated rapidly & she became non-ambulatory after a month of optic nerve involvement." + "segmentation": [] }, { - "id": 111366, - "strid": "95b45081-2b17-4ae6-9618-286ada956f4e", - "image_id": 204823, - "image_name": "13199.png", + "id": 238, + "strid": "00fc5021-70fe-44e9-a2b7-48a6880f1a2d", + "image_id": 11, + "image_name": "10629.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1939.252, - 3617.857, - 417.7460000000001, - 66.08399999999983 + 775.028, + 3857.352, + 1731.1009999999999, + 65.13000000000011 ], - "priority": 16, + "priority": 22, "parents": [ - 111378 + 216 ], "children": [ - 111373 + 239 ], - "area": 7015936.422964, + "area": 2989555.805856, "iscrowd": 0, "segmentation": [], - "text": "Conclusions:" + "text": "Testimonies of two migrants who experienced intentional violence" }, { - "id": 111373, - "strid": "96a22a3d-6ac1-44d9-a2d8-cf0305c04d8b", - "image_id": 204823, - "image_name": "13199.png", - "category_id": 4, - "category_name": "List", + "id": 239, + "strid": "a1085a1d-ac74-4b9b-87b5-84bc42eae759", + "image_id": 11, + "image_name": "10629.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1936.678, - 3714.425, - 3477.7220000000007, - 513.201 + 208.881, + 3969.992, + 2869.78, + 489.4430000000002 ], - "priority": 17, + "priority": 23, "parents": [ - 111366 + 238 ], "children": [], - "area": 7193645.18015, + "area": 829255.8989520001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "“| tried to cross the border with a group of migrants. There were five policemen on the Hungarian side who threatened us not to try to cross the border. We lit a fire and sat around\nabout 2km on the Serbian side.We thought we were safe. The policemen with five big dogs crossed to the Serbian side and chased us. They pushed us on the ground (including\nwomen) and kicked us with boots on our face and body. The dogs attacked and bit us too.The police then sprayed pepper spray in our eyes and threw our things into the fire. Some of\nthe women were thrown in the nearby water. One of the policemen was very big and strong and he kept throwing people around.The one that beat me did not stop until | stopped\nmoving and pretended to be dead.”\n\n“I suffered from severe injuries caused by a mine explosion many years ago in Afghanistan that left me physically disabled and with impaired sight. | was travelling with a young relative\nwho was an accompanying aid to me.We had been on the road for about five months. | got treated by MSF in Serbia and received a medical certificate of disability.! was among 10\npeople who crossed the Hungarian border and were caught by Hungarian police who beat us with their sticks, kicked us with boots also used pepper spray.We were also beaten by\ncivilians.”" }, { - "id": 164033, - "strid": "d7d7d21f-e717-4f47-8036-0b8d8e6dd180", - "image_id": 206899, - "image_name": "6608.png", + "id": 240, + "strid": "029cccb1-84b2-49d0-8333-d2908b0a7eee", + "image_id": 12, + "image_name": "10639.png", "category_id": 9, "category_name": "Root", "bbox": [ - 97.35, - 86.33, - -97.35, - -86.33 + 350.95, + 17.85, + 244.49000000000007, + 236.34 ], "priority": -1, "parents": [], "children": [ - 164009, - 164010, - 164013, - 164011, - 164012, - 164014 + 251, + 241, + 243, + 247, + 249, + 263, + 242, + 261, + 245 ], - "area": 8404.225499999999, + "area": 6264.4575, "iscrowd": 0, "segmentation": [] }, { - "id": 164009, - "strid": "26e13149-086b-4c9a-9305-fff4a57f6efa", - "image_id": 206899, - "image_name": "6608.png", + "id": 241, + "strid": "9111df70-e1b3-4a62-b763-b1a782b9933b", + "image_id": 12, + "image_name": "10639.png", "category_id": 1, "category_name": "Title", "bbox": [ - 741.222, - 132.314, - 1442.015, - 164.02899999999997 + 647.116, + 87.958, + 2139.39, + 354.294 ], "priority": 1, "parents": [ - 164033 + 240 ], "children": [], - "area": 98074.047708, + "area": 56919.029127999995, "iscrowd": 0, "segmentation": [], - "text": "Models Of Residue Conservation Reveal\nFunctional Breaks In Chinese Hamster Ovary Cell" + "text": "Inequities in access to maternal and child\nhealthcare and poor outcomes in rural Sierra\nLeone: findings of mixed methods study" }, { - "id": 164010, - "strid": "cdff9a46-f931-4dc0-9c3d-6d8302737faa", - "image_id": 206899, - "image_name": "6608.png", + "id": 242, + "strid": "c6981e0b-3e98-4de6-afbb-62f69d1ee8e9", + "image_id": 12, + "image_name": "10639.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1166.543, - 298.991, - 619.846, - 44.14300000000003 + 89.407, + 554.163, + 3194.517, + 266.547 ], "priority": 2, "parents": [ - 164033 + 240 ], "children": [], - "area": 348785.85811299994, + "area": 49546.051341, "iscrowd": 0, "segmentation": [], - "text": "Qixun Fang, Paul Dobson, David James" + "text": "J Elston (1), K Danis (2), N Gray (3), K West (4) B Stringer (4) K Lokuge (5), B Back (6) A.S Jimmisa (7) A Biankoe (7), MO Sanko (7),\nA | Carrion Martin (8), D S Kazungu (8) | Ait-Bouziad (4) P Masters (4) S Sang (8), R J Southgate (4), G Caleo (4)\n\n1. Field Epidemiology Training Programme (FETP), Public Health England, UK; 2.European Programme for Interventional Epidemiology Training (EPIET), European Centre for Disease Prevention and Control (ECDC),\nStockholm, Sweden; 3.Médecins Sans Frontiéres (MSF), London, UK; 4. MSF, London, UK; 5. National Centre for Epidemiology and Population Health, Research School of Population Health, Australian National\nUniversity, Canberra, Australia; 6. The Royal Free Hospital, London; 7.District Health Management Team, Ministry of Health and Sanitation, Tonkolili, Sierra Leone; 8.MSF, Amsterdam, The Netherlands" }, { - "id": 164011, - "strid": "5b8a4fc3-8cc0-49cb-96b8-cde6c0f68e59", - "image_id": 206899, - "image_name": "6608.png", + "id": 243, + "strid": "2c9e89d7-d47b-4dfb-8330-5f138584ce79", + "image_id": 12, + "image_name": "10639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 405.256, - 448.897, - 305.29100000000005, - 49.065 + 72.029, + 917.894, + 318.392, + 55.807000000000016 ], "priority": 3, "parents": [ - 164033 + 240 ], "children": [ - 164015 + 244 ], - "area": 181918.20263199997, + "area": 66114.986926, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Background" }, { - "id": 164015, - "strid": "4b15c11d-ca5c-4a9f-bf23-843cca2f3284", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 3, - "category_name": "Text", + "id": 244, + "strid": "cdfe346c-fb0c-4254-9c7b-d2eb2ef247c1", + "image_id": 12, + "image_name": "10639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 77.791, - 519.416, - 967.6320000000001, - 961.2129999999999 + 68.409, + 983.178, + 1314.063, + 640.6550000000001 ], "priority": 4, "parents": [ - 164011 + 243 ], "children": [], - "area": 40405.890056000004, + "area": 67258.22380200001, "iscrowd": 0, - "segmentation": [], - "text": "Although the Chinese Hamster Ovary cell (CHO) is rather important in\nbiopharmaceutical manufacturing, knowledge of its cell biology\nremains limited. A better understanding may be developed from CHO\ngenome analysis but the genome annotation level is still low. In this\nproject, we are interested in sophisticated protein sequence annotation\nusing residue conservation. Residues that are conserved across species\nare considered functional critical for the proteins. We identified these\nresidues in homologues and integrate them into models which then are\nused to compare with CHO proteins. CHO proteins with certain\nconservation pattern matched with the model are considered as one of\nthe corresponding homologue group and, therefore, functional as other\nproteins in the group. However, as a cancer cell line, CHO adopted\nmany mutations that significantly break the protein function which is\nmore interesting to us. The results are further mapped onto Gene\nOntology (GO) to gain a higher level function annotation with term\nenrichment. While the genome only decides the capability of the cell,\nthe transcriptome could provide the real-time function profile of the\ncell when the models are applied. Besides, the transcriptome should\nalso confirm the model predictions in cell function level and, in term,\nimprove the models by suggesting inaccurate predictions. After that,\nthe in-sequence details are investigated with sites annotations from\nUniprot, which will provide specific information that how the protein is\nbroken. Breaks in genome level and cell function level is concluded\nhere." + "segmentation": [] }, { - "id": 164013, - "strid": "eaba950e-5fe0-454f-bf1e-640543b83b8b", - "image_id": 206899, - "image_name": "6608.png", + "id": 245, + "strid": "33e9ca0e-6787-49a4-96dc-4f754853aaed", + "image_id": 12, + "image_name": "10639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 402.46, - 1626.397, - 320.33099999999996, - 59.753999999999905 + 72.158, + 1755.351, + 102.10699999999999, + 43.99299999999994 ], "priority": 5, "parents": [ - 164033 + 240 ], "children": [ - 164021, - 164032 + 246 ], - "area": 654559.73662, + "area": 126662.61745800001, "iscrowd": 0, "segmentation": [], - "text": "Methodology" + "text": "Aim" }, { - "id": 164032, - "strid": "9852eada-96c7-4a53-b00f-5cd1cd26fd2f", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 2, - "category_name": "Figure", + "id": 246, + "strid": "475353b3-382e-4f70-9912-ffec4d972cb9", + "image_id": 12, + "image_name": "10639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 78.101, - 1719.505, - 968.2689999999999, - 2133.921 + 74.034, + 1818.308, + 1337.167, + 261.22199999999975 ], "priority": 6, "parents": [ - 164013 + 245 ], "children": [], - "area": 134295.060005, + "area": 134616.61447200002, "iscrowd": 0, "segmentation": [] }, { - "id": 164021, - "strid": "fbe129cf-f749-4013-884b-0d524cf251e9", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 4, - "category_name": "List", + "id": 247, + "strid": "a7e816fe-4e6a-4a94-b931-172aeb99da57", + "image_id": 12, + "image_name": "10639.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 76.759, - 3882.544, - 966.9489999999998, - 522.8879999999999 + 117.554, + 2162.36, + 1233.386, + 786.114 ], "priority": 7, "parents": [ - 164013 + 240 ], - "children": [], - "area": 298020.194896, + "children": [ + 248 + ], + "area": 254194.06744, "iscrowd": 0, "segmentation": [] }, { - "id": 164012, - "strid": "7f0fbd7a-3078-40c4-bc4a-e131cd892b00", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 5, - "category_name": "Section", + "id": 248, + "strid": "0b9c5b17-2814-47c8-988a-b9e259fd4aca", + "image_id": 12, + "image_name": "10639.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1521.654, - 451.055, - 152.51600000000008, - 50.44799999999998 + 33.069, + 2103.176, + 1314.708, + 51.503999999999905 ], "priority": 8, "parents": [ - 164033 - ], - "children": [ - 164031, - 164028, - 164019, - 164027, - 164018, - 164022, - 164030, - 164023, - 164024, - 164016, - 164029, - 164020, - 164017, - 164026 + 247 ], - "area": 686349.64497, + "children": [], + "area": 69549.927144, "iscrowd": 0, "segmentation": [], - "text": "Result" + "text": "Figure 1: A caregiver and her children in Tonkolili © James Elston" }, { - "id": 164016, - "strid": "02b57cf2-89bc-4044-96e2-b5e6276a3e26", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 3, - "category_name": "Text", + "id": 249, + "strid": "220c981d-11e2-4eef-b931-014476c3064a", + "image_id": 12, + "image_name": "10639.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1116.598, - 581.758, - 275.3609999999999, - 41.78200000000004 + 79.284, + 3041.111, + 193.459, + 46.92399999999998 ], "priority": 9, "parents": [ - 164012 + 240 ], - "children": [], - "area": 649589.819284, + "children": [ + 250 + ], + "area": 241111.44452400002, "iscrowd": 0, "segmentation": [], - "text": "Gene models" + "text": "" }, { - "id": 164020, - "strid": "26b01f7c-e17c-466e-8d03-e7f23f1bdcff", - "image_id": 206899, - "image_name": "6608.png", + "id": 250, + "strid": "e6426b74-8f3e-4cce-8556-63b725228824", + "image_id": 12, + "image_name": "10639.png", "category_id": 4, "category_name": "List", "bbox": [ - 1111.441, - 668.913, - 970.858, - 160.03099999999995 + 79.358, + 3102.109, + 1321.079, + 634.098 ], "priority": 10, "parents": [ - 164012 + 249 ], "children": [], - "area": 743457.333633, + "area": 246177.16602200002, "iscrowd": 0, "segmentation": [] }, { - "id": 164017, - "strid": "037553b9-f362-4497-90cf-9e1cd06ad42d", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 3, - "category_name": "Text", + "id": 251, + "strid": "257384b0-2a09-4af3-94db-a4cd404476e8", + "image_id": 12, + "image_name": "10639.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1114.737, - 916.043, - 610.7089999999998, - 51.56600000000003 + 82.047, + 3825.947, + 196.244, + 49.447000000000116 ], "priority": 11, "parents": [ - 164012 + 240 ], - "children": [], - "area": 1021147.025691, + "children": [ + 253, + 257, + 254, + 258, + 255, + 252, + 259 + ], + "area": 313907.473509, "iscrowd": 0, "segmentation": [], - "text": "Conservation of homologues" + "text": "Results" }, { - "id": 164028, - "strid": "72e4add1-0697-42ff-a9e3-6737e778d56b", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 2, - "category_name": "Figure", + "id": 252, + "strid": "dfadad16-cb0c-47a7-965f-8b5579b74866", + "image_id": 12, + "image_name": "10639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1152.713, - 1024.418, - 895.9109999999998, - 1008.1600000000001 + 81.017, + 3888.014, + 1319.882, + 158.38599999999997 ], "priority": 12, "parents": [ - 164012 + 251 ], "children": [], - "area": 1180859.9460339998, + "area": 314995.230238, "iscrowd": 0, "segmentation": [] }, { - "id": 164026, - "strid": "b0b6b5bc-fee0-4b1b-a49c-f7bc56f4327b", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 4, - "category_name": "List", + "id": 253, + "strid": "04780134-756d-4d5c-ad79-d886d69402d8", + "image_id": 12, + "image_name": "10639.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1115.617, - 2082.658, - 965.6659999999999, - 250.25300000000016 + 73.291, + 4068.29, + 1352.074, + 536.9660000000003 ], "priority": 13, "parents": [ - 164012 + 251 ], "children": [], - "area": 2323448.669986, + "area": 298169.04238999996, "iscrowd": 0, "segmentation": [] }, { - "id": 164019, - "strid": "664c72a1-8f7d-488a-94b9-b07233b1d043", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 3, - "category_name": "Text", + "id": 254, + "strid": "22bb2f42-8906-4dc4-a20c-0d3718d74f49", + "image_id": 12, + "image_name": "10639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1116.623, - 2427.859, - 668.9470000000001, - 55.30000000000018 + 88.645, + 4610.196, + 1274.339, + 107.47599999999966 ], "priority": 14, "parents": [ - 164012 + 251 ], "children": [], - "area": 2711003.200157, + "area": 408670.82441999996, "iscrowd": 0, - "segmentation": [], - "text": "Novel CHO genome annotation" + "segmentation": [] }, { - "id": 164031, - "strid": "b7a4998d-756a-4139-8922-ebb72f3394a6", - "image_id": 206899, - "image_name": "6608.png", + "id": 255, + "strid": "85e7ec1f-7971-46c9-8890-1f9865f8c23a", + "image_id": 12, + "image_name": "10639.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1114.519, - 2528.767, - 921.6479999999999, - 986.5219999999999 + 1534.43, + 951.269, + 1627.361, + 880.788 ], "priority": 15, "parents": [ - 164012 + 251 ], - "children": [], - "area": 2818358.8680729996, + "children": [ + 256 + ], + "area": 1459655.69167, "iscrowd": 0, "segmentation": [] }, { - "id": 164022, - "strid": "809f6fc1-ab81-4f8b-b80e-e40184c8fd14", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 4, - "category_name": "List", + "id": 256, + "strid": "3c2f475a-c672-41de-9cd5-66c08f0c61e0", + "image_id": 12, + "image_name": "10639.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1109.835, - 3557.6, - 974.3940000000002, - 413.84400000000005 + 1617.918, + 894.97, + 1258.6900000000003, + 50.58899999999994 ], "priority": 16, "parents": [ - 164012 + 255 ], "children": [], - "area": 3948348.996, + "area": 1447988.07246, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 2: Place of birth and availability of skilled assistance" }, { - "id": 164023, - "strid": "c3b4f66e-0f73-42be-befa-000cb4aeb104", - "image_id": 206899, - "image_name": "6608.png", + "id": 257, + "strid": "aa773322-7ee5-4188-a6e2-234b4f19d828", + "image_id": 12, + "image_name": "10639.png", "category_id": 4, "category_name": "List", "bbox": [ - 1107.646, - 4063.409, - 969.9329999999998, - 330.18499999999995 + 1535.879, + 1838.975, + 1695.967, + 270.1700000000001 ], "priority": 17, "parents": [ - 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2147.611, - 953.881, - 949.8400000000001, - 1340.0440000000003 + 1511.807, + 2935.777, + 1799.517, + 966.9650000000001 ], "priority": 19, "parents": [ - 164012 + 251 ], - "children": [], - "area": 2048565.3282909999, + "children": [ + 260 + ], + "area": 4438328.219039001, "iscrowd": 0, "segmentation": [] }, { - "id": 164018, - "strid": "29d4a33b-b8b5-443c-a09b-00d0ee1de190", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 3, - "category_name": "Text", + "id": 260, + "strid": "412f6dee-3883-4ea4-a043-d22b4d89a82d", + "image_id": 12, + "image_name": "10639.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2150.282, - 2396.76, - 427.9319999999998, - 51.80799999999999 + 1631.851, + 2832.352, + 1419.4630000000002, + 50.070000000000164 ], "priority": 20, "parents": [ - 164012 + 259 ], "children": [], - "area": 5153709.8863200005, + "area": 4621976.443552, "iscrowd": 0, "segmentation": [], - "text": "Breaks in pathways" + "text": "Figure 3: Summary of barriers from survey and in depth-interviews" }, { - "id": 164030, - "strid": "709afc15-877c-416a-91e2-fea185fb62bd", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 2, - "category_name": "Figure", + "id": 261, + "strid": "f96ef1b3-d386-4f17-a6b5-df7ee2ebc499", + "image_id": 12, + "image_name": "10639.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2332.911, - 2461.09, - 596.6480000000001, - 1118.163 + 1518.767, + 4023.438, + 904.8150000000003, + 50.153999999999996 ], "priority": 21, "parents": [ - 164012 + 240 ], - "children": [], - "area": 5741503.932990001, + "children": [ + 262 + ], + "area": 6110664.860946001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion and recommendations" }, { - "id": 164024, - "strid": "794bc233-0bcf-42fe-a6f8-815c59d95c67", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 4, - "category_name": "List", + "id": 262, + "strid": "408dbfec-dfb2-4341-bdf5-160702da492d", + "image_id": 12, + "image_name": "10639.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2154.924, - 3611.117, - 959.875, - 273.55499999999984 + 1515.387, + 4082.374, + 1778.8820000000003, + 368.3289999999997 ], "priority": 22, "parents": [ - 164012 + 261 ], "children": [], - "area": 7781682.690108, + "area": 6186376.488737999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Health outcomes are poor in both areas and under5 mortality rate rurally is close to the\nemergency threshold. A high proportion of women give birth at home without assistance.\nFindings indicate inequity in access to maternal and child healthcare. Focus must be given\nto improving healthcare delivered at primary healthcare level in rural Sierra Leone.\nHealthcare has to be accessible, free of charge and of good quality. To further increase\naccessibility community health worker networks need to be strengthened, along with\nmaternal death surveillance" }, { - "id": 164014, - "strid": "e7357573-ff98-4c7d-84be-0b9b0ef93212", - "image_id": 206899, - "image_name": "6608.png", + "id": 263, + "strid": "e9dfdb09-2c32-4dc2-b043-c24cf8868b88", + "image_id": 12, + "image_name": "10639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2498.727, - 3966.355, - 268.04399999999987, - 56.36400000000003 + 1516.904, + 4588.237, + 519.4670000000001, + 57.1840000000002 ], "priority": 23, "parents": [ - 164033 + 240 ], "children": [ - 164025 + 264 ], - "area": 9910838.330085, + "area": 6959915.058248, "iscrowd": 0, "segmentation": [], - "text": "Conclusion" + "text": "Acknowledgements" }, { - "id": 164025, - "strid": "a0b0dc64-0993-4d26-8fff-f08be14b4c85", - "image_id": 206899, - "image_name": "6608.png", - "category_id": 4, - "category_name": "List", + "id": 264, + "strid": "1a4b6e50-726a-41e4-9a20-9901ce665038", + "image_id": 12, + "image_name": "10639.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2159.348, - 4081.119, - 932.694, - 356.6529999999998 + 1517.067, + 4653.417, + 1759.7960000000003, + 99.83399999999983 ], "priority": 24, "parents": [ - 164014 + 263 ], "children": [], - "area": 8812556.150412, + "area": 7059545.367939001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "We would like to thank the our study teams and colleagues in the project for their support,\nand, most importantly, the communities of Tonkolili for participating in this study." }, { - "id": 32643, - "strid": "15955a86-bacf-484b-a829-bd80096de5fc", - "image_id": 201778, - "image_name": "11767.png", + "id": 265, + "strid": "305ce5be-7b82-4912-b306-f56c688a3e32", + "image_id": 13, + "image_name": "10655.png", "category_id": 9, "category_name": "Root", "bbox": [ - 63.47, - 28.75, - 140.8, - 268.19 + 65.31, + 61.17, + 244.49, + 220.03999999999996 ], "priority": -1, "parents": [], "children": [ - 32628, - 32640, - 32632, - 32629, - 32630, - 32634, - 32637 + 289, + 268, + 277, + 273, + 267, + 270, + 281, + 266 ], - "area": 1824.7625, + "area": 3995.0127, "iscrowd": 0, "segmentation": [] }, { - "id": 32628, - "strid": "b18cd5b0-88f6-418f-922e-031589875524", - "image_id": 201778, - "image_name": "11767.png", + "id": 266, + "strid": "a253fb5f-46ea-44bb-9d39-73f521d30e08", + "image_id": 13, + "image_name": "10655.png", "category_id": 1, "category_name": "Title", "bbox": [ - 287.682, - 70.758, - 2978.923, - 265.21 + 563.369, + 98.581, + 2275.566, + 88.509 ], "priority": 1, "parents": [ - 32643 + 265 ], "children": [], - "area": 20355.802956, + "area": 55537.47938900001, "iscrowd": 0, "segmentation": [], - "text": "TCGAbiolinksGUI: A Graphical User Interface to analyze\ncancer genomics and epigenomics data" + "text": "ls Oxford Nanopore Technology Ready for Clinical Diagnostics?" }, { - "id": 32629, - "strid": "cefdcd49-d093-4e36-bc0b-68852d312815", - "image_id": 201778, - "image_name": "11767.png", + "id": 267, + "strid": "9fd39cfc-a54d-4aaf-a163-dcb82db7b16d", + "image_id": 13, + "image_name": "10655.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 98.142, - 366.815, - 3370.741, - 228.02900000000005 + 916.662, + 197.456, + 1567.5400000000002, + 138.547 ], "priority": 2, "parents": [ - 32643 + 265 ], "children": [], - "area": 35999.95773, + "area": 181000.411872, "iscrowd": 0, "segmentation": [], - "text": "Tiago Chedraoui Silva!*, Antonio Colaprico?-+, Catharina Olsen?+, Gianluca Bontempi?+, Michele Ceccarelli>-©, Benjamin Berman”, Houtan Noushmehr!.7*\n\n! Department of Genetics, Ribeirao Preto Medical School, University of Sao Paulo, Ribeirao Preto, Brazil 2 Center for Bioinformatics and Functional Genomics, Cedars-Sinai Medical Center, Los Angeles, CA, USA\n3 Interuniversity Institute of Bioinformatics in Brussels (IB), Brussels, Belgium + Machine Learning Group, ULB, Brussels, Belgium * Bioinformatics Laboratory, BIOGEM, Ariano Irpino, Avellino, Italy\n6 Department of Science and Technology, University of Sannio, Benevento, Italy 7 Department of Neurosurgery, Henry Ford Hospital, Detroit, MI, USA" + "text": "GR Taylor, Kesia Brown, Andrew Bond & Michael Yau\nViapath Clinical Genetics Labs, Guy’s Hospital, London UK" }, { - "id": 32630, - "strid": "d74c7297-5676-4173-a1af-523d7aeb58e5", - "image_id": 201778, - "image_name": "11767.png", + "id": 268, + "strid": "36eb4459-6f00-4ce7-9931-3493f0a74775", + "image_id": 13, + "image_name": "10655.png", "category_id": 5, "category_name": "Section", "bbox": [ - 97.528, - 682.377, - 562.53, - 56.46600000000001 + 81.79, + 482.665, + 237.42699999999996, + 49.541 ], "priority": 3, "parents": [ - 32643 + 265 ], "children": [ - 32631 + 269 ], - "area": 66550.864056, + "area": 39477.17035000001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Background" }, { - "id": 32631, - "strid": "742185f4-2fcb-4082-a9a8-50b1532f8206", - "image_id": 201778, - "image_name": "11767.png", + "id": 269, + "strid": "2d24dc61-6c55-4328-abd5-df665c5bff75", + "image_id": 13, + "image_name": "10655.png", "category_id": 3, "category_name": "Text", "bbox": [ - 91.243, - 764.247, - 1588.408, - 531.103 + 75.358, + 545.064, + 1482.146, + 895.5950000000001 ], "priority": 4, "parents": [ - 32630 + 268 ], "children": [], - "area": 69732.189021, + "area": 41074.932912, "iscrowd": 0, "segmentation": [], - "text": "The Genomic Data Commons (GDC) provides a rich resource of molecular\nand clinical data of more than 14,000 tumor patients across 38 different\ncancer types and subtypes. Recently, we developed the R/Bioconductor\npackage TCGAbiolinks, which allows users to search, download and prepare\ncancer genomics data for integrative data analysis from the GDC database.\nHowever, its use requires advanced knowledge of R thus limiting the total\nnumber of users. To overcome this obstacle and improve the accessibility of\nthe package by a wider range of users, we developed a graphical user\ninterface (GUI)." + "text": "Bridging the “valley of death” between scientific and technological\ninnovation and clinical implementation is a cultural challenge for many\norganizations, including the NHS. Nanopore sequencing is a good\nexample of a potentially disruptive genomics technology that looks likely\nto converge with mainstream clinical genomics in the near future. Since\nthe technology is packaged in a range of products from the relatively\nsmall scale (Gigabase) O.N. Minion to the Terabase-scale Promethion,\nservice developers have the opportunity to cross the valley of death\nusing a “rope bridge” prior to investing in major infrastructure.\n\nOur objective is to validate diagnostic services using Oxford Nanopore’s\nMinion in the first instance and to evaluate the cost and performance\ncompared to existing sequencing technology in areas such as tumour\nDNA sequencing (and circulating tumour DNA), virology, microbiology,\ngenetics and HLA-typing. To facilitate this we are developing R&D\ncollaborations and securing grant funding and commercial backing." }, { - "id": 32632, - "strid": "d90433c8-6e70-4707-a722-8740a1d0f3e0", - "image_id": 201778, - "image_name": "11767.png", + "id": 270, + "strid": "f01549dc-12bf-494e-b7a5-dd91b94f82d8", + "image_id": 13, + "image_name": "10655.png", "category_id": 5, "category_name": "Section", "bbox": [ - 93.278, - 1345.905, - 358.516, - 54.789999999999964 + 78.313, + 1486.538, + 184.824, + 43.791999999999916 ], "priority": 5, "parents": [ - 32643 + 265 ], "children": [ - 32633 + 271, + 272 ], - "area": 125543.32659000001, + "area": 116415.250394, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Methods" }, { - "id": 32633, - "strid": "a566f74a-ca81-4911-83e5-92bf51120c51", - "image_id": 201778, - "image_name": "11767.png", + "id": 271, + "strid": "5bf9cd92-d37f-4b97-add7-cfb738e348ee", + "image_id": 13, + "image_name": "10655.png", "category_id": 3, "category_name": "Text", "bbox": [ - 86.66, - 1441.787, - 1593.072, - 297.77099999999996 + 72.528, + 1546.1, + 1489.75, + 1253.518 ], "priority": 6, "parents": [ - 32632 + 270 ], "children": [], - "area": 124945.26142, + "area": 112135.5408, "iscrowd": 0, "segmentation": [], - "text": "This tool was built on the statistical programming language R and uses the\nweb application framework shiny to provide a GUI. Through an available\nApplication Programming Interface it connects to the GDC database to search,\ndownload and prepare the data into a standard Bioconductor data structure\nwhich encompasses both molecular and clinical data in the same object." + "text": "The scale of the Minion enables direct access to small genomes, but for\nGigabase genomes, enrichment in required to target the sequencing\ncapacity to the region of interest. In the studies reported here we used\nlong PCR to generate fragments in the range 3.5 to 16 Kb. Barcode and\nsequencing adapters were added by ligation. Targets were the HLA-B\nlocus, BRCA1, BRCA2, SMN1 and LDLR. The reads (2D and 1D) were\ncalled locally and converted to fastq using Poretools (Loman et al.).\nBarcode sorting used EPI2Z2ME. Fastq read length was measured using\nAWK; cat bc12.fastq | awk '{if(NR9%64==2) print length($1)}! | sort -n | uniq -c > bc12_length.txt\n\nand plotted using R:\nreads<-read.csv(file=\"bc12_length.txt\", sep=\"\", header=FALSE)\nplot (reads$V2,reads$V1,type=\"I\",xlab=\"bc12 (bases)\",ylab=\"occurences\",col=\"blue\", xlim=c(0,18000), ylim=c(0,100))\n\nRead mapping used either BWA, BLAT or GraphSeq. We selected a\ngenomic region including BRAF and and aligned reads of length 200\nbases to 200 kilobases with simulated error rates of phred 10 to phred\n40 to hg19 using GraphSeq, BLAT and BWA. FASTA files of length 200kbp\nto 200bp were generated from hg19 using samtools faidx, with starting\npositions of chr7: 140431813 (BRAF). We simulated error rates the\nrange phred 10 to phred 40 and examined the effect of error rate and\nread length on the ability to identify a point mutation.\n\nSamples\n\nThis presentation reports a series of BRCA1 and BRCA2 cases:" }, { - "id": 32634, - "strid": "a0f517b5-eb3a-40cb-80e2-e412711ca576", - "image_id": 201778, - "image_name": "11767.png", - "category_id": 5, - "category_name": "Section", + "id": 272, + "strid": "0240aacb-77ef-497f-b1a2-0b827a2e6531", + "image_id": 13, + "image_name": "10655.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 84.142, - 1792.008, - 429.449, - 63.583000000000084 + 72.167, + 2820.603, + 1472.992, + 821.5889999999999 ], "priority": 7, "parents": [ - 32643 + 270 ], - "children": [ - 32642, - 32636 - ], - "area": 150783.137136, + "children": [], + "area": 203554.45670100002, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 32642, - "strid": "a3e8c6e9-029f-4221-afc7-9e6180574ac1", - "image_id": 201778, - "image_name": "11767.png", - "category_id": 2, - "category_name": "Figure", + "id": 273, + "strid": "024c33e9-ba4f-40e4-a675-99df764b29b8", + "image_id": 13, + "image_name": "10655.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 78.256, - 1888.232, - 1419.573, - 190.73599999999988 + 79.014, + 3734.909, + 418.325, + 53.32999999999993 ], "priority": 8, "parents": [ - 32634 + 265 ], - "children": [], - "area": 147765.483392, + "children": [ + 274, + 275 + ], + "area": 295110.099726, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Sequenced products" }, { - "id": 32636, - "strid": "3b2fda2e-3b2c-4382-b7b4-e7ee6d0e599c", - "image_id": 201778, - "image_name": "11767.png", - "category_id": 2, - "category_name": "Figure", + "id": 274, + "strid": "f4a15d35-ba10-4ac7-b4af-3f3da41de2d2", + "image_id": 13, + "image_name": "10655.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1695.093, - 664.699, - 1807.291, - 1427.7599999999998 + 76.785, + 3795.622, + 1476.98, + 240.48799999999983 ], "priority": 9, "parents": [ - 32634 + 273 + ], + "children": [], + "area": 291446.83527, + "iscrowd": 0, + "segmentation": [], + "text": "The product size distribution for the BRCA1 and BRCA2 series was as\nexpected, with some small products also sequenced. Most products\nwere unique is length and in content, indicating that sequencing errors\nare common." + }, + { + "id": 275, + "strid": "69ab00b9-016f-44c5-bd45-e69bc0e38750", + "image_id": 13, + "image_name": "10655.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 61.549, + 4128.328, + 1488.7, + 345.35199999999986 + ], + "priority": 10, + "parents": [ + 273 ], "children": [ - 32635 + 276 ], - "area": 1126726.622007, + "area": 254094.46007200002, "iscrowd": 0, "segmentation": [] }, { - "id": 32635, - "strid": "7edbc72c-7057-47d2-9220-5dc50a226d1f", - "image_id": 201778, - "image_name": "11767.png", + "id": 276, + "strid": "409893c4-02d9-4f37-bf9f-bdc10b1c0c14", + "image_id": 13, + "image_name": "10655.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1864.09, - 2107.129, - 1452.704, - 55.6909999999998 + 271.055, + 4537.171, + 1063.765, + 82.6890000000003 ], - "priority": 10, + "priority": 11, "parents": [ - 32636 + 275 ], "children": [], - "area": 3927878.0976099996, + "area": 1229822.885405, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: Example of integrative analysis workflow in TCAbiolinksGUI" + "text": "Figure 1\nRead length: pooled BRCA1 & BRCA2 (green) BRCA2 (blue) and BRCA1 (purple)" }, { - "id": 32637, - "strid": "faeea231-ac67-4c1a-ab18-28d2b945e23c", - "image_id": 201778, - "image_name": "11767.png", + "id": 277, + "strid": "d9125b28-8762-4e5a-a7a3-c7564fc0514d", + "image_id": 13, + "image_name": "10655.png", "category_id": 5, "category_name": "Section", "bbox": [ - 82.828, - 2140.454, - 275.919, - 60.47499999999991 + 1685.395, + 462.73, + 453.3960000000002, + 48.488999999999976 ], - "priority": 11, + "priority": 12, "parents": [ - 32643 + 265 ], "children": [ - 32639 + 279, + 278 ], - "area": 177289.52391200003, + "area": 779882.82835, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Results: read mapping" }, { - "id": 32639, - "strid": "2b221c4f-f573-4652-99f0-875bec18f456", - "image_id": 201778, - "image_name": "11767.png", + "id": 278, + "strid": "f5096d6b-9a09-4cd8-89fb-baba2a7a79ab", + "image_id": 13, + "image_name": "10655.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1680.006, + 521.422, + 1482.689, + 296.48199999999997 + ], + "priority": 13, + "parents": [ + 277 + ], + "children": [], + "area": 875992.0885320001, + "iscrowd": 0, + "segmentation": [], + "text": "Each tool successfully mapped synthetic reads with error rates of up to\n10%, but the genomic indexes used by GraphMap were rather large, and\nso in further studies we used BWA or BLAT. Using the mpileup consensus\noption it was possible to call the variants in NA12878 correctly with no\nfalse positives using read depths of 500 with 2D reads (figure 2)" + }, + { + "id": 279, + "strid": "dd499f56-7146-49dc-b911-11a1e736bae3", + "image_id": 13, + "image_name": "10655.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 64.027, - 2232.212, - 3429.886, - 1654.297 + 1679.745, + 876.352, + 1619.821, + 151.3470000000001 ], - "priority": 12, + "priority": 14, "parents": [ - 32637 + 277 ], "children": [ - 32638 + 280 ], - "area": 142921.837724, + "area": 1472047.8902399999, "iscrowd": 0, "segmentation": [] }, { - "id": 32638, - "strid": "5e13f5c5-de3d-4642-b362-c3c2d240670e", - "image_id": 201778, - "image_name": "11767.png", + "id": 280, + "strid": "3b5c10f6-c994-48b4-b0f9-bcdad2ff9225", + "image_id": 13, + "image_name": "10655.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1291.801, - 3889.158, - 979.1889999999999, - 54.55099999999993 + 2014.286, + 1045.229, + 914.509, + 78.88699999999994 ], - "priority": 13, + "priority": 15, "parents": [ - 32639 + 279 ], "children": [], - "area": 5024018.193558, + "area": 2105390.1414940003, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: TCAbiolinksGUI - Volcano plot menu" + "text": "Figure 2\nHigh sensitivity and specificty achieved using mpileup re-alignmant" }, { - "id": 32640, - "strid": "b326ef58-1d5f-4274-a7e6-19ccbc4fb8bf", - "image_id": 201778, - "image_name": "11767.png", + "id": 281, + "strid": "1b06ba55-9b87-4165-96e3-6ee29e41beda", + "image_id": 13, + "image_name": "10655.png", "category_id": 5, "category_name": "Section", "bbox": [ - 77.466, - 4005.91, - 470.774, - 55.54399999999987 + 1733.304, + 1139.611, + 456.797, + 50.30799999999999 ], - "priority": 14, + "priority": 16, "parents": [ - 32643 + 265 ], "children": [ - 32641 + 282, + 283, + 287, + 285 ], - "area": 310321.82405999996, + "area": 1975292.3047440003, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Results: variant calling" }, { - "id": 32641, - "strid": "466ab5ba-e064-4534-936b-b9d4a606fca5", - "image_id": 201778, - "image_name": "11767.png", + "id": 282, + "strid": "313b0e0f-52ce-4b96-a37e-ad37f78a6ba0", + "image_id": 13, + "image_name": "10655.png", "category_id": 3, "category_name": "Text", "bbox": [ - 71.925, - 4085.122, - 1594.735, - 362.3600000000001 + 1725.876, + 1201.329, + 1494.28, + 409.05399999999986 ], - "priority": 15, + "priority": 17, "parents": [ - 32640 + 281 ], "children": [], - "area": 293822.39985, + "area": 2073344.889204, "iscrowd": 0, "segmentation": [], - "text": "The tool, which is the only one accessing molecular and clinical data from the\nGDC database, has been shown to be very useful to the scientific community\nand by making this open source tool available through the Bioconductor\nproject and by creating a GUI to facilitate its use, we hope it can help a large\nnumber of cancer researchers understand the molecular biology of malignant\ncells resulting in more accurate diagnoses and efficient therapies in the future." + "text": "Variant identification protocols are in development: in a small control\nseries using 1D reads there is evidence or recurrent false postives\ncaused by insertions or deletions being reported non-randomly. We are\nable to identify true positives, but although the accuracy of 1D reads is\nof the order of 95%, the errors appear to be less random that seen with\n2D reads, and so consensus reads are not able to remove all of the\nerrors." }, { - "id": 134054, - "strid": "0f6fc43a-f211-429e-b32c-1fe5b619846c", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 9, - "category_name": "Root", + "id": 283, + "strid": "4ad9ffe2-f578-4c22-9917-3b4737db851b", + "image_id": 13, + "image_name": "10655.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 118.02, - 134.85, - 208.51, - 196.92 + 1672.95, + 1620.976, + 1592.6410000000003, + 760.3960000000002 + ], + "priority": 18, + "parents": [ + 281 ], - "priority": -1, - "parents": [], "children": [ - 134041, - 134031, - 134023, - 134025, - 134040, - 134053, - 134037, - 134034, - 134024, - 134044, - 134043, - 134045, - 134047, - 134026, - 134033, - 134032, - 134042, - 134035, - 134028, - 134022, - 134027 + 284 ], - "area": 15914.997, + "area": 2711811.7992000002, "iscrowd": 0, "segmentation": [] }, { - "id": 134022, - "strid": "a6ae85df-1ccf-4adc-9125-b282f41d9644", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 1, - "category_name": "Title", + "id": 284, + "strid": "3fe1639d-d57a-458c-a276-c5795bce5530", + "image_id": 13, + "image_name": "10655.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 576.382, - 100.778, - 3668.904, - 160.88299999999998 + 2102.535, + 2416.536, + 701.8670000000002, + 76.60500000000002 ], - "priority": 1, + "priority": 19, "parents": [ - 134054 + 283 ], "children": [], - "area": 58086.625196, + "area": 5080851.518759999, "iscrowd": 0, "segmentation": [], - "text": "PUMA: Pipeline for Undergraduate Microbiome Analysis" + "text": "Figure 3\nVisualisation of the E1493fs variant in a BRCA2 case" }, { - "id": 134023, - "strid": "c1c89b2c-a313-42d3-b19f-2dc6303db43f", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 0, - "category_name": "Author Info", + "id": 285, + "strid": "e892ad8e-d754-42ee-a7f1-bc7c66682895", + "image_id": 13, + "image_name": "10655.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 879.626, - 295.761, - 2853.8899999999994, - 273.40000000000003 + 1664.967, + 2529.061, + 1588.65, + 467.0149999999999 ], - "priority": 2, + "priority": 20, + "parents": [ + 281 + ], + "children": [ + 286 + ], + "area": 4210803.105987, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 286, + "strid": "9c7f7560-92cc-4f20-8875-61396c167b81", + "image_id": 13, + "image_name": "10655.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2280.59, + 3008.672, + 391.3069999999998, + 80.7460000000001 + ], + "priority": 21, "parents": [ - 134054 + 285 ], "children": [], - "area": 260159.065386, + "area": 6861547.2764800005, "iscrowd": 0, "segmentation": [], - "text": "Keith Mitchell, Christopher Dao, Jiem Ronas, Amanda Freise, and Jordan Moberg Parker\n\nmunology Department of Microbiology, Immunology, and Molecular Genetics\nnetics University of California, Los Angeles" + "text": "Figure 4\nExon 13-14 deletion in LDLR" }, { - "id": 134024, - "strid": "3cbab785-31cb-4c4a-8798-b4a42be76eba", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 5, - "category_name": "Section", + "id": 287, + "strid": "e560b031-674c-4163-b8d3-64a2173a51af", + "image_id": 13, + "image_name": "10655.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 680.981, - 644.897, - 243.13200000000006, - 62.197 + 1672.95, + 3099.857, + 1572.6829999999998, + 467.0149999999999 ], - "priority": 3, + "priority": 22, "parents": [ - 134054 + 281 ], "children": [ - 134029 + 288 ], - "area": 439162.603957, + "area": 5185905.76815, "iscrowd": 0, - "segmentation": [], - "text": "Abstract" + "segmentation": [] }, { - "id": 134029, - "strid": "b6ed5810-06fc-40ba-b94b-f0f8d85184fc", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 3, - "category_name": "Text", + "id": 288, + "strid": "046dacb9-8010-4da6-80f5-f56915277bd4", + "image_id": 13, + "image_name": "10655.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 53.102, - 733.697, - 1500.627, - 1116.0259999999998 + 2313.716, + 3617.371, + 318.183, + 71.83800000000019 ], - "priority": 4, + "priority": 23, "parents": [ - 134024 + 287 ], "children": [], - "area": 38960.778094, + "area": 8369569.160635999, "iscrowd": 0, "segmentation": [], - "text": "Microbiome research is an attractive direction for new course-based undergraduate research\nexperiences (CURES), as sample collection is relatively straightforward and the resulting large\ndatasets give students an opportunity to ask a variety of questions. Current research in\nmicrobiology requires scientists to synthesize a background of experimental design with\ncomputational and statistical analysis. Despite the need for collaborations between computer\nscience and biology, current academic programs at the undergraduate level often do not\nprovide sufficient practice in bioinformatics, biostatistics, and other intersections between the\ntwo fields. To address this situation we developed the Pipeline for Undergraduate Microbiome\nAnalysis (PUMA), which combines previously published processes and tools for microbiome\nresearch with a set of custom “plug and play” python scripts for processing 16S sequencing\ndata from a variety of sources. We also developed accompanying instructional modules and\nvideo tutorials to teach students both the theory behind the analysis tools and the skills for\nneeded for visualizing and interpreting biostatistical data. We hypothesized that students\nusing PUMA would be able to formulate and _ statistically test hypotheses linking\nenvironmental parameters (metadata) to diversity metrics, community composition, and\ninferred functional profiles. PUMA was assessed using entry/exit surveys and reflection\nquestions designed to gauge the students’ comfort with integrating computational analysis\nwith microbiology, and the Statistical Reasoning in Biology Concept Inventory (SRBCI).\nPreliminary qualitative analysis of surveys and reflection questions saw an increase in\nstudents’ self-reported confidence levels in using the analysis tools. Students assessed also\nimproved their competencies with biostatistics as demonstrated by the 10.5% improvement in\nthe average score on the SRBCI. PUMA takes 16S sequencing data and seamlessly transitions\nto a suite of programs for microbiome data visualization and analysis, all of which are easily\naccessible to undergraduates without command line experience." + "text": "Figure 5\nExon 7 deletion in LDLR" }, { - "id": 134025, - "strid": "94d6b4ce-9200-4b86-94ec-2851fa683684", - "image_id": 205699, - "image_name": "15626.png", + "id": 289, + "strid": "d1ea3489-e80c-4cc6-a1bd-6f72df23a970", + "image_id": 13, + "image_name": "10655.png", "category_id": 5, "category_name": "Section", "bbox": [ - 668.867, - 1890.799, - 270.94100000000003, - 57.325000000000045 + 1768.924, + 3734.546, + 1028.118, + 52.21399999999994 ], - "priority": 5, + "priority": 24, "parents": [ - 134054 + 265 ], "children": [ - 134038, - 134030 + 290, + 291 ], - "area": 1264693.054733, + "area": 6606128.048504, "iscrowd": 0, "segmentation": [], - "text": "Overview" + "text": "Results: improving Q-scores using consensus reads" }, { - "id": 134038, - "strid": "fa25946f-6de0-41a7-8078-28cfa9931fa7", - "image_id": 205699, - "image_name": "15626.png", + "id": 290, + "strid": "bfc5e611-01e8-417e-b1b4-6812f2bf8bf2", + "image_id": 13, + "image_name": "10655.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 54.794, - 1972.566, - 1433.852, - 1603.0830000000003 + 1716.554, + 3812.147, + 1462.212, + 514.0039999999999 ], - "priority": 6, + "priority": 25, "parents": [ - 134025 + 289 ], "children": [], - "area": 108084.781404, + "area": 6543756.181438, "iscrowd": 0, "segmentation": [] }, { - "id": 134030, - "strid": "94e69804-1595-492a-8e20-0fa04f9e2982", - "image_id": 205699, - "image_name": "15626.png", + "id": 291, + "strid": "3fb2b970-bce2-4777-a1fe-6148d66cc1cd", + "image_id": 13, + "image_name": "10655.png", "category_id": 3, "category_name": "Text", "bbox": [ - 450.341, - 3438.213, - 1039.621, - 126.92200000000003 + 1747.433, + 4414.932, + 1485.493, + 234.10300000000007 ], - "priority": 7, + "priority": 26, "parents": [ - 134025 + 289 ], "children": [], - "area": 1548368.2806330002, + "area": 7714797.8695559995, "iscrowd": 0, "segmentation": [], - "text": "Differential abundance analysis of community\nand inferred functional profiles in STAMP" + "text": "In conclusion, random error rates are tractable by either consensus\nalignment and oversequencing. Provided systematic errors can be\navoided, as with 2D sequencing, nanopore sequencing can deliver\nunique tools for clinical use and point of care testing." }, { - "id": 134026, - "strid": "4cac2ae6-6b6e-4168-a5a5-2512b43a1067", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 5, - "category_name": "Section", + "id": 292, + "strid": "b3719a1e-cb7d-4fd1-9594-5e46f90db913", + "image_id": 14, + "image_name": "10723.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2276.131, - 645.972, - 233.538, - 71.69100000000003 - ], - "priority": 8, - "parents": [ - 134054 + 58.38, + 65.08, + 71.80000000000001, + 71.79 ], + "priority": -1, + "parents": [], "children": [ - 134039, - 134036 + 307, + 304, + 305, + 293, + 301, + 294, + 295, + 316 ], - "area": 1470316.8943319998, + "area": 3799.3704000000002, "iscrowd": 0, - "segmentation": [], - "text": "Pipeline" + "segmentation": [] }, { - "id": 134039, - "strid": "4df1c556-2e10-4f45-aba4-8970cd1cf9fe", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 293, + "strid": "481c0d30-a2d5-4180-bd32-9fbdfd50af75", + "image_id": 14, + "image_name": "10723.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 1586.877, - 730.171, - 1657.127, - 1699.369 + 140.332, + 109.734, + 4196.432, + 304.542 ], - "priority": 9, + "priority": 1, "parents": [ - 134026 + 292 ], "children": [], - "area": 1158691.565967, + "area": 15399.191687999999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The Role of Exercises in Osteoporotic Fracture Prevention and Current Care Gaps\nWhere Are We Now? Recent Updates" }, { - "id": 134036, - "strid": "889ee442-1e8e-4dea-bbaa-a40f7b76a4f1", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 3, - "category_name": "Text", + "id": 294, + "strid": "5e36c5f4-598b-4e66-b442-2eb1bd5c0e64", + "image_id": 14, + "image_name": "10723.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1538.753, - 2447.05, - 1698.7520000000002, - 352.491 + 1559.874, + 495.12, + 1348.82, + 468.27 ], - "priority": 10, + "priority": 2, "parents": [ - 134026 + 292 ], "children": [], - "area": 3765405.52865, + "area": 772324.81488, "iscrowd": 0, "segmentation": [], - "text": "PUMA prepares files for student analysis in various free\nbioinformatics applications - none of which require\ncommand line experience. Instructional materials and\nvideo tutorials will be provided for each tool." + "text": "Helen Senderovich (MD MCFP (COE), (PC))!:2>\",\nHenry Tang\", Samuel Belmont (BMSc)\"\n\n'Baycrest Health Sciences, Faculty of Medicine,\nUniversity of Toronto, Toronto, Canada;\n3Department of Family and Community Medicine,\nDivision of Palliative Care." }, { - "id": 134027, - "strid": "2d6bc8f8-24ce-44e3-8c36-48de8278bebf", - "image_id": 205699, - "image_name": "15626.png", + "id": 295, + "strid": "64f56b67-8331-4440-ab43-ea2d42d296ba", + "image_id": 14, + "image_name": "10723.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3509.007, - 646.509, - 971.31, - 65.452 + 657.201, + 485.776, + 269.418, + 57.13500000000005 ], - "priority": 11, + "priority": 3, "parents": [ - 134054 + 292 ], "children": [ - 134052 + 297, + 296, + 298, + 300, + 299 ], - "area": 2268604.606563, + "area": 319252.472976, "iscrowd": 0, "segmentation": [], - "text": "Tutorials and Assessment Timeline" + "text": "" }, { - "id": 134052, - "strid": "545b2b71-bbc3-4931-b46a-44652e2bc92c", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 296, + "strid": "808f954b-c267-44c5-94d7-f4dc98844dec", + "image_id": 14, + "image_name": "10723.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3287.07, - 754.22, - 1467.5589999999997, - 459.9580000000001 + 95.127, + 610.602, + 1370.511, + 207.663 ], - "priority": 12, + "priority": 4, "parents": [ - 134027 + 295 ], "children": [], - "area": 2479173.9354000003, + "area": 58084.736454, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Introduction\nThe primary non-pharmacological management recommended for patients\n\nwith osteoporosis (OP) is exercise, but whether it should be high force, resistive,\nor other means can be obscure." }, { - "id": 134028, - "strid": "0ce53937-d47d-469d-b703-c584b2182684", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 5, - "category_name": "Section", + "id": 297, + "strid": "f98b4e33-4f69-4845-a738-0d8901cb2576", + "image_id": 14, + "image_name": "10723.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3746.18, - 1283.237, - 554.4020000000005, - 58.82099999999991 + 96.079, + 859.365, + 1390.498, + 215.24299999999994 ], - "priority": 13, + "priority": 5, "parents": [ - 134054 - ], - "children": [ - 134048, - 134049, - 134050, - 134051 + 295 ], - "area": 4807236.78466, + "children": [], + "area": 82566.92983499999, "iscrowd": 0, "segmentation": [], - "text": "Assessment Results" + "text": "Objective\n\nTo describe the role of exercises in osteoporotic fracture prevention, identify\neffects and potential risks of high-force exercises, detect the optimal exercises to\ncombat OP, and explore the challenges that might arise from interventions." }, { - "id": 134051, - "strid": "c607f592-65be-4202-bded-a4bca2fa54c8", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 298, + "strid": "45361919-c939-4b7a-af3f-ab9c605aae9d", + "image_id": 14, + "image_name": "10723.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3308.345, - 1394.292, - 1415.7800000000002, - 542.8620000000001 + 97.243, + 1109.142, + 1381.711, + 381.9200000000001 ], - "priority": 14, + "priority": 6, "parents": [ - 134028 + 295 ], "children": [], - "area": 4612798.966739999, + "area": 107856.295506, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Methods\n\nA MEDLINE, and a Cochrane databases search was conducted on the role of\nexercises in preventing osteoporotic fractures from 1989 onwards, leading to 40\nresults, including op-ed pieces, qualitative studies, randomized clinical trials\n(RCTs) (n = 5),and RCT follow up studies (n = 1). Articles deemed relevant to the\nobjective hands were analyzed and summarized. Data on effects of Vitamin D\nand Calcium supplementation was later gathered from different sources as well." }, { - "id": 134050, - "strid": "18adb971-a9f0-4ad0-93ab-5176688f7879", - "image_id": 205699, - "image_name": "15626.png", + "id": 299, + "strid": "43cceeed-978a-42ae-a4e4-a38b200a18ec", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3282.373, - 1951.099, - 1459.0480000000002, - 158.6679999999999 + 98.246, + 1526.533, + 1381.801, + 437.23 ], - "priority": 15, + "priority": 7, "parents": [ - 134028 + 295 ], "children": [], - "area": 6404234.6779269995, + "area": 149975.761118, "iscrowd": 0, "segmentation": [], - "text": "Average Ranked Responses to Sample Entry and Exit Survey Questions. In self-reported survey questions,\nstudents on average showed an improvement in confidence and assuredness in their computational biology\nskills at the end of the course. A “O” score indicates strong disagreement with the prompt or “Not at all”\nwhile a “5” score indicates strong agreement or “understand very well”" + "text": "Results\n\nHigh-intensity, resistive strength training provided the maximum benefit in\nincreasing Bone Mineral Density (BMD) levels, muscle mass and reduction in\nfracture, while posture and balance exercises only improved mobility. High force\nexercises did not increase fractures, and were associated with increases in BMD.\nInterventions including exercises, Vitamin D and calcium intake had limited\neffect when used as single interventions, while Vitamin D and calcium intake\nmay potentially cause increases of Cardiovascular events." }, { - "id": 134048, - "strid": "517825a8-994a-4687-bdd5-8bcdfafae05c", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 300, + "strid": "3bc84ec6-001a-43b1-a000-615f181cf27e", + "image_id": 14, + "image_name": "10723.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3283.653, - 2220.778, - 873.7509999999997, - 496.50999999999976 + 96.957, + 1998.297, + 1379.458, + 214.88799999999992 ], - "priority": 16, + "priority": 8, "parents": [ - 134028 + 295 ], "children": [], - "area": 7292264.342033999, + "area": 193748.88222899998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion\n\nA long term regular exercise programme designed to improve postural stability,\nmobility, and mechanical efficiency, alongside Vitamin D and dietary Calcium\nintake is most effective in preventing OP and reducing osteoporotic fractures." }, { - "id": 134049, - "strid": "b351cb85-3641-4333-9975-ee24e36c3597", - "image_id": 205699, - "image_name": "15626.png", + "id": 301, + "strid": "3af219cd-6fa4-4acd-980c-a04a72a651e4", + "image_id": 14, + "image_name": "10723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 603.445, + 2273.281, + 380.0880000000001, + 69.2170000000001 + ], + "priority": 9, + "parents": [ + 292 + ], + "children": [ + 303, + 302 + ], + "area": 1371800.0530450002, + "iscrowd": 0, + "segmentation": [], + "text": "Background" + }, + { + "id": 302, + "strid": "f6081eba-6a8b-4f3f-805f-8a91b79affa4", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 4175.306, - 2214.897, - 568.3320000000003, - 517.75 + 97.357, + 2399.11, + 1356.741, + 154.3420000000001 ], - "priority": 17, + "priority": 10, "parents": [ - 134028 + 301 ], "children": [], - "area": 9247872.733482, + "area": 233570.15227000002, "iscrowd": 0, "segmentation": [], - "text": "Distribution of Student Scores on the\nSRBCI Pre-Test and Post-Test. The\nnumber of students plotted on the\nvertical axis is binned by the number of\ncorrect responses shown on_ the\nhorizontal axis. The pre-test scores\n(blue), is more normally distributed than\nthe post-test scores (gold). The\ndistribution of the post-test scores is\nshifted to the right, demonstrating a\nclass-wide improvement on the SRBCI,\ncorresponding to an increase of 10.5%\nfor the average of the post-test scores." + "text": "Osteoporosis (OP) is an incurable weakening of bone structure due to loss of\ntissue from mineral deficiency in the elderly.' It is the leading cause of death in\nthe elderly due to its high incidence rate.”" }, { - "id": 134040, - "strid": "2167a183-3edb-4c02-a631-4e39de04195e", - "image_id": 205699, - "image_name": "15626.png", + "id": 303, + "strid": "2d5ec061-dcd7-40c3-ab18-c1443712e256", + "image_id": 14, + "image_name": "10723.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1619.451, - 3056.344, - 320.1010000000001, - 333.65099999999984 + 93.992, + 2566.983, + 1394.173, + 696.058 ], - "priority": 18, + "priority": 11, "parents": [ - 134054 + 301 ], "children": [], - "area": 4949599.347144, + "area": 241275.86613600003, "iscrowd": 0, "segmentation": [] }, { - "id": 134031, - "strid": "0758d1ad-2f40-49dc-8ea4-de8ec4ce6e4d", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 3, - "category_name": "Text", + "id": 304, + "strid": "53b1b433-fb91-4b2d-b95e-0aa866e1c1c8", + "image_id": 14, + "image_name": "10723.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1521.336, - 3433.934, - 514.819, - 125.4960000000001 + 1586.608, + 1090.375, + 1300.206, + 1330.591 ], - "priority": 19, + "priority": 12, "parents": [ - 134054 + 292 ], "children": [], - "area": 5224167.415824001, + "area": 1729997.6979999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 305, + "strid": "ebce571f-98e7-4955-8c16-595e1f57f4a8", + "image_id": 14, + "image_name": "10723.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1788.37, + 2520.219, + 900.19, + 70.5039999999999 + ], + "priority": 13, + "parents": [ + 292 + ], + "children": [ + 306 + ], + "area": 4507084.05303, "iscrowd": 0, "segmentation": [], - "text": "Community profiles\nwith Excel Pivot tables" + "text": "Effects of High Force Exercise" }, { - "id": 134037, - "strid": "97c76030-175f-4580-b0db-71d46d460d61", - "image_id": 205699, - "image_name": "15626.png", + "id": 306, + "strid": "20e34a89-1ffe-4f22-bfc6-b84a63de9276", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2064.008, - 2867.119, - 697.5700000000002, - 127.39600000000019 + 1546.073, + 2644.905, + 1373.927, + 488.4850000000001 ], - "priority": 20, + "priority": 14, "parents": [ - 134054 + 305 ], "children": [], - "area": 5917756.552952, + "area": 4089216.2080650004, "iscrowd": 0, "segmentation": [], - "text": "https://gauravsk.shinyapps.io/\nranacapa/" + "text": "The immediate step to take for anybody to strengthen bone health is to\nundergo regular vigorous exercise. Among other things, it has been found that\nexercises may help to maintain mobility, physicality, BMD, muscle, strength and\nbalance.’ Together, these benefits have attributed to a small but statistically\nsignificant reduction in falls, particularly when the exercise program specifically\ninvolves balance and lower body strength training, which is may be associated\nwith a reduction up to 40% in hip fractures.* Despite concern from many\nosteoporotic patients that exercise increases the risk of fractures, data suggests\ninjury rate actually decline, and severe damage is non-existent.'*" }, { - "id": 134041, - "strid": "cf00a1a0-7360-4ef8-9a55-806aad6f98ed", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 307, + "strid": "d6764540-99a7-442c-98c6-e9c490953470", + "image_id": 14, + "image_name": "10723.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2064.293, - 3011.583, - 687.1109999999999, - 392.57400000000007 + 3268.661, + 483.976, + 836.1869999999999, + 70.005 ], - "priority": 21, + "priority": 15, "parents": [ - 134054 + 292 ], - "children": [], - "area": 6216789.7058190005, + "children": [ + 311, + 313, + 310, + 309, + 314, + 308, + 315, + 312 + ], + "area": 1581953.4761360001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Effective Types of Exercises" }, { - "id": 134032, - "strid": "057deafc-659c-4d84-a0bc-96a9f842ad8a", - "image_id": 205699, - "image_name": "15626.png", + "id": 308, + "strid": "e213c49f-f372-466a-a42c-f08a115a6432", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2081.791, - 3432.508, - 656.002, - 129.7739999999999 + 2986.933, + 608.679, + 908.9749999999999, + 436.94999999999993 ], - "priority": 22, + "priority": 16, "parents": [ - 134054 + 307 ], "children": [], - "area": 7145764.261828, + "area": 1818083.391507, "iscrowd": 0, "segmentation": [], - "text": "Data exploration in ranacapa\n(R based web app)" + "text": "Strength Training\n\nThe most effective form of exercise,6 strength\ntraining increases muscle mass, which is often an\nissue in the elderly; by age 70 people are expected\nto lose between 50%-55% of their max muscle mass.\nStrength training may also increase BMD in certain\nparts of the body, including the spine and hip bone,\nreducing fracture risk.”" }, { - "id": 134043, - "strid": "03ab8e7c-f31b-4db8-9ddb-379c088770c1", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 3, - "category_name": "Text", + "id": 309, + "strid": "f8053d35-aa10-43fe-a586-d199c42484b9", + "image_id": 14, + "image_name": "10723.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2868.886, - 2972.324, - 557.326, - 56.090000000000146 + 3930.699, + 615.729, + 437.9050000000002, + 437.72900000000004 ], - "priority": 23, + "priority": 17, "parents": [ - 134054 + 307 ], "children": [], - "area": 8527258.711064, + "area": 2420245.364571, "iscrowd": 0, - "segmentation": [], - "text": "OTU network demonstrates comparatively narrow spread\nof data in healthy agave among Sedgwick samples" + "segmentation": [] }, { - "id": 134042, - "strid": "1f9f9326-75fd-4b83-b055-f60cb3f29260", - "image_id": 205699, - "image_name": "15626.png", + "id": 310, + "strid": "0316c337-da91-4edc-81d7-5825bef6515e", + "image_id": 14, + "image_name": "10723.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2860.154, - 3046.5, - 399.0540000000001, - 354.06899999999996 + 2987.287, + 1103.82, + 458.52, + 443.49199999999996 ], - "priority": 24, + "priority": 18, "parents": [ - 134054 + 307 ], "children": [], - "area": 8713459.161, + "area": 3297427.1363399997, "iscrowd": 0, "segmentation": [] }, { - "id": 134053, - "strid": "0d3421f1-912e-415a-8c53-bab6a84c1210", - "image_id": 205699, - "image_name": "15626.png", + "id": 311, + "strid": "d97a3d22-4a6a-4c45-85ce-aa66ff48c2cf", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3260.664, - 3051.264, - 177.3119999999999, - 347.10300000000007 + 3477.59, + 1123.036, + 913.8429999999998, + 430.568 ], - "priority": 25, + "priority": 19, "parents": [ - 134054 + 307 ], "children": [], - "area": 9949146.679296002, + "area": 3905458.7632400002, "iscrowd": 0, "segmentation": [], - "text": "OTU network of all\nSedgwick samples from\nJan. 21, 2017 shows that\nhealthy and aging agave\nshare fewer OTUs with\nother plots (narrow\ndistribution of edges)\nthan plots with an\nincreased variation in\nshared OTUs (743, 747,\n760). Image created\nusing QUIME to generate\nedge and node tables\nusing\nmake_otu_network.py\nscript and Cytoscape\nVersion 2.7.0." + "text": "Posture Training\n\nPosture training involves proper alignment and\npositioning of various body parts, especially the\nspine. The aim of posture training is to strengthen\nmuscles along the back and the hip, the areas most\naffected by OP, and improve alignment of the spine\nSo small twists and loads upon the vertebrae will not\nresult in fractures.®" }, { - "id": 134033, - "strid": "680320c8-f542-403f-b984-9f8d64bb4703", - "image_id": 205699, - "image_name": "15626.png", + "id": 312, + "strid": "e3951385-e996-41cd-9f36-c99c177101e1", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2837.619, - 3436.787, - 597.5329999999999, - 125.4960000000001 + 2989.502, + 1630.189, + 886.9699999999998, + 319.73299999999995 ], - "priority": 26, + "priority": 20, "parents": [ - 134054 + 307 ], "children": [], - "area": 9752292.090153, + "area": 4873453.275878, "iscrowd": 0, "segmentation": [], - "text": "OTU network visualization\nin Cytoscape" + "text": "Balance Training\n\nBalance training exercises are those that work to\nimprove balance and reduce falls, by enhancing leg\nmuscles. Results have demonstrated greater\nmobility, and improved functional and static\nbalance.?" }, { - "id": 134047, - "strid": "dd0c6444-ebc2-4265-8e88-440c5d76b1a8", - "image_id": 205699, - "image_name": "15626.png", + "id": 313, + "strid": "c040dcdd-2acb-4407-9fd6-16f3ac22bbb2", + "image_id": 14, + "image_name": "10723.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 3530.901, - 2972.559, - 608.576, - 380.98900000000003 + 3937.822, + 1565.24, + 440.3069999999998, + 445.876 ], - "priority": 27, + "priority": 21, "parents": [ - 134054 + 307 ], "children": [], - "area": 10495811.545659, + "area": 6163636.5072800005, "iscrowd": 0, "segmentation": [] }, { - "id": 134034, - "strid": "f8e049e6-adbd-4a1b-958a-9cecbbdb936a", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 3, - "category_name": "Text", + "id": 314, + "strid": "24ee684a-7686-4dd8-a774-3e763b9cc926", + "image_id": 14, + "image_name": "10723.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3620.544, - 3369.76, - 450.645, - 188.24400000000014 + 2982.438, + 2038.082, + 429.90200000000004, + 417.26700000000005 ], - "priority": 28, + "priority": 22, "parents": [ - 134054 + 307 ], "children": [], - "area": 12200364.349440001, + "area": 6078453.203916, "iscrowd": 0, - "segmentation": [], - "text": "Functional pathway\nvisualization with\nKEGG and iPATH3" + "segmentation": [] }, { - "id": 134045, - "strid": "797877a2-3ee1-475f-b796-236c4fdc7d1b", - "image_id": 205699, - "image_name": "15626.png", + "id": 315, + "strid": "b8f56e6e-ab06-4057-91d9-d5f5fa2ca250", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 4233.607, - 3093.657, - 203.07899999999972, - 246.44999999999982 + 3473.984, + 2035.192, + 914.6380000000004, + 375.97800000000007 ], - "priority": 29, + "priority": 23, "parents": [ - 134054 + 307 ], "children": [], - "area": 13097327.930799, + "area": 7070224.444928, "iscrowd": 0, "segmentation": [], - "text": "Shown is an Emperor\n\nPGoA plot created using\njackknifed beta diversity, with an\nunweighted (qualitative) UniFrac\nmetric, at a rarefaction value of\n30,000, Plot 748 is depicted to\nhave the highest Mg cation\nconcentration but second lowest\nCalg ratio. Findings provide\nevidence supporting community\nuniqueness for the most\nserpentine soil at the Sedgwick\nwhen compared to other,\nreduced levels of serpentine\nsoll." + "text": "Aerobic Training\n\nAerobic training is any physical activity that\nincreases heart and breathing rate, and can be\nperformed continuously for periods of time. The\npurpose of aerobic training is to strengthen the\nheart and lungs, and increase muscle mass and BMD,\nwhich reduces chance of fractures.!°" }, { - "id": 134044, - "strid": "6289b66f-49b6-4ba4-9e96-6c95450f5318", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 2, - "category_name": "Figure", + "id": 316, + "strid": "f958c879-b607-4e5d-a168-ba4124e9279b", + "image_id": 14, + "image_name": "10723.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 4441.205, - 3057.672, - 266.70899999999983, - 258.5970000000002 + 3382.428, + 2518.045, + 605.355, + 60.75799999999981 ], - "priority": 30, + "priority": 24, "parents": [ - 134054 + 292 ], "children": [ - 134046 + 317, + 318 ], - "area": 13579748.17476, + "area": 8517105.91326, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "References/Contact" }, { - "id": 134046, - "strid": "ffb38493-969e-4bef-9897-827ea3d7b23b", - "image_id": 205699, - "image_name": "15626.png", - "category_id": 6, - "category_name": "Caption", + "id": 317, + "strid": "210fa55c-8d2a-42d0-9366-d2a41c64344b", + "image_id": 14, + "image_name": "10723.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 4234.592, - 3043.192, - 181.2449999999999, - 50.52500000000009 + 2993.758, + 2648.017, + 1383.0609999999997, + 557.3049999999998 ], - "priority": 31, + "priority": 25, "parents": [ - 134044 + 316 ], "children": [], - "area": 12886676.497663999, + "area": 7927522.077885999, "iscrowd": 0, - "segmentation": [], - "text": "Figure 6. Community\nClustering Based on Soil\nMagnesium and Soil Ca/Mg" + "segmentation": [] }, { - "id": 134035, - "strid": "32dbed3c-e1bf-4283-b7fe-e1c426c74436", - "image_id": 205699, - "image_name": "15626.png", + "id": 318, + "strid": "d98ae117-9f7b-438d-8d9a-375efa46bea0", + "image_id": 14, + "image_name": "10723.png", "category_id": 3, "category_name": "Text", "bbox": [ - 4203.815, - 3364.056, - 547.6189999999997, - 196.80099999999993 + 2993.868, + 3242.723, + 721.531, + 31.744000000000142 ], - "priority": 32, + "priority": 26, "parents": [ - 134054 + 316 ], "children": [], - "area": 14141869.073639998, + "area": 9708284.622564, "iscrowd": 0, "segmentation": [], - "text": "PCoA Phylogenetic Beta\nDiversity visualization in\nQIIME 2 (Emperor)" + "text": "For inquiry: please contact Dr. H. Senderovich at hsenderovich@baycrest.org" }, { - "id": 158420, - "strid": "25f52203-9f8f-4ecd-8d34-bbbd8876e9ab", - "image_id": 206688, - "image_name": "6268.png", + "id": 319, + "strid": "49d69896-b3ff-4b6a-8735-5e333e4a660f", + "image_id": 15, + "image_name": "10783.png", "category_id": 9, "category_name": "Root", "bbox": [ - 916.28, - 95.81, - 146.87000000000012, - 153.25 + 9.03, + 379.35, + 267.58000000000004, + 54.72999999999996 ], "priority": -1, "parents": [], "children": [ - 158413, - 158406, - 158400, - 158405, - 158411, - 158401, - 158417, - 158407, - 158412 + 331, + 321, + 326, + 324, + 322, + 334, + 320 ], - "area": 87788.7868, + "area": 3425.5305, "iscrowd": 0, "segmentation": [] }, { - "id": 158400, - "strid": "0c896aa1-150c-4cf5-9c11-e65648faff2a", - "image_id": 206688, - "image_name": "6268.png", + "id": 320, + "strid": "e96472c0-2ed2-4056-b808-9cb044c87af9", + "image_id": 15, + "image_name": "10783.png", "category_id": 1, "category_name": "Title", "bbox": [ - 1207.378, - 112.217, - 3300.1410000000005, - 111.95899999999999 + 966.0, + 61.913, + 1663.024, + 77.88599999999998 ], "priority": 1, "parents": [ - 158420 + 319 ], "children": [], - "area": 135488.337026, + "area": 59807.958, "iscrowd": 0, "segmentation": [], - "text": "Reward Modulates Orienting and Reorienting in Exogenous Cueing" + "text": "Pernicious Anemia in African Americans" }, { - "id": 158401, - "strid": "2240292f-bc7c-46a1-b53e-cb45f5c0804a", - "image_id": 206688, - "image_name": "6268.png", + "id": 321, + "strid": "c1692af0-fe1c-4a34-8892-2b31fc6af124", + "image_id": 15, + "image_name": "10783.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 765.444, - 276.673, - 4183.118, - 79.49200000000002 + 626.077, + 175.137, + 2370.001, + 137.851 ], "priority": 2, "parents": [ - 158420 + 319 ], "children": [], - "area": 211777.687812, + "area": 109649.247549, "iscrowd": 0, "segmentation": [], - "text": "Berno Bucker (I b.bucker@vu.nl) & Jan Theeuwes (DX) j.theeuwes@vu.nl) - Dept. of Cognitive Psychology — VU University Amsterdam, The Netherlands" + "text": "ANTONY IRUNGU BSc *, UCHE IKE BSc *, ANITA LWANGA MD ?.\n1.ROSS UNIVERSITY SCHOOL OF MEDICINE, 2. DEPARTMENT OF INTERNAL MEDICINE AT MOUNT SINAI HOSPITAL" }, { - "id": 158412, - "strid": "e249eece-5825-4ffc-8144-3b7fa9a08d6d", - "image_id": 206688, - "image_name": "6268.png", + "id": 322, + "strid": "d8ff9206-e724-4ce0-9b3b-7ab918194d6f", + "image_id": 15, + "image_name": "10783.png", "category_id": 5, "category_name": "Section", "bbox": [ - 94.955, - 570.7, - 368.149, - 70.269 + 520.224, + 392.586, + 223.13199999999995, + 48.41500000000002 ], "priority": 3, "parents": [ - 158420 + 319 ], "children": [ - 158419, - 158402 + 323 ], - "area": 54190.8185, + "area": 204232.65926400002, "iscrowd": 0, "segmentation": [], "text": "Background" }, { - "id": 158402, - "strid": "a57764c6-e9be-4c41-8fed-404c49973c99", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 75.116, - 674.484, - 1166.774, - 470.783 - ], - "priority": 4, - "parents": [ - 158412 - ], - "children": [], - "area": 50664.540144000006, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 158419, - "strid": "9ca40e8a-5282-4c0c-9f3d-0f0860c91714", - "image_id": 206688, - "image_name": "6268.png", + "id": 323, + "strid": "8b2459d4-e52d-4b51-86c5-518931b127f4", + "image_id": 15, + "image_name": "10783.png", "category_id": 3, "category_name": "Text", "bbox": [ - 75.882, - 1214.135, - 1155.263, - 133.4559999999999 + 89.469, + 458.855, + 1078.982, + 589.931 ], - "priority": 5, + "priority": 4, "parents": [ - 158412 + 322 ], "children": [], - "area": 92130.99207000001, + "area": 41053.297995, "iscrowd": 0, "segmentation": [], - "text": "> Determine if and how reward and bottom-\nup effects interact in exogenous cueing" + "text": "Pernicious anemia, an autoimmune disorder characterized\nby the inability to absorb Vitamin B12, can be caused by\ndecreased production of intrinsic factor (IF), antibodies\nagainst parietal cells, antibodies against IF, chronic atrophic\ngastritis or a gastrectomy. Traditionally pernicious anemia\nwas thought to affect elderly individuals of Northern\nEuropean descent, however, a study done at Cook County\nHospital, in between 1931 to 1942, found that 93 out of\n1000 patients diagnosed with pernicious anemia were\nAfrican American. Other studies have also demonstrate that\npernicious anemia affects individuals of all ethnic groups." }, { - "id": 158413, - "strid": "9930b512-432b-4ffc-a719-13ae59c2aeb7", - "image_id": 206688, - "image_name": "6268.png", + "id": 324, + "strid": "65910a1a-24e4-4559-abf1-ae63d721c4b4", + "image_id": 15, + "image_name": "10783.png", "category_id": 5, "category_name": "Section", "bbox": [ - 96.326, - 1501.788, - 276.403, - 67.14499999999998 + 528.562, + 1072.311, + 198.67500000000007, + 46.59500000000003 ], - "priority": 6, + "priority": 5, "parents": [ - 158420 + 319 ], "children": [ - 158403 + 325 ], - "area": 144661.230888, + "area": 566782.8467819999, "iscrowd": 0, "segmentation": [], - "text": "Methods" + "text": "Objectives" }, { - "id": 158403, - "strid": "36aa2844-6cfd-4333-a918-b7734d50516e", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", + "id": 325, + "strid": "ea183872-e326-4e82-b66a-0062117cf0ef", + "image_id": 15, + "image_name": "10783.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 62.646, - 1602.827, - 1271.733, - 586.8880000000001 + 80.696, + 1134.316, + 1063.631, + 162.28600000000006 ], - "priority": 7, + "priority": 6, "parents": [ - 158413 + 324 ], "children": [], - "area": 100410.700242, + "area": 91534.763936, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Our objective is to encourage clinicians to consider\npernicious anemia, in their differential, as a cause of\nVitamin B 12 deficiency in individuals of African descent." }, { - "id": 158417, - "strid": "e56ab0ab-c7a8-4086-9452-d684b7513833", - "image_id": 206688, - "image_name": "6268.png", + "id": 326, + "strid": "9ac6019c-20e5-445c-a326-48ae9d1a195d", + "image_id": 15, + "image_name": "10783.png", "category_id": 5, "category_name": "Section", "bbox": [ - 92.396, - 2298.474, - 641.525, - 69.22400000000016 + 518.214, + 1343.479, + 223.87599999999998, + 42.89499999999998 ], - "priority": 8, + "priority": 7, "parents": [ - 158420 + 319 ], "children": [ - 158404 + 330, + 329, + 327, + 328 ], - "area": 212369.80370400002, + "area": 696209.6265060001, "iscrowd": 0, "segmentation": [], - "text": "Summary of Findings" + "text": "Case Report" }, { - "id": 158404, - "strid": "259d3401-944c-4363-b3dd-59d57cbbf8b7", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", + "id": 327, + "strid": "9e8ee1da-1976-410e-8c22-c919c01e33b4", + "image_id": 15, + "image_name": "10783.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 60.029, - 2403.883, - 1170.647, - 519.4949999999999 + 89.023, + 1413.019, + 1086.639, + 904.1699999999998 ], - "priority": 9, + "priority": 8, "parents": [ - 158417 + 326 ], "children": [], - "area": 144302.692607, + "area": 125791.190437, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Mr. H a 73 year old African American male presented with\ncomplaints of bilateral lower extremity weakness, dizziness\nthat occurred for 1 or 2 minutes after stood up, frequent falls\nand burning sensation from his mid shins to the bottom of\nhis feet. He symptoms had progressed over the last year. He\ndenied, nausea, vomiting, chills, fevers, loss of\nconsciousness, spinning sensation, or tinnitus. He had a past\nmedical history of hypertension and iron deficiency anemia.\nHe did not take medications, have allergies, drink alcohol,\nsmoke or use recreational drugs. His diet consisted mostly\nhot dogs because of limited finances. His vital signs were\nwithin normal limits except for positive orthostatic blood\npressure. His physical exam was unremarkable except for\nchronic non healing lesions on his lower legs, weakness in\nhis hip, knees and ankles, loss of conscious proprioception,\nloss of sensation in his feet, ataxic gait, and a positive\nBabinski sign." }, { - "id": 158405, - "strid": "b7db9031-e1bf-4a92-a03c-d99541a4cd6e", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 5, - "category_name": "Section", + "id": 328, + "strid": "bf802991-b7f4-4d8a-ac97-339461c5cc59", + "image_id": 15, + "image_name": "10783.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1543.441, - 554.144, - 1098.044, - 68.07100000000003 + 1247.401, + 406.222, + 1100.9130000000002, + 271.9390000000001 ], - "priority": 10, + "priority": 9, "parents": [ - 158420 - ], - "children": [ - 158414, - 158408 + 326 ], - "area": 855288.569504, + "children": [], + "area": 506721.729022, "iscrowd": 0, "segmentation": [], - "text": "Exp. 1 Neutral cue High-Low targets" + "text": "His hemoglobin was 7.6 mg/dL, his MCV was 114 um 3 ,\nhis Vitamin B 12 was < 50 pb/mL, while intrinsic factor was\npositive. His brain and neck MRI were negative for signs of\nmyelopathy. He was referred to a Gastroenterologist for an\nesophagogastroduodenoscopy but was lost to follow up." }, { - "id": 158408, - "strid": "08a14341-8836-4738-adfb-350ee40ff417", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 2, - "category_name": "Figure", + "id": 329, + "strid": "345805e1-7340-44c0-8a8b-181f64775e84", + "image_id": 15, + "image_name": "10783.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1435.094, - 659.473, - 1307.12, - 1422.371 + 1318.894, + 701.758, + 958.258, + 586.9559999999999 ], - "priority": 11, + "priority": 10, "parents": [ - 158405 + 326 ], "children": [], - "area": 946405.745462, + "area": 925544.415652, "iscrowd": 0, "segmentation": [] }, { - "id": 158414, - "strid": "c0b2ce63-37e7-4f6b-baae-ab8b0d99dbfa", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", + "id": 330, + "strid": "75b5c233-b988-45ca-98d8-d277a31958bf", + "image_id": 15, + "image_name": "10783.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1447.672, - 2173.232, - 1212.6619999999998, - 382.23 + 1237.839, + 1326.252, + 1121.8779999999997, + 539.7539999999999 ], - "priority": 12, + "priority": 11, "parents": [ - 158405 + 326 ], "children": [], - "area": 3146127.115904, + "area": 1641686.4494279998, "iscrowd": 0, "segmentation": [] }, { - "id": 158406, - "strid": "399620f3-12f2-4772-8699-63d02b923f50", - "image_id": 206688, - "image_name": "6268.png", + "id": 331, + "strid": "d9ca46e9-dc0d-453d-a676-b0624fe2a5c9", + "image_id": 15, + "image_name": "10783.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3019.725, - 554.295, - 947.8339999999998, - 67.91600000000005 + 1706.574, + 1906.56, + 194.721, + 40.64599999999996 ], - "priority": 13, + "priority": 12, "parents": [ - 158420 + 319 ], "children": [ - 158409, - 158415 + 333, + 332 ], - "area": 1673818.4688749998, + "area": 3253685.72544, "iscrowd": 0, "segmentation": [], - "text": "Exp. 2 High-Low cues & targets" - }, - { - "id": 158409, - "strid": "f90d9af5-02ff-4880-a080-6c01a718c2a7", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 2855.057, - 660.184, - 1292.2359999999999, - 1415.1920000000002 - ], - "priority": 14, - "parents": [ - 158406 - ], - "children": [], - "area": 1884862.9504879997, - "iscrowd": 0, - "segmentation": [] + "text": "Discussion" }, { - "id": 158415, - "strid": "854e7846-7f3f-4e8d-afdc-4807e9db2eb2", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", + "id": 332, + "strid": "b467a86a-d021-4654-8d7d-009f745fd69b", + "image_id": 15, + "image_name": "10783.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2845.745, - 2171.277, - 1275.8429999999998, - 383.8850000000002 + 1259.096, + 1962.589, + 1078.7490000000003, + 371.1970000000001 ], - "priority": 15, + "priority": 13, "parents": [ - 158406 + 331 ], "children": [], - "area": 6178900.6663649995, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 158407, - "strid": "224becfa-f771-4bd4-8091-e9e9bd17444d", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 4348.883, - 556.685, - 1059.0249999999996, - 65.62099999999998 - ], - "priority": 16, - "parents": [ - 158420 - ], - "children": [ - 158416, - 158410 - ], - "area": 2420957.932855, + "area": 2471087.9595439998, "iscrowd": 0, "segmentation": [], - "text": "Exp. 3 Hign-Low-No cues & targets" - }, - { - "id": 158410, - "strid": "bb6370c3-fbc0-4769-8a89-899907d58684", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 4237.407, - 676.57, - 1286.0500000000002, - 1394.391 - ], - "priority": 17, - "parents": [ - 158407 - ], - "children": [], - "area": 2866902.4539900003, - "iscrowd": 0, - "segmentation": [] + "text": "In Caucasians, the average age of onset of pernicious\nanemia in is in the 60s, , while in those of African descent it\nis in the 50s, and has a female predominance. In our patient,\nand most individuals of African descent, pernicious anemia\nis caused by antibodies against IF, rather than antibodies\nagainst parietal cells, as is the case in individuals of\nEuropean descent." }, { - "id": 158416, - "strid": "548abb6b-8979-49a8-bf59-5d400b93b8b0", - "image_id": 206688, - "image_name": "6268.png", - "category_id": 4, - "category_name": "List", + "id": 333, + "strid": "3b06253b-d8ee-4121-a097-19fc157875dc", + "image_id": 15, + "image_name": "10783.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 4235.165, - 2172.358, - 1301.6040000000003, - 381.4549999999999 + 2423.908, + 417.434, + 1067.9940000000001, + 1004.99 ], - "priority": 18, + "priority": 14, "parents": [ - 158407 + 331 ], "children": [], - "area": 9200294.56907, + "area": 1011821.612072, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "African Americans with pernicious anemia demonstrate a\nlower incidence of anti-parietal cell antibodies with the\npresence of IF antibodies or absence anti-parietal cell\nantibodies compared to individuals of European descent.\nFailure to recognize and treat pernicious anemia can lead to\nirreversible neurological deficits and disability. One tragic\ncase, in the literature we reviewed, is that of a 29 year\nfemale whose macrocytosis and paresthesia were ignored\nfor 7 months. A diagnosis of pernicious anemia was\neventually made, after she developed subacute combined\ndegeneration. This was most likely due to outdated\ninformation regarding the racial incidence and age group\nthat is susceptible to pernicious anemia. In accurate\ninformation regarding pernicious anemia may cause\nclinicians to overlook this diagnosis in patients of African\ndescent, particularly young adults. Pernicious anemia is\ntreated with 1000 ug of intramuscular Vitamin B12 daily\nfor 7 days, then 1000 ug weekly for 4 weeks, then 1000 ug\nmonthly for life." }, { - "id": 158411, - "strid": "d5961679-7eff-4f1e-9c8c-5f30c47262d2", - "image_id": 206688, - "image_name": "6268.png", + "id": 334, + "strid": "71af0df9-d0d5-4a97-8b83-4ecc8719bb43", + "image_id": 15, + "image_name": "10783.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2618.228, - 2716.806, - 342.4459999999999, - 67.54899999999998 + 2852.197, + 1439.12, + 235.10199999999986, + 44.31600000000003 ], - "priority": 19, + "priority": 15, "parents": [ - 158420 + 319 ], "children": [ - 158418 + 335 ], - "area": 7113217.539768, + "area": 4104653.74664, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Bibliography" }, { - "id": 158418, - "strid": "554f61b7-21c6-4bdb-9336-ee2587b6fa52", - "image_id": 206688, - "image_name": "6268.png", + "id": 335, + "strid": "9ae447e9-34af-4dab-8ad2-3db68b9a7baa", + "image_id": 15, + "image_name": "10783.png", "category_id": 4, "category_name": "List", "bbox": [ - 1449.576, - 2798.286, - 2176.752, - 160.89800000000014 + 2425.204, + 1511.246, + 1089.3740000000003, + 705.9989999999998 ], - "priority": 20, + "priority": 16, "parents": [ - 158411 + 334 ], "children": [], - "area": 4056328.2267360003, + "area": 3665079.8441840005, "iscrowd": 0, "segmentation": [] }, { - "id": 164059, - "strid": "2d8df15a-6337-4e1c-b146-a954ab05cb26", - "image_id": 206900, - "image_name": "6609.png", + "id": 336, + "strid": "33311f05-58f0-4b72-a1f9-426509f593c7", + "image_id": 16, + "image_name": "10786.png", "category_id": 9, "category_name": "Root", "bbox": [ - 68.18, - 72.7, - -68.18, - -72.7 + 418.18, + 60.36, + 160.54000000000002, + 149.07999999999998 ], "priority": -1, "parents": [], "children": [ - 164043, - 164035, - 164042, - 164044, - 164038, - 164041, - 164036, - 164037, - 164040, - 164034, - 164039 + 341, + 352, + 343, + 337, + 339, + 356, + 354, + 338, + 345 ], - "area": 4956.686000000001, + "area": 25241.3448, "iscrowd": 0, "segmentation": [] }, { - "id": 164034, - "strid": "1e9195ff-c11b-43e7-9511-3f460d944d3b", - "image_id": 206900, - "image_name": "6609.png", + "id": 337, + "strid": "ef86fb62-3575-4a30-bd7f-aaab0d78ba3a", + "image_id": 16, + "image_name": "10786.png", "category_id": 1, "category_name": "Title", "bbox": [ - 2510.139, - 79.212, - 2951.026, - 103.95 + 655.057, + 79.644, + 2296.08, + 258.989 ], "priority": 1, "parents": [ - 164059 + 336 ], "children": [], - "area": 198833.13046800002, + "area": 52171.359708, "iscrowd": 0, "segmentation": [], - "text": "The role of timing in the heat shock effects on a prey-predator system" + "text": "Merging two grape genome assemblies iteratively\nimproves the quality" }, { - "id": 164035, - "strid": "14c94053-febf-40bd-b559-ce08343d33f0", - "image_id": 206900, - "image_name": "6609.png", + "id": 338, + "strid": "d501b711-521a-4fd1-8b49-038d9547c5f6", + "image_id": 16, + "image_name": "10786.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 3214.256, - 201.793, - 1570.0930000000003, - 185.822 + 511.416, + 349.515, + 2570.304, + 217.63800000000003 ], "priority": 2, "parents": [ - 164059 + 336 ], "children": [], - "area": 648614.361008, + "area": 178747.56324, "iscrowd": 0, "segmentation": [], - "text": "Aleix Valls, James Kopco, and Jason Harmon\nDepartment of Entomology North Dakota State University" + "text": "Zhixiu LuS, Sagar Patel\", Anne Fennell*, and Erliang Zeng® *\n§ Department of Computer Science and * Department of Biology, University of South Dakota, Vermillion, SD, USA\n* Department of Agronomy, Horticulture, and Plant Science, South Dakota State University, Brookings, SD, USA" }, { - "id": 164036, - "strid": "6da96039-169f-43df-9db2-f62965018f9d", - "image_id": 206900, - "image_name": "6609.png", + "id": 339, + "strid": "7baa8d9e-30b7-401e-b9a6-5797f7c807e1", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 943.32, - 610.659, - 258.7790000000001, - 60.13099999999997 + 774.932, + 620.605, + 271.87300000000005, + 43.875999999999976 ], "priority": 3, "parents": [ - 164059 + 336 ], "children": [ - 164045 + 340 ], - "area": 576046.84788, + "area": 480926.67386000004, "iscrowd": 0, "segmentation": [], - "text": "Abstract" + "text": "Introduction" }, { - "id": 164045, - "strid": "3a3b18d9-e5a5-4758-808a-f0f30421b0a0", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 3, - "category_name": "Text", + "id": 340, + "strid": "4f9c800c-409e-4fab-b41d-1a94e057b36c", + "image_id": 16, + "image_name": "10786.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 200.295, - 738.219, - 1741.655, - 552.232 + 63.406, + 670.517, + 1701.119, + 219.05399999999997 ], "priority": 4, "parents": [ - 164036 + 339 ], "children": [], - "area": 147861.574605, + "area": 42514.800902, "iscrowd": 0, - "segmentation": [], - "text": "In prey-predator systems, altered abiotic factors can affect how\npredators interact with prey. We tested how the timing of a heat\nshock affects mummy production of a parasitoid wasp foraging\non pea aphids. Our results showed that the heat shock only had\nan effect when it occurred while the wasp was foraging. Before\nand after treatments did not had a significant effect on mummy\n\nproduction." + "segmentation": [] }, { - "id": 164044, - "strid": "a63e75db-7f03-460a-a911-d9f284c570b4", - "image_id": 206900, - "image_name": "6609.png", + "id": 343, + "strid": "d104a084-b236-4593-8c3a-bae4b3799465", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 893.599, - 1377.29, - 354.9519999999999, - 52.23000000000002 + 2593.165, + 622.302, + 201.23199999999997, + 49.754999999999995 ], "priority": 5, "parents": [ - 164059 + 336 ], "children": [ - 164058, - 164048 + 344 ], - "area": 1230744.96671, + "area": 1613731.76583, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Objective" }, { - "id": 164048, - "strid": "18c2c688-e31e-4179-9a2e-b95f3aec86c7", - "image_id": 206900, - "image_name": "6609.png", + "id": 344, + "strid": "19c3fcaf-83d7-494c-bc90-841b312580ba", + "image_id": 16, + "image_name": "10786.png", "category_id": 4, "category_name": "List", "bbox": [ - 195.456, - 1558.265, - 1775.516, - 974.4260000000002 + 1843.463, + 678.411, + 1685.331, + 242.735 ], "priority": 6, "parents": [ - 164044 + 343 ], "children": [], - "area": 304572.24384, + "area": 1250625.577293, "iscrowd": 0, "segmentation": [] }, { - "id": 164058, - "strid": "02c58e49-382a-4809-8e33-5c835634cdbd", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 2, - "category_name": "Figure", + "id": 341, + "strid": "c5d618d3-08b0-4ae6-9531-0d50ac2f2f66", + "image_id": 16, + "image_name": "10786.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 531.188, - 2628.114, - 1072.241, - 805.2860000000001 + 491.62, + 979.916, + 851.1910000000001, + 57.0379999999999 ], "priority": 7, "parents": [ - 164044 + 336 ], "children": [ - 164053 + 342 ], - "area": 1396022.619432, + "area": 481746.30392000003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Workflow for Vitis vinifera cv. Sultanina" }, { - "id": 164053, - "strid": "f7b8244b-e413-42e9-a589-74041f4140f7", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 6, - "category_name": "Caption", + "id": 342, + "strid": "bdd6cebe-3289-4e3c-9f19-4ad4d10991a9", + "image_id": 16, + "image_name": "10786.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 187.697, - 3471.903, - 1774.4299999999998, - 298.5619999999999 + 57.826, + 1057.509, + 1711.863, + 2088.164 ], "priority": 8, "parents": [ - 164058 + 341 ], "children": [], - "area": 651665.777391, + "area": 61151.515434, "iscrowd": 0, - "segmentation": [], - "text": "Figure 1: Aphidius ervi foraging Pea Aphids. In order for the wasp to can carry out their life\ncycle, they need to ovoposit an egg inside an aphid. The larvae will hatch inside the body\nof the aphid and eat it from the inside. Upon completion of the development, the larva will\n\nbecome a pupa, and a new wasp will emerge." + "segmentation": [] }, { - "id": 164037, - "strid": "2cb54221-539b-458f-bf8d-5f224d5be315", - "image_id": 206900, - "image_name": "6609.png", + "id": 345, + "strid": "3fca6257-b85b-4348-8703-985a4744dcba", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3747.83, - 605.765, - 496.3919999999998, - 68.84299999999996 + 2614.173, + 975.011, + 163.63900000000012, + 41.462999999999965 ], "priority": 9, "parents": [ - 164059 + 336 ], "children": [ - 164046 + 348, + 346, + 350 ], - "area": 2270304.23995, + "area": 2548847.430903, "iscrowd": 0, "segmentation": [], - "text": "Main Conclusion" + "text": "Results" }, { - "id": 164046, - "strid": "3ea6d687-82aa-4ff0-a45e-a2bc29db40f7", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 3, - "category_name": "Text", + "id": 346, + "strid": "661a96a8-880a-4730-865b-498218a33f3f", + "image_id": 16, + "image_name": "10786.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 2164.455, - 733.121, - 3658.7780000000002, - 161.25900000000001 + 1881.988, + 1036.674, + 1624.0509999999997, + 783.6990000000001 ], "priority": 10, "parents": [ - 164037 - ], - "children": [], - "area": 1586807.4140549998, - "iscrowd": 0, - "segmentation": [], - "text": "The heat shock had the largest effect while the wasps were foraging (during) compared to the control treatment. A heat shock during\nthis time resulted in fewer new wasps compared to the other two treatments (after and before), where the heat shock had no effect." - }, - { - "id": 164043, - "strid": "82e7c376-7693-415c-a4fb-bd371fe1a0a9", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2897.506, - 976.047, - 252.654, - 53.88000000000011 - ], - "priority": 11, - "parents": [ - 164059 + 345 ], "children": [ - 164049, - 164057 + 347 ], - "area": 2828102.038782, + "area": 1951008.027912, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 164049, - "strid": "bb6f395d-ec4c-4d1e-9534-01647c238763", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 4, - "category_name": "List", + "id": 347, + "strid": "91d63564-5367-4b3d-ae8b-73c069a46594", + "image_id": 16, + "image_name": "10786.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2130.932, - 1141.557, - 1779.351, - 985.9460000000001 + 1897.725, + 1829.815, + 1603.5930000000003, + 113.30600000000004 ], - "priority": 12, + "priority": 11, "parents": [ - 164043 + 346 ], "children": [], - "area": 2432580.3411239996, + "area": 3472485.670875, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Table 1. Comparison of published ALLPATHS-LG assembly with our PLATANUS assembly and merged assemblies by Assemblathon script. “Improved\nALLPATHS-LG assembly” was obtained using ALLPATHS-LG assembly as initial assembly, and then merged with PLATANUS assembly by MetaAssembler\niteratively till convergence. “Improved PLATANUS assembly” was obtained using PLATANUS assembly as initial assembly, and then merged with\nALLPATHS-LG assembly by MetaAssembler iteratively till convergence." }, { - "id": 164057, - "strid": "3bc0819a-568d-4204-8f7c-2b7261e13557", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 2, - "category_name": "Figure", + "id": 348, + "strid": "1b69551c-6198-4321-bc45-57575e157fc0", + "image_id": 16, + "image_name": "10786.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 2394.675, - 2236.025, - 1248.1080000000002, - 641.732 + 1888.283, + 1998.2, + 1609.8870000000002, + 682.9819999999997 ], - "priority": 13, + "priority": 12, "parents": [ - 164043 + 345 ], "children": [ - 164054 + 349 ], - "area": 5354553.166875001, + "area": 3773167.0905999998, "iscrowd": 0, "segmentation": [] }, { - "id": 164054, - "strid": "82c091fd-f970-4c40-ba0c-a58dc75ff447", - "image_id": 206900, - "image_name": "6609.png", + "id": 349, + "strid": "64ad1449-603f-471a-83c3-17d4fd4e952c", + "image_id": 16, + "image_name": "10786.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2183.164, - 2910.974, - 1675.196, - 58.24299999999994 + 1886.709, + 2692.198, + 1608.314, + 58.22699999999986 ], - "priority": 14, + "priority": 13, "parents": [ - 164057 + 348 ], "children": [], - "area": 6355133.641736001, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 2: Heat shock temperature over time. X axis is daily time. Y axis Celsius degrees." - }, - { - "id": 164042, - "strid": "88cc1f57-7829-4ec5-ab21-9d8bb1b68c97", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 4864.894, - 975.297, - 225.46900000000005, - 54.70900000000006 - ], - "priority": 15, - "parents": [ - 164059 - ], - "children": [ - 164056 - ], - "area": 4744716.523518001, + "area": 5079394.196382, "iscrowd": 0, "segmentation": [], - "text": "Results" + "text": "Table 2. Mapping results of mRNA, EST with > 90% identity and > 70% coverage. BAC with > 90% identity and > 90% coverage and reference genome with\n> 95% identity with published ALLPATHS-LG assembly, our PLATANUS assembly, and our merged PLATANUS assembly." }, { - "id": 164056, - "strid": "5e30168e-ba87-4785-9a0f-192be5a863b2", - "image_id": 206900, - "image_name": "6609.png", + "id": 350, + "strid": "e16b570c-a134-416b-ab38-f643049da07d", + "image_id": 16, + "image_name": "10786.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 4085.671, - 1230.048, - 1844.051, - 1420.985 + 1886.709, + 2794.488, + 1598.872, + 860.81 ], - "priority": 16, + "priority": 14, "parents": [ - 164042 + 345 ], "children": [ - 164055 + 351 ], - "area": 5025571.4422079995, + "area": 5272385.659992, "iscrowd": 0, "segmentation": [] }, { - "id": 164055, - "strid": "b2801708-dc0e-4882-b9f3-c472d253f792", - "image_id": 206900, - "image_name": "6609.png", + "id": 351, + "strid": "f1a46350-5036-49e5-9a5d-2ba7b68c0b28", + "image_id": 16, + "image_name": "10786.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 4089.297, - 2743.092, - 1772.4969999999998, - 218.212 + 1896.151, + 3664.74, + 1598.872, + 58.22699999999986 ], - "priority": 17, + "priority": 15, "parents": [ - 164056 + 350 ], "children": [], - "area": 11217317.886324, + "area": 6948900.41574, "iscrowd": 0, "segmentation": [], - "text": "Figure 3: Mean + SE (n=218) mummy production during the three time treatments. The Y\naxis is the number of mummies divided by number of adult pea aphids present before the\n\nwasp foraged. p-values for each treatment: Before (0.71), During (0.013), and After (0.46)" + "text": "Figure 1. Assembly QUAST cumulative length plot. Scaffolds lengths of published ALLPATHS-LG assembly, PLATANUS assembly, and their improved merged\nones are shown. On the x-axis, scaffolds are ordered from the largest to smallest. The y-axis gives the size of the x largest scaffolds in the assembly." }, { - "id": 164041, - "strid": "80109dcb-e039-4c3e-b6b5-786d54d314f6", - "image_id": 206900, - "image_name": "6609.png", + "id": 352, + "strid": "3e027556-ade3-4e33-a9cc-f67f90f27bdd", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3836.568, - 3061.565, - 326.03300000000036, - 56.12699999999995 + 2535.904, + 3788.232, + 246.82900000000018, + 45.48999999999978 ], - "priority": 18, + "priority": 16, "parents": [ - 164059 + 336 ], "children": [ - 164052 + 353 ], - "area": 11745902.308920002, + "area": 9606592.681728, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Conclusion" }, { - "id": 164052, - "strid": "c0b121a0-0d06-42ab-b797-27c653c419c5", - "image_id": 206900, - "image_name": "6609.png", + "id": 353, + "strid": "320cdf04-299d-4fe1-b7a7-0f4d6309c63a", + "image_id": 16, + "image_name": "10786.png", "category_id": 4, "category_name": "List", "bbox": [ - 2138.246, - 3247.185, - 3726.675, - 418.1750000000002 + 1838.295, + 3886.028, + 1682.136, + 469.87000000000035 ], - "priority": 19, + "priority": 17, "parents": [ - 164041 + 352 ], "children": [], - "area": 6943280.33751, + "area": 7143665.84226, "iscrowd": 0, "segmentation": [] }, { - "id": 164039, - "strid": "66e028c0-f1f0-44fd-9677-bf2bee5c4dba", - "image_id": 206900, - "image_name": "6609.png", + "id": 356, + "strid": "417f27a7-dd49-4c6c-8ac8-f045a3ca1d0a", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 6590.882, - 2109.605, - 669.0590000000002, - 77.05499999999984 + 773.685, + 3242.702, + 251.7539999999999, + 50.35100000000011 ], - "priority": 20, + "priority": 18, "parents": [ - 164059 + 336 ], "children": [ - 164051 + 357 ], - "area": 13904157.621609999, + "area": 2508829.89687, "iscrowd": 0, "segmentation": [], - "text": "Additional Information" + "text": "References" }, { - "id": 164051, - "strid": "9ecc159c-010c-47b4-88b9-12f5e09b0c58", - "image_id": 206900, - "image_name": "6609.png", + "id": 357, + "strid": "0c65884f-f689-4990-beed-6f243ccaaff2", + "image_id": 16, + "image_name": "10786.png", "category_id": 4, "category_name": "List", "bbox": [ - 6048.421, - 2290.594, - 1757.567, - 258.76200000000017 + 73.931, + 3329.232, + 1703.28, + 662.5169999999998 ], - "priority": 21, + "priority": 19, "parents": [ - 164039 + 356 ], "children": [], - "area": 13854476.852074001, + "area": 246133.450992, "iscrowd": 0, "segmentation": [] }, { - "id": 164040, - "strid": "9fdd5b01-c6a7-42f2-adb6-59ca66561d29", - "image_id": 206900, - "image_name": "6609.png", + "id": 354, + "strid": "9dc8524f-081e-4583-a200-596e9b9e8c9b", + "image_id": 16, + "image_name": "10786.png", "category_id": 5, "category_name": "Section", "bbox": [ - 6632.229, - 2596.365, - 588.2449999999999, - 73.29599999999982 + 695.992, + 4146.348, + 447.01800000000003, + 50.96299999999974 ], - "priority": 22, + "priority": 20, "parents": [ - 164059 + 336 ], "children": [ - 164047 + 355 ], - "area": 17219687.247585, + "area": 2885825.037216, "iscrowd": 0, "segmentation": [], "text": "Acknowledgements" }, { - "id": 164047, - "strid": "237a903a-7fbc-44f5-8a1f-22e95b8ee6ae", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 6683.424, - 2800.326, - 1088.3339999999998, - 397.4000000000001 - ], - "priority": 23, - "parents": [ - 164040 - ], - "children": [], - "area": 18715765.996224, - "iscrowd": 0, - "segmentation": [], - "text": "| would like to thank the National Sci-\nence Foundation for their funding. Also\nthanks to Laura Manstrom, Tansy Wells\nand Courtney Garrison for their help in\nthis project." - }, - { - "id": 164038, - "strid": "c00c0a55-fdbe-4f7b-96fb-623e70393e56", - "image_id": 206900, - "image_name": "6609.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 6751.129, - 585.734, - 351.5069999999996, - 72.048 - ], - "priority": 24, - "parents": [ - 164059 - ], - "children": [ - 164050 - ], - "area": 3954365.793686, - "iscrowd": 0, - "segmentation": [], - "text": "References" - }, - { - "id": 164050, - "strid": "b8d7a81c-bfe9-4dcf-a611-eca506e4b2f3", - "image_id": 206900, - "image_name": "6609.png", + "id": 355, + "strid": "b485de99-c8cc-40a1-9d17-26ee88c1b4ec", + "image_id": 16, + "image_name": "10786.png", "category_id": 4, "category_name": "List", "bbox": [ - 6031.618, - 761.545, - 1794.5329999999994, - 1246.763 + 75.609, + 4202.574, + 1678.109, + 157.6869999999999 ], - "priority": 25, + "priority": 21, "parents": [ - 164038 + 354 ], "children": [], - "area": 4593348.52981, + "area": 317752.41756599996, "iscrowd": 0, "segmentation": [] }, { - "id": 84847, - "strid": "1eeebd63-d7d6-426f-a2a7-79e74a040a55", - "image_id": 203797, - "image_name": "120935.png", + "id": 358, + "strid": "75eb142d-67f9-4d16-a40f-2218c6412586", + "image_id": 17, + "image_name": "10942.png", "category_id": 9, "category_name": "Root", "bbox": [ - 48.77, - 32.51, - 116.1, - 112.88 + 103.17, + 82.88, + 231.03999999999996, + 188.25 ], "priority": -1, "parents": [], "children": [ - 84825, - 84824, - 84826, - 84827, - 84829, - 84823, - 84830, - 84828 + 377, + 359, + 360, + 368, + 363, + 361 ], - "area": 1585.5127, + "area": 8550.7296, "iscrowd": 0, "segmentation": [] }, { - "id": 84823, - "strid": "15ac4eef-f5be-4896-9f03-e969726ea3cd", - "image_id": 203797, - "image_name": "120935.png", + "id": 359, + "strid": "ed943870-39d1-4ac2-8fce-9a49f1db0d85", + "image_id": 17, + "image_name": "10942.png", "category_id": 1, "category_name": "Title", "bbox": [ - 704.578, - 62.706, - 2330.616, - 134.425 + 524.991, + 39.101, + 2000.7020000000002, + 246.385 ], "priority": 1, "parents": [ - 84847 + 358 ], "children": [], - "area": 44181.268068, + "area": 20527.673091, "iscrowd": 0, "segmentation": [], - "text": "COMPARING INFORMANT-RATED AND SELF-REPORTED FUNCTIONING\nIN THE CONTEXT OFPPERSONALIT Y PATHOLOGY" + "text": "Computing cluster with virtual machines\n\nin bioinformatic" }, { - "id": 84824, - "strid": "e49543fd-1342-4295-a946-8ab1c856f676", - "image_id": 203797, - "image_name": "120935.png", + "id": 360, + "strid": "94c7b329-f3e7-4377-b86a-f0b2bbbb002b", + "image_id": 17, + "image_name": "10942.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1155.488, - 247.509, - 1430.2919999999997, - 93.52400000000003 + 900.766, + 326.518, + 1927.4719999999998, + 194.95800000000003 ], "priority": 2, "parents": [ - 84847 + 358 ], "children": [], - "area": 285993.679392, + "area": 294116.312788, "iscrowd": 0, "segmentation": [], - "text": "Eunyoe Ro!, Hallie Nuzum7?, Olivia Gutgsell*, and LeeAnna Clark?\n\n1= Southern Illinois, University of Edwardsville; 2 = University of Notre Dame" + "text": "Jonathan Lorenzo!, Sandrine Perrin!, Awa Sepou Ngailo!, Bryan Brancotte!; Mohamed\n\nBedri!, Christophe Blanchet! et Jean-Francois Gibrat+\n1 IFB-core, CNRS, INRA, INSERM, Inria, CEA, Université Paris-Saclay, 91190 Gif-sur-Yvette, France\nContact: jonathan.lorenzo@france-bioinformatique.fr" }, { - "id": 84825, - "strid": "803e5b05-3f9d-43ca-ba24-4f156fe1627b", - "image_id": 203797, - "image_name": "120935.png", + "id": 361, + "strid": "06f6f29c-8630-4870-9567-baf9905e94cf", + "image_id": 17, + "image_name": "10942.png", "category_id": 5, "category_name": "Section", "bbox": [ - 285.518, - 425.731, - 356.25900000000007, - 34.46199999999999 + 171.707, + 546.173, + 226.365, + 48.24199999999996 ], "priority": 3, "parents": [ - 84847 + 358 ], "children": [ - 84831, - 84832, - 84833 + 362 ], - "area": 121553.86365799999, + "area": 93781.727311, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 84831, - "strid": "c9877b23-036f-4654-9ab1-e215721d1234", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 4, - "category_name": "List", + "id": 362, + "strid": "941e409c-4b09-4616-ad44-d02802f6e19b", + "image_id": 17, + "image_name": "10942.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 86.889, - 482.531, - 695.885, - 324.6580000000001 + 39.873, + 612.487, + 3060.495, + 480.381 ], "priority": 4, "parents": [ - 84825 + 361 ], "children": [], - "area": 41926.636059, + "area": 24421.694150999996, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The BioDataCloud project tends towards the use of a cloud-computing system suitable for efficient production of high-value data in the area of plant biotechnology.\nWith the cloud, we can adapt our needs in terms of calculation by specifying the number of processors and associated memory size, but also in terms of storage by\nspecifying the desired size for the associated virtual disks.\n\nAs part of this project, a collaboration between the IFB-CORE and the project partners was established to use the cloud of IFB to integrate and test a « de novo genomic\nassembly » pipeline. This pipeline may need more resources than a single VM can bring at maximum. Therefore, it is useful to create a Virtual Computing Cluster that\ncan include many virtual machines (VMs) and be scheduled by systems like RabbitWQ, SGE, Torque/Maui or Spark. The configuration is done with a script to set up the\ncluster settings to the different VMs (one master and several compute nodes). The script also manages the installation of the data sharing system (NFS or SSH/SCP). All\nthis, helps the user to deploy a complete virtual computing cluster in one command. The ultimate objectives are to simplify the creation of a compute cluster using a\ngraphical interface, to achieve continuous integration of new versions of the pipeline and to use Docker containers (see poster 111) for each tools of the pipeline." }, { - "id": 84832, - "strid": "641c7381-1b4c-4254-b43d-4a9baa52f102", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 4, - "category_name": "List", + "id": 363, + "strid": "8a7828d1-961b-4cee-88eb-5e62a2093d2c", + "image_id": 17, + "image_name": "10942.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 86.297, - 812.018, - 748.035, - 311.88200000000006 + 91.751, + 1191.665, + 1036.658, + 61.52299999999991 ], "priority": 5, "parents": [ - 84825 + 358 ], - "children": [], - "area": 70074.717346, + "children": [ + 365, + 366, + 364, + 367 + ], + "area": 109336.455415, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Integrate pipeline (Appliance developer)" }, { - "id": 84833, - "strid": "442a7c1a-5f78-4e21-b758-208fc70c4fe6", - 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"strid": "ce4786d0-500a-4497-bb49-56e972c7ad0f", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 7, - "category_name": "Table", + "id": 373, + "strid": "8228a0e4-7bb0-4f5b-93e0-dab03d9d8fa5", + "image_id": 17, + "image_name": "10942.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1847.898, - 696.689, - 775.7740000000001, - 571.5680000000001 + 1222.0, + 2493.997, + 1241.9679999999998, + 544.0219999999999 ], "priority": 15, "parents": [ - 84827 - ], - "children": [ - 84837 + 368 ], - "area": 1287410.209722, + "children": [], + "area": 3047664.334, "iscrowd": 0, "segmentation": [] }, { - "id": 84837, - "strid": "2662aab5-343b-4687-9ebc-9b958034b0a3", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 6, - "category_name": "Caption", + "id": 374, + "strid": "98ed57ba-d39c-442f-baff-0dcc17e5a357", + "image_id": 17, + "image_name": "10942.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1861.001, - 534.377, - 641.307, - 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"id": 84838, - "strid": "dee77507-41b3-4765-ae5f-ab4f8ca6786e", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 6, - "category_name": "Caption", + "id": 376, + "strid": "08ec6446-ca21-46dd-9674-fa05d47f6558", + "image_id": 17, + "image_name": "10942.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1859.996, - 1394.48, - 641.4719999999998, - 109.856 + 1279.843, + 3372.669, + 1733.3929999999998, + 245.72699999999986 ], "priority": 18, "parents": [ - 84843 + 368 ], "children": [], - "area": 2593727.22208, + "area": 4316486.810967, "iscrowd": 0, - "segmentation": [], - "text": "Table 2\nCorrelations between PP and INF:\nPID-5 domains" + "segmentation": [] }, { - "id": 84828, - "strid": "caf3c320-170b-42cf-a3d7-e10d06f74519", - "image_id": 203797, - "image_name": "120935.png", + "id": 377, + "strid": "df496fc9-7896-4c09-8204-0c158c637b8a", + "image_id": 17, + "image_name": "10942.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3025.945, - 425.833, - 198.3670000000002, - 33.685 + 322.47, + 3477.795, + 551.802, + 63.10500000000002 ], "priority": 19, "parents": [ - 84847 + 358 ], "children": [ - 84846 + 381, + 382, + 379, + 380, + 378 ], - "area": 1288547.2371850002, + "area": 1121484.5536500001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Cluster mode : principle" }, { - "id": 84846, - "strid": "8d428ff9-7aa0-4f9f-b1d0-96dc01e2e75b", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 7, - "category_name": "Table", + "id": 378, + "strid": "41747198-2053-4a01-b5bf-8f6e6b1027b4", + "image_id": 17, + "image_name": "10942.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2723.256, - 660.683, - 786.491, - 802.982 + 388.299, + 3836.005, + 193.44499999999994, + 179.17700000000013 ], "priority": 20, "parents": [ - 84828 + 377 ], - "children": [ - 84839 - ], - "area": 1799208.943848, + "children": [], + "area": 1489516.905495, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Cluster\nReady in\n2 mins" }, { - "id": 84839, - "strid": "49c76b85-a4b4-4ce1-a512-977a4e370bb2", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 6, - "category_name": "Caption", + "id": 379, + "strid": "3ebbf659-f104-44b8-b22e-539daf2838e5", + "image_id": 17, + "image_name": "10942.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2752.495, - 495.69, - 717.6530000000002, - 156.50899999999996 + 746.931, + 3718.65, + 1683.342, + 182.9720000000002 ], "priority": 21, "parents": [ - 84846 + 377 ], "children": [], - "area": 1364384.24655, + "area": 2777574.96315, "iscrowd": 0, "segmentation": [], - "text": "Table 3\nHierarchical regression predicting\nClinician-rated BPD dimensional scores and\nDSM-5-IIIl personality functioning scores" + "text": "E. Coli dataset WK mer Lehi\nGenome Size: 4.8M Genome Size: 12.1M" }, { - "id": 84829, - "strid": "cf4326b8-9602-415e-9eb8-1659c44f5920", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 5, - "category_name": "Section", + "id": 380, + "strid": "973538aa-eea1-4d3c-afc1-6ade9364db73", + "image_id": 17, + "image_name": "10942.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2794.956, - 1494.963, - 663.3959999999997, - 34.093000000000075 + 812.278, + 3964.356, + 1479.459, + 250.93300000000045 ], "priority": 22, "parents": [ - 84847 + 377 ], - "children": [ - 84840, - 84841 - ], - "area": 4178355.806628, + "children": [], + "area": 3220159.1629680004, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "5 nodes of 4CPU-16GB\n\n45min ( vs 1h05 * ) 2h ( vs 3h30 * )" }, { - "id": 84840, - "strid": "526eee7e-6c0f-46a4-930e-ab491b557ddf", - "image_id": 203797, - "image_name": "120935.png", - "category_id": 4, - "category_name": "List", + "id": 381, + "strid": "89154862-7b66-4bb8-b11b-6169fc860bdf", + "image_id": 17, + "image_name": "10942.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2756.366, - 1550.739, - 745.808, - 493.856 + 545.662, + 4254.497, + 2033.6030000000003, + 133.308 ], "priority": 23, "parents": [ - 84829 + 377 ], "children": [], - "area": 4274404.254474, + "area": 2321517.3420140003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Acknowledgement: Emeric Sevin (GenOuest and CBiB) for the bioinformatics pipeline and\nbenchmarks. Marie Grosjean (formerly IFB-core) for the initial work on the cloud IFB." }, { - "id": 84841, - "strid": "8601247e-58b4-4315-b021-e26cdafa103e", - "image_id": 203797, - "image_name": "120935.png", + "id": 382, + "strid": "0f1b502e-0e9e-4385-b632-2b207eaf2547", + "image_id": 17, + "image_name": "10942.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2753.735, - 2069.513, - 719.0970000000002, - 202.09400000000005 + 2587.106, + 3836.275, + 470.49900000000025, + 235.25 ], "priority": 24, "parents": [ - 84829 + 377 ], "children": [], - "area": 5698890.381055, + "area": 9924850.070150001, "iscrowd": 0, "segmentation": [], - "text": "Future Directions\n\nInformant reports of functioning require further\ninvestigation, especially regarding their utility\nfor measuring Criterion A (i.e., personality\ndysfunction), PB;and other mental disorders." + "text": "* On a standard\nworkstation:\n4 core / 16Go RAM" }, { - "id": 70795, - "strid": "ba512de8-1040-4d33-9a0f-7575358f7819", - "image_id": 203260, - "image_name": "119953.png", + "id": 383, + "strid": "a6a80044-e0fe-483a-b3b2-b7b391f0c230", + "image_id": 18, + "image_name": "10947.png", "category_id": 9, "category_name": "Root", "bbox": [ - 8.65, - 219.21, - 46.93, - 221.26000000000002 + 140.5, + 228.41, + 207.85000000000002, + 160.91 ], "priority": -1, "parents": [], "children": [ - 70769, - 70773, - 70772, - 70770, - 70771 + 413, + 411, + 386, + 403, + 390, + 385, + 406, + 384, + 398 ], - "area": 1896.1665, + "area": 32091.605, "iscrowd": 0, "segmentation": [] }, { - "id": 70769, - "strid": "f30391a7-a954-45a4-babc-626601ec6936", - "image_id": 203260, - "image_name": "119953.png", + "id": 384, + "strid": "3a83c024-0d75-4f5b-a57d-19a628d7edee", + "image_id": 18, + "image_name": "10947.png", "category_id": 1, "category_name": "Title", "bbox": [ - 71.991, - 31.461, - 3398.887, - 266.282 + 231.373, + 95.49, + 4384.586, + 108.837 ], "priority": 1, "parents": [ - 70795 + 383 ], "children": [], - "area": 2264.9088509999997, + "area": 22093.80777, "iscrowd": 0, "segmentation": [], - "text": "Nicotiana tabacum PIN auxin carriers: identification of gene family,\nexpression profiling, localization Studies and functional testing.”" + "text": "Instructor presence, visual attention, and learning in educational video: Content difficulty matters." }, { - "id": 70770, - "strid": "5c6667af-ee8e-47b7-b660-798f4f78e442", - "image_id": 203260, - "image_name": "119953.png", + "id": 385, + "strid": "8c8bc8dc-880f-40cd-9b14-7edb01ce3e8e", + "image_id": 18, + "image_name": "10947.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 93.974, - 315.458, - 3350.405, - 225.20499999999998 + 1286.717, + 222.973, + 1935.4190000000003, + 115.60300000000001 ], "priority": 2, "parents": [ - 70795 + 383 ], "children": [], - "area": 29644.850092000004, + "area": 286903.149641, "iscrowd": 0, "segmentation": [], - "text": "Karel Miller2, Maria Carna!, Markéta Parezova!, Katerina Malinska?, Stanislav Vosolsobé2, Eva Zazimalova? and Jan Petrasek?\n\n) IEB 1) Institute of Experimental Botany AS CR, v.v.i., Rozvojova 263, Prague 6, 165 02, Czech Republic\n\nFaculty of Science, Department of Experimental Plant Biology, Charles University in Prague, Vini¢na 5, Prague 2, 128 44, Czech Republic" + "text": "Jiahui Wang', Pavlo Antonenko!, Ethan Fieldman?" }, { - "id": 70771, - "strid": "e6ec8037-e2b6-4940-b344-251b13e6caff", - "image_id": 203260, - "image_name": "119953.png", + "id": 386, + "strid": "eebaf22c-a41c-4620-9fdc-532b63154b75", + "image_id": 18, + "image_name": "10947.png", "category_id": 5, "category_name": "Section", "bbox": [ - 66.829, - 546.689, - 199.675, - 45.186000000000035 + 115.542, + 447.938, + 374.8159999999999, + 62.786 ], "priority": 3, "parents": [ - 70795 + 383 ], "children": [ - 70776, - 70794, - 70775, - 70792, - 70774, - 70790, - 70793, - 70777, - 70778, - 70791 + 389, + 387, + 388 ], - "area": 36534.67918099999, + "area": 51755.652396, "iscrowd": 0, "segmentation": [], - "text": "Summary" + "text": "Introduction" }, { - "id": 70774, - "strid": "cb67396e-42f8-4c5a-a638-f5d1161f25e0", - "image_id": 203260, - "image_name": "119953.png", + "id": 387, + "strid": "328567e0-b636-407c-8926-33a049449d9d", + "image_id": 18, + "image_name": "10947.png", "category_id": 3, "category_name": "Text", "bbox": [ - 64.87, - 600.442, - 3391.199, - 296.9549999999999 + 115.298, + 535.931, + 1343.922, + 292.571 ], "priority": 4, "parents": [ - 70771 + 386 ], "children": [], - "area": 38950.67254, + "area": 61791.77243800001, "iscrowd": 0, "segmentation": [], - "text": "Plant cell strains isolatedsfrom Nicotiana tabacum plants (BY-2, VBI-O) are frequently used to track auxin transport mechanisms at the cellular level. They allow determination of auxin transport activities) of heterologously expressed\nauxin transporters. However, information on the genes coding for endogenous, ‘tobacco auxin transporters is largely missing. Here we report on the identification of PIN auxin carrier family.from Nicotiana tabacum genome.\nSequences from bothsgenomic DNA and cDNA from Nicotiana tabacum, its ancestors Nicotiana sylvestris and Nicotiana tomentosiformis,and closely related Nicotiana benthamiana allowed us '‘to/identify and clone 9 NtP/N genes\n(Fig. 1). qRT-PCR analysis in individual plant tissues and during BY-2 cell culture growth and cell cycle revealed tissue-specific expression in plants and growth phase-specific expression in-tellculture (Fig. 2). Auxin accumulation\nassays and cellphenotyping after inducible expression of NtPINs in BY-2>cells suggested the highest auxin efflux activity for NtPIN9AFig. 3). GFP-tagged versions of NtPINs showed their prominent plasma membrane localization (Fig.\n4). Altogetherthe comparison of evidences from other species with results from NtPIN family could suggest whether the radiationvof individual Dicotyledonous families of PINs might represent the example of convergent evolution\n\nfor auxiretransport management." + "text": "In an effort to reach more students, educators work to design engaging\nonline learning experiences, particularly in the form of online videos.\nWhile many instructional videos feature a picture-in-picture view of\ninstructor, it is not clear how instructor presence influences learners’\nvisual attention and what it contributes to learning and affect." }, { - "id": 70775, - "strid": "b0724f88-899e-4538-9ee3-b33400b0083f", - "image_id": 203260, - "image_name": "119953.png", - "category_id": 3, - "category_name": "Text", + "id": 388, + "strid": "a9dec867-688d-4d71-a3e0-2585b2d2c77b", + "image_id": 18, + "image_name": "10947.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 69.58, - 1012.063, - 1126.563, - 459.09900000000005 + 110.541, + 845.152, + 1374.845, + 608.9279999999999 ], "priority": 5, "parents": [ - 70771 + 386 ], "children": [], - "area": 70419.34354, + "area": 93423.947232, "iscrowd": 0, - "segmentation": [], - "text": "Family of PIN genes identified in Nicotiana tabacum genome and\nmolecular phylogenetic analysis of 63 ,amino acid sequences\n(Maximum Likelihood method). The analysis revealed independent\nevolution of “long” canonical PINs 1,3,4)Z% in-Arabidopsis thaliana and\nSolanaceae species, while PIN2 genes are clustered together. NtP/N8\nand NtP/N10 are not present in the analysis yet. Our results show\nrecent radiation of long PINs and’are in agreement with large scale\nphylogenetic analysis (Bennett, Patricia M. Palagi®,\nJudit Kumuthini’, Gabriella Rustici® and Teresa K. Attwood?\n\ntMonash Bioinformatics Platform, Monash University, AU; 7AGRF, AU; 7EMBL-ABR, AU; 7EMBL-EBI, UK; °University of Tasmania,\nAU; °SIB Swiss Institute of Bioinformatics; 7\"CPGR, ZA; ®University of Cambridge, UK; °University of Manchester, UK" }, { - "id": 132139, - "strid": "38df008a-e6bc-41ec-bded-da3a5b1cd595", - "image_id": 205630, - "image_name": "15465.png", + "id": 557, + "strid": "598274b6-6a63-4f9c-852a-20b044290c33", + "image_id": 24, + "image_name": "11299.png", "category_id": 5, "category_name": "Section", "bbox": [ - 74.694, - 751.442, - 476.436, - 70.00700000000006 + 157.248, + 876.652, + 252.55900000000003, + 53.652000000000044 ], "priority": 3, "parents": [ - 132163 + 554 ], "children": [ - 132140, - 132141, - 132142 + 558 ], - "area": 56128.208748000005, + "area": 137851.773696, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "" }, { - "id": 132140, - "strid": "9a817714-33b9-44f8-b3cb-bb67a7335cdf", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 558, + "strid": "6de4caf1-4d94-4d99-97c9-90d2d9f12049", + "image_id": 24, + "image_name": "11299.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 59.083, - 889.997, - 1450.374, - 428.09000000000003 + 147.679, + 960.636, + 3284.097, + 423.299 ], "priority": 4, "parents": [ - 132139 + 557 ], "children": [], - "area": 52583.692750999995, + "area": 141865.763844, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Recognising the importance of internationally-recognised standards in data-driven science, GOBLET’s?\nStandards Committee is contributing to the open science data life-cycle by helping both to develop standards\nfor annotating training materials and events?, and to raise awareness of life-science data standards (including\nFAIR principles) through training provision. Here, we introduce some of the Committee’s work and review\n\npreliminary results of our standards-awareness survey." }, { - "id": 132141, - "strid": "2ec98f13-8d03-4377-9a52-ef54ba84f5d1", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 559, + "strid": "06cb21a9-c183-4963-9542-346fa3e69058", + "image_id": 24, + "image_name": "11299.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1685.918, - 876.611, - 1498.1670000000001, - 486.67500000000007 + 129.185, + 1458.438, + 853.922, + 58.46499999999992 ], "priority": 5, "parents": [ - 132139 + 554 ], - "children": [], - "area": 1477894.263898, + "children": [ + 560 + ], + "area": 188408.31303000002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 132142, - "strid": "5aa89233-6fd7-4850-b39c-f5949cdc7ab7", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 3, - "category_name": "Text", + "id": 560, + "strid": "4ace452c-e001-4cda-80ae-415c7e0c22aa", + "image_id": 24, + "image_name": "11299.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 75.083, - 1388.279, - 3077.268, - 82.29700000000003 + 119.399, + 1556.058, + 1509.2060000000001, + 303.405 ], "priority": 6, "parents": [ - 132139 + 559 ], "children": [], - "area": 104236.152157, + "area": 185791.769142, "iscrowd": 0, - "segmentation": [], - "text": "Aim: To develop network-based models that prioritise PPls for rational drug design in Neuroblastoma" + "segmentation": [] }, { - "id": 132143, - "strid": "5c3a32aa-8ece-4897-b7ea-3bd4a2336da5", - "image_id": 205630, - "image_name": "15465.png", + "id": 561, + "strid": "718074ef-9d68-45dd-81ff-6a1b858288a4", + "image_id": 24, + "image_name": "11299.png", "category_id": 5, "category_name": "Section", "bbox": [ - 66.374, - 1502.519, - 683.762, - 79.55700000000002 + 1841.415, + 1459.124, + 389.14400000000023, + 55.827 ], "priority": 7, "parents": [ - 132163 + 554 ], "children": [ - 132148 + 562 ], - "area": 99728.19610599999, + "area": 2686852.82046, "iscrowd": 0, "segmentation": [], - "text": "Analysis overview" + "text": "" }, { - "id": 132148, - "strid": "239f81a3-5a65-498c-840b-4cd63ef3c903", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 2, - "category_name": "Figure", + "id": 562, + "strid": "f431bc8e-035b-40b5-9357-73151a9115ab", + "image_id": 24, + "image_name": "11299.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 267.115, - 1607.367, - 2736.6630000000005, - 662.0829999999999 + 1832.905, + 1548.031, + 1626.0380000000002, + 777.1239999999998 ], "priority": 8, "parents": [ - 132143 + 561 ], "children": [], - "area": 429351.836205, + "area": 2837393.760055, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Standards are fundamental to the data life-cycle.\nNumerous standards exist in the life sciences (from\ndata collection to annotation, preservation and\npublication), all playing vital roles for data sharing and\nreuse. We are currently surveying awareness of\nstandards and their adoption in the life sciences.\nHere, we present the initial results, highlighting an\nalarming lack of standards awareness, about their\nimportance, what they are and when to use them." }, { - "id": 132144, - "strid": "5c28ad67-b81b-4163-9f62-a6529fc104f1", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 5, - "category_name": "Section", + "id": 563, + "strid": "e6eacc99-e08a-4432-a3b9-e5843c967520", + "image_id": 24, + "image_name": "11299.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 73.26, - 2358.37, - 278.957, - 68.30699999999979 + 112.53, + 1957.556, + 1591.171, + 809.5430000000001 ], "priority": 9, "parents": [ - 132163 - ], - "children": [ - 132162, - 132149, - 132150, - 132151, - 132160, - 132155, - 132158, - 132152, - 132161, - 132159, - 132156, - 132157, - 132147 + 554 ], - "area": 172774.1862, + "children": [], + "area": 220283.77668, "iscrowd": 0, - "segmentation": [], - "text": "Results" + "segmentation": [] }, { - "id": 132152, - "strid": "f6b8d448-51d1-4307-b6be-79b6ba5e4e28", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 564, + "strid": "496fcf5e-b611-4a88-960b-de3793495dc2", + "image_id": 24, + "image_name": "11299.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 65.546, - 2455.56, - 809.625, - 481.98 + 1827.508, + 2415.176, + 617.4379999999999, + 67.21000000000004 ], "priority": 10, "parents": [ - 132144 + 554 ], - "children": [], - "area": 160952.13576, + "children": [ + 566, + 565 + ], + "area": 4413753.4614079995, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Preliminary Findings" }, { - "id": 132147, - "strid": "16d84952-567a-488d-b13f-c4b47a3e7ba6", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 2, - "category_name": "Figure", + "id": 565, + "strid": "dbdb7ce3-e363-4229-b81a-4a31863aa606", + "image_id": 24, + "image_name": "11299.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 926.861, - 2548.736, - 655.102, - 419.11400000000003 + 1807.796, + 2508.83, + 1667.363, + 574.5639999999999 ], "priority": 11, "parents": [ - 132144 + 564 ], "children": [], - "area": 2362323.9976959997, + "area": 4535452.83868, "iscrowd": 0, "segmentation": [] }, { - "id": 132162, - "strid": "5b904dcc-61e9-4616-a8da-cce105f5d1e0", - "image_id": 205630, - "image_name": "15465.png", + "id": 566, + "strid": "eb8337b2-dec5-474d-a100-6cce42b9b48a", + "image_id": 24, + "image_name": "11299.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1019.844, - 2983.736, - 530.0259999999998, - 82.95699999999988 + 1814.007, + 3115.307, + 1607.0949999999998, + 311.05099999999993 ], "priority": 12, "parents": [ - 132144 + 564 ], "children": [], - "area": 3042945.257184, + "area": 5651188.705149, "iscrowd": 0, "segmentation": [], - "text": "Overlap of top 100 high degree\nnodes across PPI networks" + "text": "So far, we have received limited responses to the survey in\ngeneral, and to the topic of training material standards in\nparticular; nevertheless, the latter was listed amongst the\ntop priority standards to be developed (data not shown)." }, { - "id": 132151, - "strid": "09e12d0d-6dd5-4b96-8a09-fce42d30154a", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 567, + "strid": "c2086d58-1586-4358-800b-663e70d7d0f3", + "image_id": 24, + "image_name": "11299.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 70.332, - 3068.973, - 1391.2150000000001, - 358.105 + 117.397, + 2850.228, + 1091.473, + 70.74299999999994 ], "priority": 13, "parents": [ - 132144 + 554 ], - "children": [], - "area": 215847.00903599997, + "children": [ + 568 + ], + "area": 334608.21651600004, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Future Activities, Moving Forward" }, { - "id": 132161, - "strid": "fa46f6db-7595-4a0b-a659-6cdb0975907b", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 7, - "category_name": "Table", + "id": 568, + "strid": "bc905acf-02d3-4c3d-9a57-44884e3b7171", + "image_id": 24, + "image_name": "11299.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 70.653, - 3507.377, - 1507.132, - 325.212 + 105.617, + 2940.576, + 1599.428, + 800.8710000000001 ], "priority": 14, "parents": [ - 132144 + 567 ], "children": [], - "area": 247806.707181, + "area": 310574.815392, "iscrowd": 0, "segmentation": [] }, { - "id": 132160, - "strid": "31b1edd7-2028-4feb-b792-173aa1f163d3", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 3, - "category_name": "Text", + "id": 569, + "strid": "044c4009-915c-4557-84f1-22d32cde1abc", + "image_id": 24, + "image_name": "11299.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 64.961, - 3849.653, - 1430.384, - 139.42799999999988 + 1844.974, + 3512.528, + 1594.6160000000002, + 936.7469999999998 ], "priority": 15, "parents": [ - 132144 + 554 ], "children": [], - "area": 250077.30853299997, + "area": 6480522.834271999, "iscrowd": 0, - "segmentation": [], - "text": "Results from Hierarchical Hotnet run with 100 permutations on each set of genes.\nNetwork attributes are for the subgraph of the Ascher PPI network comprised of the\nlargest protein cluster for each set." + "segmentation": [] }, { - "id": 132150, - "strid": "dface891-a938-44d4-949d-00323c8aa207", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 570, + "strid": "e8c35bf9-eb23-4b10-9220-410d7c4ddee7", + "image_id": 24, + "image_name": "11299.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1675.873, - 2455.052, - 1529.348, - 365.4859999999999 + 142.599, + 3796.809, + 322.392, + 46.94399999999996 ], "priority": 16, "parents": [ - 132144 + 554 ], - "children": [], - "area": 4114355.3603960006, + "children": [ + 571 + ], + "area": 541421.166591, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 132149, - "strid": "4dcd1f3c-d3a6-4d37-b781-d17e787389fc", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 7, - "category_name": "Table", + "id": 571, + "strid": "bf22cd59-98e5-405b-a777-498f9112e8d8", + "image_id": 24, + "image_name": "11299.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1701.095, - 2828.716, - 1513.825, - 493.62199999999984 + 122.041, + 3862.845, + 1588.292, + 595.4000000000001 ], "priority": 17, "parents": [ - 132144 + 570 ], "children": [], - "area": 4811914.64402, + "area": 471425.466645, "iscrowd": 0, "segmentation": [] }, { - "id": 132155, - "strid": "708a177e-12ff-4efe-aff0-80c980de3c90", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 3, - "category_name": "Text", + "id": 572, + "strid": "9b1e48f9-39c6-4486-ad1f-45c422f0983a", + "image_id": 25, + "image_name": "11354.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 1702.721, - 3351.204, - 1426.8849999999998, - 92.27500000000009 + 80.45, + 72.03, + 277.37, + 208.03 ], - "priority": 18, - "parents": [ - 132144 + "priority": -1, + "parents": [], + "children": [ + 575, + 586, + 574, + 590, + 573, + 581, + 577 ], - "children": [], - "area": 5706165.426084001, + "area": 5794.8135, "iscrowd": 0, - "segmentation": [], - "text": "Top 10 ranked nodes from the OMIM subnetwork. Each node is ranked from [1...39]\nwith the largest value for each score gaining the largest rank." + "segmentation": [] }, { - "id": 132156, - "strid": "a8368b20-8a54-44c2-a64f-19203ced35c1", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 2, - "category_name": "Figure", + "id": 573, + "strid": "213064de-2f87-4b16-b22f-866da48cba77", + "image_id": 25, + "image_name": "11354.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 1735.802, - 3441.325, - 436.79899999999975, - 396.3090000000002 + 556.859, + 54.556, + 2630.68, + 304.374 ], - "priority": 19, + "priority": 1, "parents": [ - 132144 + 572 ], "children": [], - "area": 5973458.81765, + "area": 30379.999604, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "QCFALLSequencing" }, { - "id": 132157, - "strid": "3608243a-fa0e-4f22-9538-196e48067258", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 3, - "category_name": "Text", + "id": 574, + "strid": "f419329b-1ede-46c6-b7b6-547ca6c4eb5f", + "image_id": 25, + "image_name": "11354.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1699.699, - 3845.585, - 527.7820000000002, - 88.85699999999997 + 359.806, + 360.805, + 2812.767, + 352.724 ], - "priority": 20, + "priority": 2, "parents": [ - 132144 + 572 ], "children": [], - "area": 6536336.978915, + "area": 129819.80382999999, "iscrowd": 0, "segmentation": [], - "text": "The largest complete subgraph\nof the Ascher PPI network" + "text": "Steven Wingett', Felix Krueger’, Philip Ewels* and Simon Andrews'\n‘Bioinformatics Group, The Babraham Institute, Cambridge CB22 3AT, UK\n“Department of Biochemistry and Biophysics, Science for Life Laboratory, Stockholm\nUniversity, Stockholm 106 91, Sweden" }, { - "id": 132159, - "strid": "9bbf3ccc-e221-4119-bb98-3587f8bd69dd", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 2, - "category_name": "Figure", + "id": 575, + "strid": "9d93f9d4-485b-4121-ad1f-20d7a57437bd", + "image_id": 25, + "image_name": "11354.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2059.396, - 3452.852, - 1155.4320000000002, - 476.1579999999999 + 601.607, + 810.949, + 434.953, + 65.19200000000001 ], - "priority": 21, + "priority": 3, "parents": [ - 132144 + 572 ], - "children": [], - "area": 7110789.597392, + "children": [ + 576 + ], + "area": 487872.59504299995, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Introduction" }, { - "id": 132158, - "strid": "a2e9eb41-40e1-43d7-b163-42f99748cc4d", - "image_id": 205630, - "image_name": "15465.png", + "id": 576, + "strid": "d9021361-2cf1-4083-b7f8-9da9b41430c1", + "image_id": 25, + "image_name": "11354.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2204.178, - 3951.682, - 1006.2759999999998, - 89.69599999999991 + 37.569, + 941.543, + 1542.597, + 1314.9859999999999 ], - "priority": 22, + "priority": 4, "parents": [ - 132144 + 575 ], "children": [], - "area": 8710210.527395999, + "area": 35372.828967, "iscrowd": 0, "segmentation": [], - "text": "Subnetwork from the significant cluster of OMIM genes.\nNode size reflect betweenness and color druggability score." + "text": "Reaching valid conclusions from DNA sequencing experiments\nrequires accurate results and a thorough understanding of the data,\nyet we often see researchers misinterpreting artefacts as genuine\nfindings and consequently presenting incorrect conclusions and\n\nwasting time chasing false leads.\n\nPerhaps more frustrating still is the fact that many different\nresearchers are being adversely affected by the same artefacts, or\nmaking similar mistakes when interpreting DNA sequencing results.\nAt present, there is a lack of resources available to help scientists\navoid these pitfalls, and an unmet need for a freely available central\nresource clearly documenting the most commonly encountered and\n\nproblematic issues affecting those undertaking DNA sequencing.\n\nTo address these problems, we developed the website QC Fail." }, { - "id": 132145, - "strid": "1e4bdfc4-d9b0-4d6e-9745-b09254a46bfa", - "image_id": 205630, - "image_name": "15465.png", + "id": 577, + "strid": "9a8497fb-6165-43f4-9380-9ad52fdd3454", + "image_id": 25, + "image_name": "11354.png", "category_id": 5, "category_name": "Section", "bbox": [ - 64.695, - 4180.89, - 658.9490000000001, - 71.93000000000029 + 719.593, + 2308.617, + 196.47199999999998, + 69.29199999999992 ], - "priority": 23, + "priority": 5, "parents": [ - 132163 + 572 ], "children": [ - 132153 + 578, + 579, + 580 ], - "area": 270482.67855, + "area": 1661264.632881, "iscrowd": 0, "segmentation": [], - "text": "Future directions" + "text": "Aims" }, { - "id": 132153, - "strid": "04ef2fc4-edcd-435d-9174-020454816050", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 578, + "strid": "d1949188-2910-44d3-ac68-3d9eb94e0282", + "image_id": 25, + "image_name": "11354.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 41.909, - 4306.812, - 1499.318, - 295.3249999999998 + 37.709, + 2448.674, + 1539.611, + 774.8789999999999 ], - "priority": 24, + "priority": 6, "parents": [ - 132145 + 577 ], "children": [], - "area": 180494.184108, + "area": 92337.04786600001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "When we encounter a sequencing problem which may be of interest\nto the wider life sciences community, we record our experiences on\nthe QC Fail website. Each article typically discusses how a problem\nwas identified, whether we determined the cause and what measures\nshould be taken to improve the situation. In addition, we make\navailable example datasets for people to download and analyse\nthemselves and perhaps use in the development of processing or\nQC tools. These datasets should also prove useful for teaching\n\npurposes. This poster summarises two recently published stories." }, { - "id": 132146, - "strid": "aa5856ca-2f31-47cf-a1f3-9203436f19e3", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 5, - "category_name": "Section", + "id": 579, + "strid": "14021107-2dac-428c-b76e-79bcd0eb7490", + "image_id": 25, + "image_name": "11354.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1705.309, - 4183.631, - 428.8689999999999, - 68.4960000000001 + 39.776, + 3270.499, + 766.035, + 607.1990000000001 ], - "priority": 25, + "priority": 7, "parents": [ - 132163 + 577 ], - "children": [ - 132154 - ], - "area": 7134383.596979001, + "children": [], + "area": 130087.368224, "iscrowd": 0, - "segmentation": [], - "text": "References" + "segmentation": [] }, { - "id": 132154, - "strid": "f1dc8ddc-3d8d-46df-a8dc-c01cfd0e12cf", - "image_id": 205630, - "image_name": "15465.png", - "category_id": 4, - "category_name": "List", + "id": 580, + "strid": "be70b95e-d6c4-43cb-b904-dc55bee52704", + "image_id": 25, + "image_name": "11354.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1687.691, - 4291.588, - 1480.144, - 327.58299999999963 + 828.017, + 3268.889, + 760.9370000000001, + 512.3630000000003 ], - "priority": 26, + "priority": 8, "parents": [ - 132146 + 577 ], "children": [], - "area": 7242874.4433079995, + "area": 2706695.6631130003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "QC Fail website screenshot\n\nAs we encounter new sequencing-related problems we\npost our experiences on the website. We allow visitors\nto comment on our stories and share their experiences\nwith our readers. The site now hosts a wealth of\ninformation on how to improve experiments, and\nprovides a great way for researchers to get in contact\nwith people who may have already encountered a\n\nproblem similar to their own." }, { - "id": 30536, - "strid": "4ed074a9-ddfc-482b-99f1-071b0e7ddc76", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 9, - "category_name": "Root", + "id": 581, + "strid": "1f1df8b4-c2d1-4784-9001-f67496d5990b", + "image_id": 25, + "image_name": "11354.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 37.6, - 52.77, - 52.660000000000004, - 40.949999999999996 + 1982.008, + 809.292, + 1011.5179999999998, + 79.87699999999995 + ], + "priority": 9, + "parents": [ + 572 ], - "priority": -1, - "parents": [], "children": [ - 30533, - 30532, - 30528, - 30529, - 30527, - 30526, - 30530, - 30531 + 584, + 582, + 585, + 583 ], - "area": 1984.1520000000003, + "area": 1604023.218336, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Story 1 - DNA contamination" }, { - "id": 30526, - "strid": "6d6cebd9-1488-4d5e-9c1d-2f3357756481", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 1, - "category_name": "Title", + "id": 582, + "strid": "5d26724e-7bb5-4449-8f35-9c5945c4c1b9", + "image_id": 25, + "image_name": "11354.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 116.216, - 47.882, - 566.852, - 37.261 + 1704.245, + 939.826, + 1556.993, + 594.665 ], - "priority": 1, + "priority": 10, "parents": [ - 30536 + 581 ], "children": [], - "area": 5564.654511999999, + "area": 1601693.76137, "iscrowd": 0, "segmentation": [], - "text": "THE EFFECT OF INTRAOPERATIVE INFUSION OF DEXMEDETOMIDINE\nON THE QUALITY OF RECOVERY AFTER MAJOR SPINAL SURGERY" + "text": "Problem: Cross mapping artefacts owing to DNA contamination from\n“foreign” species.\n\nSolution: Validate the sample is as expected using tools such as\nFastQ Screen to map sequences against a panel of reference\ngenomes. In the example below, the supposedly human sample was\ncontaminated with E. coli DNA. Researchers should troubleshoot\n\ntheir protocols to identify and remove such contaminants." }, { - "id": 30527, - "strid": "d561e33a-c4f5-4410-9c7f-ad9955fbaad3", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 0, - "category_name": "Author Info", + "id": 583, + "strid": "5ebdb3b4-45ce-4443-9606-1ad483cae5c5", + "image_id": 25, + "image_name": "11354.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 204.786, - 86.365, - 403.76000000000005, - 31.763000000000005 + 1705.247, + 1592.57, + 1043.785, + 538.5399999999997 ], - "priority": 2, + "priority": 11, "parents": [ - 30536 + 581 ], "children": [], - "area": 17686.34289, + "area": 2715725.21479, "iscrowd": 0, - "segmentation": [], - "text": "B. Ni eho, MD, A. Bekker, MD, PhD, M. Haile, MD, R. Kline, PhD\n‘Obert of Anesthesiology, New York University Medical Genter" + "segmentation": [] }, { - "id": 30528, - "strid": "afaa9fca-2d73-4209-8eea-f41878b7eb3f", - "image_id": 201699, - "image_name": "117530.png", + "id": 584, + "strid": "342827d8-acaf-4674-b426-c15e786a0d4a", + "image_id": 25, + "image_name": "11354.png", "category_id": 3, "category_name": "Text", "bbox": [ - 55.656, - 129.781, - 715.52, - 78.03 + 2778.536, + 1601.008, + 485.0529999999999, + 448.885 ], - "priority": 3, + "priority": 12, "parents": [ - 30536 + 581 ], "children": [], - "area": 7223.091336, + "area": 4448458.364288, "iscrowd": 0, "segmentation": [], - "text": "BACKGROUND: Surgery induces a variety of metabolic, endocrine, and immune changes collectively known as the\n‘stress response,\" which may often lead to prolonged postoperative convalescence. Anesthetic management may\nmodulate this physiological response, thus affecting the postoperative course. We hypothesized that the intraoperative\nadministration of dexmedetomidine (DEX), a sympatholytic agent, would reduce the stress response and improve the\nquality of recovery in patients undergoing major surgery." + "text": "Output from FastQ Screen\n\nThe graph shows the result of\nmapping reads against the\nexpected human genome and four\npotential sources of\ncontamination. Unexpectedly, just\nover 60% of the reads mapped\n\nonly to the E. coli genome." }, { - "id": 30529, - "strid": "825bdd02-72f7-49c8-b87f-38db1eb62218", - "image_id": 201699, - "image_name": "117530.png", + "id": 585, + "strid": "9af4d86c-fab6-4461-8734-b13861e12d0d", + "image_id": 25, + "image_name": "11354.png", "category_id": 3, "category_name": "Text", "bbox": [ - 55.656, - 217.381, - 718.465, - 133.23999999999998 + 1717.405, + 2182.709, + 1495.334, + 37.15299999999979 ], - "priority": 4, + "priority": 13, "parents": [ - 30536 + 581 ], "children": [], - "area": 12098.556935999999, + "area": 3748595.3501449996, "iscrowd": 0, "segmentation": [], - "text": "METHODS: We conducted a prospective randomized double-blinded study of 54 patients undergoing multilevel spinal\nfusion. Anesthesia was maintained using either propofol/fentanylidexmedetomidine (PED) or propofol/fentanyl/placebo-\nsaline (PFS). The quality of recovery (a primary endpoint) was assessed using a 40-item quality of recovery\nquestionnaire and a 9-question Fatigue Severity Scores. The tests were carried out preoperatively on postoperative days\n(POD) 1, 2,3, and 30. Blood samples were collected at baseline, in the postanesthesia care unit, and at POD 1 and were\nanalyzed for levels of cortisol, C-reactive proteins (CRP), and cytokines interleukin (IL)-ta, IL-1, IL-1ra, IL-2, IL-6, IL-8,\nIL-10, and tumor necrosis factor-a. Data were analyzed using SPSS software (version 18) using a multivariate and mixed\n\nmodel approach to test for the effect of surgery and drug group. Pairwise comparisons were assessed by means of the t\ntest or rank tests after correcting for multiple comparisons." + "text": "The tool FastQ Screen may be downloaded from : http://www.bioinformatics.babraham.ac.uk/projects" }, { - "id": 30530, - "strid": "b2b57a72-257a-4f6a-99a5-d050f11768ac", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 3, - "category_name": "Text", + "id": 586, + "strid": "a3a1ff54-a058-4d3a-a253-5f8e6b9bf19c", + "image_id": 25, + "image_name": "11354.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 54.92, - 360.926, - 720.673, - 146.49 + 1800.473, + 2310.02, + 1372.676, + 77.59000000000015 ], - "priority": 5, + "priority": 14, "parents": [ - 30536 + 572 ], - "children": [], - "area": 19822.05592, + "children": [ + 589, + 587, + 588 + ], + "area": 4159128.6394599997, "iscrowd": 0, "segmentation": [], - "text": "RESULTS: The global 40-item quality of recovery questionnaire scores showed a significant effect of time (F4,114=22.63,\nP<0.001) and drug (F1,51=4.368, P=0.042), with average scores decreasing to lower values on POD 1 (163.6322.47) and\nPOD 2 (170.9422.38) compared with baseline (180.56:+1.588, meansSE, 2-talled t tests, P<0.001). By POD 3, scores were\nsignificantly lower (-13.74 point difference, P=0.008) in the PFS group (169.323.87) than in the PFD group (183.042.76)\nAll patients reported significantly higher levels of fatigue postoperatively, but intergroup difference in Fatigue Severity\nScores was detected on POD 8 only, with scores in the PFS group higher than in the PFD group (50.04.0 vs. 36.324.9,\nP=0.035). In both groups, plasma cortisol levels were highest in the postanesthesia care unit, whereas CRP levels were\nelevated on POD 1. DEX significantly reduced the levels of cortisol, but not those of CRP. Levels of cytokines IL-6, IL-8,\n‘and IL-10 were significantly higher immediately after surgery and at POD 1. Plasma levels of other cytokines were not\naffected by surgery. DEX delayed postoperative rise in IL-10 but not in IL-6 or IL-8." + "text": "Story 2 - patterned flow cell duplicates" }, { - "id": 30531, - "strid": "9eaefa6a-f498-458f-9701-aaaafd377481", - "image_id": 201699, - "image_name": "117530.png", + "id": 587, + "strid": "cda1dcc4-eddc-4291-bf76-4e9908c8d3b8", + "image_id": 25, + "image_name": "11354.png", "category_id": 3, "category_name": "Text", "bbox": [ - 55.656, - 518.458, - 748.646, - 62.571000000000026 + 1704.214, + 2448.778, + 1560.234, + 863.835 ], - "priority": 6, + "priority": 15, "parents": [ - 30536 + 586 ], "children": [], - "area": 28855.298447999998, + "area": 4173241.7504919996, "iscrowd": 0, "segmentation": [], - "text": "CONCLUSIONS: DEX infusion during multilevel spinal fusions moderately improved the quality of recovery and possibly\nreduced fatigue in the early postoperative period. Moreover, it reduced plasma levels of cortisol and IL-10 in comparison with\nthe control group. Our sample size was not sufficient to detect differences either in the incidence of complications or in\nclinically relevant outcomes." + "text": "Problem: Although the new Illumina patterned flow cells generate\nmany more sequence reads than the previous generation design, a\nsignificant proportion of such reads may be duplicates. These\nartefacts, specific to this new patterned design, reduce sequencing\ndepth and could skew experimental results.\n\nSolution: These duplicates are positioned in close proximity to one\nanother on a flowcell and so may be removed using a distance filter\n(similar to the removal of “optical duplicates” performed by tools such\nas Picard, but requiring an increased minimum allowed separation\n\ndistance)." }, { - "id": 30532, - "strid": "f22046d0-4365-462f-aa2d-a7959f859903", - "image_id": 201699, - "image_name": "117530.png", + "id": 588, + "strid": "4a68a584-f6b6-4ad1-b358-22840b422089", + "image_id": 25, + "image_name": "11354.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 21.058, - 593.544, - 402.313, - 420.129 + 1722.925, + 3340.197, + 892.9619999999998, + 539.0230000000001 ], - "priority": 7, + "priority": 16, "parents": [ - 30536 - ], - "children": [ - 30534 + 586 ], - "area": 12498.849552, + "children": [], + "area": 5754908.916225, "iscrowd": 0, "segmentation": [] }, { - "id": 30534, - "strid": "c0bff394-cb6f-48d1-82dc-d393547f3f91", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 6, - "category_name": "Caption", + "id": 589, + "strid": "23cecaac-bae4-4313-a2f0-8671cd295e0d", + "image_id": 25, + "image_name": "11354.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 15.646, - 1022.634, - 416.518, - 135.24700000000007 + 2632.724, + 3337.629, + 630.0250000000001, + 456.89699999999993 ], - "priority": 8, + "priority": 17, "parents": [ - 30532 + 586 ], "children": [], - "area": 16000.131564000001, + "area": 8787055.971396001, "iscrowd": 0, "segmentation": [], - "text": "FIGURE 3. A, B. Plasma concentrations of cortisol and C-re-\nactive proteins (CRP) preoperatively (BSL), immediately after\nsurgery [postanesthesia care unit (PACU)], and on. post-\noperative day (POD) 1. Cortisol levels were significantly higher\nin the PACU for the propofol/fentanyl/placebo-saline (PFS)\ngroup than in the propofol /fentanyl/dexmedetomidine (PFD)\nCohort (P=0.031). At POD 1, mean CRP values were: sig-\nnificantly greater than at baseline (P=0.026) but without a\nsignificant difference between groups." + "text": "Plot showing the spatial separation of\nduplicates relative to one another\n\nOne read is set at the origin, and the relative\nposition of its duplicate is determined using\nthe co-ordinate system recorded in the FASTQ\nfile. The plot reveals the ordered array of\nindividual nanowells integral to this new\n\ntechnology." }, { - "id": 30533, - "strid": "f4ac1b1b-1e5e-4961-b0f9-90e63dfa697a", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 2, - "category_name": "Figure", + "id": 590, + "strid": "f3ef6220-e875-498e-92ef-2a94dbc7231a", + "image_id": 25, + "image_name": "11354.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 456.848, - 693.658, - 355.5520000000001, - 294.453 + 1317.533, + 3915.491, + 669.7139999999999, + 102.99400000000014 ], - "priority": 9, + "priority": 18, "parents": [ - 30536 + 572 ], "children": [ - 30535 + 591 ], - "area": 316896.269984, + "area": 5158788.603703, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusions" }, { - "id": 30535, - "strid": "d5c4cb91-2676-4038-bc2f-4f5c9184cbb6", - "image_id": 201699, - "image_name": "117530.png", - "category_id": 6, - "category_name": "Caption", + "id": 591, + "strid": "f11e90f4-885f-442a-af49-e6e6fc0a4ae0", + "image_id": 25, + "image_name": "11354.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 445.096, - 1001.619, - 375.567, - 159.495 + 42.553, + 4070.867, + 3210.33, + 235.41600000000017 ], - "priority": 10, + "priority": 19, "parents": [ - 30533 + 590 ], "children": [], - "area": 445816.610424, + "area": 173227.603451, "iscrowd": 0, "segmentation": [], - "text": "FIGURE 1. Changes in global 40-item quality of recovery\nquestionnaire (QoR40) scores over time, Scores showed a\nsignificant effect of time (P< 0.001) and drug (P=0.042).\nScores were significantly lower in the propofol/fentanyl/\nplacebo-saline (PFS) group than in the propofol/fentanyl/\ndexmedetomidine (PFD) group on postoperative day (POD) 3\n(P=0.005)." + "text": "The QC Fail website already provides an invaluable resource to help other scientists plan, perform and analyse sequencing experiments. Our\nbioinformatics facility is continuing to develop the site as we, and our readers, encounter interesting sequencing problems. Although the stories\n\ncurrently focus on sequencing-related matters, we intend to report new technology trends as they develop." }, { - "id": 86564, - "strid": "4e3616d6-06c9-4015-91ff-ec305affc322", - "image_id": 203868, - "image_name": "121067.png", + "id": 623, + "strid": "d84bc615-ad56-4155-940e-27df360905c6", + "image_id": 27, + "image_name": "11403.png", "category_id": 9, "category_name": "Root", "bbox": [ - 47.56, - 42.5, - 119.78, - 34.22 + 165.51, + 130.12, + 356.62, + 316.99 ], "priority": -1, "parents": [], "children": [ - 86552, - 86561, - 86554, - 86536, - 86537, - 86547, - 86556, - 86538, - 86543 + 626, + 625, + 635, + 630, + 629, + 624, + 640, + 645, + 638, + 632, + 634, + 636, + 642, + 631, + 639, + 633, + 637, + 628, + 641 ], - "area": 2021.3000000000002, + "area": 21536.1612, "iscrowd": 0, "segmentation": [] }, { - "id": 86536, - "strid": "90465ff3-90e8-4a71-9a48-9ef9a0c32c94", - "image_id": 203868, - "image_name": "121067.png", + "id": 624, + "strid": "8b469a1a-5da6-428b-8d9c-bb296ca0aeef", + "image_id": 27, + "image_name": "11403.png", "category_id": 1, "category_name": "Title", "bbox": [ - 66.617, - 65.014, - 3143.853, - 244.93199999999996 + 790.76, + 123.248, + 2020.265, + 263.976 ], "priority": 1, "parents": [ - 86564 + 623 ], "children": [], - "area": 4331.037638, + "area": 97459.58848, "iscrowd": 0, "segmentation": [], - "text": "The novel mathematical model of ATR-p53-Wip1 signaling\npathway: studies on prediction of cellular response to DNA damages" + "text": "NGL Viewer & Library\nVersatile molecular graphics on the web" }, { - "id": 86537, - "strid": "eca97912-effc-4aed-bd3a-930c4d0f2ece", - "image_id": 203868, - "image_name": "121067.png", + "id": 625, + "strid": "151c8749-2ef8-46a8-9b21-6582bd02469d", + "image_id": 27, + "image_name": "11403.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 60.532, - 345.848, - 2411.76, - 175.70199999999994 + 1343.767, + 452.034, + 910.3509999999999, + 61.398000000000025 ], "priority": 2, "parents": [ - 86564 + 623 ], "children": [], - "area": 20934.871135999998, + "area": 607428.372078, "iscrowd": 0, "segmentation": [], - "text": "Monika Kurpas, Katarzyna Jonak, Krzysztof Puszynski\n\nSilesian University of Technology, Faculty of Automatic Control, Electronics and Computer Science, 44-100 Gliwice, Akademicka 16, Poland\nAddress for correspondence: monika.kurpas@polsl.pl" + "text": "Alexander S. Rose, Stephen K. Burley" }, { - "id": 86538, - "strid": "964bf3c6-e599-4b35-94d1-ef71f4403478", - "image_id": 203868, - "image_name": "121067.png", + "id": 626, + "strid": "767e55a6-7ecf-400c-9c8f-1f61f794b056", + "image_id": 27, + "image_name": "11403.png", "category_id": 5, "category_name": "Section", "bbox": [ - 68.345, - 578.334, - 547.086, - 61.653999999999996 + 675.113, + 788.235, + 225.34500000000003, + 48.63099999999997 ], "priority": 3, "parents": [ - 86564 + 623 ], "children": [ - 86541, - 86539, - 86540 + 627 ], - "area": 39526.23723, + "area": 532147.6955550001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Overview" }, { - "id": 86539, - "strid": "5dece898-6695-4e65-a88a-aa9b012c3409", - "image_id": 203868, - "image_name": "121067.png", + "id": 627, + "strid": "95a8182b-4d25-4e95-ad45-466d2d76717f", + "image_id": 27, + "image_name": "11403.png", "category_id": 3, "category_name": "Text", "bbox": [ - 47.076, - 654.586, - 1560.137, - 596.8410000000001 + 318.121, + 888.776, + 938.8660000000001, + 492.59399999999994 ], "priority": 4, "parents": [ - 86538 + 626 ], "children": [], - "area": 30815.290536, + "area": 282738.30989599996, "iscrowd": 0, "segmentation": [], - "text": "StudyingsDNA damage response (DDR) signaling pathways is essential in order to predict and pre-\nvent,disorders appearing as a result of DNA breakages and prepare an appropriate treatment of\nthem. The elements of DDR, such as damage detectors and transcription factors, are tightly regulat-\ned by other proteins, building the positive and negative feedback loops. ATR (ataxia telangiectasia\nand Rad3-related protein) signaling pathway is a detéctor module of single-stranded DNA (ssDNA) in\ncells.\n\nATR is known to play essential role in cancerndevelopment [2] through the direct interaction with\np53 (cellular tumor antigen) [2], as well as Cell cycle checkpoint kinases Chk1 and Chk2 [4]. P53 actis\nvated by ATR regulates hundred of genes\\that encode proteins involved in DNA repair, apoptosis-or\nATP synthesis [5,6].\n\nRecent works [7,8] shown thatthe essential role in the DDR regulatory pathways is played by phos-\nphatase Wip1 (PPM1D, protein_ phosphatase 1D), which functions as a main dephosphorylation\nagent." + "text": "Interactive visualization, annotation and sharing of\nlarge macromolecular complexes is more important\nthan ever but is becoming challenging as experimental\ntechniques advance at an unprecedented rate. The\nweb can provide easy access to the resulting\nvisualizations for all interested parties, including\ncolleagues, collaborators, reviewers and educators.\nHerein, we utilize the web-based NGL library to provide\n3D visualization of experimental and computational\ndata integrated with general molecular graphics." }, { - "id": 86540, - "strid": "2f6f8a96-71ec-4ead-a2b2-e434300badec", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 3, - "category_name": "Text", + "id": 628, + "strid": "7812c988-c1d0-40b3-8ffc-aa85030c9b0c", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 47.893, - 1274.406, - 1541.866, - 182.19000000000005 + 1465.452, + 784.397, + 1194.144, + 800.9500000000002 ], "priority": 5, "parents": [ - 86538 + 623 ], "children": [], - "area": 61035.126557999996, + "area": 1149496.1524440001, "iscrowd": 0, - "segmentation": [], - "text": "Existing mathematical models\nThe existing mathematical models do not considerate various compartments of proteins that we\n\nfound essential foractivation of damage response and simulation analysis/of cells behavior. More-\nover, the stochastic approach and simulations for population of cells(is not used." + "segmentation": [] }, { - "id": 86541, - "strid": "6a3db37c-50f1-42b1-b813-f1e2d0a44242", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 2, - "category_name": "Figure", + "id": 629, + "strid": "0dab12ea-5272-4fec-b426-379d1f37f46d", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 91.531, - 1504.395, - 1451.133, - 1254.0790000000002 + 2892.023, + 795.237, + 371.5160000000001, + 707.2489999999999 ], "priority": 6, "parents": [ - 86538 + 623 ], - "children": [ - 86542 - ], - "area": 137698.77874500002, + "children": [], + "area": 2299843.694451, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Format support\n\nStructure:\nmmCIF,\nPDB/PQR,\nGRO, SDF,\nMOL2, MMTF\n\nTrajectory: PSF & DCD, TOP\n& TRR/XTC, PRMTOP &\nNCTRAJ\n\nVolume: MRC/MAP/CCP4,\nDSN6/BRIX, CUBE,\nDX/DXBIN, XPLOR/CNS\nSurface: OBJ, PLY\n\nGeneral: CSV, JSON,\nMSGPACK, TXT, XML" }, { - "id": 86542, - "strid": "1369a052-93c1-4ec8-b9e3-e31beddcfe93", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 6, - "category_name": "Caption", + "id": 630, + "strid": "2fe0c6d5-d8ca-4be9-aac8-c47bdca24316", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 741.727, - 2769.881, - 141.236, - 36.48199999999997 + 341.492, + 1774.131, + 805.4760000000001, + 214.423 ], "priority": 7, "parents": [ - 86541 + 623 ], "children": [], - "area": 2054495.5244869997, + "area": 605851.543452, "iscrowd": 0, "segmentation": [], - "text": "Figure 1." + "text": "Working with molecules\n\nThe Structure class provides iterators for the\nmolecular hierarchy and data access via proxies" }, { - "id": 86543, - "strid": "2b1b3c66-2089-4021-9290-ab1b92b5157d", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 5, - "category_name": "Section", + "id": 631, + "strid": "f418696a-5fa8-45aa-b20b-fa5cf1ab7be4", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 45.105, - 2828.842, - 361.921, - 61.55099999999993 + 293.142, + 2050.987, + 940.2559999999999, + 390.39699999999993 ], "priority": 8, "parents": [ - 86564 + 623 ], - "children": [ - 86546, - 86551, - 86563, - 86544 - ], - "area": 127594.91841, + "children": [], + "area": 601230.431154, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 86544, - "strid": "d92a4aec-7998-4649-be52-3779d92e2d59", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 4, - "category_name": "List", + "id": 632, + "strid": "3cd4a891-948a-402c-baa0-f2e32e030eaf", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 45.105, - 2902.703, - 1514.342, - 224.9029999999998 + 1406.048, + 1774.392, + 898.78, + 264.72399999999993 ], "priority": 9, "parents": [ - 86543 + 623 ], "children": [], - "area": 130926.41881499998, + "area": 2494880.322816, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The molecular world is but a stage\n\nThere is one object to rule them all, the Stage. To\ndraw on the canvas follow the central dogma of NGL\n“Stage -> Component -> Representation’." }, { - "id": 86546, - "strid": "07bc35aa-9fc0-4b66-ad20-fcbdd0fefcf8", - "image_id": 203868, - "image_name": "121067.png", + "id": 633, + "strid": "41a9df6f-312b-4df0-b0f9-7a0a68a73a29", + "image_id": 27, + "image_name": "11403.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 21.191, - 3176.783, - 1577.481, - 897.7530000000002 + 1344.644, + 2180.014, + 1035.579, + 261.067 ], "priority": 10, "parents": [ - 86543 - ], - "children": [ - 86545 + 623 ], - "area": 67319.20855299999, + "children": [], + "area": 2931342.7450160002, "iscrowd": 0, "segmentation": [] }, { - "id": 86545, - "strid": "4656033e-da5f-4027-ab40-f794b3257815", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 6, - "category_name": "Caption", + "id": 634, + "strid": "0310cf8f-93f4-4312-929b-224e55795135", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 75.191, - 4089.459, - 1431.567, - 35.75699999999961 + 2498.7, + 1775.863, + 789.9520000000002, + 311.54200000000014 ], "priority": 11, "parents": [ - 86546 + 623 ], "children": [], - "area": 307490.51166899997, + "area": 4437348.878099999, "iscrowd": 0, "segmentation": [], - "text": "Figure 2 Results of stochastic simulations for 200 cells (median, first and third quartile presented)." + "text": "Animation & user interaction\n\nAnimation controls to orient the whole scene\nor individual components. Mouse controls to\nbind actions to mouse and keyboard, including\nclicking or hovering atoms or other elements" }, { - "id": 86563, - "strid": "45d1b594-c910-442e-b126-e15ad6265292", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 4, - "category_name": "List", + "id": 635, + "strid": "2339adf0-31ba-4fc7-9243-b8523f00e652", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1700.189, - 585.098, - 1502.8210000000001, - 224.22800000000007 + 2481.795, + 2204.691, + 825.915, + 239.1260000000002 ], "priority": 12, "parents": [ - 86543 + 623 ], "children": [], - "area": 994777.183522, + "area": 5471591.100345, "iscrowd": 0, "segmentation": [] }, { - "id": 86551, - "strid": "f99a7330-d05f-479c-8ec8-44cc3a4528d6", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 2, - "category_name": "Figure", + "id": 636, + "strid": "8c3c0711-ed59-406a-9776-47be7f700e76", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1709.593, - 3175.638, - 1557.5330000000001, - 897.692 + 302.972, + 2656.255, + 907.815, + 280.8609999999999 ], "priority": 13, "parents": [ - 86543 - ], - "children": [ - 86550 - ], - "area": 5429048.495334, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 86550, - "strid": "8ec9df7a-7001-4a43-a810-63710cc8b2f1", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1710.138, - 4084.438, - 1526.46, - 78.27999999999975 - ], - "priority": 14, - "parents": [ - 86551 + 623 ], "children": [], - "area": 6984952.632444, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 3. Results of stochastic simulations for 200 cells irradiated by 20 J/m2 A. properly functioning path-\nway, B. blocked production of Wip1, C. ATR number reduced to 50%, D. comparison." - }, - { - "id": 86561, - "strid": "11c22762-c0b8-4d1b-ba5e-df5ac6ed5f63", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1682.136, - 837.2, - 954.8449999999998, - 70.793 - ], - "priority": 15, - "parents": [ - 86564 - ], - "children": [ - 86562 - ], - "area": 1408284.2592, + "area": 804770.88986, "iscrowd": 0, "segmentation": [], - "text": "THE MODEL ASSUMPTIONS" + "text": "Volume Data\n\nVolumetric data can be rendered as isosurfaces, point\nclouds or volume slices. Moreover, volume data can\nbe used for coloring structures and other volumes." }, { - "id": 86562, - "strid": "904d7ea2-0360-4630-b439-564b01bbd593", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 4, - "category_name": "List", + "id": 637, + "strid": "fd69f3be-b22b-40a9-b8a4-36a89f884b16", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1701.129, - 921.806, - 1533.277, - 549.079 + 299.847, + 3049.423, + 915.9300000000001, + 738.2510000000002 ], - "priority": 16, + "priority": 14, "parents": [ - 86561 + 623 ], "children": [], - "area": 1568110.918974, + "area": 914360.3382809999, "iscrowd": 0, "segmentation": [] }, { - "id": 86556, - "strid": "37a50733-b6de-4eb1-acf5-7a9ae70a7835", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1686.118, - 1504.463, - 287.24700000000007, - 60.673 - ], - "priority": 17, - "parents": [ - 86564 - ], - "children": [ - 86559, - 86558, - 86557, - 86560 - ], - "area": 2536702.144634, - "iscrowd": 0, - "segmentation": [], - "text": "" - }, - { - "id": 86557, - "strid": "115ee29c-363b-42da-a956-16081eafee91", - "image_id": 203868, - "image_name": "121067.png", + "id": 638, + "strid": "2fa3d6f7-36bf-4bdb-91cc-804c94de8d87", + "image_id": 27, + "image_name": "11403.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1687.249, - 1572.138, - 1569.3839999999998, - 225.38300000000004 + 1481.681, + 2657.161, + 809.9670000000001, + 269.98900000000003 ], - "priority": 18, + "priority": 15, "parents": [ - 86556 + 623 ], "children": [], - "area": 2652588.268362, + "area": 3937064.967641, "iscrowd": 0, "segmentation": [], - "text": "DNA damage detection\n\nIn [11], it Was demonstrated that 4000 SSBs occur in response to°UV.dose of 20 J/m? per minute. This\nresults’in 3.3 SSBs in response to 1 J/m? per second, and 1 SSBs.in response to about 33 mJ/m2. The\nsystem response for 33 mJ/m?2 was strong (fig. 2A,B). This result agrees with the fact that the cell\nreacts on each damage, trying to repair it as soon as.possible." + "text": "Molecular Data & Coloring\n\nMolecular data can be displayed as balls, sticks,\ncartoons, surfaces and labels or with specialized\nrepresentations such as hyperballs and ropes." }, { - "id": 86558, - "strid": "a20ff617-8283-4c3d-9db4-d2b985ce6acb", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 3, - "category_name": "Text", + "id": 639, + "strid": "94f1ed8e-8ad1-4b8f-b8e1-30689537d036", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1680.335, - 1815.496, - 1572.15, - 226.76600000000008 + 1454.974, + 3047.251, + 997.644, + 756.9380000000001 ], - "priority": 19, + "priority": 16, "parents": [ - 86556 + 623 ], "children": [], - "area": 3050641.47116, + "area": 4433670.976474, "iscrowd": 0, - "segmentation": [], - "text": "Apoptotic threshold\n\nThe results indicated that the most appropriate UV dose as an apoptotic threshold is between 22\nand 24 J/m?. The threshold apoptotic value\\is‘equal to 2.0x104 (number of p53 molecules), and the\ncell is treated as apoptotic when the levehof p53 is stabilizing for more than 6 hours (like in fig. 26,\nwhere cells were treated with dose 100°J/mz2)." + "segmentation": [] }, { - "id": 86559, - "strid": "49e36bdf-ae08-45c1-ae17-22fe1ff24b75", - "image_id": 203868, - "image_name": "121067.png", + "id": 640, + "strid": "52e06a19-a564-4830-b1a7-bd70ac8357b4", + "image_id": 27, + "image_name": "11403.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1684.985, - 2058.418, - 1574.2520000000002, - 181.37199999999984 + 2671.208, + 2655.686, + 567.4090000000001, + 363.4859999999999 ], - "priority": 20, + "priority": 17, "parents": [ - 86556 + 623 ], "children": [], - "area": 3468403.45373, + "area": 7093889.688688001, "iscrowd": 0, "segmentation": [], - "text": "Cell behavior after exposure to various‘doses of UV\n\nWe performed stochastic simulations for 200 cells with various doses of UV and countedthe,number\n\nof apoptotic cells 24 hours after ‘irradiation. We compared the results with the biological results\nknown from the literature, (fig) 2D)[12]." + "text": "Custom Shapes\n\nA variety of shapes, including\nsphere, cylinder, ellipsoid, cone,\narrow, label, and mesh, are\navailable for custom rendering of\nuser data" }, { - "id": 86560, - "strid": "4099a490-85ca-41a5-b8ee-48f5e5ef8555", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 3, - "category_name": "Text", + "id": 641, + "strid": "b5e014c0-1107-4a25-93ef-6b7c6157e6d0", + "image_id": 27, + "image_name": "11403.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1686.401, - 2253.959, - 1572.8349999999998, - 270.6410000000001 + 2681.259, + 3046.574, + 596.6500000000001, + 761.7539999999999 ], - "priority": 21, + "priority": 18, "parents": [ - 86556 + 623 ], "children": [], - "area": 3801078.711559, + "area": 8168653.956666, "iscrowd": 0, - "segmentation": [], - "text": "Blockade of the pathway,.components\n\nStochastic simulations for 200 cells were performed. Cells were treated withUV dose of 20 J/m? in\norder to study-thein behavior and response of the DDR molecules, when-the components of the\npathway are blocked or silenced. We studied the blockade of two_main components of the\nATR-p53-Wip1 pathway, responsible for the activation of the DDR.and p53: Wip1 phosphatase and\nATR kinase?" + "segmentation": [] }, { - "id": 86554, - "strid": "c1db81db-2795-43db-9ecf-35f211e0b445", - "image_id": 203868, - "image_name": "121067.png", + "id": 642, + "strid": "68370634-7653-4ef1-928e-868b4c2ad3be", + "image_id": 27, + "image_name": "11403.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1685.306, - 2567.092, - 504.08899999999994, - 60.68899999999985 + 615.987, + 4027.477, + 776.8350000000002, + 61.90299999999979 ], - "priority": 22, + "priority": 19, "parents": [ - 86564 + 623 ], "children": [ - 86555 + 643, + 644 ], - "area": 4326335.550152, + "area": 2480873.4747989997, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Funding and acknowledgements" }, { - "id": 86555, - "strid": "80c7bda5-fd0a-4fe2-860a-f1706b5c4f33", - "image_id": 203868, - "image_name": "121067.png", + "id": 643, + "strid": "1c8f8722-45c8-4af4-a25f-b653deac28b7", + "image_id": 27, + "image_name": "11403.png", "category_id": 4, "category_name": "List", "bbox": [ - 1703.884, - 2637.689, - 1556.129, - 366.6100000000001 + 322.168, + 4139.948, + 534.456, + 179.60499999999956 ], - "priority": 23, + "priority": 20, "parents": [ - 86554 + 642 ], "children": [], - "area": 4494316.084075999, + "area": 1333758.7672640001, "iscrowd": 0, "segmentation": [] }, { - "id": 86552, - "strid": "9ecf69c3-68eb-47a7-976a-37bffac5289a", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1694.537, - 3035.747, - 530.0199999999998, - 40.335000000000036 - ], - "priority": 24, - "parents": [ - 86564 - ], - "children": [ - 86553 - ], - "area": 5144185.614139, - "iscrowd": 0, - "segmentation": [], - "text": "" - }, - { - "id": 86553, - "strid": "1e78cf97-60d0-4340-8ae6-480f9f73c0b6", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 3, - "category_name": "Text", + "id": 644, + "strid": "f43ff634-3b6b-4b99-b2d1-015432bed0d5", + "image_id": 27, + "image_name": "11403.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1693.122, - 3087.712, - 1533.9129999999998, - 70.45600000000013 + 1033.499, + 4138.68, + 656.508, + 190.9979999999996 ], - "priority": 25, + "priority": 21, "parents": [ - 86552 + 642 ], "children": [], - "area": 5227873.116864, + "area": 4277321.64132, "iscrowd": 0, - "segmentation": [], - "text": "This project is funded by the Polish\\National Center for Science granted by decision number DEC-2012/05/D/ST7/02072.\nParticipation in conference and.poster were financed by BKM /524/RAU1/2014 : 11." + "segmentation": [] }, { - "id": 86547, - "strid": "dfe573f7-46e9-4139-8ecd-14ee6f385c6a", - "image_id": 203868, - "image_name": "121067.png", + "id": 645, + "strid": "07bd0322-fdce-45fd-a09f-4d55e5d18b90", + "image_id": 27, + "image_name": "11403.png", "category_id": 5, "category_name": "Section", "bbox": [ - 45.71, - 4186.19, - 288.062, - 44.475000000000364 + 2352.157, + 4026.019, + 483.259, + 63.78699999999981 ], - "priority": 26, + "priority": 22, "parents": [ - 86564 + 623 ], "children": [ - 86548, - 86549 + 646 ], - "area": 191350.7449, + "area": 9469828.772983, "iscrowd": 0, "segmentation": [], - "text": "" - }, - { - "id": 86548, - "strid": "22dc2b58-daa4-46f5-a7b3-749cacfddf26", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 43.172, - 4242.847, - 1611.673, - 412.7529999999997 - ], - "priority": 27, - "parents": [ - 86547 - ], - "children": [], - "area": 183172.19068399997, - "iscrowd": 0, - "segmentation": [] + "text": "Software availability" }, { - "id": 86549, - "strid": "404ede29-923b-46d9-b0cf-aa341b425a51", - "image_id": 203868, - "image_name": "121067.png", - "category_id": 4, - "category_name": "List", + "id": 646, + "strid": "efd2327a-5dc4-4089-87ab-97c15c07a880", + "image_id": 27, + "image_name": "11403.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1707.223, - 4239.24, - 1575.185, - 379.183 + 1947.358, + 4153.176, + 894.4550000000002, + 170.47199999999975 ], - "priority": 28, + "priority": 23, "parents": [ - 86547 + 645 ], "children": [], - "area": 7237328.03052, + "area": 8087720.509008001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "NGL Viewer & Library (https://github.com/arose/ngl)\nAS Rose & PW Hildebrand.\n\nNGL Viewer: a web application for molecular visualization.\nNucl. Acids Res. (1 July 2015) 43 (W1). doi:10.1093/nar/gkv402" }, { - "id": 194328, - "strid": "cb484152-7575-4e04-9a83-ca1a337e71ac", - "image_id": 208102, - "image_name": "9377.png", + "id": 647, + "strid": "eecb1e82-01dc-4138-b786-2d35642bad58", + "image_id": 28, + "image_name": "11411.png", "category_id": 9, "category_name": "Root", "bbox": [ - 889.04, - 200.65, - 320.20000000000005, - 195.11999999999998 + 167, + 153.33, + 270.43, + 208.02 ], "priority": -1, "parents": [], "children": [ - 194314, - 194319, - 194316, - 194318, - 194317, - 194315, - 194320, - 194313 + 660, + 658, + 654, + 648, + 662, + 652, + 649, + 650, + 656 ], - "area": 178385.876, + "area": 25606.11, "iscrowd": 0, "segmentation": [] }, { - "id": 194313, - "strid": "70673ebd-77c5-477c-8f88-fd3bf2abbcfb", - "image_id": 208102, - "image_name": "9377.png", + "id": 648, + "strid": "1d196ca6-30b3-4b4c-a704-822095c703b9", + "image_id": 28, + "image_name": "11411.png", "category_id": 1, "category_name": "Title", "bbox": [ - 1488.176, - 212.423, - 1798.1309999999999, - 183.747 + 266.808, + 464.709, + 3111.453, + 309.516 ], "priority": 1, "parents": [ - 194328 + 647 ], "children": [], - "area": 316122.810448, + "area": 123988.078872, "iscrowd": 0, "segmentation": [], - "text": "DO-NOT-RESUSCITATE (DNR) ORDERS\nREVISITING THE DEFAULT RULE" + "text": "Microsatellite instability profiling\n\nof TCGA colorectal adenocarcinomas using Common Workflow Language pipeline" }, { - "id": 194314, - "strid": "483d4af5-6163-4c90-ab18-c0108f389e57", - "image_id": 208102, - "image_name": "9377.png", + "id": 649, + "strid": "8abefe4e-2642-47ee-8333-ddb829b9728a", + "image_id": 28, + "image_name": "11411.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 647.962, - 491.213, - 2960.987, - 65.445 + 1461.433, + 1010.435, + 714.0590000000002, + 70.5909999999999 ], "priority": 2, "parents": [ - 194328 + 647 ], "children": [], - "area": 318287.357906, + "area": 1476683.053355, "iscrowd": 0, "segmentation": [], - "text": "Andrea Boggio, Associate Professor of Legal Studies, Bryant University (USA)" + "text": "Nikola Tesi¢, Marko Kalini¢" }, { - "id": 194315, - "strid": "48e37ce5-f921-45ec-af4c-e152731bcfe3", - "image_id": 208102, - "image_name": "9377.png", + "id": 650, + "strid": "14dc8ed7-ac40-48b0-bf07-0cbe65d980ed", + "image_id": 28, + "image_name": "11411.png", "category_id": 5, "category_name": "Section", "bbox": [ - 515.791, - 691.011, - 684.764, - 67.231 + 775.004, + 1381.049, + 256.2679999999999, + 55.409000000000106 ], "priority": 3, "parents": [ - 194328 + 647 ], "children": [ - 194321 + 651 ], - "area": 356417.254701, + "area": 1070318.499196, "iscrowd": 0, "segmentation": [], - "text": "Fundamental ideas" + "text": "ABSTRACT" }, { - "id": 194321, - "strid": "510f4af3-fc22-41e1-95fa-5497b3624a65", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 651, + "strid": "4d22ae77-5c68-400d-87db-81f2aaa8fcc0", + "image_id": 28, + "image_name": "11411.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 170.618, - 829.48, - 1287.105, - 735.1700000000001 + 183.972, + 1496.485, + 1426.789, + 600.267 ], "priority": 4, "parents": [ - 194315 + 650 ], "children": [], - "area": 141524.21864, + "area": 275311.33842, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Microsatellite instability (MSI) is an important factor for classifying certain cancer types, it\nhas been shown to be associated with prognosis, and it can be used as a biomarker for\ntreatment selection. Here, we present a portable and reproducible Common Workflow\nLanguage (CWL) implementation of MS/sensor tool and JobSTR toolkit, we will show how\nto use MS/sensor and /JobSTR, and we will see how JobSTR deals with PCR noise and how\nit can silence it. Finally, we present results obtained using the aforementioned tools on\nmore than 600 TCGA colorectal adenocarcinoma cases, as well as our further analysis\nand interpretation of the results. Out of 592 cases that had MSI classification on GDC\nportal, MSIsensor predicted the MSI status correctly for 580 of them with F-score 0.93\nusing tumor and normal samples, while results obtained using lobSTR enabled us to\ncorrectly predict the MSI status in 584 cases with F-score 0.96 using tumor and normal\nsamples, and 581 cases with F-score 0.94 using tumor only." }, { - "id": 194318, - "strid": "e2a6fb99-0355-4817-be33-9e7dc326fd4f", - "image_id": 208102, - "image_name": "9377.png", + "id": 652, + "strid": "fab65f5d-eb35-4547-8844-6b13ddcff39d", + "image_id": 28, + "image_name": "11411.png", "category_id": 5, "category_name": "Section", "bbox": [ - 702.061, - 1829.097, - 307.87800000000004, - 83.13100000000009 + 2488.074, + 1376.432, + 353.2339999999999, + 57.718000000000075 ], "priority": 5, "parents": [ - 194328 + 647 ], "children": [ - 194322, - 194327 + 653 ], - "area": 1284137.668917, + "area": 3424664.671968, "iscrowd": 0, "segmentation": [], - "text": "Proposal" + "text": "BACKGROUND" }, { - "id": 194322, - "strid": "f750d213-4675-4027-81a0-99f7a7a2b0f9", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 653, + "strid": "229e84ae-96ab-4d01-b656-efab81bf9e2f", + "image_id": 28, + "image_name": "11411.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 273.386, - 2005.754, - 1185.847, - 275.32299999999987 + 1941.677, + 1479.811, + 1419.863, + 662.6029999999998 ], "priority": 6, "parents": [ - 194318 + 652 ], "children": [], - "area": 548345.0630440001, + "area": 2873314.9830469997, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Microsatellite instability (MSI) refers to widespread somatic changes in the number of\nrepeats at microsatellite loci in the genome. MSI typically reflects defects in the DNA\nmismatch repair machinery, which are a hallmark of certain types of cancer. This workflow\nenables profiling MSI using WXS or WGS data. It uses BWA-MEM for read alignment,\nlobSTR for calling microsatellite variants, and MSlsensor for quantifying microsatellite\ninstability (see Fig. 1).\n\nBecause of lobSTR, there is also a preparatory workflow for training of PCR stutter and\nstep models that are later used in the main pipeline by lobSTR to silence the PCR noise.\nThis is done only once for data that comes from the same sequencing platform and the\nsame data submitting center, and it is done on the largest normal male sample. After that,\nthe main workflow can be used with both tumor only data and tumor-normal pairs. In the\ncase of tumor only, MSlsensor will be skipped." }, { - "id": 194327, - "strid": "7a335604-3e54-4ea1-8101-8cfa633c113f", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 2, - "category_name": "Figure", + "id": 654, + "strid": "94ee7f53-5d6b-4a5b-88c2-62281e53a199", + "image_id": 28, + "image_name": "11411.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 615.239, - 2501.417, - 598.8510000000001, - 580.3470000000002 + 622.885, + 2673.932, + 593.3410000000001, + 60.027000000000044 ], "priority": 7, "parents": [ - 194318 + 647 ], - "children": [], - "area": 1538969.293663, + "children": [ + 655 + ], + "area": 1665552.1338199999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Validation of the workflow" }, { - "id": 194316, - "strid": "868ada73-5109-43fe-b998-b393c6034a9a", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 5, - "category_name": "Section", + "id": 655, + "strid": "c8e8310b-6573-4929-9321-76fc13d2e180", + "image_id": 28, + "image_name": "11411.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2035.078, - 692.048, - 759.444, - 85.05799999999999 + 165.758, + 2773.207, + 1500.668, + 706.4679999999998 ], "priority": 8, "parents": [ - 194328 + 654 ], - "children": [ - 194326 - ], - "area": 1408371.659744, + "children": [], + "area": 459681.245906, "iscrowd": 0, "segmentation": [], - "text": "Policy considerations" + "text": "The workflow was validated by profiling 592 colorectal adenocarcinomas for which\ninformation about MSI status is present on the GDC portal. There were three approaches that\nwere made possible by this workflow - using MSlsensor results from tumor-normal samples,\nusing lobSTR results from tumor-normal samples and using lobSTR results from tumor only\nsamples.\n\nFor MSlsensor, MSI score (percent of somatic changes of microsatellite length) was\nconsidered, and everything above the limit of 3.5 (proposed in MS/sensor: microsatellite\ninstability detection using paired tumor-normal sequence data, Niu et al.) was considered as\nMSI, while everything below was considered as MSS (see Fig. 2 for results). For lobSTR output\nVCFs, total number of differences from reference genome and total increase and decrease of\nlength (due to different number of microsatellite core repetitions) in relation to reference\ngenome were calculated. Based on that, using leave-one-out, SVM predictions were made for\nremaining samples (see Figures 3 and 4 for results)." }, { - "id": 194326, - "strid": "5b6081cc-fe01-40ae-bd5d-898e281274e9", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 656, + "strid": "dc405797-cc73-4fc0-95c3-2b830177c4d8", + "image_id": 28, + "image_name": "11411.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1743.203, - 861.378, - 1238.969, - 572.16 + 1931.929, + 2648.537, + 1486.8159999999998, + 600.2670000000003 ], "priority": 9, "parents": [ - 194316 + 647 ], - "children": [], - "area": 1501556.713734, + "children": [ + 657 + ], + "area": 5116785.437873, "iscrowd": 0, "segmentation": [] }, { - "id": 194319, - "strid": "deceb1f8-5dfa-4e79-a80a-3a421df85070", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 5, - "category_name": "Section", + "id": 657, + "strid": "ad67793d-27fc-4f06-9726-e2a42f7f758e", + "image_id": 28, + "image_name": "11411.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1975.259, - 1829.628, - 882.181, - 84.43599999999992 + 1874.211, + 3278.817, + 1553.769, + 117.74499999999989 ], "priority": 10, "parents": [ - 194328 - ], - "children": [ - 194323 + 656 ], - "area": 3613989.173652, + "children": [], + "area": 6145194.888387, "iscrowd": 0, "segmentation": [], - "text": "Empirical considerations" + "text": "Figure 1. Microsatellite instability profiling workflow. Workflow can batch files case_id and then split tumor\nand normal (if present) samples. After that comes BWA alignment, and, finally, MSI profiling by MSIsensor and\nlobSTR. Besides the analysis of MSI, the workflow does FastQC analysis as well." }, { - "id": 194323, - "strid": "31d78e80-d1c8-4c1e-8f5c-d9e6252f437b", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 658, + "strid": "2bd61bff-9b42-4c5b-afb4-7bd8d85ee164", + "image_id": 28, + "image_name": "11411.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1762.681, - 1967.358, - 1271.8560000000002, - 1314.51 + 270.722, + 3570.899, + 743.403, + 617.8929999999996 ], "priority": 11, "parents": [ - 194319 + 647 ], - "children": [], - "area": 3467824.566798, + "children": [ + 659 + ], + "area": 966720.9190779999, "iscrowd": 0, "segmentation": [] }, { - "id": 194317, - "strid": "a9a827e0-92f9-4566-bf28-311ee7071c9a", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 5, - "category_name": "Section", + "id": 659, + "strid": "945ded03-83b5-4496-b06c-a2fcf2ab175b", + "image_id": 28, + "image_name": "11411.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 3561.903, - 695.418, - 813.2069999999999, - 65.495 + 162.108, + 4196.033, + 955.8030000000001, + 86.89099999999962 ], "priority": 12, "parents": [ - 194328 - ], - "children": [ - 194325 + 658 ], - "area": 2477011.4604539997, + "children": [], + "area": 680210.5175640001, "iscrowd": 0, "segmentation": [], - "text": "Clinical considerations" + "text": "Figure 2. MSlsensor results. All 592 cases sorted from smallest to\nlargest MSI score, featuring their actual MSI status as well." }, { - "id": 194325, - "strid": "93f2e630-371a-4d03-9986-779bd4e37804", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 660, + "strid": "c7cebdd5-fee0-4479-aea7-a4b194fbd9ca", + "image_id": 28, + "image_name": "11411.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3275.693, - 875.816, - 1312.268, - 735.4770000000001 + 1422.031, + 3578.14, + 774.7799999999997, + 610.6519999999996 ], "priority": 13, "parents": [ - 194317 + 647 ], - "children": [], - "area": 2868904.3404880003, + "children": [ + 661 + ], + "area": 5088226.002339999, "iscrowd": 0, "segmentation": [] }, { - "id": 194320, - "strid": "ae14f189-dd15-4f91-8086-25d7408f23fc", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 5, - "category_name": "Section", + "id": 661, + "strid": "72db79f1-7ff0-4dd0-b905-59d48b2d171d", + "image_id": 28, + "image_name": "11411.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 3772.776, - 1828.771, - 435.22599999999966, - 83.68200000000002 + 1308.589, + 4198.447, + 912.3580000000002, + 161.71399999999994 ], "priority": 14, "parents": [ - 194328 - ], - "children": [ - 194324 + 660 ], - "area": 6899543.338296, + "children": [], + "area": 5494041.561283, "iscrowd": 0, "segmentation": [], - "text": "Implications" + "text": "Figure 3. lobSTR results using both tumor and normal.\nTumor/normal ratios of total increase and decrease of length in\nrelation to reference genome are plotted on x and y axis, while\ntotal number of differences is presented with circle size." }, { - "id": 194324, - "strid": "3c15a4ce-5e07-470f-8e0e-9e39560cfdcc", - "image_id": 208102, - "image_name": "9377.png", - "category_id": 4, - "category_name": "List", + "id": 662, + "strid": "f6fab0dd-c6e2-40c7-97d3-c3d1d307dbb4", + "image_id": 28, + "image_name": "11411.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3298.901, - 1967.985, - 1311.594, - 1253.0200000000002 + 2563.684, + 3582.967, + 760.2979999999998, + 598.5840000000003 ], "priority": 15, "parents": [ - 194320 + 647 ], - "children": [], - "area": 6492187.684485, + "children": [ + 663 + ], + "area": 9185595.170428, "iscrowd": 0, "segmentation": [] }, { - "id": 143270, - "strid": "ffb2078b-793f-4145-9c66-fab8738520f6", - "image_id": 206068, - "image_name": "17313.png", + "id": 663, + "strid": "c5337b92-b3d5-489a-82c3-c3ce9d0762d3", + "image_id": 28, + "image_name": "11411.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2455.07, + 4198.447, + 972.6990000000001, + 137.57800000000043 + ], + "priority": 16, + "parents": [ + 662 + ], + "children": [], + "area": 10307481.276290001, + "iscrowd": 0, + "segmentation": [], + "text": "Figure 4. lobSTR results using only tumor. Total increase and\ndecrease in length are plotted on x and y axis, and size of the circle\nrepresents total number of differences from the reference genome." + }, + { + "id": 664, + "strid": "c0a2c12b-3715-4055-b49d-d2e2935a8810", + "image_id": 29, + "image_name": "11463.png", "category_id": 9, "category_name": "Root", "bbox": [ - 227.19, - 41.74, - 162.0, - 152.47 + 31.7, + 218.07, + 113.67999999999999, + 109.75999999999999 ], "priority": -1, "parents": [], "children": [ - 143257, - 143254, - 143259, - 143258, - 143255, - 143256, - 143269, - 143268, - 143253 + 670, + 671, + 668, + 674, + 676, + 669, + 673, + 684, + 682, + 675, + 666, + 665, + 683, + 678, + 667, + 681, + 680 ], - "area": 9482.910600000001, + "area": 6912.8189999999995, "iscrowd": 0, "segmentation": [] }, { - "id": 143253, - "strid": "7740cb15-ec8d-426b-8625-70acd2fca56e", - "image_id": 206068, - "image_name": "17313.png", + "id": 665, + "strid": "15d9e1d3-66bd-47c1-bab2-474a57a4f835", + "image_id": 29, + "image_name": "11463.png", "category_id": 1, "category_name": "Title", "bbox": [ - 1079.859, - 89.081, - 2639.46, - 80.117 + 79.236, + 38.38, + 1633.716, + 163.495 ], "priority": 1, "parents": [ - 143270 + 664 ], "children": [], - "area": 96194.919579, + "area": 3041.0776800000003, "iscrowd": 0, "segmentation": [], - "text": "Assessment for Instruction: Noyce Scholar Use of Student Performance Data" + "text": "Characterizing the structure of plant interaction\nnetworks ©" }, { - "id": 143254, - "strid": "383a1117-b867-47f8-8570-c3a5ea0a477e", - "image_id": 206068, - "image_name": "17313.png", + "id": 666, + "strid": "11ebd2b0-de44-4e99-bfa3-0670357119a3", + "image_id": 29, + "image_name": "11463.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 2097.382, - 182.589, - 617.3049999999998, - 149.56800000000004 + 177.086, + 215.501, + 1445.448, + 106.52000000000001 ], "priority": 2, "parents": [ - 143270 + 664 ], "children": [], - "area": 382958.881998, + "area": 38162.21008600001, "iscrowd": 0, "segmentation": [], - "text": "Regina Toolin, Ph.D.\nUniversity of Vermont" + "text": "~~ Nicole L. PRIS itch» y\nrtment of Ecology’& goa Na ge) / EN Se?" }, { - "id": 143255, - "strid": "e5daccea-60a9-40e0-b535-706e386f8dc0", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 5, - "category_name": "Section", + "id": 667, + "strid": "38512bab-aec1-4339-96e4-f0379751675d", + "image_id": 29, + "image_name": "11463.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 723.66, - 544.252, - 552.995, - 45.075000000000045 + 48.639, + 367.073, + 811.282, + 285.409 ], "priority": 3, "parents": [ - 143270 - ], - "children": [ - 143262 + 664 ], - "area": 393853.40231999994, + "children": [], + "area": 17854.063647, "iscrowd": 0, "segmentation": [], - "text": "Introduction and Methods" + "text": "Plant ecology has a rich history of plant interaction experiments to\nmeasure how plants interact in plant communities based on\nperformance in pairwise species combinations. We propose\nrepresenting these plant communities as networks of competitive\nand facilitative interactions. This is a powerful approach that allows\none to characterize community structure quantitatively using\nnetwork metrics including asymmetry, transitivity, and connectance.\nWe also have developed a novel methodology for synthesizing the\nstructure of multiple networks using meta-analysis." }, { - "id": 143262, - "strid": "655e0e28-34a0-423e-a6ab-48ab0e41b6b3", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 3, - "category_name": "Text", + "id": 668, + "strid": "ab7c2c44-1fc0-4053-9761-9af2d0910a02", + "image_id": 29, + "image_name": "11463.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 209.983, - 622.509, - 1574.569, - 856.9760000000001 + 49.591, + 661.641, + 813.313, + 190.837 ], "priority": 4, "parents": [ - 143255 + 664 ], "children": [], - "area": 130716.30734700001, + "area": 32811.438831, "iscrowd": 0, - "segmentation": [], - "text": "Since 2015, UVM’s Noyce program has awarded 25 Noyce Scholarships to MAT students who are\ncommitted to teaching math and science in high need schools. The program functions as a cohort\nmodel whereby students take required classes together beginning in mid-July and continuing\nthrough May of the following year including a year-long school-based internship. Students apply to\nboth the MAT and Noyce programs and are awarded a scholarship based on academic merit, need,\nand professional experience. As a requirement for the VT Licensure Portfolio, MAT students engage\nin an Analysis of Learning Project during the 4-week solo period requiring them to reflect upon\nhow their teaching influences student learning and growth over time. This study focuses on the\nexperiences of a Noyce scholar enrolled in the MAT program at the University of Vermont. Case\nstudy research methodology (Stake, 2006) was utilized to address the question: How effective are\nNoyce scholars in utilizing student performance data to adapt and modify instruction?\n\nAn interpretivist case study approach (Stake, 2006) was utilized to seek meaning and understanding\nof scholar experiences in context. Multiple sources of data such as interviews, observations, and\nartifacts were collected for the construction of vignettes that illustrate facets of the case and\nrepresent new findings and understandings for each of the participants. For this study, we selected\none case for analysis because it was among the most detailed and representative of the best\npractices embedded in the MAT program of study." + "segmentation": [] }, { - "id": 143258, - "strid": "b0f0833f-cb3d-43dc-acfc-0c7e3976add0", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 5, - "category_name": "Section", + "id": 669, + "strid": "c4dd247f-4072-4885-935e-b8977e30a5f2", + "image_id": 29, + "image_name": "11463.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 821.12, - 1741.768, - 412.486, - 51.06400000000008 + 47.863, + 866.873, + 813.443, + 190.462 ], "priority": 5, "parents": [ - 143270 - ], - "children": [ - 143265 + 664 ], - "area": 1430200.54016, + "children": [], + "area": 41491.142399000004, "iscrowd": 0, "segmentation": [], - "text": "Case Study Analysis" + "text": "Plant interaction experiments involve planting inter- or intraspecific combinations of species and\nMeasuring interaction strength using an index, e.g., Relative Interaction Intensity (RII) (2). The Rls for all\npairwise interactions in a community can be represented as a network (Fig. 1). As an example, we\nconducted a garden experiment to quantify interactions among woody plants in an old field community.\nThe results of this field experiment were included as one of the networks in the meta-analysis (Fig. 2).\n\nWe conducted a systematic review and identified 2,032 studies on Web of Science of which 31 met\nour selection criteria for inclusion in the meta-analysis. From each study, we built networks based on" }, { - "id": 143265, - "strid": "e48d1c93-384f-488e-996c-d0a1b6df1305", - "image_id": 206068, - "image_name": "17313.png", + "id": 670, + "strid": "3f47897e-ff53-48dc-9399-4c4ed2881e74", + "image_id": 29, + "image_name": "11463.png", "category_id": 3, "category_name": "Text", "bbox": [ - 208.865, - 1841.177, - 1630.458, - 1259.5359999999998 + 47.99, + 1078.608, + 803.742, + 143.5530000000001 ], "priority": 6, "parents": [ - 143258 + 664 ], "children": [], - "area": 384557.434105, + "area": 51762.39792, "iscrowd": 0, "segmentation": [], - "text": "A Case Study of Meredith\n\n“Meredith” (pseudonym) was a biology major who completed the one-year MAT internship in a local\npublic HS. She earned a 4.0 GPA in the MAT Program and 189/200 in the General Science and 187/200\nin the Biology Praxis Il Exams. She secured a science teaching license (7-12), a science teaching position\nin a high need school in VT and completed the 2-year NSF teaching commitment.\n\nAs part of state licensure portfolio requirements, students complete an Analysis of Learning Project\nduring the 4-week solo teaching period that demonstrates their ability to summarize evidence for\nstudent growth aligned to learner outcomes and to reflect upon how their teaching practice may have\ninfluenced student learning over this time period.\n\nFor her analysis project, Meredith describes the Cell Cycles unit that she developed for a 10** grade\nbiology class (20 students) in the following excerpt.\n\nMany of the students have a lot of energy and don’t appreciate sitting still. Four students in this\nclass are on IEPs with varying degrees of modifications and accommodations and two students\nare on 504 plans. This unit includes lessons on mitosis, meiosis and cell differentiation. Students\nhad no background knowledge of these processes, but they knew from our study of cell theory\nthat all cells arise from preexisting cells and had some basic knowledge about DNA from middle\nschool. The unit touches upon how and why new cells are made and how cells appear differently\nto become different components of an organism. Lastly, with meiosis, students learn a major\nsource of genetic diversity and how organisms make cells necessary for sexual reproduction.\n\nThe goal of the pre/post assessment attempted to assess student understanding of mitosis, meiosis,\nand cell differentiation. In asking the question: “How do humans become 100 trillion cells, yet start as\none cell?” students needed to recognize that meiosis is the process by which gametes are formed\nresulting in half the number of chromosomes of typical somatic cells and that mitosis (not meiosis) is\nthe process that explains how humans start as 2 gametes (with half the number of chromosomes) to\nbecome an organism comprised of 100 trillion cells." + "text": "Interactions are competitive on average, but some networks are\nweakly facilitative.\n\nInteractions were hypothesized to be mostly competitive, as plants share similar resource requirements.\nThe effect size we used was the mean strength, i.e., the sum of the interactions (Rlls) directed towards or\naway from a species, for each network." }, { - "id": 143256, - "strid": "13a81b0d-e11c-4a71-bee2-99fa49d4146b", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 5, - "category_name": "Section", + "id": 671, + "strid": "e2c44059-751b-4538-9e57-97003ae0fb96", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2120.229, - 561.402, - 583.7429999999999, - 54.48900000000003 + 44.603, + 1223.029, + 812.313, + 296.13300000000004 ], "priority": 7, "parents": [ - 143270 + 664 ], "children": [ - 143263, - 143264 + 672 ], - "area": 1190300.801058, + "area": 54550.762487, "iscrowd": 0, - "segmentation": [], - "text": "Analysis of Learning Project" + "segmentation": [] }, { - "id": 143263, - "strid": "74ef0128-458d-435d-a24e-0af40fff7a36", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 3, - "category_name": "Text", + "id": 672, + "strid": "cbb98f61-c4d4-4c16-9796-818f9cb02dc0", + "image_id": 29, + "image_name": "11463.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2067.323, - 666.55, - 709.4110000000001, - 1118.252 + 49.362, + 1519.98, + 800.344, + 31.286000000000058 ], "priority": 8, "parents": [ - 143256 + 671 ], "children": [], - "area": 1377974.1456499998, + "area": 75029.25276, "iscrowd": 0, "segmentation": [], - "text": "Tracing student progress/development using\nassessment data is a core responsibility of\nevery teacher. At any given point in time, a\nteacher must be able to answer the\nquestion: How do | know what my students\nknow? The Analysis of Learning\ndemonstrates your ability to summarize\nevidence for student growth along major\nlearner outcomes in your unit plan and to\nreflect upon how your teaching practices\nhave fostered (or failed to foster) student\nlearning and growth. This is a required piece\nof evidence for Part Il of your Vermont\nLicensure Portfolio.\n\nThe analysis of learning will be structured\naround the unit plan that you include in Part\nll of your portfolio. If you teach this unit to\nmore than one section of students, you will\nonly need to analyze assessment data for\none class.\n\nThe analysis of learning is organized into five\nmajor sections:" + "text": "Figs. 3-6. Points represent mean values. On left, forest plots of study-specific metrics. Error bars are +1 SE. On right, grand means for metrics\nacross studies, including grand mean and groupwise means. Error bars are 95% credible intervals." }, { - "id": 143264, - "strid": "e25a78cb-b6e0-491b-a6cd-889ff95858bb", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 4, - "category_name": "List", + "id": 673, + "strid": "1c3d67d6-06cd-407e-9fca-b3b9753d63a3", + "image_id": 29, + "image_name": "11463.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2067.926, - 1835.112, - 693.4609999999998, - 221.1959999999999 + 46.099, + 1566.361, + 833.229, + 142.231 ], "priority": 9, "parents": [ - 143256 + 664 ], "children": [], - "area": 3794875.817712, + "area": 72207.675739, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Transitivity is the norm, but intransitivity does exist in plant networks.\nTransitivity is prevalent in individual plant communities, though transitive communities are theoretically\nunstable. Most networks were transitive, but studies with a true control treatment were often strongly\n\nintransitive. The effect size used was the Relative Intransitivity (RI) index (4), where a completely transitive\ncommunity has an RI of 0 and a maximally intransitive community has an RI of 1." }, { - "id": 143257, - "strid": "d1f3b11f-c3a6-451d-84e4-f2a12bf59909", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 5, - "category_name": "Section", + "id": 674, + "strid": "49ee4b7d-8a31-4212-8e2d-c28552f81516", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3627.109, - 543.007, - 414.5189999999998, - 54.43399999999997 + 42.065, + 1732.663, + 813.558, + 298.21399999999994 ], "priority": 10, "parents": [ - 143270 - ], - "children": [ - 143266, - 143261 + 664 ], - "area": 1969545.5767629999, + "children": [], + "area": 72884.469095, "iscrowd": 0, - "segmentation": [], - "text": "Case Study Analysis" + "segmentation": [] }, { - "id": 143261, - "strid": "9f4defcc-f65d-4bb7-982e-b3019a22dcd5", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 7, - "category_name": "Table", + "id": 675, + "strid": "6f0222e6-dc36-4b7d-9d7f-aaf40da9fd49", + "image_id": 29, + "image_name": "11463.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2001.648, - 2364.16, - 844.0980000000002, - 307.06399999999985 + 917.467, + 367.009, + 816.322, + 221.86900000000003 ], "priority": 11, "parents": [ - 143257 - ], - "children": [ - 143260 + 664 ], - "area": 4732216.135679999, + "children": [], + "area": 336718.646203, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "matrices of mean/SD Ril (one per study), and calculated mean/SD for each network metric of interest.\n\nThese network metrics, including mean strength, asymmetry, transitivity, and connectance, were\nused as the effect sizes in the study, and were then synthesized across studies using a Bayesian random\neffects meta-analysis to calculate the grand mean of each metric weighted by the variation within each\ncommunity. Groupwise meta-analyses were also fit to understand the influence of experiment type (true\ncontrol/monoculture control), habitat (old fields/other habitats), and experimental setting (greenhouse,\ngarden, or field) on network structure.\n\nGarden experiment: a plant interaction network of an old field shrub community" }, { - "id": 143260, - "strid": "48cc015e-d36b-42f4-beec-af96087382e0", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 6, - "category_name": "Caption", + "id": 676, + "strid": "028c8b9f-28b3-4b7f-9b63-2e7a5cc5c32b", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2004.067, - 2282.079, - 619.5619999999999, - 37.59700000000021 + 912.403, + 589.508, + 515.961, + 473.106 ], "priority": 12, "parents": [ - 143261 + 664 ], - "children": [], - "area": 4573439.215293, + "children": [ + 677 + ], + "area": 537868.867724, "iscrowd": 0, - "segmentation": [], - "text": "Table 1- Pre/Post Assessment Data" + "segmentation": [] }, { - "id": 143266, - "strid": "0bda872d-19b5-438c-9880-a861d7c076ee", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 3, - "category_name": "Text", + "id": 677, + "strid": "e4e1059d-b48c-47d1-88eb-c3bf844f79be", + "image_id": 29, + "image_name": "11463.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2979.309, - 622.414, - 1682.1710000000003, - 1033.223 + 1429.858, + 874.878, + 312.548, + 89.69100000000003 ], "priority": 13, "parents": [ - 143257 + 676 ], "children": [], - "area": 1854363.6319260001, + "area": 1250951.307324, "iscrowd": 0, "segmentation": [], - "text": "Table 1 illustrates pre and post assessment results from 20 students in this 10‘ grade biology class. In the\nfollowing excerpt, Meredith reflects on these results.\n\nBased on my data of the pre and post assessment (Table 1), sixteen students met the learning\nobjective of identifying and explaining the role of chromosomes and modeling mitosis. Only 3/20\nstudents correctly connected cell differentiation to this prompt, meeting the learning objective of\nmodeling and explaining the role of cell differentiation. Another six students were close to making\nthis connection, but they either included meiosis in their response or spoke about cell differentiation\nas a way to provide genetic diversity. This tells me that these students were unable to correctly\nidentify the difference and similarities between meiosis and mitosis. | can’t know from this data if\nthe other students who didn’t mention meiosis were able to meet this learning objective. The\nabsence of meiosis in their responses may mean they know to distinguish meiosis as an unrelated\nprocess, or it might imply they aren’t comfortable with the process of meiosis.\n\nMeredith reflects on her decision about the unit test format and her rationale for utilizing a variety of\nassessments in assessing student knowledge of unit concepts in the following:\n\nThough | would have liked to just give constructive response questions, | wanted to give students\nwho struggle with writing an opportunity to show their knowledge and understanding in this unit.\nSome students have a lot of knowledge but are challenged in expressing this in an open-ended way.\nMy post-assessment matched to the pre-assessment was an open-ended constructive response\nassignment that works well for some students, but is challenging for others. Therefore, | examine\nthat data, but | also keep in mind the data from other formative and summative assessments\n\nm included in this unit. df" + "text": "Fig. 1 (left). Old field plant interaction network based\non fieldwork at Yale-Myers Forest, CT in summer 2016.\nEdge width is proportional to edge weight. Edge\nweight isthe Ril for each pairwise species combination\n(legend represents Ril range). Competitive interactions\nare red, facilitative are blue." }, { - "id": 143259, - "strid": "7f4c7dc3-05af-4767-8b39-568037dd2a7b", - "image_id": 206068, - "image_name": "17313.png", - "category_id": 5, - "category_name": "Section", + "id": 678, + "strid": "24c906a1-0326-48bc-93f6-32234db84491", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3552.792, - 1756.691, - 553.0269999999996, - 51.92900000000009 + 1487.58, + 591.4, + 211.85500000000002, + 281.788 ], "priority": 14, "parents": [ - 143270 + 664 ], "children": [ - 143267 + 679 ], - "area": 6241157.731272, + "area": 879754.8119999999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 679, + "strid": "0a59aed5-8edc-41ec-8d40-0d07d8419a16", + "image_id": 29, + "image_name": "11463.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 1429.858, + 972.794, + 316.0730000000001, + 86.16600000000005 + ], + "priority": 15, + "parents": [ + 678 + ], + "children": [], + "area": 1390957.2832519999, "iscrowd": 0, "segmentation": [], - "text": "Summary and Conclusions" + "text": "ig. 2 (above). Set-up for pairwise plant interaction\nexperiments at Yale-Myers Forest. Target individuals are\nsurrounded by four neighbor individuals in intra- and\ninterspecific pairwise species combinations. Targets\nwere harvested Aug. 2016 and biomass was used to\ncalculate Ril indices for the network." }, { - "id": 143267, - "strid": "a69a509c-4149-4394-ad11-0d9639e9e99c", - "image_id": 206068, - "image_name": "17313.png", + "id": 680, + "strid": "7d94923b-7842-48e7-b7ab-ac2dc0293d68", + "image_id": 29, + "image_name": "11463.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2978.341, - 1834.433, - 1693.908, - 1257.8959999999997 + 918.038, + 1079.901, + 825.8510000000001, + 143.93599999999992 ], - "priority": 15, + "priority": 16, "parents": [ - 143259 + 664 ], "children": [], - "area": 5463567.015653, + "area": 991390.154238, "iscrowd": 0, "segmentation": [], - "text": "Given the opportunity to teach this unit again, Meredith shared that she would place more emphasis on\ndifferentiating her teaching and assessment practices and that her strengths were largely focused on her\nability to differentiate by student readiness and to a lesser extent on content and student interest. In the\nend, she still felt that the strategies that she employed approached learners in the same way.\n\nMany of the students who show the most learning are students that thrive in a traditional school\nenvironment. | believe this was because even with intentions of creating meaningful, engaging and\nhands-on lessons, | tended towards teaching content in the traditional manner. | made an effort to\nincorporate different styles of teaching and allow students to work through content in a variety of\nways, but my default form of imparting content knowledge is still direct instruction. Some students\nstruggled to meet the learning objectives because | didn’t give them enough of an option to learn\nthe content in diverse ways.\n\nThough my intentions are to address the needs of all learners, | see in my data that this isn’t always\nthe case. Some redesign of lessons to use more inquiry based and constructive approaches would\nhelp to hook students and lead to more powerful learning. | need to remember not just that students\nlearn differently, but that any subject can be taught in a number of ways. By exploring my own\ncreativity and diversifying instructional approaches, | can maximize student learning and create\nlasting lessons for students.\n\nIn summary, Meredith used both formative and summative assessments at the individual level as well as\nassessments administered to the whole class to gauge continuous progress and identify opportunities to\nredirect and/or modify the instruction. She utilized quantitative and qualitative analytical methods to\ndescribe the results of instruction while accounting for such variables as IEP status and students’ prior\nknowledge. The analysis and presentation of data by Meredith is quite sophisticated and clearly\ndocuments learning that individual students, groups of students, and the whole class demonstrated over a\n4-week period. An important dimension of this case is the analysis of instruction that she presented\nfollowing the post test. This case clearly demonstrates that Meredith was able to utilize student\nperformance data to inform the way that she would adapt and modify instruction over time. 4" + "text": "Asymmetric interactions are not ubiquitous.\n\nAsymmetry occurs when one species has a strong effect on the other with little reciprocal effect. Asymmetry\nwould be expected to be prevalent as initial differences in resource capture ability generate a positive\nfeedback (3). The effect size calculated was the correlation coefficient between interaction weights w; and\nw;. Interactions were weakly asymmetric on average, but this varied greatly among communities." }, { - "id": 143269, - "strid": "aba68da2-aacd-4773-af1e-80ea8d228fef", - "image_id": 206068, - "image_name": "17313.png", + "id": 681, + "strid": "4d0bb8e9-1345-4328-a2d7-e9e9d3015594", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 922.903, + 1225.054, + 805.9280000000001, + 298.74199999999996 + ], + "priority": 17, + "parents": [ + 664 + ], + "children": [], + "area": 1130606.0117620002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 682, + "strid": "e8e0cc30-4e26-4890-bd7a-6f533cff4319", + "image_id": 29, + "image_name": "11463.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1922.864, - 2980.148, - 1006.4569999999999, - 102.029 + 917.416, + 1564.324, + 812.619, + 167.24299999999994 ], - "priority": 16, + "priority": 18, "parents": [ - 143270 + 664 ], "children": [], - "area": 5730419.303872, + "area": 1435135.866784, "iscrowd": 0, "segmentation": [], - "text": "This project is supported by the NSF Robert Noyce\nScholarship Program — Project No. 1540802" + "text": "Plant communities are strongly connected.\n\nConnectance describes how strongly members interact with one another compared to a maximum level.\nCommunities varied in their connectance, but it was very high on average. We predicted plant networks\nwould have higher connectance than other ecological networks (which tend to fall in the range of 0.03 to\n0.3) (5), as co-occurring plants should interact strongly with one another. The effect size for connectance\nwas weighted quantitative connectance (6)." }, { - "id": 143268, - "strid": "f32a8dfd-964e-4ad4-9298-e2ee7d4468db", - "image_id": 206068, - "image_name": "17313.png", + "id": 683, + "strid": "99039461-40c7-4167-a6f1-68611b7cc14f", + "image_id": 29, + "image_name": "11463.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 924.324, + 1734.444, + 806.429, + 294.3710000000001 + ], + "priority": 19, + "parents": [ + 664 + ], + "children": [], + "area": 1603188.2158559998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 684, + "strid": "39281c7d-c12a-43b0-a439-0742b20725b9", + "image_id": 29, + "image_name": "11463.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1976.537, - 2733.54, - 827.4889999999998, - 131.6010000000001 + 48.011, + 2045.595, + 1668.806, + 162.9219999999998 ], - "priority": 17, + "priority": 20, "parents": [ - 143270 + 664 ], "children": [], - "area": 5402942.95098, + "area": 98211.061545, "iscrowd": 0, "segmentation": [], - "text": "INoaide ogo\nStake, Robert E. (2006). Multiple case study analysis.\nNew York, NY: Guilford." + "text": "By synthesizing structural metrics of multiple plant interaction communities using meta-analysis, we were able to make broad, quantitative\ngeneralizations about the nature of interactions in plant communities. Plant interaction networks are dominated by competitive interactions\nand are highly connected relative to other ecological networks. Interactions are not necessarily asymmetric, and intransitivity, or breaking\nfrom a hierarchy, is a feature of many communities. Network metrics differ based on whether the study had a true control treatment, but do\nnot differ based on the habitat or experimental setting of the study." }, { - "id": 132815, - "strid": "5f1e32e7-fbc0-433d-9793-864aee92658e", - "image_id": 205655, - "image_name": "15527.png", + "id": 685, + "strid": "a4f1ee40-0318-40f1-b18d-0cfb28a67c6b", + "image_id": 30, + "image_name": "11481.png", "category_id": 9, "category_name": "Root", "bbox": [ - 16.53, - 24.85, - 133.03, - 170.28 + 2400.78, + 95.85, + 301.17999999999984, + 231.67999999999998 ], "priority": -1, "parents": [], "children": [ - 132795, - 132794, - 132792, - 132793, - 132791 + 702, + 698, + 688, + 690, + 687, + 704, + 710, + 689, + 706, + 700, + 686, + 693 ], - "area": 410.7705, + "area": 230114.763, "iscrowd": 0, "segmentation": [] }, { - "id": 132791, - "strid": "c2f76665-8d74-4d4f-b19b-534b47be3e44", - "image_id": 205655, - "image_name": "15527.png", + "id": 686, + "strid": "04180853-cdf8-46c0-93a1-f5cf1c53a955", + "image_id": 30, + "image_name": "11481.png", "category_id": 1, "category_name": "Title", "bbox": [ - 173.832, - 88.981, - 2375.017, - 272.33 + 110.765, + 453.238, + 2535.305, + 140.16699999999997 ], "priority": 1, "parents": [ - 132815 + 685 ], "children": [], - "area": 15467.745191999998, + "area": 50202.90707, "iscrowd": 0, "segmentation": [], - "text": "A framework to assess aller Hoy van\nbioinformatics training a faethe /" + "text": "Human Islets~ Like Cell Aggregates (ICAs) Express Coxsackie~ Adenovirus receptors (CAR) and Decay\nAccelerating Factor (DAF or CD55) and Reveal A distinctive microRNA Diabetes~Associated Signature" }, { - "id": 132792, - "strid": "c8aca5e0-3282-422a-8037-ed9217c988ae", - "image_id": 205655, - "image_name": "15527.png", + "id": 687, + "strid": "0467d031-248e-4fdf-ac7a-95e5c3c1964d", + "image_id": 30, + "image_name": "11481.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 173.502, - 404.623, - 2273.878, - 139.10099999999994 + 68.944, + 788.769, + 2634.403, + 186.101 ], "priority": 2, "parents": [ - 132815 + 685 ], "children": [], - "area": 70202.899746, + "area": 54380.889936, "iscrowd": 0, "segmentation": [], - "text": "Kim T Gurwitz, Prakash Singh Gaur, a. pone a Sarah L Morgan, Gabriella Rustici\nbehalf of the ELIXIR? Training Platform Mesa -EXCELERATE? Wi \\ ee aan" + "text": "Ammira S Alshabeeb Akil+2*, Anand Hardikar®, Allie Finlay1, Chi Nam Ignatius Pang>, Marc Wilkins>, William Rawlinson??> , Maria Craig?2:4\n\n1 Virology Research, Prince of Wales Hospital Research Laboratories, South Eastern Area Laboratory Services, Prince of Wales Hospital, Sydney NSW 2031, 2School of Women’s and Children’s Health, Faculty\nof Medicine, University of New South Wales, Sydney NSW 2052, 3School of Medical Sciences, Faculty of Medicine, University of New South Wales, Sydney, NSW 2052, 4Institute of Endocrinology and\nDiabetes, the Children’s Hospital at Westmead, Sydney NSW 2145, 5School of Biotechnology and Biomolecular Science, Faculty of Science, University of New South Wales, Sydney NSW 2052, NHMRC\n\nClinical Trials Centre, Sydney Medical School, University of Sydney, Sydney NSW 2006" }, { - "id": 132793, - "strid": "8eb663b9-147a-4100-9908-49db972b1c97", - "image_id": 205655, - "image_name": "15527.png", + "id": 698, + "strid": "4c062d55-b81a-44ad-bb27-ce65774d31d6", + "image_id": 30, + "image_name": "11481.png", "category_id": 5, "category_name": "Section", "bbox": [ - 42.822, - 749.454, - 1497.9859999999999, - 89.73000000000002 + 1291.162, + 1034.789, + 145.39100000000008, + 26.528999999999996 ], "priority": 3, "parents": [ - 132815 + 685 ], "children": [ - 132806 + 699 ], - "area": 32093.119188, + "area": 1336080.234818, "iscrowd": 0, "segmentation": [], - "text": "Objectives - Quality and Impact Subtask::" + "text": "" }, { - "id": 132806, - "strid": "a4af541f-798c-46e7-8dce-4026c226f1a1", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 4, - "category_name": "List", + "id": 699, + "strid": "99cbe842-4b60-47ef-809c-250e22dfd7fa", + "image_id": 30, + "image_name": "11481.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 44.793, - 849.956, - 3174.108, - 409.3670000000001 + 536.906, + 1072.195, + 1651.609, + 295.3620000000001 ], "priority": 4, "parents": [ - 132793 + 698 ], "children": [], - "area": 38072.079108, + "area": 575667.9286699999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Human enterovirus (HEV) infections, specifically Coxsackievirus B (CVB), demonstrate -cell tropism and are\nassociated with type 1 diabetes (T1D).\n\nPrevious studies have shown that Coxsackie-Adenovirus receptors (CAR) and Decay Accelerating Factor (DAF) are\nboth required to initiate CVB infection in human and rodent models, but this has not been examined in Human Islets-\nLike Cells Aggregates (ICAs), which are derived from human islet progenitor cells.\n\nMicroRNAs function as translational repressors and are important regulators of key biological processes, although\ntheir role in virus induced —cell death has not been examined" }, { - "id": 132794, - "strid": "cf450958-a2c8-4f25-95d0-fef09aa5354a", - "image_id": 205655, - "image_name": "15527.png", + "id": 700, + "strid": "064e3c03-02a7-4a2d-af9d-3163b301b6c8", + "image_id": 30, + "image_name": "11481.png", "category_id": 5, "category_name": "Section", "bbox": [ - 45.472, - 1313.188, - 516.22, - 70.80299999999988 + 1277.926, + 1413.51, + 171.21000000000004, + 25.92599999999993 ], "priority": 5, "parents": [ - 132815 + 685 ], "children": [ - 132814, - 132809, - 132802, - 132804, - 132812, - 132811, - 132805, - 132803, - 132813, - 132807, - 132808, - 132801 + 701 ], - "area": 59713.28473600001, + "area": 1806361.1802599998, "iscrowd": 0, "segmentation": [], - "text": "Achievements" + "text": "" }, { - "id": 132807, - "strid": "d48dbdcb-eff4-48c4-a008-3eea4c5fcd72", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 4, - "category_name": "List", + "id": 701, + "strid": "34940c1b-c65c-4c5b-a8ae-c1aebdade68c", + "image_id": 30, + "image_name": "11481.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 38.078, - 1444.882, - 1553.524, - 220.78099999999995 + 537.466, + 1450.589, + 1650.864, + 98.75600000000009 ], "priority": 6, "parents": [ - 132794 + 700 ], "children": [], - "area": 55018.21679600001, + "area": 779642.267474, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "We hypothesise that (i) CBV infection of HICS is associated with up-regulation of CAR and DAF receptors and down-\nregulation of insulin and pdx-1 genes; -cell death and (ii) CVB infection of HICS alters microRNA abundance, thereby\nregulating gene expression." }, { - "id": 132801, - "strid": "602fbf79-6e48-4362-98bc-0c2d7f06de32", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 7, - "category_name": "Table", + "id": 702, + "strid": "cf302368-9926-434c-8e10-9c4e973cac92", + "image_id": 30, + "image_name": "11481.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 44.985, - 1753.962, - 1751.387, - 459.1379999999999 + 1293.189, + 1576.488, + 142.43399999999997, + 25.42599999999993 ], "priority": 7, "parents": [ - 132794 + 685 ], "children": [ - 132796 + 703 ], - "area": 78901.98057, + "area": 2038696.940232, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 132796, - "strid": "65d1fd98-d834-4361-8a55-0c3852c6dc6f", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 6, - "category_name": "Caption", + "id": 703, + "strid": "5e3b912a-05e8-4775-9d11-fabc3375b4fe", + "image_id": 30, + "image_name": "11481.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 49.332, - 1703.536, - 743.27, - 39.88300000000004 + 537.859, + 1614.82, + 1653.185, + 463.5930000000001 ], "priority": 8, "parents": [ - 132801 + 702 ], "children": [], - "area": 84038.837952, + "area": 868545.4703800001, "iscrowd": 0, - "segmentation": [], - "text": "Table 1: Confirmed core, short-term metrics." + "segmentation": [] }, { - "id": 132802, - "strid": "3f53ded0-3a84-4c7b-ae5a-edad2f3af9b5", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 7, - "category_name": "Table", + "id": 688, + "strid": "5aff7adb-6fc8-4c01-b008-a819790130a0", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 43.942, - 2314.943, - 1750.083, - 371.06100000000015 + 39.722, + 1002.595, + 485.07000000000005, + 1042.543 ], "priority": 9, "parents": [ - 132794 + 685 ], - "children": [ - 132797 - ], - "area": 101723.22530600001, + "children": [], + "area": 39825.078590000005, "iscrowd": 0, "segmentation": [] }, { - "id": 132797, - "strid": "4ba16089-3f99-46f6-866a-517259ecb919", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 6, - "category_name": "Caption", + "id": 689, + "strid": "fd899850-5dd4-41ec-88d7-f5f7379894c9", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 48.505, - 2263.648, - 731.947, - 40.784999999999854 + 31.357, + 2097.186, + 465.659, + 340.52599999999984 ], "priority": 10, "parents": [ - 132802 + 685 ], "children": [], - "area": 109798.24624000001, + "area": 65761.461402, "iscrowd": 0, - "segmentation": [], - "text": "Table 2: Confirmed core, long-term metrics." + "segmentation": [] }, { - "id": 132808, - "strid": "b58285c9-fc93-4842-b081-1a5ea004ce79", - "image_id": 205655, - "image_name": "15527.png", + "id": 690, + "strid": "3f590e32-0549-4893-8018-c201a2f1908b", + "image_id": 30, + "image_name": "11481.png", "category_id": 3, "category_name": "Text", "bbox": [ - 48.652, - 2738.297, - 817.019, - 413.33399999999983 + 31.818, + 2469.462, + 457.147, + 262.587 ], "priority": 11, "parents": [ - 132794 + 685 ], "children": [], - "area": 133223.625644, + "area": 78573.341916, "iscrowd": 0, "segmentation": [], - "text": "2) Common feedback collection\napproach established, endorsed\nby ELIXIR Head of Nodes,\n\nand implemented\n\nFeedback data is collected systematically for\n\nELIXIR- and EXCELERATE-badged training\nevents." + "text": "Cytopathic effects CPE following\nCVB-3 infection in insulin producing\nhuman &- cells. Uninfected control\nislets and islets infected with CVB-3 at 2,\n4, and 6 days post __ infection.\nMorphological changes were seen1-2\ndays post infection when the cells\nbecame more rounded and detached\nfrom the islet cluster into the medium." }, { - "id": 132809, - "strid": "a48955c2-024d-4d70-876f-3da8acf54404", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 3, - "category_name": "Text", + "id": 710, + "strid": "125e7c26-8e63-405f-805e-63796b660d90", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 47.22, - 3274.104, - 849.994, - 511.44799999999987 + 2209.706, + 988.726, + 509.68499999999995, + 1022.147 ], "priority": 12, "parents": [ - 132794 + 685 ], "children": [], - "area": 154603.19087999998, + "area": 2184793.7745560003, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 704, + "strid": "29c975bf-3713-4acb-91a9-d34ae1ec21b5", + "image_id": 30, + "image_name": "11481.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1276.466, + 2154.671, + 118.54199999999992, + 25.51000000000022 + ], + "priority": 13, + "parents": [ + 685 + ], + "children": [ + 705, + 708, + 696, + 713, + 691, + 711, + 694 + ], + "area": 2750364.2726859995, "iscrowd": 0, "segmentation": [], - "text": "3) Developed a platform for data\ncollection and reporting —\n\nTraining Metrics Database\n\nFor Training Coordinators: streamlines\ncollection, storage, visualization and reporting\nof ELIXIR’s Training quality and impact.\n\nFor Stakeholders: allows individuals to\ngenerate and visualize dynamic reports of\ntraining data." + "text": "" }, { - "id": 132805, - "strid": "71457dc0-1dba-4e3f-9a32-b04d673e7aa0", - "image_id": 205655, - "image_name": "15527.png", + "id": 705, + "strid": "e722d998-7891-45a1-b954-2150068ee81e", + "image_id": 30, + "image_name": "11481.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 915.023, + 2190.805, + 842.3289999999998, + 732.77 + ], + "priority": 14, + "parents": [ + 704 + ], + "children": [], + "area": 2004636.963515, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 708, + "strid": "93b2b495-e6e0-4924-abf4-dd30d8ee9b7a", + "image_id": 30, + "image_name": "11481.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 918.855, - 2751.938, - 846.693, - 942.134 + 1775.04, + 2149.523, + 413.9850000000001, + 882.645 ], - "priority": 13, + "priority": 15, "parents": [ - 132794 + 704 ], "children": [ - 132798 + 709 ], - "area": 2528631.9909900003, + "area": 3815489.30592, "iscrowd": 0, "segmentation": [] }, { - "id": 132798, - "strid": "09c39af0-8e32-4da9-90d8-5bd16cfc4975", - "image_id": 205655, - "image_name": "15527.png", + "id": 709, + "strid": "80100e0e-7b44-43c9-ab50-6c10b41464f5", + "image_id": 30, + "image_name": "11481.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 929.567, - 3738.156, - 837.3620000000001, - 87.10199999999986 + 1764.22, + 3086.235, + 433.7270000000001, + 260.58500000000004 ], - "priority": 14, + "priority": 16, "parents": [ - 132805 + 708 ], "children": [], - "area": 3474866.458452, + "area": 5444797.511700001, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: Location of ELIXIR-badged training events,\n1 September 2015 —15 March 2019." + "text": "Figure 1. Heat map comparing expression\nof 105 microRNAs following infection of\nislets with CVB3, CVB4 or CVB5. The\nmiRNAs are clustered based on their fold-\nchange in expression using average\nlinkage clustering. The heat map shows\n23 miRNAs that are consistently up-\nregulated in CVB3, CVB4 and CVB5\ninfected cells." }, { - "id": 132811, - "strid": "cb2ba400-34a7-4fd5-b313-63c01c5e357e", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 3, - "category_name": "Text", + "id": 696, + "strid": "0251b0b2-7b08-43b6-a35a-ede1bf4b7c1a", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1871.175, - 1348.937, - 1310.689, - 437.3600000000001 + 525.956, + 2779.346, + 363.68899999999996, + 370.7629999999999 ], - "priority": 15, + "priority": 17, + "parents": [ + 704 + ], + "children": [ + 697 + ], + "area": 1461813.704776, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 697, + "strid": "5078008e-0024-4efe-9248-5fe905af5290", + "image_id": 30, + "image_name": "11481.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 529.072, + 3166.507, + 369.7320000000001, + 354.7840000000001 + ], + "priority": 18, "parents": [ - 132794 + 696 ], "children": [], - "area": 2524097.1909749997, + "area": 1675310.191504, "iscrowd": 0, "segmentation": [], - "text": "4) Feedback data captured since September 2015 show\npromising results\n\nShort Term Feedback — training quality\n19 participating ELIXIR Nodes\n\n408 training events surveyed\n6700+ short term feedback survey responses captured" + "text": "Figure2.Up-regulated miRNA\nassociated with genes in the\nT1D protein interaction\nnetwork. The miRNAs with at least\nten-fold increase in expression\nfollowing infection of islets with\nCVB3, CVB4, or CVBS targeted 37\nT1D susceptibility genes. The protein\nproducts for 28 of these T1D\nsusceptibility genes and __ their\nphysical interaction partners form a\nhighly connected network as shown\nabove." }, { - "id": 132803, - "strid": "b979b03b-f744-4639-9740-43240668e558", - "image_id": 205655, - "image_name": "15527.png", + "id": 713, + "strid": "e59d7f41-3e63-4ca3-b621-a61a823231bd", + "image_id": 30, + "image_name": "11481.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1864.518, - 1856.93, - 826.569, - 471.1139999999998 + 2217.846, + 2823.387, + 517.4810000000002, + 347.9209999999998 ], - "priority": 16, + "priority": 19, "parents": [ - 132794 + 704 ], "children": [ - 132800 + 714 ], - "area": 3462279.40974, + "area": 6261837.564402, "iscrowd": 0, "segmentation": [] }, { - "id": 132800, - "strid": "76c08966-2c4a-4874-ad08-b0938293ced3", - "image_id": 205655, - "image_name": "15527.png", + "id": 714, + "strid": "4d4f8b75-0a55-4f67-9a45-7c076bef8d34", + "image_id": 30, + "image_name": "11481.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1872.188, - 2393.687, - 1267.969, - 87.22299999999996 + 2237.075, + 3215.642, + 486.80600000000004, + 226.6619999999998 ], - "priority": 17, + "priority": 20, "parents": [ - 132803 + 713 ], "children": [], - "area": 4481432.077156, + "area": 7193632.327149999, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: Overall satisfaction with ELIXIR-badged training events. Error bars for\n95% confidence interval." + "text": "Figure 3. Replication of CVBS clinical\nisolates in adult human R-cells. Floating\nislets were infected with high multiplicity\nof infection (MOI of 1/well) of CVB-2, CVB-\n3, CVB-4, and CVB-5 clinical isolate. The\nresults were shown as the mean + 95%\nconfidence intervals of three repeats." }, { - "id": 132812, - "strid": "9eaffba5-f47f-40e7-bbc6-da007d1b0ebf", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 3, - "category_name": "Text", + "id": 691, + "strid": "540039a1-1643-4acd-845c-e13d25f2250f", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2763.753, - 1896.972, - 482.4470000000001, - 366.9689999999998 + 28.794, + 2771.871, + 486.34400000000005, + 266.15700000000015 ], - "priority": 18, + "priority": 21, "parents": [ - 132794 + 704 ], - "children": [], - "area": 5242762.055916, + "children": [ + 692 + ], + "area": 79813.253574, "iscrowd": 0, - "segmentation": [], - "text": "“| would recommend the\ncourse to others”\n~ 90% of survey respondents\n\n| would use the\ntools/resources covered in the\ncourse again” ~ 83% of survey\nrespondents" + "segmentation": [] }, { - "id": 132813, - "strid": "87741ae3-30c8-44c4-abbc-41a050057161", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 3, - "category_name": "Text", + "id": 692, + "strid": "1360716a-bf26-4406-9685-45ebf8b513f5", + "image_id": 30, + "image_name": "11481.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1869.795, - 2667.438, - 1051.3689999999997, - 321.1010000000001 + 32.53, + 3066.546, + 479.87800000000004, + 298.7310000000002 ], - "priority": 19, + "priority": 22, "parents": [ - 132794 + 691 ], "children": [], - "area": 4987562.235210001, + "area": 99754.74137999999, "iscrowd": 0, "segmentation": [], - "text": "Long Term Feedback - training impact\n\n6 participating Nodes\n\n168 training events surveyed\n\n480 long term feedback survey responses captured\nIndividuals surveyed 6 months and/or 1 year after training" + "text": "Figure 4. Effect of CVB3 and CVB5\ninfection on human insulin producing\ncells. CVB3/CVB5-infected and uninfected\ncontrol islets were harvested at 3 days\nafter infection and stained with insulin and\nvirus specific (VP1) antibodies. Infected\ncells are stained red (Alexa Fluor 594),\ninsulin stained with green (Alexa fluor 488)\nVirus-infected insulin- containing cells\nwere readily identified by their yellow color" }, { - "id": 132814, - "strid": "f66cce8d-bac3-4164-a5fb-3d01db2dc3cb", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 3, - "category_name": "Text", + "id": 711, + "strid": "8fe9c0b5-c18e-4c39-aed0-6cbf486369a4", + "image_id": 30, + "image_name": "11481.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1870.306, - 3227.62, - 424.75700000000006, - 283.36799999999994 + 2196.727, + 2067.958, + 509.7040000000002, + 379.9090000000001 ], - "priority": 20, + "priority": 23, + "parents": [ + 704 + ], + "children": [ + 712 + ], + "area": 4542739.173466, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 712, + "strid": "a315a45c-d50e-4cf0-8e5c-0d0f4ce242f9", + "image_id": 30, + "image_name": "11481.png", + "category_id": 6, + "category_name": "Caption", + "bbox": [ + 2229.252, + 2496.785, + 487.65599999999995, + 266.4540000000002 + ], + "priority": 24, "parents": [ - 132794 + 711 ], "children": [], - "area": 6036637.05172, + "area": 5565962.95482, "iscrowd": 0, "segmentation": [], - "text": "“lam now able to use the\ntools/ resources\nindependently or with the\nuse of the training\nmaterials ” ~ 85% of\n\nsurvey respondents" + "text": "Figure5. Effect of CVB3 and CVB5\ninfection on human insulin producing\ncells. CVB3/CVB5-infected and uninfected\ncontrol islets were harvested at 3 and 6\ndays after infection and stained with insulin\nand virus specific (VP1) antibodies. Virus-\ninfected insulin- containing cells were\nreadily identified by their yellow-orange\ncolor by using double fluorescent staining" }, { - "id": 132804, - "strid": "56b190e7-faa8-4105-837f-d2430137a82d", - "image_id": 205655, - "image_name": "15527.png", + "id": 694, + "strid": "53237af1-9476-4264-82ef-e3234f99ce10", + "image_id": 30, + "image_name": "11481.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2318.274, - 3025.733, - 960.0149999999999, - 600.5430000000001 + 525.864, + 2139.923, + 366.26099999999997, + 436.134 ], - "priority": 21, + "priority": 25, "parents": [ - 132794 + 704 ], "children": [ - 132799 + 695 ], - "area": 7014478.144842, + "area": 1125308.468472, "iscrowd": 0, "segmentation": [] }, { - "id": 132799, - "strid": "49177696-5906-4a15-b74d-1fc5606b8af8", - "image_id": 205655, - "image_name": "15527.png", + "id": 695, + "strid": "280e9a9d-b249-404a-8dca-bc82ecf6f70c", + "image_id": 30, + "image_name": "11481.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2422.341, - 3647.651, - 791.0729999999999, - 81.03499999999985 + 528.539, + 2593.535, + 350.9390000000001, + 172.9920000000002 ], - "priority": 22, + "priority": 26, "parents": [ - 132804 + 694 ], "children": [], - "area": 8835854.570990998, + "area": 1370784.395365, "iscrowd": 0, "segmentation": [], - "text": "Figure 3: How ELIXIR-badged training has helped\nindividuals with their work." + "text": "Figure 6: The changes in the\nexpression level of (CAR) and\n(DAF), EV-VP1, Insulin and PdX-1\nin the infected ICAs were analysed\nwith Immuno-fluorescent staining\nusing specific antibodies" }, { - "id": 132795, - "strid": "8cf39569-7206-4da4-b0ea-299a7447a897", - "image_id": 205655, - "image_name": "15527.png", + "id": 706, + "strid": "70837843-4327-44d3-a93c-46518c918739", + "image_id": 30, + "image_name": "11481.png", "category_id": 5, "category_name": "Section", "bbox": [ - 44.164, - 3915.064, - 846.0, - 84.83199999999988 + 1226.25, + 3007.452, + 200.327, + 25.802999999999884 ], - "priority": 23, + "priority": 27, "parents": [ - 132815 + 685 ], "children": [ - 132810 + 707 ], - "area": 172904.886496, + "area": 3687888.015, "iscrowd": 0, "segmentation": [], - "text": "Strategy going forward" + "text": "" }, { - "id": 132810, - "strid": "344f042f-adde-4d4e-9d7c-8a57dae215be", - "image_id": 205655, - "image_name": "15527.png", - "category_id": 4, - "category_name": "List", + "id": 707, + "strid": "fd549fc3-e530-464c-8816-acbacf8f1a00", + "image_id": 30, + "image_name": "11481.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 47.96, - 4006.3, - 3150.45, - 127.45899999999983 + 930.194, + 3046.881, + 806.0059999999999, + 435.6709999999998 ], - "priority": 24, + "priority": 28, "parents": [ - 132795 + 706 ], "children": [], - "area": 192142.14800000002, + "area": 2834190.4249139996, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "COXSACKEIVIRUS B (CVBs) infection to the Human Pancreatic\nIslets and Human Islets-Like Cell Aggregates (ICAs) lead to\nDYSREGULATION of multiple DIABETES- associated microRNAs\n\nDYSREGULATION of certain DIABETES associated microRNAs will:\n(1) Disrupt the protection of cellular integrity (2) Alterations in the\nImmune Response (3) Ultimate Pancreatic-B cell DEATH\n\nThe (ICAs STEM CELLS) are a NATURAL TARGET and\nRESERVOIRE for persistent CVB infection\n\nNO Effect on the INSULIN expression level at the early stages of viral\ninfection\n\nICAs STEM CELLS are a useful CELLULAR MODEL may further our\nunderstanding of the VIRUS induced DIABETES" }, { - "id": 3119, - "strid": "f7249cf9-2e78-4579-a9ea-6ce165127234", - "image_id": 200628, - "image_name": "10418.png", + "id": 693, + "strid": "ead796f8-74e6-41c4-a3cf-ca94768bebd8", + "image_id": 30, + "image_name": "11481.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 34.714, + 3395.77, + 465.198, + 116.30499999999984 + ], + "priority": 29, + "parents": [ + 685 + ], + "children": [], + "area": 117880.75978, + "iscrowd": 0, + "segmentation": [], + "text": "Australian Society of Medical\nResearch ASMR NSW\nScientific Meeting, 2014" + }, + { + "id": 715, + "strid": "dab5a73a-c96b-47f3-8d2a-10127c706cd2", + "image_id": 31, + "image_name": "11513.png", "category_id": 9, "category_name": "Root", "bbox": [ - 7.21, - 43.58, - 35.56, - 53.34 + 50.56, + 64.28, + 241.37, + 107.27000000000001 ], "priority": -1, "parents": [], "children": [ - 3108, - 3109, - 3110, - 3107, - 3106, - 3111 + 721, + 716, + 717, + 725, + 722, + 723, + 728, + 720, + 718 ], - "area": 314.2118, + "area": 3249.9968000000003, "iscrowd": 0, "segmentation": [] }, { - "id": 3111, - "strid": "0c119bed-37f4-4f2f-b35b-4fcbf5779c61", - "image_id": 200628, - "image_name": "10418.png", + "id": 716, + "strid": "d387f32a-9d3c-4158-9dc6-f79726384bf3", + "image_id": 31, + "image_name": "11513.png", "category_id": 1, "category_name": "Title", "bbox": [ - 64.033, - 33.911, - 451.70399999999995, - 19.457 + 1908.433, + 89.754, + 1280.9679999999998, + 268.832 ], "priority": 1, "parents": [ - 3119 + 715 ], "children": [], - "area": 2171.423063, + "area": 171289.495482, "iscrowd": 0, "segmentation": [], - "text": "Blood tests in the intensive care uni necessary cost" + "text": "Title: “Role of environmental filters\nin the restoration of degraded peri-\nurban ecosystems”" }, { - "id": 3110, - "strid": "d0fa9354-52b3-4239-8566-9bdfcbac177c", - "image_id": 200628, - "image_name": "10418.png", + "id": 717, + "strid": "41bb8ee2-00df-43d9-851f-2b701f809273", + "image_id": 31, + "image_name": "11513.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 63.49, - 63.666, - 453.33899999999994, - 13.879999999999995 + 417.048, + 45.192, + 1298.194, + 140.953 ], "priority": 2, "parents": [ - 3119 + 715 ], "children": [], - "area": 4042.15434, + "area": 18847.233216, "iscrowd": 0, "segmentation": [], - "text": "E Cumber; | Channon; A Wong: John Radcliffe Hospital, Oxford, United Kingdom" + "text": "Authors: Pawel Waryszak, Joseph B. Fontaine, Rachel J. Standish, Phil\nLadd and Neal J. Enright, Environmental & Conservation Sciences,\nMurdoch University, Perth, Western Australia" }, { - "id": 3106, - "strid": "20586041-5a4f-4c16-aec6-0a0e4e042670", - "image_id": 200628, - "image_name": "10418.png", + "id": 718, + "strid": "cdb0c8ea-9b06-43a7-bcb7-42d1acb86e50", + "image_id": 31, + "image_name": "11513.png", "category_id": 5, "category_name": "Section", "bbox": [ - 77.149, - 107.904, - 67.108, - 14.025999999999996 + 204.943, + 262.448, + 315.44100000000003, + 48.44900000000001 ], "priority": 3, "parents": [ - 3119 + 715 ], "children": [ - 3104 + 719 ], - "area": 8324.685696, + "area": 53786.880464, "iscrowd": 0, "segmentation": [], - "text": "Background" + "text": "Introduction" }, { - "id": 3104, - "strid": "f6635d39-d747-4043-9df5-bdc2ad524083", - "image_id": 200628, - "image_name": "10418.png", - "category_id": 4, - "category_name": "List", + "id": 719, + "strid": "0226c8bb-1049-4fb1-8822-1fbe4a71e865", + "image_id": 31, + "image_name": "11513.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 73.475, - 128.344, - 683.257, - 112.643 + 201.59, + 377.04, + 694.379, + 503.958 ], "priority": 4, "parents": [ - 3106 + 718 ], "children": [], - "area": 9430.0754, + "area": 76007.4936, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "“Ecological Filter” theory suggests that\nenvironmental filters influence the outcome\nof ecological restoration and ultimately\nlong-term restoration success. In this study,\nthree types of environmental filters:\ndispersal, biotic and abiotic, were\nmanipulated to improve understanding of\nhow to successfully re-establish native plant\ncommunities. The filters were manipulated\nwith use of transferred topsoil salvaged\nfrom under native Banksia Woodland." }, { - "id": 3107, - "strid": "dc246477-decb-455e-ae0c-cd4a31b03bd8", - "image_id": 200628, - "image_name": "10418.png", - "category_id": 5, - "category_name": "Section", + "id": 720, + "strid": "33f7388e-5cc4-45fc-8ca8-84c001bf60aa", + "image_id": 31, + "image_name": "11513.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 72.629, - 279.733, - 50.40400000000001, - 12.22199999999998 + 931.025, + 273.218, + 807.5119999999998, + 609.5409999999999 ], "priority": 5, "parents": [ - 3119 - ], - "children": [ - 3102, - 3103 + 715 ], - "area": 20316.728057, + "children": [], + "area": 254372.78845000002, "iscrowd": 0, - "segmentation": [], - "text": "Methods" + "segmentation": [] }, { - "id": 3102, - "strid": "b60229bf-2b7c-42b8-9cad-05fc0f69dd01", - "image_id": 200628, - "image_name": "10418.png", - "category_id": 4, - "category_name": "List", + "id": 721, + "strid": "e316f8bb-ab1c-4da2-8c17-0fb93a75ae72", + "image_id": 31, + "image_name": "11513.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 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"image_id": 200628, - "image_name": "10418.png", - "category_id": 2, - "category_name": "Figure", + "id": 729, + "strid": "8d7e6ec6-da6d-42d7-ba09-fffd2252a215", + "image_id": 31, + "image_name": "11513.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 54.665, - 652.804, - 345.032, - 222.336 + 1820.743, + 1870.302, + 1604.509, + 1117.8749999999998 ], "priority": 11, "parents": [ - 3108 - ], - "children": [ - 3115 + 728 ], - "area": 35685.53066, + "children": [], + "area": 3405339.274386, "iscrowd": 0, "segmentation": [] }, { - "id": 3115, - "strid": "f1cf5e8b-80f7-4682-8b26-a0b5c066e136", - "image_id": 200628, - "image_name": "10418.png", - "category_id": 6, - "category_name": "Caption", + "id": 730, + "strid": "1cb0d58c-e302-4e3b-9931-11b2033c4fd2", + "image_id": 31, + "image_name": "11513.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 69.462, - 883.552, - 309.089, - 29.998000000000047 + 1893.897, + 3078.88, + 1320.5429999999997, + 584.5720000000001 ], "priority": 12, "parents": [ - 3118 + 728 ], "children": [], - "area": 61373.289024000005, + "area": 5831081.59536, "iscrowd": 0, - "segmentation": [], - "text": "‘Figure 2 Qualitative feedback from survey of AICU MDT stoff on frequency\nibeetinaions" + "segmentation": [] }, { - "id": 3101, - "strid": "53d69374-131e-4b34-98c2-882d3683e5bc", - "image_id": 200628, - "image_name": "10418.png", + "id": 731, + "strid": "5d76a1cd-33cd-4161-93d7-dd5008a9f7ad", + "image_id": 31, + "image_name": "11513.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 49.951, - 940.673, - 360.538, - 188.64100000000008 + 1895.656, + 3734.508, + 1370.114, + 726.4480000000003 ], "priority": 13, "parents": [ - 3108 - ], - "children": [ - 3116 + 728 ], - "area": 46987.557023, + "children": [], + "area": 7079342.4972479995, "iscrowd": 0, "segmentation": [] }, { - "id": 3116, - "strid": "1e410501-54b1-4839-bcbf-3e060954bce7", - "image_id": 200628, - "image_name": "10418.png", - "category_id": 6, - "category_name": "Caption", + "id": 722, + "strid": "b7892085-9ad3-4a33-afd0-279880e941bf", + "image_id": 31, + "image_name": "11513.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 73.329, - 1140.896, - 236.75799999999998, - 13.603000000000065 + 396.267, + 3096.287, + 1295.652, + 701.134 ], "priority": 14, "parents": [ - 3101 + 715 ], "children": [], - "area": 83660.76278399999, + "area": 1226956.360629, "iscrowd": 0, - "segmentation": [], - "text": "Figure 3 Clotting results throughout patient ) oe)" }, { - "id": 81783, - "strid": "28b98380-0f12-4d28-9bdc-2786884d332f", - "image_id": 203682, - "image_name": "120732.png", + "id": 764, + "strid": "51e47475-d631-4c63-804b-95bc233a16ef", + "image_id": 33, + "image_name": "11601.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 370.133, - 245.574, - 2555.16, - 181.49200000000002 + 123.416, + 347.414, + 2106.756, + 241.25299999999993 ], "priority": 2, "parents": [ - 81813 + 762 ], "children": [], - "area": 90895.041342, + "area": 42876.446224, "iscrowd": 0, "segmentation": [], - "text": "Enrico Chiovetto+, Frederike Klein!, Albert Mukovskiy?, Felix Reinhart?, Mohammad Khansari-Zadeh?, Aude Billard?, Jochen Steil?;Martin Giese*\n\n1- Section for Computational Sensomotorics, Department of Cognitive Neurology, Hertie Institute for Clinical Brain Research, Centre for Integrative\nNeuroscience, University Clinic Tubingen, Tibingen, Germany.2*Faculty of Technology, Bielefeld University, Germany. 3- School of\nEngineering, Ecole Polytechnique-Federale de Lausanne, Switzerland." + "text": "Gift Nuka, Matthew Fraser, Alex Mitchell, Simon Potter, Siew-Yit Yong\n& Robert D. Finn\n\nEuropean Bioinformatics Institute (EMBL-EBI), United Kingdom" }, { - "id": 81784, - "strid": "9f1cfef5-2bfa-4a85-a3de-c09d29d48c5b", - "image_id": 203682, - "image_name": "120732.png", + "id": 765, + "strid": "e55e42af-6ab0-4f00-a190-268c42a13dae", + "image_id": 33, + "image_name": "11601.png", "category_id": 5, "category_name": "Section", "bbox": [ - 718.81, - 532.676, - 254.096, - 41.07000000000005 + 153.709, + 751.0, + 382.046, + 48.03600000000006 ], "priority": 3, "parents": [ - 81813 + 762 ], "children": [ - 81789 + 767, + 766 ], - "area": 382892.83556, + "area": 115435.459, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "" }, { - "id": 81789, - "strid": "6274fd8f-391a-4587-89b9-82ff0136e1f1", - "image_id": 203682, - "image_name": "120732.png", + "id": 766, + "strid": "b6f1d7f4-563f-4e93-9888-a91169c2dabe", + "image_id": 33, + "image_name": "11601.png", "category_id": 3, "category_name": "Text", "bbox": [ - 53.663, - 601.306, - 1589.077, - 346.92100000000005 + 150.936, + 811.744, + 1457.395, + 528.802 ], "priority": 4, "parents": [ - 81784 + 765 ], "children": [], - "area": 32267.883878, + "area": 122521.392384, "iscrowd": 0, "segmentation": [], - "text": "The generation of believable human-like movements is a key problem of humanoid robotics\n[1]. Among the.different approaches for the solution of the high-dimensional control\nproblems underlying movement generation for robots, one relies on learned low-dimensional\ndynamic movement primitives [2,3,4]. The main goals of this study. were’to compare the level\nof naturalness and human-likeness of arm reaching movements generated by three different\ncontrollers for the COMAN robot arm and to investigate which, features are the most salient\nfor the-perception of natural and human-like movements." + "text": "InterPro (http://www.ebi.ac.uk/interpro/) is a freely\navailable database used to _ classify protein\nsequences into families and to predict the presence\nof important domains and sites. The resource is\nbased around diagnostic signatures, provided by\ndifferent member databases, against which protein\nsequences are searched to determine their\npotential functions." }, { - "id": 81785, - "strid": "d9910273-b225-4707-b49c-13fed3bb366b", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 5, - "category_name": "Section", + "id": 767, + "strid": "221b59b2-5455-45f3-a1d9-af91036fd811", + "image_id": 33, + "image_name": "11601.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 754.946, - 974.047, - 183.375, - 39.97900000000004 + 157.547, + 1340.542, + 1450.36, + 929.9410000000003 ], "priority": 5, "parents": [ - 81813 + 765 ], "children": [ - 81793, - 81798, - 81800, - 81812, - 81801, - 81790, - 81791, - 81796, - 81794, - 81797, - 81799, - 81808, - 81802, - 81792 + 768 ], - "area": 735352.8864620001, + "area": 211198.370474, "iscrowd": 0, - "segmentation": [], - "text": "Methods" + "segmentation": [] }, { - "id": 81796, - "strid": "80d71516-1698-442f-ad3d-02c1dfccb748", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 768, + "strid": "2a5716f4-85b9-42c2-a12c-8e477866772b", + "image_id": 33, + "image_name": "11601.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 64.788, - 1082.968, - 932.373, - 740.248 + 140.057, + 2300.009, + 1462.869, + 218.70800000000008 ], "priority": 6, "parents": [ - 81785 + 767 ], "children": [], - "area": 70163.330784, + "area": 322132.360513, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 1: Fourteen different member databases with differing\nmethods of signature production and biological focuses make up\nthe InterPro resource. Databases with a v provide some form of\nresidue-specific annotation." }, { - "id": 81808, - "strid": "240ee546-1167-484c-9883-e82bf579cea1", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 2, - "category_name": "Figure", + "id": 769, + "strid": "8ea74c5e-1332-49fc-9a3e-5a80ee9fab53", + "image_id": 33, + "image_name": "11601.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1136.472, - 1079.201, - 411.75199999999995, - 409.08899999999994 + 137.185, + 2562.1, + 347.751, + 53.572000000000116 ], "priority": 7, "parents": [ - 81785 + 762 ], - "children": [], - "area": 1226481.718872, + "children": [ + 771, + 770 + ], + "area": 351481.6885, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "InterProScan" }, { - "id": 81790, - "strid": "9a26251b-092f-4ffd-86bc-b9ed075fc976", - "image_id": 203682, - "image_name": "120732.png", + "id": 770, + "strid": "57646840-a4ce-4332-9f72-d25a0ad9a1d4", + "image_id": 33, + "image_name": "11601.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1062.416, - 1529.033, - 554.242, - 293.82400000000007 + 136.366, + 2629.284, + 1485.919, + 530.5279999999998 ], "priority": 8, "parents": [ - 81785 + 769 ], "children": [], - "area": 1624469.1237279999, + "area": 358544.9419440001, "iscrowd": 0, "segmentation": [], - "text": "Participants, sitting in frontway flat projection\nscreen, were asked to reach the targets after a\n“go” signal (target turning from red to green)\noccurred. Targets could’stay still or move to one\nout of four neWefinal positions. Target jumps\noccurred when\\the hand of the participant\nreached a distance from the screen during the\ntarget reaching that was equal or less than 25\ncm." + "text": "InterProScan (http://www.ebi.ac.uk/interpro/interproscan.html) is\nthe underlying software application that allows both protein\nand nucleic acid sequences to be scanned against\nInterPro's predictive models (profile hidden Markov\nmodels, profiles, position-specific scoring matrices and\nregular expressions), which are provided by the resource’s\nmember databases. InterProScan produces output in\ndifferent formats including tsv, xml, json and svg." }, { - "id": 81797, - "strid": "fc2e7e85-6a00-40df-bdb2-96c3c4e41804", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 771, + "strid": "74d2756a-5da6-43ed-981d-4806dcbe2a2f", + "image_id": 33, + "image_name": "11601.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 64.054, - 1874.533, - 1577.971, - 422.72299999999996 + 151.06, + 3175.002, + 1459.169, + 975.011 ], "priority": 9, "parents": [ - 81785 + 769 ], - "children": [], - "area": 120071.336782, + "children": [ + 772 + ], + "area": 479615.80212, "iscrowd": 0, "segmentation": [] }, { - "id": 81791, - "strid": "80c17c37-c383-48d5-ae33-0408374f858c", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 3, - "category_name": "Text", + "id": 772, + "strid": "cc197f32-fc05-4a8c-8dc3-52c54b900441", + "image_id": 33, + "image_name": "11601.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 62.63, - 2301.791, - 1576.913, - 195.64400000000023 + 179.365, + 4163.158, + 1467.063, + 153.59100000000035 ], "priority": 10, "parents": [ - 81785 + 771 ], "children": [], - "area": 144161.17033000002, + "area": 746724.8346700001, "iscrowd": 0, "segmentation": [], - "text": "The human kinematic data were ‘retargeted onto the COMAN actual skeleton afteryinverse\nkinematic analysis and used-to train the three robotic controllers. The controllers Were-then\nintegrated into the COMAN:«kinematic simulator and used to simulate the same reaching\nmovements accomplished by human participants." + "text": "Figure 2: InterProScan matches for UniProtKB protein Q3JCG5\nshowing predicted protein family membership, domains and\nsites." }, { - "id": 81798, - "strid": "5973669a-846c-48bf-970a-ed520bc6b7a5", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 773, + "strid": "e52d7d92-8273-4804-88a8-cd4200c82d2b", + "image_id": 33, + "image_name": "11601.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 63.583, - 2560.224, - 1585.133, - 529.6239999999998 + 1707.122, + 747.94, + 782.133, + 53.08100000000002 ], "priority": 11, "parents": [ - 81785 + 762 + ], + "children": [ + 777, + 775, + 774 + ], + "area": 1276824.82868, + "iscrowd": 0, + "segmentation": [], + "text": "Residue-level annotation" + }, + { + "id": 774, + "strid": "d004f635-3eea-4519-8bf4-b5db23130dea", + "image_id": 33, + "image_name": "11601.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1703.827, + 810.624, + 1470.5490000000002, + 395.23800000000006 + ], + "priority": 12, + "parents": [ + 773 ], "children": [], - "area": 162786.722592, + "area": 1381163.058048, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Two recently added member databases, CDD and\nSFLD, provide specific residue-level annotation,\nenabling identification of important amino acids,\nsuch as those comprising ligand-binding or active\nsites. These provide an additional tier to the\nannotations provided by InterPro." }, { - "id": 81812, - "strid": "24c23d66-3f96-4878-b01f-9e888d350309", - "image_id": 203682, - "image_name": "120732.png", + "id": 775, + "strid": "130beabe-9e16-47be-bfcb-eb1cf9cc2a4e", + "image_id": 33, + "image_name": "11601.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 335.349, - 3121.417, - 1025.22, - 392.71399999999994 + 1708.272, + 1207.443, + 1275.4409999999998, + 726.137 ], - "priority": 12, + "priority": 13, "parents": [ - 81785 + 773 ], "children": [ - 81795 + 776 ], - "area": 1046764.0695329999, + "area": 2062641.0684959998, "iscrowd": 0, "segmentation": [] }, { - "id": 81795, - "strid": "fd225d71-cda4-4770-8a75-fb980c2c32b5", - "image_id": 203682, - "image_name": "120732.png", + "id": 776, + "strid": "0f276eb9-285b-49c3-b4b4-05a482994de6", + "image_id": 33, + "image_name": "11601.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 220.404, - 3538.029, - 1294.77, - 31.842999999999847 + 1713.403, + 1955.761, + 1436.7519999999997, + 160.3739999999998 ], - "priority": 13, + "priority": 14, "parents": [ - 81812 + 775 ], "children": [], - "area": 779795.743716, + "area": 3351006.764683, "iscrowd": 0, "segmentation": [], - "text": "Representative example of one movie used as visual stimulus in the psychophysical experiments" + "text": "Figure 3: CDD and SFLD profiles are annotated with residue\ninformation for specific amino acids important for function,\nbinding, etc." }, { - "id": 81799, - "strid": "1319bf49-a25e-4fb6-9a1f-8237dc04c1e0", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 777, + "strid": "fc204f93-2422-43fe-9754-dccc441cab64", + "image_id": 33, + "image_name": "11601.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 63.619, - 3625.821, - 1260.012, - 719.3630000000003 + 1719.829, + 2143.996, + 1428.043, + 629.2150000000001 ], - "priority": 14, + "priority": 15, "parents": [ - 81785 + 773 ], - "children": [], - "area": 230671.106199, + "children": [ + 778 + ], + "area": 3687306.496684, "iscrowd": 0, "segmentation": [] }, { - "id": 81792, - "strid": "902dc0ff-12f5-486a-a713-15d7a54fd504", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 3, - "category_name": "Text", + "id": 778, + "strid": "0688ec8f-3743-429e-8589-d74b9082a6ad", + "image_id": 33, + "image_name": "11601.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 62.306, - 4367.311, - 1585.063, - 162.97099999999955 + 1708.038, + 2820.095, + 1443.4450000000002, + 177.70499999999993 ], - "priority": 15, + "priority": 16, "parents": [ - 81785 + 777 ], "children": [], - "area": 272109.679166, + "area": 4816829.42361, "iscrowd": 0, "segmentation": [], - "text": "Experiment 2\n\nInvestigation_of possible influence of learning on the perception of human-likeness and\nnaturalnessyat the beginning of the experiment." + "text": "Figure 4: When a sequence matches a relevant profile\nin InterProScan, the appropriate matching amino acids\nare highlighted in the output." }, { - "id": 81800, - "strid": "5b532591-76d4-4ca4-b730-75468c35eb78", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 779, + "strid": "68a51e8d-9e11-4d57-b484-6c0420c7b4d2", + "image_id": 33, + "image_name": "11601.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 66.428, - 4536.292, - 1537.0950000000003, - 144.78899999999976 + 1717.515, + 3032.54, + 1230.9690000000003, + 66.7829999999999 ], - "priority": 16, + "priority": 17, "parents": [ - 81785 + 762 ], - "children": [], - "area": 301336.804976, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81794, - "strid": "27447183-a5a9-4280-95b9-e96294f848ac", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 662.437, - 4697.329, - 383.46400000000006, - 49.08299999999963 - ], - "priority": 17, - "parents": [ - 81785 + "children": [ + 781, + 780 ], - "children": [], - "area": 3111684.530773, + "area": 5208432.9381, "iscrowd": 0, "segmentation": [], - "text": "Kinematic analysis" - }, - { - "id": 81801, - "strid": "ab55a101-9284-48a5-85b6-8596b0d8350c", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 63.904, - 4773.175, - 827.984, - 344.7370000000001 - ], - "priority": 18, - "parents": [ - 81785 - ], - "children": [], - "area": 305024.97520000004, - "iscrowd": 0, - "segmentation": [] + "text": "Intrinsically disordered protein regions" }, { - "id": 81793, - "strid": "aa7d4ee9-1753-4160-ad98-fdb6c2eece91", - "image_id": 203682, - "image_name": "120732.png", + "id": 780, + "strid": "dc7f29dc-3105-4d81-8dda-f9fb3d531e83", + "image_id": 33, + "image_name": "11601.png", "category_id": 3, "category_name": "Text", "bbox": [ - 920.082, - 4771.964, - 715.1440000000001, - 337.9229999999998 - ], - "priority": 19, - "parents": [ - 81785 - ], - "children": [], - "area": 4390598.181048, - "iscrowd": 0, - "segmentation": [], - "text": "Fourier series\n\n12 mkt\n\nx(t) = dee r\n\n \n\nwhere M is an integer, C; is complex, and i is the\nimaginery unit." - }, - { - "id": 81802, - "strid": "5aa96698-bbac-4aca-a7ce-aca0bc68ccb0", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 63.979, - 5146.311, - 1582.875, - 317.1220000000003 + 1710.264, + 3105.072, + 1477.077, + 600.2960000000003 ], - "priority": 20, + "priority": 18, "parents": [ - 81785 + 779 ], "children": [], - "area": 329255.83146899997, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81786, - "strid": "5a51da6f-aa35-41fd-9121-7cda3b9a6730", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2392.934, - 531.444, - 145.59299999999985, - 37.58299999999997 - ], - "priority": 21, - "parents": [ - 81813 - ], - "children": [ - 81810, - 81809, - 81805, - 81811, - 81807, - 81806 - ], - "area": 1271710.416696, + "area": 5310492.859008, "iscrowd": 0, "segmentation": [], - "text": "Results" - }, - { - "id": 81809, - "strid": "8cb769a0-4732-4dfc-8802-f82f2cccb9a4", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1676.043, - 626.981, - 1479.233, - 943.2349999999999 - ], - "priority": 22, - "parents": [ - 81786 - ], - "children": [], - "area": 1050847.116183, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81807, - "strid": "dfbe9f61-8b50-43f3-9b77-d71618444561", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 1675.475, - 1652.296, - 1573.9649999999997, - 299.39599999999996 - ], - "priority": 23, - "parents": [ - 81786 - ], - "children": [], - "area": 2768380.6406, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81810, - "strid": "b7c1936b-6b0a-4bb8-8f3c-777d0dfee0c9", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1676.123, - 2014.455, - 1486.6330000000003, - 940.8490000000002 - ], - "priority": 24, - "parents": [ - 81786 - ], - "children": [], - "area": 3376474.357965, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81806, - "strid": "d4dd5d37-c4fb-4669-9cf6-efd8718e825e", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 1678.561, - 3021.028, - 1573.416, - 144.32799999999997 - ], - "priority": 25, - "parents": [ - 81786 - ], - "children": [], - "area": 5070979.780707999, - "iscrowd": 0, - "segmentation": [] + "text": "To complement the capability to annotate signal\npeptides, transmembrane regions and coiled-coils,\nInterPro has added prediction of intrinsically\ndisordered regions (IDRs) - polypeptide segments\nthat have little or no three-dimensional structure\n-through integration of MobiDB Lite. This tool\ncombines eight different prediction methods to\ngenerate consensus IDR annotations, focusing on\nlong disordered regions." }, { - "id": 81811, - "strid": "edf32692-c520-4acf-810b-1ff7fa61c1a5", - "image_id": 203682, - "image_name": "120732.png", + "id": 781, + "strid": "dffd52e9-5a65-42e0-99c1-d042b1484cf2", + "image_id": 33, + "image_name": "11601.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1675.903, - 3222.946, - 1467.4979999999998, - 740.1149999999998 - ], - "priority": 26, - "parents": [ - 81786 - ], - "children": [], - "area": 5401344.870238, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81805, - "strid": "f10bd871-21f2-4fdd-be75-6ba47c7beee7", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 1684.355, - 4030.89, - 1576.337, - 494.75300000000016 - ], - "priority": 27, - "parents": [ - 81786 - ], - "children": [], - "area": 6789449.72595, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 81787, - "strid": "23f243eb-547e-4b5e-a78c-8930476a41b0", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2349.11, - 4592.722, - 242.2449999999999, - 40.67399999999998 + 1709.308, + 3715.425, + 1493.6279999999997, + 357.7550000000001 ], - "priority": 28, + "priority": 19, "parents": [ - 81813 + 779 ], "children": [ - 81804 - ], - "area": 10788809.17742, - "iscrowd": 0, - "segmentation": [], - "text": "Conclusions" - }, - { - "id": 81804, - "strid": "b502e69a-73c4-47eb-906e-625156e60e7b", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 1687.202, - 4664.188, - 1572.1030000000003, - 342.116 - ], - "priority": 29, - "parents": [ - 81787 + 782 ], - "children": [], - "area": 7869427.321976, + "area": 6350805.6759, "iscrowd": 0, "segmentation": [] }, { - "id": 81788, - "strid": "12f2f346-29f6-468a-9553-494eacd43565", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2358.856, - 5060.536, - 222.4699999999998, - 38.73099999999977 - ], - "priority": 30, - "parents": [ - 81813 - ], - "children": [ - 81803 - ], - "area": 11937075.706816, - "iscrowd": 0, - "segmentation": [], - "text": "References" - }, - { - "id": 81803, - "strid": "0e8130c2-067e-4425-b3e7-ba93337c74f5", - "image_id": 203682, - "image_name": "120732.png", - "category_id": 4, - "category_name": "List", + "id": 782, + "strid": "87397f87-8789-4654-9f29-7630f93e76b8", + "image_id": 33, + "image_name": "11601.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1678.627, - 5153.61, - 1571.761, - 299.0640000000003 + 1730.884, + 4101.525, + 1489.373, + 268.64599999999973 ], - "priority": 31, + "priority": 20, "parents": [ - 81788 + 781 ], "children": [], - "area": 8650988.893469999, + "area": 7099263.9980999995, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 5: Other sequence features in InterPro, including MobiDB\nLite IDR annotations for UniParc sequence UPI0003464803. IDRs\nhave a wide range of potential functions, from acting as flexible\nlinkers between domains, to interacting with other proteins and\nmodifying their activity." }, { - "id": 13050, - "strid": "f5db6190-9417-460e-8517-f9829574d2f1", - "image_id": 201025, - "image_name": "11481.png", + "id": 783, + "strid": "e981c0c9-0d08-4237-9fc2-e204a340f680", + "image_id": 34, + "image_name": "11607.png", "category_id": 9, "category_name": "Root", "bbox": [ - 2400.78, - 95.85, - 301.17999999999984, - 231.67999999999998 + 2505.93, + 55.32, + 201.80000000000018, + 209.57 ], "priority": -1, "parents": [], "children": [ - 13077, - 13072, - 13058, - 13051, - 13062, - 13053, - 13067, - 13052, - 13071, - 13066, - 13079, - 13068, - 13074, - 13076, - 13057, - 13078, - 13070, - 13063 + 785, + 809, + 789, + 799, + 786, + 784, + 811 ], - "area": 230114.763, + "area": 138628.0476, "iscrowd": 0, "segmentation": [] }, { - "id": 13051, - "strid": "3cc2934d-be61-411a-96fd-c39473030c5a", - "image_id": 201025, - "image_name": "11481.png", + "id": 784, + "strid": "c0f734af-923c-48a0-a79f-ce44b66321fb", + "image_id": 34, + "image_name": "11607.png", "category_id": 1, "category_name": "Title", "bbox": [ - 110.765, - 453.238, - 2535.305, - 140.16699999999997 + 162.012, + 82.9, + 2219.116, + 232.42 ], "priority": 1, "parents": [ - 13050 + 783 ], "children": [], - "area": 50202.90707, + "area": 13430.794800000001, "iscrowd": 0, "segmentation": [], - "text": "Human Islets~ Like Cell Aggregates (ICAs) Express Coxsackie~ Adenovirus receptors (CAR) and Decay\nAccelerating Factor (DAF or CD55) and Reveal A distinctive microRNA Diabetes~Associated Signature" + "text": "Mathematical modelling of promoter occupancies\nin MYC-dependent gene regulation\"" }, { - "id": 13052, - "strid": "3108ee2f-88d7-4e99-b683-bc981aaf4570", - "image_id": 201025, - "image_name": "11481.png", + "id": 785, + "strid": "74fe51dd-41f5-4754-a9db-4cbc5a1c939b", + "image_id": 34, + "image_name": "11607.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 68.944, - 788.769, - 2634.403, - 186.101 + 160.085, + 382.657, + 2251.525, + 244.28500000000003 ], "priority": 2, "parents": [ - 13050 + 783 ], "children": [], - "area": 54380.889936, + "area": 61257.645845, "iscrowd": 0, "segmentation": [], - "text": "Ammira S Alshabeeb Akil+2*, Anand Hardikar®, Allie Finlay1, Chi Nam Ignatius Pang>, Marc Wilkins>, William Rawlinson??> , Maria Craig?2:4\n\n1 Virology Research, Prince of Wales Hospital Research Laboratories, South Eastern Area Laboratory Services, Prince of Wales Hospital, Sydney NSW 2031, 2School of Women’s and Children’s Health, Faculty\nof Medicine, University of New South Wales, Sydney NSW 2052, 3School of Medical Sciences, Faculty of Medicine, University of New South Wales, Sydney, NSW 2052, 4Institute of Endocrinology and\nDiabetes, the Children’s Hospital at Westmead, Sydney NSW 2145, 5School of Biotechnology and Biomolecular Science, Faculty of Science, University of New South Wales, Sydney NSW 2052, NHMRC\n\nClinical Trials Centre, Sydney Medical School, University of Sydney, Sydney NSW 2006" + "text": "Uwe Benary’, Elmar Wolf?, Jana Wolf?\n\n \n\naMax Delbruck Center for Molecular Medicine (MDC), Berlin-Buch, Germany\nbDepartment of Biochemistry and Molecular Biology, Biocenter, University of Wurzburg, Wurzburg, Germany" }, { - "id": 13057, - "strid": "8f2c0883-5189-40ed-a71d-f9766201ffe6", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 786, + "strid": "a7c1d062-86e4-428b-b304-7735cc46b4e7", + "image_id": 34, + "image_name": "11607.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 39.722, - 1002.595, - 485.07000000000005, - 1042.543 + 102.538, + 726.658, + 319.359, + 42.22900000000004 ], "priority": 3, "parents": [ - 13050 + 783 ], - "children": [], - "area": 39825.078590000005, + "children": [ + 787, + 788 + ], + "area": 74510.058004, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 13062, - "strid": "8a19c654-dfd5-4f01-b851-fb84e3322bef", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 787, + "strid": "394ff166-f75b-4005-94e7-9270a3250764", + "image_id": 34, + "image_name": "11607.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 31.357, - 2097.186, - 465.659, - 340.52599999999984 + 99.885, + 824.621, + 738.029, + 604.945 ], "priority": 4, "parents": [ - 13050 + 786 ], "children": [], - "area": 65761.461402, + "area": 82367.268585, "iscrowd": 0, "segmentation": [] }, { - "id": 13068, - "strid": "2074f985-66a2-4df9-a069-21325c8e776f", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 3, - "category_name": "Text", + "id": 788, + "strid": "a3d4ec72-3644-4aaa-9932-c5c106908b07", + "image_id": 34, + "image_name": "11607.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 31.818, - 2469.462, - 457.147, - 262.587 + 915.777, + 822.384, + 816.3040000000001, + 607.315 ], "priority": 5, "parents": [ - 13050 + 786 ], "children": [], - "area": 78573.341916, + "area": 753120.3523680001, "iscrowd": 0, - "segmentation": [], - "text": "Cytopathic effects CPE following\nCVB-3 infection in insulin producing\nhuman &- cells. Uninfected control\nislets and islets infected with CVB-3 at 2,\n4, and 6 days post __ infection.\nMorphological changes were seen1-2\ndays post infection when the cells\nbecame more rounded and detached\nfrom the islet cluster into the medium." + "segmentation": [] }, { - "id": 13066, - "strid": "8c122226-1eb1-423d-9a0f-37e47974fa27", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 789, + "strid": "01f36d04-a8ff-40d1-806f-57937f6808d4", + "image_id": 34, + "image_name": "11607.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 28.794, - 2771.871, - 486.34400000000005, - 266.15700000000015 + 101.928, + 1532.639, + 683.688, + 55.66000000000008 ], "priority": 6, "parents": [ - 13050 + 783 ], "children": [ - 13056 + 794, + 797, + 790, + 793, + 795, + 796, + 792, + 791, + 798 ], - "area": 79813.253574, + "area": 156218.82799199998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Mathematical modelling\"" }, { - "id": 13056, - "strid": "e0123288-3c49-46fd-9f69-e3764a875d96", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 790, + "strid": "43e430c3-b014-485f-a66b-98a168834f1e", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 32.53, - 3066.546, - 479.87800000000004, - 298.7310000000002 + 99.011, + 1625.368, + 1613.157, + 115.45800000000008 ], "priority": 7, "parents": [ - 13066 + 789 ], "children": [], - "area": 99754.74137999999, + "area": 160929.31104799997, "iscrowd": 0, "segmentation": [], - "text": "Figure 4. Effect of CVB3 and CVB5\ninfection on human insulin producing\ncells. CVB3/CVB5-infected and uninfected\ncontrol islets were harvested at 3 days\nafter infection and stained with insulin and\nvirus specific (VP1) antibodies. Infected\ncells are stained red (Alexa Fluor 594),\ninsulin stained with green (Alexa fluor 488)\nVirus-infected insulin- containing cells\nwere readily identified by their yellow color" + "text": "What is the relation between MYC DNA binding affinity anc\noccupancy?" }, { - "id": 13072, - "strid": "2fa9d9de-a4de-4640-a02a-d0d8fed1deca", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 3, - "category_name": "Text", + "id": 791, + "strid": "4e2634a0-3b91-44e5-9f61-a91b8b526ba2", + "image_id": 34, + "image_name": "11607.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 34.714, - 3395.77, - 465.198, - 116.30499999999984 + 102.101, + 1772.606, + 776.548, + 508.5820000000001 ], "priority": 8, "parents": [ - 13050 + 789 ], "children": [], - "area": 117880.75978, + "area": 180984.845206, "iscrowd": 0, - "segmentation": [], - "text": "Australian Society of Medical\nResearch ASMR NSW\nScientific Meeting, 2014" + "segmentation": [] }, { - "id": 13074, - "strid": "340c056d-23e0-41a7-9a98-79cd536b2442", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 792, + "strid": "111b525b-a4a5-45ef-8b1d-0c1b122600a3", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 525.864, - 2139.923, - 366.26099999999997, - 436.134 + 978.51, + 1853.636, + 751.546, + 399.433 ], "priority": 9, "parents": [ - 13050 + 789 ], - "children": [ - 13075 - ], - "area": 1125308.468472, + "children": [], + "area": 1813801.36236, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The model describes the reversible binding of MYC\nto E-boxes and unspecific binding sites at random\nDNA sequences at steady state.\n\nAffinity is indirectly proportional to the dissociation\nconstant (KEbox, Ky)-\n\nOccupancy of E-boxes is the proportion of E-boxes\nbound by MYC in total number of E-boxes." }, { - "id": 13075, - "strid": "6a93a568-48e1-441f-adb7-2b0f7c266e26", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 793, + "strid": "42f711e4-c296-434e-9110-fc97276627a7", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 528.539, - 2593.535, - 350.9390000000001, - 172.9920000000002 + 99.563, + 2400.817, + 1623.035, + 114.28900000000021 ], "priority": 10, "parents": [ - 13074 + 789 ], "children": [], - "area": 1370784.395365, + "area": 239032.54297100002, "iscrowd": 0, "segmentation": [], - "text": "Figure 6: The changes in the\nexpression level of (CAR) and\n(DAF), EV-VP1, Insulin and PdX-1\nin the infected ICAs were analysed\nwith Immuno-fluorescent staining\nusing specific antibodies" + "text": "Does the number of MYC molecules permit high occupancies\nas observed in ChIP-sequencing experiments?" }, { - "id": 13070, - "strid": "3bc2fcda-b16b-47bd-b31f-c55264bc7149", - "image_id": 201025, - "image_name": "11481.png", + "id": 794, + "strid": "747546ad-ab71-4215-85f8-cc9a875c1279", + "image_id": 34, + "image_name": "11607.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 525.956, - 2779.346, - 363.68899999999996, - 370.7629999999999 + 98.883, + 2542.78, + 1627.628, + 779.3040000000001 ], "priority": 11, "parents": [ - 13050 + 789 ], - "children": [ - 13061 - ], - "area": 1461813.704776, + "children": [], + "area": 251437.71474, "iscrowd": 0, "segmentation": [] }, { - "id": 13061, - "strid": "140e35e4-0af9-4a09-b077-8786667983c3", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 795, + "strid": "3f1e9e27-eb6c-4d79-aac3-529434a12110", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 529.072, - 3166.507, - 369.7320000000001, - 354.7840000000001 + 101.947, + 3461.494, + 1639.466, + 114.7159999999999 ], "priority": 12, "parents": [ - 13070 + 789 ], "children": [], - "area": 1675310.191504, + "area": 352888.928818, "iscrowd": 0, "segmentation": [], - "text": "Figure2.Up-regulated miRNA\nassociated with genes in the\nT1D protein interaction\nnetwork. The miRNAs with at least\nten-fold increase in expression\nfollowing infection of islets with\nCVB3, CVB4, or CVBS targeted 37\nT1D susceptibility genes. The protein\nproducts for 28 of these T1D\nsusceptibility genes and __ their\nphysical interaction partners form a\nhighly connected network as shown\nabove." + "text": "To what extent does affinity, karyotype and chromatin status\naffect occupancy?" }, { - "id": 13053, - "strid": "0c9a8cb5-f15e-434c-9ad2-19a5d5d9b121", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 5, - "category_name": "Section", + "id": 796, + "strid": "ee921352-dfdb-45ab-9211-4d6d6b180118", + "image_id": 34, + "image_name": "11607.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1291.162, - 1034.789, - 145.39100000000008, - 26.528999999999996 + 99.527, + 3609.321, + 1645.955, + 766.1499999999996 ], "priority": 13, "parents": [ - 13050 - ], - "children": [ - 13054 + 789 ], - "area": 1336080.234818, + "children": [], + "area": 359224.891167, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 13054, - "strid": "d526f75b-a098-437e-9b5e-296810cc6587", - "image_id": 201025, - "image_name": "11481.png", + "id": 797, + "strid": "076d12c8-57e1-4cf1-bf53-1e1ef534b4a8", + "image_id": 34, + "image_name": "11607.png", "category_id": 3, "category_name": "Text", "bbox": [ - 536.906, - 1072.195, - 1651.609, - 295.3620000000001 + 211.025, + 4408.205, + 650.882, + 57.136999999999716 ], "priority": 14, "parents": [ - 13053 + 789 ], "children": [], - "area": 575667.9286699999, + "area": 930241.460125, "iscrowd": 0, "segmentation": [], - "text": "Human enterovirus (HEV) infections, specifically Coxsackievirus B (CVB), demonstrate -cell tropism and are\nassociated with type 1 diabetes (T1D).\n\nPrevious studies have shown that Coxsackie-Adenovirus receptors (CAR) and Decay Accelerating Factor (DAF) are\nboth required to initiate CVB infection in human and rodent models, but this has not been examined in Human Islets-\nLike Cells Aggregates (ICAs), which are derived from human islet progenitor cells.\n\nMicroRNAs function as translational repressors and are important regulators of key biological processes, although\ntheir role in virus induced —cell death has not been examined" + "text": "Simulations consider the genome size and number of\nE-boxes of U20S cells." }, { - "id": 13058, - "strid": "48d0fc81-e9a2-4e2a-b99c-4cd51e3c11fe", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 5, - "category_name": "Section", + "id": 798, + "strid": "263194b6-c29b-47de-82b6-d131f5633119", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1277.926, - 1413.51, - 171.21000000000004, - 25.92599999999993 + 1058.942, + 4409.233, + 650.337, + 63.72099999999955 ], "priority": 15, "parents": [ - 13050 - ], - "children": [ - 13059 + 789 ], - "area": 1806361.1802599998, + "children": [], + "area": 4669122.011486, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "A particular set of published dissociation constants\nKEbox and Ky is assumed." }, { - "id": 13059, - "strid": "16269486-b8ad-43c6-92e9-3644c1cc94f7", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 3, - "category_name": "Text", + "id": 799, + "strid": "31e0b269-dd86-4f10-a6cb-6fd125e52b83", + "image_id": 34, + "image_name": "11607.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 537.466, - 1450.589, - 1650.864, - 98.75600000000009 + 1902.039, + 717.249, + 509.4419999999998, + 53.5 ], "priority": 16, "parents": [ - 13058 + 783 ], - "children": [], - "area": 779642.267474, + "children": [ + 803, + 801, + 802, + 807, + 808, + 804, + 805, + 806, + 800 + ], + "area": 1364235.5707110001, "iscrowd": 0, "segmentation": [], - "text": "We hypothesise that (i) CBV infection of HICS is associated with up-regulation of CAR and DAF receptors and down-\nregulation of insulin and pdx-1 genes; -cell death and (ii) CVB infection of HICS alters microRNA abundance, thereby\nregulating gene expression." + "text": "Experimental data\"" }, { - "id": 13063, - "strid": "c703deae-bdb7-4d16-a89d-355d97f3ecfc", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 5, - "category_name": "Section", + "id": 800, + "strid": "b2f1d66c-5395-48a6-9c48-93bbf562f205", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1293.189, - 1576.488, - 142.43399999999997, - 25.42599999999993 + 1900.448, + 825.759, + 947.9420000000002, + 44.888000000000034 ], "priority": 17, "parents": [ - 13050 - ], - "children": [ - 13055 + 799 ], - "area": 2038696.940232, + "children": [], + "area": 1569312.040032, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 13055, - "strid": "83fc2f72-2b47-4676-8fa7-71967f0a5330", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 4, - "category_name": "List", + "id": 801, + "strid": "f08d7ede-29bc-4716-8406-ca6e7d0e77d8", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 537.859, - 1614.82, - 1653.185, - 463.5930000000001 + 1913.516, + 922.55, + 634.5819999999999, + 33.33000000000004 ], "priority": 18, "parents": [ - 13063 + 799 ], "children": [], - "area": 868545.4703800001, + "area": 1765314.1858, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "MYC overexpression and knockdown (WB)" }, { - "id": 13067, - "strid": "4419fff4-2e8f-4af0-8fa7-7a3f4dc7dddf", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 5, - "category_name": "Section", + "id": 802, + "strid": "388c544d-94bb-4922-84dc-87e38a58a611", + "image_id": 34, + "image_name": "11607.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1276.466, - 2154.671, - 118.54199999999992, - 25.51000000000022 + 2003.883, + 968.073, + 1161.39, + 308.3259999999999 ], "priority": 19, "parents": [ - 13050 - ], - "children": [ - 13060 + 799 ], - "area": 2750364.2726859995, + "children": [], + "area": 1939905.027459, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 13060, - "strid": "dc2be39b-988e-42f5-a87d-32ce704b3b25", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 4, - "category_name": "List", + "id": 803, + "strid": "2dcf8dd7-9020-467b-8b04-290819ad48d3", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 915.023, - 2190.805, - 842.3289999999998, - 732.77 + 1900.67, + 1381.467, + 1325.975, + 114.08899999999994 ], "priority": 20, "parents": [ - 13067 + 799 ], "children": [], - "area": 2004636.963515, + "area": 2625712.8828900005, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "ChiP-sequencing of wild-type and MYC overex-\npressing U2OS cells" }, { - "id": 13071, - "strid": "26e2a933-ca82-4295-93d0-6082d89dfe87", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 5, - "category_name": "Section", + "id": 804, + "strid": "8e0518e6-13a5-44a1-a90a-326e11a196a6", + "image_id": 34, + "image_name": "11607.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1226.25, - 3007.452, - 200.327, - 25.802999999999884 + 1947.414, + 1522.172, + 1204.077, + 387.26099999999997 ], "priority": 21, "parents": [ - 13050 - ], - "children": [ - 13064 + 799 ], - "area": 3687888.015, + "children": [], + "area": 2964299.063208, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 13064, - "strid": "0e2c6ce6-e208-4e0d-bb17-704d7b426444", - "image_id": 201025, - "image_name": "11481.png", + "id": 805, + "strid": "ad0c453c-15e3-4731-b35d-fb665f1bc15a", + "image_id": 34, + "image_name": "11607.png", "category_id": 3, "category_name": "Text", "bbox": [ - 930.194, - 3046.881, - 806.0059999999999, - 435.6709999999998 + 1900.775, + 2005.527, + 1312.299, + 113.28099999999995 ], "priority": 22, "parents": [ - 13071 + 799 ], "children": [], - "area": 2834190.4249139996, + "area": 3812055.5834250003, "iscrowd": 0, "segmentation": [], - "text": "COXSACKEIVIRUS B (CVBs) infection to the Human Pancreatic\nIslets and Human Islets-Like Cell Aggregates (ICAs) lead to\nDYSREGULATION of multiple DIABETES- associated microRNAs\n\nDYSREGULATION of certain DIABETES associated microRNAs will:\n(1) Disrupt the protection of cellular integrity (2) Alterations in the\nImmune Response (3) Ultimate Pancreatic-B cell DEATH\n\nThe (ICAs STEM CELLS) are a NATURAL TARGET and\nRESERVOIRE for persistent CVB infection\n\nNO Effect on the INSULIN expression level at the early stages of viral\ninfection\n\nICAs STEM CELLS are a useful CELLULAR MODEL may further our\nunderstanding of the VIRUS induced DIABETES" + "text": "Promoter affinity stratifies distinct MYC regulated\nbiological processes at different MYC levels" }, { - "id": 13076, - "strid": "466aa219-f06f-4e51-b044-cf71438a17d3", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 806, + "strid": "de9edf62-fb9c-46e3-9159-01e6d1c96ef4", + "image_id": 34, + "image_name": "11607.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1775.04, - 2149.523, - 413.9850000000001, - 882.645 + 1899.763, + 2155.667, + 364.92599999999993, + 453.4870000000001 ], "priority": 23, "parents": [ - 13050 - ], - "children": [ - 13065 + 799 ], - "area": 3815489.30592, + "children": [], + "area": 4095256.4069209998, "iscrowd": 0, "segmentation": [] }, { - "id": 13065, - "strid": "28713dc9-e726-4e95-97ea-1a96cec24fe3", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 807, + "strid": "b1c15069-7d11-45f1-8462-9fe176f6eea5", + "image_id": 34, + "image_name": "11607.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1764.22, - 3086.235, - 433.7270000000001, - 260.58500000000004 + 2091.266, + 2178.71, + 717.2449999999999, + 615.7449999999999 ], "priority": 24, "parents": [ - 13076 + 799 ], "children": [], - "area": 5444797.511700001, + "area": 4556262.146860001, "iscrowd": 0, - "segmentation": [], - "text": "Figure 1. Heat map comparing expression\nof 105 microRNAs following infection of\nislets with CVB3, CVB4 or CVB5. The\nmiRNAs are clustered based on their fold-\nchange in expression using average\nlinkage clustering. The heat map shows\n23 miRNAs that are consistently up-\nregulated in CVB3, CVB4 and CVB5\ninfected cells." + "segmentation": [] }, { - "id": 13078, - "strid": "f4e364ce-e6b3-4dab-800e-f0519e1b5056", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 808, + "strid": "c6be2a2e-de35-464a-ac95-364c7f548078", + "image_id": 34, + "image_name": "11607.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2209.706, - 988.726, - 509.68499999999995, - 1022.147 + 2858.144, + 2155.187, + 358.8000000000002, + 614.5720000000001 ], "priority": 25, "parents": [ - 13050 + 799 ], "children": [], - "area": 2184793.7745560003, + "area": 6159834.792927999, "iscrowd": 0, "segmentation": [] }, { - "id": 13077, - "strid": "bef8b234-0347-4a02-83dc-de0f9bc61940", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 809, + "strid": "efe36076-df13-4b37-a20e-9e6f8fbb873b", + "image_id": 34, + "image_name": "11607.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2196.727, - 2067.958, - 509.7040000000002, - 379.9090000000001 + 1901.825, + 2942.805, + 291.77099999999996, + 42.108000000000175 ], "priority": 26, "parents": [ - 13050 + 783 ], "children": [ - 13073 + 810 ], - "area": 4542739.173466, + "area": 5596700.119125, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Discussion" }, { - "id": 13073, - "strid": "3d965551-efce-4df9-a8bb-d2cde616cce2", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 810, + "strid": "8191c4b1-9454-4c71-b0f0-9fbb1855f870", + "image_id": 34, + "image_name": "11607.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2229.252, - 2496.785, - 487.65599999999995, - 266.4540000000002 + 1900.294, + 3028.138, + 1325.628, + 587.8069999999998 ], "priority": 27, "parents": [ - 13077 + 809 ], "children": [], - "area": 5565962.95482, + "area": 5754352.472572, "iscrowd": 0, - "segmentation": [], - "text": "Figure5. Effect of CVB3 and CVB5\ninfection on human insulin producing\ncells. CVB3/CVB5-infected and uninfected\ncontrol islets were harvested at 3 and 6\ndays after infection and stained with insulin\nand virus specific (VP1) antibodies. Virus-\ninfected insulin- containing cells were\nreadily identified by their yellow-orange\ncolor by using double fluorescent staining" + "segmentation": [] }, { - "id": 13079, - "strid": "392710e4-6512-47f6-b2e5-429462331e86", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 2, - "category_name": "Figure", + "id": 811, + "strid": "fb939c8e-a7f5-4342-8148-b9c8df8404a7", + "image_id": 34, + "image_name": "11607.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2217.846, - 2823.387, - 517.4810000000002, - 347.9209999999998 + 1901.188, + 3687.034, + 298.759, + 43.13599999999997 ], "priority": 28, "parents": [ - 13050 + 783 ], "children": [ - 13069 + 813, + 812 ], - "area": 6261837.564402, + "area": 7009744.796392, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion" }, { - "id": 13069, - "strid": "e8905547-160f-498b-8485-72e87ffa5fe5", - "image_id": 201025, - "image_name": "11481.png", - "category_id": 6, - "category_name": "Caption", + "id": 812, + "strid": "f83fec86-8d8e-4196-9e22-005f0aad8a2a", + "image_id": 34, + "image_name": "11607.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2237.075, - 3215.642, - 486.80600000000004, - 226.6619999999998 + 1900.31, + 3768.602, + 1330.585, + 80.25300000000016 ], "priority": 29, "parents": [ - 13079 + 811 ], "children": [], - "area": 7193632.327149999, + "area": 7161512.06662, "iscrowd": 0, "segmentation": [], - "text": "Figure 3. Replication of CVBS clinical\nisolates in adult human R-cells. Floating\nislets were infected with high multiplicity\nof infection (MOI of 1/well) of CVB-2, CVB-\n3, CVB-4, and CVB-5 clinical isolate. The\nresults were shown as the mean + 95%\nconfidence intervals of three repeats." + "text": "Interactions of MYC with DNA-bound cofactors that increase its apparent binding affinity\ncan enhance occupancy." }, { - "id": 19763, - "strid": "afdaa5c7-e1a2-440b-bc2d-c2974a1324e0", - "image_id": 201279, - "image_name": "116867.png", + "id": 813, + "strid": "cad7b226-692b-4a67-9a9b-4bbf8036b93a", + "image_id": 34, + "image_name": "11607.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 1905.172, + 3887.832, + 1321.975, + 475.80700000000024 + ], + "priority": 30, + "parents": [ + 811 + ], + "children": [], + "area": 7406988.667104, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 814, + "strid": "d68cb13e-ba54-463d-8385-f9d03adb29fc", + "image_id": 35, + "image_name": "11656.png", "category_id": 9, "category_name": "Root", "bbox": [ - 19.26, - 116.5, - 66.71, - 63.599999999999994 + 37.15, + 45.79, + 73.91999999999999, + 229.15 ], "priority": -1, "parents": [], "children": [ - 19736, - 19740, - 19737, - 19738, - 19739, - 19735 + 817, + 826, + 841, + 815, + 830, + 838, + 834, + 843, + 816, + 822, + 819 ], - "area": 2243.79, + "area": 1701.0984999999998, "iscrowd": 0, "segmentation": [] }, { - "id": 19735, - "strid": "34277864-55b8-4dcf-bb7f-c07e6e5e98e0", - "image_id": 201279, - "image_name": "116867.png", + "id": 815, + "strid": "d89b0a7a-0946-4c87-a2cb-3c98c1097513", + "image_id": 35, + "image_name": "11656.png", "category_id": 1, "category_name": "Title", "bbox": [ - 38.98, - 34.979, - 1575.937, - 65.469 + 150.315, + 117.472, + 2324.515, + 43.373000000000005 ], "priority": 1, "parents": [ - 19763 + 814 ], "children": [], - "area": 1363.4814199999998, + "area": 17657.803679999997, "iscrowd": 0, "segmentation": [], - "text": "TENS Effectiveness: Have We Been Barking‘Up The Wrong RCT?" + "text": "CHANNHL CROSSTALK CORRECTION IN SUSPENSION & IMAGING\n\nMASS CYTOMETRY" }, { - "id": 19736, - "strid": "8c04898c-b851-4c53-8260-3eaeecb73783", - "image_id": 201279, - "image_name": "116867.png", + "id": 816, + "strid": "aecf16c6-016a-460d-897d-8a16ea7595eb", + "image_id": 35, + "image_name": "11656.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 178.705, - 113.101, - 1297.791, - 28.147999999999996 + 355.271, + 184.729, + 1913.3370000000002, + 35.028999999999996 ], "priority": 2, "parents": [ - 19763 + 814 ], "children": [], - "area": 20211.714205, + "area": 65628.856559, "iscrowd": 0, "segmentation": [], - "text": "Peter Gladwell, Specialist Physiotherapist Julie Bridson, Clinical Auditor North Bristol NHS Trust, Frenchay Hospital, Bristol, UK:" + "text": "Helena L Crowell\"*, Stéphane Chevrier’, Vito RT Zanotelli!:*, Stefanie Engler!, Mark D Robinson’, and Bernd Bodenmiller+" }, { - "id": 19737, - "strid": "fa9b7ac5-6d1e-44a6-a807-015e1ab2ccba", - "image_id": 201279, - "image_name": "116867.png", + "id": 817, + "strid": "fc7ea781-f63d-4555-aed0-5766f354b54c", + "image_id": 35, + "image_name": "11656.png", "category_id": 5, "category_name": "Section", "bbox": [ - 38.912, - 196.028, - 203.521, - 23.158999999999992 + 1145.783, + 545.094, + 1016.0880000000002, + 38.38300000000004 ], "priority": 3, "parents": [ - 19763 + 814 ], "children": [ - 19741 + 818 ], - "area": 7627.841536, + "area": 624559.438602, "iscrowd": 0, "segmentation": [], - "text": "Aim ofiifvestigation:" + "text": "Overview of bead-based compensation for mass cytometry data" }, { - "id": 19741, - "strid": "9264c003-fbc0-4170-bde1-2e664d9e08f3", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 818, + "strid": "b27124e3-b471-41c5-a5c6-e8237fa6297b", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 39.533, - 221.811, - 279.892, - 51.647999999999996 + 87.035, + 607.944, + 3150.924, + 1025.195 ], "priority": 4, "parents": [ - 19737 + 817 ], "children": [], - "area": 8768.854263000001, + "area": 52912.406039999994, "iscrowd": 0, - "segmentation": [], - "text": "To identify the types of benefit reported by long-term TENS\nSe ee ee coe\nTete a een\nin" + "segmentation": [] }, { - "id": 19738, - "strid": "2f0d1f0c-c445-4d02-b23d-c5fecf8c6ee4", - "image_id": 201279, - "image_name": "116867.png", + "id": 819, + "strid": "b9a1483d-97f7-41b1-b941-aabf5a0891d4", + "image_id": 35, + "image_name": "11656.png", "category_id": 5, "category_name": "Section", "bbox": [ - 40.124, - 301.261, - 121.97300000000001, - 22.870000000000005 + 462.536, + 1724.23, + 769.1099999999999, + 37.63000000000011 ], "priority": 5, "parents": [ - 19763 + 814 ], "children": [ - 19742 + 821, + 820 ], - "area": 12087.796364000002, + "area": 797518.44728, "iscrowd": 0, "segmentation": [], - "text": "Background:" + "text": "Correction of spillover artefacts in Suspension..." }, { - "id": 19742, - "strid": "f0c7b6bd-193d-401d-a759-fe7b5ba2afd7", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 820, + "strid": "637d8c68-6d97-4d95-911d-6774237ed278", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 39.642, - 327.548, - 287.562, - 172.96000000000004 + 80.157, + 1785.823, + 1542.185, + 591.9840000000002 ], "priority": 6, "parents": [ - 19738 + 819 ], "children": [], - "area": 12984.657816, + "area": 143146.214211, "iscrowd": 0, - "segmentation": [], - "text": "Laity el tncinahl ala cthhabiaclm tly aenalna chal\nees\nSe eed\nPeano\neo ee er\neee ee eee ee)\neee te ee\neee ee eters\nSe eee\ncontrast to the reports of benefit from significant Proportion\nof people with Chronic Pain who try TENS. This audi set out\neee een eee ee eri\nnachécaliatas base" + "segmentation": [] }, { - "id": 19739, - "strid": "20967129-b774-431d-bc76-70094d1deb2a", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 5, - "category_name": "Section", + "id": 821, + "strid": "29e1fe35-df79-4aeb-bdee-ea6a82633e90", + "image_id": 35, + "image_name": "11656.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 40.551, - 526.707, - 73.546, - 18.201000000000022 + 75.879, + 2402.49, + 1545.083, + 172.933 ], "priority": 7, "parents": [ - 19763 - ], - "children": [ - 19743, - 19744, - 19761, - 19762, - 19745, - 19752 + 819 ], - "area": 21358.495557000002, + "children": [], + "area": 182298.53871, "iscrowd": 0, "segmentation": [], - "text": "Method" + "text": "A. t-SNE map displaying data on a subset of 20'000 PBMCs analyzed with a 36-antibody panel and colored by marker\nexpression for a pair of antibodies labeled with two different metal isotopes. The percentages of spillover affecting each\nchannel in the uncompensated dataset are indicated. B. Heat maps showing the marker expressions in different\nPhenoGraph clusters. Dashed boxes highlight regions that changed upon compensation. C. Correlation heatmaps across all\nmarkers for one exemplary cluster." }, { - "id": 19743, - "strid": "c3bacc26-a5bd-4481-8e2e-b3c2f0f38466", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 822, + "strid": "1501ddd8-e78c-4bd8-b359-05da465f81d1", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 38.683, - 552.933, - 286.433, - 253.279 + 2198.45, + 1727.675, + 581.1109999999999, + 35.605999999999995 ], "priority": 8, "parents": [ - 19739 + 814 ], - "children": [], - "area": 21389.107239, + "children": [ + 824, + 825, + 823 + ], + "area": 3798207.10375, "iscrowd": 0, "segmentation": [], - "text": "sb immadpiiarsibebeanletibpet”.. “sthgrecbiaelasneniah Socata aasll\nappointment system withinyajwell-establshed TENS clinic was\npee eee TC eer!\nee ee eee\nee ee ees cee\nwere mare gipensive. The new system offered patients the\nce er eee te\nAppointment) The questionnaire found that this new system\nees\n\neee ee eed\nSee eee eee\nmeee eet kee ane aN\nmachine\n\neee eee ed\n\nSree\n\n“Because of my TENS machine | can." + "text": "...and imaging mass cytometry (IMC)" }, { - "id": 19762, - "strid": "c840494f-a887-40d3-80dd-f48485dda5be", - "image_id": 201279, - "image_name": "116867.png", + "id": 823, + "strid": "532ecd64-29dd-413b-94ca-5415f96b350d", + "image_id": 35, + "image_name": "11656.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 360.924, - 196.832, - 261.95399999999995, - 198.62400000000002 + 1704.575, + 1801.208, + 1534.2539999999997, + 381.0300000000002 ], "priority": 9, "parents": [ - 19739 + 822 ], "children": [], - "area": 71041.39276799999, + "area": 3070294.1266, "iscrowd": 0, "segmentation": [] }, { - "id": 19745, - "strid": "586811cf-26ab-42b5-b2da-bd341888ddbf", - "image_id": 201279, - "image_name": "116867.png", + "id": 824, + "strid": "8978677a-b22f-4d31-b3be-0434acf19ffd", + "image_id": 35, + "image_name": "11656.png", "category_id": 3, "category_name": "Text", "bbox": [ - 360.327, - 405.248, - 272.46299999999997, - 54.31400000000002 + 1689.689, + 2205.898, + 1154.6120000000003, + 368.1199999999999 ], "priority": 10, "parents": [ - 19739 + 822 ], "children": [], - "area": 146021.796096, + "area": 3727281.5857220003, "iscrowd": 0, "segmentation": [], - "text": "Lich in: Meaghan: pipleenaahaner bane thi dengan nh:\nthan three years. Ths suggests that the sample were highly\nexperienced in using TENS, and had persisted in using TENS\n‘So aa ar py" + "text": "A. Representative image of a breast cancer tissue sample imaged by IMC. Shown are\nimages of '®SEr (used to label antibody to carbonic anhydrase), '®’Er (no antibody labeled\nwith this metal), and 168Er (used to label anti-KI67). For visualization, a median filter was\nused to reduce noise. The spillover matrix was computed from pixel values of individually\nspotted heavy metals, and images were compensated at the pixel rather than the single-cell\nlevel. Red arrows indicate parts of the image where low signal was removed upon\ncompensation. B. Segmentation mask shown on the representative images described in\npanel A. The mean pixel intensities of the signals observed in the indicated channels per cell\nwere calculated using a customized CellProfiler module. C. Scatterplots of single cell\nsegmentation data from the IMC images. The arcsinh transformed ion counts (cofactor of 2)\nare shown. Spillover artifacts are largely removed upon compensation." }, { - "id": 19761, - "strid": "2b8ab7b9-3f0e-495f-b00e-4be932d42425", - "image_id": 201279, - "image_name": "116867.png", + "id": 825, + "strid": "46e441d3-dd35-47a5-b4aa-c9a4147aed02", + "image_id": 35, + "image_name": "11656.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 360.511, - 493.925, - 284.47999999999996, - 285.46199999999993 + 2863.383, + 2186.292, + 372.26099999999997, + 379.5 ], "priority": 11, "parents": [ - 19739 + 822 ], "children": [], - "area": 178065.395675, + "area": 6260191.345836, "iscrowd": 0, "segmentation": [] }, { - "id": 19744, - "strid": "9ce8c375-e07c-4dae-912f-1e02532b38b0", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 826, + "strid": "33c5dc55-db06-4198-acbd-fb32b36271d5", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 360.528, - 812.811, - 288.717, - 39.313999999999965 + 248.384, + 2662.227, + 687.361, + 65.57900000000018 ], "priority": 12, "parents": [ - 19739 + 814 ], - "children": [], - "area": 293041.124208, + "children": [ + 829, + 827, + 828 + ], + "area": 661254.5911679999, "iscrowd": 0, "segmentation": [], - "text": "Lede. daalnatdarl ealeeaeaaealeneshed salad nag\neee ores\nPan oni tare" + "text": "NNLS compensation accounts for saturation effects\n& preserves mass cytometry data structure" }, { - "id": 19752, - "strid": "88dec535-993b-492f-b667-ae596256fc06", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 827, + "strid": "70998f3f-4732-4fdb-9478-1d5fbdeb5ac2", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 360.857, - 865.496, - 272.85100000000006, - 82.755 + 88.1, + 2740.067, + 1020.677, + 673.5280000000002 ], "priority": 13, "parents": [ - 19739 + 826 ], "children": [], - "area": 312320.290072, + "area": 241399.90269999998, "iscrowd": 0, "segmentation": [] }, { - "id": 19740, - "strid": "5411c811-4bb9-4d3c-a0b7-03446872c5c1", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 5, - "category_name": "Section", + "id": 828, + "strid": "07577327-2b1c-4f78-be7d-ac175c21b617", + "image_id": 35, + "image_name": "11656.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 681.477, - 196.175, - 268.93500000000006, - 48.543000000000006 + 80.376, + 3438.79, + 1023.934, + 347.299 ], "priority": 14, "parents": [ - 19763 + 826 ], - "children": [ - 19746, - 19753, - 19759, - 19749, - 19748, - 19754, - 19755, - 19757, - 19756, - 19747, - 19758, - 19751, - 19760, - 19750 - ], - "area": 133688.750475, + "children": [], + "area": 276396.18504, "iscrowd": 0, "segmentation": [], - "text": "Answers to the open ended\nquestions" + "text": "A. Dot plots showing the spillover for the indicated relationships assessed on cells\nstained with increasing amount of barcoding reagents. An increased amount of\nbarcoding was associated with a progressive decrease of spillover. B. Dot plots\nshowing the median counts in each channel potentially affected by spillover. For\neach dataset, the average sum of squares is shown on top. The relationship\ndemonstrated in panel A leads to a systematic overestimation in multiplexed\nstained cells. NNLS* compensation is robust to this effect. C. Scatter plots\nshowing signal due to anti-HLA-ABC labeled with '’?Yb and anti-CD3 labeled with\n173Yb from pooled single-stained beads and multiplexed-stained PBMCs. NNLS\ncompensation preserves the count abundance nature of mass cytometry data." }, { - "id": 19746, - "strid": "00bb2fae-a769-4c94-9be4-6b2ae49b5d73", - "image_id": 201279, - "image_name": "116867.png", + "id": 829, + "strid": "88f15e5b-8ed5-4226-86fc-1c8dda697014", + "image_id": 35, + "image_name": "11656.png", "category_id": 3, "category_name": "Text", "bbox": [ - 682.659, - 247.131, - 259.60800000000006, - 86.90399999999997 + 105.346, + 3877.008, + 903.158, + 424.04299999999967 ], "priority": 15, "parents": [ - 19740 + 826 ], "children": [], - "area": 168706.201329, + "area": 408427.284768, "iscrowd": 0, "segmentation": [], - "text": "oT Us\n\nee a ee ee\neee ere\nPlease complete the sentence below\n\nee ee" + "text": "*Estimation of real signal intensities using non-negative least squares (NNLS)\n\nThe intensity observed in a given channel j is a linear combination of real signal\nand contributions from a set of channels w, that spill into it:\n\nI j.observed = I jareat + S if 1 i, real\n\ni€w;\n\n \n\nMeasurement intensities may thence be viewed as the convolution of real intensities\nwith a spillover matrix capturing all interactions sj:\n\nI Lyeq° SM\n\nobserved ~ * real\n\nTo account for the fact that real signal would result in strictly non-negative counts, we solve\nfor real such that the least squares criterion is met under the constraint of non-negativity5®:\n\nMIN {Ly pcened — SM *Lyear)” *Corsered — SM *Lyeqy )¥ Site Teg =O" }, { - "id": 19754, - "strid": "eaf9c63c-2386-4bb7-bda8-3531d3288a0e", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 830, + "strid": "09b53d2a-fd84-4682-881c-a39fdad5a28d", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 681.712, - 347.581, - 288.769, - 502.025 + 1751.466, + 2663.861, + 915.634, + 65.91400000000021 ], "priority": 16, "parents": [ - 19740 + 814 ], - "children": [], - "area": 236950.138672, + "children": [ + 832, + 833, + 831 + ], + "area": 4665661.970225999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "CATALYST (Cytometry dATa anALYSis Tools):\nAn R package & Shiny GUI for preprocessing of mass cytometry data" }, { - "id": 19747, - "strid": "0c26fad7-0b6e-4466-a219-97b38f0a6ccf", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 831, + "strid": "147850db-1724-4741-ace2-0fc3bb5fea9a", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 681.877, - 876.827, - 274.38, - 100.702 + 1186.801, + 2737.527, + 747.0709999999999, + 578.9270000000001 ], "priority": 17, "parents": [ - 19740 + 830 ], "children": [], - "area": 597888.1642789999, + "area": 3248899.7811269998, "iscrowd": 0, - "segmentation": [], - "text": "oe red\n“anes yanmar eerie\nseen ete es)\n\nca rey\n\neae ee" + "segmentation": [] }, { - "id": 19753, - "strid": "f2dd57e5-4fd7-4b90-b511-3dd9fc69c4ca", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 832, + "strid": "fe74c664-2bf9-4b6c-a10a-a506cb04c346", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 681.331, - 990.543, - 277.519, - 109.01799999999992 + 1940.257, + 2737.527, + 1294.0719999999997, + 810.9229999999998 ], "priority": 18, "parents": [ - 19740 + 830 ], "children": [], - "area": 674887.652733, + "area": 5311505.924439, "iscrowd": 0, "segmentation": [] }, { - "id": 19758, - "strid": "aabcd4eb-287c-49e5-89d4-f4d1d01b79bf", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 833, + "strid": "82692bed-8395-48d5-8650-e243d279f98c", + "image_id": 35, + "image_name": "11656.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1003.128, - 197.706, - 283.55499999999995, - 393.438 + 1189.213, + 3339.603, + 738.441, + 202.83399999999983 ], "priority": 19, "parents": [ - 19740 + 830 ], "children": [], - "area": 198324.424368, + "area": 3971499.302439, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A. Schematic overview of the workflow used in the\nCATALYST package to generate a compensated file based\non beads stained with single antibodies. The graphical\noutputs generated throughout the process are shown\nabove each step. B. Screenshots depicting a selection of\nfeatures available within the Shiny GUI." }, { - "id": 19748, - "strid": "72e0320f-acbb-4a39-9c0a-7836c297c787", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 834, + "strid": "55c47d84-b2c4-46d4-a8e2-e8739ab33475", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1003.629, - 604.009, - 279.62800000000004, - 78.34799999999996 + 1412.707, + 3634.351, + 530.537, + 68.01699999999983 ], "priority": 20, "parents": [ - 19740 + 814 ], - "children": [], - "area": 606200.948661, + "children": [ + 837, + 835, + 836 + ], + "area": 5134273.098157001, "iscrowd": 0, "segmentation": [], - "text": "ecraceiik eahabendlite indecent lae lmao hi shi na}\nhave been removed.\n\nSe ee eee eee\nrurvey, which should inform the choice of outcome measures\nsrelie ipier=lt tesserae raha" + "text": "Single-cell based estimation of spillover\nprevents overcompensation" }, { - "id": 19756, - "strid": "1abf16c5-2cf8-4b52-bc58-10a7bbe20ef0", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 835, + "strid": "65b13af2-30f2-429a-b84c-427ab06db56b", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1003.08, - 697.139, - 260.7869999999999, - 85.89999999999998 + 1201.203, + 3710.479, + 377.0239999999999, + 629.4119999999998 ], "priority": 21, "parents": [ - 19740 + 834 ], "children": [], - "area": 699286.1881200001, + "area": 4457038.506236999, "iscrowd": 0, "segmentation": [] }, { - "id": 19757, - "strid": "95ed7b8b-3841-4ec1-8a3c-2c2e5ec05f35", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 836, + "strid": "e08bf17d-cda0-404e-a5f7-513b9d7e9008", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1002.86, - 797.191, - 210.57299999999998, - 127.02599999999995 + 1593.806, + 3710.479, + 573.326, + 303.8000000000002 ], "priority": 22, "parents": [ - 19740 + 834 ], "children": [], - "area": 799470.96626, + "area": 5913783.693074, "iscrowd": 0, "segmentation": [] }, { - "id": 19749, - "strid": "86a4cb24-caa9-4c30-9ff2-4854be31c3e9", - "image_id": 201279, - "image_name": "116867.png", + "id": 837, + "strid": "9530b535-2bbc-4675-87da-4d6db7306964", + "image_id": 35, + "image_name": "11656.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1003.981, - 937.557, - 251.61799999999994, - 27.60699999999997 + 1599.928, + 4037.916, + 571.075, + 303.71799999999985 ], "priority": 23, "parents": [ - 19740 + 834 ], "children": [], - "area": 941289.414417, + "area": 6460374.8700480005, "iscrowd": 0, "segmentation": [], - "text": "arate, “ep mono nddimagen nme behind sienna\naren" + "text": "A. Median counts in each channel potentially\naffected by spillover. Assessing the spillover\nin single-stained beads using summary\nstatistics at the population level lead to\novercompensation, and spillover estimation\nwas more accurate when assessed at the\nsingle-bead level. B. Schematic description of\nspillover estimation at the population and the\nsingle-cell level." }, { - "id": 19750, - "strid": "537c7703-0962-4a8c-9fb8-7c1a7ec96c30", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 3, - "category_name": "Text", + "id": 838, + "strid": "df3ef68f-6f8b-46bb-a69a-702bc2febfe7", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1003.515, - 990.127, - 272.2789999999999, - 24.27800000000002 + 2511.647, + 3635.122, + 456.163, + 60.86299999999983 ], "priority": 24, "parents": [ - 19740 + 814 ], - "children": [], - "area": 993607.2964049999, + "children": [ + 840, + 839 + ], + "area": 9130143.265934, "iscrowd": 0, "segmentation": [], - "text": "i arent retell tel ell eee\nibe, ann eee" + "text": "Spillover estimates are stable\nover stainings, time & instruments" }, { - "id": 19755, - "strid": "1fdae6cd-2bbb-49ef-afdb-b93be6e9af67", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 839, + "strid": "4e44aff2-c51d-4dc2-b461-cefc69dfd433", + "image_id": 35, + "image_name": "11656.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1002.706, - 1030.272, - 288.60800000000006, - 67.8309999999999 + 2262.167, + 3712.037, + 973.719, + 306.91600000000017 ], "priority": 25, "parents": [ - 19740 + 838 ], "children": [], - "area": 1033059.916032, + "area": 8397247.604178999, "iscrowd": 0, "segmentation": [] }, { - "id": 19759, - "strid": "b9c6b6af-2392-4f14-b5d1-3dc4e55bdf82", - "image_id": 201279, - "image_name": "116867.png", - "category_id": 4, - "category_name": "List", + "id": 840, + "strid": "5a049ecf-dc8d-4455-99ea-87282890815d", + "image_id": 35, + "image_name": "11656.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1323.596, - 196.898, - 287.10300000000007, - 333.961 + 2249.356, + 4038.143, + 980.8299999999999, + 302.04399999999987 ], "priority": 26, "parents": [ - 19740 + 838 ], "children": [], - "area": 260613.40520799998, + "area": 9083221.185908, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A. Scatter plot displaying the means and standard deviations of the spillover\nmeasured on the same day (blue), after three days (green), and after four\nmonths (red). The origin of spillover (metal impurity vs. oxidation) is indicated.\nAlthough the spillover matrix could be stable over months, our results show\nthat for optimal compensation the spillover matrix should be acquired\nsimultaneously with the sample of interest. B. Scatter plot showing the total\namount of spillover in each individual channel for the seven matrices acquired\n4 months apart, for the four matrices acquired on two different machines, and\nfor the theoretical matrix provided by Fluidigm." }, { - "id": 19751, - "strid": "fd817869-fb3c-4400-ba9a-89181789c6d5", - "image_id": 201279, - "image_name": "116867.png", + "id": 841, + "strid": "200fbd76-3de3-4280-9dd0-90a71bf0476e", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1445.999, + 4430.785, + 184.8219999999999, + 24.10699999999997 + ], + "priority": 27, + "parents": [ + 814 + ], + "children": [ + 842 + ], + "area": 6406910.679215, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgment" + }, + { + "id": 842, + "strid": "9dc5a081-8ffc-434a-b360-af94febd1017", + "image_id": 35, + "image_name": "11656.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1324.392, - 556.598, - 287.672, - 131.85000000000002 + 380.902, + 4459.896, + 1252.627, + 190.9979999999996 ], - "priority": 27, + "priority": 28, "parents": [ - 19740 + 841 ], "children": [], - "area": 737153.938416, + "area": 1698783.306192, "iscrowd": 0, "segmentation": [], - "text": "Summary\n\nInformation fromitines who successfully use TENS machines\ncan guide the choice of sensitive outcome measures, and\nincrease the likelipood of a meaningful outcome from research,\neee ee eee\nbe explained by the focus in previous TENS trials upon pain\nBe nee\nSee eee ee ey\n\na pea onnncis Sent dyeerunashume he," + "text": "The authors thank Dr Hartland Jackson for providing the breast cancer tissue image, CyTOF facility of the University of Zurich\nfor providing us access to its instrument and, first and foremost, the Bodenmiller and Robinson laboratories for fruitful\ndiscussions and providing us with additional test data and feedback throughout the development of CATALYST.\n\nThis work was supported by the Swiss National Science Foundation (SNSF) R’Equip grant, a SNSF Assistant Professorship\ngrant PPOOP3-144874, the PhosphonetPPM and MetastasiX SystemsxX grant, and funding from the European Research\nCouncil (ERC) under the European Union's Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement\n\nn. 336921. S.C. was funded by a Roche Postdoctoral Fellowship." }, { - "id": 19760, - "strid": "63c68e1c-77f7-4bec-b912-ef2df937f070", - "image_id": 201279, - "image_name": "116867.png", + "id": 843, + "strid": "07bab0b3-c496-404e-a463-a569e1be2737", + "image_id": 35, + "image_name": "11656.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1681.225, + 4432.864, + 118.87400000000002, + 18.75799999999981 + ], + "priority": 29, + "parents": [ + 814 + ], + "children": [ + 844 + ], + "area": 7452641.778399999, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 844, + "strid": "b55ee4db-cc2e-4893-a63e-ebacc82d7b66", + "image_id": 35, + "image_name": "11656.png", "category_id": 4, "category_name": "List", "bbox": [ - 1324.675, - 715.537, - 286.317, - 217.26800000000003 + 1681.348, + 4467.322, + 1195.279, + 181.01800000000003 ], - "priority": 28, + "priority": 30, "parents": [ - 19740 + 843 ], "children": [], - "area": 947853.975475, + "area": 7511122.910056, "iscrowd": 0, "segmentation": [] }, { - "id": 39653, - "strid": "8ae9eb46-540d-4e3f-80e0-0e3f0b386658", - "image_id": 202058, - "image_name": "118072.png", + "id": 845, + "strid": "fff790bd-f071-4db7-b239-ff61deddc60d", + "image_id": 36, + "image_name": "116616.png", "category_id": 9, "category_name": "Root", "bbox": [ - 108.69, - 323.78, - 342.29, - 187.45000000000005 + 144.51, + 95.02, + 270.44, + 312.04 ], "priority": -1, "parents": [], "children": [ - 39632, - 39633, - 39630, - 39626, - 39631, - 39629, - 39627, - 39628, - 39634 + 866, + 847, + 864, + 846, + 850, + 848, + 854 ], - "area": 35191.648199999996, + "area": 13731.340199999999, "iscrowd": 0, "segmentation": [] }, { - "id": 39626, - "strid": "9a2187ac-5bf1-4220-8f4b-031583bb2062", - "image_id": 202058, - "image_name": "118072.png", + "id": 846, + "strid": "e6ddc065-4316-4d0e-a569-590efac663bd", + "image_id": 36, + "image_name": "116616.png", "category_id": 1, "category_name": "Title", "bbox": [ - 508.236, - 108.583, - 2675.181, - 237.989 + 219.552, + 491.048, + 2903.861, + 112.07899999999995 ], "priority": 1, "parents": [ - 39653 + 845 ], "children": [], - "area": 55185.789588, + "area": 107810.570496, "iscrowd": 0, "segmentation": [], - "text": "Clinical Pathoscope: Rapid alignment and filtration for\naccurate pathogen identification in clinical sequencing data" + "text": "Tolerability issues with Oral Anticlabetic Agents" }, { - "id": 39627, - "strid": "84370d19-2c5c-45ee-9f5b-c5e9f1173d16", - "image_id": 202058, - "image_name": "118072.png", + "id": 847, + "strid": "a799724e-57ef-4c00-ba73-a52e32a4ff8c", + "image_id": 36, + "image_name": "116616.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1032.675, - 355.97, - 1634.4889999999998, - 210.336 + 339.273, + 629.77, + 2667.978, + 235.61900000000003 ], "priority": 2, "parents": [ - 39653 + 845 ], "children": [], - "area": 367601.31975, + "area": 213663.95721000002, "iscrowd": 0, "segmentation": [], - "text": "Allyson Byrd’, Joseph Perez-Rogers* , Gary Benson?, W. Evan Johnson®®\n*Contributed equally\n4aProgram in Bioinformatics, Boston University, Boston, MA\n/Division of Computational-Biomedicine, Boston University School of Medicine, Boston, MA" + "text": "Cambra, R. F.*; Cruz, R. S. **\n\n* Graduate Student of Pharmacy, College of Health Technology of Coimbra - Polytechnic Institute of Coimbra. Portugal\n** Department of Pharmacy, College of Health Technology of Coimbra - Polytechnic Institute of Coimbra. Portugal" }, { - "id": 39628, - "strid": "cfe9d957-7c60-46df-9f2a-351f4f566f86", - "image_id": 202058, - "image_name": "118072.png", + "id": 848, + "strid": "3fe56f50-e6a7-49de-921c-dc52621b03be", + "image_id": 36, + "image_name": "116616.png", "category_id": 5, "category_name": "Section", "bbox": [ - 812.029, - 774.611, - 264.5709999999999, - 56.428999999999974 + 1501.76, + 953.922, + 413.8120000000001, + 52.321000000000026 ], "priority": 3, "parents": [ - 39653 + 845 ], "children": [ - 39635 + 849 ], - "area": 629006.595719, + "area": 1432561.9027200001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 39635, - "strid": "09b567b1-c941-424d-a57f-daf28c87e4e9", - "image_id": 202058, - "image_name": "118072.png", + "id": 849, + "strid": "9960217d-6849-4975-8c75-4541be82fdd7", + "image_id": 36, + "image_name": "116616.png", "category_id": 3, "category_name": "Text", "bbox": [ - 120.427, - 877.953, - 1644.382, - 897.8040000000001 + 280.521, + 1051.15, + 2814.698, + 416.192 ], "priority": 4, "parents": [ - 39628 + 848 ], "children": [], - "area": 105729.245931, + "area": 294869.64915000007, "iscrowd": 0, "segmentation": [], - "text": "The rapid and accurate identification of pathogens in human tissue samples has become a\nnecessity as novel disease-causing pathogens emerge and as existing pathogens increasingly\ndevelop resistance to broad spectrum antibiotics. With the increased affordability of mRNA\nsequencing, it is possible to investigate the microbiome of a given sample; however, clinical\nsamples contain a mixture of genomic sequences from various sources that complicates the\nidentification of pathogens. Here we present Clinical Pathoscope, a pipeline to rapidly and\naccurately remove host contamination, isolate microbial reads, and identify potential disease-\ncausing pathogens. To optimize the Clinical Pathoscope pipeline, data was simulated from\nhuman, bacterial, and viral genomes to create biologically realistic clinical samples. that\nrepresented a variety of host-pathogen landscapes. These data were then used to evaluate the\naccuracy, usability, and speed of multiple alignment algorithms and filtration methods. The\noptimal alignment algorithm and filtration methods were used to isolate microbial reads. These\nreads were then mapped against a robust pathogen database and assigned to their appropriate\ngenomes. Unique to other methods, Clinical Pathoscope can identify multiple pathogens from\nmixed samples and distinguish between very closely related species with very little coverage of\nthe genome and without the need for genome assembly. We demonstrate our approach using\nreal and simulated sequencing samples from children with respiratory tract infections, an HPV\ncell line, and a monkey with a novel adenovirus subtype." + "text": "As a general rule in type 2 diabetes can be a regular monitoring of blood glucose with oral antidiabetic agents. However, administration of\noral antidiabetic agents is often associated with adverse events for patients, influencing negatively either satisfaction, and treatment\nadherence. However, there are differences between antidiabetic classes of drugs, in consequence of their mechanisms of action. The\ntolerability is usually defined as the ability of the organism to sustain the effects of external agent.\n\nObjective: The purpose of this study was to analyze if oral therapy administered in patients with type II diabetes is well tolerated and its\ninfluence in the respective treatment tolerability." }, { - "id": 39630, - "strid": "0806bf7d-1db9-4294-9c08-771bfd676961", - "image_id": 202058, - "image_name": "118072.png", + "id": 850, + "strid": "cfc2b8e2-d400-49ee-80b7-acd547ab45c5", + "image_id": 36, + "image_name": "116616.png", "category_id": 5, "category_name": "Section", "bbox": [ - 751.744, - 1871.212, - 385.04599999999994, - 60.57899999999995 + 1333.86, + 1502.781, + 752.2970000000003, + 56.624000000000024 ], "priority": 5, "parents": [ - 39653 + 845 ], "children": [ - 39645, - 39644, - 39636 + 851, + 852 ], - "area": 1406672.393728, + "area": 2004499.4646599998, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Materials and Methods" }, { - "id": 39636, - "strid": "597130e7-eb96-43af-8ee4-d8154230ec5e", - "image_id": 202058, - "image_name": "118072.png", + "id": 851, + "strid": "35b35ff2-b562-4b66-a136-2705e3337674", + "image_id": 36, + "image_name": "116616.png", "category_id": 3, "category_name": "Text", "bbox": [ - 126.867, - 1975.632, - 1666.928, - 147.31899999999996 + 284.164, + 1681.775, + 1442.739, + 412.2109999999998 ], "priority": 6, "parents": [ - 39630 + 850 ], "children": [], - "area": 250642.50494400001, + "area": 477899.9111, "iscrowd": 0, "segmentation": [], - "text": "Goal\nTo rapidly and accurately identify all species, strains, and substrains present in a given sequencing\nsample" + "text": "We conducted a systematic review of literature without meta-analyse\nfrom the MEDLINE, between 2004-2011 about tolerability issues on\noral antidiabetic agents in type 2 diabetes..\n\nThe selection of reports was performed according to a methodology\nfor analysis of the title and abstract, and according to the criteria of\ninclusion." }, { - "id": 39644, - "strid": "33ed140b-4d4c-44b8-92b7-a0824b6c4e40", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 4, - "category_name": "List", + "id": 852, + "strid": "cf2742e2-c8fb-44b1-a3d0-dc81c08e7710", + "image_id": 36, + "image_name": "116616.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 122.073, - 2141.395, - 1450.918, - 149.21799999999985 + 1797.675, + 1652.359, + 1294.8700000000001, + 541.4470000000001 ], "priority": 7, "parents": [ - 39630 + 850 ], - "children": [], - "area": 261406.51183499998, + "children": [ + 853 + ], + "area": 2970404.4653249998, "iscrowd": 0, "segmentation": [] }, { - "id": 39645, - "strid": "ab12ba48-2cdb-461a-801d-ac5c0f983951", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 4, - "category_name": "List", + "id": 853, + "strid": "36a7d63e-5dd2-468c-8e80-213f01d3cb0a", + "image_id": 36, + "image_name": "116616.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 122.487, - 2314.26, - 1615.72, - 247.82400000000007 + 2140.376, + 1606.046, + 606.2370000000001, + 32.465999999999894 ], "priority": 8, "parents": [ - 39630 + 852 ], "children": [], - "area": 283466.76462000003, + "area": 3437542.3132960005, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 1: Stepwise literature search strategy" }, { - "id": 39631, - "strid": "8ea4770f-d1e1-45d0-b703-ede5563bca59", - "image_id": 202058, - "image_name": "118072.png", + "id": 854, + "strid": "bda0e325-94c8-4757-a740-1f4bf27111e7", + "image_id": 36, + "image_name": "116616.png", "category_id": 5, "category_name": "Section", "bbox": [ - 582.959, - 2662.915, - 725.524, - 59.621000000000095 + 1585.944, + 2243.109, + 242.3209999999999, + 55.01000000000022 ], "priority": 9, "parents": [ - 39653 + 845 ], "children": [ - 39649, - 39650 + 858, + 862, + 855, + 861, + 857, + 860 ], - "area": 1552370.2654849999, + "area": 3557445.259896, "iscrowd": 0, "segmentation": [], - "text": "Materials and Methods" + "text": "PX RS" }, { - "id": 39649, - "strid": "b6c18c6e-05c8-4a30-a3c8-5e3cf9602faa", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 2, - "category_name": "Figure", + "id": 855, + "strid": "0178aa9d-73ee-4b3b-ae07-6bdd753b0849", + "image_id": 36, + "image_name": "116616.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 125.609, - 2757.195, - 1638.537, - 571.4789999999998 + 77.933, + 2339.508, + 1619.107, + 1894.5410000000002 ], "priority": 10, "parents": [ - 39631 + 854 ], "children": [ - 39638 + 856 ], - "area": 346328.506755, + "area": 182324.876964, "iscrowd": 0, "segmentation": [] }, { - "id": 39638, - "strid": "bb08bd67-1c90-4719-a891-4ff6963c151b", - "image_id": 202058, - "image_name": "118072.png", + "id": 856, + "strid": "3fd3434b-4a8f-4683-92bd-7d5ed42c5172", + "image_id": 36, + "image_name": "116616.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 125.15, - 3362.51, - 1635.058, - 195.57000000000016 + 459.147, + 2362.944, + 859.979, + 38.215999999999894 ], "priority": 11, "parents": [ - 39649 + 855 ], "children": [], - "area": 420818.1265000001, + "area": 1084938.648768, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: A) Reference databases were collected from NCBI’s RefSeq. B) in silico samples were simulated to represent a\nvariety of clinical scenarios using the Mason [1] next-generation sequencing read simulator. C) Four read alignment\nalgorithms [2-5] were optimized by aligning the simulated data to each of the databases and varying the parameters. D)\nSee Figure 2. E) Using three clinical datasets [6-8], the final pipeline was tested, evaluated, and compared with the latest\npathogen identification methods, RINS and ReadScan [9,10]." + "text": "Table 1: Reports used for analysis and discussion of results" }, { - "id": 39650, - "strid": "f0c998d8-9191-4922-83dc-b29904eb741e", - "image_id": 202058, - "image_name": "118072.png", + "id": 857, + "strid": "103ec2e5-f1da-44a1-97f1-58c58d43826b", + "image_id": 36, + "image_name": "116616.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 125.808, - 3577.833, - 1265.499, - 802.989 + 1713.336, + 2443.403, + 361.8459999999998, + 443.3090000000002 ], "priority": 12, "parents": [ - 39631 - ], - "children": [ - 39639 - ], - "area": 450120.01406400005, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 39639, - "strid": "d8178f71-e7fc-4d6b-ae22-74de30628535", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 130.386, - 4404.073, - 1621.805, - 197.97800000000007 - ], - "priority": 13, - "parents": [ - 39650 + 854 ], "children": [], - "area": 574229.462178, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 2: Using the optimal aligner, various filtration methods were tested in an effort to minimize computation burden\nand maximize accuracy. Approaches tested include A) Naive Approach, B) Target Centric, C) Target Centric +\nReassignment, D) Host Centric + Reassignment, and E) Host Centric. Post filtration, all reads are aligned against the\ntarget genome library. The resulting read alignments are reassigned to the correct genome of origin using an\nExpectation Maximization algorithm as described previously." - }, - { - "id": 39629, - "strid": "0fc01cef-5ddb-4e30-a34f-f5d19aecd9f1", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2645.938, - 772.34, - 221.51299999999992, - 60.986999999999966 - ], - "priority": 14, - "parents": [ - 39653 - ], - "children": [ - 39651, - 39652, - 39637, - 39647, - 39648 - ], - "area": 2043563.7549200002, + "area": 4186370.3224079995, "iscrowd": 0, - "segmentation": [], - "text": "Results" + "segmentation": [] }, { - "id": 39648, - "strid": "3aabeaba-7ea1-49b0-8d8d-72c962badd27", - "image_id": 202058, - "image_name": "118072.png", + "id": 858, + "strid": "67d03117-7825-4c4c-8beb-6b483ae61195", + "image_id": 36, + "image_name": "116616.png", "category_id": 7, "category_name": "Table", "bbox": [ - 1937.7, - 873.894, - 813.2610000000002, - 595.424 + 2076.82, + 2354.222, + 1198.897, + 644.4769999999999 ], - "priority": 15, + "priority": 13, "parents": [ - 39629 + 854 ], "children": [ - 39643 + 859 ], - "area": 1693344.4038, + "area": 4889295.334040001, "iscrowd": 0, "segmentation": [] }, { - "id": 39643, - "strid": "f90b6f4d-690c-4dbe-92b0-7c37588d9150", - "image_id": 202058, - "image_name": "118072.png", + "id": 859, + "strid": "99db04e4-28fa-4385-b904-3fe35926ade1", + "image_id": 36, + "image_name": "116616.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2801.633, - 1002.758, - 740.4850000000001, - 155.89200000000005 - ], - "priority": 16, - "parents": [ - 39648 - ], - "children": [], - "area": 2809359.903814, - "iscrowd": 0, - "segmentation": [], - "text": "Table 1: The average time, sensitivity, and specificity\nfor each aligner when run with optimal parameters on\nthe simulated sequencing samples (100bp, 10 million\nreads) for each of the databases." - }, - { - "id": 39637, - "strid": "b7bfea7d-930f-4c0a-a5da-8266de085045", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 2804.354, - 1205.655, - 731.6109999999999, - 270.78700000000003 + 2162.251, + 2392.02, + 1021.308, + 40.327999999999975 ], - "priority": 17, + "priority": 14, "parents": [ - 39629 + 858 ], "children": [], - "area": 3381083.4218699997, + "area": 5172147.63702, "iscrowd": 0, "segmentation": [], - "text": "Bowtie2 demonstrated the best combination of\naccuracy and rapid run time for each of the databases\nand was therefore implemented for each alignment\nstep.\n\nBWA failed to run to completion with the bacterial\ndatabase." + "text": "Table 2: Incidence of tolerability inherent oral antidiabetics monotherapy" }, { - "id": 39652, - "strid": "bf075910-1e3d-4e0e-8a76-2f2a550191e7", - "image_id": 202058, - "image_name": "118072.png", + "id": 860, + "strid": "6132c953-b801-4da7-a5b4-0de1bc42e62a", + "image_id": 36, + "image_name": "116616.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1923.557, - 1532.343, - 1440.9400000000003, - 967.488 + 2459.167, + 3015.856, + 411.77300000000014, + 464.7739999999999 ], - "priority": 18, + "priority": 15, "parents": [ - 39629 - ], - "children": [ - 39642 + 854 ], - "area": 2947549.104051, + "children": [], + "area": 7416493.551952001, "iscrowd": 0, "segmentation": [] }, { - "id": 39642, - "strid": "b30aa420-e087-4a9d-a9b0-a474f2625bee", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 6, - "category_name": "Caption", + "id": 861, + "strid": "70ca5490-48c7-44e0-b8a6-348b175df356", + "image_id": 36, + "image_name": "116616.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1964.171, - 2545.774, - 1458.582, - 78.3130000000001 + 1707.451, + 3614.662, + 369.47800000000007, + 406.81899999999996 ], - "priority": 19, + "priority": 16, "parents": [ - 39652 + 854 ], "children": [], - "area": 5000335.463354, + "area": 6171858.246561999, "iscrowd": 0, - "segmentation": [], - "text": "Figure 3: A computational subtraction method using varying sequence read lengths and an ambiguous read\nreassignment algorithm based on a Bayesian statistical framework [9]." + "segmentation": [] }, { - "id": 39647, - "strid": "10945983-d0ed-4621-a37e-572925119f9f", - "image_id": 202058, - "image_name": "118072.png", + "id": 862, + "strid": "b25497f5-c6cb-44bc-95dc-2124bde81e38", + "image_id": 36, + "image_name": "116616.png", "category_id": 7, "category_name": "Table", "bbox": [ - 1923.931, - 2684.043, - 1601.5229999999997, - 388.029 - ], - "priority": 20, - "parents": [ - 39629 - ], - "children": [ - 39641 - ], - "area": 5163913.533033, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 39641, - "strid": "19b3aab3-919a-408a-85f2-591765c8108e", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1964.422, - 3098.724, - 1558.58, - 117.78200000000015 - ], - "priority": 21, - "parents": [ - 39647 - ], - "children": [], - "area": 6087201.597528, - "iscrowd": 0, - "segmentation": [], - "text": "Table 2: Across a range of read lengths and varying levels of genome converage, Clinical Pathoscope was able to\nsuccessfully decode the viral composition of a given sample in under 20 minutes, compared to an hour or more for\nother approaches." - }, - { - "id": 39651, - "strid": "b465cd8a-d5f5-400c-9663-90f334185917", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1917.95, - 3226.972, - 1033.296, - 579.5349999999999 + 2085.913, + 3473.523, + 1197.594, + 641.3429999999998 ], - "priority": 22, + "priority": 17, "parents": [ - 39629 + 854 ], "children": [ - 39640 + 863 ], - "area": 6189170.947400001, + "area": 7245466.781499, "iscrowd": 0, "segmentation": [] }, { - "id": 39640, - "strid": "f3f22ea4-ed60-4242-9cd5-816f9940714d", - "image_id": 202058, - "image_name": "118072.png", + "id": 863, + "strid": "ecb086bf-0518-4eac-8a31-32a60b8b1247", + "image_id": 36, + "image_name": "116616.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2830.86, - 3374.985, - 717.6349999999998, - 317.0619999999999 + 2107.204, + 3513.072, + 1157.2909999999997, + 35.72699999999986 ], - "priority": 23, + "priority": 18, "parents": [ - 39651 + 862 ], "children": [], - "area": 9554110.0371, + "area": 7402759.370688001, "iscrowd": 0, "segmentation": [], - "text": "Figure 4: To evaluate the ability to differentiate a\nhighly mutated virus, Clinical Pathoscope was tested\nona sample from a titi monkey infected with a novel\nadenovirus strain (ECC-2011, TmAdv) [4]. When the\nviral database does not include the TmAdv strain,\nreads map to closely related adenovirus strains.\nWhen the database does include the strain, all reads\nare reassigned to the correct viral genome." + "text": "Table 3: Incidence of tolerability inherent oral antidiabetics in combination therapy" }, { - "id": 39634, - "strid": "3a007912-8eaa-461d-9b2a-f913bcf2d83c", - "image_id": 202058, - "image_name": "118072.png", + "id": 864, + "strid": "7a4ccd10-8c54-426e-88f6-39d47619d5f1", + "image_id": 36, + "image_name": "116616.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2571.642, - 3915.626, - 368.529, - 60.01899999999978 + 683.805, + 4296.479, + 360.0010000000001, + 53.70600000000013 ], - "priority": 24, + "priority": 19, "parents": [ - 39653 + 845 ], "children": [ - 39646 + 865 ], - "area": 10069588.277892, + "area": 2937953.822595, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "Conclusion" }, { - "id": 39646, - "strid": "5ab7b155-5c80-43f4-8a9b-a8d692c742d2", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 4, - "category_name": "List", + "id": 865, + "strid": "3cfc5828-9729-4a1a-87db-97f6d4452134", + "image_id": 36, + "image_name": "116616.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1935.675, - 4006.049, - 1334.0909999999997, - 445.21900000000005 + 86.848, + 4419.695, + 1555.865, + 173.46399999999994 ], - "priority": 25, + "priority": 20, "parents": [ - 39634 + 864 ], "children": [], - "area": 7754408.898074999, + "area": 383841.67136, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The oral hypoglycemic agents are associated with numerous adverse events,\nincluding hypoglycemia, edema, and gastrointestinal effects. These issues\naffect not only tolerability satisfaction, but also adherence to therapy." }, { - "id": 39632, - "strid": "3489805b-02b9-43ae-8521-6c3bc7d8022f", - "image_id": 202058, - "image_name": "118072.png", + "id": 866, + "strid": "bf5d1caa-b15a-48fe-932f-eff22fe8630e", + "image_id": 36, + "image_name": "116616.png", "category_id": 5, "category_name": "Section", "bbox": [ - 636.688, - 4685.665, - 613.2509999999999, - 71.98099999999977 + 2339.277, + 4168.881, + 363.346, + 57.78899999999976 ], - "priority": 26, + "priority": 21, "parents": [ - 39653 + 845 ], - "children": [], - "area": 2983306.67752, + "children": [ + 867 + ], + "area": 9752167.439037, "iscrowd": 0, "segmentation": [], - "text": "Acknowledgements" + "text": "References" }, { - "id": 39633, - "strid": "69c9a71d-6ee4-4f92-ba38-1f7f522803ad", - "image_id": 202058, - "image_name": "118072.png", - "category_id": 5, - "category_name": "Section", + "id": 867, + "strid": "253a05ff-eb60-449a-9880-11346110ed85", + "image_id": 36, + "image_name": "116616.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2582.403, - 4536.967, - 346.78200000000015, - 61.38299999999981 + 1734.904, + 4280.789, + 1580.1150000000002, + 388.52499999999964 ], - "priority": 27, + "priority": 22, "parents": [ - 39653 + 866 ], "children": [], - "area": 11716277.191700999, + "area": 7426757.959256, "iscrowd": 0, "segmentation": [], - "text": "Yah aaa" + "text": "1 - Belcher et al. Elsevier. 2005; 2 - Charbonnel et al. Diabetes UK. 2005; 3 - Charbonnel et al.\nDiabetologia. 2005; 4 - Fujioka et al. Diabetes Obes Metab. 2005; 5 - Garber et al. Diabetes\nObes Metab. 2005; 6 - Matthews et al. Diabetes Metab Res Rev. 2005; 7 - Roberts et al. Clinical\nTherapeutics. 2005; 8 - Kahn et al. N Engl J Med. 2006; 9 - Rosenstock et al. Diabetes Obes\nMetab. 2006; 10 - Chao et al. Excerpta Medica. 2007; 11 - Davidson et al. Clinical Therapeutics.\n2007; 12 - Lewin et al. Clinical Therapeutics. 2007; 13 - Asche et al. Diabetes Obes Metab. 2008;\n14 - Asche et al. Drugs Aging. 2008; 15 - Seufert et al. Elsevier. 2008; 16 - Vexiau et al. Diabetes\nObes Metab. 2008; 17 - Pollack et al. Elsevier. 2010." }, { - "id": 146419, - "strid": "36e6920c-1dd3-4ac1-8522-a9e8c99bff63", - "image_id": 206184, - "image_name": "18711.png", + "id": 868, + "strid": "72f3e7c7-5b5c-433e-bb59-c722ee186551", + "image_id": 37, + "image_name": "116622.png", "category_id": 9, "category_name": "Root", "bbox": [ - 51.75, - 140.47, - 210.14, - 173.35999999999999 + 35.72, + 29.08, + 44.64, + 68.22 ], "priority": -1, "parents": [], "children": [ - 146384, - 146397, - 146414, - 146418, - 146386, - 146402, - 146383, - 146391, - 146401 + 896, + 880, + 893, + 873, + 871, + 870, + 869, + 898 ], - "area": 7269.3225, + "area": 1038.7376, "iscrowd": 0, "segmentation": [] }, { - "id": 146383, - "strid": "773c7170-b310-4d30-a83c-12bf28c31a07", - "image_id": 206184, - "image_name": "18711.png", + "id": 869, + "strid": "77e7b2ea-c8b0-4810-8013-e3970e250634", + "image_id": 37, + "image_name": "116622.png", "category_id": 1, "category_name": "Title", "bbox": [ - 69.887, - 82.298, - 2466.553, - 127.856 + 93.057, + 46.891, + 648.518, + 58.45600000000001 ], "priority": 1, "parents": [ - 146419 + 868 ], "children": [], - "area": 5751.560326, + "area": 4363.535787, "iscrowd": 0, "segmentation": [], - "text": "R interface to the Reactome Graph Database" + "text": "Effects of closure on the processing of invisible figures:\nAn ERP study" }, { - "id": 146384, - "strid": "2ea020df-53a4-4beb-af8f-48647a28172b", - "image_id": 206184, - "image_name": "18711.png", + "id": 870, + "strid": "9b0ae99c-777f-468b-bebb-74ba610777db", + "image_id": 37, + "image_name": "116622.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 67.223, - 234.127, - 3148.451, - 157.156 + 104.767, + 105.91, + 626.904, + 32.952 ], "priority": 2, "parents": [ - 146419 + 868 ], "children": [], - "area": 15738.719321, + "area": 11095.872969999999, "iscrowd": 0, "segmentation": [], - "text": "Chi-Lam Poon', Justin Cook2, Solomon Shorser?, Joel Weiser?, Robin Haw? and Lincoln Stein?\n\n'Weill Cornell Medicine, New York, NY, USA; 2Simon Fraser University, Burnaby, BC, Canada; ?Ontario Institute for Cancer Research, Toronto, ON, Canada" + "text": "Weina Zhu®* & Yuanye Ma’\n4¥unnan Univérsity, Kunming, China, Kunming Inistitute of Zoology, Chinese Academly Of Science, Kunming, China" }, { - "id": 146386, - "strid": "3ea13059-4e7e-4b28-8235-a6b92c90528e", - "image_id": 206184, - "image_name": "18711.png", + "id": 871, + "strid": "40dbe8cf-4229-4a29-84a3-548a8b0d7c16", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 658.557, - 471.193, - 305.82400000000007, - 59.073999999999955 + 165.38, + 169.311, + 83.11700000000002, + 13.211000000000013 ], "priority": 3, "parents": [ - 146419 + 868 ], "children": [ - 146385 + 872 ], - "area": 310307.448501, + "area": 28000.65318, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "" }, { - "id": 146385, - "strid": "0916743f-29f8-4c33-b4c7-28d5e198e917", - "image_id": 206184, - "image_name": "18711.png", + "id": 872, + "strid": "1320c5f5-4fe7-4f9e-99d5-fbf4d830d3ef", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 56.569, - 551.103, - 1526.28, - 570.024 + 21.625, + 194.591, + 370.811, + 124.20400000000001 ], "priority": 4, "parents": [ - 146386 + 871 ], "children": [], - "area": 31175.345607, + "area": 4208.030375, "iscrowd": 0, "segmentation": [], - "text": "Reactome is a knowledgebase of biomolecular pathways. As of the current release, its\nholdings comprise 13,827 human reactions organized into 2,536 pathways involving 11,084\nproteins, 1,857 small molecules, and 432 drugs, with the support of 33,752 literature\nreferences. These molecular entity and event annotations are systematically represented as\nan ordered network of molecular reactions, naturally forming a graph of biological\nknowledge. Reactome has migrated from a relational database to a Neo4j graph database for\nefficient storage, processing, and access with these highly interconnected data. To minimize\nthe usage of Neo4j Cypher, we developed an interface, ReactomeGraph4R, for interacting\nbetween R and the Reactome graph database. We developed a second R package,\nReactomeContentService4R, to wrap the RESTful API of the Content Service built on top of the\ngraph core. These packages are available through Bioconductor and fulfill the needs of omics\nanalyses with Reactome knowledge." + "text": "‘The specific nature of closure is important for the computation of an\nobject representation. The discrimination of closuie is typically faster\nand easier than that of other geometrical features (Pomerantz, Sager\net al. 1977; Treisman and Paterson 1984).\n\nIn order’ to investigate whether the specific nature of closure\nrequires conscious perception, we recorded Event-Related Potentials\n(ERPs) during a Continuous Flashed Suppression paradigm (CFS)\n(Tsuchiya and Koch 2005)" }, { - "id": 146402, - "strid": "705d1b42-9fd6-4280-8017-246b88a7062f", - "image_id": 206184, - "image_name": "18711.png", + "id": 873, + "strid": "9da78857-0398-4d80-af45-058f33fddfef", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 473.616, - 1555.539, - 691.364, - 66.31799999999998 + 177.863, + 326.672, + 59.56, + 13.728999999999985 ], "priority": 5, "parents": [ - 146419 + 868 ], "children": [ - 146409, - 146403, - 146405, - 146408, - 146406, - 146407, - 146404 + 876, + 875, + 877, + 874, + 878, + 879 ], - "area": 736728.1590239999, + "area": 58102.861936, "iscrowd": 0, "segmentation": [], - "text": "Fetching Reactome Instances" + "text": "Methods" }, { - "id": 146403, - "strid": "ee2f6f76-5438-45f9-8c61-c3cbdb831309", - "image_id": 206184, - "image_name": "18711.png", + "id": 874, + "strid": "80632b79-90a1-4481-be7a-efe78fcb3743", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 57.471, - 1646.726, - 1540.234, - 378.01199999999994 + 21.001, + 358.1, + 371.424, + 69.50400000000002 ], "priority": 6, "parents": [ - 146402 + 873 ], "children": [], - "area": 94638.989946, + "area": 7520.458100000001, "iscrowd": 0, "segmentation": [], - "text": "Basically, ReactomeGraph4R retrieves data with a network structure by translating R\ncommands to Cypher queries and communicating with a local Graph Database.\nReactomeContentService4R retrieves specific bits of information through\nconstructing and sending http requests to the Content Service. Returned data are formatted\nas R objects in the two packages.\n\nFor example, to fetch details of a protein \"misfolded CFTR [endoplasmic reticulum\nmembrane]\" with standard id R-HSA-886 8730 (a common functionality in both packages):" + "text": "Continuous Flash Supeisssion paradiga (CFS)\n\nStimuli: six pairs of well controlled figures were used as target stimuli,\nand one of the two figures in each pair is closed (Zhu, Zhang et al\n2012)." }, { - "id": 146404, - "strid": "266850eb-193d-48c7-973f-8499c59cad39", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", + "id": 875, + "strid": "d0e2d8c9-8e4d-4ec9-9c25-4e6b024472f2", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 67.419, - 2069.503, - 553.755, - 43.10699999999997 + 21.886, + 432.474, + 367.44, + 51.79599999999999 ], "priority": 7, "parents": [ - 146402 + 873 ], "children": [], - "area": 139523.82275700002, + "area": 9465.125963999999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Procedure: target stimuli and a flashedMondrian pattern were\ndisplayed separately in two eyes of the’ subjects. Subjects were\ngisttucted to respond when they seed of the figures." }, { - "id": 146405, - "strid": "37ccc0ff-1ee7-4645-a46f-0d1b6986f938", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", + "id": 876, + "strid": "865edf34-10aa-4541-bb3d-ff6da6e3ae84", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 117.157, - 2129.189, - 1430.809, - 391.27599999999984 + 20.558, + 489.582, + 368.768, + 91.63900000000001 ], "priority": 8, "parents": [ - 146402 + 873 ], "children": [], - "area": 249449.39567299996, + "area": 10064.826756, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Rehevices! Experiment : Maid\nThe intensity of the target stimuli were changed from low to high\nduring the experiment, and the stimuli and flashed masks were on\nthe screen until the subjects responded. The reaction time and\naccuracy of the subjects were analyzed." }, { - "id": 146406, - "strid": "a2b9c61b-e557-4abe-82f1-a9a007eab4fe", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", + "id": 877, + "strid": "7c34afde-0670-4508-bc08-8c7bbedd0226", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 55.813, - 2543.676, - 1056.113, - 155.8470000000002 + 20.991, + 590.966, + 124.687, + 13.724000000000046 ], "priority": 9, "parents": [ - 146402 + 873 ], "children": [], - "area": 141970.188588, + "area": 12404.967306, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "ERP Experiment : N=24" }, { - "id": 146407, - "strid": "c8a70a35-a3ed-46ea-8aa3-5b87378c9dd0", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 3, - "category_name": "Text", + "id": 878, + "strid": "b8be48c7-4d00-4e8a-aac7-518f9fabcbc8", + "image_id": 37, + "image_name": "116622.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 59.129, - 2742.63, - 775.92, - 36.47499999999991 + 21.562, + 610.769, + 368.649, + 237.39999999999998 ], "priority": 10, "parents": [ - 146402 + 873 ], "children": [], - "area": 162168.96927, + "area": 13169.401178, "iscrowd": 0, - "segmentation": [], - "text": "o ReactomeContentService4R function:" + "segmentation": [] }, { - "id": 146408, - "strid": "9ff38b12-0471-4f66-aa52-ea1ca15ca6fc", - "image_id": 206184, - "image_name": "18711.png", + "id": 879, + "strid": "7d9f5c53-8778-4c8d-820d-9a7c80d9d51a", + "image_id": 37, + "image_name": "116622.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 95.604, - 2808.948, - 958.2939999999999, - 477.48900000000003 + 20.988, + 848.324, + 378.77, + 123.37599999999998 ], "priority": 11, "parents": [ - 146402 - ], - "children": [], - "area": 268546.66459199996, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 146409, - "strid": "291a3726-b971-48c5-8ed7-6f1d907bac79", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 62.445, - 3289.753, - 1442.415, - 193.98000000000002 - ], - "priority": 12, - "parents": [ - 146402 + 873 ], "children": [], - "area": 205428.626085, + "area": 17804.624111999998, "iscrowd": 0, "segmentation": [] }, { - "id": 146391, - "strid": "5de50788-5a1d-49ec-89f2-5d0847eba326", - "image_id": 206184, - "image_name": "18711.png", + "id": 880, + "strid": "7f3d4431-a6fe-43b2-9930-10d9b57592de", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1925.497, - 471.327, - 932.7529999999999, - 57.78099999999995 + 594.746, + 168.738, + 47.745000000000005, + 13.900000000000006 ], - "priority": 13, + "priority": 12, "parents": [ - 146419 + 868 ], "children": [ - 146398, - 146399, - 146400, - 146387, - 146390, - 146389, - 146388 + 885, + 882, + 889, + 891, + 887, + 888, + 881, + 886, + 883, + 884, + 890, + 892 ], - "area": 907538.724519, + "area": 100356.250548, "iscrowd": 0, "segmentation": [], - "text": "Fetching preceding/following Reactions" + "text": "Results" }, { - "id": 146387, - "strid": "c207bf6e-0df8-432b-9780-ca29e9e72de7", - "image_id": 206184, - "image_name": "18711.png", + "id": 881, + "strid": "79a4693d-3f86-43b4-8a77-372eb07a2130", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1632.464, - 559.375, - 1535.328, - 189.85199999999998 + 442.096, + 193.839, + 102.85000000000002, + 10.877999999999986 ], - "priority": 14, + "priority": 13, "parents": [ - 146391 + 880 ], "children": [], - "area": 913159.5499999999, + "area": 85695.446544, "iscrowd": 0, "segmentation": [], - "text": "Events are building blocks in the database and they have two subclasses, Pathways and\nReactionLikeEvents. Pathways are ordered groups of Reations/ReactionLikeEvents.\nReactomeGraph4R:matchPrecedingAndFollowingEvents() can get preceding\nand following Reactions of a Reaction of interest via the “precedingEvent” relationship." + "text": "Behavioral Experiment" }, { - "id": 146388, - "strid": "85dac651-adf9-4c7f-88a9-4cd9a0edafce", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", + "id": 882, + "strid": "54cbb63e-b3f4-4240-a307-6ea2eb98feec", + "image_id": 37, + "image_name": "116622.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1642.094, - 772.615, - 1528.449, - 127.94399999999996 + 478.164, + 212.829, + 249.23699999999997, + 91.76400000000001 ], - "priority": 15, + "priority": 14, "parents": [ - 146391 + 880 ], "children": [], - "area": 1268706.45581, + "area": 101767.165956, "iscrowd": 0, "segmentation": [] }, { - "id": 146389, - "strid": "deb0b3de-e848-4c9f-b15f-fab6c4a23ba1", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", + "id": 883, + "strid": "df3b0532-8324-41fe-a195-6a746532e3d1", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1688.87, - 922.571, - 1132.2349999999997, - 323.29899999999986 + 655.176, + 251.12, + 128.08399999999995, + 44.50400000000002 + ], + "priority": 15, + "parents": [ + 880 + ], + "children": [], + "area": 164527.79712, + "iscrowd": 0, + "segmentation": [], + "text": "Cleeed figaves took tess tine tobe\n(677m. 1953 ms ota\nbetter accuracy (99.1% vs.97 94." + }, + { + "id": 884, + "strid": "66b5f66e-6bf1-42c4-87fe-51d41e31b43a", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 431.522, + 313.8, + 363.796, + 123.56099999999998 ], "priority": 16, "parents": [ - 146391 + 880 ], "children": [], - "area": 1558102.48477, + "area": 135411.6036, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "ERP Experiment :\nthree areas: Occipital (02, 01, 02 and POZ}, Left Temporal-Occipital\n(1P7, POS, PO7, PS, P7, CB1) and Right Temporal-Occipital (TP8, POE,\nPOB, P6, P8, CB2) areas were analyzed,\n\n-the peak latency showed that closed figures (237ms) had shorter\nlatency than open figures (244ms).This was reflected in the\nbehavioral results.\n\nAnalysis of the area amplitude between 200ms and 300ms:" }, { - "id": 146390, - "strid": "fa08d1fb-decb-4bcc-be49-0cb1bbc26892", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", + "id": 885, + "strid": "0bd2b9ca-e989-4ad4-bc17-1a0bba2d4f1a", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1637.967, - 1289.893, - 1151.496, - 41.271999999999935 + 441.007, + 445.997, + 53.488999999999976, + 9.506000000000029 ], "priority": 17, "parents": [ - 146391 + 880 ], "children": [], - "area": 2112802.167531, + "area": 196687.798979, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 146398, - "strid": "267c78e4-50aa-4cbc-b171-8f9642429170", - "image_id": 206184, - "image_name": "18711.png", + "id": 886, + "strid": "669eccc5-151f-44d4-bd03-3201ea854ffe", + "image_id": 37, + "image_name": "116622.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1690.573, - 1350.23, - 1174.294, - 144.125 + 440.998, + 456.385, + 359.372, + 109.66700000000003 ], "priority": 18, "parents": [ - 146391 + 880 ], "children": [], - "area": 2282662.38179, + "area": 201264.87222999998, "iscrowd": 0, "segmentation": [] }, { - "id": 146399, - "strid": "f779c7f2-810a-4adf-9fa9-fc6ff502a9c6", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", + "id": 887, + "strid": "97bb22dc-54a8-4c10-aaa7-6a6b3b03b19e", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1642.47, - 1537.302, - 774.262, - 674.7850000000001 + 472.688, + 568.928, + 311.274, + 21.936000000000035 ], "priority": 19, "parents": [ - 146391 + 880 ], "children": [], - "area": 2524972.4159399997, + "area": 268925.438464, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Crgneiale! sane, nn Mgaificent cainrace Retna pees and chen Rewres on\nGtr concious and unconscious conditions." }, { - "id": 146400, - "strid": "b7a2fdfa-5383-4bcb-84c7-82f4a877253b", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", + "id": 888, + "strid": "283eb051-add0-45cd-9959-5c349e93e22f", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2476.418, - 1535.644, - 654.8890000000001, - 666.4950000000001 + 437.832, + 602.683, + 107.96400000000006, + 10.729000000000042 ], "priority": 20, "parents": [ - 146391 + 880 ], "children": [], - "area": 3802896.443192, + "area": 263873.903256, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 146401, - "strid": "adc47266-07f5-4d1a-a21e-b2213e621299", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 5, - "category_name": "Section", + "id": 889, + "strid": "252451ab-0610-4b27-ae18-741e2f89df23", + "image_id": 37, + "image_name": "116622.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2202.856, - 2265.141, - 389.61799999999994, - 64.65999999999985 + 439.136, + 616.106, + 360.434, + 108.11599999999999 ], "priority": 21, "parents": [ - 146419 - ], - "children": [ - 146411, - 146410, - 146412 + 880 ], - "area": 4989779.442696, + "children": [], + "area": 270554.324416, "iscrowd": 0, - "segmentation": [], - "text": "Finding Referrals" + "segmentation": [] }, { - "id": 146410, - "strid": "29fb6e22-c758-4703-91f5-cb9b7b4e44b7", - "image_id": 206184, - "image_name": "18711.png", + "id": 890, + "strid": "04f64aa3-966d-40f3-a901-9be2a9c28f0e", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1634.18, - 2349.696, - 1528.628, - 185.69000000000005 + 437.623, + 722.235, + 113.20400000000001, + 10.90300000000002 ], "priority": 22, "parents": [ - 146401 + 880 ], "children": [], - "area": 3839826.20928, + "area": 316066.647405, "iscrowd": 0, "segmentation": [], - "text": "PhysicalEntities are participants of Reactions (Pathway > Reaction > PhysicalEntity). Using\nReactomeGraph4R: :matchReferrals() we can get Referrals of a given object (= find\ninstances in a reverse direction). For instance, to enumerate the Reactions that have\nDefinedSets (a PhysicalEntity subgroup):" + "text": "Right Ternporal-Occipital area" }, { - "id": 146411, - "strid": "cb2ab6b8-9864-40b3-b2ea-9509392961b0", - "image_id": 206184, - "image_name": "18711.png", + "id": 891, + "strid": "00041042-adf8-4fc4-99ed-2fa73bce2287", + "image_id": 37, + "image_name": "116622.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1677.287, - 2555.282, - 1137.352, - 379.6700000000001 + 444.493, + 737.76, + 352.613, + 97.71600000000001 ], "priority": 23, "parents": [ - 146401 + 880 ], "children": [], - "area": 4285941.279934, + "area": 327929.15567999997, "iscrowd": 0, "segmentation": [] }, { - "id": 146412, - "strid": "c5fa3c21-2102-48b5-b29f-a0023fa13207", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 7, - "category_name": "Table", + "id": 892, + "strid": "0374e898-c2d7-4d23-88ee-0e2f36d64812", + "image_id": 37, + "image_name": "116622.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1751.894, - 2953.189, - 1266.6719999999998, - 537.1749999999997 + 458.142, + 848.699, + 322.715, + 34.96100000000001 ], "priority": 24, "parents": [ - 146401 + 880 ], "children": [], - "area": 5173674.089966, + "area": 388824.657258, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Di the teENpOrEL- corti erenn, Kina cineed guns Inckiced! Mager eapateee\nthan open gues visible gues induced oppose resus: dosed figures induced\nsmaller amplitude then opap teres." }, { - "id": 146397, - "strid": "bc78a979-9eba-4040-afd2-cc0d80d11a29", - "image_id": 206184, - "image_name": "18711.png", + "id": 893, + "strid": "bcdb54e1-dcd2-4173-83f2-e0124230b092", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3670.658, - 469.1, - 594.5170000000003, - 63.874000000000024 + 579.205, + 897.124, + 77.93999999999994, + 14.200000000000045 ], "priority": 25, "parents": [ - 146419 + 868 ], "children": [ - 146393, - 146396, - 146394, - 146395, - 146392 + 894, + 895 ], - "area": 1721905.6678, + "area": 519618.70642000006, "iscrowd": 0, "segmentation": [], - "text": "Fold change visualization" + "text": "Conclusions" }, { - "id": 146396, - "strid": "d9c62d86-9737-4c05-a48f-eeef011630b2", - "image_id": 206184, - "image_name": "18711.png", + "id": 894, + "strid": "3ad58ec3-a4e4-48d9-8f04-182d66de3820", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3223.542, - 557.54, - 1514.953, - 140.85000000000002 + 432.93, + 928.033, + 354.98599999999993, + 42.01999999999998 ], "priority": 26, "parents": [ - 146397 + 893 ], "children": [], - "area": 1797253.6066799997, + "area": 401773.32669, "iscrowd": 0, "segmentation": [], - "text": "The Diagram Exporter in ReactomeContentService4R can overlay results from the\nAnalysis Service on top of a diagram with the unique token associated with the\nperformed analysis." + "text": "Our results indikate that closure can be processed 4A the absence of\nawareness, and show a perceptional advantage of closed figures in\nboth behavioral and ERP results." }, { - "id": 146395, - "strid": "349af5c7-a2ca-4825-92de-a9e37610a708", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", + "id": 895, + "strid": "4fdabef8-e5dd-4fb7-983e-c2d3baa8417f", + "image_id": 37, + "image_name": "116622.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 3280.865, - 709.855, - 1035.0820000000003, - 101.543 + 445.032, + 973.079, + 351.28799999999995, + 92.10799999999995 ], "priority": 27, "parents": [ - 146397 - ], - "children": [], - "area": 2328938.424575, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 146394, - "strid": "28927b72-3315-4145-a7f9-e92707b575b0", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 3731.256, - 817.949, - 566.6740000000004, - 527.368 - ], - "priority": 28, - "parents": [ - 146397 - ], - "children": [], - "area": 3051977.1139439996, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 146393, - "strid": "ac107ea2-a4a3-47b3-9511-0ed30d99fc17", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 3282.502, - 1358.418, - 958.1060000000002, - 70.42499999999995 - ], - "priority": 29, - "parents": [ - 146397 - ], - "children": [], - "area": 4459009.801836, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 146392, - "strid": "bdbb53b3-486f-431f-ad48-09625675a4ad", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 3256.298, - 1440.308, - 1469.0950000000003, - 348.84899999999993 - ], - "priority": 30, - "parents": [ - 146397 + 893 ], "children": [], - "area": 4690072.059784, + "area": 433051.29352799995, "iscrowd": 0, "segmentation": [] }, { - "id": 146418, - "strid": "60c02920-a158-4bd7-869c-5f44abc9e8a4", - "image_id": 206184, - "image_name": "18711.png", + "id": 896, + "strid": "1c77c534-68ba-4bb3-941b-e98ec50605c0", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3725.22, - 1825.88, - 487.395, - 67.47000000000003 + 429.157, + 1073.024, + 94.666, + 11.814000000000078 ], - "priority": 31, + "priority": 28, "parents": [ - 146419 + 868 ], "children": [ - 146416, - 146417, - 146415 + 897 ], - "area": 6801804.6936, + "area": 460495.7607679999, "iscrowd": 0, "segmentation": [], - "text": "Mapping external ids" + "text": "Acknowledgements:" }, { - "id": 146417, - "strid": "4febf200-139f-4a70-a670-100058cf3297", - "image_id": 206184, - "image_name": "18711.png", + "id": 897, + "strid": "edc2a245-d38f-4940-8897-372e2f927dba", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3207.494, - 1902.05, - 1525.7069999999999, - 108.55600000000004 + 428.376, + 1086.756, + 374.31999999999994, + 37.66399999999999 ], - "priority": 32, + "priority": 29, "parents": [ - 146418 + 896 ], "children": [], - "area": 6100813.9627, + "area": 465540.188256, "iscrowd": 0, "segmentation": [], - "text": "Non-Reactome identifiers, e.g. UniProt ids, gene symbols, GO terms, associated with an Event\n(Pathway or Reaction) can be retrieved by ReactomeContentService4R::event2Ids()." - }, - { - "id": 146416, - "strid": "349c3fc2-cf49-481b-b0b7-fa21a3a9039c", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 3284.47, - 2020.475, - 1087.5350000000003, - 481.59400000000005 - ], - "priority": 33, - "parents": [ - 146418 - ], - "children": [], - "area": 6636189.52325, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 146415, - "strid": "ba306423-3e2e-4224-80fc-dc8f03bdfc07", - "image_id": 206184, - "image_name": "18711.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 3217.363, - 2535.624, - 1527.681, - 90.79199999999992 - ], - "priority": 34, - "parents": [ - 146418 - ], - "children": [], - "area": 8158022.839511999, - "iscrowd": 0, - "segmentation": [] + "text": "Tee prodect wee eupportg is is Metionsl Neture Science Reundation of Cire (ELAgROE2,\n61005087), Yunnan Science and Technology Project (20090018), Yunnan Eduction\nDeparement Kay Progatenigone7)" }, { - "id": 146414, - "strid": "d7e34f5c-25d0-45cf-907f-87f2c14a181a", - "image_id": 206184, - "image_name": "18711.png", + "id": 898, + "strid": "4e8992c2-53dd-4201-bfaa-f56971b6c1f3", + "image_id": 37, + "image_name": "116622.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3738.432, - 3001.428, - 463.83100000000013, - 61.18600000000015 + 174.164, + 988.722, + 71.779, + 14.104000000000042 ], - "priority": 35, + "priority": 30, "parents": [ - 146419 + 868 ], "children": [ - 146413 + 899 ], - "area": 11220634.480896, + "area": 172199.77840799998, "iscrowd": 0, "segmentation": [], - "text": "Acknowledgements" + "text": "3c) ict ecd sleek" }, { - "id": 146413, - "strid": "a0db01b6-2da4-4af6-9588-1673b93238a3", - "image_id": 206184, - "image_name": "18711.png", + "id": 899, + "strid": "672b54f7-f12a-477a-b1d9-f5705deff912", + "image_id": 37, + "image_name": "116622.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3205.52, - 3090.247, - 1531.6280000000002, - 201.32200000000012 + 22.774, + 1016.388, + 373.602, + 93.351 ], - "priority": 36, + "priority": 31, "parents": [ - 146414 + 898 ], "children": [], - "area": 9905848.563439999, + "area": 23147.220312, "iscrowd": 0, "segmentation": [], - "text": "This work was funded by Google Summer of Code, 2020. The development of Reactome is\nsupported by grants from the US National Institutes of Health (U41 HG003751) and the\n\nEuropean Molecular Biology Laboratory. We thank the event support made possible by the\nfellowship from Open Bioinformatics Foundation (OBF)." + "text": "Pomerantz, J. R., L. C. Sager, et al. (1977).<\"Perception of wholes and of their\ncomponent parts: some configural superiority effects.\" Exp Psychol Hum Percept\nPerform 3(3): 422-435,\n\nTreisman, A. and R. Paterson (1984)°\"Emergent features, attention, and objett\nperception.” E49 Peychol Hum Percept Perform 20(1): 12-31,\n\nZhu, W., J. Zhang, et al. (accepted). \"The time course ofthe perceptual processing\n\nof “hole” and “no-hole” figures! An ERP study.\" Neurosci Bull" }, { - "id": 98624, - "strid": "85b3f5f6-7489-46df-9eb8-96ce07e1d2fd", - "image_id": 204316, - "image_name": "121867.png", + "id": 900, + "strid": "34421469-0301-429c-84e5-df9e56d32c91", + "image_id": 38, + "image_name": "116639.png", "category_id": 9, "category_name": "Root", "bbox": [ - 10.97, - 68.98, - 201.15, - 174.32999999999998 + 24.42, + 6.85, + 55.010000000000005, + 114.60000000000001 ], "priority": -1, "parents": [], "children": [ - 98607, - 98615, - 98598, - 98604, - 98588, - 98599, - 98613, - 98589, - 98592, - 98622, - 98597, - 98616, - 98621, - 98587, - 98586 + 902, + 911, + 903, + 905, + 901, + 908, + 913 ], - "area": 756.7106000000001, + "area": 167.27700000000002, "iscrowd": 0, "segmentation": [] }, { - "id": 98616, - "strid": "b2a7d144-3e61-47aa-8338-de2ce92cd1b8", - "image_id": 204316, - "image_name": "121867.png", + "id": 901, + "strid": "b8949cc3-6f82-4933-a51c-95b8018bb5af", + "image_id": 38, + "image_name": "116639.png", "category_id": 1, "category_name": "Title", "bbox": [ - 260.514, - 101.403, - 2661.219, - 124.14200000000001 + 271.257, + 41.636, + 1264.822, + 41.531 ], "priority": 1, "parents": [ - 98624 + 900 ], "children": [], - "area": 26416.901142000002, + "area": 11294.056452, "iscrowd": 0, "segmentation": [], - "text": "Illumina — NextBio Body Atlas Now Features RNA-segq Data" + "text": "A rare case of Congenital Myasthenic Syndrome with diagnosis in adulthood" }, { - "id": 98615, - "strid": "44aeafd9-5e6d-484f-8cc0-f93ff436fc8e", - "image_id": 204316, - "image_name": "121867.png", + "id": 902, + "strid": "346f4836-4cb0-40e2-92a0-3c35ea375fc3", + "image_id": 38, + "image_name": "116639.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 554.931, - 299.655, - 2076.33, - 92.226 + 232.89, + 92.299, + 1342.333, + 32.831 ], "priority": 2, "parents": [ - 98624 + 900 ], "children": [], - "area": 166287.848805, + "area": 21495.51411, "iscrowd": 0, "segmentation": [], - "text": "Eugene Bolotin, Chenxi Chen, Apoorva Dhabalia and Jane Su" + "text": "C S Agrawal, R Ranjan, P Correia, R Panchani. Dept. of Neurology, Sir Ganga Ram Hospital, New Delhi, India" }, { - "id": 98586, - "strid": "cc274e8e-7d1a-4fb2-8070-8f92a8ea475b", - "image_id": 204316, - "image_name": "121867.png", + "id": 903, + "strid": "ba83ed9e-b749-4527-8138-af2552e6382f", + "image_id": 38, + "image_name": "116639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 290.65, - 479.665, - 282.24799999999993, - 65.62100000000004 + 57.421, + 176.659, + 136.266, + 25.670999999999992 ], "priority": 3, "parents": [ - 98624 + 900 ], "children": [ - 98585 + 904 ], - "area": 139414.63225, + "area": 10143.936439, "iscrowd": 0, "segmentation": [], - "text": "Abstract" + "text": "" }, { - "id": 98585, - "strid": "7156c530-1d9a-4b2c-a05c-989019280969", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", + "id": 904, + "strid": "769c9b8f-4be4-4f2b-815b-73308bf36bbd", + "image_id": 38, + "image_name": "116639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 91.717, - 627.95, - 715.782, - 1148.687 + 55.939, + 209.307, + 1554.881, + 160.10299999999998 ], "priority": 4, "parents": [ - 98586 + 903 ], "children": [], - "area": 57593.69015, + "area": 11708.424272999999, "iscrowd": 0, - "segmentation": [], - "text": "We have incorporated RNA-seq data into NextBio BodyAtlas\n(https://enterprise.nextbio.com) to allow easy browsing of\ngene expression signatures for 50 tissues derived from\nGenotype Tissue Expression Project (GTEx).\n\nWe achieved this by downloading 729 raw SRA files from\nGTEx database, assessed the data quality through several\nsoftware packages such as: FASTQC to access the read\nquality and RSeQC to assess levels of RNA-degradation. We\nthen aligned the data using Illumina RNAExpress 1.0 pipeline\n(STAR aligner followed by manta counter).\n\nCount quality was accessed by pairwise correlation and\nhierarchical clustering. Samples that had between-tissue\ncorrelation greater than within-tissue correlation were\nremoved, as well as samples which had < 10*10%6 aligned\nreads.\n\nOverall we excluded 224 samples that failed one or more\ncriteria from a total of 729 samples used. Interestingly, while\nmost tissues displayed high level RNA degradation, the\ndegradation was not correlated to levels of gene expression.\nWe then used edgeR for TMM normalization, followed by\ndifferential comparison between each tissue vs all tissues\n(excluding comparison tissue).\n\nWe used ranked differential P-values in NextBio Research\nScoring App to rank the tissue specificity of genes between\ntissues.\n\nUsing ranked P-values as a signature, 47/50 tissues closely\nmatched the signature of the existing NextBio Affymetrix Array\nbased Body Atlas thus validating our approach. BodyAtlas\nRNA-seq should be useful for scientific community for its\nability to query this dataset by tissue, gene, gene signature\n(bioset), or pathway (biogroup)." + "segmentation": [] }, { - "id": 98587, - "strid": "4bb5dec8-2f9e-4717-91c3-b6042404c597", - "image_id": 204316, - "image_name": "121867.png", + "id": 905, + "strid": "2665f3b7-9a00-4a7f-b7d4-548e12865083", + "image_id": 38, + "image_name": "116639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1034.615, - 490.437, - 382.84199999999987, - 63.34299999999996 + 40.053, + 441.875, + 121.65, + 25.00799999999998 ], "priority": 5, "parents": [ - 98624 + 900 ], "children": [ - 98595, - 98594 + 906, + 914, + 907, + 915 ], - "area": 507413.476755, + "area": 17698.419374999998, "iscrowd": 0, "segmentation": [], - "text": "Query by Gene" + "text": "" }, { - "id": 98594, - "strid": "441b622d-4564-44ba-81b0-dc8741fe71fc", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 906, + "strid": "36b22d6c-5253-4315-9c29-11683c955ca0", + "image_id": 38, + "image_name": "116639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 901.341, - 636.995, - 664.811, - 826.726 + 40.235, + 474.547, + 894.185, + 301.70399999999995 ], "priority": 6, "parents": [ - 98587 + 905 ], "children": [], - "area": 574149.710295, + "area": 19093.398545, "iscrowd": 0, "segmentation": [] }, { - "id": 98595, - "strid": "f0e37217-76f7-4773-8398-b8640c206c07", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", + "id": 914, + "strid": "f06ede3d-4540-4b45-afc4-48509bed975f", + "image_id": 38, + "image_name": "116639.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 953.353, - 1562.429, - 562.3930000000001, - 123.27999999999997 + 974.98, + 409.68, + 669.9100000000001, + 363.94 ], "priority": 7, "parents": [ - 98587 + 905 ], "children": [], - "area": 1489546.374437, + "area": 243807.04540000003, "iscrowd": 0, - "segmentation": [], - "text": "Screenshot of NextBio research gene\nview. This screenshot shows an\nexample of tissue query by gene." + "segmentation": [] }, { - "id": 98588, - "strid": "4a8b3783-89f5-4753-aabb-207d8e69d6cc", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", + "id": 907, + "strid": "f4d5f54b-6d70-49f3-96cd-19e9fd4aa19b", + "image_id": 38, + "image_name": "116639.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1698.654, - 490.569, - 695.5250000000001, - 65.61600000000004 + 528.462, + 809.589, + 1103.377, + 227.976 ], "priority": 8, "parents": [ - 98624 + 905 ], - "children": [ - 98596, - 98593 - ], - "area": 833306.994126, + "children": [], + "area": 427837.022118, "iscrowd": 0, - "segmentation": [], - "text": "Query by Gene List (bioset)" + "segmentation": [] }, { - "id": 98593, - "strid": "5b67cf34-596e-4229-8ee3-2e8303bdb7dd", - "image_id": 204316, - "image_name": "121867.png", + "id": 915, + "strid": "9fa84549-6fb2-404a-892f-52fe227e3984", + "image_id": 38, + "image_name": "116639.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1656.699, - 636.669, - 748.1060000000002, - 833.6240000000001 + 21.54, + 797.11, + 459.01, + 268.43999999999994 ], "priority": 9, "parents": [ - 98588 + 905 ], "children": [], - "area": 1054768.895631, + "area": 123216.64439999998, "iscrowd": 0, "segmentation": [] }, { - "id": 98596, - "strid": "5aca5df3-3767-4be5-aa43-ba5df6b4dcb5", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", + "id": 908, + "strid": "aa415540-281d-4f79-b592-f5894c3d0cb2", + "image_id": 38, + "image_name": "116639.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1648.236, - 1572.112, - 761.481, - 126.24199999999996 + 72.357, + 1107.355, + 120.822, + 25.164999999999964 ], "priority": 10, "parents": [ - 98588 + 900 ], - "children": [], - "area": 2591211.594432, + "children": [ + 909, + 910 + ], + "area": 80124.885735, "iscrowd": 0, "segmentation": [], - "text": "Screenshot of NextBio research bioset view.\nThis screenshot shows an example of tissue query\nUsing gene list (liver genes)." + "text": "" }, { - "id": 98589, - "strid": "3b281451-8559-40c8-af5d-ecf66ecc639e", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", + "id": 909, + "strid": "d0695dab-1cc7-4107-a291-0cf5aaba752e", + "image_id": 38, + "image_name": "116639.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2676.806, - 486.765, - 241.6869999999999, - 65.03200000000004 + 193.166, + 1109.77, + 601.9580000000001, + 22.472999999999956 ], "priority": 11, "parents": [ - 98624 - ], - "children": [ - 98590 + 908 ], - "area": 1302975.47259, + "children": [], + "area": 214369.83182, "iscrowd": 0, "segmentation": [], - "text": "Overview" + "text": "RUC Oe SAE oe PUEO ROG Ci SUe iota" }, { - "id": 98590, - "strid": "afef64db-4e14-41f0-93ee-8c1d1e493f52", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 4, - "category_name": "List", + "id": 910, + "strid": "9c7ce64a-ebcc-4f47-99e1-a17b5f3a3e95", + "image_id": 38, + "image_name": "116639.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2474.508, - 607.625, - 605.1530000000002, - 586.588 + 72.603, + 1134.435, + 777.951, + 303.6109999999999 ], "priority": 12, "parents": [ - 98589 + 908 ], "children": [], - "area": 1503572.9234999998, + "area": 82363.38430499999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "ymptoms occur in general €arly in life, usually in the first two years. Severity and\ncourse of disease are highly variable. Genetic defects occur in. molecules expressed at the\nneuromuscular junction\neC RUS MeN R Te ts\neran ir Carer Men ROe nee eV ene Cy\nNS OBES SUC uae Ue m LeUeP OCH be LLL\nSeren one out Rares cay Ome Tal\nFrom theMaghreb ( Algeria & Tunisia) : CHRNE mutation\nSU re ue ce ed\nBV ce cet eV MOO EO)\nNo response to treatment with AChE inhibitors: COLO or RAPSN’\nLimb-girdle phenotype : DOK7, COLO,GPPT1" }, { - "id": 98592, - "strid": "7cab4255-d65f-496c-a0f0-5900b9612718", - "image_id": 204316, - "image_name": "121867.png", + "id": 911, + "strid": "d924ccd8-5e52-40fe-9fcb-4521d9ea20f4", + "image_id": 38, + "image_name": "116639.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2700.187, - 1228.053, - 205.13200000000006, - 61.263999999999896 + 72.351, + 1449.572, + 132.977, + 25.861000000000104 ], "priority": 13, "parents": [ - 98624 + 900 ], "children": [ - 98591 + 912 ], - "area": 3315972.7459110003, + "area": 104877.98377199999, "iscrowd": 0, "segmentation": [], - "text": "Pipeline" + "text": "" }, { - "id": 98591, - "strid": "e1f0fc7a-86ea-4daf-a7b5-f7f08e5020b4", - "image_id": 204316, - "image_name": "121867.png", + "id": 912, + "strid": "cead4edf-a3d7-4f63-b392-50710aacf28c", + "image_id": 38, + "image_name": "116639.png", "category_id": 4, "category_name": "List", "bbox": [ - 2479.402, - 1314.508, - 566.0129999999999, - 585.912 + 73.443, + 1482.547, + 778.545, + 149.558 ], "priority": 14, "parents": [ - 98592 + 911 ], "children": [], - "area": 3259193.764216, + "area": 108882.699321, "iscrowd": 0, "segmentation": [] }, { - "id": 98597, - "strid": "db0fc0f7-21a3-4ef7-b21c-3757fb9e5c72", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", + "id": 913, + "strid": "67ed1235-082c-4535-bd93-cd6cd5db0552", + "image_id": 38, + "image_name": "116639.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 261.713, - 1938.812, - 469.71999999999997, - 60.361000000000104 + 896.257, + 1077.355, + 755.1749999999998, + 568.5729999999999 ], "priority": 15, "parents": [ - 98624 + 900 ], - "children": [ - 98612 - ], - "area": 507412.304956, + "children": [], + "area": 965586.960235, "iscrowd": 0, - "segmentation": [], - "text": "Count Distributions" + "segmentation": [] }, { - "id": 98612, - "strid": "4d12bd03-0840-4f80-b160-bce1fca06864", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 916, + "strid": "9b784953-9c68-4a46-9c81-ee0855ea6d22", + "image_id": 39, + "image_name": "116674.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 48.267, - 2060.118, - 851.866, - 478.71500000000015 + 180.91, + 178.89, + 252.64000000000001, + 260.79 ], - "priority": 16, - "parents": [ - 98597 + "priority": -1, + "parents": [], + "children": [ + 928, + 918, + 917, + 921, + 923, + 919, + 931 ], - "children": [], - "area": 99435.71550600001, + "area": 32362.989899999997, "iscrowd": 0, "segmentation": [] }, { - "id": 98613, - "strid": "fff886f1-9d74-4aad-b293-59784b87f50e", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", + "id": 917, + "strid": "8a83ac91-a089-4bc4-8070-d2f948cd9634", + "image_id": 39, + "image_name": "116674.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 143.135, - 2627.202, - 662.77, - 70.47899999999981 + 685.975, + 201.423, + 1939.219, + 88.01300000000003 ], - "priority": 17, + "priority": 1, "parents": [ - 98624 - ], - "children": [ - 98614 + 916 ], - "area": 376044.55827, + "children": [], + "area": 138171.142425, "iscrowd": 0, "segmentation": [], - "text": "Hierarchical Clustering QA" + "text": "Genome-wide Enhanced Gene Regulatory Networks" }, { - "id": 98614, - "strid": "854d881a-e786-4799-8c7c-fedf2eb5c0ea", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 918, + "strid": "6c7b59b0-da38-4c82-8a71-fa0792af8306", + "image_id": 39, + "image_name": "116674.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 59.744, - 2736.307, - 853.676, - 1226.92 + 839.717, + 340.412, + 1636.3089999999997, + 116.344 ], - "priority": 18, + "priority": 2, "parents": [ - 98613 + 916 ], "children": [], - "area": 163477.92540799998, + "area": 285849.74340399995, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A. Benso, S.Di Carlo, G. Politano, A. Savino, and H. Ur Rehman\nPolitecnico di Torino, Department of Control and Computer Engineering, Italy" }, { - "id": 98598, - "strid": "50b473d5-3847-43b9-9863-efd400b3059b", - "image_id": 204316, - "image_name": "121867.png", + "id": 919, + "strid": "3e314137-b859-434c-9f86-ee82aad42d8c", + "image_id": 39, + "image_name": "116674.png", "category_id": 5, "category_name": "Section", "bbox": [ - 996.766, - 1937.539, - 944.1650000000001, - 58.49700000000007 + 280.169, + 1003.635, + 186.543, + 40.365999999999985 ], - "priority": 19, + "priority": 3, "parents": [ - 98624 + 916 ], "children": [ - 98611, - 98610, - 98609 + 920 ], - "area": 1931272.9988739998, + "area": 281187.414315, "iscrowd": 0, "segmentation": [], - "text": "Pairwise Count Correlation Matrix QA" - }, - { - "id": 98610, - "strid": "1f04b696-2057-4a47-ab13-ead8d6bec655", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1112.956, - 2036.128, - 719.615, - 451.29600000000005 - ], - "priority": 20, - "parents": [ - 98598 - ], - "children": [], - "area": 2266120.874368, - "iscrowd": 0, - "segmentation": [] + "text": "" }, { - "id": 98611, - "strid": "c32d4494-10df-4882-9a26-59edf811ed0d", - "image_id": 204316, - "image_name": "121867.png", + "id": 920, + "strid": "70a9168d-cac9-442b-869f-835c4ff255ed", + "image_id": 39, + "image_name": "116674.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1110.824, - 2516.876, - 723.1799999999998, - 443.049 + 364.373, + 1143.739, + 1054.789, + 982.6420000000003 ], - "priority": 21, + "priority": 4, "parents": [ - 98598 + 919 ], "children": [], - "area": 2795806.2658240004, + "area": 416747.610647, "iscrowd": 0, "segmentation": [] }, { - "id": 98609, - "strid": "f642b217-e0b1-4d95-94bc-9afe8ac1decd", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 976.395, - 2989.039, - 924.2860000000001, - 93.33500000000004 - ], - "priority": 22, - "parents": [ - 98598 - ], - "children": [], - "area": 2918482.734405, - "iscrowd": 0, - "segmentation": [], - "text": "Pairwise correlation plot allows easy removal of suspect samples. Green solid\nblocks are separate tissues. Red streaks are poorly correlated samples. Green =\nhigh correlation, Red= low correlation." - }, - { - "id": 98607, - "strid": "e04ba60d-0d89-4395-affb-f27f812a52a0", - "image_id": 204316, - "image_name": "121867.png", + "id": 921, + "strid": "cdd52811-b178-43b4-a8cd-0ad62db520bd", + "image_id": 39, + "image_name": "116674.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1233.871, - 3115.815, - 438.779, - 69.08399999999983 + 1846.032, + 1002.588, + 261.28599999999983, + 41.17800000000011 ], - "priority": 23, + "priority": 5, "parents": [ - 98624 + 916 ], "children": [ - 98608 + 922 ], - "area": 3844513.769865, + "area": 1850809.530816, "iscrowd": 0, "segmentation": [], - "text": "Tissue Clustering" + "text": "" }, { - "id": 98608, - "strid": "62f81491-818f-4a72-98c4-8eb134e1a88a", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 922, + "strid": "57b71abf-045b-483e-b3e9-0b2e503c9e01", + "image_id": 39, + "image_name": "116674.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 974.337, - 3207.305, - 970.9160000000002, - 767.3969999999999 + 1851.774, + 1118.072, + 1161.121, + 1004.597 ], - "priority": 24, + "priority": 6, "parents": [ - 98607 + 921 ], "children": [], - "area": 3124995.931785, + "area": 2070416.6597279997, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Often we are not only interested in the topological\nproperties of a network, but also in its dynamical\nproperties.\n\nDynamic processes take place on many networks. The\nnodes interact and their state changes as a result of\nthese interactions.\n\nOne of the simplest models of a dynamical network is\nthe Boolean network.\n\nA Boolean network is directed, and each node is in one\nof two states, 0 or 1.\n\nFurthermore, each node has a set of rules which tell it its\nstate depending on the states of its neighbours in the\nnetwork." }, { - "id": 98599, - "strid": "3123080a-67ca-4839-9d0d-a6090ca57bd2", - "image_id": 204316, - "image_name": "121867.png", + "id": 923, + "strid": "786844b8-2913-44eb-becf-35a6c9b7700c", + "image_id": 39, + "image_name": "116674.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2165.776, - 1938.947, - 795.1320000000001, - 63.67000000000007 + 374.281, + 2372.468, + 386.16399999999993, + 43.02500000000009 ], - "priority": 25, + "priority": 7, "parents": [ - 98624 + 916 ], "children": [ - 98617, - 98618, - 98601, - 98600, - 98620, - 98619, - 98602, - 98603 + 926, + 925, + 924, + 927 ], - "area": 4199324.8778719995, + "area": 887969.695508, "iscrowd": 0, "segmentation": [], - "text": "RNA-seq Bioset vs Array Bioset" + "text": "" }, { - "id": 98603, - "strid": "318c0a2d-8f82-4588-86c3-616022a4f56e", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", + "id": 924, + "strid": "b04a8a4a-abd8-4cbb-8a48-be7d2b320342", + "image_id": 39, + "image_name": "116674.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2037.289, - 2110.905, - 341.21400000000017, - 169.35500000000002 + 375.293, + 2431.872, + 978.4890000000001, + 107.9050000000002 ], - "priority": 26, + "priority": 8, "parents": [ - 98599 + 923 ], "children": [], - "area": 4300523.536545, + "area": 912664.538496, "iscrowd": 0, - "segmentation": [], - "text": "47 tissues matched exactly to\narray data.\n\nThis demonstrates the high\nquality of RNA-seq and Array\ndata on the body atlas." + "segmentation": [] }, { - "id": 98600, - "strid": "2d010865-48da-4f62-8af1-88b4b5568a95", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 925, + "strid": "05d0d6c8-4187-47c3-9453-f7515532a009", + "image_id": 39, + "image_name": "116674.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2433.924, - 2090.537, - 640.7979999999998, - 372.1379999999999 + 373.547, + 2607.998, + 1248.071, + 414.22299999999996 ], - "priority": 27, + "priority": 9, "parents": [ - 98599 + 923 ], "children": [], - "area": 5088208.177188, + "area": 974209.8289060001, "iscrowd": 0, "segmentation": [] }, { - "id": 98602, - "strid": "c6f2f774-c1bc-4efb-ab78-8c48e4599f2b", - "image_id": 204316, - "image_name": "121867.png", + "id": 926, + "strid": "70e5848a-cf96-4247-937b-14b525a05b65", + "image_id": 39, + "image_name": "116674.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2019.296, - 2535.215, - 378.5719999999999, - 212.0239999999999 + 602.227, + 3089.152, + 789.3960000000001, + 111.84999999999991 ], - "priority": 28, + "priority": 10, "parents": [ - 98599 + 923 ], "children": [], - "area": 5119349.508640001, + "area": 1860370.741504, "iscrowd": 0, "segmentation": [], - "text": "3 tissues, esophagus muscularis,\nsigmoid colon, and esophagus\ngastrointestinal junction\nmismatched with array data. It\nappears that abundance of\nmuscle tissue genes are the\nreason for 3 mismatched tissues." + "text": "Stability reached in certain conditions\nFree Energy Local minimum" }, { - "id": 98601, - "strid": "68115d3b-01e6-49d8-b048-0dd069090131", - "image_id": 204316, - "image_name": "121867.png", + "id": 927, + "strid": "0529b133-c075-4d04-89f4-5e35da3afcd6", + "image_id": 39, + "image_name": "116674.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2437.031, - 2524.037, - 637.7420000000002, - 359.2359999999999 + 1894.595, + 2366.298, + 1027.488, + 903.9949999999999 ], - "priority": 29, + "priority": 11, "parents": [ - 98599 + 923 ], "children": [], - "area": 6151156.414147, + "area": 4483176.359309999, "iscrowd": 0, "segmentation": [] }, { - "id": 98617, - "strid": "0848030d-b2a5-4a26-a9fc-7fa1bc5d2ab3", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", + "id": 928, + "strid": "fdfc2845-482b-48f2-ba9e-ffa51e2745a8", + "image_id": 39, + "image_name": "116674.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2025.167, - 2932.534, - 917.2719999999999, - 79.86799999999994 + 355.329, + 3587.56, + 423.82300000000004, + 38.90599999999995 ], - "priority": 30, + "priority": 12, "parents": [ - 98599 - ], - "children": [], - "area": 5938871.083178, - "iscrowd": 0, - "segmentation": [], - "text": "Esophagus Pathways are enriched for muscle genes in RNA-\nseq" - }, - { - "id": 98618, - "strid": "3d128bb8-2287-4478-8fcd-ae93136d050f", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 2029.489, - 3020.354, - 1033.79, - 55.320000000000164 + 916 ], - "priority": 31, - "parents": [ - 98599 + "children": [ + 929, + 930 ], - "children": [], - "area": 6129775.219106, + "area": 1274764.10724, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 98619, - "strid": "bd892a07-2256-4b04-82d0-aee28cc2ed22", - "image_id": 204316, - "image_name": "121867.png", + "id": 929, + "strid": "14c33e80-971d-4986-aad9-36d554804653", + "image_id": 39, + "image_name": "116674.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2027.876, - 3100.741, - 980.9469999999999, - 78.6579999999999 + 356.214, + 3704.829, + 1057.519, + 170.08399999999983 ], - "priority": 32, + "priority": 13, "parents": [ - 98599 + 928 ], "children": [], - "area": 6287918.256116, + "area": 1319711.957406, "iscrowd": 0, "segmentation": [], - "text": "Myometrium + Saphenous vein are also enriched in muscle genes\nin Array" + "text": "Constraints PERMIT or DENY certain relations\n\nRegulatory Constraints consist of:" }, { - "id": 98620, - "strid": "d0e585a7-ef27-4a86-b9e2-c3b0f54c4a8a", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 930, + "strid": "9cf3a8eb-4b0f-43a5-bcad-b4f379b0ae9e", + "image_id": 39, + "image_name": "116674.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2021.709, - 3196.687, - 1078.7369999999999, - 54.45600000000013 + 354.369, + 3945.273, + 1179.382, + 349.9970000000003 ], - "priority": 33, + "priority": 14, "parents": [ - 98599 + 928 ], "children": [], - "area": 6462770.878083, + "area": 1398082.4477370002, "iscrowd": 0, "segmentation": [] }, { - "id": 98604, - "strid": "e4d032dc-223c-477b-b90c-51bbef079a8d", - "image_id": 204316, - "image_name": "121867.png", + "id": 931, + "strid": "ff1d4bde-591b-4e68-b1e4-4640811032ea", + "image_id": 39, + "image_name": "116674.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2204.708, - 3292.72, - 730.1550000000002, - 65.53999999999996 + 1621.704, + 3588.073, + 359.548, + 38.103000000000065 ], - "priority": 34, + "priority": 15, "parents": [ - 98624 + 916 ], "children": [ - 98605, - 98606 + 932 ], - "area": 7259486.12576, + "area": 5818792.336391999, "iscrowd": 0, "segmentation": [], - "text": "Male vs Female Comparison" + "text": "" }, { - "id": 98605, - "strid": "79c64160-44aa-4e3b-b300-08b407af0595", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 2, - "category_name": "Figure", + "id": 932, + "strid": "68b19b65-22a2-46a8-8b08-52ebd23adeac", + "image_id": 39, + "image_name": "116674.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1977.215, - 3412.505, - 1137.5620000000001, - 462.02999999999975 + 1620.216, + 3705.073, + 1452.295, + 650.9569999999999 ], - "priority": 35, + "priority": 16, "parents": [ - 98604 + 931 ], "children": [], - "area": 6747256.073575, + "area": 6003018.555767999, "iscrowd": 0, "segmentation": [] }, { - "id": 98606, - "strid": "ad675e15-0d09-4fe9-8720-bf3872a8d940", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 2245.359, - 3882.204, - 884.221, - 62.79100000000017 - ], - "priority": 36, - "parents": [ - 98604 - ], - "children": [], - "area": 8716941.691236, - "iscrowd": 0, - "segmentation": [], - "text": "Large numbers of clinically relevant genes are differentially expressed between\nmale and female tissues." - }, - { - "id": 98621, - "strid": "5fcb9de9-7e2d-4fc1-9057-324d82c8bdb4", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 446.099, - 4019.695, - 305.78400000000005, - 53.22499999999991 - ], - "priority": 37, - "parents": [ - 98624 - ], - "children": [ - 98623 - ], - "area": 1793181.919805, - "iscrowd": 0, - "segmentation": [], - "text": "Conclusion" - }, - { - "id": 98623, - "strid": "3e14f08c-543d-4f4e-8246-b927ded176d7", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 295.985, - 4130.151, - 796.141, - 122.73400000000038 - ], - "priority": 38, - "parents": [ - 98621 - ], - "children": [], - "area": 1222462.743735, - "iscrowd": 0, - "segmentation": [], - "text": "NextBio Research Body Atlas is easy to use and comprehensive\nsolution for investigating tissue specific gene expression, and\ndeveloping in-depth understanding of your own datasets. See it at\nhttps://enterprise.nextbio.com/" - }, - { - "id": 98622, - "strid": "ec46ad6b-20d3-4096-90ff-1757e2f327aa", - "image_id": 204316, - "image_name": "121867.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2101.905, - 4019.003, - 300.43499999999995, - 56.96300000000019 - ], - "priority": 39, - "parents": [ - 98624 - ], - "children": [], - "area": 8447562.500715, - "iscrowd": 0, - "segmentation": [], - "text": "References" - }, - { - "id": 182339, - "strid": "c3b361ff-0563-42af-b823-391965818e0e", - "image_id": 207618, - "image_name": "8503.png", + "id": 933, + "strid": "c43f9624-093b-450c-9fd8-84247acc7c77", + "image_id": 40, + "image_name": "116709.png", "category_id": 9, "category_name": "Root", "bbox": [ - 28.85, - 29.09, - 28.15, - 43.61999999999999 + 42.74, + 69.73, + 45.029999999999994, + 42.209999999999994 ], "priority": -1, "parents": [], "children": [ - 182318, - 182314, - 182319, - 182317, - 182316, - 182312, - 182311, - 182313, - 182315 + 936, + 948, + 941, + 934, + 935, + 939, + 944, + 946 ], - "area": 839.2465000000001, + "area": 2980.2602, "iscrowd": 0, "segmentation": [] }, { - "id": 182311, - "strid": "256e0a39-4946-46cb-b7ae-6ed429adf857", - "image_id": 207618, - "image_name": "8503.png", + "id": 934, + "strid": "9213ca0f-772b-4709-970f-9ee6d66e1e2a", + "image_id": 40, + "image_name": "116709.png", "category_id": 1, "category_name": "Title", "bbox": [ - 98.576, - 35.013, - 465.76099999999997, - 47.701 + 125.269, + 24.292, + 826.356, + 67.057 ], "priority": 1, "parents": [ - 182339 + 933 ], "children": [], - "area": 3451.4414879999995, + "area": 3043.0345480000005, "iscrowd": 0, "segmentation": [], - "text": "ee a ee ce eee a ee\nBeene asic uae Ca ne Ree tad\nPCE Reon)" + "text": "- The clinical and ethical practice of Deep Brain Stimulation:\nResults of an international survey of DBS experts and centers" }, { - "id": 182312, - "strid": "39cb6ba9-c11c-426b-8b9b-681d99b00467", - "image_id": 207618, - "image_name": "8503.png", + "id": 935, + "strid": "1d0dae52-6f8c-4766-8eb3-362a74d342b7", + "image_id": 40, + "image_name": "116709.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 59.799, - 97.646, - 541.558, - 44.581 + 94.475, + 103.031, + 892.48, + 38.00999999999999 ], "priority": 2, "parents": [ - 182339 + 933 ], "children": [], - "area": 5839.133154, + "area": 9733.853725, "iscrowd": 0, "segmentation": [], - "text": "sana mena diewelereintelnens. tal ipemearipshngas Abethasatvines enedeasitiness Rarhaseeerindh-teieyianaingl arenes tlipshadinalinelainy\nPere eee eee eer ee aren ea eT\n\n‘Danio Sankyo badia Pharma Private Limited, Village Sarhaul, Sactor-¥8, Udyog Vihar Wndustrial Area, Gurgane-122015. Haryana Qndie)" + "text": "Markus Christen (University of Zurich, Switzerland & University of Notre Dame, USA; christen@ethik.uzh.ch), Merlin Bittlinger (Humboldt\nUniversitat Berlin, Germany), Christian Ineichen (University of Zurich), Sabine Muller (Charité-Universitatsmedizin Berlin, Germany)" }, { - "id": 182313, - "strid": "e49037fd-86c0-42a4-b895-1344ac3ec636", - "image_id": 207618, - "image_name": "8503.png", + "id": 936, + "strid": "a30dff03-6412-4313-97e7-753134d19db7", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 81.288, - 187.315, - 57.284000000000006, - 12.911000000000001 + 90.459, + 180.328, + 148.12, + 17.455000000000013 ], "priority": 3, "parents": [ - 182339 + 933 ], "children": [ - 182320 + 937, + 938 ], - "area": 15226.46172, + "area": 16312.290552, "iscrowd": 0, "segmentation": [], - "text": "Abstract" + "text": "" }, { - "id": 182320, - "strid": "48f75ff6-5a4b-4035-84af-bdd597bc3b36", - "image_id": 207618, - "image_name": "8503.png", + "id": 937, + "strid": "80c00c5a-38ae-405c-9360-522fbbb0293b", + "image_id": 40, + "image_name": "116709.png", "category_id": 3, "category_name": "Text", "bbox": [ - 16.728, - 215.353, - 190.057, - 349.128 + 53.359, + 201.578, + 220.77199999999996, + 104.58599999999998 ], "priority": 4, "parents": [ - 182313 + 936 ], "children": [], - "area": 3602.4249840000007, - "iscrowd": 0, - "segmentation": [], - "text": "St SU Ee ee eoaaiee ta omen\nSeta nicans HA MON Fnac ae eat\nseg Sea Catia ote\nCAS ued eheny haan ary ey a\nres gaol ont Paes\naoc mea nay eaten sme\ntoe fr) wae pace fanart) bald eu\nsy rausnnss ‘anges ces ory are\nSeg ane mr\nme esas mas hut ae\nthetic Aes i meme e\nSpark a ils a\nSgig San the sea arin ot\nnec tly? Goad cae\nKerye, ta and cnhants nese sian\nwinters arpactocomoigaig\nRo one i err fli in\nmc. ap scan as eco od\n(ns rntarConpand fn mg Sc ad\ngy onary crn rey\ncipud i tpt ard mespnan smog a\nhm rates nar areca\nnt aigrapaay, Coca oy Campari\nstadcohe SCN toa! ep asc 0\nga cfumt Nactany nar aneinrmane gor,\n‘Bindu chengy af area Aho\nestat Sr nace a ER\nPena setae Be per ay\nciate cca ities\nbm. These resus warrant is further lnveeigaion" - }, - { - "id": 182316, - "strid": "6e3250d7-ab7b-49ad-b047-129dcff7144f", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 72.325, - 578.466, - 78.75600000000001, - 12.211000000000013 - ], - "priority": 5, - "parents": [ - 182339 - ], - "children": [ - 182321 - ], - "area": 41837.55345, + "area": 10756.000502, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Deep brain stimulation (D85} has become d standard\ntherapy for some forms of movement csorders ands\ninvestigated for other neurlogieal and psychiatric\ndisorders although many scent clinical and ethical\nissuesare stil open. Inorder to obtain an overview of\nthe global practice on DBS we have performed 2\nsurvey among researchers, dlnicians and DBS centers\nthat addresses clnial and ethical problems curently\nGacsssed a rOtIBS nenatore leceodinne" }, { - "id": 182321, - "strid": "b9b49f30-07a4-4db0-889f-e5ef668cf460", - "image_id": 207618, - "image_name": "8503.png", + "id": 938, + "strid": "9916d9b0-f699-47e9-a5d2-330c1a074377", + "image_id": 40, + "image_name": "116709.png", "category_id": 4, "category_name": "List", "bbox": [ - 14.182, - 600.076, - 189.366, - 228.476 + 57.328, + 307.368, + 216.064, + 103.38799999999998 ], - "priority": 6, + "priority": 5, "parents": [ - 182316 + 936 ], "children": [], - "area": 8510.277832, + "area": 17620.792704, "iscrowd": 0, "segmentation": [] }, { - "id": 182318, - "strid": "0af7d87c-96fe-417b-9220-04c28a5479c4", - "image_id": 207618, - "image_name": "8503.png", + "id": 939, + "strid": "d03a5734-1493-4015-b011-d2b8bbe3090f", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 35.69, - 838.681, - 154.031, - 12.44500000000005 + 117.11, + 449.788, + 95.06599999999999, + 17.411999999999978 ], - "priority": 7, + "priority": 6, "parents": [ - 182339 + 933 ], "children": [ - 182322 + 940 ], - "area": 29932.52489, + "area": 52674.67268, "iscrowd": 0, "segmentation": [], - "text": "Viateriais ana methods" + "text": "Methodology" }, { - "id": 182322, - "strid": "adba02d1-821e-481b-9321-e538b6dc5d80", - "image_id": 207618, - "image_name": "8503.png", + "id": 940, + "strid": "ea027b56-d6c0-45c1-a9a8-5b9e244b1fb7", + "image_id": 40, + "image_name": "116709.png", "category_id": 3, "category_name": "Text", "bbox": [ - 13.789, - 868.057, - 192.521, - 97.90099999999995 + 53.281, + 474.973, + 221.401, + 326.186 ], - "priority": 8, + "priority": 7, "parents": [ - 182318 + 939 ], "children": [], - "area": 11969.637973, + "area": 25307.036413, "iscrowd": 0, "segmentation": [], - "text": "Sa eee ee ean tn\nsite caine fom se Soyo ( Toe\nStandrd antbie and Compound A:\nMrcpenem wat cise’ tom Asta anges\nMerorem ) std Conpaun A masses by\nDeparment of Maid Chenin, DSA\nAci gr nal Cy 9 us" + "text": "Researchers: The survey among DBS researchers and\ndlls was perforsed in two waves Between mid\n2011 and mid-2072 each of them induding two\nfllow-upsn thefist wave,esearchets identified ina\nlarge search pertormed by ust} were addressed who\npublished about DBS in Parkinson's esease since the\nearly 19905 The second wave addressed lniclans\nemerging fom a global search of DS centers tot\n712 persons were approached The survey question\npair was developed based on our previous seach\ninDBS [1-3] and has been rss-checked by abostdof\ninternational renowned DBS researchers The survey\nwas anonymized\n\nCenters‘The survey questionnaire or DBS centershas\nbeen pre-tstedn Delphi stud inciding al Swiss\ncentes (4. Using bblomety, ve have denied 12\ncounties that anked highest in lobal DBS research\ncompared tothe total research output in neurology\nand neuroscience Austla,Canada France, Germany,\nitaly Japan, Netherlands, Spain, Sweden, Sutzeland,\nUk.and USA For these counties we have performed\nanextended,nterne-bared serch to find cls tat\noffer DBS according to their webst;510 institutions\nhave been identied To thove centers ashort2-page\nquestionnaire hasbeen sent by postal malland two\nfllow-ups were performed (the second folow-upis\nSapling). The resus of this survey ere preliminary" }, { - "id": 182314, - "strid": "f54479e4-db2d-4f1b-b670-39e92745fe9f", - "image_id": 207618, - "image_name": "8503.png", + "id": 941, + "strid": "0f3c1cff-f899-4ca3-815b-ad0033426a0b", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 242.495, - 187.392, - 154.286, - 12.77000000000001 + 351.495, + 189.316, + 404.044, + 21.02799999999999 ], - "priority": 9, + "priority": 8, "parents": [ - 182339 + 933 ], "children": [ - 182323, - 182337, - 182336, - 182338 - ], - "area": 45441.62304, - "iscrowd": 0, - "segmentation": [], - "text": "Materials and methods" - }, - { - "id": 182323, - "strid": "c44240b5-394f-448b-bbe8-5a665f96abee", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 214.808, - 209.456, - 200.688, - 56.885999999999996 - ], - "priority": 10, - "parents": [ - 182314 + 942, + 943 ], - "children": [], - "area": 44992.824448, + "area": 66543.62742, "iscrowd": 0, "segmentation": [], - "text": "amas Se ine procedures on emae Sues\nWebster mice were done for Bis study as pet the\npotcas\"appored by rate anal eth\n\nEstablishment of Foreign body esociate" - }, - { - "id": 182336, - "strid": "4fb7fb13-c144-411e-ab9c-d026a83f4a59", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 215.498, - 269.003, - 201.31800000000004, - 148.60499999999996 - ], - "priority": 11, - "parents": [ - 182314 - ], - "children": [], - "area": 57969.60849399999, - "iscrowd": 0, - "segmentation": [] + "text": "The “ethical landscape” of DBS & related survey results" }, { - "id": 182338, - "strid": "0e9b4266-1372-45be-ad98-10fe73abe1a5", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 4, - "category_name": "List", + "id": 942, + "strid": "cc9ddc82-8c6f-4f21-ad66-dcb4043c8b9e", + "image_id": 40, + "image_name": "116709.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 215.176, - 419.292, - 203.89799999999997, - 188.426 + 321.67, + 224.727, + 468.392, + 517.291 ], - "priority": 12, + "priority": 9, "parents": [ - 182314 + 941 ], "children": [], - "area": 90221.57539199998, + "area": 72287.93409000001, "iscrowd": 0, "segmentation": [] }, { - "id": 182337, - "strid": "c83dbbaa-a1b7-4e0f-888f-7e5de1f55917", - "image_id": 207618, - "image_name": "8503.png", + "id": 943, + "strid": "59950d34-fabd-4245-9aef-2d72d02f0014", + "image_id": 40, + "image_name": "116709.png", "category_id": 4, "category_name": "List", "bbox": [ - 215.654, - 608.752, - 203.49900000000002, - 320.711 + 331.592, + 751.072, + 438.40700000000004, + 41.56299999999999 ], - "priority": 13, + "priority": 10, "parents": [ - 182314 + 941 ], "children": [], - "area": 131279.803808, + "area": 249049.466624, "iscrowd": 0, "segmentation": [] }, { - "id": 182315, - "strid": "a25ce5a4-9f8b-4264-a915-7eb243e796ec", - "image_id": 207618, - "image_name": "8503.png", + "id": 944, + "strid": "9ec38704-a7f2-4646-bdda-058a47942c07", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 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}, - { - "id": 182330, - "strid": "70d76a4a-97f5-4608-9825-070d81f33f1d", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 591.624, - 241.671, - 148.66499999999996, - 182.76600000000002 + 900.052, + 183.857, + 87.57100000000003, + 13.742999999999995 ], - "priority": 22, + "priority": 11, "parents": [ - 182315 + 933 ], "children": [ - 182325 - ], - "area": 142978.363704, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 182325, - "strid": "ad394bd2-9630-4096-a697-74c8cfe37c5e", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 600.56, - 221.533, - 124.09000000000003, - 12.546999999999997 - ], - "priority": 23, - "parents": [ - 182330 + 945 ], - "children": [], - "area": 133043.85847999997, + "area": 165480.860564, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Main Results" }, { - "id": 182333, - "strid": "2b44003f-7887-4b06-83de-bb8e025b3cd0", - "image_id": 207618, - "image_name": "8503.png", + "id": 945, + "strid": "59787bbb-7e6a-4c4a-ae45-29e22c908c3e", + "image_id": 40, + "image_name": "116709.png", "category_id": 4, "category_name": "List", "bbox": [ - 579.414, - 449.967, - 161.43000000000006, - 199.735 + 834.456, + 202.728, + 217.04200000000003, + 338.964 ], - "priority": 24, + "priority": 12, "parents": [ - 182315 + 944 ], "children": [], - "area": 260717.179338, + "area": 169167.595968, "iscrowd": 0, "segmentation": [] }, { - "id": 182317, - "strid": "28f6e3a0-16fb-4840-869b-7de3c93795d7", - "image_id": 207618, - "image_name": "8503.png", + "id": 946, + "strid": "8fa57167-e9ef-4648-9ad8-f373d6bd1f51", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 630.513, - 663.476, - 74.69299999999998, - 12.448999999999955 + 902.019, + 572.294, + 83.53700000000003, + 13.440000000000055 ], - "priority": 25, + "priority": 13, "parents": [ - 182339 + 933 ], "children": [ - 182334 + 947 ], - "area": 418330.243188, + "area": 516220.06158599997, "iscrowd": 0, "segmentation": [], - "text": "Conclusion" + "text": "Conclusions" }, { - "id": 182334, - "strid": "1e66d4ba-dce8-42aa-9e74-3166a00ca83a", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 4, - "category_name": "List", + "id": 947, + "strid": "fc618012-378b-44fc-b346-a71f47689ac5", + "image_id": 40, + "image_name": "116709.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 576.43, - 687.093, - 174.06600000000003, - 98.64700000000005 + 832.173, + 588.709, + 218.49800000000005, + 81.23000000000002 ], - "priority": 26, + "priority": 14, "parents": [ - 182317 + 946 ], "children": [], - "area": 396061.01798999996, + "area": 489907.73465699994, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Our Survey expresses evaluations of experienced DBS\nexperts tht af optimistic with respect tothe curent\nuseand potential ofS. A mismatch of patent fears\nand isk az well asthe satisfaction gap cequite closer\ninvestigation. The proces of patient information and\nselection should be performed by mor interdscipin\nary teams which alse unclusie paychiateste." }, { - "id": 182319, - "strid": "424bf126-9152-47b6-8ced-53b3354cf101", - "image_id": 207618, - "image_name": "8503.png", + "id": 948, + "strid": "f948d01e-c4e9-4954-9160-a36d5bb42497", + "image_id": 40, + "image_name": "116709.png", "category_id": 5, "category_name": "Section", "bbox": [ - 628.809, - 807.688, - 77.41200000000003, - 13.744000000000028 + 843.716, + 699.61, + 199.36, + 16.865999999999985 ], - "priority": 27, + "priority": 15, "parents": [ - 182339 + 933 ], "children": [ - 182335 + 949 ], - "area": 507881.483592, + "area": 590272.15076, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Ongoing Research & Outlook" }, { - "id": 182335, - "strid": "a39a7e48-a764-4ab0-8ef0-7ff778fb70e4", - "image_id": 207618, - "image_name": "8503.png", - "category_id": 4, - "category_name": "List", + "id": 949, + "strid": "d19eae8e-6a75-40a1-bff4-d06165d4b000", + "image_id": 40, + "image_name": "116709.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 581.544, - 844.701, - 146.19500000000005, - 124.12800000000004 + 831.704, + 718.817, + 220.164, + 81.22900000000004 ], - "priority": 28, + "priority": 16, "parents": [ - 182319 + 948 ], "children": [], - "area": 491230.798344, + "area": 597842.9741679999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "We are currently finalizing Our center survey and we\nwillcommpement this esearch by biblometi studies\nFuture esearch Includes the ivectigation whether\nindications fora conservative assignment practice,\nwhich may disfavor stable patients are confined,\nOther sues are patient delsion making process in\nassignment, and psychosocial effects of DBS." }, { - "id": 138280, - "strid": "38a9720b-01aa-4086-8b1f-ffa60c3e813a", - "image_id": 205860, - "image_name": "16480.png", + "id": 950, + "strid": "e3689b61-0cbc-4999-8737-4467043e41c8", + "image_id": 41, + "image_name": "116768.png", "category_id": 9, "category_name": "Root", "bbox": [ - 3250.37, - 26.36, - 57.63000000000011, - 261.8 + 1603.11, + 309.11, + 257.3100000000002, + 85.76999999999998 ], "priority": -1, "parents": [], "children": [ - 138253, - 138252, - 138256, - 138257, - 138251, - 138255, - 138254 + 952, + 951, + 958, + 987, + 969, + 953 ], - "area": 85679.75319999999, + "area": 495537.3321, "iscrowd": 0, "segmentation": [] }, { - "id": 138251, - "strid": "1c78747d-08ba-41e2-a7af-a45facccfb00", - "image_id": 205860, - "image_name": "16480.png", + "id": 951, + "strid": "d942620d-a974-4419-9d60-856ccc5a7d68", + "image_id": 41, + "image_name": "116768.png", "category_id": 1, "category_name": "Title", "bbox": [ - 38.28, - 30.039, - 3204.948, - 239.35200000000003 + 75.062, + 66.084, + 1792.682, + 186.832 ], "priority": 1, "parents": [ - 138280 + 950 ], "children": [], - "area": 1149.89292, + "area": 4960.397208, "iscrowd": 0, "segmentation": [], - "text": "The database of Spanish population variability: a\ncrowdsourcing resource for collecting local genomic data" + "text": "A Shape-based Approach to Biomodels: an _.\nExample for the Bone Remodelling Workbenc" }, { - "id": 138252, - "strid": "ebde0eca-afa6-4961-b747-44ef187b3cb9", - "image_id": 205860, - "image_name": "16480.png", + "id": 952, + "strid": "3cc14063-71b6-40c0-a244-625542fbd2ac", + "image_id": 41, + "image_name": "116768.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 41.806, - 294.947, - 3224.584, - 543.227 + 78.393, + 292.994, + 1124.588, + 97.50799999999998 ], "priority": 2, "parents": [ - 138280 + 950 ], "children": [], - "area": 12330.554282, + "area": 22968.678642000003, "iscrowd": 0, "segmentation": [], - "text": "Maria Pena-Chilet'23, Gema Roldan’, Javier Pérez-Florido'2:+, Francisco M. Ortufho!2, Rosario Carmona’,\nVirginia Aquino-Quintans', Daniel L6pez-Lé6pez'2, Arcadi Navarro>®7®, Jose L. Fernandez-Rueda! and\nJoaquin Dopazo!23;5\n\nClinical Bioinformatics Area, Fundacion Progreso y Salud. Seville, Spain. 2?Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), 41013.\nSevilla. Soain. Centre for Biomedical Research in Rare Diseases (CIBERER). Seville, Spain. “Virgen del Rocio University Hospital. Andalusian Health System.\nSeville, Soain. ° National Institute for Bioinformatics, INB-ELIXIR-es, Spain. Department of Experimental and Health Sciences, IBE, Institute of Evolutionary\nBiology, (Universitat Pompeu Fabra -CSIC), Barcelona, Catalonia, Spain. 7Centre for Genomic Regulation (CRG), Barcelona, Catalonia, Spain. ®Institucio\nCatalana de Recerca i Estudis Avan¢ats (ICREA), Barcelona, Catalonia, Spain. WT ACiinianzAlBiain‘g\n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\na" + "text": "Nicola Paoletti | ela Merelli | Luca Tesei - (Om\nSchool of Scie d Technology — CS division — University of Camerino" }, { - "id": 138253, - "strid": "7a4f4d47-718f-4745-87b7-65b15b84f857", - "image_id": 205860, - "image_name": "16480.png", + "id": 953, + "strid": "c585aeb6-07aa-4785-bac7-459fabcbc976", + "image_id": 41, + "image_name": "116768.png", "category_id": 5, "category_name": "Section", "bbox": [ - 124.395, - 950.927, - 528.398, - 55.64499999999998 + 67.303, + 451.494, + 734.951, + 58.661 ], "priority": 3, "parents": [ - 138280 + 950 ], "children": [ - 138279, - 138258 + 956, + 954, + 955 ], - "area": 118290.564165, + "area": 30386.900682, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Background and Motivation" }, { - "id": 138258, - "strid": "1c914fb4-f592-4cc2-b649-0e7b689dff65", - "image_id": 205860, - "image_name": "16480.png", + "id": 954, + "strid": "862e4e75-188f-4eea-9d9b-4ef390421dc3", + "image_id": 41, + "image_name": "116768.png", "category_id": 3, "category_name": "Text", "bbox": [ - 115.983, - 1026.452, - 1531.869, - 545.6760000000002 + 66.278, + 545.509, + 2222.627, + 169.83400000000006 ], "priority": 4, "parents": [ - 138253 + 953 ], "children": [], - "area": 119050.98231600001, + "area": 36155.245502000005, "iscrowd": 0, "segmentation": [], - "text": "Results from large-scale genomic projects suggest that allele\nfrequencies, which are highly relevant for medical purposes, differ\nconsiderably across different populations. The need for a detailed catalog\nof local variability motivated the creation of a Spanish population\nvariant server web tool. The Collaborative Spanish Variant Server\n(CSVS) is a catalog created as a free tool to provide information about the\nvariability of the Spanish population to the scientific and medical\ncommunity. Its usefulness for filtering polymorphisms and local\nvariations in the process of prioritizing candidate disease genes has been\nalready proven (1). Currently, CSVS stores information on 1942 unrelated\nSpanish individuals." + "text": "Recently, computational methods in biology and biomedicine started to consider spatial aspects of biological entities such as the position, an interaction radius or a physical shape.\nIndeed, physical and spatial aspects of biological entities cannot be neglected. However, such systems can exhibit features hard to capture with classical quantitative\nobservables [4]. Interactions and collective functions can be driven not only by quantitative features (e.g., space and geometry), but also by higher-level, more abstract,\n\nqualitative relations, not directly expressible by the “natural” space-driven interactions." }, { - "id": 138279, - "strid": "ef50fce5-cdd0-400c-a387-405f2fdf4c3e", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 4, - "category_name": "List", + "id": 955, + "strid": "37692b40-7d7e-4f50-b02a-f529443cf120", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 119.747, - 1589.173, - 1519.696, - 44.534000000000106 + 66.092, + 730.753, + 1737.506, + 311.13199999999995 ], "priority": 5, "parents": [ - 138253 + 953 ], "children": [], - "area": 190298.699231, + "area": 48296.927276, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Therefore, a generalization is possible of the ways by which interactions among entities can be modelled, a concept that unifies the\ntreatment of quantitative and qualitative interactions. We define a formal language where processes are embedded in a\ngeneralized shape that, by means of a more general non-metrical notion of neighbourhood, regulates their communications and\ninteractions, so lifting the geometrical space to a more abstract level. Being so general, this concept of shape proves to be able to express\nclassical process algebras, as well as quantitative extensions of them. Further, we compare the expressiveness and the capabilities of the\nnew shape-based approach w.r.t. more common techniques in computational biology, by using as a workbench the process of bone\nremodelling (BR), a case study of high clinical and biological relevance." }, { - "id": 138254, - "strid": "e868a154-a776-44a7-ba67-eb1f1a548acb", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 5, - "category_name": "Section", + "id": 956, + "strid": "e0c138a0-cee3-4ba1-8884-fcd57b2fd3a7", + "image_id": 41, + "image_name": "116768.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1724.574, - 950.484, - 543.9699999999998, - 56.43500000000006 + 1829.906, + 726.033, + 455.096, + 261.014 ], "priority": 6, "parents": [ - 138280 + 953 ], "children": [ - 138269 + 957 ], - "area": 1639179.9938160002, + "area": 1328572.142898, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 138269, - "strid": "31b31df1-94ff-4330-bac5-a24f109a64de", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 2, - "category_name": "Figure", + "id": 957, + "strid": "e472fa7f-a192-4875-b120-de3ab3644793", + "image_id": 41, + "image_name": "116768.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1712.296, - 1042.79, - 1488.883, - 591.3409999999999 + 1839.687, + 996.794, + 435.654, + 55.91700000000003 ], "priority": 7, "parents": [ - 138254 + 956 ], "children": [], - "area": 1785565.14584, + "area": 1833788.963478, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure |. Expressiveness of the shape-\nbased process algebra w.r-t. classical ones." }, { - "id": 138255, - "strid": "0eab17f9-9c05-4c40-b732-1ac57a2b0775", - "image_id": 205860, - "image_name": "16480.png", + "id": 958, + "strid": "a96114ed-085e-410f-8df3-0cdd8667dad6", + "image_id": 41, + "image_name": "116768.png", "category_id": 5, "category_name": "Section", "bbox": [ - 141.433, - 1725.673, - 731.695, - 57.74000000000001 + 65.807, + 1103.39, + 613.274, + 62.36999999999989 ], "priority": 8, "parents": [ - 138280 + 950 ], "children": [ - 138272, - 138271, - 138262, - 138261, - 138260, - 138273, - 138270, - 138259 + 960, + 966, + 959, + 963, + 961, + 968, + 965, + 962, + 964, + 967 ], - "area": 244067.109409, + "area": 72610.78573, "iscrowd": 0, "segmentation": [], - "text": "CURRENTLY ON CSVS" + "text": "" }, { - "id": 138259, - "strid": "4ab8ba09-3889-4825-ada5-38a96ca962c8", - "image_id": 205860, - "image_name": "16480.png", + "id": 959, + "strid": "4f369962-1d34-44c3-8df1-951ae400cbbf", + "image_id": 41, + "image_name": "116768.png", "category_id": 3, "category_name": "Text", "bbox": [ - 160.225, - 1833.93, - 814.964, - 317.193 + 99.125, + 1228.784, + 182.49, + 32.221000000000004 ], "priority": 9, "parents": [ - 138255 + 958 ], "children": [], - "area": 293841.43425, + "area": 121803.214, "iscrowd": 0, "segmentation": [], - "text": "Data in CSVS\n\nCurrently there are 1942 unrelated Spanish\nindividuals, among healthy controls, healthy\nindividuals with an affected relative, and\naffected individuals with no relatives in CSVS,\nthat can be used as pseudocontrols. Total number\nof variants reported in CSVS are 33,178,913, from\n324 genomes, 1,562 exomes and 56 panels." + "text": "" }, { - "id": 138270, - "strid": "ec7804e6-604f-4cc2-9f3f-ce9525ed0b66", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 2, - "category_name": "Figure", + "id": 960, + "strid": "fd3c162f-5c85-4855-8271-ebcceb7bca15", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1038.347, - 1843.679, - 733.758, - 359.71500000000015 + 98.189, + 1293.911, + 554.932, + 33.499000000000024 ], "priority": 10, "parents": [ - 138255 + 958 ], "children": [], - "area": 1914378.558613, + "area": 127047.827179, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A shape-based system is a tuple (S, B), where" }, { - "id": 138260, - "strid": "b5ca2792-a40f-4785-8a4f-a9eb6a1d3feb", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 3, - "category_name": "Text", + "id": 961, + "strid": "5f5f4bff-35b8-4419-89f6-eb7b8fd8938d", + "image_id": 41, + "image_name": "116768.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 158.404, - 2239.451, - 626.264, - 487.9569999999999 + 99.717, + 1340.595, + 996.1740000000001, + 34.75500000000011 ], "priority": 11, "parents": [ - 138255 + 958 ], "children": [], - "area": 354737.99620399997, + "area": 133680.111615, "iscrowd": 0, - "segmentation": [], - "text": "Genes saturation\n\nThe genes in CSVS are most of them\nsaturated in variants, however, there\nis a different saturation rate among\ngenes, most saturated genes are\nrelated to GO terms meiosis, cell\nsignaling and __ proliferation, ion\ntransport or homeostasis. While least\nsaturated genes are enriched in\nsensory perception processes, neuron\ndifferentiation, defense and antiviral\nresponse, among others." + "segmentation": [] }, { - "id": 138271, - "strid": "53a9427b-2610-44b1-902d-da199f827d69", - "image_id": 205860, - "image_name": "16480.png", + "id": 962, + "strid": "d64ebebf-bae2-45d6-a79e-89577cc5d44b", + "image_id": 41, + "image_name": "116768.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 801.103, - 2244.763, - 1027.9559999999997, - 503.80499999999984 + 255.622, + 1387.159, + 693.29, + 126.36799999999994 ], "priority": 12, "parents": [ - 138255 + 958 ], "children": [], - "area": 1798286.3735889997, + "area": 354588.35789800005, "iscrowd": 0, "segmentation": [] }, { - "id": 138261, - "strid": "d0e61630-d9cf-4be3-a182-1b2ffc2a59fb", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 3, - "category_name": "Text", + "id": 963, + "strid": "5257ecdd-f4eb-4f23-a13d-300d0b6784c1", + "image_id": 41, + "image_name": "116768.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1894.486, - 1842.582, - 507.45900000000006, - 480.135 + 99.138, + 1533.525, + 924.779, + 67.78899999999999 ], "priority": 13, "parents": [ - 138255 + 958 ], "children": [], - "area": 3490745.8028520006, + "area": 152030.60145000002, "iscrowd": 0, - "segmentation": [], - "text": "Pathogenic variants\n\nOf the pathogenic variants\nfrom ClinVar, 514 were found\nin CSVS control population, of\nthose 165 were not present in\n1000Genomes European\npopulation and 57 have a\nfrequency more than 2-fold\nincreased. On the right, 24\nvariants with CSVS frequency\nhigher than 0.01 are\nrepresented." + "segmentation": [] }, { - "id": 138272, - "strid": "9e4961e9-e1d7-4b42-beeb-e52fabd3e2a0", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 2, - "category_name": "Figure", + "id": 964, + "strid": "3a584e87-6127-4dd2-a8da-9c342800c4f6", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2428.031, - 1845.732, - 729.1170000000002, - 436.5079999999998 + 98.074, + 1700.892, + 624.812, + 41.62799999999993 ], "priority": 14, "parents": [ - 138255 + 958 ], "children": [], - "area": 4481494.513692, + "area": 166813.282008, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 138262, - "strid": "1d4c7f10-f2a7-4108-9868-61680f4904d0", - "image_id": 205860, - "image_name": "16480.png", + "id": 965, + "strid": "52b8f957-9d99-4748-9ec0-4d16f34ef112", + "image_id": 41, + "image_name": "116768.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1912.659, - 2361.765, - 676.9810000000002, - 354.8090000000002 + 98.017, + 1770.433, + 1010.3679999999999, + 180.9949999999999 ], "priority": 15, "parents": [ - 138255 + 958 ], "children": [], - "area": 4517251.083135, + "area": 173532.531361, "iscrowd": 0, "segmentation": [], - "text": "Pharmacogenetic variants\n\nSome of the pharmacogenetic variants\nhave different frequencies in Spanish\npopulation when compared with\n1000Genomes EUR population. The\ncorrelation between frequencies — is\nrepresented on the right, the associated\ndrug is shown only for those variants with\nhigher differences." + "text": "Bone remodelling is activated by biomechanical signals, expressed by osteocytes\nthat are located inside the bone matrix and are connected by means of a\ncanaliculi network.When a micro-fracture breaks the network, osteocytes detect\nthe disruption and activate the remodelling event by secreting factors among\nwhich the RANKL protein." }, { - "id": 138273, - "strid": "ce8a9e24-86f2-4bce-be9e-c9b0ee2a5959", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 2, - "category_name": "Figure", + "id": 966, + "strid": "9d49cb45-24c4-4daa-8ac5-ee2b7f19b26f", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2616.179, - 2310.439, - 553.511, - 422.1289999999999 + 106.738, + 2004.816, + 995.488, + 143.4269999999999 ], "priority": 16, "parents": [ - 138255 + 958 ], "children": [], - "area": 6044521.992581, + "area": 213990.050208, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Actions: AS Mx{open, closed, RANKL}, s.t.an action a=(p, |) contains a position\np in a metric space M and a label | describing the biological function of the\nprocess: open if the canals with other osteocytes are open, closed in case of\nmicro-fracture, or RANKL if the osteocyte is producing RANKL." }, { - "id": 138256, - "strid": "edb48300-9f22-49a3-8153-6999b29ae01a", - "image_id": 205860, - "image_name": "16480.png", - "category_id": 5, - "category_name": "Section", + "id": 967, + "strid": "bfa88eb0-dbe8-49f2-a1c1-bfe73698fbb4", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 145.261, - 2871.397, - 543.346, - 56.815000000000055 + 107.413, + 2173.741, + 990.5629999999999, + 232.67000000000007 ], "priority": 17, "parents": [ - 138280 - ], - "children": [ - 138274, - 138264, - 138263, - 138278, - 138276, - 138265, - 138266, - 138267, - 138277, - 138275 + 958 ], - "area": 417101.999617, + "children": [], + "area": 233488.042033, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Structure: S=(A,T) is defined by fixing a perception radius r&R*.The set T is\ncomposed by the collection of sets\n\n{ b=(p,,|,) =A | d(p,, p,)3). In case of sample consensus, common prognostic genes between genders were less than exclusive genes between them. However, prognostic genes with high sample consensus score generally\nexhibited high lineage consensus scores, implying that consensus scoring might improve the reproducibility of predicted prognostic gene expression in other cohort or cancer lineages. Furthermore, the lineage consensus score for\nthe association between sgRNA (CRISPR) efficacy and RNA expression could predict the association between shRNA and RNA expression. This study suggests that consensus scoring help smart data mining prioritizing true-positives\n\nfor the further validation. The concept of consensus scoring has been implemented in Q-omics software (http://qomics.sookmyung.ac.kr) for analyzing associations between diverse cancer omics data." + "text": "" }, { - "id": 148498, - "strid": "a099b1cb-a175-4804-8614-7d463f1d8fa7", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 5, - "category_name": "Section", + "id": 981, + "strid": "47319713-b437-41e1-bdf5-5d251c5d8dc7", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1207.496, - 1078.51, - 741.7240000000002, - 50.26099999999997 + 1246.919, + 2712.461, + 1008.021, + 142.61799999999994 ], - "priority": 5, + "priority": 31, "parents": [ - 148514 - ], - "children": [ - 148503, - 148500, - 148499, - 148502, - 148501 + 969 ], - "area": 1302296.51096, + "children": [], + "area": 3382219.157659, "iscrowd": 0, "segmentation": [], - "text": "I. Data mining for survival analysis" + "text": "It is a spatial process calculus for biological systems where processes are\nequipped with information like geometry, mass, position and velocity [I].\nInteractions between two biological entities can occur if their geometrical shapes\ncome into contact (binding)." }, { - "id": 148499, - "strid": "00fbbff6-ecae-411e-bfb6-acfa26e8094a", - "image_id": 206267, - "image_name": "19257.png", + "id": 982, + "strid": "11858f6b-27f6-4c72-a3a1-0c85fd8309bf", + "image_id": 41, + "image_name": "116768.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 65.864, - 1162.64, - 520.374, - 475.0450000000001 + 1246.326, + 2877.648, + 490.81999999999994, + 222.4749999999999 ], - "priority": 6, + "priority": 32, "parents": [ - 148498 + 969 ], - "children": [], - "area": 76576.12096000001, + "children": [ + 983 + ], + "area": 3586487.521248, "iscrowd": 0, "segmentation": [] }, { - "id": 148500, - "strid": "66c28d57-70b2-46cc-8a9b-25e330cbe2be", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 983, + "strid": "d5606bb4-7f88-4704-a41d-dabcc602747c", + "image_id": 41, + "image_name": "116768.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 622.501, - 1164.453, - 538.5060000000001, - 462.35300000000007 + 1257.517, + 3108.86, + 470.741, + 87.01000000000022 ], - "priority": 7, + "priority": 33, "parents": [ - 148498 + 982 ], "children": [], - "area": 724873.156953, + "area": 3909444.3006200003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 4. Shape Calculus example of RANKL\nsignaling by osteocytes resulting from the\nbreaking of the canalicular network." }, { - "id": 148501, - "strid": "d7250faf-4079-424c-bdb6-5d6585bdf57c", - "image_id": 206267, - "image_name": "19257.png", + "id": 984, + "strid": "db2de87c-d7fe-4b3e-ae15-a0bc9196f22a", + "image_id": 41, + "image_name": "116768.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 83.995, - 1679.388, - 1006.2980000000001, - 427.904 + 1758.751, + 2877.777, + 498.269, + 222.3069999999998 ], - "priority": 8, + "priority": 34, "parents": [ - 148498 + 969 ], - "children": [], - "area": 141060.19506, + "children": [ + 985 + ], + "area": 5061293.176527, "iscrowd": 0, "segmentation": [] }, { - "id": 148502, - "strid": "06dba799-36cf-4334-af14-d3f566d5bd8b", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 985, + "strid": "252d75cc-531d-424e-9ae0-33f398589dd5", + "image_id": 41, + "image_name": "116768.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1144.688, - 1175.332, - 1151.351, - 930.146 + 1768.841, + 3108.86, + 478.4949999999999, + 56.615999999999985 ], - "priority": 9, + "priority": 35, "parents": [ - 148498 + 984 ], "children": [], - "area": 1345388.4364160001, + "area": 5499079.03126, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 5. Shape Calculus specification of BR\nexecuted as an agent-based system [5]." }, { - "id": 148503, - "strid": "0fc7111c-83cd-45c5-b259-f5291570654c", - "image_id": 206267, - "image_name": "19257.png", + "id": 986, + "strid": "726a8589-4686-416f-885a-f5d3b1d4c8ff", + "image_id": 41, + "image_name": "116768.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2357.686, - 1240.606, - 741.5790000000002, - 737.952 + 1302.154, + 3232.749, + 893.2570000000001, + 33.8090000000002 ], - "priority": 10, + "priority": 36, "parents": [ - 148498 + 969 ], "children": [], - "area": 2924959.397716, + "area": 4209537.041346, "iscrowd": 0, "segmentation": [], - "text": "We performed a large-scale analysis using\npublic data to find new prognostic gene expression\nand anticancer targets for diverse cancers. Moreover,\nwe defined the favorable and unfavorable prognostic\ngene expression. Favorable prognostic gene\nexpression is a lower survival rate in the group with\nlow gene expression, and unfavorable prognostic gene\nexpression is a lower survival rate in the group with\nhigh gene expression. Distribution of prognostic gene\nexpression shows that there is difference in the\nnumber depending on the cancer lineage. In addition,\nlow gender consensus was confirmed by the large\ndifference between gender-common and overall\nprognostic gene. Therefore, we analyzed sample- and\n\nlineage-consensus." + "text": "Interactions regulated by physical and geometrical constraints." }, { - "id": 148504, - "strid": "97e180fb-fd16-4278-9226-da989c3edc31", - "image_id": 206267, - "image_name": "19257.png", + "id": 987, + "strid": "0e5a019c-6818-41a2-8116-fb4e5ce208dd", + "image_id": 41, + "image_name": "116768.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1208.011, - 2132.982, - 736.81, - 49.820000000000164 + 98.208, + 2837.369, + 129.423, + 22.204999999999927 ], - "priority": 11, + "priority": 37, "parents": [ - 148514 + 950 ], "children": [ - 148507, - 148506, - 148505 + 989, + 990, + 988 ], - "area": 2576665.718802, + "area": 278652.334752, "iscrowd": 0, "segmentation": [], - "text": "II. Sample- and lineage-consensus" + "text": "References" }, { - "id": 148507, - "strid": "bc194716-1e15-4c5c-9135-5dafef22ffd2", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 988, + "strid": "bc28a830-092f-4ef4-b6a1-04ae301ddc85", + "image_id": 41, + "image_name": "116768.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 13.656, - 2211.895, - 1349.308, - 851.6129999999998 + 96.923, + 2870.963, + 1026.95, + 260.97400000000016 ], - "priority": 12, + "priority": 38, "parents": [ - 148504 + 987 ], "children": [], - "area": 30205.63812, + "area": 278262.346849, "iscrowd": 0, "segmentation": [] }, { - "id": 148505, - "strid": "e3492340-ed25-4c1b-9eb8-a9ec7acc955f", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 989, + "strid": "129adc42-3a6d-40af-8a18-f2fc1e140422", + "image_id": 41, + "image_name": "116768.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1552.859, - 2254.764, - 1446.317, - 439.61799999999994 + 97.389, + 3157.417, + 1005.5269999999999, + 51.32600000000002 ], - "priority": 13, + "priority": 39, "parents": [ - 148504 + 987 ], "children": [], - "area": 3501330.570276, + "area": 307497.684213, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Acknowledgements: The authors thank TOPDRIM: Topology Driven Methods for Complex Systems, project funded by\nthe European Commission (FP7 ICT FET Proactive - N.318121)." }, { - "id": 148506, - "strid": "93d6a258-9af2-4a05-bcb2-37c3529c161a", - "image_id": 206267, - "image_name": "19257.png", + "id": 990, + "strid": "91b05ccd-cf23-44c0-acf6-a4d78baebc48", + "image_id": 41, + "image_name": "116768.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1441.003, - 2756.813, - 1680.4329999999998, - 288.74299999999994 + 97.559, + 3232.644, + 600.446, + 28.434999999999945 ], - "priority": 14, + "priority": 40, "parents": [ - 148504 + 987 ], "children": [], - "area": 3972575.803439, + "area": 315373.515996, "iscrowd": 0, "segmentation": [], - "text": "A consensus scoring method was used to preferentially select data with high experimental validation success rates.\nThe \"Sample Consensus Score\" is derived by iteratively calculating the significance (p-value) of the correlation between gene\nexpression and patient survival in a specific cancer type through various sampling methods, and the significance of several\nother cancer lineages is derived from the \"Lineage consensus score\". we compared the two consensus scores. The two\nconsensus scores were highly correlated. This means that the predictability is high, and we thought this was an indicator that\n\ncould increase the experimental success rate." + "text": "Corresponding author: Nicola Paoletti, nicola.paoletti@uhicam.it" }, { - "id": 148508, - "strid": "93dce7c4-e625-4568-882f-c9f21de15dac", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 5, - "category_name": "Section", + "id": 991, + "strid": "c1b80f20-d7f4-4021-ab28-e31ed1b959b5", + "image_id": 42, + "image_name": "116804.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 396.013, - 3090.367, - 742.594, - 55.30000000000018 - ], - "priority": 15, - "parents": [ - 148514 + 62.37, + 76.49, + 213.93, + 213.93 ], + "priority": -1, + "parents": [], "children": [ - 148509 - ], - "area": 1223825.506771, - "iscrowd": 0, - "segmentation": [], - "text": "I. Validation of consensus scoring" - }, - { - "id": 148509, - "strid": "282199dd-cd30-4fe7-9b31-9a90c1f31196", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 72.116, - 3174.106, - 1433.048, - 680.9740000000002 - ], - "priority": 16, - "parents": [ - 148508 + 1001, + 1005, + 995, + 992, + 994, + 999, + 1007, + 993, + 1003, + 1008, + 997 ], - "children": [], - "area": 228903.82829600002, + "area": 4770.681299999999, "iscrowd": 0, "segmentation": [] }, { - "id": 148513, - "strid": "b70f0e7c-84fa-4088-8065-fa5a254e09e4", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2152.28, - 3090.593, - 376.94000000000005, - 49.65700000000015 - ], - "priority": 17, - "parents": [ - 148514 - ], - "children": [ - 148512, - 148511 - ], - "area": 6651821.502040001, - "iscrowd": 0, - "segmentation": [], - "text": "Q-omics software" - }, - { - "id": 148511, - "strid": "4fce3da0-7f16-43ea-bec1-2728bb6dd100", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 992, + "strid": "edc8a571-ce6c-4beb-8edc-847fbe289cc8", + "image_id": 42, + "image_name": "116804.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 1625.242, - 3161.692, - 308.097, - 487.53899999999976 + 319.201, + 86.876, + 2686.23, + 207.689 ], - "priority": 18, + "priority": 1, "parents": [ - 148513 + 991 ], "children": [], - "area": 5138514.6294639995, + "area": 27730.906076000003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Different level, but a similar day patteri: of physical activity in workers and\n\nsick-listed people with chronic nonspecific Pineal oan pain" }, { - "id": 148512, - "strid": "50821419-e7b2-41e0-9426-12e5f37dd28f", - "image_id": 206267, - "image_name": "19257.png", - "category_id": 2, - "category_name": "Figure", + "id": 993, + "strid": "5477e8b5-2097-48d0-8dec-007fadff17ae", + "image_id": 42, + "image_name": "116804.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1973.968, - 3163.949, - 663.5939999999998, - 492.0529999999999 + 752.689, + 325.534, + 1822.83, + 64.82100000000003 ], - "priority": 19, + "priority": 2, "parents": [ - 148513 + 991 ], "children": [], - "area": 6245534.079632, + "area": 245025.860926, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Reneman MF ', de Vries HJ ', van den Hengel EJ *, Brouwer S ?, van der Woude LH *" }, { - "id": 148510, - "strid": "1b380d8e-d0c1-4680-933c-057d90d45161", - "image_id": 206267, - "image_name": "19257.png", + "id": 994, + "strid": "b6f79064-676c-4d66-ab56-ca657f8ec80a", + "image_id": 42, + "image_name": "116804.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1615.762, - 3682.862, - 1469.387, - 143.779 + 95.033, + 910.498, + 54.35600000000001, + 2493.789 ], - "priority": 20, + "priority": 3, "parents": [ - 148514 + 991 ], "children": [], - "area": 5950628.470844, + "area": 86527.356434, "iscrowd": 0, "segmentation": [], - "text": "O Reference\nQ-omics: Smart Software for Assisting Oncology and Cancer Research, Jieun Lee, Youngju Kim, Seonghee Jin,\n\nHeeseing Yoo, Sumin Jeong, Euna Jeong and Sukjoon Yoon, Molecules and Cells, 2021 Nov 30;44(11):843-\n850." + "text": "" }, { - "id": 107641, - "strid": "68767a7c-6217-49ea-92f3-664aa03a1554", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 9, - "category_name": "Root", + "id": 995, + "strid": "71c8490a-39c0-4b06-b800-74ae39f39e58", + "image_id": 42, + "image_name": "116804.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 25.76, - 20.58, - 168.11, - 36.77 + 249.74, + 487.332, + 349.211, + 73.76999999999998 + ], + "priority": 4, + "parents": [ + 991 ], - "priority": -1, - "parents": [], "children": [ - 107630, - 107640, - 107629, - 107633, - 107632, - 107631 + 996 ], - "area": 530.1408, + "area": 121706.29368, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Background" }, { - "id": 107629, - "strid": "a0101a2e-820b-4059-be31-111992370fe6", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 1, - "category_name": "Title", + "id": 996, + "strid": "10490a2f-1b82-4605-92d2-d20a0ff91f43", + "image_id": 42, + "image_name": "116804.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 52.992, - 92.672, - 1407.775, - 328.134 + 250.417, + 607.137, + 945.523, + 1347.435 ], - "priority": 1, + "priority": 5, "parents": [ - 107641 + 995 ], "children": [], - "area": 4910.874624, + "area": 152037.426129, "iscrowd": 0, - "segmentation": [], - "text": "Sensitive dataset\naccess manage eal" + "segmentation": [] }, { - "id": 107640, - "strid": "4ddfa2b7-193f-4cb4-89a7-c1cf2b25f3b5", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 0, - "category_name": "Author Info", + "id": 997, + "strid": "0ca69d29-594c-4756-a65d-9bce40e34259", + "image_id": 42, + "image_name": "116804.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 466.17, - 3003.747, - 398.137, - 206.23000000000002 + 1252.501, + 486.737, + 273.865, + 58.91699999999997 ], - "priority": 2, + "priority": 6, "parents": [ - 107641 + 991 ], - "children": [], - "area": 1400256.73899, + "children": [ + 998 + ], + "area": 609638.579237, "iscrowd": 0, "segmentation": [], - "text": "Authors\n\nMikael Linden, ELIXIR-FI\nTommi Jalkanen, ELIXIR-FI\nJuha Térnroos, ELIXIR-FI" + "text": "Methods" }, { - "id": 107633, - "strid": "8c46f1bf-b660-4671-9775-9961eb95bf1c", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 3, - "category_name": "Text", + "id": 998, + "strid": "fc1fd3f4-fbeb-47b4-9162-fff376b041b9", + "image_id": 42, + "image_name": "116804.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 60.175, - 549.651, - 2184.824, - 101.11900000000003 + 1255.957, + 608.264, + 969.6189999999999, + 1212.929 ], - "priority": 3, + "priority": 7, "parents": [ - 107641 + 997 ], "children": [], - "area": 33075.24892499999, + "area": 763953.4286480001, "iscrowd": 0, - "segmentation": [], - "text": "The ELIXIR human data community and the ELIXIR AAI task have developed an architecture for managing user’s access\nrights to sensitive datasets and enforcing the access rights in the computing environment." + "segmentation": [] }, { - "id": 107630, - "strid": "36a31417-5cdd-4a8f-9332-968790c0cbed", - "image_id": 204668, - "image_name": "12747.png", + "id": 999, + "strid": "5f8ed9d9-be0f-4ac2-9348-cda0e54b94c5", + "image_id": 42, + "image_name": "116804.png", "category_id": 5, "category_name": "Section", "bbox": [ - 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Applying for access to datasets" + "text": "Results" }, { - "id": 107636, - "strid": "1c85511b-b60f-41e5-b31d-f341aaaa99e4", - "image_id": 204668, - "image_name": "12747.png", + "id": 1000, + "strid": "53e266f2-5497-489b-ba86-da2864685b19", + "image_id": 42, + "image_name": "116804.png", "category_id": 4, "category_name": "List", "bbox": [ - 76.695, - 812.314, - 1021.377, - 554.228 + 2261.248, + 606.66, + 935.98, + 573.4320000000001 ], - "priority": 5, + "priority": 9, "parents": [ - 107630 + 999 ], "children": [], - "area": 62300.42222999999, + "area": 1371808.71168, "iscrowd": 0, "segmentation": [] }, { - "id": 107631, - "strid": "5163b85c-3b44-4e53-94cf-f373c0df0230", - "image_id": 204668, - "image_name": "12747.png", + "id": 1001, + "strid": "78686203-bd35-470a-8211-62a64ddeddf0", + "image_id": 42, + "image_name": "116804.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1253.874, - 719.899, - 845.3839999999998, - 57.14200000000005 + 2260.703, + 1322.354, + 357.00599999999986, + 58.95499999999993 ], - "priority": 6, + "priority": 10, "parents": [ - 107641 + 991 ], "children": [ - 107637 + 1002 ], - "area": 902662.638726, + "area": 2989449.654862, "iscrowd": 0, "segmentation": [], - "text": "Il. Enforcing dataset access in a cloud" + "text": "Sonclusions" }, { - "id": 107637, - "strid": "d3123423-64e6-4add-83d1-010b4f0ef97e", - "image_id": 204668, - "image_name": "12747.png", + "id": 1002, + "strid": "c5efbffa-8328-4efd-8eae-0bb8a7daae45", + "image_id": 42, + "image_name": "116804.png", "category_id": 4, "category_name": "List", "bbox": [ - 1255.215, - 802.193, - 1038.311, - 554.943 + 2262.657, + 1435.793, + 936.665, + 451.578 ], - "priority": 7, + "priority": 11, "parents": [ - 107631 + 1001 ], "children": [], - "area": 1006924.6864949999, + "area": 3248707.082001, "iscrowd": 0, "segmentation": [] }, { - "id": 107632, - "strid": "1412bb5a-ac2b-489c-8881-ffcc377c009e", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 5, - "category_name": "Section", + "id": 1003, + "strid": "56a25d54-60f8-40d8-8a1f-fcac594afca0", + "image_id": 42, + "image_name": "116804.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 63.373, - 2084.533, - 244.39300000000003, - 44.27599999999984 + 1272.717, + 1960.477, + 1960.681, + 1025.1990000000003 ], - "priority": 8, + "priority": 12, "parents": [ - 107641 + 991 ], "children": [ - 107639, - 107638, - 107635, - 107634 + 1004 ], - "area": 132103.109809, + "area": 2495132.4060090003, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 107638, - "strid": "2f2c2356-8517-427b-b30c-3c21fb10bac3", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 2, - "category_name": "Figure", + "id": 1004, + "strid": "e34b1d90-a580-4d23-bb28-fe86d60a8165", + "image_id": 42, + "image_name": "116804.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 50.758, - 1428.807, - 1064.605, - 571.002 + 832.714, + 2128.298, + 391.15300000000013, + 378.80999999999995 ], - "priority": 9, + "priority": 13, "parents": [ - 107632 + 1003 ], "children": [], - "area": 72523.385706, + "area": 1772263.5407719999, + "iscrowd": 0, + "segmentation": [], + "text": "Figure:\nPhysical activity\npatterns during\n\nane]" + }, + { + "id": 1005, + "strid": "c58911b7-5ecd-4f5c-845f-cde25c16aed6", + "image_id": 42, + "image_name": "116804.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 247.622, + 3037.781, + 2985.669, + 932.3499999999999 + ], + "priority": 14, + "parents": [ + 991 + ], + "children": [ + 1006 + ], + "area": 752221.406782, "iscrowd": 0, "segmentation": [] }, { - "id": 107639, - "strid": "96dc8d54-3303-4e5e-8825-a4959fdfc77a", - "image_id": 204668, - "image_name": "12747.png", - "category_id": 2, - "category_name": "Figure", + "id": 1006, + "strid": "8be975c2-e9ee-4e3a-93fe-773fb0f73334", + "image_id": 42, + "image_name": "116804.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 957.326, - 1429.697, - 1358.7619999999997, - 1502.28 + 244.376, + 2835.321, + 876.902, + 163.71500000000015 ], - "priority": 10, + "priority": 15, "parents": [ - 107632 + 1005 ], "children": [], - "area": 1368686.110222, + "area": 692884.404696, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Table: Demographics and clinical\n\ncharacteristics ofthe study samples" }, { - "id": 107634, - "strid": "4a7c2b30-790b-4a0b-907e-949e7ee3d307", - "image_id": 204668, - "image_name": "12747.png", + "id": 1007, + "strid": "ebb2dfaf-7697-410e-a0a7-9be7bd4518a6", + "image_id": 42, + "image_name": "116804.png", "category_id": 3, "category_name": "Text", "bbox": [ - 61.427, - 2166.615, - 825.888, - 205.57900000000018 + 246.917, + 4013.885, + 1138.325, + 48.08899999999994 ], - "priority": 11, + "priority": 16, "parents": [ - 107632 + 991 ], "children": [], - "area": 133088.659605, + "area": 991096.4425450001, "iscrowd": 0, "segmentation": [], - "text": "ELIXIR AAI (authentication and authorisation\ninfrastructure) is the ELIXIR Compute platform service\nportfolio for authenticating researchers and assisting\nthe relying services in deciding what they are permitted\nto do in the service." + "text": "*Chi-SquareJest;-°Independent-Samples t-test; ‘ Mann-Whitney test" }, { - "id": 107635, - "strid": "1d30eeb0-aeae-4009-88f2-94635576a60f", - "image_id": 204668, - "image_name": "12747.png", + "id": 1008, + "strid": "aaac1a82-ccd5-48cc-a002-0d21170ddb02", + "image_id": 42, + "image_name": "116804.png", "category_id": 4, "category_name": "List", "bbox": [ - 58.665, - 2493.566, - 817.886, - 328.6410000000001 + 432.613, + 4110.009, + 2620.029, + 162.8119999999999 ], - "priority": 12, + "priority": 17, "parents": [ - 107632 + 991 ], "children": [], - "area": 146285.04939, + "area": 1778043.323517, "iscrowd": 0, "segmentation": [] }, { - "id": 92568, - "strid": "9139a32c-de84-409d-97e7-ebff6a49a325", - "image_id": 204087, - "image_name": "12143.png", + "id": 1009, + "strid": "54495b3a-d756-4dda-b0ed-c65f7e1b891f", + "image_id": 43, + "image_name": "116806.png", "category_id": 9, "category_name": "Root", "bbox": [ - 2243.52, - 86.63, - 266.1199999999999, - 206.98000000000002 + 185, + 7.51, + 64.44999999999999, + 31.03 ], "priority": -1, "parents": [], "children": [ - 92550, - 92551, - 92556, - 92553, - 92552, - 92555, - 92549, - 92554 + 1042, + 1016, + 1040, + 1021, + 1037, + 1043, + 1025, + 1014, + 1019, + 1017, + 1023, + 1011, + 1041, + 1010, + 1038, + 1015, + 1039, + 1012, + 1013 ], - "area": 194356.1376, + "area": 1389.35, "iscrowd": 0, "segmentation": [] }, { - "id": 92549, - "strid": "934f2227-2e6e-4997-ba30-49d2ccd89f7f", - "image_id": 204087, - "image_name": "12143.png", + "id": 1010, + "strid": "6db373e2-0513-4676-adbd-e7023ddc5540", + "image_id": 43, + "image_name": "116806.png", "category_id": 1, "category_name": "Title", "bbox": [ - 56.451, - 77.193, - 2043.103, - 120.09000000000002 + 191.437, + 40.49, + 370.828, + 40.263 ], "priority": 1, "parents": [ - 92568 + 1009 ], "children": [], - "area": 4357.622043, + "area": 7751.284130000001, "iscrowd": 0, "segmentation": [], - "text": "Gene Set Variation Analysis in cBioPortal" + "text": "Development of manual skills and handedness\nina Papuan population" }, { - "id": 92550, - "strid": "8ef3d2ba-38d1-4bb7-b85f-6847e8d86ed3", - "image_id": 204087, - "image_name": "12143.png", + "id": 1011, + "strid": "8c664fe7-f9d0-43c9-92d8-c48b91357f6e", + "image_id": 43, + "image_name": "116806.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 59.812, - 237.168, - 1557.099, - 380.966 + 207.678, + 92.934, + 343.08299999999997, + 23.683999999999997 ], "priority": 2, "parents": [ - 92568 + 1009 ], "children": [], - "area": 14185.492416, + "area": 19300.347252, "iscrowd": 0, "segmentation": [], - "text": "List of Authors & Presenter: Pieter Lukasse’, Fedde Schaeffer’, Oleguer Plantalech Casals’,\nSander Tan’, Dionne Zaal’, Ersin Ciftci?, Angelica Ochoa*, Adam Abeshouse®*, Hongxin Zhang’,\nYichao Sun’, Robert Sheridan’, JianJiong Gao*, Benjamin Gross*, Sjoerd van Hagen’,\n\nKees van Bochove’\n\n \n\n1 The Hyve, Arthur van Schendelstraat 650, 3511 MJ Utrecht, The Netherlands. Email: office@thehyve.nl\n1 The Hyve, Cambridge Innovation Center, 1 Broadway, 14th Floor, Cambridge, MA 02142, USA\n\n? Dana Farber Cancer Institute\n\n* Memorial Sloan Kettering Cancer Center" + "text": "Geuze Reid’, Sara M.Schaafsma*, Wull Schielenhdvel ten Groothuie*\n“+ local@@pearch assistente: Yundinus Mebiel, Enus Kone Philipus Nebial" }, { - "id": 92551, - "strid": "4f312982-cae9-4d1c-857e-2bfbf6b981ab", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 5, - "category_name": "Section", + "id": 1012, + "strid": "cd7b4977-589b-493c-91ab-c85542d660f6", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 91.5, - 674.112, - 176.171, - 36.138000000000034 + 6.545, + 6.338, + 152.734, + 115.256 ], "priority": 3, "parents": [ - 92568 + 1009 ], - "children": [ - 92557 + "children": [], + "area": 41.48221, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1013, + "strid": "d05986bb-626b-4fb6-85de-8fb27cf4d94a", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 587.957, + 7.049, + 155.78999999999996, + 116.778 ], - "area": 61681.248, + "priority": 4, + "parents": [ + 1009 + ], + "children": [], + "area": 4144.508893, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 92557, - "strid": "c4c5b8a4-7b08-466b-9b9e-026880a0fbbb", - "image_id": 204087, - "image_name": "12143.png", + "id": 1014, + "strid": "0642e1a4-1241-49d0-a3f9-46492e135747", + "image_id": 43, + "image_name": "116806.png", "category_id": 3, "category_name": "Text", "bbox": [ - 88.906, - 772.509, - 1550.122, - 747.652 + 25.661, + 131.127, + 712.6089999999999, + 69.79599999999999 ], - "priority": 4, + "priority": 5, "parents": [ - 92551 + 1009 ], "children": [], - "area": 68680.685154, + "area": 3364.8499470000006, "iscrowd": 0, "segmentation": [], - "text": "cBioPortal is an open source application for integrative analysis and visualization of\nlarge scale cancer genomics datasets [1,2], originally developed by Memorial Sloan\nKettering Cancer Center (New York) and, since its open source release in 2015, by\na larger community including The Hyve (The Netherlands) [3].\n\nHere we present the recent features implemented for supporting Gene Set\nVariation Analysis (GSVA) in cBioPortal. We show how GSVA data is displayed in\nthe cBioPortal Oncoprint visualization, with support for hierarchical clustering, and\nhow it can be used in a variety of other plots and analyses.\n\nThis functionality is new in cBioPortal and could be useful to any of the users of this\npopular open source cancer genomics platform. GSVA support enables a new\ndimension of exploratory analysis in cBioPortal, allowing researchers to search and\nfind patterns at the level of molecular processes (i.e. multiple genes that are known\nto work in concert), instead of exploring the data at the level of individual genes." + "text": "Reported variation in frequency of left-handedness between cultures ranges fram 0.5 to 24%. We investigated hand skill and handedness in a non-\n\n \n\nindustrial population inthe highlands of New Guinea whera peopl stil ive a traditional ie ceflecting conditions in which handednéss may have evolved,\n\n \n\nAim: To investigate effects of age, éortected for sex on hand skill, asymmetry in and ekil, and hand preference.\n\n \n\nMethod: e621 highland Paptans: age 5-7Oy (38%<18y); 47% male; Analyséd> linear regression (asymmetry, age, sex)" }, { - "id": 92553, - "strid": "16b8a278-8102-42d9-84b2-62aff2406c17", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 5, - "category_name": "Section", + "id": 1015, + "strid": "aab29c91-4234-4776-9410-03dd87f1eef9", + "image_id": 43, + "image_name": "116806.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 90.492, - 1621.789, - 428.3469999999999, - 37.97199999999998 + 26.413, + 210.49, + 398.347, + 12.094999999999999 ], - "priority": 5, + "priority": 6, "parents": [ - 92568 + 1009 ], - "children": [ - 92558, - 92559 - ], - "area": 146758.930188, + "children": [], + "area": 5559.67237, "iscrowd": 0, "segmentation": [], - "text": "Introduction to GSVA" + "text": "Laterality Indices (): Llskill = R-Loor (R-L)/(R+L)" }, { - "id": 92558, - "strid": "05cf7b2f-c4aa-4c7e-a5e0-e28dd80fe40a", - "image_id": 204087, - "image_name": "12143.png", + "id": 1016, + "strid": "4e74466f-36dd-44d9-bb9f-0ed2601dec18", + "image_id": 43, + "image_name": "116806.png", "category_id": 3, "category_name": "Text", "bbox": [ - 89.318, - 1719.578, - 1550.129, - 448.80499999999984 + 491.466, + 211.253, + 240.31499999999994, + 11.463999999999999 ], - "priority": 6, + "priority": 7, "parents": [ - 92553 + 1009 ], "children": [], - "area": 153589.267804, + "area": 103823.666898, "iscrowd": 0, "segmentation": [], - "text": "Methods for analysing expression data at the level of gene sets (sometimes also\ncalled signatures) instead of single genes, have been presented in different forms.\nOne such method is the Gene Set Enrichment Analysis (GSEA)[4] which provides a\nsupervised method for finding enriched gene sets between two predefined sample\nsets. Among the unsupervised methods are Single Sample GSEA (ssGSEA)[5] and\nGene Set Variation Analysis (GSVA)[6], where each sample and gene set\ncombination gets a score representing the degree to which the genes in the gene\nset are coordinately up- or down-regulated within that sample. Figure 1 below\nsummarizes this concept." + "text": "Hand preference: 10 tasks; Llpret = (nR- nL)/(nR+ nL)" }, { - "id": 92559, - "strid": "885c86a9-3714-4ae2-8399-c799abfcc8dc", - "image_id": 204087, - "image_name": "12143.png", + "id": 1017, + "strid": "95cf1d13-8d5d-40c1-93ec-969ee09d47fa", + "image_id": 43, + "image_name": "116806.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 60.91, - 2254.098, - 1673.385, - 860.6300000000001 + 26.29, + 232.323, + 108.32, + 82.35299999999998 ], - "priority": 7, + "priority": 8, "parents": [ - 92553 + 1009 ], "children": [ - 92560 + 1018 ], - "area": 137297.10918, + "area": 6107.77167, "iscrowd": 0, "segmentation": [] }, { - "id": 92560, - "strid": "fd302804-e253-419e-9619-f4aa9d58bdeb", - "image_id": 204087, - "image_name": "12143.png", + "id": 1018, + "strid": "7a796e7a-4311-47f3-bb9a-3552d848f2a1", + "image_id": 43, + "image_name": "116806.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 203.41, - 3197.287, - 1365.061, - 179.26200000000017 + 57.076, + 317.203, + 45.019, + 11.053999999999974 ], - "priority": 8, + "priority": 9, "parents": [ - 92559 + 1017 ], "children": [], - "area": 650360.1486699999, + "area": 18104.678428, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: simplified illustration of how GSVA works, using data from Glioblastoma Multiforme (TCGA, Provisional),\nhighlighting each gene set / sample combination (top row) where the genes in the given gene set are coordinately up- or\ndown-regulated. The dotted line shows a group of genes that are part of the \"CDK Regulation of DNA Replication\" gene set\n(only 5 of the 18 genes are shown here). Green blocks are the samples where the genes in the \"CDK Regulation of DNA\nReplication\" gene set show coordinated down regulation, while magenta blocks show the samples where the genes show\ncoordinated up regulation." + "text": "" }, { - "id": 92554, - "strid": "372f4498-9dab-47ef-b637-e022e862cc18", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 5, - "category_name": "Section", + "id": 1019, + "strid": "53677d8b-e782-4261-8b65-dca1a80bb844", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 88.717, - 3455.13, - 226.714, - 46.12300000000005 + 164.684, + 233.577, + 151.96199999999996, + 82.36500000000001 ], - "priority": 9, + "priority": 10, "parents": [ - 92568 + 1009 ], "children": [ - 92561 + 1020 ], - "area": 306528.76821, + "area": 38466.394668, "iscrowd": 0, - "segmentation": [], - "text": "Availability" + "segmentation": [] }, { - "id": 92561, - "strid": "45c9d0a0-d1b7-4c93-b052-f05c80de27a9", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 3, - "category_name": "Text", + "id": 1020, + "strid": "db32c7e6-d310-4f07-9090-149e2fa59ba4", + "image_id": 43, + "image_name": "116806.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 88.184, - 3553.831, - 1553.342, - 249.95699999999988 + 201.263, + 317.24, + 61.59, + 11.197999999999979 ], - "priority": 10, + "priority": 11, "parents": [ - 92554 + 1019 ], "children": [], - "area": 313391.032904, + "area": 63848.67412, "iscrowd": 0, "segmentation": [], - "text": "The features are available on The Hyve's cBioPortal server for a number of TCGA\n\nstudies: https://cbioportal.thehyve.net/cbioportal. Code (GNU AGPL v3) can be\nfound on GitHub: https://github.com/thehyve/cbioportal/tree/gsva_cbio. Processed\n\nGSVA data for TCGA studies can be found on GitHub (git LFS):\n\nhttps://github.com/thehyve/datahub/tree/gsva_results." + "text": "Ball throwing" }, { - "id": 92552, - "strid": "09bfb5b1-2888-4cc8-ac0d-4bae273debe9", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 5, - "category_name": "Section", + "id": 1021, + "strid": "3921604a-74f6-4a2a-ada4-2c7654b63445", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1806.905, - 1010.277, - 261.35900000000015, - 37.95700000000011 + 349.043, + 235.068, + 104.303, + 79.52099999999999 ], - "priority": 11, + "priority": 12, "parents": [ - 92568 + 1009 ], "children": [ - 92565, - 92566 + 1022 ], - "area": 1825474.562685, + "area": 82048.839924, "iscrowd": 0, - "segmentation": [], - "text": "New features" + "segmentation": [] }, { - "id": 92565, - "strid": "f74761ab-259a-4933-ba5c-b67923fc13e2", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 3, - "category_name": "Text", + "id": 1022, + "strid": "e02d4c6e-23c9-4981-a0e6-cd96c54db074", + "image_id": 43, + "image_name": "116806.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1804.66, - 1108.138, - 1710.7189999999998, - 91.11799999999994 + 376.511, + 316.641, + 47.745000000000005, + 10.88900000000001 ], - "priority": 12, + "priority": 13, "parents": [ - 92552 + 1021 ], "children": [], - "area": 1999812.32308, + "area": 119218.81955100001, "iscrowd": 0, "segmentation": [], - "text": "To support GSVA in cBioPortal, new features were developed, highlighted in Figure 2\nbelow." + "text": "Grip force" }, { - "id": 92566, - "strid": "63dda858-7c32-4792-8718-e10d1da0f4ce", - "image_id": 204087, - "image_name": "12143.png", + "id": 1023, + "strid": "6d5a805c-f290-4f7a-b691-e338f000eca7", + "image_id": 43, + "image_name": "116806.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1825.269, - 1214.483, - 1721.2550000000003, - 2047.322 + 489.348, + 237.347, + 212.632, + 77.51200000000003 ], - "priority": 13, + "priority": 14, "parents": [ - 92552 + 1009 ], "children": [ - 92564 + 1024 ], - "area": 2216758.1709269998, + "area": 116145.279756, "iscrowd": 0, "segmentation": [] }, { - "id": 92564, - "strid": "43ca2968-5b06-4314-affd-91db0f449b0e", - "image_id": 204087, - "image_name": "12143.png", + "id": 1024, + "strid": "827d9694-cc48-4a54-bd31-d867d2eff944", + "image_id": 43, + "image_name": "116806.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1969.659, - 3329.728, - 1346.187, - 89.25599999999986 + 535.016, + 316.532, + 138.24, + 10.795999999999992 ], - "priority": 14, + "priority": 15, "parents": [ - 92566 + 1023 ], "children": [], - "area": 6558428.722752, + "area": 169349.68451199998, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: some of the new features implemented for supporting GSVA in cBioPortal: new query options in the query page\n(Figure 2a), support for GSVA data in Oncoprint (Figure 2b), support for heatmap visualization and heatmap clustering in\nOncoprint (Figure 2c), support for GSVA in Plots tab (Figure 2d), support for GSVA in Co-expression tab (Figure 2e)." + "text": "2 of 10 hand preference items" }, { - "id": 92556, - "strid": "4efab191-8647-4358-9717-d490bd810f2f", - "image_id": 204087, - "image_name": "12143.png", + "id": 1025, + "strid": "2ce82431-8d80-4d8d-b147-9097b494be2a", + "image_id": 43, + "image_name": "116806.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1803.071, - 3465.875, - 655.6639999999998, - 46.108999999999924 + 26.226, + 333.93, + 44.36699999999999, + 9.870999999999981 ], - "priority": 15, + "priority": 16, "parents": [ - 92568 + 1009 ], "children": [ - 92563, - 92567 - ], - "area": 6249218.702125, - "iscrowd": 0, - "segmentation": [], - "text": "About the cBioPortal community" - }, - { - "id": 92567, - "strid": "18860677-8f48-4f15-99db-be713e3c26cb", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1804.73, - 3566.457, - 1710.0750000000003, - 396.5540000000001 + 1035, + 1029, + 1034, + 1026, + 1032, + 1031, + 1033, + 1036, + 1030, + 1028, + 1027 ], - "priority": 16, - "parents": [ - 92556 - ], - "children": [], - "area": 6436491.94161, + "area": 8757.64818, "iscrowd": 0, "segmentation": [], - "text": "Our community consists of a group of software engineers, bioinformaticians and cancer\nbiologists building software solutions for precision medicine for cancer patients. Our overall\ngoal is to build infrastructure to support clinical decisions for personalized cancer treatment\nby utilizing “big data” of cancer genomics and patient clinical profiles. Our multi-institutional\nteam currently has many active members, primarily from Memorial Sloan Kettering Cancer\nCenter in New York, the Dana-Farber Cancer Institute in Boston, Princess Margaret Cancer\nCentre in Toronto, Children's Hospital of Philadelphia, and The Hyve, a bioinformatics\ncompany from the Netherlands." + "text": "" }, { - "id": 92563, - "strid": "c7d0fd80-24db-48fe-90c7-8b2f235f56d6", - "image_id": 204087, - "image_name": "12143.png", + "id": 1026, + "strid": "418d2c6c-43f9-480a-9550-e50b05b3e7b0", + "image_id": 43, + "image_name": "116806.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1905.822, - 3979.931, - 1600.55, - 658.6240000000003 + 23.899, + 347.786, + 218.555, + 145.728 ], "priority": 17, "parents": [ - 92556 + 1025 ], "children": [], - "area": 7585040.058282, + "area": 8311.737614, "iscrowd": 0, "segmentation": [] }, { - "id": 92555, - "strid": "a07387a1-5b79-414d-97ab-0a4fb4d291d2", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 5, - "category_name": "Section", + "id": 1027, + "strid": "a4f15838-5e48-4329-88fd-d2df444bcb84", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 90.443, - 3873.687, - 229.026, - 38.552000000000135 + 242.633, + 362.722, + 137.95700000000002, + 130.47000000000003 ], "priority": 18, "parents": [ - 92568 - ], - "children": [ - 92562 + 1025 ], - "area": 350347.873341, + "children": [], + "area": 88008.327026, "iscrowd": 0, - "segmentation": [], - "text": "References" + "segmentation": [] }, { - "id": 92562, - "strid": "2c16453b-09e9-403e-9bf4-3b234753ef67", - "image_id": 204087, - "image_name": "12143.png", - "category_id": 4, - "category_name": "List", + "id": 1028, + "strid": "62144933-7e37-4dfa-9ae2-e121487e6f9b", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 88.996, - 3963.467, - 1573.814, - 659.1190000000001 + 21.741, + 529.841, + 221.127, + 144.02800000000002 ], "priority": 19, "parents": [ - 92555 + 1025 ], "children": [], - "area": 352732.709132, + "area": 11519.273181, "iscrowd": 0, "segmentation": [] }, { - "id": 29305, - "strid": "6dc47ca2-3a0f-4ee7-b65f-801bd22b0497", - "image_id": 201657, - "image_name": "117473.png", - "category_id": 9, - "category_name": "Root", + "id": 1029, + "strid": "b69efecb-3574-4723-9773-c11dc03019a1", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 329.29, - 83.89, - 231.09999999999997, - 249.34000000000003 + 243.001, + 542.446, + 140.50499999999997, + 131.48699999999997 ], - "priority": -1, - "parents": [], - "children": [ - 29283, - 29284, - 29302, - 29299, - 29287, - 29285, - 29298, - 29286, - 29301 + "priority": 20, + "parents": [ + 1025 ], - "area": 27624.1381, + "children": [], + "area": 131814.920446, "iscrowd": 0, "segmentation": [] }, { - "id": 29283, - "strid": "0a663590-1e7e-4b36-b250-3a8c25806bb4", - "image_id": 201657, - "image_name": "117473.png", - "category_id": 1, - "category_name": "Title", + "id": 1030, + "strid": "19d198c9-5e7c-4f4c-9dea-496517143a38", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 645.515, - 65.518, - 3504.912, - 246.417 + 23.987, + 702.594, + 218.481, + 152.077 ], - "priority": 1, + "priority": 21, "parents": [ - 29305 + 1025 ], "children": [], - "area": 42292.85177, + "area": 16853.122278, "iscrowd": 0, - "segmentation": [], - "text": "ia Homogeneityand Resting State Functional Gennectivity:\nAssociations with Eafly Life Stress >" + "segmentation": [] }, { - "id": 29284, - "strid": "f95b88ee-1914-4f00-9a25-51a0eef04157", - "image_id": 201657, - "image_name": "117473.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1031, + "strid": "17f3e469-e9dc-4b1a-9125-e99b3abbaeb7", + "image_id": 43, + "image_name": "116806.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 863.63, - 378.612, - 3060.674, - 300.9030000000001 + 242.556, + 720.96, + 141.376, + 132.538 ], - "priority": 2, + "priority": 22, "parents": [ - 29305 + 1025 ], "children": [], - "area": 326980.68156, + "area": 174873.17376, "iscrowd": 0, - "segmentation": [], - "text": "Noah S. Philip, M.D.." }, { - "id": 86800, - "strid": "40e10995-d4b6-48aa-a83a-5d78faaefa14", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", + "id": 1082, + "strid": "38cc09c2-f02a-4790-bb62-4094c26d9b71", + "image_id": 46, + "image_name": "116860.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2885.708, - 840.638, - 350.529, - 312.48699999999997 + 300.667, + 613.246, + 247.12600000000003, + 173.31499999999994 ], "priority": 11, "parents": [ - 86790 + 1080 ], "children": [], - "area": 2425835.801704, + "area": 184382.83508199998, "iscrowd": 0, "segmentation": [] }, { - "id": 86796, - "strid": "50d3e862-33e7-4c03-ac22-59dff1cbca35", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 5, - "category_name": "Section", + "id": 1083, + "strid": "aed1990a-3422-4c54-adb6-e4877ef8038a", + "image_id": 46, + "image_name": "116860.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1577.109, - 1148.984, - 209.30700000000002, - 51.12799999999993 + 582.786, + 520.546, + 191.60400000000004, + 145.88699999999994 ], "priority": 12, "parents": [ - 86809 + 1080 ], "children": [ - 86808, - 86802, - 86806, - 86801, - 86807, - 86794, - 86795, - 86803 + 1084 ], - "area": 1812073.0072559998, + "area": 303366.921156, "iscrowd": 0, - "segmentation": [], - "text": "Results" + "segmentation": [] }, { - "id": 86794, - "strid": "6e30e6ee-d7e9-4473-91bc-cf20a530e992", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", + "id": 1084, + "strid": "2bca453c-ac26-4554-8459-24bc85840ff2", + "image_id": 46, + "image_name": "116860.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 461.871, - 1131.409, - 1041.741, - 1001.797 + 578.773, + 676.322, + 193.39199999999994, + 72.72199999999998 ], "priority": 13, "parents": [ - 86796 + 1083 ], "children": [], - "area": 522565.006239, + "area": 391436.91290600004, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figuur 4 —Fenotype van een\nvolwassen patiént met de ziekte\nvan Van Buchem, Opvallend “a\nhyperostosis van de mandibul e\nbilaterale uitval van de n. facial" }, { - "id": 86795, - "strid": "e7a60bb4-e8c6-40b6-ba85-1cbe34c16c1a", - "image_id": 203876, - "image_name": "121084.png", + "id": 1085, + "strid": "c181dbaa-3509-4ea8-83bc-1b3316931367", + "image_id": 46, + "image_name": "116860.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1688.952, - 1233.665, - 1532.253, - 758.9369999999999 + 579.575, + 769.283, + 193.976, + 25.184999999999945 ], "priority": 14, "parents": [ - 86796 + 1080 ], "children": [], - "area": 2083600.96908, + "area": 445857.19472500007, "iscrowd": 0, "segmentation": [], - "text": "Saccadic latency\n\nAverage saccadic latencies depended on the experimental condition: for the high contrast targets the\nmean saccadic latency for 5 observers for all conditions was 170 ms; for 4 observers we measured a\nmean saccadic latency of 211 ms for low target contrast and a mean latency of 225 ms for saccades to\nisoluminant colour targets.\n\nSaccade direction\n\nThe saccadic direction depended heavily on the direction of the subsequent pursuit direction and this\neffect increased with saccadic latency. The overall precision of saccades was very high. For all 3 target\nconditions the direction of up- or downward saccades was between 24 and 30 deg.\n\nPost saccadic position error\n\nThe position error between the saccadic landing position and the moving pursuit target was smallest\nwhen the direction of both was identical.\n\nPost saccadic pursuit speed\n\nAfter the initial saccade the post saccadic pursuit speed in the stimulus direction was highest by 1 to 3\ndeg/s, when the direction of both, initial saccade and pursuit agreed. This effect was strongest for the\npurely horizontal trials.\n\nPost saccadic pursuit direction\n\nDirectional precision of pursuit shortly after the saccade was highest the the direction of both agreed." + "text": "“Be Kates ven Appar 7 on SNS pee afeaeatt\namet toedtammi van bodghed" }, { - "id": 86808, - "strid": "a758219c-169f-4722-be54-77387f3689b9", - "image_id": 203876, - "image_name": "121084.png", + "id": 1086, + "strid": "1e598781-b55a-4f9b-b442-5decb98f63b4", + "image_id": 46, + "image_name": "116860.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 55.621, - 2262.513, - 1561.935, - 724.9589999999998 + 82.638, + 807.02, + 344.7919999999999, + 206.87799999999993 ], "priority": 15, "parents": [ - 86796 + 1080 ], - "children": [], - "area": 125843.235573, + "children": [ + 1087 + ], + "area": 66690.51876, "iscrowd": 0, "segmentation": [] }, { - "id": 86807, - "strid": "2ce40821-9663-477e-bbee-cf29deb70e13", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", + "id": 1087, + "strid": "17af5119-0329-4e64-a8ed-30f441c2ee39", + "image_id": 46, + "image_name": "116860.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 51.334, - 2989.942, - 1556.342, - 711.1199999999999 + 85.134, + 1016.371, + 340.975, + 59.372999999999934 ], "priority": 16, "parents": [ - 86796 + 1086 ], "children": [], - "area": 153485.682628, + "area": 86527.728714, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figuur 2. Beeldvorming van de schedel. CT-cerebrum, transversale\ncies hoop nt rey, lt 9 ops\nfi Inks) met forse vetdling von de shed Ter serge\n\nson CT-serehrumvan peperonde keeRildgenoot (rechis). ee" }, { - "id": 86806, - "strid": "7653aa56-914e-4d4d-8632-b7bb9d7a3f3a", - "image_id": 203876, - "image_name": "121084.png", + "id": 1088, + "strid": "a11cda01-c951-4783-b1cf-f9130c09abc4", + "image_id": 46, + "image_name": "116860.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 39.149, - 3702.936, - 1562.3290000000002, - 662.0279999999998 + 460.629, + 806.755, + 272.304, + 203.88400000000001 ], "priority": 17, "parents": [ - 86796 - ], - "children": [], - "area": 144966.24146400002, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 86801, - "strid": "b74825b1-7de8-4ae8-9781-0020d6559366", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1662.144, - 2263.747, - 1637.34, - 656.8849999999998 - ], - "priority": 18, - "parents": [ - 86796 - ], - "children": [], - "area": 3762673.493568, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 86802, - "strid": "49319e2f-e7ed-4eef-ba0e-038293bafd56", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1671.89, - 2983.007, - 1647.086, - 621.799 + 1080 ], - "priority": 19, - "parents": [ - 86796 + "children": [ + 1089 ], - "children": [], - "area": 4987259.57323, + "area": 371614.748895, "iscrowd": 0, "segmentation": [] }, { - "id": 86803, - "strid": "7f99a4ed-30b2-435a-8398-315f775d84a6", - "image_id": 203876, - "image_name": "121084.png", - "category_id": 2, - "category_name": "Figure", + "id": 1089, + "strid": "24d91b2f-9db4-400c-9524-39364c3544bf", + "image_id": 46, + "image_name": "116860.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1683.585, - 3698.368, - 1639.2889999999998, - 567.221 + 460.81, + 1013.126, + 269.54400000000004, + 59.67800000000011 ], - "priority": 20, + "priority": 18, "parents": [ - 86796 + 1088 ], "children": [], - "area": 6226516.88928, + "area": 466858.59206, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "ur 3. Qvermatige botaanmank bi dysjakte van\nan Buchu, Weepscha met dog de sched\n\nvan gezonde personen (links) en eer chedel van een\n\npatiént met de ziekte van Van Buchem (rechts)." }, { - "id": 86805, - "strid": "f4291912-e78d-405d-a662-57414f06a106", - "image_id": 203876, - "image_name": "121084.png", + "id": 1090, + "strid": "8975fbb9-ff2c-4a65-baac-224678bd703d", + "image_id": 46, + "image_name": "116860.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1518.633, - 4371.66, - 335.7270000000001, - 52.430999999999585 + 562.835, + 213.438, + 81.30799999999999, + 18.10900000000001 ], - "priority": 21, + "priority": 19, "parents": [ - 86809 + 1071 ], "children": [ - 86804 + 1091 ], - "area": 6638947.14078, + "area": 120130.37673, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "Conclusie" }, { - "id": 86804, - "strid": "d9e796db-287d-46d1-903e-e4b280d1a2a7", - "image_id": 203876, - "image_name": "121084.png", + "id": 1091, + "strid": "de9ee95c-0980-4b03-99a0-b4f979c9d558", + "image_id": 46, + "image_name": "116860.png", "category_id": 3, "category_name": "Text", "bbox": [ - 42.37, - 4436.186, - 3270.17, - 183.8720000000003 + 562.214, + 259.28, + 229.87099999999998, + 250.957 ], - "priority": 22, + "priority": 20, "parents": [ - 86805 + 1090 ], "children": [], - "area": 187961.20081999997, + "area": 145770.84592, "iscrowd": 0, "segmentation": [], - "text": "Saccades are known to be planned based on the neural information about 50-80 ms before We found that the landing position of initial saccades is displaced in the direction of the moving\nthe actual movement onset. For saccades to moving targets visual motion information and target similar to Eggert et al. (2005), that the movement direction of the pursuit target has an effect\nsome sort of prediction is combined with the position error between gaze position and the upon the saccadic metrics and that speed and directional precision of pursuit is higher when the\ntarget. directions of saccades and pursuit are the same." + "text": "2-ziekte van Van Buchem is\nzeldzame _botaandoening ie\nvoornamelik in Urk voo\ninderen presenteert de\nmeestal door perifere ui\nfacialis ten gevolge van\nde meatus acustict ternus.\nEen beter begrip van de onderliggende\npathofysiologische mechanismen van\nde ziekte leidt hopelijk in de toekomst\ntot fectieve behandeling. Er zijn\naanwijzingen dat patiénten met Van\njem baat hebben bij behandeling\n1et corticosteroiden. 7" }, { - "id": 92454, - "strid": "e85e9d66-a1c1-4aad-a8e5-8e0a50db7862", - "image_id": 204083, - "image_name": "121426.png", + "id": 1092, + "strid": "a2141ec1-ccd3-4e19-b75e-34ba018a5e54", + "image_id": 47, + "image_name": "116867.png", "category_id": 9, "category_name": "Root", "bbox": [ - 1317.2, - 129.97, - 346.71000000000004, - 326.9 + 19.26, + 116.5, + 66.71, + 63.599999999999994 ], "priority": -1, "parents": [], "children": [ - 92439, - 92437, - 92435, - 92436, - 92440, - 92438 + 1094, + 1093, + 1095, + 1106, + 1099, + 1097 ], - "area": 171196.484, + "area": 2243.79, "iscrowd": 0, "segmentation": [] }, { - "id": 92435, - "strid": "8020f928-dab8-4d52-a4fa-54bb3e1047df", - "image_id": 204083, - "image_name": "121426.png", + "id": 1093, + "strid": "143878c6-1c70-4223-a792-760001ca8cff", + "image_id": 47, + "image_name": "116867.png", "category_id": 1, "category_name": "Title", "bbox": [ - 295.652, - 629.895, - 2724.315, - 91.99699999999996 + 38.98, + 34.979, + 1575.937, + 65.469 ], "priority": 1, "parents": [ - 92454 + 1092 ], "children": [], - "area": 186229.71654, + "area": 1363.4814199999998, "iscrowd": 0, "segmentation": [], - "text": "Knoc kout of CXC R5 on CD11ct cells delays oral pnon pathogenesis" + "text": "TENS Effectiveness: Have We Been Barking‘Up The Wrong RCT?" }, { - "id": 92436, - "strid": "cd47949e-9d9e-43ae-a602-2f71b33a7f50", - "image_id": 204083, - "image_name": "121426.png", + "id": 1094, + "strid": "8e68d1f6-cc45-4033-83d5-6e2f8c9c28d6", + "image_id": 47, + "image_name": "116867.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1977.103, - 66.867, - 1224.3739999999998, - 352.877 + 178.705, + 113.101, + 1297.791, + 28.147999999999996 ], "priority": 2, "parents": [ - 92454 + 1092 ], "children": [], - "area": 132202.94630100002, + "area": 20211.714205, "iscrowd": 0, "segmentation": [], - "text": "Barty M. Bradford!, Boris Reizis? & Neil A.\nMabbott!\n1.The Rosin Institute and R(D)SVSthe Universty of\nEdinburgh, EH25 9RG, United Kingdom\n\n2. Dept. of Microbiology & Immunity, Columbia University\nin the city of New York, NY, USA" + "text": "Peter Gladwell, Specialist Physiotherapist Julie Bridson, Clinical Auditor North Bristol NHS Trust, Frenchay Hospital, Bristol, UK:" }, { - "id": 92437, - "strid": "c2273b24-dc04-45f8-b647-b053a8d0f846", - "image_id": 204083, - "image_name": "121426.png", + "id": 1095, + "strid": "33796a5d-b4f2-4760-92d5-7b8646bce072", + "image_id": 47, + "image_name": "116867.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1466.447, - 756.488, - 361.43499999999995, - 53.97500000000002 + 38.912, + 196.028, + 203.521, + 23.158999999999992 ], "priority": 3, "parents": [ - 92454 + 1092 ], "children": [ - 92441, - 92453 + 1096 ], - "area": 1109349.558136, + "area": 7627.841536, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Aim ofiifvestigation:" }, { - "id": 92441, - "strid": "f2d749e4-ea9f-436d-b78a-57216bdb6986", - "image_id": 204083, - "image_name": "121426.png", + "id": 1096, + "strid": "1d55fbd9-ddaf-42ce-b18e-6dc36aef9567", + "image_id": 47, + "image_name": "116867.png", "category_id": 3, "category_name": "Text", "bbox": [ - 36.088, - 848.29, - 3227.007, - 423.6100000000001 + 39.533, + 221.811, + 279.892, + 51.647999999999996 ], "priority": 4, "parents": [ - 92437 + 1095 ], "children": [], - "area": 30613.089519999998, + "area": 8768.854263000001, "iscrowd": 0, "segmentation": [], - "text": "Prion diseases are fatal neurodegenerative disorders naturally spread by oral ingestion. After oral prion exposure a replicative phase of infection\nupon stromal follicular dendritic cells (FDC ) within the B-cell follicles is obligatory for the efficient spread of disease to the nervous system. During the\nperipheral stage of pathogenesis we have previously identified integrin alpha X (CD11c) positive cells as in vivo vectors of the prion infectious agent\nto FDC in Peyer's patches. FDC secrete the chemokine CXCL13 to organise the B-cell follicles and attract CXC R5-expressing cells towards them. To\ntest the hypothesis that CXCR5-expressing CD1iic* cells deliver prions towards FDC in Peyer's patches after oral exposure, we generated a novel\nCXCRS5 floxed transgenic mouse model and conditionally removed CXCRS5 expression from CDiic* cells using CD1icCre mice. Following oral\ninfection with mouse-adapted ME7 scrapie prions, CD1icCre:C XCR5fl mice displayed altered prion localisation within Peyer's patches and a 5 week\nlag in the accumulation of prions in the spleen. Further studies are underway to determine the impact of CD11c-mediated CXCRS5 knockout on the" + "text": "To identify the types of benefit reported by long-term TENS\nSe ee ee coe\nTete a een\nin" }, { - "id": 92453, - "strid": "5a7f8550-c5ac-43b3-896e-d6014821e573", - "image_id": 204083, - "image_name": "121426.png", + "id": 1097, + "strid": "9ee719b2-8f22-487e-abd1-135f653f8653", + "image_id": 47, + "image_name": "116867.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 40.124, + 301.261, + 121.97300000000001, + 22.870000000000005 + ], + "priority": 5, + "parents": [ + 1092 + ], + "children": [ + 1098 + ], + "area": 12087.796364000002, + "iscrowd": 0, + "segmentation": [], + "text": "Background:" + }, + { + "id": 1098, + "strid": "7f8f56ca-cc66-4145-9e8c-288665291ada", + "image_id": 47, + "image_name": "116867.png", "category_id": 3, "category_name": "Text", "bbox": [ - 36.645, - 1276.805, - 879.358, - 48.111000000000104 + 39.642, + 327.548, + 287.562, + 172.96000000000004 ], - "priority": 5, + "priority": 6, "parents": [ - 92437 + 1097 ], "children": [], - "area": 46788.519225000004, + "area": 12984.657816, "iscrowd": 0, "segmentation": [], - "text": "subsequent spread of pnons to the brain." + "text": "Laity el tncinahl ala cthhabiaclm tly aenalna chal\nees\nSe eed\nPeano\neo ee er\neee ee eee ee)\neee te ee\neee ee eters\nSe eee\ncontrast to the reports of benefit from significant Proportion\nof people with Chronic Pain who try TENS. This audi set out\neee een eee ee eri\nnachécaliatas base" }, { - "id": 92438, - "strid": "4afc2331-5683-48c2-afdd-d1dbb6f06230", - "image_id": 204083, - "image_name": "121426.png", + "id": 1099, + "strid": "81378a3d-9c0d-49db-8d11-c58e5a48502d", + "image_id": 47, + "image_name": "116867.png", "category_id": 5, "category_name": "Section", "bbox": [ - 653.475, - 1347.558, - 265.08900000000006, - 52.44399999999996 + 40.551, + 526.707, + 73.546, + 18.201000000000022 ], - "priority": 6, + "priority": 7, "parents": [ - 92454 + 1092 ], "children": [ - 92452, - 92442 + 1104, + 1103, + 1101, + 1100, + 1102, + 1105 ], - "area": 880595.4640500001, + "area": 21358.495557000002, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Method" }, { - "id": 92442, - "strid": "17224b1e-125b-439c-a116-aadf1ac293a1", - "image_id": 204083, - "image_name": "121426.png", + "id": 1100, + "strid": "5fe1bed0-6612-4678-968a-159b2c33baa9", + "image_id": 47, + "image_name": "116867.png", "category_id": 3, "category_name": "Text", "bbox": [ - 35.819, - 1437.528, - 1496.341, - 264.12799999999993 + 38.683, + 552.933, + 286.433, + 253.279 ], - "priority": 7, + "priority": 8, "parents": [ - 92438 + 1099 ], "children": [], - "area": 51490.815432, + "area": 21389.107239, "iscrowd": 0, "segmentation": [], - "text": "LoxP sites were gene-targeted flanking the open reading frame\n(ORF) of the Cxcr5 gene in C57BI/6 mice. CXCR5fl mice were bred to\nhomozygosity with or without CD11icCre. Mice were orally infected\nby feeding with a single dose of ME7 mouse-adapted scrapie prions\nabsorbed into a food pellet." + "text": "sb immadpiiarsibebeanletibpet”.. “sthgrecbiaelasneniah Socata aasll\nappointment system withinyajwell-establshed TENS clinic was\npee eee TC eer!\nee ee eee\nee ee ees cee\nwere mare gipensive. The new system offered patients the\nce er eee te\nAppointment) The questionnaire found that this new system\nees\n\neee ee eed\nSee eee eee\nmeee eet kee ane aN\nmachine\n\neee eee ed\n\nSree\n\n“Because of my TENS machine | can." }, { - "id": 92452, - "strid": "d1fb9ad3-bc16-4e9b-b6e0-8d73724f9b05", - "image_id": 204083, - "image_name": "121426.png", + "id": 1101, + "strid": "d98bceaa-cf21-4e1e-8bc7-59a7de0c5975", + "image_id": 47, + "image_name": "116867.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 50.136, - 1713.829, - 1526.919, - 585.8050000000001 + 360.924, + 196.832, + 261.95399999999995, + 198.62400000000002 ], - "priority": 8, + "priority": 9, "parents": [ - 92438 + 1099 ], - "children": [ - 92445 + "children": [], + "area": 71041.39276799999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1102, + "strid": "5d5df248-7595-493c-9046-2a9ccfb50d40", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 360.327, + 405.248, + 272.46299999999997, + 54.31400000000002 ], - "area": 85924.530744, + "priority": 10, + "parents": [ + 1099 + ], + "children": [], + "area": 146021.796096, + "iscrowd": 0, + "segmentation": [], + "text": "Lich in: Meaghan: pipleenaahaner bane thi dengan nh:\nthan three years. Ths suggests that the sample were highly\nexperienced in using TENS, and had persisted in using TENS\n‘So aa ar py" + }, + { + "id": 1103, + "strid": "bf9585bc-f8ea-4a5b-a03e-fb3119483579", + "image_id": 47, + "image_name": "116867.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 360.511, + 493.925, + 284.47999999999996, + 285.46199999999993 + ], + "priority": 11, + "parents": [ + 1099 + ], + "children": [], + "area": 178065.395675, "iscrowd": 0, "segmentation": [] }, { - "id": 92445, - "strid": "8e1f09a9-d9c4-4e78-b338-93ce81dc4942", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 6, - "category_name": "Caption", + "id": 1104, + "strid": "e660e8d5-01bc-4988-816c-36d6615a608a", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 23.486, - 2324.626, - 1545.183, - 196.529 + 360.528, + 812.811, + 288.717, + 39.313999999999965 ], - "priority": 9, + "priority": 12, "parents": [ - 92452 + 1099 ], "children": [], - "area": 54596.166236000005, + "area": 293041.124208, "iscrowd": 0, "segmentation": [], - "text": "Figure 1. A. CxcrS gene-targeted constuct, showing recombination post FLP or Cre. B.\nGenotyping of CXCR5fi allele via primers specific to the regions surrounding the 5’ LoxP site. C.\nGeneration of CD11ic-restricted CXCR5 knockout, CXCR5fl alleles were bred to homozygosity\nwhilst incorporating the CD1icCre transgene. Resultant offspring express possess a CD11ic-\nspecific knockout of CXC R5 (CD11icC re:C XC R5fl)." + "text": "Lede. daalnatdarl ealeeaeaaealeneshed salad nag\neee ores\nPan oni tare" }, { - "id": 92439, - "strid": "342e2d55-dcac-4ca6-bad0-dd9885795ceb", - "image_id": 204083, - "image_name": "121426.png", + "id": 1105, + "strid": "ccbe4fce-c073-4c32-a853-db35790ea0da", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 360.857, + 865.496, + 272.85100000000006, + 82.755 + ], + "priority": 13, + "parents": [ + 1099 + ], + "children": [], + "area": 312320.290072, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1106, + "strid": "496fa061-3b2e-4f28-b5f1-5bb2c8da7c2d", + "image_id": 47, + "image_name": "116867.png", "category_id": 5, "category_name": "Section", "bbox": [ - 708.425, - 2558.479, - 205.43600000000004, - 53.08399999999983 + 681.477, + 196.175, + 268.93500000000006, + 48.543000000000006 ], - "priority": 10, + "priority": 14, "parents": [ - 92454 + 1092 ], "children": [ - 92443, - 92450, - 92449, - 92451 + 1113, + 1120, + 1110, + 1119, + 1108, + 1109, + 1118, + 1116, + 1117, + 1112, + 1111, + 1115, + 1114, + 1107 ], - "area": 1812490.4855749998, + "area": 133688.750475, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Answers to the open ended\nquestions" }, { - "id": 92443, - "strid": "f0109c85-fa06-4037-8a75-62e22f40fdb3", - "image_id": 204083, - "image_name": "121426.png", + "id": 1107, + "strid": "523530c2-c8fb-4c8c-add7-6a75c0621189", + "image_id": 47, + "image_name": "116867.png", "category_id": 3, "category_name": "Text", "bbox": [ - 39.652, - 2649.673, - 1540.999, - 255.7800000000002 + 682.659, + 247.131, + 259.60800000000006, + 86.90399999999997 ], - "priority": 11, + "priority": 15, "parents": [ - 92439 + 1106 ], "children": [], - "area": 105064.83379599999, + "area": 168706.201329, "iscrowd": 0, "segmentation": [], - "text": "CDiicCre:CXCR5fl transgenic mice display altered dendritic cell\nlocalization in lymphoreticular tissues, with CD1ic+ cells no longer\nobserved proximal to CD21/35 expressing FDC in B-cell follicles.\nCDiic+ cells appear to be polarized to, and retained within T-cell\nzones." + "text": "oT Us\n\nee a ee ee\neee ere\nPlease complete the sentence below\n\nee ee" }, { - "id": 92450, - "strid": "14016936-dfcc-4f9a-9718-03b334c1abfe", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 2, - "category_name": "Figure", + "id": 1108, + "strid": "eb7d4f20-ceb6-4e92-8970-2b337c589a33", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 94.905, - 2913.621, - 1417.21, - 819.0169999999998 + 681.712, + 347.581, + 288.769, + 502.025 ], - "priority": 12, + "priority": 16, "parents": [ - 92439 - ], - "children": [ - 92448 + 1106 ], - "area": 276517.20100500004, + "children": [], + "area": 236950.138672, "iscrowd": 0, "segmentation": [] }, { - "id": 92448, - "strid": "7ff0c3a0-4d33-4ea9-bd78-6341df7dc71c", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 6, - "category_name": "Caption", + "id": 1109, + "strid": "a0de2a22-998d-4856-8929-118bb8d4177c", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 39.791, - 3757.863, - 1504.775, - 117.21099999999979 + 681.877, + 876.827, + 274.38, + 100.702 ], - "priority": 13, + "priority": 17, "parents": [ - 92450 + 1106 ], "children": [], - "area": 149529.12663299998, + "area": 597888.1642789999, "iscrowd": 0, "segmentation": [], - "text": "Figure 2 Confocal micrographs of splenic follicles stained via _ fluorescent\nimmunohistochemistry to identify CD1ic (clone N418, green), Inmunoglobulin M p chain\n(red) and complement receptors 1 & 2 (clone 7G6, blue)." + "text": "oe red\n“anes yanmar eerie\nseen ete es)\n\nca rey\n\neae ee" }, { - "id": 92451, - "strid": "417c803e-0a2d-44c1-bb1b-9fc938abe27b", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 2, - "category_name": "Figure", + "id": 1110, + "strid": "1d5266c4-8309-4f4f-90ef-2b956a201740", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1588.155, - 1303.623, - 1664.9310000000003, - 1484.3690000000001 + 681.331, + 990.543, + 277.519, + 109.01799999999992 ], - "priority": 14, + "priority": 18, "parents": [ - 92439 + 1106 ], - "children": [ - 92446 + "children": [], + "area": 674887.652733, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1111, + "strid": "4000584d-e07c-4b76-89b3-152d5934f526", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1003.128, + 197.706, + 283.55499999999995, + 393.438 ], - "area": 2070355.3855650001, + "priority": 19, + "parents": [ + 1106 + ], + "children": [], + "area": 198324.424368, "iscrowd": 0, "segmentation": [] }, { - "id": 92446, - "strid": "3ffdee2f-2237-4dd5-b4af-70711a577c19", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 6, - "category_name": "Caption", + "id": 1112, + "strid": "29f1f520-36a2-4716-bd0c-f868e92a11db", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1622.607, - 2802.943, - 1634.906, - 238.62800000000016 + 1003.629, + 604.009, + 279.62800000000004, + 78.34799999999996 ], - "priority": 15, + "priority": 20, "parents": [ - 92451 + 1106 ], "children": [], - "area": 4548074.9324010005, + "area": 606200.948661, "iscrowd": 0, "segmentation": [], - "text": "Figure 3 Paraffin-embedded tissue blot and immunohistochemisty micrographs of intestinal Peyer's\npatches and splenic follicles from oral scrapie infected mice. CD1icCre:CXCR5fl mice display\naltered PrP localisation in Peyer's patches 5 weeks post infection. At 10 weeks post infection little to\nno prions (PrP) are observed within splenic follicles of CD11cC re:C XC R5fl mice despite the presence\nof mature FDC, however by 15 weeks all splenic FDC display abundant prion accumulation\n\nregardless of genotype." + "text": "ecraceiik eahabendlite indecent lae lmao hi shi na}\nhave been removed.\n\nSe ee eee eee\nrurvey, which should inform the choice of outcome measures\nsrelie ipier=lt tesserae raha" }, { - "id": 92449, - "strid": "50e4d9ba-2892-4e25-a5f8-00acec83d189", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 2, - "category_name": "Figure", + "id": 1113, + "strid": "d18e612d-f783-4146-a2f4-65a2efadf618", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2012.554, - 3051.242, - 1244.505, - 898.2690000000002 + 1003.08, + 697.139, + 260.7869999999999, + 85.89999999999998 ], - "priority": 16, + "priority": 21, "parents": [ - 92439 + 1106 ], - "children": [ - 92447 + "children": [], + "area": 699286.1881200001, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1114, + "strid": "c80a9f5f-51fe-4b38-a4b2-5165825c5e75", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1002.86, + 797.191, + 210.57299999999998, + 127.02599999999995 ], - "area": 6140789.292068001, + "priority": 22, + "parents": [ + 1106 + ], + "children": [], + "area": 799470.96626, "iscrowd": 0, "segmentation": [] }, { - "id": 92447, - "strid": "6997a6de-755e-4987-82c9-a7d36aba8333", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 6, - "category_name": "Caption", + "id": 1115, + "strid": "253b4cc8-76b1-4f10-8db2-075e6fbc4c5f", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1637.837, - 3111.627, - 319.655, - 756.9789999999998 + 1003.981, + 937.557, + 251.61799999999994, + 27.60699999999997 ], - "priority": 17, + "priority": 23, "parents": [ - 92449 + 1106 ], "children": [], - "area": 5096337.830799, + "area": 941289.414417, "iscrowd": 0, "segmentation": [], - "text": "Figure 4 (Right)\nPrion infectivity\nbioassay of spleen\nsamples collected\n10 and 15 weeks\npost oral MEZ7\nscrapie infection\nfrom CD1iicCre-\nand CDiicCre+\nCXC R5fl mice.\nConcurrent —_— with\nIHC data above,\nCD1icCre:C XC R5fl\nmice reveal a lag\nof approximately 5\nweeks in\naccumulation of\nprion infec tivity\nwithin the spleen." + "text": "arate, “ep mono nddimagen nme behind sienna\naren" }, { - "id": 92440, - "strid": "11bc3484-0286-4d8b-b62e-2f3cab7236a4", - "image_id": 204083, - "image_name": "121426.png", - "category_id": 5, - "category_name": "Section", + "id": 1116, + "strid": "114b3664-e4a4-4b20-bd2e-349bb619fae6", + "image_id": 47, + "image_name": "116867.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1470.997, - 3951.854, - 367.6189999999999, - 54.88200000000006 + 1003.515, + 990.127, + 272.2789999999999, + 24.27800000000002 ], - "priority": 18, + "priority": 24, "parents": [ - 92454 - ], - "children": [ - 92444 + 1106 ], - "area": 5813165.378438, + "children": [], + "area": 993607.2964049999, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "i arent retell tel ell eee\nibe, ann eee" }, { - "id": 92444, - "strid": "30553a62-c994-4ad2-beb8-ad0a54f95781", - "image_id": 204083, - "image_name": "121426.png", + "id": 1117, + "strid": "5e7c118d-629c-46e1-a645-5dc984be813c", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1002.706, + 1030.272, + 288.60800000000006, + 67.8309999999999 + ], + "priority": 25, + "parents": [ + 1106 + ], + "children": [], + "area": 1033059.916032, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1118, + "strid": "8fa7a6f4-626f-4964-93af-db4476cd2989", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1323.596, + 196.898, + 287.10300000000007, + 333.961 + ], + "priority": 26, + "parents": [ + 1106 + ], + "children": [], + "area": 260613.40520799998, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1119, + "strid": "b86d9a64-8b61-4139-9e7e-f69df24235de", + "image_id": 47, + "image_name": "116867.png", "category_id": 3, "category_name": "Text", "bbox": [ - 38.525, - 4021.187, - 3229.087, - 422.3729999999996 + 1324.392, + 556.598, + 287.672, + 131.85000000000002 ], - "priority": 19, + "priority": 27, "parents": [ - 92440 + 1106 ], "children": [], - "area": 154916.229175, + "area": 737153.938416, "iscrowd": 0, "segmentation": [], - "text": "The peripheral pathogenesis of prion disease is hypothesised to rely upon CD1iic+cells as partofa cellular relay which acts to deliver prions from the\nsite of exposure (intestine) to FDC within the B-cell follicles of Peyer's patches. Using a CD11c-mediated deletion of the chemokine receptor CXC R5\nwe observed altered trafficking of prions both within intestinal Peyer's patches and a 5 week delay in the subsequent delivery of prions to splenic\nFDC. These data reveal that the initial efficient trafficking of prions from the intestine to FDC is dependent upon CXCR5-expressing CD11c + cells. The\nability to block prion trafficking in vivo would have enormous prophylactic potential following natural prion infection. However, the demonstation\nthat prion accumulation was delayed not blocked in the absence of CXCR5-expressing CD11c + cells suggests that targeting both cellular and non\n\ncellular tansport mechanisms may be required to completely block peripheral prion accumulation in lymphoid tissues and the subsequent spread of\ndisease to the nervous system." + "text": "Summary\n\nInformation fromitines who successfully use TENS machines\ncan guide the choice of sensitive outcome measures, and\nincrease the likelipood of a meaningful outcome from research,\neee ee eee\nbe explained by the focus in previous TENS trials upon pain\nBe nee\nSee eee ee ey\n\na pea onnncis Sent dyeerunashume he," }, { - "id": 118879, - "strid": "d30cbca5-f32a-4aeb-a09d-ee201b09a95d", - "image_id": 205124, - "image_name": "14277.png", + "id": 1120, + "strid": "863a2871-95c9-4262-858c-e6f5345ce3a0", + "image_id": 47, + "image_name": "116867.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 1324.675, + 715.537, + 286.317, + 217.26800000000003 + ], + "priority": 28, + "parents": [ + 1106 + ], + "children": [], + "area": 947853.975475, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1121, + "strid": "dbb7ea20-807e-4833-b967-0daf3cf09cac", + "image_id": 48, + "image_name": "116917.png", "category_id": 9, "category_name": "Root", "bbox": [ - 45.84, - 42.57, - 93.77000000000001, - 154.44 + 7.49, + 20.95, + 37.1, + 78.58 ], "priority": -1, "parents": [], "children": [ - 118836, - 118854, - 118837, - 118871, - 118877, - 118873, - 118835, - 118863 + 1124, + 1134, + 1133, + 1123, + 1126, + 1122, + 1132 ], - "area": 1951.4088000000002, + "area": 156.9155, "iscrowd": 0, "segmentation": [] }, { - "id": 118835, - "strid": "58c1b1ba-2253-44b8-81f9-fbe1bdb896b8", - "image_id": 205124, - "image_name": "14277.png", + "id": 1122, + "strid": "133845ed-17d7-487b-a551-de904fd2702a", + "image_id": 48, + "image_name": "116917.png", "category_id": 1, "category_name": "Title", "bbox": [ - 916.643, - 129.927, - 3126.369, - 344.134 + 49.394, + 24.072, + 515.54, + 50.72099999999999 ], "priority": 1, "parents": [ - 118879 + 1121 ], "children": [], - "area": 119096.675061, + "area": 1189.012368, "iscrowd": 0, "segmentation": [], - "text": "The pseudoscience of Anti-Vaxxers — are vaccines injected direct\ninto the bloodstream, bypassing the immune system?\nRod Cook" + "text": "PG Ns istr Vea tthe eco Cast ee CRTC Re tC es\ninside a psychotherapeutic relation" }, { - "id": 118836, - "strid": "c9c4d984-58d4-4eba-82cf-22f3c5d24e16", - "image_id": 205124, - "image_name": "14277.png", + "id": 1123, + "strid": "4df0f345-6c7a-434f-9a1a-41b4ed5564e2", + "image_id": 48, + "image_name": "116917.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1565.157, - 503.214, - 1611.2519999999997, - 70.51100000000002 + 50.51, + 83.769, + 253.23400000000004, + 77.44900000000001 ], "priority": 2, "parents": [ - 118879 + 1121 ], "children": [], - "area": 787608.914598, + "area": 4231.17219, "iscrowd": 0, "segmentation": [], - "text": "Independent Researcher, Queensland, AUSTRALIA" + "text": "aa ee\n\nea\nSo renee eC (Egeahe a\nSeer eee\n\nMPG URC E teer ll" }, { - "id": 118837, - "strid": "85836dbb-a999-4088-a813-d1c81fae6f9d", - "image_id": 205124, - "image_name": "14277.png", + "id": 1124, + "strid": "291b851a-3f84-4128-953c-89937b39fe1f", + "image_id": 48, + "image_name": "116917.png", "category_id": 5, "category_name": "Section", "bbox": [ - 300.163, - 701.618, - 656.757, - 89.90099999999995 + 106.448, + 191.179, + 173.084, + 21.144000000000005 ], "priority": 3, "parents": [ - 118879 + 1121 ], "children": [ - 118839, - 118851, - 118847, - 118844, - 118853, - 118838, - 118845, - 118842, - 118850, - 118841, - 118848 + 1125 ], - "area": 210599.76373400004, + "area": 20350.622192, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Intrenuction" }, { - "id": 118838, - "strid": "eb5b473d-e73b-426b-a205-5ae517221095", - "image_id": 205124, - "image_name": "14277.png", + "id": 1125, + "strid": "6c3b98f2-3171-4e0d-b049-c0c38190e21a", + "image_id": 48, + "image_name": "116917.png", "category_id": 3, "category_name": "Text", "bbox": [ - 87.873, - 873.943, - 1018.8009999999999, - 339.60000000000014 + 86.522, + 219.638, + 211.046, + 295.155 ], "priority": 4, "parents": [ - 118837 + 1124 ], "children": [], - "area": 76795.993239, + "area": 19003.519036, "iscrowd": 0, "segmentation": [], - "text": "There is a common misconception amongst many Anti-Vaxxers, that vaccines are\ninjected directly into the bloodstream, bypassing the immune system.\n\nLet me get one thing clear right now. No CDC scheduled vaccine is routinely\nadministered directly to the bloodstream. None. Not a single one. This premise of\n“direct into the bloodstream” shows a lack of basic biology knowledge and\nunderstanding.\n\nKaren via Facebook (not her real name), states that “...you can now have multiple\nviruses and toxins injected directly into your bloodstream...” (See Figure 1)" + "text": "Accordiagtadp ancient beliel the hee-\nling propertivs of humour have very au-\ncient dete If it wos trne for the past ~\neves sil wot all scientists have been\nrumpathetic towards the study of the\n\nGipinavined the langhtarta goseral = tt\n\n \n\nhas @ greater value at prerent days,\nwhere the health often matches with «\nfooling of well-being not only referred\nte the \"bios\", but also ta the paychalog:-\ngal aad social spheres,\n\nMy work, although, ts a rollection act\nsimply on how and how mach the comic\nmental side has advantageous potenti\nIntier for the individyal's health, bat\nmore Ia particular for the humour\nthet nadowbtedly” belongs td\n‘comie” mental\n\nshares the advantageous pecnliarities\nmentionddrahove - and for the relation\ni has with the psychotherapeutic envi-" }, { - "id": 118839, - "strid": "ff82c4a0-9c63-4c7f-bf8c-2bb6885d3bbc", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", + "id": 1126, + "strid": "f7ff80ed-bfb3-49c3-9c01-3f008b0800dd", + "image_id": 48, + "image_name": "116917.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 392.899, - 1214.699, - 456.18500000000006, - 261.52199999999993 + 123.298, + 539.79, + 140.248, + 19.32899999999995 ], "priority": 5, "parents": [ - 118837 + 1121 ], "children": [ - 118840 + 1127, + 1130, + 1131, + 1128, + 1129 ], - "area": 477254.022401, + "area": 66555.02742, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Argument" }, { - "id": 118840, - "strid": "3f759635-e4ce-4de1-957e-c3b45b0b8daa", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", + "id": 1127, + "strid": "2df492e8-3c2b-4f11-b425-def759d3a603", + "image_id": 48, + "image_name": "116917.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 440.335, - 1480.105, - 372.75399999999996, - 30.56899999999996 + 85.761, + 566.736, + 212.739, + 440.429 ], "priority": 6, "parents": [ - 118839 + 1126 ], "children": [], - "area": 651742.035175, + "area": 48603.846095999994, "iscrowd": 0, "segmentation": [], - "text": "Figure 1: Karen via Facebook" + "text": "Departing point for my reflection waa\n\nthe question whether any kind of “ther.\n\npentie” humour might get some space\nrd siguilicance inside a thpebpSatic n\n\n \n\n \n\nlation 10 that it could hevtonsidered 0\nUerepentis tustrument qual « brawale\n\n \n\nmation factor,\nIf the humour, sith) all ite complexity\nthat makes it hotha mechs\n\nse /protection and ax ‘import\n\n \n\nism of det\n\n \n\n \n\n+ coping\nclement, js'ane of the mainstay my work\nis based on, the other topie to he taken\n\nteclepiderat\n\n \n\nyt the prgebntlns\n\n \n\nAs everybody knows, it dees not exist\n‘tke” psychotherapy, but different set-\nlings ~ therelore, different sets aad theo-\nretical and methodological (rames\nthrough which it can take place -a\nachtove a fulfillment\nDeliberately. in ma work, [do nat roler to\na specific way of conducting 4 paycho-\ntherepy, but I irted to-etplure and go\nthrough various fields, comsidering the\niqutty” axpoct of langhter aad\n\n \n\n \n\n \n\n \n\n \n\n \n\nbamout; thet rendh@Abens comma phe\n\n \n \n\nnomene to every men’s life\nThe following consideration, thea, has\nbees orgesized oa lwo fusdame\n\ncopts for tho psychotherapy attitude, In\norder ta establish some lendmarkes: the\n\n \n\n \n\nexe Seusing on the situation aud the\nSaber focusing on the process." }, { - "id": 118841, - "strid": "54b07f5e-e1c7-443b-936f-54432c4066c8", - "image_id": 205124, - "image_name": "14277.png", + "id": 1128, + "strid": "7f3c1008-5846-487e-8e80-f3a23545e79d", + "image_id": 48, + "image_name": "116917.png", "category_id": 3, "category_name": "Text", "bbox": [ - 93.454, - 1542.346, - 1033.025, - 69.38200000000006 + 84.958, + 1024.627, + 212.40899999999996, + 102.519 ], "priority": 7, "parents": [ - 118837 + 1126 ], "children": [], - "area": 144138.403084, + "area": 87050.26066599999, "iscrowd": 0, "segmentation": [], - "text": "Likewise, Susan via Facebook (not her real name) mentioned “...inject foreign DNA,\nviruses, and neurotoxins directly into my bloodstream...” (See Figure 2)." + "text": "ty choth Utwatic\n\n \n\nThrough the analysis ofthe paychologicalbo-\nwith\nregard to the presonce aad fuaclich of the\noman i she piychotherapentic situation\nEven f rather late inthe if leginivation was\ninehdaiied, SMsals ta-seeiiebas. Vota Bees!\n\nrature some conlicting opiatoas om" }, { - "id": 118842, - "strid": "1e7f50d9-f3da-4142-be7e-e387e18295db", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", + "id": 1129, + "strid": "70c08a26-7ecf-4268-a298-1f6b3543638b", + "image_id": 48, + "image_name": "116917.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 375.801, - 1628.11, - 495.31200000000007, - 238.01999999999998 + 314.698, + 314.044, + 212.913, + 474.07399999999996 ], "priority": 8, "parents": [ - 118837 + 1126 ], - "children": [ - 118843 - ], - "area": 611845.36611, + "children": [], + "area": 98829.01871199999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "“eed Pelee: ete very sowng ase Gaberelt\naod wore, on tho contrary, the objoctioas of\nse who excluded an eventual presence’ af\nhumour intide the therapeutic relat\nHe who is agetast the use of hemous taside the\nprychotheraps, like Kubie, jgtihed his ows\nviewpoint underlining the funetion of socal\nratios typical of the leugh ar well ex the fact\nthet is wight be asod at delonsive eittade, by\nsednee of altach the other, of even to check-\nmate the thesapeutte process. That would meas\nthat all the tsps typical of the tenslerence\nid eGgater-translerence aight be biddes\nbehinithe nse af hnmonr.\nly forthe husoer: the\nsherapiat cas, ia fact, bebave following his s2-\nistic or seductive tmpulror also boing silo,\n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\n \n\nBaths i wot dra\n\n \n\nhaving a clinical atttnde or without saying ®\nword. The soltion to the preblew, therelve, 8\nhe omelet\n\n \n\nany hemoritte peertbilty\n\n \n\n \n\nfrom the therapouticcelation,\nste the\n\nso thet i¢ ight be dose an use cousitent with\ntho therapeutic targot so a the base ofthe\n\n‘ts prosones,\n\n \n\nsary es)\n\n \n\nlation\nIf bumoae called s9tp action with awareness,\non the contrary, Ea futroduce ito the rela-\nsion the beneiiialstlets characterisie of the\nTanghs tagetheY” that ate a posible strong\nthoning éfhiho th\n\nsh ainie paint of view\nol te change owing to the\nMaliter peculiny to the Iaaghter, trom the\nSsorphooge é\n\ntie llience, fr\n\n \n\n \n\n \n\n fartheranee\n\n \n\nabrestive” pote" }, { - "id": 118843, - "strid": "4b29f348-58e9-4d70-977c-02966b94136f", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", + "id": 1130, + "strid": "700d49cf-b2d4-4ffb-8a4a-5ab58f184925", + "image_id": 48, + "image_name": "116917.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 440.228, - 1880.29, - 378.08199999999994, - 30.482999999999947 + 314.962, + 796.429, + 213.40200000000004, + 331.60800000000006 ], "priority": 9, "parents": [ - 118842 + 1126 ], "children": [], - "area": 827756.30612, + "area": 250844.87069799998, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: Susan via Facebook" + "text": "Considering the characteristics\ntransformative potentialities inmate in\nthe humorous phenomenon, the paycho-\n\n \n\ntherapist might sevionaly talke trto eon\nsideration an ute of it, beGQuse he could\ncither make of ita therapeutic tnstew\nment able to evaluate the improvement\nof the patient and promote a change ~\nnot of course with a counter-trans\n\nEach therapeutic path consists, in fact,\nof emascipation from the suffering con-\nUitron.end the prucholoatcal stalemate\nthatcon arise for a given degree of r\nlity, stereotyping, sepetitio\nthese are all conditions that the comig\n\n \n\n \n\n \n\n \n\ndows ww be\n\n \n\n1-5, tu full the ovulate\nof the patient Gy.\n\n \n \n \n\n2 about the\nbeing eoudicton\nthet it being taken iia therapy can\nbe coustdeved « predictiva elpment lor the\nvesult of the prgchetbaany’ the humour," }, { - "id": 118844, - "strid": "d4e925e2-40be-4951-84a3-1da5aedfb92e", - "image_id": 205124, - "image_name": "14277.png", + "id": 1131, + "strid": "29cef42f-d257-401a-8f6f-9e5fa73af9ec", + "image_id": 48, + "image_name": "116917.png", "category_id": 3, "category_name": "Text", "bbox": [ - 94.127, - 1941.964, - 1043.77, - 102.88000000000011 + 548.819, + 314.522, + 212.83400000000006, + 365.48600000000005 ], "priority": 10, "parents": [ - 118837 + 1126 ], "children": [], - "area": 182791.245428, + "area": 172615.649518, "iscrowd": 0, "segmentation": [], - "text": "On Twitter, the messages are pretty much the same. Brett (not his real name) talks\nabout “...inject[ing] heavy metals and preservatives directly into your blood stream...”\n(See Figure 3)." + "text": "ARE Tas eras Waly lk cuanlnegs are eee,\n\nre mechanism and not a2 capging istremen(\n\ni sepreseats 4 high level deloase mateking\n\nwith a personality, that is suffering of couse,\n\nbut that hat also reached an higher evel\n9 level\n\nI the therapist. warts to wile the humour\n\\de tho prychotherapeutie setting for ox-\n\n \n\n \n\n \n\nIng tts igh transforgative potential, be\n0 dott pasta iach atention aad alwaye\nbestnning from ageing approach and also\nalways keopingiiy mind the distinction hetwe-\neu the devtoty laugh and a really empathic\nHe hey td keep sight of the seston\nthesapenti i\n\nspldvets could lend to a iaidity and steve\nsp, 2 tsa ofthe bs be\npagchotherapenticsteation into a superiicial\natniosphere sot prolestional anymore bul 6,\nJing to belittle For that reason 4 haa t@ be\n\n \n\n1 of the\ntion: if ii true that too much\n\n \n\n \n\n \n\na tration\n\n \n\n \n\n \n\n \n\n \n\ncusployed with good senso end gradual, ==\n(roduciag it ato the vetting st az bo used ac-\ntually considering tho\n\nthe methodelog\ntherapeuite path and the psychological seali-\nwebthesenbest" }, { - "id": 118845, - "strid": "b83af2e8-b364-4028-8357-08281fd4318b", - "image_id": 205124, - "image_name": "14277.png", + "id": 1132, + "strid": "6f7e2cc8-2911-43fd-b0d8-d59318cc1e13", + "image_id": 48, + "image_name": "116917.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 305.019, - 2050.71, - 620.643, - 150.6239999999998 + 350.66, + 189.032, + 184.257, + 109.172 ], "priority": 11, "parents": [ - 118837 - ], - "children": [ - 118846 + 1121 ], - "area": 625505.51349, + "children": [], + "area": 66285.96112, "iscrowd": 0, "segmentation": [] }, { - "id": 118846, - "strid": "31c9eced-d5b3-463e-bb4a-f822de3c86a9", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", + "id": 1133, + "strid": "54834210-58a1-4b59-8d35-e12c009aaacb", + "image_id": 48, + "image_name": "116917.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 440.599, - 2213.662, - 316.92800000000005, - 29.855000000000018 + 537.327, + 188.977, + 187.40499999999997, + 108.614 ], "priority": 12, "parents": [ - 118845 + 1121 ], "children": [], - "area": 975337.2635379999, + "area": 101542.444479, "iscrowd": 0, - "segmentation": [], - "text": "Figure 3: Brett via Twitter" + "segmentation": [] }, { - "id": 118847, - "strid": "0d9df705-8c47-4a10-a09a-edefdf9c44e1", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 3, - "category_name": "Text", + "id": 1134, + "strid": "1ea4bbcb-af14-4e4e-a0cc-366046afa23e", + "image_id": 48, + "image_name": "116917.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 89.193, - 2274.264, - 970.267, - 105.7510000000002 + 576.681, + 692.029, + 153.894, + 21.053999999999974 ], "priority": 13, "parents": [ - 118837 - ], - "children": [], - "area": 202848.42895200002, - "iscrowd": 0, - "segmentation": [], - "text": "Also on Twitter, Taylor (not her real name) talks about how guns are not “inject\ndirectly into bloodstream...” and “inject[ing] aluminum...” a direct reference to\nAluminium hydroxide (See Figure 4)." - }, - { - "id": 118848, - "strid": "26e98ee1-d7e6-45f2-9c3b-2ef4a03437c8", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 297.05, - 2391.448, - 617.0230000000001, - 167.92000000000007 - ], - "priority": 14, - "parents": [ - 118837 + 1121 ], "children": [ - 118849 + 1136, + 1135 ], - "area": 710379.6284, + "area": 399079.97574900003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Contlusion" }, { - "id": 118849, - "strid": "98f86ed8-8fc4-41b4-a862-52d6cf1c71f1", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", + "id": 1135, + "strid": "8bcb52b5-1a1c-4cdf-b00d-173741eabcdb", + "image_id": 48, + "image_name": "116917.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 440.061, - 2580.249, - 332.41800000000006, - 31.090000000000146 + 550.565, + 719.116, + 207.66599999999994, + 282.02199999999993 ], - "priority": 15, + "priority": 14, "parents": [ - 118848 + 1134 ], "children": [], - "area": 1135466.955189, + "area": 395920.10054, "iscrowd": 0, "segmentation": [], - "text": "Figure 4: Taylor via Twitter" + "text": "pn egpygiahe and wenn uae ok fhe\nbg aba bas\n\ngoals ab (facilitates the recovery of the\nrood parts of the Sell, being thew linked\nta the patient cognitive or emotional area\nThe therapeutic potential t owas, lies 1x\nthe fact that 1t possesses the Instruments\nto get out of the innate dichotomy sch as\nni\" Togtes to get aceesi to the\nlogical “et-ot\", which Jot bave «\n\n \n\ntcad Far theenpanttn\n\n \n\n \n\n \n\nwider comprehension of the pagehic\nite different dimes\n\nAlves\nterpretation ~ the most gawerln] transfor\nmative instrament the therapist possesses\n- the capability to create naw links able\nto tie up symptom ond unconscious, post\n\n \n \n\n \n\n1d proscgtelationality\n\n \n\nhe reploditter, as for the interpretation,\nis act HPit’s ated oF aot, but the uso ome\na bat it" }, { - "id": 118850, - "strid": "50162722-c98f-413d-9d99-65aafe962bac", - "image_id": 205124, - "image_name": "14277.png", + "id": 1136, + "strid": "e6a3f3db-b07c-46fb-a917-291d1b87ab43", + "image_id": 48, + "image_name": "116917.png", "category_id": 3, "category_name": "Text", "bbox": [ - 89.629, - 2679.05, - 1005.468, - 65.0949999999998 + 550.664, + 1006.519, + 207.15599999999995, + 120.50099999999998 ], - "priority": 16, + "priority": 15, "parents": [ - 118837 + 1134 ], "children": [], - "area": 240120.57245000004, + "area": 554253.778616, "iscrowd": 0, "segmentation": [], - "text": "And lastly, Dell via Twitter (not his real name) asks “how any sane person inject a\nsmall child directly into their bloodstream...” (See Figure 5)." + "text": "Comic! Sle D, Voll M2005), Reorder\ndre acoe Bele Borage, Tras\n\nRenner A 908, Lae della eeiann Rd\nlakhs. Rena 079\n\nKable LS, (0H) “The Danes Pinto er\nts Prchthempt-tn An} Poychet vol\npochic.Froven Angel Milano\n\nSpine A: 2000} vee che i Sg india" }, { - "id": 118851, - "strid": "c03b55ba-2312-4eb2-abc0-d20ad7a6c17d", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", + "id": 1137, + "strid": "e4b1236e-fa9c-439e-8363-3501038d5a4c", + "image_id": 49, + "image_name": "116969.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 303.536, - 2757.449, - 619.2819999999999, - 167.05600000000004 - ], - "priority": 17, - "parents": [ - 118837 + 18.39, + 12.65, + 65.0, + 32.5 ], + "priority": -1, + "parents": [], "children": [ - 118852 + 1156, + 1145, + 1153, + 1149, + 1139, + 1155, + 1154, + 1142, + 1151, + 1140, + 1138 ], - "area": 836985.039664, + "area": 232.63350000000003, "iscrowd": 0, "segmentation": [] }, { - "id": 118852, - "strid": "628835d3-b35a-4938-871a-599bb6e7e433", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", + "id": 1138, + "strid": "6baf3bc1-de25-45ec-a6d5-942a9c66089d", + "image_id": 49, + "image_name": "116969.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 440.641, - 2946.495, - 305.88400000000007, - 31.360000000000127 + 107.034, + 66.255, + 538.802, + 47.33500000000001 ], - "priority": 18, + "priority": 1, "parents": [ - 118851 + 1137 ], "children": [], - "area": 1298346.503295, + "area": 7091.53767, "iscrowd": 0, "segmentation": [], - "text": "Figure 5: Dell via Twitter" + "text": "Anovel méthod to confirm tracheal intubation based on\nairway préssures: validation in patients with lung disease." }, { - "id": 118853, - "strid": "69978f5f-1cad-41f1-ac4c-5e93153c1f86", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 3, - "category_name": "Text", + "id": 1139, + "strid": "a71236d6-432b-4757-aaf9-09b00391adb5", + "image_id": 49, + "image_name": "116969.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 93.581, - 3014.06, - 1040.124, - 64.76499999999987 + 19.944, + 142.699, + 711.342, + 52.510999999999996 ], - "priority": 19, + "priority": 2, "parents": [ - 118837 + 1137 ], "children": [], - "area": 282058.74886, + "area": 2845.988856, "iscrowd": 0, "segmentation": [], - "text": "Where exactly are vaccines injected, and what happens after injection? Do vaccines\nfilter from the site of injection directly into the bloodstream?" + "text": "Arjarine Fontan othe G. Monsieurs?, Frank Luijmes', Willem Dieperink', Jan G. Zijlstra’, Alain F. Kalmar’\n»'Departmentiof Critigal Care, University of Groningen, University Medical Center Groningen, The Netherlands\n—@ © © @Department of Emergency Medicine, Antwerp University Hospital, Belgium" }, { - "id": 118854, - "strid": "3360f5aa-8d45-4903-b248-750a5a2105e3", - "image_id": 205124, - "image_name": "14277.png", + "id": 1140, + "strid": "e13f3e27-62fa-4a16-82ea-cc11533ba0bf", + "image_id": 49, + "image_name": "116969.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1411.603, - 713.015, - 589.155, - 90.93700000000001 + 23.728, + 231.673, + 83.86099999999999, + 15.24799999999999 ], - "priority": 20, + "priority": 3, "parents": [ - 118879 + 1137 ], "children": [ - 118855, - 118856, - 118859, - 118858, - 118860, - 118862 + 1141 ], - "area": 1006494.113045, + "area": 5497.136944000001, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Introduction" }, { - "id": 118855, - "strid": "b4b710c5-96a1-41c8-90e8-8a1bbb86e436", - "image_id": 205124, - "image_name": "14277.png", + "id": 1141, + "strid": "95ac490f-ca7f-429d-8524-050820ae350d", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1241.477, - 880.275, - 1013.0629999999999, - 232.28699999999992 + 23.665, + 255.572, + 333.526, + 213.15300000000002 ], - "priority": 21, + "priority": 4, "parents": [ - 118854 + 1140 ], "children": [], - "area": 1092841.1661750001, + "area": 6048.11138, "iscrowd": 0, "segmentation": [], - "text": "Figure 6 shows a cannulation which forces fluid directly into the bloodstream.\nCannulation is not a recommended or common practice for the administration of\nroutine vaccines and vaccinations. No routine childhood or adult vaccine\nrecommendations per the CDC, suggest cannulation and then injection direct into\nthe canula (CDC.gov, 2019) . If the vaccine was to be administered “direct into the\nbloodstream’ it would be an Intravenous (IV) injection. As shown in Figure 7, not\none of the vaccines is to be administered via IV." + "text": "Emengency Ogovachssl ivubslion resus in gugvental\noesophageal intubation in up to 17% of patients often with\ndisastrous consequences. We have previously published a highly\nspecific and sensitive novel method to Wetect endotracheal\ninubation based on differences in ventilation pressure waveforms\nin the oesophagus and in the trachea’ in patients with healthy\nlungs[t]. A detection algorithm, based on differences. in\ncompliancelelasticty between the lung and the oesophagus,\ngenerated a \"D-value\" indicating tracheal intubation if D>0.5 and\noesophageal intubation if D<0.5. The aim of the current study was\nto validate the algorithm in patients with lung disease." }, { - "id": 118856, - "strid": "1dc361c1-fa42-46ac-8a20-fc5400e44f86", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", + "id": 1142, + "strid": "7b780638-31dd-42ab-a1fe-47747264c563", + "image_id": 49, + "image_name": "116969.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1463.741, - 1124.81, - 540.048, - 362.366 + 23.197, + 476.393, + 59.727999999999994, + 15.454000000000008 ], - "priority": 22, + "priority": 5, "parents": [ - 118854 + 1137 ], "children": [ - 118857 - ], - "area": 1646430.51421, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 118857, - "strid": "bbd0674a-a673-474e-aa60-2c32a0298b6f", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1507.552, - 1501.958, - 440.61699999999996, - 28.426999999999907 - ], - "priority": 23, - "parents": [ - 118856 + 1143, + 1144 ], - "children": [], - "area": 2264279.786816, + "area": 11050.888421, "iscrowd": 0, "segmentation": [], - "text": "Figure 6: Cannulation of the Cephalic vein" + "text": "Methods" }, { - "id": 118858, - "strid": "b4bcc023-3c05-4eef-aa78-28968ba5b265", - "image_id": 205124, - "image_name": "14277.png", + "id": 1143, + "strid": "5280475b-f457-4e08-b36d-744701f759ae", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1242.059, - 1563.145, - 760.7760000000001, - 29.430000000000064 + 22.865, + 500.318, + 333.926, + 213.15300000000002 ], - "priority": 24, + "priority": 6, "parents": [ - 118854 + 1142 ], "children": [], - "area": 1941518.315555, + "area": 11439.771069999999, "iscrowd": 0, "segmentation": [], - "text": "CDC guidelines for vaccine dose, route, site, and needle size:" - }, - { - "id": 118859, - "strid": "a5261783-5f3e-403f-8780-2b81651fa0b1", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 7, - "category_name": "Table", - "bbox": [ - 1335.918, - 1610.472, - 861.3129999999999, - 854.9559999999999 - ], - "priority": 25, - "parents": [ - 118854 - ], - "children": [], - "area": 2151458.5332959997, - "iscrowd": 0, - "segmentation": [] + "text": "After obtaining institutional approval, twenty (iWiibated and\nventilated Intensive Care Unit patients were (included. Inclusion\ncfteria were controlled mechanical ventilation and at least mild to\nmoderate lung injury according to a MuiTay lung injury score >0.1\nA connecting piece was placed between the endotracheal tube\nand the ventilation bag. This piece comprised a thin air filed\ncatheter inserted through the tube lumen at 1 cm from the distal\nend, and a second catheter located at the proximal end of the\ntube, We performed three consecutive manual bag ventiltions\nwhile recording the pressure curves through both catheters. For\neach ventilation, a D-value was calculated." }, { - "id": 118860, - "strid": "d2f9f57e-1398-4d72-81e1-03b5602d7d12", - "image_id": 205124, - "image_name": "14277.png", + "id": 1144, + "strid": "90805d6a-2540-48a3-bfa6-2727c89b9059", + "image_id": 49, + "image_name": "116969.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1344.002, - 2481.405, - 848.6349999999998, - 260.36799999999994 - ], - "priority": 26, - "parents": [ - 118854 - ], - "children": [ - 118861 - ], - "area": 3335013.2828100002, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 118861, - "strid": "66e973ce-5636-46fb-a39b-e481e6493cba", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1291.312, - 2762.346, - 952.9560000000001, - 31.75 - ], - "priority": 27, - "parents": [ - 118860 - ], - "children": [], - "area": 3567050.537952, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 7: CDC recommendations for vaccine administration (CDC.gov, 2019)" - }, - { - "id": 118862, - "strid": "eecceadc-665d-4176-bbcd-91df5ab85266", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1237.774, - 2828.059, - 1037.739, - 332.0770000000002 + 41.296, + 725.323, + 293.064, + 126.61900000000003 ], - "priority": 28, + "priority": 7, "parents": [ - 118854 + 1142 ], "children": [], - "area": 3500497.900666, + "area": 29952.938608, "iscrowd": 0, - "segmentation": [], - "text": "As shown above in Figure 7 (above), there are three routes of administration for\nroutine CDC recommended vaccines. The only non-inject-able vaccines listed is the\nFlumist Intranasal administration, which is not “direct into the bloodstream.” A\nversion of the Polio vaccine is via the oral route, however this is not shown on this\nCDC recommendation.\n\nThe main two methods of injection, as shown in Figure 7, are Intramuscular (IM)\ninjection, and Subcutaneous injection. These are graphically shown in Figure 8.\nFigure 8 and Table 1 show that the IM injection, is placed in any spot in the\nAnterolateral thigh muscle or Deltoid muscle." + "segmentation": [] }, { - "id": 118863, - "strid": "03aedb4b-98ac-40da-ada1-be2b2dbd41ac", - "image_id": 205124, - "image_name": "14277.png", + "id": 1145, + "strid": "dc853d77-12b3-4fca-9e0a-0bcfc6a112c2", + "image_id": 49, + "image_name": "116969.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2618.314, - 700.284, - 605.0039999999999, - 93.38999999999999 + 390.093, + 231.381, + 52.341999999999985, + 16.441000000000003 ], - "priority": 29, + "priority": 8, "parents": [ - 118879 + 1137 ], "children": [ - 118869, - 118867, - 118864, - 118870, - 118866 + 1147, + 1146 ], - "area": 1833563.4011759998, + "area": 90260.108433, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Results" }, { - "id": 118864, - "strid": "a9622608-7da0-4b66-b446-8947e2e90223", - "image_id": 205124, - "image_name": "14277.png", + "id": 1146, + "strid": "7d03899b-6c56-4dce-8568-65ba1dbc4ffa", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2393.886, - 865.613, - 968.0999999999999, - 95.75400000000002 + 390.383, + 255.067, + 332.25499999999994, + 192.062 ], - "priority": 30, + "priority": 9, "parents": [ - 118863 + 1145 ], "children": [], - "area": 2072178.8421180001, + "area": 99573.820661, "iscrowd": 0, "segmentation": [], - "text": "The Subcut injections are placed either fatty tissue over the Anterolateral thigh\nmuscle, or fatty tissue over the Triceps muscle, and none are suggested to be\nadministered via IV (CDC.gov, 2019) ." + "text": "Mean age (SD) of the patients was 60 (16) years, 60% was male.\nThe mean (SD) Murray score was 1.4 (0.6). Pathologies included\npulmonary oedema, pneumonia, atelectasis and traumatic-lung\ninjury. All 60 D-values are represented in Fig. 1. The median (IQR,\nrange) Dvalue was 38 (16-74, 0.8-1272). Our algorithm therefore\nconfirmed a high sensitivity tot detect correct’ endotracheal\nintabation also in patients with lung disease. Under the hypothesis\nthat oesophageal compliance does not increase significantly in\npatients with lung disease, the specificity of our algorithm will nt\nbe affected." }, { - "id": 118866, - "strid": "022250e2-be1e-4f98-ac7f-da810c82ff69", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 7, - "category_name": "Table", + "id": 1147, + "strid": "bd8ca4c7-4976-462b-a0d2-76c33e6fcf78", + "image_id": 49, + "image_name": "116969.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2413.18, - 1050.177, - 1009.2130000000002, - 1017.1589999999999 + 388.118, + 490.443, + 332.723, + 146.529 ], - "priority": 31, + "priority": 10, "parents": [ - 118863 + 1145 ], "children": [ - 118865 + 1148 ], - "area": 2534266.13286, + "area": 190349.75627399998, "iscrowd": 0, "segmentation": [] }, { - "id": 118865, - "strid": "e195f275-2d53-48a2-93c6-0e5ed9fe0e76", - "image_id": 205124, - "image_name": "14277.png", + "id": 1148, + "strid": "ecb1c29b-cf18-4837-b625-3953653337c2", + "image_id": 49, + "image_name": "116969.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2393.046, - 989.845, - 867.5709999999999, - 33.004999999999995 + 390.121, + 473.892, + 55.891999999999996, + 15.103999999999985 ], - "priority": 32, + "priority": 11, "parents": [ - 118866 + 1147 ], "children": [], - "area": 2368744.6178699997, + "area": 184875.220932, "iscrowd": 0, "segmentation": [], - "text": "Table 1: Injection, injection type, location of injection (CDC.gov, 2019)." + "text": "Figure 1" }, { - "id": 118867, - "strid": "34e6c121-4be1-48b3-8adf-161ec292f8cf", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", + "id": 1149, + "strid": "e42de5f9-ae43-4736-bae2-6f0bbd5acd31", + "image_id": 49, + "image_name": "116969.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2728.23, - 2103.619, - 378.6489999999999, - 352.2310000000002 + 389.201, + 665.312, + 78.5, + 15.130999999999972 ], - "priority": 33, + "priority": 12, "parents": [ - 118863 + 1137 ], "children": [ - 118868 - ], - "area": 5739156.46437, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 118868, - "strid": "3c75628b-3903-41bf-9fd5-4f270729643d", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 2725.361, - 2480.986, - 384.90700000000015, - 26.338000000000193 + 1150 ], - "priority": 34, - "parents": [ - 118867 - ], - "children": [], - "area": 6761582.485946, + "area": 258940.095712, "iscrowd": 0, "segmentation": [], - "text": "Figure 8: IM and Subcut injections" - }, - { - "id": 118869, - "strid": "9ade6712-3122-49ac-a095-14359446ee49", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 2408.738, - 2537.513, - 257.991, - 657.1700000000001 - ], - "priority": 35, - "parents": [ - 118863 - ], - "children": [], - "area": 6112203.988593999, - "iscrowd": 0, - "segmentation": [] + "text": "Conclusion" }, { - "id": 118870, - "strid": "0752dc42-6ddf-4220-a4b3-3a4ffff350a7", - "image_id": 205124, - "image_name": "14277.png", + "id": 1150, + "strid": "bb89de78-b01f-424a-804e-b1e81d2f17ea", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2695.775, - 2575.282, - 729.6570000000002, - 572.0219999999999 + 388.865, + 687.028, + 331.07400000000007, + 35.12699999999995 ], - "priority": 36, + "priority": 13, "parents": [ - 118863 + 1149 ], "children": [], - "area": 6942380.833550001, + "area": 267161.14322, "iscrowd": 0, "segmentation": [], - "text": "Where does the vaccine injection go? Does it filter direct\ninto the bloodstream? Contrary to the statement as shown\nin Figure 5, vaccines don’t bypass the immune system.\nThe opposite is in fact true. The administered vaccine\ntravels from the site of injection, into the lymphatic system,\nand directly into Lymph Nodes.\n\nAs per Figure 9, routine vaccines are administered to A.\nthe Deltoid muscle, Triceps muscle or fatty tissue over\nTriceps muscle, or B. the Anterolateral thigh muscle (or\nfatty tissue). Vaccines administered into the muscle or\nfatty tissue at A., are collected up in lymphatic vessels,\nand run through Lymph Nodes at location C. Vaccines\nadministered into the muscle or fatty tissue at B., are\ncollected up in the lymphatic vessels, and run through\nLymph Nodes at location D." + "text": "The algorithm to detect correct endotracheal intubation performed\nexcellent in patients with lung disease." }, { - "id": 118871, - "strid": "1ba482ee-a010-4831-827f-7a6a1247f534", - "image_id": 205124, - "image_name": "14277.png", + "id": 1151, + "strid": "0ae24ca8-bbf5-495b-acad-abb818b54310", + "image_id": 49, + "image_name": "116969.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3771.985, - 702.752, - 599.4069999999997, - 93.92399999999998 + 389.763, + 746.777, + 62.360000000000014, + 13.725000000000023 ], - "priority": 37, + "priority": 14, "parents": [ - 118879 + 1137 ], "children": [ - 118872 + 1152 ], - "area": 2650770.0027199998, + "area": 291066.043851, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "References" }, { - "id": 118872, - "strid": "9b9a1af4-1136-4da9-8ad6-a9e5834b457f", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 3, - "category_name": "Text", + "id": 1152, + "strid": "974f4848-c561-41ca-95e2-e2a16effb7cd", + "image_id": 49, + "image_name": "116969.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 3542.004, - 840.812, - 1032.348, - 192.73400000000004 + 391.697, + 766.357, + 265.59900000000005, + 12.001999999999953 ], - "priority": 38, + "priority": 15, "parents": [ - 118871 + 1151 ], "children": [], - "area": 2978159.4672479997, - "iscrowd": 0, - "segmentation": [], - "text": "From either location, vaccine components in the Lymph system, after being filtered\nthrough Lymph Nodes, eventually end up at E, running into the Descending Vena\nCava (DVC) (Willard-Mack, 2006).\n\nLymph Nodes are full of White Blood Cells (WBC), mainly B-Lymphocytes, in lymph\nnodules in germinal centres (Gamazo et al., 2019)." - }, - { - "id": 118873, - "strid": "dd60019d-d80b-44a3-ab63-5047f0e6964c", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 3765.753, - 1180.867, - 613.6489999999999, - 94.15200000000004 - ], - "priority": 39, - "parents": [ - 118879 - ], - "children": [ - 118874, - 118875, - 118876 - ], - "area": 4446853.447851, + "area": 300179.737829, "iscrowd": 0, - "segmentation": [], - "text": "Conclusion" + "segmentation": [] }, { - "id": 118874, - "strid": "103ee0dd-67b6-470d-93f5-6ed8ab56bb13", - "image_id": 205124, - "image_name": "14277.png", + "id": 1153, + "strid": "d8aca3bf-30bd-43f7-bd65-cca6b4d9cbe2", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3543.931, - 1337.878, - 1011.7090000000003, - 64.88699999999994 + 139.072, + 884.549, + 150.04499999999996, + 14.615999999999985 ], - "priority": 40, + "priority": 16, "parents": [ - 118873 + 1137 ], "children": [], - "area": 4741347.318418, + "area": 123015.998528, "iscrowd": 0, "segmentation": [], - "text": "In conclusion, any Anti-Vaxxers stating that “vaccine are injected directly into the\nbloodstream” and/or “bypassing the immune system” are stating false information." + "text": "Tracheal ventilation" }, { - "id": 118875, - "strid": "d35d8cd7-ed71-4ce4-9809-4da7943a1a97", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 4, - "category_name": "List", + "id": 1154, + "strid": "f8268a3a-bffd-4e6b-ba62-74a975c717ac", + "image_id": 49, + "image_name": "116969.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3543.716, - 1429.891, - 956.1590000000001, - 298.9949999999999 + 55.433, + 908.665, + 321.993, + 167.04199999999992 ], - "priority": 41, + "priority": 17, "parents": [ - 118873 + 1137 ], "children": [], - "area": 5067127.614956, + "area": 50370.026945, "iscrowd": 0, "segmentation": [] }, { - "id": 118876, - "strid": "2a33bb37-2001-4dc2-93b8-d8611b903dd2", - "image_id": 205124, - "image_name": "14277.png", + "id": 1155, + "strid": "d0073d5e-3e96-4fcd-9d03-1bcb86766243", + "image_id": 49, + "image_name": "116969.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3539.442, - 1754.304, - 1035.9920000000002, - 409.0659999999998 + 464.182, + 884.487, + 169.87699999999995, + 18.58000000000004 ], - "priority": 42, + "priority": 18, "parents": [ - 118873 + 1137 ], "children": [], - "area": 6209257.258368, - "iscrowd": 0, - "segmentation": [], - "text": "If anyone tells you that vaccines are administered directly into the bloodstream,\nthen they are incorrect.\n\nIf anyone tells you that vaccines bypass the immune system, then they are\nincorrect.\n\nWhat have we learnt about fluid flow in the human body? Vaccines injected into\neither space, is filtered from there via the Lymphatic system. After the fluid is moved\nfrom Lymphatic vessels into Lymph Nodes, it has to go through lymph nodules jam\npacked with B-Lymphocytes (part of the immune system).\n\nThe statements that vaccines are “injected directly into the blood system” and that\nthey “bypass the immune system” are completely false." - }, - { - "id": 118877, - "strid": "33fc28a2-22c3-41de-91f5-a984783c69f8", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 3696.902, - 2509.963, - 610.4870000000001, - 92.76999999999998 - ], - "priority": 43, - "parents": [ - 118879 - ], - "children": [ - 118878 - ], - "area": 9279087.234626, + "area": 410562.944634, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Oesophageal ventilation" }, { - "id": 118878, - "strid": "8bd2ae15-7d80-47a4-b4e4-87e0e829ce57", - "image_id": 205124, - "image_name": "14277.png", - "category_id": 3, - "category_name": "Text", + "id": 1156, + "strid": "be6423e3-d7e5-453d-97e2-9176b507d48e", + "image_id": 49, + "image_name": "116969.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 3548.271, - 2670.898, - 1054.0540000000005, - 412.31100000000015 + 391.309, + 910.904, + 306.319, + 167.04199999999992 ], - "priority": 44, + "priority": 19, "parents": [ - 118877 + 1137 ], "children": [], - "area": 9477069.917358002, + "area": 356444.933336, "iscrowd": 0, - "segmentation": [], - "text": "CDC. gov. (2019). Administering Hib Vaccine | Haemophilus Influenzae Type b\nVaccine | CDC. [online] Available at:\nhttps://www.cdc.gov/vaccines/vpd/hib/hcp/administering-vaccine.html\n\nGamazo, C., Pastor, Y., Larrafieta, E., Berzosa, M., Irache, J. and Donnelly, R.\n(2019). Understanding the basis of transcutaneous vaccine delivery. Therapeutic\nDelivery, [online] 10(1), pp.63-80. Available at:\nhttps://www.future-science.com/doi/pdf/10.4155/tde-2018-0054\n\nWillard-Mack, C. (2006). Normal Structure, Function, and Histology of Lymph Nodes.\nToxicologic Pathology, [online] 34(5), pp.409-424. Available at:\nhttps://journals.sagepub.com/doi/pdf/10.1080/01926230600867727" + "segmentation": [] }, { - "id": 198934, - "strid": "60890cba-b0db-4ca6-9cd5-3d60cc4d0711", - "image_id": 208288, - "image_name": "9847.png", + "id": 1157, + "strid": "b476d8df-a84b-4a2a-a11a-d8c4c9b2f917", + "image_id": 50, + "image_name": "116971.png", "category_id": 9, "category_name": "Root", "bbox": [ - 322.22, - 359.36, - 127.70999999999998, - 158.12 + 30.69, + 26.08, + 104.83000000000001, + 42.879999999999995 ], "priority": -1, "parents": [], "children": [ - 198901, - 198902, - 198899, - 198908, - 198904, - 198903, - 198905, - 198898, - 198906, - 198907, - 198900 + 1190, + 1160, + 1161, + 1159, + 1158, + 1165, + 1176, + 1168 ], - "area": 115792.97920000002, + "area": 800.3951999999999, "iscrowd": 0, "segmentation": [] }, { - "id": 198898, - "strid": "cbb49720-f00d-4817-993b-d0ad47fd8d58", - "image_id": 208288, - "image_name": "9847.png", + "id": 1158, + "strid": "8c89adf0-9511-42ce-82d2-50de01249d7c", + "image_id": 50, + "image_name": "116971.png", "category_id": 1, "category_name": "Title", "bbox": [ - 466.682, - 73.528, - 2667.1180000000004, - 192.865 + 78.519, + 86.198, + 977.1090000000002, + 218.61400000000003 ], "priority": 1, "parents": [ - 198934 + 1157 ], "children": [], - "area": 34314.19409600001, + "area": 6768.180762, "iscrowd": 0, "segmentation": [], - "text": "Constructing an iterative method for predicting protein O-glycosylation\nsites glycosylated by different GalNAc-transferase isoforms." + "text": "Assessing searches in NICE\nSingle Technology Appraisals:\npractice and checklist" }, { - "id": 198899, - "strid": "8c2a58d5-7e3b-4f47-98df-74b5115c77b5", - "image_id": 208288, - "image_name": "9847.png", + "id": 1159, + "strid": "718041d2-b7b7-47d4-84b6-a07e48e063d1", + "image_id": 50, + "image_name": "116971.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 522.513, - 269.249, - 2555.716, - 131.76800000000003 + 66.611, + 389.609, + 821.466, + 72.81900000000002 ], "priority": 2, "parents": [ - 198934 + 1157 ], "children": [], - "area": 140686.102737, + "area": 25952.245099, "iscrowd": 0, "segmentation": [], - "text": "Jon Mohl,':43 Thomas A Gerken® and Ming-Ying Leung'34\n\n‘Border Biomedical Research Center, @Bioinformatics Program, ?Computational Science Program, “Department of Mathematical Sciences, UTEP, “Departments of Pediatrics,\nBiochemistry, and Chemistry, Case Western Reserve University" + "text": "Ruth Wong, Suzy Paisley and Christopher Carroll\nScHARR, University of Sheffield, UK" }, { - "id": 198900, - "strid": "76c4536d-551e-41c9-9c35-d83eba46a85e", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1160, + "strid": "613a39e3-dcda-40b1-a16f-30127cf59677", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 95.756, - 588.927, - 481.07900000000006, - 76.50099999999998 + 96.483, + 592.519, + 377.935, + 255.72800000000007 ], "priority": 3, "parents": [ - 198934 + 1157 ], - "children": [ - 198919, - 198914, - 198931, - 198909, - 198924, - 198913, - 198921, - 198925 - ], - "area": 56393.293812, + "children": [], + "area": 57168.010677000006, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "1. Analysis of the ERG\n(Evidence Review Group) reports\nof manufacturers’ submission\n(MS) searches shows what\nmanufacturers do in terms of\nsearching, what ERGs do in\nrelation to appraising searches\nand how they report on the\nappraisal process." }, { - "id": 198913, - "strid": "a766e6ab-748c-4a8a-936e-b3a2cf00787e", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1161, + "strid": "e24c92a8-a658-49f9-b27c-ccfc423019f6", + "image_id": 50, + "image_name": "116971.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 91.109, - 719.063, - 1088.898, - 203.97900000000004 + 1008.96, + 692.361, + 279.4569999999999, + 57.97799999999995 ], "priority": 4, "parents": [ - 198900 + 1157 ], - "children": [], - "area": 65513.110866999996, + "children": [ + 1162, + 1164, + 1163 + ], + "area": 698564.55456, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Approach" }, { - "id": 198909, - "strid": "3874e4da-7b34-4d25-b8f2-a051fec7fe63", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 2, - "category_name": "Figure", + "id": 1162, + "strid": "010eb6c7-bf4c-4f1d-8deb-fc989718d1a6", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 113.08, - 961.207, - 548.267, - 580.072 + 1017.558, + 786.012, + 368.88300000000004, + 141.44299999999998 ], "priority": 5, "parents": [ - 198900 - ], - "children": [ - 198932 + 1161 ], - "area": 108693.28756, + "children": [], + "area": 799812.7986959999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "2. Limitations from search\ncritiques in 83 (94%) of the 88\nERG reports between 2006 and\nMay 2011 were extracted and\ngrouped into themes." }, { - "id": 198932, - "strid": "5d204f18-f353-47b4-8ff6-f1c2ea214f2d", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1163, + "strid": "7053696d-1058-44b0-b202-7d985ac99a2c", + "image_id": 50, + "image_name": "116971.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 674.929, - 1320.6, - 528.4119999999999, - 236.99700000000007 + 1133.944, + 142.786, + 616.113, + 574.0729999999999 ], "priority": 6, "parents": [ - 198909 + 1161 ], "children": [], - "area": 891311.2373999999, + "area": 161911.327984, "iscrowd": 0, - "segmentation": [], - "text": "Figure 1: Panel Ais a tree of the 20\nIsoforms showing common\ndomains within each of the\nproteins.1 Panel B is a cartoon\ndepiction of how proteins can be\nmodified with glycosylation." + "segmentation": [] }, { - "id": 198931, - "strid": "9cf2f637-ba36-4f45-b998-20fbd76aeb7e", - "image_id": 208288, - "image_name": "9847.png", + "id": 1164, + "strid": "e0f53ece-934f-4d02-944d-af44bd347d25", + "image_id": 50, + "image_name": "116971.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 686.771, - 961.017, - 473.106, - 356.01800000000003 + 542.821, + 530.422, + 527.6040000000002, + 424.05500000000006 ], "priority": 7, "parents": [ - 198900 + 1161 ], "children": [], - "area": 659998.606107, + "area": 287924.20046200004, "iscrowd": 0, "segmentation": [] }, { - "id": 198914, - "strid": "8db30da0-6251-4ff7-ba9c-e0f40d92ed28", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1165, + "strid": "705b2932-1758-4d33-9372-c9700ff73f51", + "image_id": 50, + "image_name": "116971.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 92.161, - 1608.476, - 1096.108, - 312.087 + 75.505, + 913.839, + 243.51, + 52.18100000000004 ], "priority": 8, "parents": [ - 198900 + 1157 ], - "children": [], - "area": 148238.756636, + "children": [ + 1167, + 1166 + ], + "area": 68999.413695, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Themes" }, { - "id": 198919, - "strid": "5c40375e-bb40-4a89-836d-fd4eee8bdee8", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 7, - "category_name": "Table", + "id": 1166, + "strid": "f749fd59-9461-4f63-bb3c-03821dd1ccc9", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 129.831, - 1939.534, - 1051.657, - 744.1150000000002 + 107.798, + 986.295, + 1454.031, + 69.024 ], "priority": 9, "parents": [ - 198900 - ], - "children": [ - 198916 + 1165 ], - "area": 251811.63875399999, + "children": [], + "area": 106320.62840999999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "3. Twelve themes were identified, six themes closely related to the search strategy theme with the most\nlimitations." }, { - "id": 198916, - "strid": "10caa2d6-47a4-4d5c-aa63-a1a189ca094b", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1167, + "strid": "67c4d220-9616-42b9-91b8-2ad880d29a72", + "image_id": 50, + "image_name": "116971.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 299.506, - 2700.914, - 723.142, - 34.3130000000001 + 82.812, + 1063.969, + 1609.839, + 177.788 ], "priority": 10, "parents": [ - 198919 + 1165 ], "children": [], - "area": 808939.9484839999, + "area": 88109.400828, "iscrowd": 0, - "segmentation": [], - "text": "Table 1: Comparison of different prediction websites." + "segmentation": [] }, { - "id": 198924, - "strid": "9073e6c8-cdf0-4214-b651-ce22417f4cb3", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1168, + "strid": "5d889de6-514b-4518-96c6-3c72b8f22536", + "image_id": 50, + "image_name": "116971.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 107.612, - 2782.274, - 1094.447, - 311.72800000000007 + 708.726, + 1247.18, + 394.4119999999999, + 57.190000000000055 ], "priority": 11, "parents": [ - 198900 + 1157 ], - "children": [], - "area": 299406.06968799996, + "children": [ + 1173, + 1175, + 1171, + 1174, + 1172, + 1169, + 1170 + ], + "area": 883908.89268, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Comparisons" }, { - "id": 198921, - "strid": "ed853345-c524-487b-b08e-d1d680c5a74d", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 2, - "category_name": "Figure", + "id": 1169, + "strid": "1bb71dd6-8009-490c-85ad-c86d7c8b7639", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 151.519, - 3118.748, - 699.128, - 627.038 + 697.003, + 1315.895, + 417.79499999999996, + 68.13499999999999 ], "priority": 12, "parents": [ - 198900 - ], - "children": [ - 198918 + 1168 ], - "area": 472549.578212, + "children": [], + "area": 917182.7626850001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Limitations reported in the\nMS searches by the ERGs" }, { - "id": 198918, - "strid": "ab738dc8-09ec-47b5-80fd-dcc7bce425bc", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1170, + "strid": "55281a70-7678-4f80-a0d8-b0051ca57c78", + "image_id": 50, + "image_name": "116971.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 862.651, - 3124.125, - 322.96899999999994, - 275.1590000000001 + 29.232, + 1387.885, + 651.485, + 656.356 ], "priority": 13, "parents": [ - 198921 + 1168 ], "children": [], - "area": 2695029.555375, + "area": 40570.65432, "iscrowd": 0, - "segmentation": [], - "text": "Figure 2: Screen\nshot of the ISOGlyP\nwebsite beta version\nthat predicts protein\nO-glycosylation\nbased on ten\nppGalNAcs." + "segmentation": [] }, { - "id": 198925, - "strid": "1a8f0163-4202-423c-a221-2b3211f65cf2", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1171, + "strid": "4a5ca3bf-80f7-4153-8bea-b637117308f2", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 92.321, - 3761.161, - 1087.525, - 205.10199999999986 + 727.029, + 1486.998, + 420.47900000000004, + 197.25 ], "priority": 14, "parents": [ - 198900 + 1168 ], "children": [], - "area": 347234.144681, + "area": 1081090.668942, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "4. Key limitations relate to either\nomissions (comprehensiveness of\nsearch) and missing full strategies\n(lack transparency and careful\ndocumentation of the MS’s search\nprocess): common in both clinical\nand cost effectiveness reviews." }, { - "id": 198906, - "strid": "5543e7cd-e671-40d0-9d53-c2fb33cd7a54", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1172, + "strid": "62c0b4d8-6107-44d6-8a30-22727f9c1539", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 82.263, - 4014.21, - 368.62199999999996, - 91.5649999999996 + 709.709, + 1829.54, + 432.98799999999994, + 252.0949999999998 ], "priority": 15, "parents": [ - 198934 - ], - "children": [ - 198926 + 1168 ], - "area": 330220.95723, + "children": [], + "area": 1298441.0038599998, "iscrowd": 0, "segmentation": [], - "text": "Objective" + "text": "5. Search strategy theme: the most\nfrequent limitations relate to the\nfailure to use subject headings or\nthesauri, missing free-text terms,\nerrors in database syntax and errors\nin the combination of lines in\nstatements which will have an\nimpact on the recall and/or precision\nof the search." }, { - "id": 198926, - "strid": "5979c59f-0cad-4a07-a652-451bf5cab9a5", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1173, + "strid": "21c8985e-b33f-454c-a6c3-1101de9b0262", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 91.16, - 4136.424, - 1118.692, - 143.72699999999986 + 709.709, + 2181.703, + 428.177, + 167.42200000000003 ], "priority": 16, "parents": [ - 198906 + 1168 ], "children": [], - "area": 377076.41183999996, + "area": 1548374.254427, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "7. The appraisal should consist of\ntwo key elements: an assessment of\nthe actual reporting of the searches\nundertaken and a structured critical\nappraisal of the actual strategy\n(including sources)." }, { - "id": 198901, - "strid": "1df4d626-79cb-42b0-89f7-87893890f3f9", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1174, + "strid": "c3c07ac5-dfa1-4a14-8819-fd4797739789", + "image_id": 50, + "image_name": "116971.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1247.951, - 588.124, - 349.318, - 76.76700000000005 + 1197.034, + 1378.143, + 540.672, + 589.3809999999999 ], "priority": 17, "parents": [ - 198934 - ], - "children": [ - 198915, - 198933 + 1168 ], - "area": 733949.933924, + "children": [], + "area": 1649684.0278620003, "iscrowd": 0, - "segmentation": [], - "text": "Methods" + "segmentation": [] }, { - "id": 198933, - "strid": "a25cc4dc-edf4-4787-8831-760f086b2d8a", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 2, - "category_name": "Figure", + "id": 1175, + "strid": "090b8038-d664-481f-a26b-0b19615f1c68", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1355.771, - 828.617, - 644.0730000000001, - 598.953 + 1247.576, + 2061.429, + 335.80600000000004, + 194.36299999999983 ], "priority": 18, "parents": [ - 198901 - ], - "children": [ - 198912 + 1168 ], - "area": 1123414.8987069998, + "children": [], + "area": 2571789.346104, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "6. The wide range of\nlimitations identified reflects\nthe importance of the\ninformation specialists’ role\nwithin the ERG team in\nassessing the quality of the\nmanufacturers’ searches." }, { - "id": 198912, - "strid": "f8420726-2ce6-4c5e-b92c-f31f4b0dbafa", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1176, + "strid": "4c0c6716-c79f-48ee-826d-70e464e44aaf", + "image_id": 50, + "image_name": "116971.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1358.575, - 747.398, - 751.3010000000002, - 33.75999999999999 + 63.285, + 2167.367, + 290.946, + 47.791999999999916 ], "priority": 19, "parents": [ - 198933 + 1157 ], - "children": [], - "area": 1015396.23785, + "children": [ + 1188, + 1185, + 1177, + 1180, + 1187, + 1183, + 1182, + 1181, + 1178, + 1179, + 1189, + 1184, + 1186 + ], + "area": 137161.820595, "iscrowd": 0, "segmentation": [], - "text": "Figure 3: Algorithmic overview of calculated EVP values" + "text": "Checklist" }, { - "id": 198915, - "strid": "9ebef187-f693-415a-924a-11849d63f834", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1177, + "strid": "50913b6c-2ac8-4cac-ab54-92ee75118d69", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1246.933, - 1530.39, - 1122.3940000000002, - 363.9860000000001 + 56.169, + 2255.694, + 447.552, + 166.91100000000006 ], "priority": 20, "parents": [ - 198901 + 1176 ], "children": [], - "area": 1908293.7938700002, + "area": 126700.076286, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "8. A checklist based on the themes\ndeveloped from this study that\nincorporates both search strategy and\nreporting elements was created. Below\nare examples of questions from each\ntheme." }, { - "id": 198904, - "strid": "472dfecf-ea56-4414-a491-2f36354cfc08", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1178, + "strid": "94354bef-2c09-4502-9658-0f2abd078afc", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1249.834, - 1976.623, - 279.02199999999993, - 78.02300000000014 + 137.701, + 2454.711, + 218.04099999999997, + 90.62699999999995 ], "priority": 21, "parents": [ - 198934 - ], - "children": [ - 198922, - 198920 + 1176 ], - "area": 2470450.630582, + "children": [], + "area": 338016.159411, "iscrowd": 0, "segmentation": [], - "text": "CeO LS" + "text": "Reporting: Were\nstrategies as described\nin methods fully\nprovided?" }, { - "id": 198920, - "strid": "43700646-aaba-4bff-a6a5-edc73ab9a7bc", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 2, - "category_name": "Figure", + "id": 1179, + "strid": "a0e0bf64-f4a7-42fe-b158-185834716fff", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1263.537, - 2108.714, - 1092.267, - 699.6799999999998 + 137.734, + 2591.393, + 216.00299999999996, + 49.0920000000001 ], "priority": 22, "parents": [ - 198904 - ], - "children": [ - 198917 + 1176 ], - "area": 2664438.161418, + "children": [], + "area": 356922.92346200004, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Overall strategy: Was\nthe strategy clear?" }, { - "id": 198917, - "strid": "14178010-8295-4dbe-a87a-f18ded31f2d3", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1180, + "strid": "f9770201-1547-4d34-8c01-bae5755f9d72", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1280.042, - 2825.843, - 1064.9810000000002, - 234.28999999999996 + 137.734, + 2704.304, + 171.00199999999998, + 96.54700000000003 ], "priority": 23, "parents": [ - 198920 + 1176 ], "children": [], - "area": 3617197.7254059995, + "area": 372474.60713600006, "iscrowd": 0, "segmentation": [], - "text": "Figure 4: Highlighting the effects of using an iterative method of prediction\nusing results from Norden, et al.4 Panel A shows the order of sites if only the\ninitial prediction values are used. Panel B shows the order using an iterative\nmethod of repredicting the sites. Panel C highlights the changes in EVP\nvalues. Panel D shows the reported order and the iteratively predicted order\nof glycosylation." + "text": "PICO and terms:\nWere terms used\ncorrectly and\nnecessary?" }, { - "id": 198922, - "strid": "a31539bf-5c8b-456f-ae85-a086674029d1", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 2, - "category_name": "Figure", + "id": 1181, + "strid": "c51b9bd2-63eb-4464-9751-be177ea4f6a6", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1252.657, - 3101.43, - 1112.553, - 969.143 + 428.192, + 2452.3, + 223.36699999999996, + 72.0010000000002 ], "priority": 24, "parents": [ - 198904 - ], - "children": [ - 198923 + 1176 ], - "area": 3885027.9995099995, + "children": [], + "area": 1050055.2416, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Free-text terms: Were\nthere free-text terms\nmissing?" }, { - "id": 198923, - "strid": "82cfe929-2ec7-4f34-8fd0-1712fb587eb3", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1182, + "strid": "ccbd4267-df89-4dce-9a49-ce195bd99c75", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1272.997, - 4077.695, - 1080.041, - 273.25599999999986 + 426.556, + 2576.666, + 238.094, + 95.72899999999981 ], "priority": 25, "parents": [ - 198922 + 1176 ], "children": [], - "area": 5190893.501915, + "area": 1099092.342296, "iscrowd": 0, "segmentation": [], - "text": "Figure 5: Runtime comparisons of different methods. Panel A shows time\nrequired to process individual sequences using ISOGlyP (v1.4). Panel B shows\nthe time required to process individual sequences using the iterative ISOGlyP.\nPanel C and D are a zoom in of the majority of sequences in panels A and B\nrespectively. Panel E wall clock time to process 8 fasta files using python’s\nmultiprocessing module implemented in the iterative method. Panel F is the\nsystem time used to process the same files." + "text": "Subject headings: Were\nany subject\nheadings/thesauri\nmissing?" }, { - "id": 198902, - "strid": "3f028c2a-0786-482a-a330-755bf2039359", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1183, + "strid": "0dd2a84b-6c6c-44fa-b808-2d14242a77a8", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2402.55, - 583.357, - 744.7309999999998, - 99.94600000000003 + 431.465, + 2723.122, + 216.82099999999997, + 47.45499999999993 ], "priority": 26, "parents": [ - 198934 - ], - "children": [ - 198910 + 1176 ], - "area": 1401544.36035, + "children": [], + "area": 1174931.8337299998, "iscrowd": 0, "segmentation": [], - "text": "Results (continued)" + "text": "Syntax: Was the\nsyntax used correctly?" }, { - "id": 198910, - "strid": "56601f7c-7aa3-4b48-a963-dabdf4764fce", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 7, - "category_name": "Table", + "id": 1184, + "strid": "fa52b291-4a21-4bf0-9c40-7a99fa19ccf0", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2433.906, - 724.011, - 1055.855, - 574.085 + 730.106, + 2454.755, + 176.73000000000002, + 72.0010000000002 ], "priority": 27, "parents": [ - 198902 - ], - "children": [ - 198911 + 1176 ], - "area": 1762174.716966, + "children": [], + "area": 1792231.35403, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Structure: Were\nBoolean operators\nused correctly?" }, { - "id": 198911, - "strid": "40a04019-890a-4e5a-8476-c9ce1e599d1c", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 6, - "category_name": "Caption", + "id": 1185, + "strid": "8053f6f8-5b18-49fc-963e-8abcbda0481e", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2452.623, - 1329.635, - 1028.52, - 74.11300000000006 + 730.106, + 2582.393, + 212.73000000000002, + 67.90999999999985 ], "priority": 28, "parents": [ - 198910 + 1176 ], "children": [], - "area": 3261093.382605, + "area": 1885420.623658, "iscrowd": 0, "segmentation": [], - "text": "Table 2: Compiled evaluation scores of selected isoforms HepG2/HEK293\nwith a cutoff value of 2.0 for ISOGlyP" + "text": "Source: Were sources\nmissing in the\nmethods?" }, { - "id": 198903, - "strid": "e6114571-e23c-455b-8af3-2168df2f6189", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1186, + "strid": "d43d5917-6ad6-4419-92c4-36c16b57c069", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2406.449, - 1508.12, - 401.00099999999975, - 75.60400000000004 + 724.379, + 2708.395, + 189.00300000000004, + 69.54599999999982 ], "priority": 29, "parents": [ - 198934 - ], - "children": [ - 198927 + 1176 ], - "area": 3629213.86588, + "children": [], + "area": 1961904.4617050001, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Limits: Were limits\napplied appropriate\nand justified?" }, { - "id": 198927, - "strid": "995fc40b-4098-4b41-b027-06e27725b669", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1187, + "strid": "ef952ddc-0db5-4614-a62c-6dcc2f1b2fe0", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2413.601, - 1659.159, - 1119.426, - 1217.8719999999998 + 1027.564, + 2459.091, + 207.6579999999999, + 64.96000000000004 ], "priority": 30, "parents": [ - 198903 + 1176 ], "children": [], - "area": 4004547.8215590003, + "area": 2526873.384324, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Filters: Was the filter\napplied appropriate\nand sensitive?" }, { - "id": 198905, - "strid": "6d228bb5-2d66-4c38-bbd7-e659acc2de3a", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", + "id": 1188, + "strid": "bf4f7db5-2f4c-4454-8798-718be1f934e5", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2404.553, - 2989.11, - 666.7510000000002, - 77.654 + 1021.175, + 2591.495, + 191.32899999999995, + 64.25 ], "priority": 31, "parents": [ - 198934 - ], - "children": [ - 198930 + 1176 ], - "area": 7187473.41783, + "children": [], + "area": 2646369.906625, "iscrowd": 0, "segmentation": [], - "text": "Future Directions" + "text": "Translation: Was\ntranslation between\ndatabases correct?" }, { - "id": 198930, - "strid": "b8ba58f5-7162-4ad1-9fc2-fde445525b7c", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1189, + "strid": "4dcf74e9-f259-4491-9915-e54ab17e2319", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2406.055, - 3118.645, - 1121.8780000000002, - 358.36500000000024 + 1014.785, + 2704.73, + 218.3069999999999, + 66.02500000000009 ], "priority": 32, "parents": [ - 198905 + 1176 ], "children": [], - "area": 7503631.395474999, + "area": 2744719.43305, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Missing studies: Were\nany missing studies\nfound?" }, { - "id": 198908, - "strid": "1a0e891b-4b38-4182-a251-58b860316dd3", - "image_id": 208288, - "image_name": "9847.png", + "id": 1190, + "strid": "3cc19bf5-1d53-4191-9744-19bb6f58b207", + "image_id": 50, + "image_name": "116971.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2413.258, - 4146.863, - 647.0610000000001, - 82.57800000000043 + 1313.595, + 2355.445, + 292.31999999999994, + 294.45899999999983 ], "priority": 33, "parents": [ - 198934 + 1157 ], "children": [ - 198929 + 1192, + 1191 ], - "area": 10007450.309654, + "area": 3094100.7747750003, "iscrowd": 0, "segmentation": [], - "text": "Acknowledgments" + "text": "&\nWS 9. Man\n\nagencies, i:\nenecialicts" }, { - "id": 198929, - "strid": "9ce03d7e-a65f-4d88-8c92-85e881224f49", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1191, + "strid": "ec089b9a-3133-46d2-97b8-7e5da4434759", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2445.621, - 4257.743, - 929.5900000000001, - 96.10800000000017 + 1434.708, + 2576.153, + 301.952, + 255.19799999999987 ], "priority": 34, "parents": [ - 198908 + 1190 ], "children": [], - "area": 10412825.693403002, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 198907, - "strid": "c0461186-0290-48ad-8e21-593aa398880b", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2415.188, - 3521.485, - 388.0100000000002, - 69.39300000000003 - ], - "priority": 35, - "parents": [ - 198934 - ], - "children": [ - 198928 - ], - "area": 8505048.31418, + "area": 3696027.318324, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "9. Manufacturers,\nagencies, information\nspecialists involved in\nHTAs will be aware of\n\npotential limitations\nrelating to the search\nmethodology - this would\nimprove the efficiency of\nthe STA process." }, { - "id": 198928, - "strid": "aad91f16-9f75-4d1e-891d-a6b6d9763e11", - "image_id": 208288, - "image_name": "9847.png", - "category_id": 4, - "category_name": "List", + "id": 1192, + "strid": "00d0fa85-ee47-4f1f-91ca-75dba9f85833", + "image_id": 50, + "image_name": "116971.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2405.605, - 3644.088, - 1121.71, - 450.047 + 1184.38, + 2845.962, + 547.4099999999999, + 85.7159999999999 ], - "priority": 36, + "priority": 35, "parents": [ - 198907 + 1190 ], "children": [], - "area": 8766236.313240001, + "area": 3370700.4735600003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "10, This study provides a checklist for HTA\npractice in the UK and other countries such as\nFrance, Australia and Canada." }, { - "id": 188740, - "strid": "75e1c7c2-de14-4d4c-9c2f-f478f899419b", - "image_id": 207863, - "image_name": "8966.png", + "id": 1193, + "strid": "ace50a53-bdc2-4ce7-a52c-59b57ca81bd3", + "image_id": 51, + "image_name": "117011.png", "category_id": 9, "category_name": "Root", "bbox": [ - 50.65, - 74.04, - -50.65, - -74.04 + 483.84, + 29.32, + 410.26000000000005, + 170.11 ], "priority": -1, "parents": [], "children": [ - 188712, - 188715, - 188714, - 188716, - 188711, - 188713 + 1196, + 1228, + 1222, + 1205, + 1209, + 1230, + 1195, + 1194, + 1226, + 1201, + 1215 ], - "area": 3750.126, + "area": 14186.1888, "iscrowd": 0, "segmentation": [] }, { - "id": 188711, - "strid": "d9426a2b-b8a8-49ee-a33f-aa455d2ae3bf", - "image_id": 207863, - "image_name": "8966.png", + "id": 1194, + "strid": "e618a3aa-a9d5-4be0-9236-a7543cea53e8", + "image_id": 51, + "image_name": "117011.png", "category_id": 1, "category_name": "Title", "bbox": [ - 633.027, - 110.523, - 2880.432, - 241.31300000000002 + 1066.369, + 65.927, + 2466.308, + 65.01299999999999 ], "priority": 1, "parents": [ - 188740 + 1193 ], "children": [], - "area": 69964.043121, + "area": 70302.509063, "iscrowd": 0, "segmentation": [], - "text": "Attenuated Resting-State Functional Connectivity in Patients with\nChildhood- and Adult-Onset Schizophrenia, Not in Their Siblings" + "text": "Efficacy of Clevidipine in Controlling Perioperative Hypertension in Neurosurgical Patients" }, { - "id": 188712, - "strid": "c03d3c1d-e8ac-496b-8562-cc8bb72455fe", - "image_id": 207863, - "image_name": "8966.png", + "id": 1195, + "strid": "8056b87f-495d-438f-9b05-ba5223440f95", + "image_id": 51, + "image_name": "117011.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 282.982, - 387.457, - 3587.897, - 199.61900000000003 + 839.424, + 266.935, + 2921.547, + 116.51299999999998 ], "priority": 2, "parents": [ - 188740 + 1193 ], "children": [], - "area": 109643.35677400001, + "area": 224071.64544, "iscrowd": 0, "segmentation": [], - "text": "alth Rebecca E. Watsky!, Stephen J. Gotts?, Rebecca A. Berman?, Harrison M. McAdams?, Xueping Zhou!, Dede Greenstein?, Francois Lalonde?, — supp.\nPeter Gochman|, Liv S. Clasen?, Lorie Shora?, Anna E. Orddfiez!, Nitin Gogtay?, Deanna M. Barch?, Judith L. Rapoport?, Siyuan Liut NI\n1Child Psychiatry Branch and *Laboratory of Brain and Cognition, National Institute of Mental Health, NIH; Departments of Psychology, Psychiatry and Radiology, Washington University, St. Louis, MO" + "text": "Sorosch Didehvar MD, Sunmi Kim MD, Beatriz Nistal-Nuno MD, Alice Chu MD, Hyelin Kim, Michael Haile MD, Alex Bekker MD, PhD\nDepartment of Anesthesiology, New York University Medical Center, New York, NY, United States" }, { - "id": 188713, - "strid": "272fda1d-c1c5-44d7-8366-c8b56a965d43", - "image_id": 207863, - "image_name": "8966.png", + "id": 1196, + "strid": "1ea9098a-c96d-4729-9a5c-5ba914cc4c8f", + "image_id": 51, + "image_name": "117011.png", "category_id": 5, "category_name": "Section", "bbox": [ - 74.427, - 653.156, - 535.293, - 79.07799999999997 + 413.218, + 471.188, + 144.52000000000004, + 33.30500000000001 ], "priority": 3, "parents": [ - 188740 + 1193 ], "children": [ - 188717 + 1200, + 1197, + 1198, + 1199 ], - "area": 48612.441612, + "area": 194703.362984, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Abstract" }, { - "id": 188717, - "strid": "6d37ce10-cc64-40bb-a3b7-40190e80a0de", - "image_id": 207863, - "image_name": "8966.png", + "id": 1197, + "strid": "bc863158-b346-46a7-9537-32f3768fc23e", + "image_id": 51, + "image_name": "117011.png", "category_id": 3, "category_name": "Text", "bbox": [ - 65.738, - 776.538, - 882.8199999999999, - 687.942 + 100.832, + 556.425, + 767.319, + 332.813 ], "priority": 4, "parents": [ - 188713 + 1196 ], "children": [], - "area": 51048.055044, + "area": 56105.44559999999, "iscrowd": 0, "segmentation": [], - "text": "Childhood-onset schizophrenia (COS) is a\nrare, severe form of the adult-onset\ndisorder (AOS). Our previous resting-\nstate fMRI study (Berman et al., 2016)\nidentified attenuated functional\nconnectivity in COS compared with\ncontrols, in regions that grouped into\ntwo large-scale functional networks.\nHere, we ask whether COS and AOS\npatients and their siblings exhibit similar\nabnormalities of functional connectivity." + "text": "Background:\n\nAcute blood pressure (BP) elevations in neurosurgical patients\nare associated with serious neurologic, cardiovascular, or\nsurgical site complications. Clevidipine, an ultra-short-acting\ndihydropyridine calcium antagonist, has been shown to be\nefficacious and safe for acute hypertension in cardiac surgery.\nThis study assessed the efficacy and safety of clevidipine in\ncontrolling perioperative hypertension in the neurosurgical\nsetting." }, { - "id": 188716, - "strid": "e5e21e16-ac40-41bd-b7f0-bb773d759fbe", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 5, - "category_name": "Section", + "id": 1198, + "strid": "63f40f37-0512-4e63-b0cf-f0193cef5fb0", + "image_id": 51, + "image_name": "117011.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 74.368, - 1501.956, - 386.292, - 79.73299999999995 + 97.429, + 927.751, + 781.589, + 443.4269999999999 ], "priority": 5, "parents": [ - 188740 + 1196 ], - "children": [ - 188728, - 188718, - 188730, - 188725, - 188738, - 188729, - 188731, - 188721 - ], - "area": 111697.46380799999, + "children": [], + "area": 90389.852179, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Methods:\n\nThis study was a prospective, open-label, observational trial.\nIRB approval was obtained and patients scheduled for\nintracranial surgery were prospectively enrolled after giving\nconsent. Clevidipine (0.5 mg/ml in 20% lipid solution, which\nwas to be initiated at 10 mg/h and titrated to effect) was\nadministered as the primary antihypertensive agent for\nperioperative hypertension, with target BPs of <130 mmHg.\nOther vasoactive drugs were administered as needed for\ntreating systolic BP (SBP) <90 mmHg or >130 mmHg. The\nprimary end point was the proportion of patients not requiring\nrescue antihypertensive to maintain target SBP (<130 mmHg)." }, { - "id": 188718, - "strid": "e6a700f7-c8cc-4cf9-b774-3ae0430fb20f", - "image_id": 207863, - "image_name": "8966.png", + "id": 1199, + "strid": "de754eb5-9f56-4925-a901-b916980840f6", + "image_id": 51, + "image_name": "117011.png", "category_id": 3, "category_name": "Text", "bbox": [ - 67.909, - 1633.469, - 862.972, - 187.68100000000004 + 101.641, + 1410.193, + 768.874, + 436.25400000000013 ], "priority": 6, "parents": [ - 188716 + 1196 ], "children": [], - "area": 110927.24632100001, + "area": 143333.426713, "iscrowd": 0, "segmentation": [], - "text": "Participants\n\nSubjects were group matched for age, sex, and\nhandedness. (All comparisons p>.09)" + "text": "Results:\n\nTwenty-two patients were enrolled. One patient did not\nrequire antihypertensive therapy. Seventeen patients (17 of\n21, 81%) were treated with clevidipine alone; one received\nclevidipine in the postanesthesia care unit only. Twenty-eight\nhypertensive episodes (defined as any new acute BP elevation\nrequiring clevidipine initiation) were documented. SBP was\nreduced to target level within 15 minutes in 22 of 28 episodes\n(78.6%). Two mild hypotensive episodes occurred after the\ninitiation of clevidipine infusion; these transient decreases in\nBP were treated with vasoactive drugs and resolved within 5\nminutes." }, { - "id": 188721, - "strid": "3a5b7662-bbf3-448f-b091-fe9441821391", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 7, - "category_name": "Table", + "id": 1200, + "strid": "f6d2e853-fb8c-4e07-b92e-58dc54ff4a3a", + "image_id": 51, + "image_name": "117011.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 49.128, - 1851.503, - 911.011, - 357.5640000000001 + 99.697, + 1890.162, + 775.761, + 187.19299999999998 ], "priority": 7, "parents": [ - 188716 + 1196 ], "children": [], - "area": 90960.639384, + "area": 188443.480914, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusions:\n\nClevidipine is effective and safe for perioperative hypertension\nin patients undergoing intracranial procedures. Rapid control\nof BP is possible with higher starting doses. Drug effects\nresolved rapidly after drug discontinuation." }, { - "id": 188728, - "strid": "7ed4070d-1e6a-4ed0-98f3-b3d0a16fc2b7", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1201, + "strid": "14320a35-cfe8-4c77-84f7-dd1628972045", + "image_id": 51, + "image_name": "117011.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 68.381, - 2255.926, - 820.074, - 395.5 + 1267.653, + 471.441, + 202.952, + 39.00600000000003 ], "priority": 8, "parents": [ - 188716 + 1193 ], - "children": [], - "area": 154262.475806, + "children": [ + 1203, + 1204, + 1202 + ], + "area": 597623.597973, "iscrowd": 0, "segmentation": [], - "text": "Imaging\n\nAcquisition:\n\nCOS: 3T GE at the NIH NMR Research Facility.\nResting state — Five-minute scan, eyes open,\ncentral fixation.\n\nAOS: 3T Siemens at Washington University.\nResting state — 13.7 minutes, eyes closed." + "text": "Background" }, { - "id": 188729, - "strid": "da797087-50c8-405d-8166-2db30bead936", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1202, + "strid": "9cef9da4-0ae8-406c-9af5-c281b94c44c1", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 67.584, - 2710.093, - 792.375, - 420.01900000000023 + 986.249, + 555.065, + 748.6879999999999, + 289.337 ], "priority": 9, "parents": [ - 188716 + 1201 ], "children": [], - "area": 183158.925312, + "area": 547432.3011850001, "iscrowd": 0, - "segmentation": [], - "text": "Preprocessing/Analysis:\n\nAFNI ANATICOR approach. Cardiac and\nrespiratory cycles removed for COS (not\ncollected in AOS data). Cleaned, smoothed\nresidual time series spatially normalized to\nTalairach and Tournoux anatomic template.\nData quality of the two data sets was\ncomparable." + "segmentation": [] }, { - "id": 188738, - "strid": "01c64786-9dbe-4875-abd4-d66bf13e5a62", - "image_id": 207863, - "image_name": "8966.png", + "id": 1203, + "strid": "533a4b09-5c23-4ca5-a198-7ba514d81925", + "image_id": 51, + "image_name": "117011.png", "category_id": 4, "category_name": "List", "bbox": [ - 65.168, - 3190.613, - 859.003, - 579.2220000000002 + 986.407, + 875.682, + 742.679, + 218.79999999999995 ], "priority": 10, "parents": [ - 188716 + 1201 ], "children": [], - "area": 207925.867984, + "area": 863778.854574, "iscrowd": 0, "segmentation": [] }, { - "id": 188725, - "strid": "db8d1f19-ddcc-4035-aea8-0c46e993e473", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 2, - "category_name": "Figure", + "id": 1204, + "strid": "056ac008-1cfb-4b32-b00c-e1c08c50aa77", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 700.107, - 3168.903, - 189.659, - 224.88099999999986 + 985.829, + 1124.705, + 769.7439999999999, + 172.21000000000004 ], "priority": 11, "parents": [ - 188716 + 1201 ], "children": [], - "area": 2218571.1726209996, + "area": 1108766.8054449998, "iscrowd": 0, "segmentation": [] }, { - "id": 188730, - "strid": "b52bfb37-83ea-4b4c-94c8-fe6906f462ed", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1205, + "strid": "e9cf1be4-c4db-4b26-b577-89de1a1fea3f", + "image_id": 51, + "image_name": "117011.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 67.584, - 3833.122, - 825.143, - 150.4319999999998 + 1275.531, + 1406.172, + 187.6479999999999, + 30.266000000000076 ], "priority": 12, "parents": [ - 188716 + 1193 ], - "children": [], - "area": 259057.717248, + "children": [ + 1206, + 1207, + 1208 + ], + "area": 1793615.977332, "iscrowd": 0, "segmentation": [], - "text": "Clustering: K-means clustering of ROls into 2\nclusters, determined by Silhouette values and\nelbow plots." + "text": "Methods-1" }, { - "id": 188731, - "strid": "b072eb4d-9440-4bc3-8ebd-753481e868a6", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1206, + "strid": "e189748d-c706-4e55-a320-0ec36f15f45c", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 101.841, - 4040.152, - 768.544, - 98.30199999999968 + 978.837, + 1487.709, + 716.3910000000001, + 102.51299999999992 ], "priority": 13, "parents": [ - 188716 + 1205 ], "children": [], - "area": 411453.119832, + "area": 1456224.614433, "iscrowd": 0, - "segmentation": [], - "text": "No authors have conflicts of interest in\nrelation to this work." + "segmentation": [] }, { - "id": 188714, - "strid": "877f1733-2e4d-40e7-8d66-a2ad62106306", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 5, - "category_name": "Section", + "id": 1207, + "strid": "cdce6af3-8eda-47ec-b452-f62e34ef92ef", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1044.231, - 653.372, - 305.317, - 79.50999999999999 + 979.032, + 1614.806, + 632.965, + 179.63300000000004 ], "priority": 14, "parents": [ - 188740 - ], - "children": [ - 188723, - 188722, - 188737, - 188735, - 188719, - 188734 + 1205 ], - "area": 682271.296932, + "children": [], + "area": 1580946.7477920002, "iscrowd": 0, - "segmentation": [], - "text": "Results" + "segmentation": [] }, { - "id": 188737, - "strid": "e0f51281-bcdb-4e1c-b17e-538a16f0f4ab", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1208, + "strid": "655bac9b-e87e-4aee-aeab-9c53f6669a4f", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1116.42, - 772.687, - 1474.2399999999998, - 168.08399999999995 + 980.167, + 1817.104, + 789.5500000000001, + 255.44299999999998 ], "priority": 15, "parents": [ - 188714 + 1205 ], "children": [], - "area": 862643.2205400001, + "area": 1781065.3763680002, "iscrowd": 0, - "segmentation": [], - "text": "We identified regions of decreased connectivity in COS and AOS patients\ncompared to their respective controls. Spatial coverage was greater in COS\n(181.0 cm? > 69.6 cm3)." + "segmentation": [] }, { - "id": 188722, - "strid": "65591cbf-5299-483d-b9d6-c58453534f19", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 2, - "category_name": "Figure", + "id": 1209, + "strid": "2602a311-ce04-49c6-b193-579c407a300b", + "image_id": 51, + "image_name": "117011.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1062.574, - 947.318, - 1425.194, - 755.4559999999999 + 2167.669, + 472.075, + 189.49699999999984, + 31.583000000000027 ], "priority": 16, "parents": [ - 188714 + 1193 ], - "children": [], - "area": 1006595.476532, + "children": [ + 1210, + 1211, + 1213, + 1212 + ], + "area": 1023302.3431749999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 188735, - "strid": "8117430a-7834-490f-8168-e2e8c1754f08", - "image_id": 207863, - "image_name": "8966.png", + "id": 1210, + "strid": "ba382438-bec5-48d0-bc55-8d9f2c347186", + "image_id": 51, + "image_name": "117011.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1123.838, - 1750.691, - 1367.2480000000003, - 225.17000000000007 + 1860.68, + 555.691, + 737.51, + 100.15200000000004 ], "priority": 17, "parents": [ - 188714 + 1209 ], "children": [], - "area": 1967493.072058, + "area": 1033963.1298800001, "iscrowd": 0, "segmentation": [], - "text": "We used the regions with reduced connectedness in patients (above)\nas seeds to find regions driving connectedness differences. These\n“seed” plus “non-seed” ROls clustered into two networks: social-\n\ncognitive (red) and motor-sensory (green)." + "text": "Primary Study Endpoint\n\nProportion of patients not requiring additional antihypertensives besides\nclevidipine for BP control (SBP <130 mm Hg)" }, { - "id": 188723, - "strid": "027ba805-d4d9-4884-9069-22bf197c2eff", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 2, - "category_name": "Figure", + "id": 1211, + "strid": "0a134c92-a6e3-4e9b-aa65-c7fbff5c35a3", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1109.365, - 1994.879, - 1299.0309999999997, - 741.998 + 1857.74, + 696.337, + 624.3120000000001, + 154.39200000000005 ], "priority": 18, "parents": [ - 188714 - ], - "children": [ - 188726, - 188727 + 1209 ], - "area": 2213048.9418349997, + "children": [], + "area": 1293613.09838, "iscrowd": 0, "segmentation": [] }, { - "id": 188726, - "strid": "2ea01b17-3988-41f7-be68-e0fe73eeee75", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 6, - "category_name": "Caption", + "id": 1212, + "strid": "8dd2ff9b-4e69-40f7-95a7-1c11b49820cd", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1179.121, - 2752.645, - 506.5329999999999, - 47.034999999999854 + 1861.538, + 890.611, + 791.5140000000001, + 881.6620000000001 ], "priority": 19, "parents": [ - 188723 + 1209 ], "children": [], - "area": 3245701.525045, + "area": 1657906.219718, "iscrowd": 0, - "segmentation": [], - "text": "Cluster 1: social-cognitive" + "segmentation": [] }, { - "id": 188727, - "strid": "02d361d4-8018-4bc1-b173-659d0547ab79", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 6, - "category_name": "Caption", + "id": 1213, + "strid": "a1876400-8c5b-49b0-9a71-ae4aaf6d8baf", + "image_id": 51, + "image_name": "117011.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1841.233, - 2751.439, - 492.0609999999999, - 48.240999999999985 + 1863.221, + 1871.867, + 759.6109999999999, + 199.03799999999978 ], "priority": 20, "parents": [ - 188723 + 1209 ], - "children": [], - "area": 5066040.284286999, + "children": [ + 1214 + ], + "area": 3487701.903607, "iscrowd": 0, - "segmentation": [], - "text": "Cluster 2: motor-sensory" + "segmentation": [] }, { - "id": 188734, - "strid": "28c160c2-e372-40f6-a379-c5a55191a3b5", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1214, + "strid": "6fdd655d-6042-43dc-b196-5cbecaf37c7a", + "image_id": 51, + "image_name": "117011.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1141.486, - 2843.626, - 1275.6609999999998, - 46.0949999999998 + 1861.558, + 1828.312, + 263.7080000000001, + 23.126999999999953 ], "priority": 21, "parents": [ - 188714 + 1213 ], "children": [], - "area": 3245959.2682360006, + "area": 3403508.830096, "iscrowd": 0, "segmentation": [], - "text": "We found a total of 23 ROIs in COS and 18 in AOS, in 2 networks." + "text": "Figure 1. Study Schematic" }, { - "id": 188719, - "strid": "6c0fa99d-2495-4531-bedd-f473a25f6c10", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 7, - "category_name": "Table", + "id": 1215, + "strid": "7d5cbaca-93c8-4806-9d07-d5cd1525c791", + "image_id": 51, + "image_name": "117011.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1113.83, - 2905.854, - 1437.551, - 1250.1439999999998 + 3130.68, + 471.56, + 123.03600000000006, + 32.750999999999976 ], "priority": 22, "parents": [ - 188714 + 1193 ], - "children": [], - "area": 3236627.3608199996, + "children": [ + 1217, + 1221, + 1216, + 1219, + 1218 + ], + "area": 1476303.4608, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results" }, { - "id": 188715, - "strid": "fafb079a-a814-408a-9740-299fce98a2fc", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 5, - "category_name": "Section", + "id": 1216, + "strid": "a5e149a9-062e-414c-b5e9-e2392ada0eb6", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2760.49, - 650.665, - 468.5050000000001, - 81.47900000000004 + 2780.66, + 581.812, + 788.7280000000001, + 162.481 ], "priority": 23, "parents": [ - 188740 - ], - "children": [ - 188739, - 188733, - 188732, - 188736, - 188720, - 188724 + 1215 ], - "area": 1796154.2258499998, + "children": [], + "area": 1617821.35592, "iscrowd": 0, - "segmentation": [], - "text": "Conclusion" + "segmentation": [] }, { - "id": 188739, - "strid": "d6cb320b-7b32-4bba-87b9-5c2d49d245b1", - "image_id": 207863, - "image_name": "8966.png", + "id": 1217, + "strid": "f1926c06-4aa7-4c4f-956a-afa3e9243628", + "image_id": 51, + "image_name": "117011.png", "category_id": 4, "category_name": "List", "bbox": [ - 2701.184, - 781.161, - 1438.13, - 688.4330000000001 + 2785.042, + 766.39, + 838.3470000000002, + 378.831 ], "priority": 24, "parents": [ - 188715 + 1215 ], "children": [], - "area": 2110059.594624, + "area": 2134428.33838, "iscrowd": 0, "segmentation": [] }, { - "id": 188736, - "strid": "6cfb2874-868e-4dd0-bbe3-52f58a421ae3", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1218, + "strid": "89052b8a-a153-411c-85ab-040db520a391", + "image_id": 51, + "image_name": "117011.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2720.52, - 1573.016, - 1374.348, - 160.32400000000007 + 2783.013, + 1164.919, + 809.1930000000002, + 363.87799999999993 ], "priority": 25, "parents": [ - 188715 + 1215 ], "children": [], - "area": 4279421.4883200005, + "area": 3241984.720947, "iscrowd": 0, - "segmentation": [], - "text": "Region-by-region correlations highlight decreased across-network\ncorrelations in COS and AOS. The reductions were more extreme, and\neven negative, for COS." + "segmentation": [] }, { - "id": 188724, - "strid": "df79cbc4-f00c-4dd3-9c30-9105c943c47f", - "image_id": 207863, - "image_name": "8966.png", + "id": 1219, + "strid": "01269e86-5596-46e9-bf6e-646ccec0c183", + "image_id": 51, + "image_name": "117011.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2529.631, - 1736.393, - 1651.0350000000003, - 1115.614 + 2884.297, + 1659.455, + 560.127, + 354.68100000000004 ], "priority": 26, "parents": [ - 188715 + 1215 ], - "children": [], - "area": 4392433.560982999, + "children": [ + 1220 + ], + "area": 4786361.078135, "iscrowd": 0, "segmentation": [] }, { - "id": 188733, - "strid": "5ec5079f-07b5-424a-8848-8ccfb0bf58ed", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1220, + "strid": "caba6264-a384-4aea-aff9-4a6a30c36cba", + "image_id": 51, + "image_name": "117011.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2469.455, - 2872.259, - 1705.9079999999994, - 84.82400000000007 + 2783.974, + 1619.542, + 646.3159999999998, + 23.060999999999922 ], "priority": 27, "parents": [ - 188715 + 1219 ], "children": [], - "area": 7092914.348844999, + "area": 4508762.819908, "iscrowd": 0, "segmentation": [], - "text": "Correlation matrices show the r value for each ROI-ROI pair. Row/column order of ROIs in the matrices is\nidentical to those provided in the tables (below), from bottom to top row and leftmost to rightmost column." + "text": "Figure 3: SBP changes and clevidipine infusion rates in the PACU" }, { - "id": 188720, - "strid": "d9a6b20d-1a4a-4e0e-84e8-b404a030839f", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 7, - "category_name": "Table", + "id": 1221, + "strid": "7f7a7dcd-5f8d-4c6a-8236-57248610f85e", + "image_id": 51, + "image_name": "117011.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2725.414, - 3006.216, - 1403.417, - 1031.743 + 2784.847, + 2033.015, + 827.0230000000001, + 81.60400000000004 ], "priority": 28, "parents": [ - 188715 + 1215 ], "children": [], - "area": 8193183.173424, + "area": 5661635.723705, "iscrowd": 0, "segmentation": [] }, { - "id": 188732, - "strid": "15ef3c64-f4e5-4fc4-86df-07f3f1572cb4", - "image_id": 207863, - "image_name": "8966.png", - "category_id": 3, - "category_name": "Text", + "id": 1222, + "strid": "c7234fb6-cff1-451c-9d7d-c523f29b9b85", + "image_id": 51, + "image_name": "117011.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2725.676, - 4049.178, - 1441.7130000000002, - 118.6319999999996 + 4030.561, + 472.094, + 157.7220000000002, + 31.24000000000001 ], "priority": 29, "parents": [ - 188715 + 1193 ], - "children": [], - "area": 11036747.294327999, + "children": [ + 1225, + 1223, + 1224 + ], + "area": 1902803.664734, "iscrowd": 0, "segmentation": [], - "text": "x,y,z = Talairach coordinates of the peak difference (for seeds) or center of mass (for non-seeds).\nSeeds, in bold, corrected at p<0.0005. Large-scale network membership denoted by color (red/green).\nA1/A2: primary/secondary auditory cortex." + "text": "Results-2" }, { - "id": 75019, - "strid": "fe76ff83-f6c6-41ed-bbba-11275a75b980", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 9, - "category_name": "Root", + "id": 1223, + "strid": "2f3e103d-fd9d-407b-ab00-9514432b15d2", + "image_id": 51, + "image_name": "117011.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 72.85, - 57.57, - 243.94000000000003, - 258.72 + 3713.615, + 559.401, + 771.8950000000004, + 85.481 ], - "priority": -1, - "parents": [], - "children": [ - 75003, - 75012, - 75005, - 75010, - 75008, - 75018, - 75004, - 75017 + "priority": 30, + "parents": [ + 1222 ], - "area": 4193.974499999999, + "children": [], + "area": 2077399.9446149997, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "22 episodes of transient hypotension (® or\nlesioning’? the cerebellum strongly support the functional\nrelevance of these connections.\n\nAlthough resultsfrom functional imaging studies of healthy\nparticipants ands studies of patients with basal ganglia\npathology are consistent with this account’, direct evidence\nfrom humans is still relatively scarce. In particular, therevis a\nlackmof/ human studies examining effects of cerebellar\npathology on basal ganglia structure and function.\n\nThe aim of the present study was to investigate basal ganglia\nvolumes (as well as the intermediate thalamus and\nbrainstem) in patients with focal cerebellaresions using\ncomprehensive MRI-based morphometric analyses." + "segmentation": [] }, { - "id": 75008, - "strid": "67c8a9e6-de73-448f-a127-a3c74ed7c8d6", - "image_id": 203426, - "image_name": "120207.png", + "id": 1228, + "strid": "b38a2de1-6117-43f2-9be3-6c29f733b2fd", + "image_id": 51, + "image_name": "117011.png", "category_id": 5, "category_name": "Section", "bbox": [ - 135.842, - 2457.587, - 441.312, - 81.94399999999996 + 4016.308, + 1420.804, + 191.02000000000044, + 34.81600000000003 ], - "priority": 5, + "priority": 35, "parents": [ - 75019 + 1193 ], "children": [ - 75007, - 75009 + 1229 ], - "area": 333843.533254, + "area": 5706386.471632, "iscrowd": 0, "segmentation": [], - "text": "Participants:" + "text": "aR aass" }, { - "id": 75007, - "strid": "9ed3bc66-49a9-4469-8908-7386457ed554", - "image_id": 203426, - "image_name": "120207.png", + "id": 1229, + "strid": "69121431-3b77-412b-97a8-25a53c9e1d2e", + "image_id": 51, + "image_name": "117011.png", "category_id": 4, "category_name": "List", "bbox": [ - 124.395, - 2560.201, - 1285.664, - 514.672 - ], - "priority": 6, - "parents": [ - 75008 - ], - "children": [], - "area": 318476.203395, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 75009, - "strid": "22402c84-35df-4731-b041-b344deedbef5", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 117.018, - 3149.74, - 1287.355, - 388.616 + 3705.921, + 1499.157, + 804.761, + 199.89200000000005 ], - "priority": 7, + "priority": 36, "parents": [ - 75008 + 1228 ], "children": [], - "area": 368576.27531999996, + "area": 5555757.408596999, "iscrowd": 0, "segmentation": [] }, { - "id": 75010, - "strid": "70f5f024-a5ba-4db9-88ad-ffc5c998e6ea", - "image_id": 203426, - "image_name": "120207.png", + "id": 1230, + "strid": "044675d5-0ed0-491e-8667-c9086aa66d61", + "image_id": 51, + "image_name": "117011.png", "category_id": 5, "category_name": "Section", "bbox": [ - 129.161, - 3680.772, - 783.557, - 75.92599999999993 + 4013.407, + 1820.771, + 193.40999999999985, + 32.64799999999991 ], - "priority": 8, + "priority": 37, "parents": [ - 75019 + 1193 ], "children": [ - 75011 + 1231 ], - "area": 475412.192292, + "area": 7307495.076797, "iscrowd": 0, "segmentation": [], - "text": "Morphometrvin brief:" + "text": "Disclosures" }, { - "id": 75011, - "strid": "f8e97c7e-abda-4457-adc0-2dd86325e0dc", - "image_id": 203426, - "image_name": "120207.png", + "id": 1231, + "strid": "d6147bc5-0786-4a32-8850-ec36281b1681", + "image_id": 51, + "image_name": "117011.png", "category_id": 3, "category_name": "Text", "bbox": [ - 123.701, - 3801.044, - 1303.369, - 378.8860000000004 + 3704.253, + 1901.918, + 799.5809999999997, + 191.07899999999995 ], - "priority": 9, + "priority": 38, "parents": [ - 75010 + 1230 ], "children": [], - "area": 470192.94384399994, + "area": 7045185.457254, "iscrowd": 0, "segmentation": [], - "text": "T1-weighted MRI-scans were segmented using FreeSurfer 5.3\n(http://surfersamr.mgh.harvard.edu/) and FIRST 5.0 (FSL\ntoolbox, FMRIB, Oxford, UK).\n\nSegmentations of the nucleus accumbens were not included\n\nin the volumetric analyses, as a previous study found (these to\nbeunreliable®." + "text": "Study funding provided by The Medicines Company, Parsippany, NJ. Poster\nlayout and printing support was provided by The Medicines Company, from\nposter content and wording prepared by the authors and remaining under\nauthor control and final determination.\n\nThis study evaluates higher dosing for Cleviprex® than currently recommended\nin the U.S. approved package insert." }, { - "id": 75018, - "strid": "38a126fc-e921-4d09-924e-04b13f55f1d9", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 2, - "category_name": "Figure", + "id": 1232, + "strid": "002d3d18-efe4-43ff-a500-b0f05ba88102", + "image_id": 52, + "image_name": "117072.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 1603.036, - 979.309, - 2562.977, - 3186.562 + 682.16, + 35.1, + 147.09000000000003, + 183.87 ], - "priority": 10, - "parents": [ - 75019 + "priority": -1, + "parents": [], + "children": [ + 1251, + 1233, + 1263, + 1265, + 1235, + 1242, + 1258, + 1234, + 1238 ], - "children": [], - "area": 1569867.582124, + "area": 23943.816, "iscrowd": 0, "segmentation": [] }, { - "id": 75012, - "strid": "8d5bf111-d36c-4760-9c97-69c87a219e05", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 5, - "category_name": "Section", + "id": 1233, + "strid": "434fee27-9fff-4030-b2fd-ad68a6d13103", + "image_id": 52, + "image_name": "117072.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 137.608, - 4346.605, - 1549.021, - 63.01100000000042 + 859.744, + 89.826, + 3082.331, + 236.4 ], - "priority": 11, + "priority": 1, "parents": [ - 75019 - ], - "children": [ - 75015, - 75014, - 75013 + 1232 ], - "area": 598127.62084, + "children": [], + "area": 77227.364544, "iscrowd": 0, "segmentation": [], - "text": "Details regarding data collection and morphometric analysis:" + "text": "Discovering and;}mapping chromatin states. using a\ntree hidden Markov model" }, { - "id": 75013, - "strid": "e24c7358-3969-41c5-a38b-abd92312b5e2", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 3, - "category_name": "Text", + "id": 1234, + "strid": "17938799-0950-456e-aff5-f3a09513d313", + "image_id": 52, + "image_name": "117072.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 140.311, - 4436.038, - 2046.8930000000003, - 174.40499999999975 + 1511.284, + 347.731, + 1758.8430000000003, + 141.93899999999996 ], - "priority": 12, + "priority": 2, "parents": [ - 75012 + 1232 ], "children": [], - "area": 622424.927818, + "area": 525520.296604, "iscrowd": 0, "segmentation": [], - "text": "MRI-acquisition: Imaging was performed with a.Philips Achieva 3 Tesla whole body MR unit equipped with an 8-chamnel Philips\nSENSE head coil (Philips Medical Systems, Best, the Netherlands). The protocol included a T1-weighted MPRAGE and pUlse sequence\nused for lesion reconstruction and morphometry and a fluid-attenuated inversion recovery (FLAIR) sequence to aid the\nneuroradiologic examination and lesion féconstruction." + "text": "Jacob Biesinger*, Yuanfeng;Wang* and Xiaohui Xie\njake.biesinger@uci.edu, yuanfenw@uci.edu, xhx@uci.edu «contributed equally" }, { - "id": 75014, - "strid": "d619dc6d-33ed-48b8-9ec6-dd756d2561e1", - "image_id": 203426, - "image_name": "120207.png", - "category_id": 3, - "category_name": "Text", + "id": 1235, + "strid": "9316f42f-8e8c-4a7f-bc85-09680a073b82", + "image_id": 52, + "image_name": "117072.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 140.264, - 4627.153, - 2046.442, - 465.8819999999996 + 516.972, + 629.082, + 207.553, + 49.25 ], - "priority": 13, + "priority": 3, "parents": [ - 75012 + 1232 ], - "children": [], - "area": 649022.9883920001, + "children": [ + 1237, + 1236 + ], + "area": 325217.779704, "iscrowd": 0, "segmentation": [], - "text": "Volumetric segmentation: Image pfocessing and segmentation were performed with two automated procedures; FreeSurfer 5.3\n(http://surfer.nmr.mgh.harvard.edii/)*and FIRST 5.0 (FSL toolbox, FMRIB, Oxford, UK). FreeSurfer segmentation yields volumetric\nestimates for total cerebralfand cerebellar grey and white matter, subcortical structures, corpus callosum, and ventricular regions\nbased on probabilistic topological relationships and signal intensities. FIRST employs an iterativeprocedure to derive a surface mesh\nsegmentation of structuresderived from a set of 317 basis functions and transforms these meshrepresentations to volumes’.\n\nThe use of two complementary segmentation algorithms was motivated by results from.a ‘recent study showing poor agreement\nbetween segméntations using FreeSurfer and FIRST, possibly reflecting differences across Manual expert raters, as the algorithms\nwere informed by\"training datasets segmented by different sets of raters®. Requiring that results replicate across different\nsegmentation procedures, should render them more robust with respect to potential/biases inherent in any particular segmentation\nprocedure." + "text": "Epigenetics" }, { - "id": 75015, - "strid": "e2b0b3da-06f8-42e1-84d2-64fae0915eae", - "image_id": 203426, - "image_name": "120207.png", + "id": 1236, + "strid": "43f16aec-c053-46f4-abbe-18423ff01b58", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 136.945, - 5112.442, - 2050.747, - 420.3109999999997 + 77.339, + 688.033, + 1084.256, + 437.66099999999994 ], - "priority": 14, + "priority": 4, "parents": [ - 75012 + 1235 ], "children": [], - "area": 700123.36969, + "area": 53211.784187, "iscrowd": 0, "segmentation": [], - "text": "Statistical analysis: All statistical analyses of volumetric differences between\\cerebellar patients and healthy controls were carried\nout.using analyses of covariance (ANCOVAs) in IBM SPSS 21. Group (patients, controls) was included as a fixed factor, and age and\nestimated intracranial volume was used as covariates. Since we/Observed a significant group difference in IQ (10 points), we\nconducted a set of control analyses with full scale 1Q included’ as) aneadditional covariate. A final set of control analyses examined\npossible effects of concomitant hydrocephalus (very common in this patient group) by including ventricular volume as a covariate\n\nThe correspondence between volume estimates from the two segmentation procedures were examined using Pearson correlation\nanalyses and a final set of (repeated measures) ANCOVAs were performed on estimated volumes from both pipelines ‘with\nsegmentation procedure (two levels: FreeSurfer,“FIRST) and group (two levels: Patients, Controls) as fixed factors and agé and\nestimated intracranial volume as covariates." + "text": "Although identical DNA is shared amongst most cells in an organism, a\nkey question in biology relates to how different cell types are formed,\nmaintained, and made to perform vastly different functions. Recent\nstudies have shown that these processes are in part mediated by the\npost-translational modifications of histone tails, which in turn. affect\nchromatin-accessibility and other properties of chromatin structures in a\ncell-type specific way [1]. There are also interactions between these\nmodifications, which act combinatorially to exert dynamic control over\ngene expression and other fundamental cellular processes [2]." }, { - "id": 75017, - "strid": "3830c87c-71d2-4975-bc12-bc12e3867df4", - "image_id": 203426, - "image_name": "120207.png", + "id": 1237, + "strid": "7d19f8b3-3db4-42ea-8eb1-1d392a261ad9", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 73.978, + 1154.838, + 1096.273, + 779.1409999999998 + ], + "priority": 5, + "parents": [ + 1235 + ], + "children": [], + "area": 85432.605564, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1238, + "strid": "e221c9b9-fe43-4cbc-9fc7-0c8848ab1b48", + "image_id": 52, + "image_name": "117072.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2359.36, - 4359.69, - 433.21799999999985, - 66.5640000000003 + 280.873, + 1983.529, + 680.633, + 41.3900000000001 ], - "priority": 15, + "priority": 6, "parents": [ - 75019 + 1232 ], "children": [ - 75016 + 1241, + 1240, + 1239 ], - "area": 10286078.1984, + "area": 557119.7408169999, "iscrowd": 0, "segmentation": [], - "text": "Conclusions:" + "text": "Genome-wide Chromatin Modifications" }, { - "id": 75016, - "strid": "65d8ebfa-3dc9-443b-8faa-d595ec38f601", - "image_id": 203426, - "image_name": "120207.png", + "id": 1239, + "strid": "84c9bd28-6605-4caa-8f86-b07ef1389eb7", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2361.515, - 4452.33, - 1813.3880000000004, - 522.8209999999999 + 81.196, + 2053.24, + 1084.245, + 384.0500000000002 ], - "priority": 16, + "priority": 7, "parents": [ - 75017 + 1238 ], "children": [], - "area": 10514244.07995, + "area": 166714.87503999998, "iscrowd": 0, "segmentation": [], - "text": "Across two automated segmentation pipelines we observed significantly reduced\nglobus pallidus volumes inpatients with focal cerebellar lesions.\n\nThe underlying mechanism(s) behind — or the functional significance of — these results\nremains unknown. Suggestions are very welcome!\n\nHowever, since the globus pallidus exerts an inhibitory effectt+*on cortical areas\nreceiving excitatory input from the deep cerebellar nuclei##, we¢speculate that the\nreduced pallidal volumes in cerebellar patients reflect compensatory adjustments\nwithin anintegrated cerebello-basal ganglia system." + "text": "Chromatin immunoprecipitation coupled with high-throughput sequencing\n(ChIP-seq) has emerged as a cost-effective method for determining\nepigenetic modifications. Thanks to the ENCODE project [3], hundreds of\nChIP-seq datasets are now publicly available and the process of\nintegrating species-specific and cell-type specific binding site\ninformation, gene expression, and chromatin state is now underway.\nThese high-throughput datasets provide an unbiased, comprehensive\nview of the function of different genomic regions." }, { - "id": 123070, - "strid": "1e6d6f5f-cbef-40df-9324-178e3955fbb3", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 9, - "category_name": "Root", + "id": 1240, + "strid": "ccd6d68b-616a-4616-9d27-4aa8297460cc", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 20.52, - 47.08, - 81.5, - 358.58000000000004 + 72.837, + 2429.07, + 1095.132, + 491.66899999999987 ], - "priority": -1, - "parents": [], - "children": [ - 123060, - 123061, - 123057, - 123055, - 123058, - 123056, - 123059 - ], - "area": 966.0816, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 123056, - "strid": "e0d0e510-c7ce-471f-b9f0-81bbfec2e2e1", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 1, - "category_name": "Title", - "bbox": [ - 122.453, - 147.53, - 2377.733, - 201.585 - ], - "priority": 1, + "priority": 8, "parents": [ - 123070 + 1238 ], "children": [], - "area": 18065.49109, + "area": 176926.17159, "iscrowd": 0, - "segmentation": [], - "text": "ASSOCIATION BETWEEN ANTIMICROBIAL CONSUMPTION\nAND AMR IN GONORRHOEA IN AUSTRALIAN STATES" + "segmentation": [] }, { - "id": 123055, - "strid": "041f68a3-cfdb-4dd0-a101-72c44b6c30ec", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1241, + "strid": "46807727-1665-413b-8260-b047f8aa6c5d", + "image_id": 52, + "image_name": "117072.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 138.677, - 487.315, - 2100.524, - 215.92000000000002 + 81.196, + 2941.564, + 1087.584, + 579.971 ], - "priority": 2, + "priority": 9, "parents": [ - 123070 + 1238 ], "children": [], - "area": 67579.38225499999, + "area": 238843.230544, "iscrowd": 0, "segmentation": [], - "text": "(Ora C=T ahve)\n\nInstitute of Tropical Medicine, Department of Clinical Sciences, Antwerp, Belgium" + "text": "Several computational approaches have tackled genome annotation\nusing these high-throughput datasets, following either a supervised or\nunsupervised approach. Unsupervised. methods have included clustering\n[4], a dynamic Bayesian network [5], and hidden Markov models (HMM)\n[6]. These methods differ mostly in how they model the chromatin mark\nsignal intensity: Some focus on the signal shape while others focus on\nsignal localization, modeling the signal as binary, log-gaussian, or with a\nhistogram. Each of these methods focuses on modeling the histone mark\ncombinations; none explicitly incorporate the lineage information by\nwhich the data are related. We extend the ChromHMM methodology of\n[6] to include the lineage connecting the different cell types and provide\nefficient inference algorithms." }, { - "id": 123057, - "strid": "e78aca9e-c640-486b-abe2-8dd09c570e3a", - "image_id": 205293, - "image_name": "14596.png", + "id": 1242, + "strid": "023ca4e7-50fd-40e4-ba15-ec83903b9497", + "image_id": 52, + "image_name": "117072.png", "category_id": 5, "category_name": "Section", "bbox": [ - 123.492, - 819.522, - 565.515, - 64.78599999999994 + 1640.169, + 626.57, + 322.63699999999994, + 49.25 ], - "priority": 3, + "priority": 10, "parents": [ - 123070 + 1232 ], "children": [ - 123062 + 1247, + 1243, + 1250, + 1248, + 1249, + 1244, + 1245, + 1246 ], - "area": 101204.410824, + "area": 1027680.6903300001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Lineage Tree HMM" }, { - "id": 123062, - "strid": "4eca9d89-3fec-4901-b0d9-2f12fb3b1a7e", - "image_id": 205293, - "image_name": "14596.png", + "id": 1243, + "strid": "6aa8e469-a72a-451b-a379-4cc6cfaaaa42", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 89.864, - 1009.13, - 1727.382, - 332.55100000000004 + 1261.664, + 685.834, + 1085.356, + 292.50699999999995 ], - "priority": 4, + "priority": 11, "parents": [ - 123057 + 1242 ], "children": [], - "area": 90684.45832, + "area": 865292.0677759999, "iscrowd": 0, "segmentation": [], - "text": "The prevelence of gonococcal antimicrobial resistance\n(AMR) to a range of antimicrobials in the rural part of\nthe Northern Territories Australia is so low that penicillin\nremains the first line treatment." + "text": "Many genomic regions are correlated across a lineage. We\nsimultaneously model the genomic localization of histone marks, the\nchromatin dynamics along a lineage, and the-mark combinations\npresent in the dataset. Each cell type uses a separate HMM chain, but\nwith connected internal, hidden nodes; each slice has vertical\nconnections corresponding to the lineage tree structure." }, { - "id": 123059, - "strid": "a36ba2b1-a3a1-4ebb-96ec-1f877abc6295", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 5, - "category_name": "Section", + "id": 1244, + "strid": "20405af5-7e83-49bb-9b96-f5a8e021e294", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 119.319, - 1426.757, - 153.349, - 62.98299999999995 + 1391.559, + 992.85, + 781.4219999999998, + 525.891 ], - "priority": 5, + "priority": 12, "parents": [ - 123070 + 1242 ], - "children": [ - 123063 - ], - "area": 170239.218483, + "children": [], + "area": 1381609.35315, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 123063, - "strid": "d2687e99-17d4-43b5-a8f7-fccd52f4bf9a", - "image_id": 205293, - "image_name": "14596.png", + "id": 1245, + "strid": "2cd03277-af8a-4c32-9601-3c0bd0419f7d", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 68.937, - 1626.758, - 1741.495, - 398.60000000000014 + 1264.514, + 1533.381, + 1087.584, + 614.4799999999998 ], - "priority": 6, + "priority": 13, "parents": [ - 123059 + 1242 ], "children": [], - "area": 112143.816246, + "area": 1938981.741834, "iscrowd": 0, "segmentation": [], - "text": "We assessed if there was an association between the\nconsumption of antimicrobials in the general population\nand the prevalence of AMR in Neisseria gonorrhoeae at a\nstate level in Australia. This association has previously\nbeen found in country level analyses." + "text": "Our method effectively pools information across species, and we expect\nit to show improved accuracy of genome segmentation over the previous\nHMM approach which does not incorporate cell lineage information. It\nmay also be useful in cases where not all marks are available for all\nspecies.\n\nSince the TreeHMM model contains undirected cycles, exact inference\nmethods such as junction tree quickly become intractable in\ncomputational time and memory. consumption. We used several\napproximate, variational inference methods since they are usually\ncomputationally efficient and scale well with dataset size.\n\nVariational methods cast.the inference problem in terms of optimization\nover simpler classes of distributions." }, { - "id": 123060, - "strid": "3ca9f2e4-578b-4ea5-9cea-5949c8cd6b39", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 5, - "category_name": "Section", + "id": 1246, + "strid": "c3eff71c-e8c8-4792-acba-7ff07b969e71", + "image_id": 52, + "image_name": "117072.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 123.212, - 2180.066, - 369.297, - 67.76999999999998 + 1266.592, + 2149.462, + 1076.5719999999997, + 94.43600000000015 ], - "priority": 7, + "priority": 14, "parents": [ - 123070 + 1242 ], - "children": [ - 123064 - ], - "area": 268610.29199199995, + "children": [], + "area": 2722491.3735040003, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 123064, - "strid": "1b8a97fd-b059-4d5d-8e81-9c87f65f1f88", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 3, - "category_name": "Text", + "id": 1247, + "strid": "733768a8-4868-41e0-bc98-bb1e2910c39a", + "image_id": 52, + "image_name": "117072.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 64.531, - 2417.237, - 1695.29, - 1963.6359999999995 + 1267.586, + 2247.874, + 648.1299999999999, + 431.424 ], - "priority": 8, + "priority": 15, "parents": [ - 123060 + 1242 ], "children": [], - "area": 155986.72084700002, + "area": 2849373.6121639996, "iscrowd": 0, - "segmentation": [], - "text": "Data for AMR was taken from the most recent\nAustralian Gonococcal Surveillance Programme Annual\nReport in 2017 (https://doi.org/10.33321/cdi.2019.43.13).\nThis provided AMR data by state for isolates from the\nyear 2017. Penicillin resistance was defined as a MIC\ngreater than 1mg/L or more or the presence of a\npenicillinase.\n\nAntimicrobial consumption data was obtained from the\nonly source we could find with state level antimicrobial\nconsumption data reorted for the general population.\nThis was the Australian Atlas of Healthcare Variation\n2018 (www.safetyandquality.gov.au/atlas/). This\nreported the number of RBS/PBS prescriptions\ndispensed for amoxicillin-clavulanate per 100,000\ninhabitants and calculated the defined daily doses\n(DDD) per 1000 inhabitants per day in the period 2016\nto 2017. Data was reported for amoxillicin-clavulanate\nand no other antimicrobials.\n\nSpearman’s correlation was used to test the association\nbetween AMR and antimicrobial consumption." + "segmentation": [] }, { - "id": 123058, - "strid": "ccba6794-3233-4162-886f-408dce7cf33a", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 5, - "category_name": "Section", + "id": 1248, + "strid": "c06acaae-e157-4ec5-a6e2-f20796f18fbb", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1979.658, - 812.447, - 300.21900000000005, - 64.91200000000003 + 1939.125, + 2225.721, + 403.8299999999999, + 461.16100000000006 ], - "priority": 9, + "priority": 16, "parents": [ - 123070 - ], - "children": [ - 123067, - 123069, - 123065 + 1242 ], - "area": 1608367.203126, + "children": [], + "area": 4315951.234125, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 123065, - "strid": "58b5ef10-2bd2-4fb9-b1c7-52203152a20b", - "image_id": 205293, - "image_name": "14596.png", + "id": 1249, + "strid": "bcb38533-53ce-4074-9b32-0be9230e946c", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1913.296, - 998.952, - 1755.8149999999998, - 936.3120000000001 + 1264.514, + 2719.016, + 1071.74, + 188.25199999999995 ], - "priority": 10, + "priority": 17, "parents": [ - 123058 + 1242 ], "children": [], - "area": 1911290.865792, + "area": 3438233.798224, "iscrowd": 0, "segmentation": [], - "text": "The prevalence of penicillin resistance varied between\n2.5% in the remote region of the Northern Territories and\n44.1% in Tasmania (median 22.6%, IQR 10.3-29.6%).\n\nThe consumption of amoxicillin-clavulanate varied\nbetween 2.64 (Northern Territories) and 5.03\n(Queensland; median 4.23 (IQR 3.63-4.77) DDD per 1000\ninhabitants per day.\n\nThere was a non-significant positive association between\nconsumption of amoxicillin-clavulanate and penicillin\nresistance. (rho=0.46; P=0.3; Fig 1)." - }, - { - "id": 123067, - "strid": "c81cbcf0-5625-4f22-af62-77891bcade98", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 1917.447, - 1965.518, - 1685.5559999999998, - 581.0190000000002 - ], - "priority": 11, - "parents": [ - 123058 - ], - "children": [], - "area": 3768776.5925459997, - "iscrowd": 0, - "segmentation": [] + "text": "One advantage of MF and SMF is that their free energy are lower\nbounds on the negative log-likelihood. In our experiments, SMF\napproached the true negative log likelihood, indicating it as a superior\napproximation." }, { - "id": 123069, - "strid": "78f655d4-2c66-44a3-868e-3b834e12dfc9", - "image_id": 205293, - "image_name": "14596.png", + "id": 1250, + "strid": "53ce0deb-d969-4740-bd81-1c1f4504400d", + "image_id": 52, + "image_name": "117072.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1914.945, - 2761.003, - 1650.0910000000001, - 1200.038 - ], - "priority": 12, - "parents": [ - 123058 - ], - "children": [ - 123068 - ], - "area": 5287168.889835, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 123068, - "strid": "b9b05dcb-ee46-4a01-b9f7-2081738a3868", - "image_id": 205293, - "image_name": "14596.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1908.726, - 4031.715, - 1649.351, - 253.9949999999999 + 1256.949, + 2899.064, + 1066.6129999999998, + 571.5219999999999 ], - "priority": 13, + "priority": 18, "parents": [ - 123069 + 1242 ], "children": [], - "area": 7695439.24509, + "area": 3643975.595736, "iscrowd": 0, - "segmentation": [], - "text": "Fig 1. Consumption of amoxicillin-clavulanate (defined\ndaily doses (DDD) per 1000 population per day versus\npenicillin resistance" + "segmentation": [] }, { - "id": 123061, - "strid": "481d5f3f-ab33-4e17-b8c3-256d1820d3a6", - "image_id": 205293, - "image_name": "14596.png", + "id": 1251, + "strid": "390f2978-c483-4560-b829-7832bc44cf6b", + "image_id": 52, + "image_name": "117072.png", "category_id": 5, "category_name": "Section", "bbox": [ - 122.502, - 4481.581, - 518.348, - 65.42299999999977 + 2757.541, + 629.975, + 446.16100000000006, + 42.22500000000002 ], - "priority": 14, + "priority": 19, "parents": [ - 123070 + 1232 ], "children": [ - 123066 + 1256, + 1253, + 1257, + 1255, + 1254, + 1252 ], - "area": 549002.635662, + "area": 1737181.8914750002, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Learned chromatin states" }, { - "id": 123066, - "strid": "5da9ebf4-5b65-49ec-9e9f-d096a457c271", - "image_id": 205293, - "image_name": "14596.png", + "id": 1252, + "strid": "c0e816c6-93bb-47d8-b0a3-7e588e28a004", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 67.037, - 4645.232, - 3190.144, - 163.84299999999985 + 2441.59, + 688.033, + 1079.8580000000002, + 148.45299999999997 ], - "priority": 15, + "priority": 20, "parents": [ - 123061 + 1251 ], "children": [], - "area": 311402.41758400004, + "area": 1679894.4924700002, "iscrowd": 0, "segmentation": [], - "text": "The lower consumption of antimicrobials in the general population in the remote region of the Northern\nTerritories Australia may play a role in the lower prevalence of AMR in N. gonorrhoeae in this population." - }, - { - "id": 143252, - "strid": "8a224ca7-a642-42b1-97ee-95190813ec63", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 98.34, - 79.86, - 162.01000000000002, - 171.52999999999997 - ], - "priority": -1, - "parents": [], - "children": [ - 143231, - 143230, - 143232, - 143229, - 143228, - 143227, - 143250 - ], - "area": 7853.432400000001, - "iscrowd": 0, - "segmentation": [] + "text": "Using the SMF approximation, we determined that 18 hidden states were\nbest supported by the data (using BIC). We then ran SMF until\nconvergence several times and took the results with highest —F." }, { - "id": 143227, - "strid": "0160b5dd-19db-49c3-abe0-7d795f559d88", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 1, - "category_name": "Title", + "id": 1253, + "strid": "378f30d2-7628-4e46-bcd6-a447cfc26e00", + "image_id": 52, + "image_name": "117072.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1677.786, - 156.111, - 3366.968, - 183.89999999999998 + 2510.647, + 860.521, + 939.2280000000001, + 901.202 ], - "priority": 1, + "priority": 21, "parents": [ - 143252 + 1251 ], "children": [], - "area": 261920.850246, + "area": 2160464.4670869997, "iscrowd": 0, - "segmentation": [], - "text": "A Non-redundant, Reference Virus Database (RVDB) to Facilitate High-throughput\nSequencing (HTS) Bioinformatics Analysis for Detection of Known and Novel Viruses" + "segmentation": [] }, { - "id": 143228, - "strid": "7dba4c3b-6f8e-495d-8718-956163df49f2", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1254, + "strid": "416e2cea-5043-4413-8a9c-3f549095b7f7", + "image_id": 52, + "image_name": "117072.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1747.783, - 385.015, - 3229.7049999999995, - 122.29500000000002 + 2444.494, + 1770.49, + 1080.1169999999997, + 427.943 ], - "priority": 2, + "priority": 22, "parents": [ - 143252 + 1251 ], "children": [], - "area": 672922.6717449999, + "area": 4327952.1820600005, "iscrowd": 0, "segmentation": [], - "text": "Pei-Ju Chin and Arifa S. Khan\n\nOffice of Vaccines Research and Review, Division of Viral Products, Laboratory of Retroviruses, CBER, U.S. Food and Drug Administration, Silver Spring, MD 20993" + "text": "Many of the learned:mark combinations were immediately identifiable as\nbiologically relevant, having been seen in combination in previous\nstudies. We analyzed the inferred states’ enrichment across the genome\nand found that several were enriched in specific parts of genes such as\nthe promoter regions.\n\nBy considering our model’s learned vertical connections, it became\nimmediately clear that certain states exhibited strong vertical\ncorrelations— knowing the parent cell type informed inference in the child." }, { - "id": 143229, - "strid": "f9fcffda-1778-4631-b1a6-38517f5f4b9b", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 5, - "category_name": "Section", + "id": 1255, + "strid": "431222ae-d944-4033-9aa5-1ba8e6749826", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 125.489, - 647.282, - 335.81499999999994, - 55.96900000000005 + 2495.436, + 2206.621, + 975.3519999999999, + 439.1930000000002 ], - "priority": 3, + "priority": 23, "parents": [ - 143252 - ], - "children": [ - 143233, - 143234 + 1251 ], - "area": 81226.770898, + "children": [], + "area": 5506481.481756001, "iscrowd": 0, - "segmentation": [], - "text": "Background:" + "segmentation": [] }, { - "id": 143233, - "strid": "35c0479a-2a11-4570-b6a0-26ba8873b1f0", - "image_id": 206067, - "image_name": "17312.png", + "id": 1256, + "strid": "4ed41d0e-8192-4f06-b6d5-ef5c6b76658a", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 491.215, - 656.016, - 2113.149, - 44.86500000000001 + 2449.823, + 2648.795, + 1077.8020000000001, + 147.01999999999998 ], - "priority": 4, + "priority": 24, "parents": [ - 143229 + 1251 ], "children": [], - "area": 322244.89943999995, + "area": 6489078.913285, "iscrowd": 0, "segmentation": [], - "text": "Genomic and metagenomic analysis using high-throughput sequencing (HTS) has resulted in a great expansion of the" + "text": "K-means clustering of the inferred probabilities revealed tendencies for\ncertain states to be shared across cell types, while others (like\nenhancers) were rarely shared across cell types." }, { - "id": 143234, - "strid": "b8097115-3ce6-47a0-b727-ec739018bab9", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1257, + "strid": "2b37e10a-e216-4329-986f-351024242b6c", + "image_id": 52, + "image_name": "117072.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 122.163, - 710.828, - 2491.267, - 460.2149999999999 + 2465.016, + 2792.212, + 1059.0080000000003, + 730.0880000000002 ], - "priority": 5, + "priority": 25, "parents": [ - 143229 + 1251 ], "children": [], - "area": 86836.880964, + "area": 6882847.255392, "iscrowd": 0, - "segmentation": [], - "text": "virosphere. However, there are challenges for HTS bioinformatics for detecting distantly-related viruses due to limitations of the publicly-\navailable databases, which are not complete with all viral sequences, and virus detection can be obscured using the NCBI nr/nt collection, which\ncontains diverse viral sequences, due to the large amount of cellular sequences. This gap was recognized by our laboratory during HTS\ninvestigations of Sf9 insect cells, which are a new cell substrate used for several baculovirus-expressed vaccines and other products. Those\nstudies led to the discovery of a novel rhabdovirus in Sf9 cells, which had very limited sequence identity to any known virus (only 4% coverage\nin a 295-bp region with 66% nucleotide identity to Taastrup virus, a new member of the family Mononegavirales) [1]. Therefore, we initiated\nefforts to create a new, non-redundant, reference viral database (RVDB) that would include all virus, virus-related, and viral-like sequences,\nincluding endogenous viruses and retroelements, and have an overall reduced cellular sequence content. This effort was in consultation with\nthe Advanced Virus Detection Technologies Interest Group, which includes scientists from industry (vaccines and biotherapeutics), regulatory\nand other government agencies (including NCBI), technology service providers, and academia [2]." + "segmentation": [] }, { - "id": 143230, - "strid": "e388496f-0399-40a1-9c1d-f02c00d2145e", - "image_id": 206067, - "image_name": "17312.png", + "id": 1258, + "strid": "e4705456-7c13-4df9-a5db-bad7e4d8965f", + "image_id": 52, + "image_name": "117072.png", "category_id": 5, "category_name": "Section", "bbox": [ - 124.888, - 1275.302, - 239.10600000000002, - 43.575000000000045 + 3906.445, + 629.765, + 511.93200000000024, + 47.73400000000004 ], - "priority": 6, + "priority": 26, "parents": [ - 143252 + 1232 ], "children": [ - 143242, - 143237, - 143244, - 143241, - 143235, - 143243, - 143238, - 143236 + 1260, + 1262, + 1259, + 1261 ], - "area": 159269.916176, + "area": 2460142.335425, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "CoC mee) a Hihy" }, { - "id": 143235, - "strid": "ac8390e8-98b0-487b-8ef9-5da3eb27ca26", - "image_id": 206067, - "image_name": "17312.png", + "id": 1259, + "strid": "755e8c71-0a10-41ce-b26c-3869c3d11a9f", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 387.832, - 1286.212, - 2222.69, - 40.396999999999935 + 3627.812, + 684.019, + 1082.018, + 195.92100000000005 ], - "priority": 7, + "priority": 27, "parents": [ - 143230 + 1258 ], "children": [], - "area": 498834.172384, + "area": 2481492.336428, "iscrowd": 0, "segmentation": [], - "text": "The overall strategy for developing RVDB included: a) development of a refined, final keyword screen for semantic selection of" + "text": "We compared our results with the ChromHMM method published by\nErnst et. Al [6] on the same dataset. We found that the two methods\nmade many similar calls, but there was ~20% average disagreement. We\nthen calculated the enrichment of each state in ChIP-seq binding sites." }, { - "id": 143236, - "strid": "d678d5c0-5466-4c7a-80e1-afd55e1768ae", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1260, + "strid": "e602c177-58f8-4afb-b565-fa76917cb55c", + "image_id": 52, + "image_name": "117072.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 119.105, - 1337.421, - 2491.726, - 274.42599999999993 + 3617.186, + 883.337, + 1091.3290000000002, + 762.4099999999999 ], - "priority": 8, + "priority": 28, "parents": [ - 143230 + 1258 ], "children": [], - "area": 159293.528205, + "area": 3195194.229682, "iscrowd": 0, - "segmentation": [], - "text": "all virus, virus-related, and virus-like sequences from GenBank, regardless of their size;, b) verification of viral identity using various\nbioinformatics tools (BLAST and HMMER); c) clustering at 98% sequence identity using CD-HIT-EST to remove redundancy; and d) testing\nrobustness of RVDB for HTS analysis using our large, in-house next-gen datasets and comparing the run time and results to those obtained\nusing the NCBI databases (NCBI Viral RefSeq + genome neighbors and nr/nt). The overall strategy, with details of the different steps of\nselection and analysis, is shown in Fig. 1. Details of the generation and characterization of RVDBv10.2 is described by Goodacre et. al. [3]. The\ncharacterization of the latest RVDB v20.0 is shown in Fig. 2." + "segmentation": [] }, { - "id": 143237, - "strid": "c7cad5c4-1e98-44f0-bf30-45dd8483d9e0", - "image_id": 206067, - "image_name": "17312.png", + "id": 1261, + "strid": "e23eab3a-4c14-4e6f-a770-7b05c8bd6a53", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 160.114, - 1754.584, - 1112.913, - 55.49700000000007 + 3618.907, + 1668.077, + 1081.2489999999998, + 388.5020000000002 ], - "priority": 9, + "priority": 29, "parents": [ - 143230 + 1258 ], "children": [], - "area": 280933.462576, + "area": 6036615.531839, "iscrowd": 0, "segmentation": [], - "text": "1, General Workflow for Development of RVDB" + "text": "Neither ChromHMM nor TreeHMM dominated in promoter or enhancer\nprediction. While ChromHMM tended to overcall active. promoters\n(resulting in increased recall but lower accuracy), the behavior switched\nfor enhancers (with increased recall for TreeHMM.but slightly lower\naccuracy in 3 / 5 cases). It’s interesting to note that TreeHMM'’s vertical\nconnections led to increased accuracy for enhancers, which have very\nlittle vertical correlation. Perhaps the vertical information helps reduce\nspurious enhancer calls caused by noisy data." }, { - "id": 143241, - "strid": "fefce8a7-d698-4e7c-a184-482d7aba9dca", - "image_id": 206067, - "image_name": "17312.png", + "id": 1262, + "strid": "ce4cb597-03fd-4ebc-8e1f-f74120c5de7e", + "image_id": 52, + "image_name": "117072.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 106.302, - 1876.249, - 1211.545, - 544.5620000000001 + 3615.285, + 2058.322, + 1100.8360000000002, + 785.2249999999999 ], - "priority": 10, + "priority": 30, "parents": [ - 143230 + 1258 ], "children": [], - "area": 199449.021198, + "area": 7441420.65177, "iscrowd": 0, "segmentation": [] }, { - "id": 143242, - "strid": "f8834b30-93b0-4bfb-9535-a784c36531ef", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 2, - "category_name": "Figure", + "id": 1263, + "strid": "65991498-4d92-419c-b326-4b86373633f9", + "image_id": 52, + "image_name": "117072.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 110.523, - 2493.982, - 1205.917, - 733.1190000000001 + 4064.944, + 2868.873, + 195.4079999999999, + 37.11999999999989 ], - "priority": 11, + "priority": 31, "parents": [ - 143230 - ], - "children": [], - "area": 275642.372586, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 143238, - "strid": "d08df023-ad7d-4215-907f-c9137925c44f", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1635.144, - 1757.289, - 750.7070000000001, - 43.50700000000006 + 1232 ], - "priority": 12, - "parents": [ - 143230 + "children": [ + 1264 ], - "children": [], - "area": 2873420.564616, + "area": 11661808.088112, "iscrowd": 0, "segmentation": [], - "text": "Division Characters in RVDB" - }, - { - "id": 143243, - "strid": "69169975-55ac-49ed-928d-b3e97adfbe43", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1424.737, - 1904.632, - 1184.475, - 1381.725 - ], - "priority": 13, - "parents": [ - 143230 - ], - "children": [], - "area": 2713599.6817840002, - "iscrowd": 0, - "segmentation": [] + "text": "Discussion" }, { - "id": 143244, - "strid": "cd3717f4-c91b-4eb3-8f03-7afc72a664ca", - "image_id": 206067, - "image_name": "17312.png", + "id": 1264, + "strid": "a5e3d460-af59-4cb3-af95-ce438842edb9", + "image_id": 52, + "image_name": "117072.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1400.143, - 3395.881, - 1221.062, - 132.19900000000007 + 3618.907, + 2920.413, + 1089.8109999999997, + 340.63499999999976 ], - "priority": 14, + "priority": 32, "parents": [ - 143230 + 1263 ], "children": [], - "area": 4754719.010983, + "area": 10568703.048591001, "iscrowd": 0, "segmentation": [], - "text": "Total number of entries in RVDBv20.0: 3,180,577 including the\nsequences of NCBI RefSeq Viral (n=9,350) and NCBI Genome\nNeighbors (n=216,849)" + "text": "We've presented a flexible framework for combining multiple species-\nspecific high-throughput sequencing datasets in a principled way. The\nmethod provides increased or comparable accuracy vs. the state of the\nart while scaling well with dataset size. The method also provides a\nprincipled way of doing inference with missing data and dealing with\ndeep and interesting lineages. We hope it will prove to be useful as the\nnumber of datasets and cell types (or species) sequenced increases." }, { - "id": 143231, - "strid": "51bf7eff-eff9-4425-b6c9-f483721e9424", - "image_id": 206067, - "image_name": "17312.png", + "id": 1265, + "strid": "aaf20134-9c5a-4a6f-885b-b6b1c6a448dc", + "image_id": 52, + "image_name": "117072.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2849.264, - 649.615, - 210.6790000000001, - 44.65499999999997 + 4085.908, + 3280.268, + 154.24900000000025, + 31.34999999999991 ], - "priority": 15, + "priority": 33, "parents": [ - 143252 + 1232 ], "children": [ - 143245 + 1266 ], - "area": 1850924.63336, + "area": 13402873.263344, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "RX icy acy aeets" }, { - "id": 143245, - "strid": "c6a95f95-d2d9-4463-b41b-133c86676d29", - "image_id": 206067, - "image_name": "17312.png", + "id": 1266, + "strid": "d5c8e1ab-bc00-446f-b0e0-fd8a957811a9", + "image_id": 52, + "image_name": "117072.png", "category_id": 4, "category_name": "List", "bbox": [ - 2845.116, - 711.634, - 2307.13, - 930.6179999999999 + 3624.514, + 3321.465, + 1069.6140000000005, + 199.8069999999998 ], - "priority": 16, + "priority": 34, "parents": [ - 143231 + 1265 ], "children": [], - "area": 2024681.279544, + "area": 12038696.393010002, "iscrowd": 0, "segmentation": [] }, { - "id": 143232, - "strid": "4d486975-f563-4af8-b5d4-16fd73350a46", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 5, - "category_name": "Section", + "id": 1267, + "strid": "dd86bae3-b92a-4df6-a3a5-935dae6eaf58", + "image_id": 53, + "image_name": "11708.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2876.32, - 1679.707, - 344.9670000000001, - 46.81700000000001 - ], - "priority": 17, - "parents": [ - 143252 + 12.79, + 13.33, + 68.41, + 45.6 ], + "priority": -1, + "parents": [], "children": [ - 143247, - 143239, - 143240, - 143248, - 143249, - 143246 + 1272, + 1287, + 1270, + 1274, + 1268, + 1276, + 1269 ], - "area": 4831374.83824, + "area": 170.49069999999998, "iscrowd": 0, - "segmentation": [], - "text": "Conclusions:" + "segmentation": [] }, { - "id": 143246, - "strid": "7e018592-4b2c-4eb3-9533-6fca739519a5", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1268, + "strid": "6cfc89c1-fc59-49a5-a79a-4d6a52362f3f", + "image_id": 53, + "image_name": "11708.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 3244.972, - 1692.665, - 2049.3759999999997, - 40.740999999999985 + 95.528, + 73.378, + 633.33, + 69.98099999999998 ], - "priority": 18, + "priority": 1, "parents": [ - 143232 + 1267 ], "children": [], - "area": 5492650.53038, + "area": 7009.653584000001, "iscrowd": 0, "segmentation": [], - "text": "RVDB is expected to aid HTS investigations for known and novel viruses, thereby enhancing product safety, due to the" + "text": "Systematic reviews for neonatal pneumonia:\na methods case study in text-mining" }, { - "id": 143247, - "strid": "4e6b02d7-171a-4126-85a7-a3407f2337cf", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1269, + "strid": "7c4deca2-1c07-4dcd-96f6-7b0df65daaa2", + "image_id": 53, + "image_name": "11708.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 2875.083, - 1743.051, - 2419.896, - 134.69299999999998 + 27.221, + 1036.588, + 384.811, + 12.190000000000055 ], - "priority": 19, + "priority": 2, "parents": [ - 143232 + 1267 ], "children": [], - "area": 5011416.298233, + "area": 28216.961948, "iscrowd": 0, "segmentation": [], - "text": "inclusion in the database of all viral-related sequences, including sub-genomic viral fragments as well as endogenous retroviruses and\nretrotransposons, along with the reduction of overall cellular content. Ongoing annotation efforts will result in a high-quality database that will\nincrease confidence in obtaining accurate results from HTS data analysis." + "text": "Authors: Myron A. Godinho, Shruti Murthy, Theophilus Lakiang, N. Sreekumaran Nair" }, { - "id": 143239, - "strid": "bf44675e-b1be-4f1b-967e-e0770a7cdf9a", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1270, + "strid": "354d93b5-cd3b-43fb-aa80-c12c72a97335", + "image_id": 53, + "image_name": "11708.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 3115.236, - 1922.841, - 818.0479999999998, - 111.61899999999991 + 27.458, + 167.5, + 87.265, + 13.789999999999992 ], - "priority": 20, + "priority": 3, "parents": [ - 143232 + 1267 ], - "children": [], - "area": 5990103.505476, + "children": [ + 1271 + ], + "area": 4599.215, "iscrowd": 0, "segmentation": [], - "text": "3. RVDB User Demography by Hits\n(Jan. 2020 ~ Sept. 2020)" + "text": "Introduction" }, { - "id": 143248, - "strid": "e1c25013-ec5d-4c58-98ce-02962d497e7c", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 2, - "category_name": "Figure", + "id": 1271, + "strid": "3e869624-e9d3-413b-945d-f7a901655394", + "image_id": 53, + "image_name": "11708.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2850.799, - 2083.581, - 1365.7669999999998, - 847.902 + 27.004, + 183.668, + 278.385, + 110.15699999999998 ], - "priority": 21, + "priority": 4, "parents": [ - 143232 + 1270 ], "children": [], - "area": 5939870.631219001, + "area": 4959.770672000001, "iscrowd": 0, "segmentation": [] }, { - "id": 143240, - "strid": "105c7fb9-e0d0-495d-b190-49cc4cdfeff4", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 3, - "category_name": "Text", + "id": 1272, + "strid": "bc8c772b-7735-4ae9-b018-5b8024273f50", + "image_id": 53, + "image_name": "11708.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 4321.787, - 1921.71, - 925.5, - 104.81600000000003 + 307.964, + 171.278, + 86.74599999999998, + 14.472000000000008 ], - "priority": 22, + "priority": 5, "parents": [ - 143232 + 1267 ], - "children": [], - "area": 8305221.295770001, + "children": [ + 1273 + ], + "area": 52747.457991999996, "iscrowd": 0, "segmentation": [], - "text": "4. A Bioinformatics Approach for Novel\nVirus Detection" + "text": "Key messages" }, { - "id": 143249, - "strid": "8fb75a01-7b31-4e1f-8698-f4cd0ba56355", - "image_id": 206067, - "image_name": "17312.png", - "category_id": 2, - "category_name": "Figure", + "id": 1273, + "strid": "6087d0cf-7c2d-4268-9964-4655f8a87226", + "image_id": 53, + "image_name": "11708.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 4262.648, - 2060.509, - 1041.6260000000002, - 796.7240000000002 + 307.583, + 187.109, + 204.28699999999998, + 105.10600000000002 ], - "priority": 23, + "priority": 6, "parents": [ - 143232 + 1272 ], "children": [], - "area": 8783224.567832, + "area": 57551.54754700001, "iscrowd": 0, "segmentation": [] }, { - "id": 143250, - "strid": "135af43f-18c0-468c-966b-4043230459c8", - "image_id": 206067, - "image_name": "17312.png", + "id": 1274, + "strid": "8fd0b217-275d-4199-99ad-c9436e36ba72", + "image_id": 53, + "image_name": "11708.png", "category_id": 5, "category_name": "Section", "bbox": [ - 4080.365, - 2971.561, - 312.8059999999996, - 48.44399999999996 + 547.965, + 166.461, + 153.66200000000003, + 17.367999999999995 ], - "priority": 24, + "priority": 7, "parents": [ - 143252 + 1267 ], "children": [ - 143251 + 1275 ], - "area": 12125053.499765, + "area": 91214.80186500002, "iscrowd": 0, "segmentation": [], - "text": "References:" + "text": "Text-mining Approach" }, { - "id": 143251, - "strid": "c80070aa-5be4-48aa-bcf8-5a1aaa105e67", - "image_id": 206067, - "image_name": "17312.png", + "id": 1275, + "strid": "fb0e2d10-45bf-406f-ab37-1d48d633b849", + "image_id": 53, + "image_name": "11708.png", "category_id": 4, "category_name": "List", "bbox": [ - 4079.387, - 3032.47, - 1224.1960000000004, - 397.5419999999999 + 546.633, + 183.974, + 250.30399999999997, + 97.44599999999997 ], - "priority": 25, + "priority": 8, "parents": [ - 143250 + 1274 ], "children": [], - "area": 12370618.69589, + "area": 100566.259542, "iscrowd": 0, "segmentation": [] }, { - "id": 137330, - "strid": "30232c7d-643a-4b7d-9580-aecf8e1ad82a", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 9, - "category_name": "Root", + "id": 1276, + "strid": "3dbdcf03-b2a9-4c62-a804-33b44342b6e9", + "image_id": 53, + "image_name": "11708.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 4172.55, - 277.19, - 297.1799999999994, - 148.58999999999997 + 27.325, + 321.019, + 154.355, + 16.92700000000002 + ], + "priority": 9, + "parents": [ + 1267 ], - "priority": -1, - "parents": [], "children": [ - 137311, - 137312, - 137313, - 137310, - 137308, - 137314, - 137309, - 137315 + 1278, + 1285, + 1284, + 1281, + 1282, + 1277, + 1280 ], - "area": 1156589.1345, + "area": 8771.844175, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Text-mining Approach" }, { - "id": 137308, - "strid": "c7c434f1-ebbb-4ee8-b126-3e6c0f47f805", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 1, - "category_name": "Title", + "id": 1277, + "strid": "e31192e6-e05c-4322-a87b-9bad574d72ea", + "image_id": 53, + "image_name": "11708.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 157.866, - 76.537, - 5194.609, - 109.186 + 37.746, + 358.856, + 240.63999999999996, + 36.872000000000014 ], - "priority": 1, + "priority": 10, "parents": [ - 137330 + 1276 ], "children": [], - "area": 12082.590042000002, + "area": 13545.378576000001, "iscrowd": 0, "segmentation": [], - "text": "Hepatitis B prevention of mother to child transmission integrated into antenatal care services in Mozambique" + "text": "JST DERPDY CORRE INE TOES E eS RET NS\nremoving duplcaesinonserta consclistatne comets\nicichindacrracirigina’):" }, { - "id": 137309, - "strid": "c4090dd7-3038-4524-9315-2c8b17f51e00", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1278, + "strid": "8376e8de-331a-4186-b8f1-24f85d59c51f", + "image_id": 53, + "image_name": "11708.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 80.606, - 292.036, - 3562.883, - 162.58800000000002 + 39.022, + 425.145, + 247.281, + 117.16999999999996 ], - "priority": 2, + "priority": 11, "parents": [ - 137330 + 1276 ], - "children": [], - "area": 23539.853816, + "children": [ + 1279 + ], + "area": 16590.008189999997, "iscrowd": 0, - "segmentation": [], - "text": "Aude Nguyen, Natalia Tamayo Antabak2, Maira Chanase Rodrigues Marra’, Natercia Madeira?, Lucas Molfino2, Nelly Staderini’, Anne Loarec*\n‘Médecins Sans Frontiéres, Geneva, Switzerland; 2 Médecins sans Frontiéres, Maputo, Mozambique; $Ministry of Health, Maputo, Mozambique; *Epicentre, Paris, France; ° Geneva\nUniversity Hospital, Geneva, Switzerland" + "segmentation": [] }, { - "id": 137310, - "strid": "5ac4f98a-773e-4e4c-8430-ab41ba05206f", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 5, - "category_name": "Section", + "id": 1279, + "strid": "73109cca-89d6-4339-8fd5-848ad5f68f07", + "image_id": 53, + "image_name": "11708.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 724.939, - 580.806, - 438.16999999999996, - 65.279 + 37.486, + 406.613, + 234.82, + 11.838000000000022 ], - "priority": 3, + "priority": 12, "parents": [ - 137330 - ], - "children": [ - 137318, - 137321, - 137316, - 137317 + 1278 ], - "area": 421048.920834, + "children": [], + "area": 15242.294918, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Figure 1. Flowchart illustrating search result compilation" }, { - "id": 137316, - "strid": "5e17b4eb-41a5-419e-b255-1b3c1d145eb3", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 4, - "category_name": "List", + "id": 1280, + "strid": "c68a17ed-4bfc-4072-82a7-446e5709799b", + "image_id": 53, + "image_name": "11708.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 120.636, - 725.335, - 1640.605, - 478.46900000000005 + 37.599, + 549.724, + 239.35500000000002, + 157.45400000000006 ], - "priority": 4, + "priority": 13, "parents": [ - 137310 + 1276 ], "children": [], - "area": 87501.51306, + "area": 20669.072676, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "AN Seawater et\nOur fistappraseh involved tox mining the completeset\nofsearch resultstorspecifictermsinboththetiteand\nabstract together. Fortis we found Endnotes Boolean\nSearen function quite adequate\n\nThis terievalcan be improved by using Endnotes Fine\nFull-text Function and subsequetysearehingthe ties,\nabevarsang ettached >DFsof the fullest stles,\nTherolect thismethadtstwoFola providesthe\ninfermationscientstswitha quickassessmentafthe\neffectiveness of ter search trates.\n\nWe Usedthiemethad a qulcelyidanty tuseswhigh\nwanvailinduigeersii ctoudilsuliradtionsknal" }, { - "id": 137317, - "strid": "66ea2afa-a6a1-4b73-a790-c5e299c0ce2b", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 4, - "category_name": "List", + "id": 1281, + "strid": "9ea817b6-14c2-4706-80d3-369280cdff9c", + "image_id": 53, + "image_name": "11708.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 118.078, - 1262.403, - 1602.548, - 240.38200000000006 + 38.103, + 720.103, + 237.156, + 231.769 ], - "priority": 5, + "priority": 14, "parents": [ - 137310 + 1276 ], "children": [], - "area": 149062.021434, + "area": 27438.084608999998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "eee eee\nWe perused the references andidentiedthe most\nfrequenttermspresentamngtilesof relevant\nstudies\n\nThese largely fellinto abroadcategories: study setting\nsiceacecf interestand study design Wesearched the\nIterature corpus tor these terme, grouping the results\nthese specifisearcnes separately (Figure). Where\nsimilasermeindicstaielovance|ag. tubercles,\ntuberculoma, tuberculous)» tuncated formafthe word\nwvasusedto search\n\nFach group wasscreened toramove studies whose\nrelevance wasunsure(toavoidexclucingrelavart\nstudies) Thiscycleof perusing andsearchingcontinved\nuntill majorsets of irelevant studies wereidentes,\ncach group was sereenedtoramove anyrelevant\nstudies. Remainingstudes werethen deemed tobe\nirelevantendexcladedTossrastcllyreducedthe\nnumber of titles which required screening," }, { - "id": 137318, - "strid": "c7d60d84-db1b-4e8e-bc4b-8be66b015e9a", - "image_id": 205823, - "image_name": "16067.png", + "id": 1282, + "strid": "e556f6e3-47c3-47b5-8617-a7c565f005b8", + "image_id": 53, + "image_name": "11708.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 138.369, - 1614.833, - 1641.99, - 1284.301 + 299.302, + 372.575, + 249.08299999999997, + 208.10200000000003 ], - "priority": 6, + "priority": 15, "parents": [ - 137310 + 1276 ], "children": [ - 137319 + 1283 ], - "area": 223442.827377, + "area": 111512.44265, "iscrowd": 0, "segmentation": [] }, { - "id": 137319, - "strid": "44239005-b4bc-4c23-bddb-d7093631d5b4", - "image_id": 205823, - "image_name": "16067.png", + "id": 1283, + "strid": "e9839220-ff1a-4dd3-8743-b9f4d60e282d", + "image_id": 53, + "image_name": "11708.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 130.402, - 2985.123, - 632.7929999999999, - 50.103999999999814 + 300.752, + 356.962, + 224.02400000000006, + 12.446000000000026 ], - "priority": 7, + "priority": 16, "parents": [ - 137318 + 1282 ], "children": [], - "area": 389266.009446, + "area": 107357.035424, "iscrowd": 0, "segmentation": [], - "text": "Fig1: Flow chart of pregnant women" + "text": "Figure 2. Removal of ineligible titles using text-mining" }, { - "id": 137321, - "strid": "e408e82e-3aba-478c-95b7-4aba0e6f27bb", - "image_id": 205823, - "image_name": "16067.png", + "id": 1284, + "strid": "0e72eb2c-7ff3-4bc7-8787-aa330f809eb8", + "image_id": 53, + "image_name": "11708.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 552.466, + 356.396, + 235.01200000000006, + 206.77100000000002 + ], + "priority": 17, + "parents": [ + 1276 + ], + "children": [], + "area": 196896.672536, + "iscrowd": 0, + "segmentation": [], + "text": "Stelbenk screening Aippatom:\nMany of the studs forwnien ullterscresningwas\nrequiredwerenat excluded curingthatitleand abstract\nsereening tages, simely because the study semIngas\nnot mentioned inthetitlertheabstrect or relevant\ndetaileware ambiguous.\n\nsence, full-tn screaningwasrequied fora spuntously\nlargenumberof articles, inorder to avoidan inflated\nworkload, we decided 1 perfor fulltertscreenngin\nmmultiplestages, the first stage which weuldbeto\nascertain the stady setting thus quickly exci,\nirelavantstudies\n\nOnlythen did we proceed oidentiy whether ornotthe\nanieleweetelevartferinlusionindurreviewarnot\n(Figured), Other eter whichwre used inludedthe\ncondition f eres (pneumonia andthedlseaseot\nidematipnouneriay." + }, + { + "id": 1285, + "strid": "fbbbdbd3-bad1-4fa2-b656-f0807dd185c1", + "image_id": 53, + "image_name": "11708.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 305.94, - 3153.713, - 1064.027, - 163.0 + 294.871, + 597.856, + 496.049, + 346.48299999999995 ], - "priority": 8, + "priority": 18, "parents": [ - 137310 + 1276 ], "children": [ - 137320 + 1286 ], - "area": 964846.95522, + "area": 176290.396576, "iscrowd": 0, "segmentation": [] }, { - "id": 137320, - "strid": "5f3ecfb3-a0f1-4e09-bd92-5e695145a8cb", - "image_id": 205823, - "image_name": "16067.png", + "id": 1286, + "strid": "15a00ae1-2cc4-4d74-820f-8b31916d3d16", + "image_id": 53, + "image_name": "11708.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 126.629, - 3372.843, - 444.14099999999996, - 44.95100000000002 + 296.176, + 599.627, + 159.69099999999997, + 12.636999999999944 ], - "priority": 9, + "priority": 19, "parents": [ - 137321 + 1285 ], "children": [], - "area": 427099.736247, + "area": 177595.126352, "iscrowd": 0, "segmentation": [], - "text": "Fig2: Outcomes of babies" + "text": "Figure 3, Full-text screening algorithm" }, { - "id": 137311, - "strid": "659eff49-b4e0-4bff-acc0-6b8002e63899", - "image_id": 205823, - "image_name": "16067.png", + "id": 1287, + "strid": "312143ab-516e-43d8-b576-755cedc81076", + "image_id": 53, + "image_name": "11708.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3537.09, - 581.087, - 308.56899999999996, - 65.88800000000003 + 28.168, + 953.842, + 77.35499999999999, + 14.734000000000037 ], - "priority": 10, + "priority": 20, "parents": [ - 137330 + 1267 ], "children": [ - 137322, - 137323, - 137324 + 1290, + 1288, + 1289 ], - "area": 2055357.01683, + "area": 26867.821455999998, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Conclusion" }, { - "id": 137322, - "strid": "f111e89c-a426-488c-ade8-aae150a3ea11", - "image_id": 205823, - "image_name": "16067.png", + "id": 1288, + "strid": "1a4b65c5-92a9-43c2-99d9-3579c41d1214", + "image_id": 53, + "image_name": "11708.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1989.281, - 717.741, - 1871.44, - 168.19799999999998 + 26.83, + 970.296, + 564.187, + 62.55600000000004 ], - "priority": 11, + "priority": 21, "parents": [ - 137311 + 1287 ], "children": [], - "area": 1427788.534221, + "area": 26033.04168, "iscrowd": 0, "segmentation": [], - "text": "Population: pregnant women attending antenatal care (ANC)\nLocation: Chamanculo maternity, Chamanculo General hospital, Maputo city, Mozambique\nApproval and collaboration with Mozambique Ministry of Health" + "text": "FRR ale ae Ra pin as eoenra pT rE Aine RiP lL He TNT Op NEO TONS\nto prionrize studies for screening based onthe presence (and relabve absence) ofkey terms anc phrases which ncceterelevace.\nHonvowe, acoasstosuch rescues are limited incesource poor setings,thushighighing the rol of manual ext miningstrateges,\ncuches those presentedhere. A naonstalheath and pneumonia are bethpriortyrecearch areas, wehope that our key terms, phrases\nsi pia Eins lg in schon gis La" }, { - "id": 137323, - "strid": "64e4286d-412d-417c-bb8c-26b8872d3ec2", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 4, - "category_name": "List", + "id": 1289, + "strid": "1fc89ab2-84fc-4b80-bc66-5b545d9c6ea8", + "image_id": 53, + "image_name": "11708.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1985.595, - 944.893, - 3223.1089999999995, - 506.24199999999996 - ], - "priority": 12, + 27.356, + 1049.843, + 539.456, + 39.759000000000015 + ], + "priority": 22, "parents": [ - 137311 + 1287 ], "children": [], - "area": 1876174.816335, + "area": 28719.505108000005, + "iscrowd": 0, + "segmentation": [], + "text": "ie aie Ga eB har NS PLES VILE NESE II EAN ay OOGE\nPP1084207) to The INCLEN Trust Intemational and sub-grant te Manipal University (subgrantINC201SGNTOO4). Publi\nHealth Evidence South Asia (PHESA), the Manipal University for necessary institutional and infrastructural support." + }, + { + "id": 1290, + "strid": "56fb752d-f0f6-4b4d-9a52-8e1daa2f0595", + "image_id": 53, + "image_name": "11708.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 600.001, + 959.369, + 195.91100000000006, + 132.00799999999992 + ], + "priority": 23, + "parents": [ + 1287 + ], + "children": [], + "area": 575622.359369, "iscrowd": 0, "segmentation": [] }, { - "id": 137324, - "strid": "0d37e354-7219-4732-af6f-08875e6583e6", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 3, - "category_name": "Text", + "id": 1291, + "strid": "dd26143f-60d6-44a5-b60d-a565099cc206", + "image_id": 54, + "image_name": "117126.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 1985.206, - 1508.044, - 2487.5209999999997, - 115.53899999999999 + 865.31, + 176.78, + 81.69000000000005, + 72.60999999999999 ], - "priority": 13, + "priority": -1, + "parents": [], + "children": [ + 1294, + 1318, + 1293, + 1309, + 1320, + 1304, + 1299, + 1292 + ], + "area": 152969.5018, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1292, + "strid": "03c7b9e6-4feb-492b-b7d1-99c37322501a", + "image_id": 54, + "image_name": "117126.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 227.565, + 40.141, + 547.0149999999999, + 66.51500000000001 + ], + "priority": 1, "parents": [ - 137311 + 1291 ], "children": [], - "area": 2993777.997064, + "area": 9134.686665, "iscrowd": 0, "segmentation": [], - "text": "Design:\nObservational retrospective analysis of routine data from November 2017 to end February 2019 (intermediate analysis)" + "text": "cele stooge cum abso be mesis les lec)\nstudied with en we}" }, { - "id": 137312, - "strid": "7c381ea3-d1fa-4a1a-b9ca-c78c5455e8ee", - "image_id": 205823, - "image_name": "16067.png", + "id": 1293, + "strid": "0d2efc9b-5583-422a-aa1d-ae579cf7c32e", + "image_id": 54, + "image_name": "117126.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 214.375, + 134.005, + 570.841, + 15.955000000000013 + ], + "priority": 2, + "parents": [ + 1291 + ], + "children": [], + "area": 28727.321874999998, + "iscrowd": 0, + "segmentation": [], + "text": "M Sandri ', P Berchialla *, D Gregori™ L Gottin ', V Sweiger ', E Polati ', RA De Biasi'" + }, + { + "id": 1294, + "strid": "5b78b2a5-2e97-4c77-a3e4-0b037c6c20a7", + "image_id": 54, + "image_name": "117126.png", "category_id": 5, "category_name": "Section", "bbox": [ - 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"priority": 16, + "priority": 7, "parents": [ - 137312 + 1294 ], "children": [], - "area": 8458858.476219, + "area": 275320.422828, "iscrowd": 0, "segmentation": [] }, { - "id": 137313, - "strid": "7fa1a231-df8b-440b-a5e1-8822dee19224", - "image_id": 205823, - "image_name": "16067.png", + "id": 1299, + "strid": "a556d2e3-4915-4094-8290-33eac0310445", + "image_id": 54, + "image_name": "117126.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2744.717, - 2690.114, - 408.9960000000001, - 65.18100000000004 + 242.704, + 443.142, + 159.666, + 16.75799999999998 ], - "priority": 17, + "priority": 8, "parents": [ - 137330 + 1291 ], "children": [ - 137326 + 1303, + 1300, + 1302, + 1301 ], - "area": 7383601.627738, + "area": 107552.335968, "iscrowd": 0, "segmentation": [], - "text": "Conclusion" + "text": "" }, { - "id": 137326, - "strid": "154d2eb0-d591-4e99-bb8c-c0ed5c5179f5", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 4, - "category_name": "List", + "id": 1300, + "strid": "baedd066-79e2-449b-8c9a-0d63e3b1e865", + "image_id": 54, + "image_name": "117126.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 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"image_id": 205823, - "image_name": "16067.png", + "id": 1302, + "strid": "36c370f2-b828-4ff2-8528-66b99eef2862", + "image_id": 54, + "image_name": "117126.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 241.476, + 544.229, + 648.467, + 87.29399999999998 + ], + "priority": 11, + "parents": [ + 1299 + ], + "children": [], + "area": 131418.242004, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1303, + "strid": "62f30b7e-1fb5-413d-ade9-08fe459b9011", + "image_id": 54, + "image_name": "117126.png", "category_id": 3, "category_name": "Text", "bbox": [ - 4060.379, - 2991.01, - 366.22299999999996, - 318.27700000000004 + 241.609, + 651.359, + 634.649, + 40.90300000000002 ], - "priority": 20, + "priority": 12, "parents": [ - 137314 + 1299 ], "children": [], - "area": 12144634.19279, + "area": 157374.19663100003, "iscrowd": 0, "segmentation": [], - "text": "We would like to\nthank all the staff\ninvolved in these\nactivities, the\npatients and the\nMinistry of Health." + "text": "al ea ameieanees Aenea eceieael: biel Stalks oa petit SUS a Eee rr\nwell time treatment [5] a.’ As" }, { - "id": 137315, - "strid": "f69d96a2-1ab3-4f2f-941f-2a93a0d6b3e1", - "image_id": 205823, - "image_name": "16067.png", + "id": 1304, + "strid": "626707e4-ec53-41dd-965e-0f04cbba5edb", + "image_id": 54, + "image_name": "117126.png", "category_id": 5, "category_name": "Section", "bbox": [ - 4874.338, - 2815.722, - 258.28300000000036, - 43.751000000000204 + 30.774, + 722.021, + 173.02, + 14.830000000000041 ], - "priority": 21, + "priority": 13, "parents": [ - 137330 + 1291 ], "children": [ - 137328 + 1305, + 1307, + 1306, + 1308 ], - "area": 13724780.742036, + "area": 22219.474254, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "" }, { - "id": 137328, - "strid": "7e82dfd3-36b3-428d-8f8d-fbb48f7a0076", - "image_id": 205823, - "image_name": "16067.png", - "category_id": 4, - "category_name": "List", + "id": 1305, + "strid": "aba3a4a7-cf4b-4a1d-8a57-c85af1d0d215", + "image_id": 54, + "image_name": "117126.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 4609.761, - 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35.978, - 750.568, - 3214.171, - 230.33899999999994 + 30.55, + 918.502, + 927.495, + 63.577999999999975 ], - "priority": 2, + "priority": 17, "parents": [ - 126079 + 1304 ], "children": [], - "area": 27003.935504, + "area": 28060.2361, "iscrowd": 0, "segmentation": [], - "text": "In the context of the Rare Disease Community, variant-calling workflows need to be validated, benchmarked and audited for the sake of quality and\nreproducibility. Software containers are suitable solutions to preserve reproducibility since they can run in isolation from other software on the same\nmachine, in a different OS version (or flavor), preserving the same exact configuration, codebase and dependencies present in the initial image. In other\nwords containers technology facilitate reproducibility of computations and reuse of software tools in workflows." + "text": "ad bi laa\nSe ete Tea\nmoat probable sequences of\n\nLeliadi tei Rattan ees ahaa lee ited Rie lee dad\nDynamic Bayesian Networks (DBNs) [6]. Thest were applied to model SOFA changes in\n>silures in a patients who experienced a first,kfeWn failure. ’" }, { - "id": 126060, - "strid": "a02a2f6a-fed6-4ac1-b14f-ce94f78e6e67", - "image_id": 205410, - "image_name": "15091.png", + "id": 1309, + "strid": "8f84066f-e03b-4020-b607-5c42791f79e8", + "image_id": 54, + "image_name": "117126.png", "category_id": 5, "category_name": "Section", "bbox": [ - 352.538, - 1009.924, - 1244.193, - 91.49499999999989 + 28.811, + 1023.539, + 59.522, + 15.31899999999996 ], - "priority": 3, + "priority": 18, "parents": [ - 126079 + 1291 ], "children": [ - 126066 + 1317, + 1310, + 1315, + 1311, + 1313, + 1314 ], - "area": 356036.587112, + "area": 29489.182129, "iscrowd": 0, "segmentation": [], - "text": "ELIXIR, BioContainers and Galaxy" + "text": "" }, { - "id": 126066, - "strid": "e9ea02e7-7c1f-4475-a512-61698b17896c", - "image_id": 205410, - "image_name": "15091.png", + "id": 1310, + "strid": "98260196-e567-4c5e-9b3f-64e7e19d2542", + "image_id": 54, + "image_name": "117126.png", "category_id": 3, "category_name": "Text", "bbox": [ - 38.825, - 1113.289, - 1557.368, - 707.011 + 27.394, + 1061.585, + 675.806, + 138.39200000000005 ], - "priority": 4, + "priority": 19, "parents": [ - 126060 + 1309 ], "children": [], - "area": 43223.445425000005, + "area": 29081.05949, "iscrowd": 0, "segmentation": [], - "text": "ELIXIR is on the forefront of the utilization of containers and is\ncollaborating across Europe in order to establish an infrastructure to allow\nend users to find, generate and benchmark software containers.\n\nPart of this infrastructure are ELIXIR initiatives such as BioContainers,\nOpenEBench, Bio.tools, and many more.\n\nGalaxy is a very popular platform used in Life Science, as in many other\nfields, to run analysis of large datasets typically in pipelines of tools or\nworkflows.\n\nBioContainers is “community-driven project that provides the\ninfrastructure and basic guidelines to create, manage and distribute\nbioinformatics packages and containers. BioContainers is based on the\npopular frameworks Conda, Docker and Singularity.”" + "text": "fo dale Baten has Rate eae dS\neee Sesto ret cee\n\npart eC ent eR ete tecoaon TC eC\n\nCe" }, { - "id": 126061, - "strid": "8a888b5e-2d19-4acc-8d27-fd9b4be0c3ed", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 5, - "category_name": "Section", + "id": 1311, + "strid": "90c1a764-2cdc-4cca-a768-7270151accc9", + "image_id": 54, + "image_name": "117126.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1265.8, - 1819.926, - 328.94100000000003, - 69.26299999999992 + 169.787, + 1240.736, + 161.73299999999998, + 172.9000000000001 ], - "priority": 5, + "priority": 20, "parents": [ - 126079 + 1309 ], "children": [ - 126067 + 1312 ], - "area": 2303662.3307999996, + "area": 210660.843232, "iscrowd": 0, - "segmentation": [], - "text": "" + "segmentation": [] }, { - "id": 126067, - "strid": "90eb02f4-d296-43da-a913-63511988f417", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 3, - "category_name": "Text", + "id": 1312, + "strid": "78a66466-696f-4a14-ac93-d45221e53212", + "image_id": 54, + "image_name": "117126.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 37.321, - 1919.323, - 1557.785, - 374.4469999999999 + 53.792, + 1280.499, + 103.34099999999998, + 131.8320000000001 ], - "priority": 6, + "priority": 21, "parents": [ - 126061 + 1311 ], "children": [], - "area": 71631.053683, + "area": 68880.602208, "iscrowd": 0, "segmentation": [], - "text": "We present a proof-of-concept workflow trom Laurie et al 2016 [1], based on\nBioContainers and Galaxy. It includes one aligner, one BAM processor and one\nvariant caller, see Fig. 1.\n\nMore specifically: Burrows Wheeler Aligner (BWA) is used to map NGS reads on\nthe reference genome, the samtools and bcftools packages to process the BAM\nfiles and call variants, respectively. The tools, installed from the main Galaxy\ntoolshed, see Fig. 2, were configured manually with Biocontainers images." + "text": "" }, { - "id": 126063, - "strid": "73571248-346d-4872-86e7-4a47fee1cd55", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 5, - "category_name": "Section", + "id": 1313, + "strid": "1983b913-b432-4fb8-ae49-fb3cf12ab9f0", + "image_id": 54, + "image_name": "117126.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1327.784, - 2317.4, - 265.8510000000001, - 69.41899999999987 + 346.055, + 1264.986, + 317.888, + 150.35899999999992 ], - "priority": 7, + "priority": 22, "parents": [ - 126079 - ], - "children": [ - 126068 + 1309 ], - "area": 3077006.6416, + "children": [], + "area": 437754.73023000004, "iscrowd": 0, - "segmentation": [], - "text": "Results" + "segmentation": [] }, { - "id": 126068, - "strid": "2dcea223-cdcd-46cf-82bf-ffea153c3f82", - "image_id": 205410, - "image_name": "15091.png", + "id": 1314, + "strid": "50a2e964-ed7b-4488-ab08-a9e12e45d0f3", + "image_id": 54, + "image_name": "117126.png", "category_id": 3, "category_name": "Text", "bbox": [ - 37.752, - 2427.873, - 1557.448, - 463.75300000000016 + 27.526, + 1482.738, + 492.36099999999993, + 14.196999999999889 ], - "priority": 8, + "priority": 23, "parents": [ - 126063 + 1309 ], "children": [], - "area": 91657.06149600001, + "area": 40813.846188, "iscrowd": 0, "segmentation": [], - "text": "To test the pipeline we used data from the NA12878 Platinum Genome FASTO files\n\nand the hg37 human genome as reference [2]. Tools were used with standard\n\nparameters.\n\nWe compared our results with the gold-standard VCF generated by the U.S.\n\nNational Institute of Standards and Technology (NIST) and the Genome in a Bottle\n\nConsortium [3] obtaining results on SNPs comparable with the golden standard:\nTrue Positive Rate (=Recall) = 99.7%\n\nPositive Predictive Value (=Precision) = 99.8%." + "text": "The more probable organ failures’ sequences we fouhd are represente@P igure 4." }, { - "id": 126076, - "strid": "66f8e5a0-0af2-470a-91c7-7a5c8dbc2b86", - "image_id": 205410, - "image_name": "15091.png", + "id": 1315, + "strid": "176239e7-cd1a-4c87-b3a3-0f8fab2c67e0", + "image_id": 54, + "image_name": "117126.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1669.028, - 1035.133, - 1576.8710000000003, - 467.8799999999999 + 729.968, + 1044.195, + 154.69500000000005, + 242.81999999999994 ], - "priority": 9, + "priority": 24, "parents": [ - 126079 + 1309 ], "children": [ - 126071 + 1316 ], - "area": 1727665.9607240001, + "area": 762228.9357599999, "iscrowd": 0, "segmentation": [] }, { - "id": 126071, - "strid": "c8ea0d6f-984c-4ebd-967d-c1ce0e97c9ab", - "image_id": 205410, - "image_name": "15091.png", + "id": 1316, + "strid": "4e7d5673-fc52-40c3-aec2-8527abab86d8", + "image_id": 54, + "image_name": "117126.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2024.548, - 1520.612, - 865.626, - 44.49199999999996 + 892.26, + 1146.954, + 89.02999999999997, + 132.48000000000002 ], - "priority": 10, + "priority": 25, "parents": [ - 126076 + 1315 ], "children": [], - "area": 3078551.983376, + "area": 1023381.1760399999, "iscrowd": 0, "segmentation": [], - "text": "Fig. 1 Schematic representation of the workflow" + "text": "" }, { - "id": 126077, - "strid": "16757d5a-d1a3-4372-a2e5-6c238b325c63", - "image_id": 205410, - "image_name": "15091.png", + "id": 1317, + "strid": "01fda537-3071-4730-9730-dbe627597a78", + "image_id": 54, + "image_name": "117126.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1669.007, - 1632.926, - 1576.8030000000003, - 414.81899999999996 + 693.718, + 1333.223, + 264.687, + 199.1980000000001 ], - "priority": 11, + "priority": 26, + "parents": [ + 1309 + ], + "children": [], + "area": 924880.7931139999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1318, + "strid": "c3f56e71-873a-4fe3-9801-eb2e16277544", + "image_id": 54, + "image_name": "117126.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 28.835, + 1544.888, + 91.805, + 16.026000000000067 + ], + "priority": 27, "parents": [ - 126079 + 1291 ], "children": [ - 126072 + 1319 ], - "area": 2725364.924482, + "area": 44546.845479999996, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 1319, + "strid": "67a4efe5-323d-4951-b083-995821e908df", + "image_id": 54, + "image_name": "117126.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 26.232, + 1582.869, + 928.297, + 66.7840000000001 + ], + "priority": 28, + "parents": [ + 1318 + ], + "children": [], + "area": 41521.819608, + "iscrowd": 0, + "segmentation": [], + "text": "ee ey Gipited Pose Om RC ad OO eee ello § Atala Coe\nCm eed SERCO enc promising prognostic tool for physicians eae Ce\nrena ey eh Pee et" + }, + { + "id": 1320, + "strid": "58d99a8f-1d5b-45b0-ab39-edab88dd6780", + "image_id": 54, + "image_name": "117126.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 25.179, + 1693.171, + 73.004, + 14.601000000000113 + ], + "priority": 29, + "parents": [ + 1291 + ], + "children": [ + 1321 + ], + "area": 42632.352609, + "iscrowd": 0, + "segmentation": [], + "text": "" + }, + { + "id": 1321, + "strid": "af291a48-f7ec-4fa8-9a36-f8d6ecab866e", + "image_id": 54, + "image_name": "117126.png", + "category_id": 4, + "category_name": "List", + "bbox": [ + 25.132, + 1718.229, + 962.012, + 40.51299999999992 + ], + "priority": 30, + "parents": [ + 1320 + ], + "children": [], + "area": 43182.53122800001, "iscrowd": 0, "segmentation": [] }, { - "id": 126072, - "strid": "2327b470-2a78-4747-b6bf-a2ac4cfb46b3", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 6, - "category_name": "Caption", + "id": 1322, + "strid": "5704a6e0-2996-4480-ae42-0c9dcc978311", + "image_id": 55, + "image_name": "117167.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2088.871, - 2065.861, - 736.4960000000001, - 43.19999999999982 + 29.58, + 24.79, + 30.410000000000004, + 255.42 ], - "priority": 12, + "priority": -1, + "parents": [], + "children": [ + 1327, + 1323, + 1325, + 1333, + 1324 + ], + "area": 733.2882, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1323, + "strid": "c6588a3a-b8b4-4233-90a4-573b1763aa3a", + "image_id": 55, + "image_name": "117167.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 96.559, + 87.464, + 4329.242, + 211.95599999999996 + ], + "priority": 1, "parents": [ - 126077 + 1322 ], "children": [], - "area": 4315317.132931, + "area": 8445.436376, "iscrowd": 0, "segmentation": [], - "text": "Fig. 2 Workflow representation in Galaxy" + "text": "Grey Matter Change in the Year Following the First Episode of.Mania: Association with Clinical Outcome\nProspective data from the Systematic Treatment Optimization Program for EarlyMania (STOP-EM)" }, { - "id": 126062, - "strid": "a02e3f90-5193-40fb-80cd-701649842010", - "image_id": 205410, - "image_name": "15091.png", + "id": 1324, + "strid": "f76e7fa8-b347-472f-8d2d-f4e0875420cf", + "image_id": 55, + "image_name": "117167.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 533.878, + 318.985, + 3450.312, + 186.503 + ], + "priority": 2, + "parents": [ + 1322 + ], + "children": [], + "area": 170299.07383, + "iscrowd": 0, + "segmentation": [], + "text": "Jan=Marie Kozicky, David J. Bond, Marjorie Gonzalez, lvanJ. Torres, Raymond W. Lam,4akshmi N. Yatham\nDepartmentoft Psychiatry, University of British Columbia; Vancouver, Canada" + }, + { + "id": 1325, + "strid": "bf7be93e-1312-4737-80f2-e315de01c6c8", + "image_id": 55, + "image_name": "117167.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1683.548, - 2137.789, - 386.82500000000005, - 67.35100000000011 + 169.094, + 673.125, + 326.204, + 76.99199999999996 ], - "priority": 13, + "priority": 3, "parents": [ - 126079 + 1322 ], "children": [ - 126069 + 1326 ], - "area": 3599070.3953720005, + "area": 113821.39875, "iscrowd": 0, "segmentation": [], - "text": "Discussion" + "text": "Background" }, { - "id": 126069, - "strid": "69f0e7c8-ca47-4c1a-9c2f-dff8770cb2a1", - "image_id": 205410, - "image_name": "15091.png", + "id": 1326, + "strid": "9caefb07-2743-426a-93e6-324f01a5af1c", + "image_id": 55, + "image_name": "117167.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1677.974, - 2243.83, - 1557.954, - 585.7150000000001 + 158.963, + 758.221, + 2018.008, + 332.2819999999999 ], - "priority": 14, + "priority": 4, "parents": [ - 126062 + 1325 ], "children": [], - "area": 3765088.40042, + "area": 120529.084823, "iscrowd": 0, "segmentation": [], - "text": "Containerized workflows provides a prominent advantage: the same fine tuned\nsteps of the computation can be available to each site that requires them\n\nand can be replicated even if the execution environments differ.\n\nThere are, however, few issues still to be addressed: potential version mismatch\ncaused by manual tool configuration, and the potential incompatibility between\nthe command line specified in the Galaxy tool and the container.\n\nBoth issues are being worked on by providing automatic container creation via\nConda, Mulled and Involucro.\n\nIn this way the exact same version and container will be used transparently (still\nbeta at the moment of writing)." + "text": "Neurodegeneration has been hypothesized to occur alongside illness progression in\nBipolar | Disorder (BDI). While prior studies suggest that grey matter loss may be\naccelerated in patients with BDI compared to healthy subjects, this is the first\ninvestigation to specifically compare the extent of these changes between patients\nwho experience an affective recurrence over follow-up to those who remain well." }, { - "id": 126064, - "strid": "918a8435-459c-48b5-aae8-c7e27c7befd4", - "image_id": 205410, - "image_name": "15091.png", + "id": 1327, + "strid": "6e30fca8-6c57-4b11-81ae-d07cace249f4", + "image_id": 55, + "image_name": "117167.png", "category_id": 5, "category_name": "Section", "bbox": [ - 963.95, - 2991.763, - 630.395, - 73.8739999999998 + 167.068, + 1201.94, + 245.16, + 56.730999999999995 ], - "priority": 15, + "priority": 5, "parents": [ - 126079 + 1322 ], "children": [ - 126075, - 126070 + 1330, + 1332, + 1331, + 1329, + 1328 ], - "area": 2883909.94385, + "area": 200805.71192000003, "iscrowd": 0, "segmentation": [], - "text": "Future directions" + "text": "Methods" }, { - "id": 126070, - "strid": "b88f0a33-e17c-45c3-ade8-6fed400c37b8", - "image_id": 205410, - "image_name": "15091.png", + "id": 1328, + "strid": "62ff2ec1-b69c-4eda-b221-58993607b3dc", + "image_id": 55, + "image_name": "117167.png", "category_id": 3, "category_name": "Text", "bbox": [ - 37.803, - 3102.874, - 1557.8470000000002, - 278.7539999999999 + 160.989, + 1278.932, + 2018.0079999999998, + 415.35300000000007 ], - "priority": 16, + "priority": 6, "parents": [ - 126064 + 1327 ], "children": [], - "area": 117297.94582199998, + "area": 205893.983748, "iscrowd": 0, "segmentation": [], - "text": "This proof-of-concept workflow is a stepping stone towards an effort in\nbenchmarking different workflow managers in executing a well established variant\ncalling pipeline, see Fig. 3. The same workflow will be implemented in NextFLow,\nCWL and Galaxy and the tools included in the workflow will run in containers [4].\nThe results will be available in OpenEBench." + "text": "41 patients with BDi who recently (<3 months) recovered from their first manic\nepisode and 23 healthy subjects (HS) underwent aT1- weighted 3T MRI scan at\nenrollment and again approximately 1 year later. Using voxel based morphometry\nwe compared whole brain grey matter volume between patients who remained well\n(BD,, 4; N=19) during this time period vs. experienced an affective recurrence\n\n(BD ;n=21; including depression (12), hypo/mania (6); or both (3)).\n\nrecurrl" }, { - "id": 126075, - "strid": "ea38bed7-4491-418a-b7c9-636dd1273aab", - "image_id": 205410, - "image_name": "15091.png", + "id": 1329, + "strid": "35c9a1b3-68fe-46c3-9759-cbeb9e263726", + "image_id": 55, + "image_name": "117167.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 171.12, + 1793.564, + 1955.1980000000003, + 735.479 + ], + "priority": 7, + "parents": [ + 1327 + ], + "children": [], + "area": 306914.67168, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1330, + "strid": "3c8a42fd-1933-4bbc-8a19-e6a2467a7e17", + "image_id": 55, + "image_name": "117167.png", + "category_id": 7, + "category_name": "Table", + "bbox": [ + 163.016, + 2628.323, + 2026.112, + 786.1309999999999 + ], + "priority": 8, + "parents": [ + 1327 + ], + "children": [], + "area": 428458.70216799993, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1331, + "strid": "3c983f6d-3a04-4acb-9627-c223b46f48ea", + "image_id": 55, + "image_name": "117167.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1774.227, - 2997.66, - 1381.9639999999997, - 943.136 + 2330.126, + 656.838, + 2028.161, + 1084.132 ], - "priority": 17, + "priority": 9, "parents": [ - 126064 - ], - "children": [ - 126073 + 1327 ], - "area": 5318529.30882, + "children": [], + "area": 1530515.301588, "iscrowd": 0, "segmentation": [] }, { - "id": 126073, - "strid": "317a8a03-db52-4295-a04b-a896cde5806a", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 6, - "category_name": "Caption", + "id": 1332, + "strid": "c1dd7008-b4a6-4ec6-94b6-1253cd6aca87", + "image_id": 55, + "image_name": "117167.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2053.441, - 3972.967, - 806.0799999999999, - 93.8710000000001 + 2330.126, + 1817.693, + 2024.8249999999998, + 1164.191 ], - "priority": 18, + "priority": 10, "parents": [ - 126075 + 1327 ], "children": [], - "area": 8158253.329446999, + "area": 4235453.719318001, "iscrowd": 0, - "segmentation": [], - "text": "Fig. 3 RD-Connect variant calling pipeline\nR. Tonda, S. Laurie, S.Berltran, et al. from [4]" + "segmentation": [] }, { - "id": 126078, - "strid": "6eaa51d6-31a7-4a70-a699-e2d7392a1d97", - "image_id": 205410, - "image_name": "15091.png", + "id": 1333, + "strid": "e45bb413-f692-4a2e-8249-9e6fff7ea399", + "image_id": 55, + "image_name": "117167.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1179.268, - 3773.666, - 389.4069999999999, - 63.84900000000016 + 2341.767, + 3059.56, + 301.9229999999998, + 59.22699999999986 ], - "priority": 19, + "priority": 11, "parents": [ - 126079 + 1322 ], "children": [ - 126074 + 1334 ], - "area": 4450163.556488, + "area": 7164776.642519999, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "Conclusion" }, { - "id": 126074, - "strid": "31c11099-b783-4937-8b29-4474c5fc2419", - "image_id": 205410, - "image_name": "15091.png", - "category_id": 4, - "category_name": "List", + "id": 1334, + "strid": "0e7abfd4-3ce8-496c-8e84-05dcc46bf8e3", + "image_id": 55, + "image_name": "117167.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 62.214, - 3871.666, - 1467.966, - 257.08200000000033 + 2340.746, + 3135.467, + 1975.6050000000005, + 267.2040000000002 ], - "priority": 20, + "priority": 12, "parents": [ - 126078 + 1333 ], "children": [], - "area": 240871.828524, + "area": 7339331.838382, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "BDI is a dynamic illness whereby episode recurrence and remission are\naccompanied by opposing changes in grey matter volume. These differences are\nfound early in the course of illness, and maintained even after accounting for other\n\nclinical or treatment factors." }, { - "id": 24496, - "strid": "a7384b83-9e6c-45e8-b453-557dde8b3014", - "image_id": 201483, + "id": 1335, + "strid": "61fad70c-6c81-4d5a-ad17-ff798e97ad8d", + "image_id": 56, "image_name": "117192.png", "category_id": 9, "category_name": "Root", @@ -38009,24 +34090,24 @@ "priority": -1, "parents": [], "children": [ - 24473, - 24470, - 24475, - 24468, - 24476, - 24469, - 24474, - 24472, - 24495 + 1363, + 1346, + 1360, + 1337, + 1336, + 1341, + 1338, + 1339, + 1362 ], "area": 22269.082599999998, "iscrowd": 0, "segmentation": [] }, { - "id": 24468, - "strid": "bf933651-2737-4b90-bfc5-ce0cb31c31c3", - "image_id": 201483, + "id": 1336, + "strid": "22230b70-b284-438d-9357-9ee4f3d33695", + "image_id": 56, "image_name": "117192.png", "category_id": 1, "category_name": "Title", @@ -38038,7 +34119,7 @@ ], "priority": 1, "parents": [ - 24496 + 1335 ], "children": [], "area": 33498.923162, @@ -38047,9 +34128,9 @@ "text": "High blood cytokine levels are linked to decreased verbal fluency and\nBroca’s area volume in schizophrenia" }, { - "id": 24469, - "strid": "85899a7d-344c-4ec7-bf04-d2f1d7d27985", - "image_id": 201483, + "id": 1337, + "strid": "117f4d18-6c26-4787-987f-62f6befb0ac3", + "image_id": 56, "image_name": "117192.png", "category_id": 0, "category_name": "Author Info", @@ -38061,7 +34142,7 @@ ], "priority": 2, "parents": [ - 24496 + 1335 ], "children": [], "area": 179460.24498299998, @@ -38070,9 +34151,9 @@ "text": "Thomas W. Weickert 1:23, Stu G. Fillman 1.43, Rhoshel Lenroot '2, Jason Bruggemann *%, Cynthia Shannon Weickert 1:23\n'School of Psychiatry, University of New South Wales, 7Neuroscience Research Australia, $Schizophrenia Research Institute" }, { - "id": 24470, - "strid": "07492f40-1a47-4a35-bf4b-2fc7f10ebb59", - "image_id": 201483, + "id": 1338, + "strid": "eab0520a-ecda-4f6f-8b36-8e25406c692b", + "image_id": 56, "image_name": "117192.png", "category_id": 3, "category_name": "Text", @@ -38084,7 +34165,7 @@ ], "priority": 3, "parents": [ - 24496 + 1335 ], "children": [], "area": 7789.603116, @@ -38093,9 +34174,9 @@ "text": "Background: Psychotic symptoms, cognitive impairment, and treatment\nresponse are variable in schizophrenia, highlighting heterogeneity in the etiology\nand presentation of the illness and a critical need for novel treatment approaches\ntargeting subgroups with shared features. One subgroup of people with\nschizophrenia is characterized by those patients with increased inflammation.\nCytokines initiate immunological responses and one of the leading theories\nregarding the etiology of schizophrenia based on epidemiology suggests that\nearly maternal inflammation may produce abnormal neurodevelopment leading to\nincreased risk for schizophrenia in the offspring. There is increasing evidence that\ncytokines and in particular Interleukin 1-beta (IL-1B) may be altered in adults with\nschizophrenia. IL-18 mRNA and protein levels have been shown to be\nsignificantly increased in serum, plasma, cerebrospinal fluid and brain tissue in\nsubsets of chronically ill adults with schizophrenia and first episode psychosis.\nFurther support for immune dysregulation in schizophrenia comes from genetic\nstudies in which allelic variation in the IL-1B gene has been associated with a\ndiagnosis of schizophrenia and IL-16 risk alleles have been associated with\nabnormal prefrontal cortex activity and reduced prefrontal gray matter in\nschizophrenia. In rodents, pregnant dam exposure to II-B and TNFa reduced\ndendrites and dendritic length in pups. Stress triggers symptoms in schizophrenia\nand, in rodents, increases IL-18 in the hippocampus and IL-18 can inhibit adult\nhippocampal neurogenesis which can be reversed by blockade of IL-1.\nPeripheral and central IL-18 administration elicits anhedonia and deficits in social\ninteraction and memory, which are similar to deficits found in schizophrenia." }, { - "id": 24473, - "strid": "0be1862e-7701-4798-9c9e-2a2c0b48e233", - "image_id": 201483, + "id": 1339, + "strid": "c03d950e-3ceb-491d-b0e0-696da465d243", + "image_id": 56, "image_name": "117192.png", "category_id": 5, "category_name": "Section", @@ -38107,10 +34188,10 @@ ], "priority": 4, "parents": [ - 24496 + 1335 ], "children": [ - 24477 + 1340 ], "area": 1025937.101112, "iscrowd": 0, @@ -38118,9 +34199,9 @@ "text": "Hypotheses" }, { - "id": 24477, - "strid": "d2bae405-f0a9-4847-a29e-3cca7d452452", - "image_id": 201483, + "id": 1340, + "strid": "6774e33e-1048-4583-b78a-96d7c9116c4f", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38132,7 +34213,7 @@ ], "priority": 5, "parents": [ - 24473 + 1339 ], "children": [], "area": 123903.631484, @@ -38140,9 +34221,9 @@ "segmentation": [] }, { - "id": 24474, - "strid": "6bebf2d9-b9fe-4aa9-8919-d033d52a6670", - "image_id": 201483, + "id": 1341, + "strid": "0bf5b606-9ca1-49f0-88b9-e70af934df68", + "image_id": 56, "image_name": "117192.png", "category_id": 5, "category_name": "Section", @@ -38154,12 +34235,12 @@ ], "priority": 6, "parents": [ - 24496 + 1335 ], "children": [ - 24478, - 24471, - 24494 + 1343, + 1345, + 1342 ], "area": 1559544.609348, "iscrowd": 0, @@ -38167,9 +34248,9 @@ "text": "Methods" }, { - "id": 24471, - "strid": "e4568f63-970b-4d94-ac73-24ef0c207ef5", - "image_id": 201483, + "id": 1342, + "strid": "658482a8-7265-4360-b1cb-ff381931c4a1", + "image_id": 56, "image_name": "117192.png", "category_id": 3, "category_name": "Text", @@ -38181,7 +34262,7 @@ ], "priority": 7, "parents": [ - 24474 + 1341 ], "children": [], "area": 36026.923904999996, @@ -38190,9 +34271,9 @@ "text": "In a sample of 42 people with schizophrenia or schizoaffective disorder\n(all on antipsychotics) and 42 age and sex matched healthy controls we\nassayed cytokine (IL1B, IL8, IL6, IL18 and IL2) mRNA levels from white\nblood cells by qPCR, cognition (4 subtest version of WAIS-III |Q and\nCOWAT verbal fluency) and structural MRI." }, { - "id": 24494, - "strid": "617dd4fd-c67f-4546-a2a8-580cd730380c", - "image_id": 201483, + "id": 1343, + "strid": "d7e867a2-7147-4902-9c85-719c605f9965", + "image_id": 56, "image_name": "117192.png", "category_id": 7, "category_name": "Table", @@ -38204,19 +34285,19 @@ ], "priority": 8, "parents": [ - 24474 + 1341 ], "children": [ - 24485 + 1344 ], "area": 54236.892688, "iscrowd": 0, "segmentation": [] }, { - "id": 24485, - "strid": "d91cbec1-8970-40e4-baaf-bfe5ab9080d3", - "image_id": 201483, + "id": 1344, + "strid": "a74cee76-ab46-4135-b0ee-215f4442b749", + "image_id": 56, "image_name": "117192.png", "category_id": 6, "category_name": "Caption", @@ -38228,7 +34309,7 @@ ], "priority": 9, "parents": [ - 24494 + 1343 ], "children": [], "area": 95760.25008, @@ -38237,9 +34318,9 @@ "text": "Table 1: Demographics of schizophrenia and matched control subjects in the New South Wales Tissue Resource Center\npost-mortem brain tissue cohort." }, { - "id": 24478, - "strid": "bf40b3d3-c673-42d4-bb6b-f34c872f19b0", - "image_id": 201483, + "id": 1345, + "strid": "a43f8634-c977-41a5-b629-1ae79e5bba82", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38251,7 +34332,7 @@ ], "priority": 10, "parents": [ - 24474 + 1341 ], "children": [], "area": 97592.50348, @@ -38259,9 +34340,9 @@ "segmentation": [] }, { - "id": 24475, - "strid": "eb567185-9f37-4d26-a410-1d888ad3284a", - "image_id": 201483, + "id": 1346, + "strid": "d82ec26f-c5c8-4fb6-b6d4-819717b07344", + "image_id": 56, "image_name": "117192.png", "category_id": 5, "category_name": "Section", @@ -38273,18 +34354,18 @@ ], "priority": 11, "parents": [ - 24496 + 1335 ], "children": [ - 24493, - 24490, - 24479, - 24491, - 24483, - 24482, - 24481, - 24484, - 24492 + 1351, + 1354, + 1350, + 1347, + 1353, + 1356, + 1357, + 1359, + 1348 ], "area": 1042166.07971, "iscrowd": 0, @@ -38292,9 +34373,9 @@ "text": "Results" }, { - "id": 24484, - "strid": "fe35d46c-d473-433c-b7e7-204edf7d149f", - "image_id": 201483, + "id": 1347, + "strid": "613ad83a-5237-40fd-891f-0b1e0566c6cd", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38306,7 +34387,7 @@ ], "priority": 12, "parents": [ - 24475 + 1346 ], "children": [], "area": 939068.8998670001, @@ -38314,9 +34395,9 @@ "segmentation": [] }, { - "id": 24493, - "strid": "7bd53c2e-1aa4-44c4-ba88-2b6efe1d409b", - "image_id": 201483, + "id": 1348, + "strid": "ac7a63bc-5c8a-4bcb-b083-4250a2784662", + "image_id": 56, "image_name": "117192.png", "category_id": 2, "category_name": "Figure", @@ -38328,19 +34409,19 @@ ], "priority": 13, "parents": [ - 24475 + 1346 ], "children": [ - 24487 + 1349 ], "area": 2602578.799575, "iscrowd": 0, "segmentation": [] }, { - "id": 24487, - "strid": "ddc7f065-b6bf-46fd-967a-67867ce51bca", - "image_id": 201483, + "id": 1349, + "strid": "bfb93edc-b8a2-4325-8d0d-5d074fcbfab9", + "image_id": 56, "image_name": "117192.png", "category_id": 6, "category_name": "Caption", @@ -38352,7 +34433,7 @@ ], "priority": 14, "parents": [ - 24493 + 1348 ], "children": [], "area": 4050850.0101329996, @@ -38361,9 +34442,9 @@ "text": "Figure 1. Subgroups of patients and controls\ncharacterized by high and low cytokine levels in brain and\nblood." }, { - "id": 24483, - "strid": "7ac19967-0b30-4d21-a2ba-38ef6b2f74d1", - "image_id": 201483, + "id": 1350, + "strid": "132f943e-95aa-47bc-ba87-b16a473e2ad7", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38375,7 +34456,7 @@ ], "priority": 15, "parents": [ - 24475 + 1346 ], "children": [], "area": 4447251.011247001, @@ -38383,9 +34464,9 @@ "segmentation": [] }, { - "id": 24490, - "strid": "a9c0151f-0e8c-4d29-8bed-51cd01c0e717", - "image_id": 201483, + "id": 1351, + "strid": "1e6bedbf-badd-4764-a7f7-0aac58e7d591", + "image_id": 56, "image_name": "117192.png", "category_id": 2, "category_name": "Figure", @@ -38397,19 +34478,19 @@ ], "priority": 16, "parents": [ - 24475 + 1346 ], "children": [ - 24486 + 1352 ], "area": 5642814.452165999, "iscrowd": 0, "segmentation": [] }, { - "id": 24486, - "strid": "f743642d-49b2-45f9-af12-87a7eb863468", - "image_id": 201483, + "id": 1352, + "strid": "0752c8e5-d3b0-4dc1-849a-70cd69ecf105", + "image_id": 56, "image_name": "117192.png", "category_id": 6, "category_name": "Caption", @@ -38421,7 +34502,7 @@ ], "priority": 17, "parents": [ - 24490 + 1351 ], "children": [], "area": 7277833.166601, @@ -38430,9 +34511,9 @@ "text": "Figure 2. Peripheral IL-1B mRNA levels in schizophrenia\nand healthy control groups, ** p < .009." }, { - "id": 24479, - "strid": "f2ff8684-92ed-427a-9b51-2fb4cc383e83", - "image_id": 201483, + "id": 1353, + "strid": "9351203b-2805-4c0e-bcb1-228a5ffcd9da", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38444,7 +34525,7 @@ ], "priority": 18, "parents": [ - 24475 + 1346 ], "children": [], "area": 7680344.058379999, @@ -38452,9 +34533,9 @@ "segmentation": [] }, { - "id": 24492, - "strid": "586bfcf6-8073-4ad3-a399-82f1042d90d4", - "image_id": 201483, + "id": 1354, + "strid": "70a613ea-1d49-4c07-b76a-0cb9ac427f51", + "image_id": 56, "image_name": "117192.png", "category_id": 2, "category_name": "Figure", @@ -38466,19 +34547,19 @@ ], "priority": 19, "parents": [ - 24475 + 1346 ], "children": [ - 24488 + 1355 ], "area": 2424099.392622, "iscrowd": 0, "segmentation": [] }, { - "id": 24488, - "strid": "1f829c07-4bd1-42cf-8ab5-3a8eb721228a", - "image_id": 201483, + "id": 1355, + "strid": "c6afa576-cf86-487b-bf82-05ad4c502691", + "image_id": 56, "image_name": "117192.png", "category_id": 6, "category_name": "Caption", @@ -38490,7 +34571,7 @@ ], "priority": 20, "parents": [ - 24492 + 1354 ], "children": [], "area": 1517758.742088, @@ -38499,9 +34580,9 @@ "text": "Figure 3. Correlation between verbal fluency (as measured\nby COWAT letter fluency) and peripheral IL-1B levels in\npeople with schizophrenia with high and low cytokine levels.\n\nCOWAT and IL1B mRNA Expression in Cytokine Groups" }, { - "id": 24482, - "strid": "eebc3ca6-3f68-4700-a9f3-a98451c25ccc", - "image_id": 201483, + "id": 1356, + "strid": "698d9953-7854-4df5-9125-bde07aed3762", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38513,7 +34594,7 @@ ], "priority": 21, "parents": [ - 24475 + 1346 ], "children": [], "area": 5995334.1968, @@ -38521,9 +34602,9 @@ "segmentation": [] }, { - "id": 24491, - "strid": "57a0fdd3-9455-402b-af94-00e2c2b78add", - "image_id": 201483, + "id": 1357, + "strid": "fc560024-9839-4f25-b6ef-a7e803296bcb", + "image_id": 56, "image_name": "117192.png", "category_id": 2, "category_name": "Figure", @@ -38535,19 +34616,19 @@ ], "priority": 22, "parents": [ - 24475 + 1346 ], "children": [ - 24489 + 1358 ], "area": 7104959.111657, "iscrowd": 0, "segmentation": [] }, { - "id": 24489, - "strid": "4298f7c9-4942-49ba-9deb-7ecc7869aabb", - "image_id": 201483, + "id": 1358, + "strid": "5290ab6f-1169-41b4-a547-71d9653fce29", + "image_id": 56, "image_name": "117192.png", "category_id": 6, "category_name": "Caption", @@ -38559,7 +34640,7 @@ ], "priority": 23, "parents": [ - 24491 + 1357 ], "children": [], "area": 6456190.298445, @@ -38568,9 +34649,9 @@ "text": "Figure 4. Significant difference in Broca’s area volume in\npatients with schizophrenia who have high levels of\nperipheral cytokines" }, { - "id": 24481, - "strid": "d9a83858-c33a-45ba-8f89-88b854c1da47", - "image_id": 201483, + "id": 1359, + "strid": "aa1bf30e-32bf-4c50-b038-72277b72d6ab", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38582,7 +34663,7 @@ ], "priority": 24, "parents": [ - 24475 + 1346 ], "children": [], "area": 10536305.899, @@ -38590,9 +34671,9 @@ "segmentation": [] }, { - "id": 24476, - "strid": "e6b69498-3e42-4fd4-9f57-407e36ddf5ca", - "image_id": 201483, + "id": 1360, + "strid": "7dda2510-b43a-4c9d-b975-7f9c62863036", + "image_id": 56, "image_name": "117192.png", "category_id": 5, "category_name": "Section", @@ -38604,10 +34685,10 @@ ], "priority": 25, "parents": [ - 24496 + 1335 ], "children": [ - 24480 + 1361 ], "area": 14057326.306548, "iscrowd": 0, @@ -38615,9 +34696,9 @@ "text": "Conclusions" }, { - "id": 24480, - "strid": "d6f2b9ce-0259-409e-9778-d7e3f0e099e7", - "image_id": 201483, + "id": 1361, + "strid": "c8bc0621-8103-4036-8c80-e980def770af", + "image_id": 56, "image_name": "117192.png", "category_id": 4, "category_name": "List", @@ -38629,7 +34710,7 @@ ], "priority": 26, "parents": [ - 24476 + 1360 ], "children": [], "area": 12479508.65142, @@ -38637,9 +34718,9 @@ "segmentation": [] }, { - "id": 24472, - "strid": "d2f7c46f-8715-4e94-8aa1-ece6518e1158", - "image_id": 201483, + "id": 1362, + "strid": "36a20b22-6b8d-4209-b862-9fdb1f32cca8", + "image_id": 56, "image_name": "117192.png", "category_id": 3, "category_name": "Text", @@ -38651,7 +34732,7 @@ ], "priority": 27, "parents": [ - 24496 + 1335 ], "children": [], "area": 14168481.011888, @@ -38660,9 +34741,9 @@ "text": "Reference\n1 Fillman S, ...Weickert CS. 2013. Increased inflammatory\nmarkers identified in the dorsolateral prefrontal cortex of\nindividuals with schizophrenia. Mol Psychiatry\ndoi:10.1038/mp.2012.110" }, { - "id": 24495, - "strid": "efd49cb0-c169-4a22-bde3-b6429452761e", - "image_id": 201483, + "id": 1363, + "strid": "36d721f0-891a-4850-b323-6dfa97587a7c", + "image_id": 56, "image_name": "117192.png", "category_id": 3, "category_name": "Text", @@ -38674,7 +34755,7 @@ ], "priority": 28, "parents": [ - 24496 + 1335 ], "children": [], "area": 15911886.610086, @@ -38683,40550 +34764,43152 @@ "text": "All authors report no conflicts of interest." }, { - "id": 178561, - "strid": "82973315-9902-424e-9187-4b170447d2d4", - "image_id": 207469, - "image_name": "8225.png", + "id": 1364, + "strid": "18d57daf-8ad4-4ea2-ad75-cb3203aa73ed", + "image_id": 57, + "image_name": "117198.png", "category_id": 9, "category_name": "Root", "bbox": [ - 12.41, - 9.23, - 39.34, - 20.52 + 16.96, + 276.79, + 206.76999999999998, + 176.35999999999996 ], "priority": -1, "parents": [], "children": [ - 178549, - 178556, - 178550, - 178552, - 178557, - 178560, - 178559, - 178551 + 1383, + 1365, + 1367, + 1381, + 1371, + 1366, + 1386, + 1385, + 1373, + 1369 ], - "area": 114.5443, + "area": 4694.358400000001, "iscrowd": 0, "segmentation": [] }, { - "id": 178549, - "strid": "aee3c982-8e74-4471-85ac-162110b95c36", - "image_id": 207469, - "image_name": "8225.png", + "id": 1365, + "strid": "2ccfba06-6eaf-432b-b661-3366b16a5175", + "image_id": 57, + "image_name": "117198.png", "category_id": 1, "category_name": "Title", "bbox": [ - 26.832, - 39.778, - 692.119, - 51.248 + 220.223, + 72.95, + 1551.94, + 125.83300000000001 ], "priority": 1, "parents": [ - 178561 + 1364 ], "children": [], - "area": 1067.323296, + "area": 16065.267850000002, "iscrowd": 0, "segmentation": [], - "text": "Chromosomal, molecular and morphological analysis of a human\nembryo with homogeneous trisomy of chromosome 8" + "text": "Urinary chitinase 3-like 1, a novel biomarker for acute kidney injury\nin adult cardiac intensive care patients: a pilot study" }, { - "id": 178550, - "strid": "9bac8242-4df4-4296-b8bf-1c28d408d47e", - "image_id": 207469, - "image_name": "8225.png", + "id": 1366, + "strid": "f04f09f2-0f63-486c-8382-05951bf253bc", + "image_id": 57, + "image_name": "117198.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 74.298, - 111.237, - 598.379, - 40.16299999999998 + 221.31, + 199.466, + 1579.829, + 194.76800000000003 ], "priority": 2, "parents": [ - 178561 + 1364 ], "children": [], - "area": 8264.686626, + "area": 44143.82046, "iscrowd": 0, "segmentation": [], - "text": "Géraldine Goudefroye’, Jessica Guirchon’, Catherine Ozilou”, Nicole Morichon-Delvallez’, Amold Munnich',\nMichel Vekemans\"2, Tania Attis-Bitach':? and Heather Etchevers*\n‘Service de Cylogénétique’ end INSERM U303', Hopital Necker — Enfants Matedes, 149 rue de Séwee, 75743 Peri Cedex 18, France" + "text": "Jorien De Loor’, Eric Hoste’, Ingrid Herck’, Katrien Francois’, Luc De Crop’, Charlotte Clauwaert’,\n\nKristel Demeyere’, and Evelyne Meyer’\n* Department of Pharmacology, Toxicology and Biochemistry, Faculty of Veterinary Medicine, Ghent University, 9820 Merelbeke, Belgium,\nJorien.DeLoor@UGent.be\n? Faculty of Medicine and Health Sciences, Ghent University, 9000 Gent, Belgium" }, { - "id": 178551, - "strid": "1deccb9c-0485-468f-94a5-b8419edf507a", - "image_id": 207469, - "image_name": "8225.png", + "id": 1367, + "strid": "98abbf29-b382-4fd4-94b4-c2fa4b18aa60", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 353.931, + 471.415, + 201.60600000000005, + 31.487000000000023 + ], + "priority": 3, + "parents": [ + 1364 + ], + "children": [ + 1368 + ], + "area": 166848.382365, + "iscrowd": 0, + "segmentation": [], + "text": "Introduction" + }, + { + "id": 1368, + "strid": "d31d0a07-5b52-4399-9a34-f6f1037f2d70", + "image_id": 57, + "image_name": "117198.png", "category_id": 3, "category_name": "Text", "bbox": [ - 60.478, - 186.607, - 633.139, - 73.72 + 61.99, + 515.725, + 786.401, + 296.86199999999997 ], - "priority": 3, + "priority": 4, "parents": [ - 178561 + 1367 ], "children": [], - "area": 11285.618146, + "area": 31969.792750000004, "iscrowd": 0, "segmentation": [], - "text": "Our group studies developmental gene expression in normal human embryos obtained from voluntary interruptions of\npregnancy, in accordance with ethical guidelines established by French law. A chromosomal anomaly was suspected in one\nhuman embryo at Carnegie stage 11 (-25 days of development) on the basis of abnormal morphology. The embryo had\nsevere malformations of the cardiovascular and central nervous systems. The karyotype of its chorionic villus sample showed\na homogeneous trisomy of chromosome 8, whereas FQ-PCR analysis confirmed the meiotic origin of the non-" + "text": "As much as 66% of human intensive care unit (ICU) patients develop\nacute kidney injury (AKI).2? In the majority of ICU patients, AKI is a\ncomplication of severe disease such as sepsis.* Importantly, both less\nsevere and severe AKI are independently associated with an\nincreased risk for worse outcomes.’Recent definition and staging\nsystems for AKI, although validated in numerous studies and over\n1.000.000 patients, recognize the limitations of both serum\ncreatinine (SCr) and urine output (UO) for the early detection and\naccurate estimation of AKI." }, { - "id": 178556, - "strid": "258e39ba-dc19-422b-baae-3149fe9220dd", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 2, - "category_name": "Figure", + "id": 1369, + "strid": "ff837182-8459-422f-a437-8845a33d73ae", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 117.6, - 295.944, - 158.371, - 257.607 + 1282.141, + 454.001, + 324.539, + 36.97300000000001 ], - "priority": 4, + "priority": 5, "parents": [ - 178561 + 1364 ], "children": [ - 178553 + 1370 ], - "area": 34803.0144, + "area": 582093.296141, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Aim and hypothesis" }, { - "id": 178553, - "strid": "00ed8190-2a2d-4be5-af55-6405580d14ad", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 6, - "category_name": "Caption", + "id": 1370, + "strid": "2fe0115a-83ba-4f8f-972a-d4384d7d5dbb", + "image_id": 57, + "image_name": "117198.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 76.924, - 557.018, - 244.41100000000003, - 50.972999999999956 + 894.686, + 499.531, + 1101.7529999999997, + 332.368 ], - "priority": 5, + "priority": 6, "parents": [ - 178556 + 1369 ], "children": [], - "area": 42848.052632000006, + "area": 446923.39226600004, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Our aim is to investigate the potential added value of urinary chitinase 3-like 1 (CHI3L1, YKL-40,\nBRP-39, cartilage glycoprotein 1, GP-39, HcGP-39) as a more early and specific diagnostic\nbiomarker for AKI in adult ICU patients that underwent elective cardiac surgery. The protein\nCHI3L1 was recently discovered in our group as a promising urinary AKI biomarker by shotgun\nproteomics in a novel in-house developed mouse sepsis model that reproducibly induces AKI.”°\nPreliminary clinical validation of the human orthologue protein in septic patients with and\nwithout AKI showed that urinary CHI3L1 (UCHI3L1) was markedly more excreted in human septic\npatients with than without AKI.°\n\nWe therefore hypothesize that UCHI3L1 is a superior biomarker for AKI in ICU patients than the\nroutinely used parameter SCr." }, { - "id": 178557, - "strid": "a0476011-3a42-46c3-82a3-a95a0c7a9926", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 2, - "category_name": "Figure", + "id": 1371, + "strid": "a32da3a8-2b0a-4d78-839f-2885b092d908", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 360.172, - 291.424, - 309.96000000000004, - 230.452 + 841.24, + 870.766, + 376.3399999999999, + 32.16399999999999 ], - "priority": 6, + "priority": 7, "parents": [ - 178561 + 1364 ], "children": [ - 178554 + 1372 ], - "area": 104962.764928, + "area": 732523.18984, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Materials and methods" }, { - "id": 178554, - "strid": "ed696799-3d15-4419-a6a6-4f4097670217", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 6, - "category_name": "Caption", + "id": 1372, + "strid": "ecd25573-b30c-447c-a404-d907c42972b7", + "image_id": 57, + "image_name": "117198.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 357.33, - 533.022, - 314.107, - 73.02700000000004 + 61.952, + 913.948, + 1934.448, + 232.22300000000007 ], - "priority": 7, + "priority": 8, "parents": [ - 178557 + 1371 ], "children": [], - "area": 190464.75126000002, + "area": 56620.906495999996, "iscrowd": 0, "segmentation": [], - "text": "fang wes ra maps rr ne ed Rn heat aa\nfren ns sna inane eager sce 1 ata a\nSe pi a tcp er oc om a\nsaya He py ach fm pong: aap sar\"" + "text": "The prospective single-center cohort study started in May 2012 in an academic cardiac surgery ICU. Blood and urine were collected preoperatively (baseline), at ICU\nadmission and at several time points until 48 hours (h) after ICU admission. Patients of age < 18 years were excluded, as well as patients with pre-existing AKI based on the\nKDIGO SCr and UO criteria, and patients with chronic kidney disease KDOQI stage 5 and/or with recent renal transplantation (< 3 months before cardiac surgery). For this\ninterim analysis, AKI was defined on KDIGO SCr criteria only. Baseline SCr was assessed as the SCr concentration measured before start of cardiac surgery. Urinary CHI3L1\nwas normalized to urinary creatinine (UCr). Data are expressed as median (interquartile range) and percentage (%).\n\nThe CHI3L1 level in serum and urine was determined with a commercially available research ELISA (DC3L10, R&D Systems), while both SCr and UCr were measured using\nthe kinetic Jaffé method (Cobas 8000, Roche, compensated)." }, { - "id": 178559, - "strid": "b98d79fb-a6b6-458a-a6f2-17844e24d476", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 2, - "category_name": "Figure", + "id": 1373, + "strid": "630e389e-9160-4f79-a77a-4dda0ab46c6b", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 67.772, - 654.775, - 271.17, - 223.10699999999997 + 968.609, + 1182.698, + 119.85900000000004, + 31.214999999999918 ], - "priority": 8, + "priority": 9, "parents": [ - 178561 + 1364 ], "children": [ - 178558 + 1377, + 1379, + 1375, + 1374, + 1380 ], - "area": 44375.4113, + "area": 1145571.927082, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results" }, { - "id": 178558, - "strid": "8b0b2953-d361-40b3-9980-55cc086eca42", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 6, - "category_name": "Caption", + "id": 1374, + "strid": "7cfafbb1-3603-4759-9a77-61d685bc8674", + "image_id": 57, + "image_name": "117198.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 121.193, - 654.855, - 157.90300000000002, - 8.613000000000056 + 60.145, + 1225.601, + 1938.542, + 302.5039999999999 ], - "priority": 9, + "priority": 10, "parents": [ - 178559 + 1373 ], "children": [], - "area": 79363.842015, + "area": 73713.77214500001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Data for 33 patients (18 males, 15 females) were generated for interim analysis. Eleven patients (33 %), of which 7 females, developed AKI: 8 with AKI reaching KDIGO class\n1 (24%), 2 with AKI reaching KDIGO class 2 (6 %) and 1 with AKI reaching KDIGO class 3 (3 %). These 11 AKI patients were older compared to the non-AKI patients (80 y (68\n- 82) vs. 68 y (61 - 75; p = 0.026). The baseline SCr did not differ significantly between the AKI (0.86 mg/dL (0.77 -.1.15)) group and the non-AKI (0.89 mg/dL (0.77 - 1.00);\np = 0.462) group. Baseline serum CHI3L1 (SCHI3L1) was highly variable in both AKI and non-AKI patients. Moreover, no trend towards a higher SCHI3L1 level in AKI vs.\nnon-AKI patients was observed either at baseline or until AKI diagnosis by SCr. In contrast, the UCHI3L1/UCr ratio was higher in the AKI vs. non-AKI group at time points 0h\nand 6 h after admission to the ICU (1.86 ng/mg UCr (1.24 - 3.06) vs. 1.14 ng/mg UCr (0.86 - 1.88); p = 0.048, resp. 3.09 ng/mg UCr (1.17 - 5.55) vs. 1.28 ng/mg UCr (0.78 -\n2.05); p = 0.047). More importantly, this differential increase occurred before the diagnosis of AKI by SCr (24 h (16 - 40) after ICU admission). At time points. 2 h and 4h\nafter admission to the ICU, the UCHI3L1/UCr ratio was not significantly different between the AK! group and the non-AKI group although the same trend was observed\n(2.14 ng/mg UCr (1.39 - 2.68) vs. 1.15 ng/mg UCr (0.76 - 1.73); p = 0.058, resp. 2.08 ng/mg UCr (1.36 - 3.20) vs. 1.10 ng/mg UCr (0.83 - 2.10); p = 0.063)." }, { - "id": 178560, - "strid": "6850bf11-4672-4394-a8b5-8d5fd8dfbf5b", - "image_id": 207469, - "image_name": "8225.png", + "id": 1375, + "strid": "53b36571-beba-4ead-9a35-a44a60fff9dc", + "image_id": 57, + "image_name": "117198.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 373.358, - 628.667, - 157.61600000000004, - 247.12800000000004 - ], - "priority": 10, + 87.187, + 1551.735, + 836.691, + 831.0710000000001 + ], + "priority": 11, "parents": [ - 178561 + 1373 ], "children": [ - 178555 + 1376 ], - "area": 234717.85378600002, + "area": 135291.119445, "iscrowd": 0, "segmentation": [] }, { - "id": 178555, - "strid": "25ebf777-8894-4f23-8da4-14a99b5d58f3", - "image_id": 207469, - "image_name": "8225.png", + "id": 1376, + "strid": "1e228d8e-ca37-486c-b84c-36eb3ce98f82", + "image_id": 57, + "image_name": "117198.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 545.345, - 740.527, - 118.34900000000005, - 42.297000000000025 + 72.295, + 2416.574, + 867.49, + 97.14399999999978 ], - "priority": 11, + "priority": 12, "parents": [ - 178560 + 1375 ], "children": [], - "area": 403842.69681500003, + "area": 174706.21733, "iscrowd": 0, "segmentation": [], - "text": "ee be beeen\npas 800. and Des y=2e seman" + "text": "Figure 1: Time patterns of normalized urinary chitinase 3-like 1 (UCHI3L1)\nand serum creatinine (SCr) in AKI vs. non-AKI patient that underwent\nelective cardiac surgery" }, { - "id": 178552, - "strid": "aa8e4902-4924-4b07-9051-13eda04261ad", - "image_id": 207469, - "image_name": "8225.png", - "category_id": 3, - "category_name": "Text", + "id": 1377, + "strid": "5ee33e65-5efb-4dc7-be73-877b31b3f0c4", + "image_id": 57, + "image_name": "117198.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 59.81, - 899.701, - 633.097, - 133.6479999999999 + 1041.193, + 1540.841, + 932.48, + 802.491 ], - "priority": 12, + "priority": 13, "parents": [ - 178561 - ], - "children": [], - "area": 53811.11681000001, - "iscrowd": 0, - "segmentation": [], - "text": "Only a few cases of human trisomy 8 have been reported to date in children or adults. With one recent neonatal exception, the\nother previous cases all showed mosaicism due to mitotic non-disjunction early during zygotic development. Our case\ndemonstrates that homogeneous trisomy 8 is compatible with implantation and early embryogenesis. Nonetheless, by\nCamegie stage 11, the heart was bifid, yolk sac vessels were abnormally dilated, the prosencephalon and branchial arches\nwere absent and the somites were small and irregularly shaped. These severe systemic malformations are not compatible with\nfurther development, confirming the lethality of trisomy 8 of meiotic origin. In addition, this case justifies the systematic\nkaryotyping of human embryos used for research purposes, as we have observed other trisomies in apparently normal cases;\nlikewise, chromosomal abnormalities may be responsible for other occasional malformations observed in human embryos\nreceived for study." - }, - { - "id": 103527, - "strid": "232a154e-1a01-4b97-9c12-9bf9f656ced1", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 37.09, - 151.75, - 190.17, - 224.74 + 1373 ], - "priority": -1, - "parents": [], "children": [ - 103524, - 103519, - 103511, - 103516, - 103515, - 103518, - 103523, - 103520, - 103514, - 103521, - 103525, - 103522, - 103517, - 103512, - 103513, - 103526 + 1378 ], - "area": 5628.4075, + "area": 1604312.863313, "iscrowd": 0, "segmentation": [] }, { - "id": 103511, - "strid": "06b44423-f643-4d19-acb3-f18dc9834179", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 1, - "category_name": "Title", + "id": 1378, + "strid": "334e35f0-124b-41cb-a730-f5538b11844b", + "image_id": 57, + "image_name": "117198.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 83.191, - 34.879, - 2320.313, - 251.244 + 1020.372, + 2418.279, + 965.1139999999999, + 62.853000000000065 ], - "priority": 1, + "priority": 14, "parents": [ - 103527 + 1377 ], "children": [], - "area": 2901.618889, + "area": 2467544.179788, "iscrowd": 0, "segmentation": [], - "text": "CTLA-4 Checkpoint blockade in Breast Cancer\nA case in point report" + "text": "Figure 2: Boxplots of normalized urinary chitinase 3-like 1 (UCHI3L1) in AKI vs. non-\nAKI group at different time points after elective cardiac surgery (n = 33)" }, { - "id": 103512, - "strid": "886f9950-867a-4cf8-b682-29711997d4fc", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1379, + "strid": "f5af136c-145d-4053-a1df-f25e15e555f7", + "image_id": 57, + "image_name": "117198.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 83.191, - 312.725, - 1566.581, - 127.10000000000002 + 71.594, + 2516.651, + 868.133, + 132.76400000000012 ], - "priority": 2, + "priority": 15, "parents": [ - 103527 + 1373 ], "children": [], - "area": 26015.905475000003, + "area": 180177.11169399996, "iscrowd": 0, "segmentation": [], - "text": "Chiara Dellepiane «); Michela Lia », and Mario Roberto Sertoli «.).\n«) IRCCS San Martino IST, Genoa University - 2 EORTC" + "text": "The asterisk denotes the detection of AKI by SCr at 35 hours (h) after\nadmission to the ICU. In contrast, UCHI3L1 (ng/mg UCr) is higher in the AKI\nvs. non-AKI patient already at admission to the ICU. Notice that the\nUCHI3L1/UCr ratio does not rise above 2 ng/mg in the non-AKI patient." }, { - "id": 103513, - "strid": "e4a0dc8d-0ab8-4a59-b453-fe31ef18e9ce", - "image_id": 204499, - "image_name": "122237.png", + "id": 1380, + "strid": "3133a535-0abd-4c61-983f-ed0044a97454", + "image_id": 57, + "image_name": "117198.png", "category_id": 3, "category_name": "Text", "bbox": [ - 78.658, - 532.954, - 1001.7879999999999, - 230.827 + 1020.698, + 2484.907, + 964.7769999999999, + 169.57799999999997 ], - "priority": 3, + "priority": 16, "parents": [ - 103527 + 1373 ], "children": [], - "area": 41921.095731999994, + "area": 2536339.605086, "iscrowd": 0, "segmentation": [], - "text": "Background: A patient concomitantly affected\nby breast cancer and melanoma is presented\nin order to contribute to the ongoing debate on\nbreast cancer immunotherapy. (1,2)" + "text": "Preoperatively, the UCHI3L1/UCr ratio shows no difference between the AKI vs.\nnon-AKI group. At admission to the ICU, UCHI3L1 (ng/mg UCr) is already significantly\nhigher in the AKI vs. non-AKI group (p = 0.048). Interestingly, in the following hours\nUCHI3L1 levels do not significantly differentiate both groups. Nevertheless, at 6 h\nafter admission to the ICU the difference becomes significant again (p = 0.047)." }, { - "id": 103514, - "strid": "ec66de27-956f-43b6-af4b-5a9eba35b270", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 3, - "category_name": "Text", + "id": 1381, + "strid": "773edc66-04b7-4c41-91c7-19c1e2cedaaf", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 75.137, - 880.733, - 1036.867, - 933.741 + 942.928, + 2691.998, + 169.51699999999994, + 31.978000000000065 ], - "priority": 4, + "priority": 17, "parents": [ - 103527 + 1364 ], - "children": [], - "area": 66175.635421, + "children": [ + 1382 + ], + "area": 2538360.290144, "iscrowd": 0, "segmentation": [], - "text": "etl ocean\n\nae eda aS aelt os" + "text": "Discussion" }, { - "id": 103516, - "strid": "779fb761-52f2-43ef-9d02-40cc57cf6830", - "image_id": 204499, - "image_name": "122237.png", + "id": 1382, + "strid": "bcec774c-862c-4b90-af54-b455f6fe719f", + "image_id": 57, + "image_name": "117198.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1252.039, - 522.345, - 1226.637, - 587.241 + 59.824, + 2732.972, + 1938.304, + 371.96399999999994 ], - "priority": 5, + "priority": 18, "parents": [ - 103527 + 1381 ], "children": [], - "area": 653996.3114550001, + "area": 163497.31692800001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "The production of CHI3L1 by different cell types such as macrophages is induced by type 2 cytokines such as IL-13 at sites of adaptive T helper 2 (Th2) inflammation. In\nturn, CHI3L1 reduces apoptosis of macrophages, alternatively activates them (M2 phenotype) and increases the recruitment of dendritic cells, leading to Th2\ndifferentiation of naive T cells. Moreover, CHI3L1 reduces apoptosis of Th2 cells and contributes to tissue healing/remodeling/fibrosis through a CHI3L1-dependent\ninduction and activation of transforming growth factor Bi (TGF- B.) by 1L-13.° The prevention of apoptosis by CHI3L1 in immune cells®, and as recently described also in\ncultured mouse proximal tubular cells’, involves activation of different pathways. In vitro analysis of isolated primary culture renal tubular cells confirmed that CHI3L1\ninhibits oxidant-induced apoptosis’ in accordance with the previous finding that CHI3L1 inhibits oxidant-induced lung injury.®\n\nOur group proposed CHI3L1 as a promising urinary biomarker for early and specific diagnosis of sepsis-induced AKI.° Another more recent urine proteomic screen in mice\nfound CHI3L1 to be a critical component of the repair process after bilateral renal injury/reperfusion (I/R). Moreover, the latter group showed that UCHI3L1 levels predict\npost-transplant AKI and need for renal replacement therapy in human patients undergoing deceased-donor kidney transplantation.”\n\nTogether with the current findings, these data suggest a role for CHI3L1 as an early sensor of the degree of kidney injury, a critical mediator of the repair process and a\npredictive parameter of chronic injury to the kidney." }, { - "id": 103521, - "strid": "f8e31f7d-3d37-40b1-acf0-fec4ba8c0683", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 2, - "category_name": "Figure", + "id": 1383, + "strid": "7567e721-5d09-42a5-a244-6ad819ec7e64", + "image_id": 57, + "image_name": "117198.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1254.148, - 1179.849, - 573.9089999999999, - 561.4860000000001 + 938.666, + 3134.644, + 179.918, + 33.19300000000021 ], - "priority": 6, + "priority": 19, "parents": [ - 103527 + 1364 ], - "children": [], - "area": 1479705.2636519999, + "children": [ + 1384 + ], + "area": 2942383.744904, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusion" }, { - "id": 103522, - "strid": "96526ef0-f8f5-4013-bccd-0af0edcd8028", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 2, - "category_name": "Figure", + "id": 1384, + "strid": "58bcaefc-73cc-47ff-aff1-a7d47c747095", + "image_id": 57, + "image_name": "117198.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1907.559, - 1178.607, - 578.8769999999997, - 561.4859999999999 + 62.436, + 3178.197, + 1934.373, + 64.25700000000006 ], - "priority": 7, + "priority": 20, "parents": [ - 103527 + 1383 ], "children": [], - "area": 2248262.390313, + "area": 198433.90789200002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "This interim analysis of an ongoing pilot study, with 300 ICU patients in 3 cohorts (general ICU, pediatric and adult cardiac surgery ICU), shows promising results for\nUCHI3L1 as an early diagnostic biomarker for AKI in adult !CU patients that undergo elective cardiac surgery, while the prognostic role remains to be investigated." }, { - "id": 103515, - "strid": "2a1e5444-bc7d-4b8d-a006-b9ed8694a900", - "image_id": 204499, - "image_name": "122237.png", + "id": 1385, + "strid": "551bbaa0-b43a-43a4-a4e9-cdf5b6b7a303", + "image_id": 57, + "image_name": "117198.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1260.491, - 1839.433, - 1124.8959999999997, - 110.79700000000003 + 62.193, + 3272.53, + 1938.504, + 85.51899999999978 ], - "priority": 8, + "priority": 21, "parents": [ - 103527 + 1364 ], "children": [], - "area": 2318588.741603, + "area": 203528.45829, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Acknowledgments\n\nThis work was supported by the Fonds voor Wetenschappelijk Onderzoek (FWO Aspirant grant to De Loor J.) and the Industrieel Onderzoeksfonds of the University of Ghent (IOF Advanced grant). We acknowledge\nsupport from Bimetra - Clinical Research Center Ghent, and from UGent TechTransfer. A patent application was filed on April 4, 2011; patent reference: EP11160965;" }, { - "id": 103517, - "strid": "7cd778e1-8a31-494e-9c5d-32615bac5564", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 3, - "category_name": "Text", + "id": 1386, + "strid": "5fbbbd77-5a0a-48b2-a13d-7e4de43e65e3", + "image_id": 57, + "image_name": "117198.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2611.245, - 514.299, - 1241.725, - 222.59899999999993 + 61.478, + 3362.589, + 1865.137, + 242.4369999999999 ], - "priority": 9, + "priority": 22, "parents": [ - 103527 + 1364 ], "children": [], - "area": 1342960.692255, + "area": 206725.246542, "iscrowd": 0, - "segmentation": [], - "text": "At this point Ipilimumab (3) was available and CR of liver,\nlung, and dermic metastases was obtained after 4 cycles,\nwhile bone lesions remained stable and considered\nbreast cancer." + "segmentation": [] }, { - "id": 103526, - "strid": "cb6e60cb-1104-4965-ba56-379f324b871f", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 2, - "category_name": "Figure", + "id": 1387, + "strid": "ea57e5ad-31b8-43ab-ac48-6506d2164f26", + "image_id": 58, + "image_name": "117221.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2625.162, - 764.093, - 565.8830000000003, - 556.901 + 5109.61, + 371.88, + 161.73000000000047, + 161.73000000000002 ], - "priority": 10, - "parents": [ - 103527 + "priority": -1, + "parents": [], + "children": [ + 1415, + 1389, + 1406, + 1394, + 1400, + 1403, + 1408, + 1390, + 1388, + 1418, + 1413 ], - "children": [], - "area": 2005867.9080659999, + "area": 1900161.7667999999, "iscrowd": 0, "segmentation": [] }, { - "id": 103525, - "strid": "68d1caf4-c7b8-441a-8ad6-42fd0c3cb28e", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 2, - "category_name": "Figure", + "id": 1388, + "strid": "66a9e384-a8b9-4b58-9907-b4c1b8f33546", + "image_id": 58, + "image_name": "117221.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 3261.406, - 764.093, - 585.3450000000003, - 564.3859999999999 + 59.081, + 27.027, + 4778.378, + 324.324 ], - "priority": 11, + "priority": 1, "parents": [ - 103527 + 1387 ], "children": [], - "area": 2492017.4947579997, + "area": 1596.7821870000002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Shared mechanisms for representing the sides of the visual world and the sides of objects:\nEvidence froma localization deficit following parietal brain damage" }, { - "id": 103518, - "strid": "2638c0f5-a1b9-493b-8036-a138eae5d2d9", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 3, - "category_name": "Text", + "id": 1389, + "strid": "dbfd3132-a7d3-46e2-854d-2bb72954842e", + "image_id": 58, + "image_name": "117221.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 2614.693, - 1352.25, - 1229.2089999999998, - 115.16699999999992 + 75.092, + 367.3, + 2090.064, + 80.76600000000002 ], - "priority": 12, + "priority": 2, "parents": [ - 103527 + 1387 ], "children": [], - "area": 3535718.60925, + "area": 27581.2916, "iscrowd": 0, "segmentation": [], - "text": "Four months later new liver metastases appeared and\nbiopsy unexpectedly confirmed their breast cancer origin." + "text": "Zheng Ma, Jose Nino, Jonathan Flombaum, & Michael McCloskey" }, { - "id": 103523, - "strid": "2575433b-4bc5-4463-a2ab-07889849a3ca", - "image_id": 204499, - "image_name": "122237.png", - "category_id": 2, - "category_name": "Figure", + "id": 1390, + "strid": "ff8a7e79-08f2-4a45-8666-45814c10d865", + "image_id": 58, + "image_name": "117221.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2637.139, - 1479.68, - 568.877, - 556.9010000000001 + 66.362, + 513.952, + 1078.834, + 159.53200000000004 ], - "priority": 13, + "priority": 3, "parents": [ - 103527 + 1387 ], - "children": [], - "area": 3902121.83552, + "children": [ + 1391, + 1393, + 1392 + ], + "area": 34106.882624, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "HOW DO WE REPRESENT RELATIVE\nPOSITION WITHIN AN OBJECT?" }, { - "id": 103524, - "strid": "5e23d36a-3b95-41be-9e5d-77c8b03d7090", - "image_id": 204499, - "image_name": "122237.png", + "id": 1391, + "strid": "65fba57e-0bea-4757-87c0-ab4714c2266d", + "image_id": 58, + "image_name": "117221.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 3261.406, - 1544.053, - 585.3450000000003, - 431.1490000000001 + 112.143, + 770.746, + 597.831, + 159.043 ], - "priority": 14, + "priority": 4, "parents": [ - 103527 + 1390 ], "children": [], - "area": 5035783.718518, + "area": 86433.768678, "iscrowd": 0, "segmentation": [] }, { - "id": 103519, - "strid": "e22f3ff5-5ce7-46d4-84b4-eeb0d34a9cce", - "image_id": 204499, - "image_name": "122237.png", + "id": 1392, + "strid": "5f249cb9-bed7-4f13-99c6-11fb408b0f25", + "image_id": 58, + "image_name": "117221.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2611.182, - 2050.773, - 1229.884, - 164.90099999999984 + 63.773, + 987.45, + 1191.636, + 208.03500000000008 ], - "priority": 15, + "priority": 5, "parents": [ - 103527 + 1390 ], "children": [], - "area": 5354941.543686, + "area": 62972.648850000005, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "For example, this hammer is on the left side of the plus\nsign and the poster, but the head is on the right side of\nthe object." }, { - "id": 103520, - "strid": "f3aeff95-457b-48e9-8599-0c5646d9d95b", - "image_id": 204499, - "image_name": "122237.png", + "id": 1393, + "strid": "d648229f-947f-44eb-9836-e781d9603f27", + "image_id": 58, + "image_name": "117221.png", "category_id": 3, "category_name": "Text", "bbox": [ - 131.026, - 2379.719, - 2114.453, - 136.78999999999996 + 65.597, + 1264.829, + 1242.16, + 563.644 ], - "priority": 16, + "priority": 6, "parents": [ - 103527 + 1390 ], "children": [], - "area": 311805.06169400003, + "area": 82968.98791299999, "iscrowd": 0, "segmentation": [], - "text": "CONCLUSION: This very special case shows the impressive discrepancy in response\nto CTLA4 check-point therapy between melanoma and breast cancer." + "text": "Do we utilize object-based spatial\nrepresentations for the parts of objects (as\nopposed to general spatial representations)?\n\nHow are any object-based spatial\nrepresentations related to more general\nspatial representations?" }, { - "id": 45342, - "strid": "d9afa49f-9796-4c4b-9eee-6b6e12e86f90", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 9, - "category_name": "Root", + "id": 1394, + "strid": "ae0922de-336b-40a5-8288-3b84a2f3364d", + "image_id": 58, + "image_name": "117221.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 45.29, - 83.88, - 64.97999999999999, - 50.53999999999999 + 69.011, + 1993.98, + 701.881, + 76.83800000000019 + ], + "priority": 7, + "parents": [ + 1387 ], - "priority": -1, - "parents": [], "children": [ - 45315, - 45321, - 45322, - 45317, - 45316, - 45320, - 45318, - 45319 + 1395, + 1396, + 1397, + 1399, + 1398 ], - "area": 3798.9251999999997, + "area": 137606.55378, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Case study: Patient JKI" }, { - "id": 45315, - "strid": "de4cd535-b11d-4ff4-8676-2528f0ad1e98", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 1, - "category_name": "Title", + "id": 1395, + "strid": "f9a94a10-16d0-4644-aa7b-f58fbdfec759", + "image_id": 58, + "image_name": "117221.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 144.404, - 67.366, - 539.063, - 21.766999999999996 + 67.422, + 2111.566, + 704.398, + 282.8539999999998 ], - "priority": 1, + "priority": 8, "parents": [ - 45342 + 1394 ], "children": [], - "area": 9727.919864, + "area": 142366.00285199998, "iscrowd": 0, "segmentation": [], - "text": "Poorly differentiated primary synovial sarcoma of the lung" + "text": "50 yr. old male. A stroke in\n2003 led to bilateral parietal\nlobe damage and some occipital\nlobe damage." }, { - "id": 45316, - "strid": "0f86e639-91a8-416b-b53e-506db4378999", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1396, + "strid": "d823c19d-7ec7-4264-9317-0c7f784ebb89", + "image_id": 58, + "image_name": "117221.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 269.886, - 100.017, - 288.738, - 32.65100000000001 + 826.64, + 1938.811, + 394.58399999999995, + 506.06999999999994 ], - "priority": 2, + "priority": 9, "parents": [ - 45342 + 1394 ], "children": [], - "area": 26993.188062, + "area": 1602698.72504, "iscrowd": 0, - "segmentation": [], - "text": "Ee\nCee" + "segmentation": [] }, { - "id": 45317, - "strid": "6eda6b1b-fa2c-41d6-899e-20a41259f30b", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 5, - "category_name": "Section", + "id": 1397, + "strid": "615ed65c-5bdd-4052-bf48-a35a80ddd7f3", + "image_id": 58, + "image_name": "117221.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 177.532, - 162.858, - 73.804, - 12.300999999999988 + 83.846, + 2521.305, + 1230.042, + 318.38200000000006 ], - "priority": 3, + "priority": 10, "parents": [ - 45342 + 1394 ], - "children": [ - 45330 - ], - "area": 28912.506456000003, + "children": [], + "area": 211401.33903, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "Case History\nVisual field defect\n\nJKI has a lower visual field defect, especially on the left\n(so all testing is of the upper visual field)." }, { - "id": 45330, - "strid": "c81ee7e9-5442-44a0-8d8d-17dc49de7db3", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 4, - "category_name": "List", + "id": 1398, + "strid": "4ba6f300-c771-4dd0-8b43-4c54b94db790", + "image_id": 58, + "image_name": "117221.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 29.4, - 180.964, - 372.204, - 126.27500000000003 + 87.32, + 2888.33, + 1120.375, + 353.4850000000001 ], - "priority": 4, + "priority": 11, "parents": [ - 45317 + 1394 ], "children": [], - "area": 5320.3416, + "area": 252208.97559999998, "iscrowd": 0, "segmentation": [] }, { - "id": 45318, - "strid": "495f285e-f9af-4c66-8807-5ffee7af59ae", - "image_id": 202273, - "image_name": "118449.png", + "id": 1399, + "strid": "c0156d2b-6b60-4787-8cbd-8b3674e25a3a", + "image_id": 58, + "image_name": "117221.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 77.455, + 3307.301, + 1190.71, + 207.35300000000007 + ], + "priority": 12, + "parents": [ + 1394 + ], + "children": [], + "area": 256166.998955, + "iscrowd": 0, + "segmentation": [], + "text": "JKI also has simultanagnosia, affecting the LVF. When\nshown a display like the one on top, he will tend to\nreport seeing only the rightmost object." + }, + { + "id": 1400, + "strid": "f13af635-ed7f-4a58-8f33-b0c8dc80f4fa", + "image_id": 58, + "image_name": "117221.png", "category_id": 5, "category_name": "Section", "bbox": [ - 180.698, - 313.591, - 68.31300000000002, - 14.516999999999996 + 1390.477, + 511.958, + 1517.5470000000003, + 163.52000000000004 ], - "priority": 5, + "priority": 13, "parents": [ - 45342 + 1387 ], "children": [ - 45336, - 45340, - 45335, - 45332, - 45339, - 45331, - 45337, - 45338 + 1401, + 1402 ], - "area": 56665.266518000004, + "area": 711865.8239660001, "iscrowd": 0, "segmentation": [], - "text": "OPT cules" + "text": "SYSTEMATIC MIS-LOCALIZATION OF LEFT VISUAL\nFIELD OBJECTS (w/no deficit in the RVF)" }, { - "id": 45331, - "strid": "0d01d695-1013-4571-a1bd-677250e84332", - "image_id": 202273, - "image_name": "118449.png", - "category_id": 4, - "category_name": "List", + "id": 1401, + "strid": "beee61f5-9a4c-47ce-834e-21c149f4dfa5", + "image_id": 58, + "image_name": "117221.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 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"image_id": 202273, - "image_name": "118449.png", - "category_id": 6, - "category_name": "Caption", + "id": 1403, + "strid": "2d4d392d-57fa-4fa9-aa30-c6d9ccc61280", + "image_id": 58, + "image_name": "117221.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 159.254, - 545.488, - 44.81199999999998, - 117.98900000000003 + 1394.48, + 1563.512, + 702.98, + 73.56799999999998 ], - "priority": 8, + "priority": 16, "parents": [ - 45335 + 1387 ], - "children": [], - "area": 86871.145952, + "children": [ + 1405, + 1404 + ], + "area": 2180286.2137599997, "iscrowd": 0, "segmentation": [], - "text": "Fo (i)\nPeete\n\nSo\n=\n=\n=\neae" + "text": "Horizontal localization" }, { - "id": 45336, - "strid": "5d2abeb6-f1e8-44aa-9106-952e385b09de", - "image_id": 202273, - "image_name": "118449.png", + "id": 1404, + "strid": "16e4f5cc-717a-4926-a142-8c2572209541", + "image_id": 58, + "image_name": "117221.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 206.245, - 543.117, - 145.149, - 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13409 + 1422 ], "children": [], - "area": 171289.495482, + "area": 16784.636886, "iscrowd": 0, "segmentation": [], - "text": "Title: “Role of environmental filters\nin the restoration of degraded peri-\nurban ecosystems”" + "text": "A behavioral dynamics approach to obstacle detection and\navoidance by patients with tunnel vision" }, { - "id": 13411, - "strid": "0c5f7214-bc70-49cf-aff7-f8c74bc859df", - "image_id": 201037, - "image_name": "11513.png", + "id": 1424, + "strid": "cedd3149-f33f-4aae-8b09-41f6fdf917a9", + "image_id": 59, + "image_name": "117229.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 417.048, - 45.192, - 1298.194, - 140.953 + 180.547, + 441.94, + 2927.165, + 325.3740000000001 ], "priority": 2, "parents": [ - 13409 + 1422 ], "children": [], - "area": 18847.233216, + "area": 79790.94118, "iscrowd": 0, "segmentation": [], - "text": "Authors: Pawel Waryszak, Joseph B. Fontaine, Rachel J. Standish, Phil\nLadd and Neal J. Enright, Environmental & Conservation Sciences,\nMurdoch University, Perth, Western Australia" + "text": "Adam W. Kiefer’, Russell L. Woods2, & William H. Warren’\n\n1 Department of Cognitive, Linguistic & Psychological Sciences, Brown University\n2 Schepens Eye Research Institute and Department of Ophthalmology, Harvard Medical School" }, { - "id": 13412, - "strid": "a00de52f-77dc-4bb3-98eb-a6bfbd4deafa", - "image_id": 201037, - "image_name": "11513.png", + "id": 1425, + "strid": "e1d4df3e-1f7e-4692-9ec1-27645d2dfd68", + "image_id": 59, + "image_name": "117229.png", "category_id": 5, "category_name": "Section", "bbox": [ - 204.943, - 262.448, - 315.44100000000003, - 48.44900000000001 + 185.172, + 868.606, + 460.927, + 76.61900000000003 ], "priority": 3, "parents": [ - 13409 + 1422 ], "children": [ - 13413 + 1426 ], - "area": 53786.880464, + "area": 160841.510232, "iscrowd": 0, "segmentation": [], - "text": "Introduction" + "text": "" }, { - "id": 13413, - "strid": "e4c9ab75-24d9-40b2-b9cf-84d654f3e1e1", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 3, - "category_name": "Text", + "id": 1426, + "strid": "79b45a2c-c48b-4e31-b094-6a5cae95e6bf", + "image_id": 59, + "image_name": "117229.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 201.59, - 377.04, - 694.379, - 503.958 + 177.406, + 995.494, + 1165.232, + 602.023 ], "priority": 4, "parents": [ - 13412 + 1425 ], "children": [], - "area": 76007.4936, + "area": 176606.60856400002, "iscrowd": 0, - "segmentation": [], - "text": "“Ecological Filter” theory suggests that\nenvironmental filters influence the outcome\nof ecological restoration and ultimately\nlong-term restoration success. In this study,\nthree types of environmental filters:\ndispersal, biotic and abiotic, were\nmanipulated to improve understanding of\nhow to successfully re-establish native plant\ncommunities. The filters were manipulated\nwith use of transferred topsoil salvaged\nfrom under native Banksia Woodland." + "segmentation": [] }, { - "id": 13416, - "strid": "e96b85ea-63b8-45f9-be19-dafd4fcc1b2b", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 2, - "category_name": "Figure", + "id": 1427, + "strid": "00336169-3689-464f-af1c-adb4ab9e4eeb", + "image_id": 59, + "image_name": "117229.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 931.025, - 273.218, - 807.5119999999998, - 609.5409999999999 + 183.459, + 1661.446, + 298.205, + 75.9670000000001 ], "priority": 5, "parents": [ - 13409 + 1422 ], - "children": [], - "area": 254372.78845000002, - "iscrowd": 0, - "segmentation": [] + "children": [ + 1431, + 1434, + 1433, + 1429, + 1428, + 1435, + 1430, + 1432, + 1436 + ], + "area": 304807.221714, + "iscrowd": 0, + "segmentation": [], + "text": "" }, { - "id": 13420, - "strid": "7537ccbb-bcb6-404c-8a01-b8e04a8889d5", - "image_id": 201037, - "image_name": "11513.png", - 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"segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 13423, - "strid": "43a888cd-2a00-42b3-8bf9-2edc6c8653f4", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 5, - "category_name": "Section", + "id": 1430, + "strid": "2fca3cb7-5446-4e99-9618-aa9ac7a28de1", + "image_id": 59, + "image_name": "117229.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 219.326, - 4263.003, - 498.48799999999994, - 58.61800000000039 + 250.512, + 2442.343, + 490.458, + 375.797 ], "priority": 8, "parents": [ - 13409 - ], - "children": [ - 13418 + 1427 ], - "area": 934987.3959779999, + "children": [], + "area": 611836.229616, "iscrowd": 0, - "segmentation": [], - "text": "Acknowledgments" + "segmentation": [] }, { - "id": 13418, - "strid": "2c64bd9b-131f-4010-8224-84d2541cc720", - "image_id": 201037, - "image_name": "11513.png", + "id": 1431, + "strid": "36ef5896-715a-4886-8d72-19563471fc19", + "image_id": 59, + "image_name": "117229.png", "category_id": 3, "category_name": "Text", "bbox": [ - 218.098, - 4327.868, - 1619.897, - 114.35800000000017 + 893.262, + 2402.134, + 286.6299999999999, + 41.58899999999994 ], "priority": 9, "parents": [ - 13423 + 1427 ], "children": [], - "area": 943899.3550640001, + "area": 2145735.021108, "iscrowd": 0, "segmentation": [], - "text": "Many thanks to great co-workers and volunteers who helped me greatly with very extensive field work and vegetation\ndata: Billi Veber, William Fowler, Mark Brundrett, Anna Wisolith, Karen Taylor, Vanda Longman, Mark Gerlach, Amity\nWilliams, Christina Birnbaum, Niels Brouwers, and Megan Brown." + "text": "Goal Only View" }, { - "id": 13417, - "strid": "672ce665-49f4-4185-a259-f1e3205a30b3", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 5, - "category_name": "Section", + "id": 1432, + "strid": "90dad110-fc2c-4d82-a509-4b2f87556384", + "image_id": 59, + "image_name": "117229.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2488.565, - 563.615, - 233.58300000000008, - 51.70600000000002 + 791.162, + 2444.123, + 491.903, + 376.86799999999994 ], "priority": 10, "parents": [ - 13409 - ], - "children": [ - 13422, - 13415 + 1427 ], - "area": 1402592.562475, + "children": [], + "area": 1933697.240926, "iscrowd": 0, - "segmentation": [], - "text": "Methods" + "segmentation": [] }, { - "id": 13415, - "strid": "6697f8a4-7bc6-4281-a312-516e211df8ed", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 7, - "category_name": "Table", + "id": 1433, + "strid": "34b009d5-6ece-43d2-8444-bae1777e9b12", + "image_id": 59, + "image_name": "117229.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1810.744, - 622.743, - 970.383, - 1133.087 + 557.068, + 2830.491, + 412.312, + 43.68899999999985 ], "priority": 11, "parents": [ - 13417 + 1427 ], "children": [], - "area": 1127628.1507920001, + "area": 1576775.960388, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Moving Obstacle View" }, { - "id": 13422, - "strid": "b773ae2e-779c-4a02-aa82-f1bf94ded3f1", - "image_id": 201037, - "image_name": "11513.png", + "id": 1434, + "strid": "b437592e-50df-4f9f-beb6-a93f97f40766", + "image_id": 59, + "image_name": "117229.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 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"id": 13419, - "strid": "e91cf2dd-62c8-4600-ab16-42aaa4c51aea", - "image_id": 201037, - "image_name": "11513.png", + "id": 1436, + "strid": "9e8214fc-43e1-44a8-bc6c-02e5cad72917", + "image_id": 59, + "image_name": "117229.png", "category_id": 7, "category_name": "Table", "bbox": [ - 1820.743, - 1870.302, - 1604.509, - 1117.8749999999998 + 310.84, + 3818.373, + 902.6760000000002, + 292.7840000000001 ], "priority": 14, "parents": [ - 13421 - ], - "children": [], - "area": 3405339.274386, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 13424, - "strid": "28768922-dcc5-4828-ae96-bc5414376e3b", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1893.897, - 3078.88, - 1320.5429999999997, - 584.5720000000001 - ], - "priority": 15, - "parents": [ - 13421 - ], - "children": [], - "area": 5831081.59536, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 13425, - "strid": "8c82b0cd-6a2c-415a-ad10-0e0616064c4b", - "image_id": 201037, - "image_name": "11513.png", - "category_id": 2, - "category_name": "Figure", - "bbox": [ - 1895.656, - 3734.508, - 1370.114, - 726.4480000000003 - ], - "priority": 16, - "parents": [ - 13421 + 1427 ], "children": [], - "area": 7079342.4972479995, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 41116, - "strid": "6c0440a3-7822-4d2a-a688-283c90b5087d", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 625.9, - 361.84, - 243.26, - 170.28000000000003 - ], - "priority": -1, - "parents": [], - "children": [ - 41102, - 41099, - 41114, - 41109, - 41107, - 41106, - 41108, - 41111, - 41104, - 41103, - 41105, - 41098, - 41101, - 41110, - 41100 - ], - "area": 226475.656, + "area": 1186903.06332, "iscrowd": 0, "segmentation": [] }, { - "id": 41098, - "strid": "1a4f38cb-0eec-439f-b06a-9896368fd725", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 1, - "category_name": "Title", - "bbox": [ - 109.477, - 100.312, - 5378.191, - 251.99199999999996 - ], - "priority": 1, - "parents": [ - 41116 - ], - "children": [], - "area": 10981.856824, - "iscrowd": 0, - "segmentation": [], - "text": "Abiotic factors affecting sapflow rates and chlorophyi! fluorescence in Juniperus virginiaiia, Lonicereé\nmaackil, and Pyrus calleryana on a roadcut in Kentucky he" - }, - { - "id": 41099, - "strid": "a173203e-eceb-4309-b449-e8069b42082e", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 0, - "category_name": "Author Info", - "bbox": [ - 1120.141, - 378.293, - 3358.8839999999996, - 170.764 - ], - "priority": 2, - "parents": [ - 41116 - ], - "children": [], - "area": 423741.499313, - "iscrowd": 0, - "segmentation": [], - "text": "— Richard L. Boyce\northern Kentucky University, Highland Heights, KY 41099" - }, - { - "id": 41109, - "strid": "06220394-0a23-497d-8a48-1140b64a77bd", - "image_id": 202115, - "image_name": "118165.png", + "id": 1437, + "strid": "c387a8d5-5282-4b82-8663-991d4d18435a", + "image_id": 59, + "image_name": "117229.png", "category_id": 5, "category_name": "Section", "bbox": [ - 146.195, - 562.891, - 270.53, - 28.730000000000018 + 1516.052, + 859.351, + 706.8169999999998, + 95.11599999999999 ], - "priority": 3, + "priority": 15, "parents": [ - 41116 + 1422 ], "children": [ - 41112 + 1438 ], - "area": 82291.84974499998, + "area": 1302820.802252, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Summary Results" }, { - "id": 41112, - "strid": "7ac4a0f3-301b-4d2f-a4ff-55a3d782d901", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 3, - "category_name": "Text", + "id": 1438, + "strid": "7b1c928b-68a3-4a58-b986-7838e038bff9", + "image_id": 59, + "image_name": "117229.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 144.418, - 642.397, - 885.6830000000001, - 1116.7510000000002 + 1504.898, + 1072.397, + 2538.99, + 920.5410000000002 ], - "priority": 4, + "priority": 16, "parents": [ - 41109 + 1437 ], "children": [], - "area": 92773.68994600001, + "area": 1613848.1005059998, "iscrowd": 0, - "segmentation": [], - "text": "Transpiration is controlled both by vapor pressure deficit (VPD),\nwhich sets the maximum rate at which water can leave the plant,\nand soil water content (volumetric water content, or VWC),\nwhich controls how fast water can be replaced. These parameters\nmay be used to assess and model transpiration from plants.\nHowever, processes that control transpiration work on many\nspatial and temporal scales with multiple time lags; they also\nexhibit serial dependence, which means that the assumptions of\nconventional parametric analyses are violated.\n\nARMA (autoregressive moving average) models are appropriate\nin this case. ARMA models used on short time scales (1 minute to\n1 hour) have shown that woody plant transpiration is driven by\nVPD (e.g., Ford et al. 2005), but it is unclear how this scales up\nto time steps of a day.\n\nI have been examining the woody community on a road cut in\nnorthern Kentucky, which is dominated by three species: the\nsmall native evergreen tree, red cedar (Juniperus virginiana L.),\nthe long-term invasive deciduous shrub, Amur honeysuckle\n(Lonicera maackii (Rupr.) Maxim), and thesmall emerging\ninvasive deciduous tree Callery pear (Pyrus calleryana Decne.).\nAll three species are commonly found in these sites, which are\ncharacterized by steep slopes, thinsoils, and frequent droughts.\n\nThe purpose of this study was to discover which\nenvironmental factors control water use and photosynthetic\npotential in species with quite different characteristics." + "segmentation": [] }, { - "id": 41110, - "strid": "56058fe2-c5e3-4de7-958d-640c836545d6", - "image_id": 202115, - "image_name": "118165.png", + "id": 1439, + "strid": "b0b3a667-04ad-4a61-ac86-b8495a20a4ce", + "image_id": 59, + "image_name": "117229.png", "category_id": 5, "category_name": "Section", "bbox": [ - 145.931, - 1891.609, - 173.86799999999997, - 26.835000000000036 + 1528.526, + 2112.62, + 685.883, + 95.04300000000012 ], - "priority": 5, + "priority": 17, "parents": [ - 41116 + 1422 ], "children": [ - 41113 - ], - "area": 276044.392979, - "iscrowd": 0, - "segmentation": [], - "text": "" - }, - { - "id": 41113, - "strid": "71f959c0-a8df-4243-9208-4647fd20113c", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 144.213, - 1970.257, - 892.8220000000001, - 1356.145 + 1443, + 1441, + 1440, + 1442 ], - "priority": 6, - "parents": [ - 41110 - ], - "children": [], - "area": 284136.672741, - "iscrowd": 0, - "segmentation": [], - "text": "The study was carried out at on a northwest-facing road cut on I-\n275 in Highland Heights, KY (39° 2°22” N, 84° 28’6” W), on\nthe edge of the Northern Kentucky University campus (Castellano\nand Boyce 2007). I monitored 4 individuals of each of the three\nstudy species. Granier sap flow probes, constructed in the lab\nfrom 18-gauge 7.5 cm-long syringe needs and thermocouple wire,\nwere inserted near the base of each plant and used to measure\nsapflow velocities as an estimate of transpiration. Measurements\nwere taken every minute and averaged every hour by a data\nlogger, and data were downloaded periodically and analyzed in\nthe lab. VPD was determined from temperature and relative\nhumidity measurements, and soil volumetric water content\n(VWC) in the top 30 cm was measured with time domain\nreflectometry (TDR) probes. Light measurements were collected\nwith a a Li-Cor quantum sensor. On an approximately weekly\nbasis, chlorophyll fluorescence measurements were collected\nfrom the plants with sap flow probes. Both light (®).); a measure\nof photosynthetic capacity) and dark (F',/F,,,; a measure of stress)\nfluorescence were measured, with two measurements per plant.\nPlant measurements were then averaged, and species mean + 1\nSD were determined. Fluorescence data from the two years were\nfitted separately with linear regression to the following\nenvironmental parameters: temperature, light, time of day, sum of\ndaylight VPD, and VWC.\n\nTransfer-function ARMA models, using VPD and VWC as\nindependent variables, were fitted to the sapflow data for each\nspecies. For J. virginiana, one data set from early March 2012\nthrough late July 2013 was used. For L. maackii and P.\ncalleryana, data sets from 2012 and 2013 were run separately.\nModels were selected and fitted using the procedures outlined in\nCryer and Chan (2008), which were also used to select and treat\noutliers. All analyses were performed in R (R Development Core\nTeam 2013) using the package TSA." - }, - { - "id": 41104, - "strid": "83ccede5-d41b-43ed-9646-8559a4072bc5", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1148.084, - 583.96, - 860.204, - 120.46900000000005 - ], - "priority": 7, - "parents": [ - 41116 - ], - "children": [], - "area": 670435.1326400001, + "area": 3229194.5981199997, "iscrowd": 0, "segmentation": [], - "text": "Temperature, VPD; and VWC: Factors\nthat Could Drive Transpiration" + "text": "Modeling Results" }, { - "id": 41100, - "strid": "74d23a95-ce44-4906-94a9-24d2e15cfd02", - "image_id": 202115, - "image_name": "118165.png", + "id": 1440, + "strid": "4e1a3c95-d38c-439f-85a7-bdb7955e9f98", + "image_id": 59, + "image_name": "117229.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1161.0, - 741.334, - 668.0059999999999, - 1024.978 + 1517.284, + 2281.683, + 1322.0639999999999, + 670.3499999999999 ], - "priority": 8, + "priority": 18, "parents": [ - 41116 + 1439 ], "children": [], - "area": 860688.774, + "area": 3461961.1089720004, "iscrowd": 0, "segmentation": [] }, { - "id": 41105, - "strid": "fb14f266-a01c-4e07-9223-b06f46c3d6d9", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 3, - "category_name": "Text", + "id": 1441, + "strid": "2befd214-422a-40c3-8b51-72d74e92483d", + "image_id": 59, + "image_name": "117229.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2389.7, - 656.442, - 1389.864, - 69.029 + 2964.639, + 2289.34, + 963.681, + 661.0070000000001 ], - "priority": 9, + "priority": 19, "parents": [ - 41116 + 1439 ], "children": [], - "area": 1568699.4474, + "area": 6787066.648260001, "iscrowd": 0, - "segmentation": [], - "text": "Sapflow Model Fits: Data = Lines, Models = Circles" + "segmentation": [] }, { - "id": 41101, - "strid": "c1a10da7-bf76-40e7-815e-58d893fa8d3e", - "image_id": 202115, - "image_name": "118165.png", + "id": 1442, + "strid": "279cc3c9-a540-44c8-b796-9e7defcb287f", + "image_id": 59, + "image_name": "117229.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1904.078, - 737.424, - 2039.156, - 666.04 + 1617.546, + 3015.35, + 633.4199999999998, + 1012.3499999999999 ], - "priority": 10, + "priority": 20, "parents": [ - 41116 + 1439 ], "children": [], - "area": 1404112.815072, + "area": 4877467.3311, "iscrowd": 0, "segmentation": [] }, { - "id": 41108, - "strid": "20051270-0fe6-4665-9b3a-1c017a469024", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 7, - "category_name": "Table", + "id": 1443, + "strid": "e7d8174a-55aa-4a0f-9356-5b61eba42e50", + "image_id": 59, + "image_name": "117229.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1859.999, - 1433.669, - 2067.1680000000006, - 287.557 + 2362.525, + 3029.381, + 1716.4630000000002, + 959.3800000000001 ], - "priority": 11, + "priority": 21, "parents": [ - 41116 + 1439 ], "children": [], - "area": 2666622.9063310004, + "area": 7156988.347025, "iscrowd": 0, "segmentation": [] }, { - "id": 41106, - "strid": "7f7f1ccc-13f8-448a-988a-00f5fff090b3", - "image_id": 202115, - 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"image_id": 202115, - "image_name": "118165.png", - "category_id": 2, - "category_name": "Figure", + "id": 1447, + "strid": "e1ca03d4-eb49-498f-b9e0-45d7436ffe2d", + "image_id": 59, + "image_name": "117229.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2040.573, - 1910.489, - 1886.693, - 1366.134 + 4204.475, + 2249.357, + 1157.2340000000004, + 792.5219999999999 ], - "priority": 15, + "priority": 25, "parents": [ - 41116 + 1446 ], "children": [], - "area": 3898492.2701970004, + "area": 9457365.272575, "iscrowd": 0, "segmentation": [] }, { - "id": 41111, - "strid": "c7bade5a-b767-419b-ba75-ab3bca2d1d67", - "image_id": 202115, - "image_name": "118165.png", + "id": 1448, + "strid": "ad10cf13-9c64-45d3-ad14-4428ba47cfcd", + "image_id": 59, + "image_name": "117229.png", "category_id": 5, "category_name": "Section", "bbox": [ - 4036.616, - 713.757, - 610.7880000000005, - 39.964000000000055 + 4202.936, + 3087.01, + 457.65899999999965, + 78.31800000000021 ], - "priority": 16, + "priority": 26, "parents": [ - 41116 + 1422 ], "children": [ - 41115 + 1449 ], - "area": 2881162.9263119996, + "area": 12974505.46136, "iscrowd": 0, "segmentation": [], - "text": "" - }, - { - "id": 41115, - "strid": "3e776fb3-203b-42b9-b496-b14a18b04e81", - "image_id": 202115, - "image_name": "118165.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 4034.877, - 792.619, - 1457.368, - 2610.747 - ], - "priority": 17, - "parents": [ - 41111 - ], - "children": [], - "area": 3198120.172863, - "iscrowd": 0, - "segmentation": [] + "text": "References" }, { - "id": 41114, - "strid": "9a50e7cc-c9d0-402f-b388-d872f8289962", - "image_id": 202115, - "image_name": "118165.png", + "id": 1449, + "strid": "399184ff-05de-42c4-91d0-392fbd3b09bb", + "image_id": 59, + "image_name": "117229.png", "category_id": 3, "category_name": "Text", "bbox": [ - 105.459, - 3371.611, - 878.1469999999999, - 105.74699999999984 + 4200.181, + 3233.605, + 1156.281, + 719.3339999999998 ], - "priority": 18, + "priority": 27, "parents": [ - 41116 + 1448 ], "children": [], - "area": 355566.724449, + "area": 13581726.282504998, "iscrowd": 0, "segmentation": [], - "text": "Acknowledgments\nNKU Center for Integrative Natural Sciences & Mathematics (funding)\nRachael Delaney (field work)" + "text": "Cohen, J. A., Bruggeman, H., & Warren, W. H. (2006). Combining moving\ntargets and moving obstacles in a locomotion model. Journal of Vision, 6, 135.\n\nGeruschat, D. R., Turano, K. A., & Stahl, J. W. (1998). Traditional measures of\nmobility performance and retinitis pigmentosa. Optometry and Vision Science,\n75, 525-537.\n\nKiefer, A. W., Bruggeman, H., Woods, R. L., & Warren, W. H. (2012). Obstacle\ndetection by patients with retinitis pigmentosa. Journal of Vision, 12, 183.\n\nLovie-Kitchin, J. E., Mainstone, J. C., Robinson, J., & Brown, B. (1990). What\nar- eas of the visual field are important for mobility in low vision patients?\nClincial Vision Sciences, 5, 249-263.\n\nAcknowledgements: This research is funded by NIH 5RO1 EY010923-25.\nThe authors would also like to thank Christina Gambacorta, Dylan Rose,\nHenry Harrison and Michael Fitzgerald for their help with subject recruitment\nand data collection." }, { - "id": 105669, - "strid": "820f172d-e099-4388-9576-117702ec283d", - "image_id": 204587, - "image_name": "12449.png", + "id": 1450, + "strid": "00716d6f-4688-45a3-bde5-0a7fc8593a6b", + "image_id": 60, + "image_name": "117233.png", "category_id": 9, "category_name": "Root", "bbox": [ - 334.05, - 110.63, - 127.07, - 113.45000000000002 + 276.76, + 45.97, + 81.09000000000003, + 79.19 ], "priority": -1, "parents": [], "children": [ - 105659, - 105662, - 105651, - 105649, - 105650, - 105660, - 105657, - 105661, - 105652, - 105648, - 105658 + 1459, + 1456, + 1466, + 1462, + 1453, + 1451, + 1452, + 1464 ], - "area": 36955.9515, + "area": 12722.6572, "iscrowd": 0, "segmentation": [] }, { - "id": 105648, - "strid": "c387d2e6-9472-4447-9789-394592dac78d", - "image_id": 204587, - "image_name": "12449.png", + "id": 1451, + "strid": "12ace7f3-0128-446a-a0af-e3a7044f9468", + "image_id": 60, + "image_name": "117233.png", "category_id": 1, "category_name": "Title", "bbox": [ - 552.135, - 25.803, - 2283.398, - 189.383 + 434.546, + 53.611, + 768.143, + 53.153 ], "priority": 1, "parents": [ - 105669 + 1450 ], "children": [], - "area": 14246.739405, + "area": 23296.445605999997, "iscrowd": 0, "segmentation": [], - "text": "intratumoral Infiltration of CD8+/Ki-67+ Lymphocytes is Stronger in\nHigher Grade Penile Squamous Cell Carcinomas" + "text": "Stereoscopy> benefits processing of dynamic visual scenes\nby disambiguating object occlusions" }, { - "id": 105649, - "strid": "cb4edd0a-f1e5-446e-9f74-7a28c04862dd", - "image_id": 204587, - "image_name": "12449.png", + "id": 1452, + "strid": "24a469b9-190d-4688-9c84-e6130c8c5111", + "image_id": 60, + "image_name": "117233.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 576.328, - 221.944, - 2243.671, - 262.871 + 541.994, + 111.908, + 554.389, + 40.57899999999999 ], "priority": 2, "parents": [ - 105669 + 1450 ], "children": [], - "area": 127912.541632, + "area": 60653.464552000005, "iscrowd": 0, "segmentation": [], - "text": "Margaret Cocks'; Diana Taheri?; Mark Ball'; Stephania M. Bezerra®; Maria Del Carmen Rodriguez Pefia*;\nTrinity J Bivalacqua’; Rajni Sharma’; Alan Meeker\"; Ilse J. Lopez®; Alcides Chaux*®;\nArthur L. Burnett’; and George J. Netto, MD*\n\n‘Johns Hopkins University, Baltimore, MD; 2Tehran University of Medical Sciences; °A.C. Camargo Cancer Center, Sao Paulo;\n“University of Alabama at Birmingham, Birmingham, AL; 5Norte University, Asuncion; °Centro para el Desarrollo de la Investigacién Cientifica, Asuncion" + "text": "Jocelyn Faubert & Remy Allard\n\nFe ae ae ee ee ee oe" }, { - "id": 105657, - "strid": "844ff12b-bbe6-45f4-8caa-f6654ce7bea5", - "image_id": 204587, - "image_name": "12449.png", + "id": 1453, + "strid": "b35a5a6f-165f-4fa3-9f31-ffa1f4abd840", + "image_id": 60, + "image_name": "117233.png", "category_id": 5, "category_name": "Section", "bbox": [ - 86.989, - 595.428, - 331.092, - 57.504999999999995 + 85.434, + 235.079, + 95.03400000000002, + 14.22999999999999 ], "priority": 3, "parents": [ - 105669 + 1450 ], "children": [ - 105663 + 1454, + 1455 ], - "area": 51795.686292000006, + "area": 20083.739286, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 105663, - "strid": "3833fc38-4693-4cc6-b838-86eb3eea446b", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 4, - "category_name": "List", + "id": 1454, + "strid": "35c476fc-a5b7-42f8-b03b-b309a943aa5a", + "image_id": 60, + "image_name": "117233.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 88.788, - 679.111, - 840.283, - 190.75099999999998 + 83.766, + 258.142, + 725.461, + 44.353999999999985 ], "priority": 4, "parents": [ - 105657 + 1453 ], "children": [], - "area": 60296.907468, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 105658, - "strid": "4b70e534-ce8b-45d6-8751-820e651b6563", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 87.924, - 938.629, - 175.468, - 55.83100000000002 - ], - "priority": 5, - "parents": [ - 105669 - ], - "children": [ - 105664 - ], - "area": 82528.01619600001, + "area": 21623.522772, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Although the sensation of depth from stereoscopy in real-life contexts can be, on the phenomenological level.quite powerful (Sacks,\n2006) the extent of its functional benef remains elusive. Stereoscopy can improve multiple object tracking (MOT) (Viswanathan and\nMirigolla, 2002: Tinjust, Allard & Faubert, 2008), but the nature of this advantage remains undetermined?" }, { - "id": 105664, - "strid": "2cde81ba-da7e-44db-b94b-81771bab1b30", - "image_id": 204587, - "image_name": "12449.png", + "id": 1455, + "strid": "a920e9dc-caeb-4e4f-b870-89afbf943159", + "image_id": 60, + "image_name": "117233.png", "category_id": 4, "category_name": "List", "bbox": [ - 89.333, - 1024.658, - 838.071, - 304.394 + 84.982, + 328.623, + 449.616, + 76.55599999999998 ], - "priority": 6, + "priority": 5, "parents": [ - 105658 + 1453 ], "children": [], - "area": 91535.773114, + "area": 27927.039785999998, "iscrowd": 0, "segmentation": [] }, { - "id": 105659, - "strid": "bf77b6e1-69e0-4dae-b35a-390e396b321e", - "image_id": 204587, - "image_name": "12449.png", + "id": 1456, + "strid": "a6db7363-fce6-468c-9669-5825da92924e", + "image_id": 60, + "image_name": "117233.png", "category_id": 5, "category_name": "Section", "bbox": [ - 83.857, - 1404.647, - 539.864, - 60.26800000000003 + 82.658, + 465.75, + 60.354, + 17.146000000000015 ], - "priority": 7, + "priority": 6, "parents": [ - 105669 + 1450 ], "children": [ - 105665, - 105666 + 1458, + 1457 ], - "area": 117789.48347899999, + "area": 38497.9635, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 105665, - "strid": "46fd795b-ce65-4525-9737-5201b5503b2a", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 84.773, - 1498.26, - 857.63, - 474.29600000000005 - ], - "priority": 8, - "parents": [ - 105659 - ], - "children": [], - "area": 127011.99497999999, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 105666, - "strid": "a881d0b1-159c-4e2d-ad18-941513988c4d", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 2465.568, - 591.308, - 854.5059999999999, - 200.67899999999997 - ], - "priority": 9, - "parents": [ - 105659 - ], - "children": [], - "area": 1457910.0829440001, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 105650, - "strid": "4e884bf6-b92a-4b40-a514-e689b8874e5f", - "image_id": 204587, - "image_name": "12449.png", + "id": 1457, + "strid": "21f86949-69bf-4b4f-8d92-f914cb805d58", + "image_id": 60, + "image_name": "117233.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1040.98, - 574.087, - 645.98, - 485.8890000000001 + 92.688, + 499.943, + 704.699, + 335.475 ], - "priority": 10, + "priority": 7, "parents": [ - 105669 - ], - "children": [ - 105653 + 1456 ], - "area": 597613.08526, + "children": [], + "area": 46338.716784, "iscrowd": 0, "segmentation": [] }, { - "id": 105653, - "strid": "49827ec9-e4c7-4e57-898c-e7c6fbf2cbd1", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 6, - "category_name": "Caption", + "id": 1458, + "strid": "3c738e09-0e4e-4aad-b29b-bc69bf4b8eac", + "image_id": 60, + "image_name": "117233.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1090.325, - 1066.884, - 534.9269999999999, - 56.789999999999964 + 83.273, + 878.676, + 651.55, + 117.279 ], - "priority": 11, + "priority": 8, "parents": [ - 105650 + 1456 ], "children": [], - "area": 1163250.2973, + "area": 73169.986548, "iscrowd": 0, "segmentation": [], - "text": "Figure 1. Immunohistochemistry for CD8 and Ki67 in\nintratumoral lymphocytes" + "text": "Without occlusions: Pair of spheres oscillated along the radial, meridian and depth axes in the 3D virlual space.\nWith occlusions: Pair of spheres oscillated along the meridian and depth axes (but not radial axis)in the 2D virtual space.\nEach occlusion condition was tested with and without stereoscopic cues.\n\nIn a trial, 4 target spheres are indexed (1 for each pair) and the task is to recall all 4 targets at the end of the trial\n\nTrial is considered successful only fall 4 target spheres are correctly identified\n\nA1 up 1 down staircase was Used to obtain speed thresholds." }, { - "id": 105651, - "strid": "39cf0602-e8fd-40c9-9333-b9a712a8cd30", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 2, - "category_name": "Figure", + "id": 1459, + "strid": "4218431d-0f56-4257-afbc-ab315e84e6df", + "image_id": 60, + "image_name": "117233.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1720.059, - 574.025, - 645.903, - 486.01599999999996 + 872.232, + 214.599, + 58.899, + 15.056999999999988 ], - "priority": 12, + "priority": 9, "parents": [ - 105669 + 1450 ], "children": [ - 105654 - ], - "area": 987356.867475, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 105654, - "strid": "de9da7ef-92ea-436c-98b7-bd8eca04e348", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 6, - "category_name": "Caption", - "bbox": [ - 1753.034, - 1068.892, - 596.7759999999998, - 56.077999999999975 + 1460, + 1461 ], - "priority": 13, - "parents": [ - 105651 - ], - "children": [], - "area": 1873804.018328, + "area": 187180.11496799998, "iscrowd": 0, "segmentation": [], - "text": "Figure 2. Immunohistochemistry for FOXP3 in peritumoral\nlymphocytes" + "text": "Results" }, { - "id": 105652, - "strid": "a33b3729-d149-4ea1-8fd6-fb3a2a62e5b7", - "image_id": 204587, - "image_name": "12449.png", + "id": 1460, + "strid": "73d4559f-8b4d-4298-9ba6-947f25c10f41", + "image_id": 60, + "image_name": "117233.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 992.682, - 1155.439, - 1400.164, - 260.99299999999994 + 917.541, + 272.701, + 271.56499999999994, + 320.131 ], - "priority": 14, + "priority": 10, "parents": [ - 105669 + 1459 ], - "children": [ - 105655 - ], - "area": 1146983.4973980002, + "children": [], + "area": 250214.34824100003, "iscrowd": 0, "segmentation": [] }, { - "id": 105655, - "strid": "9cbc2fee-b90d-4fb7-b6c2-d40ce9ef329c", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 6, - "category_name": "Caption", + "id": 1461, + "strid": "e9c218d1-4e68-417c-abc6-6226b80a701c", + "image_id": 60, + "image_name": "117233.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1122.308, - 1428.381, - 1162.3050000000003, - 32.86699999999996 + 1253.35, + 303.078, + 306.88300000000004, + 268.75199999999995 ], - "priority": 15, + "priority": 11, "parents": [ - 105652 + 1459 ], "children": [], - "area": 1603083.423348, + "area": 379862.81129999994, "iscrowd": 0, - "segmentation": [], - "text": "Figure 3. CD8+, CD8+/Ki67+ and FOXP3+ counts of intratumoral and peritumoral lymphocytes by histologic grades" + "segmentation": [] }, { - "id": 105662, - "strid": "c02632da-de4e-4e77-a805-5bdadf5d8d43", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 7, - "category_name": "Table", + "id": 1462, + "strid": "3f56fcc2-16a2-4db9-8578-0eb5c01169f6", + "image_id": 60, + "image_name": "117233.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1010.82, - 1502.712, - 1388.208, - 501.172 + 871.407, + 668.828, + 214.77599999999995, + 17.54499999999996 ], - "priority": 16, + "priority": 12, "parents": [ - 105669 + 1450 ], "children": [ - 105656 + 1463 ], - "area": 1518971.34384, + "area": 582821.400996, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Discussion and Conclusion" }, { - "id": 105656, - "strid": "a8d58737-f717-4261-ba12-3dcefb029fad", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 6, - "category_name": "Caption", + "id": 1463, + "strid": "e5df4478-9392-4b3c-a765-983e63796ad4", + "image_id": 60, + "image_name": "117233.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1023.405, - 2014.442, - 1364.631, - 59.248999999999796 + 870.802, + 694.238, + 755.043, + 64.73500000000001 ], - "priority": 17, + "priority": 13, "parents": [ - 105662 + 1462 ], "children": [], - "area": 2061590.01501, + "area": 604543.838876, "iscrowd": 0, "segmentation": [], - "text": "Table 1. Odds ratios (OR) and 95% confidence intervals (Cl) for high-grade tumors by CD8+, Ki67+ and FOXP3 positivity in intratumoral\nlymphocytes and peritumoral lymphocytes considering unadjusted and adjusted models" + "text": "Overall benefit of stereoscopy for processing dynamic scenes comes from improved attention tracking by disambiguating targets from non-\ntargets during occlusions.\n\nOur results suggest that the use ‘of stereoscopy will provide a more representative measure of visual scene dynamics processing capacities\nwhen interactions between elements occur (Faubert, 2013; Faubert & Sidebottom, 2012)." }, { - "id": 105661, - "strid": "5b4bd4a8-cbc2-40cc-b188-48f6ed26c3ab", - "image_id": 204587, - "image_name": "12449.png", + "id": 1464, + "strid": "3e6df30a-ffd6-4c52-b7d6-b02fe17c406a", + "image_id": 60, + "image_name": "117233.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2466.425, - 856.044, - 457.1260000000002, - 57.24400000000003 + 872.01, + 823.925, + 88.769, + 14.876999999999953 ], - "priority": 18, + "priority": 14, "parents": [ - 105669 + 1450 ], "children": [ - 105667 + 1465 ], - "area": 2111368.3227, + "area": 718470.83925, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "References" }, { - "id": 105667, - "strid": "515959c9-07e3-4d5b-b59f-f7fd7e7fdf53", - "image_id": 204587, - "image_name": "12449.png", + "id": 1465, + "strid": "8e66b712-a3d1-4999-833c-dbc432be3d3f", + "image_id": 60, + "image_name": "117233.png", "category_id": 4, "category_name": "List", "bbox": [ - 2468.805, - 939.26, - 846.4140000000002, - 511.4089999999999 + 871.514, + 856.159, + 716.1050000000001, + 61.99000000000001 ], - "priority": 19, + "priority": 15, "parents": [ - 105661 + 1464 ], "children": [], - "area": 2318849.7843, + "area": 746154.554726, "iscrowd": 0, "segmentation": [] }, { - "id": 105660, - "strid": "bd287967-f4f9-40b8-b5ed-ced0083761d4", - "image_id": 204587, - "image_name": "12449.png", + "id": 1466, + "strid": "9909d12b-b653-4a78-bba6-b4a08371f7f4", + "image_id": 60, + "image_name": "117233.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2464.24, - 1521.178, - 346.10300000000007, - 59.269000000000005 + 871.636, + 979.631, + 144.02700000000004, + 18.615999999999985 ], - "priority": 20, + "priority": 16, "parents": [ - 105669 + 1450 ], "children": [ - 105668 + 1467 ], - "area": 3748547.67472, + "area": 853881.6463159999, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Acknowledgments" }, { - "id": 105668, - "strid": "6befa81d-dd14-48be-8cdd-86259bcba6de", - "image_id": 204587, - "image_name": "12449.png", - "category_id": 4, - "category_name": "List", + "id": 1467, + "strid": "fa51c69c-ae6e-4400-92a2-25a1a5396a2c", + "image_id": 60, + "image_name": "117233.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2470.795, - 1604.041, - 797.5540000000001, - 313.6009999999999 + 871.147, + 1012.944, + 509.48300000000006, + 17.145999999999958 ], - "priority": 21, + "priority": 17, "parents": [ - 105660 + 1466 ], "children": [], - "area": 3963256.482595, + "area": 882423.126768, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "This research was supported by an NSERC discovery fund to Jocelyn Faubert." }, { - "id": 72574, - "strid": "5df9b29b-47d0-49b7-aa3d-f5ae9724f0ed", - "image_id": 203329, - "image_name": "120058.png", + "id": 1468, + "strid": "79c3bbda-8fd9-4b7e-854c-b063008fd6e5", + "image_id": 61, + "image_name": "117238.png", "category_id": 9, "category_name": "Root", "bbox": [ - 562.13, - 83.73, - 241.37, - 214.56 + 275.74, + 123.18, + 268.18999999999994, + 268.19 ], "priority": -1, "parents": [], "children": [ - 72556, - 72554, - 72553, - 72552, - 72551, - 72555 + 1469, + 1482, + 1484, + 1470, + 1471, + 1473, + 1476 ], - "area": 47067.1449, + "area": 33965.6532, "iscrowd": 0, "segmentation": [] }, { - "id": 72551, - "strid": "ee791929-8f1e-46aa-b208-d408e39bf182", - "image_id": 203329, - "image_name": "120058.png", + "id": 1469, + "strid": "7afcf90a-e2ed-4610-a623-3cb79baac7d8", + "image_id": 61, + "image_name": "117238.png", "category_id": 1, "category_name": "Title", "bbox": [ - 898.976, - 68.445, - 1588.79, - 248.526 + 688.999, + 138.104, + 3926.491, + 392.649 ], "priority": 1, "parents": [ - 72574 + 1468 ], "children": [], - "area": 61530.412319999996, + "area": 95153.51789600002, "iscrowd": 0, "segmentation": [], - "text": "Impact of DWI denoising on\nTrack-Density Imaging" + "text": "Distinct stages of word identification during reading:\nEvidence from eye movements" }, { - "id": 72552, - "strid": "0a68f7a7-a380-4525-a67f-45443772086a", - "image_id": 203329, - "image_name": "120058.png", + "id": 1470, + "strid": "5d4f1b8d-902c-469f-a6c0-5b08b3f07fc7", + "image_id": 61, + "image_name": "117238.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 395.14, - 370.693, - 2481.42, - 311.41100000000006 + 990.256, + 598.451, + 3317.208, + 121.85699999999997 ], "priority": 2, "parents": [ - 72574 + 1468 ], "children": [], - "area": 146475.63202, + "area": 592619.693456, "iscrowd": 0, "segmentation": [], - "text": "Pierrick Coupé’, Olivier Periot2>; José V. Manjon?, Bassem_Hiba*, Michéle Allard25\n\n1 Laboratoire Bordelais de Recherche en Informatique, Unité Mixte de Recherche CNRS (UMR 5800), PICTURA Research Group, Université de Bordeaux, France\n2 Unive Bordeaux, INCIA, UMR 5287, F-33400 Talence, France.\nCNRS, INCIA, UMR 5287, F-33400 Talence, France.\n3 Instituto de Aplicaciones de las Tecnologias de la-Informaciéon y de las Comunicaciones Avanzadas (ITACA), Universitat Politécnica de Valéncia, Valencia, Spain\n4 Centre de Résonance Magnétique des Systemes Biologiques, UMR 5536 CNRS, Université Bordeaux Segalen, F-33076 Bordeaux, France\n5 CHU de Bordeaux, F-33076 Bordeaux, France" + "text": "Heather Sheridan and Eyal M. Reingold, University of Toronto Mississauga" }, { - "id": 72553, - "strid": "f7c6a35e-1b7a-4065-96f1-ef3626e2618e", - "image_id": 203329, - "image_name": "120058.png", + "id": 1471, + "strid": "63780269-ca9b-4384-bbce-5b1303c8a5b3", + "image_id": 61, + "image_name": "117238.png", "category_id": 5, "category_name": "Section", "bbox": [ - 68.834, - 762.47, - 378.352, - 56.09400000000005 + 753.312, + 967.406, + 663.4419999999999, + 111.702 ], "priority": 3, "parents": [ - 72574 + 1468 ], "children": [ - 72557 + 1472 ], - "area": 52483.85998, + "area": 728758.548672, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 72557, - "strid": "144a2775-b503-4814-bfc8-5890696ff24b", - "image_id": 203329, - "image_name": "120058.png", + "id": 1472, + "strid": "2d874d21-edca-4539-bb23-9eec145d0d80", + "image_id": 61, + "image_name": "117238.png", "category_id": 3, "category_name": "Text", "bbox": [ - 58.253, - 846.962, - 1554.41, - 315.38099999999986 + 198.188, + 1153.576, + 1821.08, + 1022.2420000000002 ], "priority": 4, "parents": [ - 72553 + 1471 ], "children": [], - "area": 49338.077386, + "area": 228624.920288, "iscrowd": 0, "segmentation": [], - "text": "TYrack-Density Imaging (TDI) [1] has beén proposed as super-resolution\nmethod for diffusion-weighted images (BWI). Based on fiber-tracking (FT), TDI\nenables to produce high-resolution white matter images. However, the\nsensitivity to noise of FT negatively impacts TDI accuracy and reproducibility\n[3]. In this study, we analyzed ‘whether the use of DWI denoising is able-to\nimprove TDI robustness and_reproducibility." + "text": "Does word recognition during reading reflect two stages, as hypothesized by the E-Z\nReader model (Reichle, Pollatsek, Fisher, & Rayner, 1998)?\n\nTo test this hypothesis, we examined if two visual manipulations (i.e., stimulus\nquality and case-alternation) impacted different stages of lexical processing.\n\nWe used word frequency effects (i.e., longer eye fixations on low than high\nfrequency words) as an index of lexical processing (Rayner, 1998).\n\nAccording to the additive factors logic (Sternberg, 1969), two variables that interact\nare influencing a common stage of processing, whereas two variables that produce\nadditive effects are affecting different stages of processing.\n\nPredictions: Stimulus quality (but not case-alternation) will interact with word\nfrequency effects for the early fixation time measures (i.e., first-fixation, single-\nfixation), and both manipulations will show interactions for gaze duration." }, { - "id": 72555, - "strid": "cf8de4da-2719-4b2c-9364-8f85a095c320", - "image_id": 203329, - "image_name": "120058.png", + "id": 1473, + "strid": "c8ea665e-6d8d-4758-b7fe-df5e7d538589", + "image_id": 61, + "image_name": "117238.png", "category_id": 5, "category_name": "Section", "bbox": [ - 62.0, - 1265.997, - 266.631, - 54.9670000000001 + 892.094, + 2280.75, + 429.88300000000004, + 111.70200000000023 ], "priority": 5, "parents": [ - 72574 + 1468 ], "children": [ - 72566, - 72563, - 72564, - 72565, - 72562, - 72569 + 1475, + 1474 ], - "area": 78491.814, + "area": 2034643.3905000002, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Method" }, { - "id": 72562, - "strid": "ca4296b7-30f1-4c36-8104-f6e9d248bda9", - "image_id": 203329, - "image_name": "120058.png", + "id": 1474, + "strid": "bcee1fc6-ec6c-4eac-94e6-eadae32a2704", + "image_id": 61, + "image_name": "117238.png", "category_id": 3, "category_name": "Text", "bbox": [ - 57.848, - 1350.797, - 1554.687, - 314.8899999999999 + 147.414, + 2466.92, + 1902.3169999999998, + 392.6489999999999 ], "priority": 6, "parents": [ - 72555 + 1473 ], "children": [], - "area": 78140.904856, + "area": 363658.54488, "iscrowd": 0, "segmentation": [], - "text": "Data: 10 DWI acquisitions of a human brain were acquired using a 3T MR\nscanner (Achieva, Philips Medical Systems). A standard spin-echo EPI pulse\nsequencexwith sensitivity encoding was used (b-value: 700 s/mm2; 21\ndiffusion-directions) with the following parameters:-TEAR ~ 60/8000 ms; FOV\n= 215x215x85 mm%; matrix size = 172x172 with.68 slices and an isotropic\nspatial resolution of 1.2x1.2x1.2 mm?." + "text": "Eye movements were recorded while participants (n = 72) read sentences containing\ntarget words that were presented either normally (i.e., the normal condition) or with\nreduced stimulus quality (i.e., the faint condition), or with alternating lower and upper\ncase letters (i.e., the case-alternated condition).\n\nThe target words were either high frequency (e.g., table) or low frequency (e.g., banjo)." }, { - "id": 72563, - "strid": "4b0ce56b-fa2e-4359-98af-869f2f6e648c", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", + "id": 1475, + "strid": "89383f48-03a4-4731-9d0f-0bd79102a8cd", + "image_id": 61, + "image_name": "117238.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 58.201, - 1696.827, - 1556.474, - 367.7299999999998 + 149.556, + 2957.202, + 1865.152, + 650.5010000000002 ], "priority": 7, "parents": [ - 72555 + 1473 ], "children": [], - "area": 98757.028227, + "area": 442267.3023120001, "iscrowd": 0, - "segmentation": [], - "text": "Image Processing: To compensate for. inter-acquisition motion and intra-\nacquisition eddy current distortion, all the DWI (i.e., 220 images) were linearly\nregistered to the bO image of the first ‘acquisition. As shown in [2], trilinear\ninterpolation of FSL eddy current ‘correction [6] tends to overblur the corrected\nimages. Therefore, the FSL script was modified to use nearest neighbor\ninterpolation to better preserve) structures and noise patterns. Finally, the b-\nmatrixes of the 10 acquisitions were adjusted to account for head rotation." + "segmentation": [] }, { - "id": 72564, - "strid": "0d306323-b962-48fc-8c1e-13f57475ee64", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", + "id": 1476, + "strid": "f0addd3d-1d9e-4ffe-8ca6-444c35d6eec5", + "image_id": 61, + "image_name": "117238.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 58.32, - 2096.657, - 1553.285, - 262.60699999999997 + 3586.479, + 957.251, + 382.49400000000014, + 121.85699999999997 ], "priority": 8, "parents": [ - 72555 - ], - "children": [], - "area": 122277.03624000002, - "iscrowd": 0, - "segmentation": [], - "text": "Noisy and Denoised.testing datasets: To investigate the impactsof denoising\non TDI, two testing’ datasets were used. First, the noisy»dataset was\ncomposed of the~10 motion-corrected original acquisitions. Second, the\ndenoised dataset was based on the same 10 acquisitions but denoised using\nthe LPCA denoising filter (http:/www.nitrc.org/projects/dti-dendising/) [4] (see Fig. 1)." - }, - { - "id": 72565, - "strid": "996aed93-9204-4430-98e4-95a995fa4c0c", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 60.4, - 2388.508, - 1551.688, - 156.587 - ], - "priority": 9, - "parents": [ - 72555 - ], - "children": [], - "area": 144265.88319999998, - "iscrowd": 0, - "segmentation": [], - "text": "Gold-Standard (GS): The 10 acquisitions of the noisy dataset were averaged\nin orderto estimate the GS. This resulted in a high\\SNR GS used as reference\nduring experiments (see Fig. 1)." - }, - { - "id": 72566, - "strid": "e6eee910-d8de-4e98-b6e9-c5fca84f2aaf", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 58.905, - 2576.802, - 1552.751, - 367.79800000000023 + 1468 ], - "priority": 10, - "parents": [ - 72555 + "children": [ + 1477, + 1479, + 1480 ], - "children": [], - "area": 151786.52181, + "area": 3433160.609229, "iscrowd": 0, "segmentation": [], - "text": "TDI: TDI [1] was estimated from the GS,:the noisy and the denoised datasets.\nThe diffusion tensors and FA maps were obtained by using FSL. Whole brain\ntractography was obtained with MRtrix [7] by using constrained spherical\ndeconvolution [5] and probabilistic streamlines tractography. The default\ntracking parameters were uSed (seed = whole brain, step-size = 0.2¢mm,\nmaximum harmonics order.=(6, 10 000 000 tracks). Finally, a super-resolution\nTDI map was created at 0.3’mm isotropic resolution." + "text": "Results" }, { - "id": 72569, - "strid": "806c3992-3eb8-46a8-b1ef-a14d359cf95a", - "image_id": 203329, - "image_name": "120058.png", + "id": 1477, + "strid": "76391cee-5367-4110-b1dc-113b4ca71349", + "image_id": 61, + "image_name": "117238.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 48.983, - 3003.137, - 1576.923, - 688.0250000000001 + 2276.635, + 1140.98, + 918.185, + 1531.2670000000003 ], - "priority": 11, + "priority": 9, "parents": [ - 72555 + 1476 ], "children": [ - 72573 + 1478 ], - "area": 147102.659671, + "area": 2597595.0023000003, "iscrowd": 0, "segmentation": [] }, { - "id": 72573, - "strid": "c36aa62b-60ed-447a-9832-3b0743b4af26", - "image_id": 203329, - "image_name": "120058.png", + "id": 1478, + "strid": "05b20b86-65bf-4920-827c-4076eefde6f6", + "image_id": 61, + "image_name": "117238.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 146.829, - 3704.739, - 1365.741, - 42.014000000000124 - ], - "priority": 12, - "parents": [ - 72569 - ], - "children": [], - "area": 543963.122631, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 1: The gold Standard>(left), noisy (middle) and denoised (right) datasets" - }, - { - "id": 72554, - "strid": "70e36960-76cb-4439-89b2-063209578bc3", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1713.879, - 760.518, - 237.0, - 55.855999999999995 - ], - "priority": 13, - "parents": [ - 72574 - ], - "children": [ - 72570, - 72559, - 72560, - 72561, - 72558, - 72568 - ], - "area": 1303435.829322, - "iscrowd": 0, - "segmentation": [], - "text": "" - }, - { - "id": 72558, - "strid": "5df8bef7-6e2f-44bd-8ed8-9a296bcc8df7", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1712.655, - 847.034, - 1542.329, - 448.0279999999999 + 2506.694, + 2764.791, + 1712.7630000000004, + 206.47899999999981 ], - "priority": 14, + "priority": 10, "parents": [ - 72554 + 1477 ], "children": [], - "area": 1450677.0152699999, + "area": 6930485.010954, "iscrowd": 0, "segmentation": [], - "text": "ToNinvestigate the impact of LPCA denoising,on TDI, PSNR was estimated\nbetween TDI of both testing datasets and TDI of the GS. This quality metrics\nwas computed over a mask where TDI.of the GS was higher than 0. Higher\nvalues of PSNR indicate higher similarity compared to GS. The average\nPSNR was 24.14dB (+/- 0.28) forthe noisy dataset and 27.30dB (+/- 0.14) for\nthe denoised dataset.\n\nFigure 2 shows TDI maps,calculated from GS, noisy and denoised datasets.\nThe structures are visually. more distinct and less noisy in the denoised TDI" + "text": "Figures 1-2: The early measures (i.e., first-fixation, single-fixation) showed\nword frequency interactions for stimulus quality (top row) but not for case-\nalternation (bottom row)." }, { - "id": 72559, - "strid": "6bd9acff-9fae-42aa-92d7-98f0a991511a", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", + "id": 1479, + "strid": "65cf011c-5a7f-44fd-8178-5cae28a98120", + "image_id": 61, + "image_name": "117238.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1716.743, - 1308.612, - 99.43299999999999, - 38.534000000000106 + 3350.249, + 1135.224, + 892.2799999999997, + 1539.9020000000003 ], - "priority": 15, + "priority": 11, "parents": [ - 72554 + 1476 ], "children": [], - "area": 2246550.490716, + "area": 3803283.0707759997, "iscrowd": 0, - "segmentation": [], - "text": "map." + "segmentation": [] }, { - "id": 72568, - "strid": "1d903c26-c1b6-4dd9-83d6-010dfcc8da1c", - "image_id": 203329, - "image_name": "120058.png", + "id": 1480, + "strid": "88e7353d-d221-4b72-8c30-630e22761963", + "image_id": 61, + "image_name": "117238.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2009.723, - 1313.756, - 989.7889999999998, - 988.7949999999998 + 4461.282, + 1129.467, + 877.8879999999999, + 1554.2940000000003 ], - "priority": 16, + "priority": 12, "parents": [ - 72554 + 1476 ], "children": [ - 72567 + 1481 ], - "area": 2640285.649588, + "area": 5038870.796694, "iscrowd": 0, "segmentation": [] }, { - "id": 72567, - "strid": "12184734-abe5-4da2-9010-d60ee4b8045e", - "image_id": 203329, - "image_name": "120058.png", + "id": 1481, + "strid": "f5e6f442-5444-4fbf-911a-fade5b9dbb69", + "image_id": 61, + "image_name": "117238.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1716.574, - 2319.809, - 1531.7779999999998, - 43.6840000000002 - ], - "priority": 17, - "parents": [ - 72568 - ], - "children": [], - "area": 3982123.8143660007, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 2 : RGBxfDI maps estimated from noisy, denoised and the gold standard datasets" - }, - { - "id": 72560, - "strid": "53b35581-64cf-47eb-939a-51486c31be32", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1714.329, - 2419.249, - 1538.2769999999998, - 209.433 - ], - "priority": 18, - "parents": [ - 72554 - ], - "children": [], - "area": 4147388.7189209997, - "iscrowd": 0, - "segmentation": [], - "text": "Figure 3\\shows the maps of coefficient of variation (CoV)=100*o/\" and of\ncoefficient of dispersion (CoD)=02/u estimatedyoVer the 10 acquisitions for\nboth, datasets. CoV and CoD maps of the noisy dataset demonstrate a more\npronounced speckled appearance with high-values in GM and at the level of" - }, - { - "id": 72561, - "strid": "c517159a-3507-4b83-82f4-5e31528727c7", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 3, - "category_name": "Text", - "bbox": [ - 1713.482, - 2633.596, - 278.22, - 40.15299999999979 + 4582.171, + 2718.301, + 731.094, + 264.80600000000004 ], - "priority": 19, + "priority": 13, "parents": [ - 72554 + 1480 ], "children": [], - "area": 4512619.341272, + "area": 12455720.011471, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Figure 3: Gaze duration showed\nword frequency interactions for\nboth stimulus quality and case-\n\nalternation. L" }, { - "id": 72570, - "strid": "03c0d732-90fc-41fc-b2db-e99672ef3fa8", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 2, - "category_name": "Figure", + "id": 1482, + "strid": "2c8547bd-a559-46d1-8a02-884a12a8862b", + "image_id": 61, + "image_name": "117238.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2004.844, - 2664.926, - 992.6089999999999, - 1044.35 + 2997.505, + 3147.286, + 460.34699999999975, + 111.70200000000023 ], - "priority": 20, + "priority": 14, "parents": [ - 72554 + 1468 ], "children": [ - 72572 + 1483 ], - "area": 5342760.901544, + "area": 9434005.52143, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Summary" }, { - "id": 72572, - "strid": "5642d27e-4cdf-4e6f-b906-520d0eb776ea", - "image_id": 203329, - "image_name": "120058.png", - "category_id": 6, - "category_name": "Caption", + "id": 1483, + "strid": "938d7827-1fc8-40ae-b9d5-a3dc191f298b", + "image_id": 61, + "image_name": "117238.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1844.021, - 3720.784, - 1284.2499999999998, - 42.623999999999796 + 2244.974, + 3293.965, + 1957.259, + 541.125 ], - "priority": 21, + "priority": 15, "parents": [ - 72570 + 1482 ], "children": [], - "area": 6861203.832464, + "area": 7394865.781910001, "iscrowd": 0, - "segmentation": [], - "text": "Figure 3: CoV and CoD maps computed over noisy and denoised datasets" + "segmentation": [] }, { - "id": 72556, - "strid": "548d6427-98d1-4009-a707-11bba887d05c", - "image_id": 203329, - "image_name": "120058.png", + "id": 1484, + "strid": "3dc1025c-24e2-4760-84b2-ad0c3366a61f", + "image_id": 61, + "image_name": "117238.png", "category_id": 5, "category_name": "Section", "bbox": [ - 65.906, - 3847.577, - 434.588, - 64.4699999999998 + 4659.886, + 3147.171, + 472.0450000000001, + 80.59299999999985 ], - "priority": 22, + "priority": 16, "parents": [ - 72574 + 1468 ], "children": [ - 72571 + 1485 ], - "area": 253578.40976200002, + "area": 14665458.082506001, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "References" }, { - "id": 72571, - "strid": "6ae03e03-0b4c-4b82-8d15-0586f996e7e0", - "image_id": 203329, - "image_name": "120058.png", + "id": 1485, + "strid": "876a7d05-2b09-44af-becb-5988abb28393", + "image_id": 61, + "image_name": "117238.png", "category_id": 3, "category_name": "Text", "bbox": [ - 59.692, - 3941.702, - 3190.294, - 262.576 + 4354.784, + 3268.06, + 1030.4390000000003, + 575.6640000000002 ], - "priority": 23, + "priority": 17, "parents": [ - 72556 + 1484 ], "children": [], - "area": 235288.07578400002, + "area": 14231695.399039999, "iscrowd": 0, "segmentation": [], - "text": "The gain of 3dB in term of PSNR demonstrates the higher’similarity between TDI of denoised acquisitions and TDI of the GS. Moreover, theclower standard\ndeviation of.this metric highlights the better consistency ‘of TDI estimation after denoising. Visual ‘assessment of RGB TDI maps demonstrates~a better contrast\nand conspicuity of boundaries between GM, WM and)ventricles on the denoised images. Moreover, in CoV and CoD maps, high values-indicate regions where\nTDI measurements are the less consistent oversthe’10 acquisitions. By using LPCA filter, it)appears that TDI reproducibility is globally improved. Finally,\nDWhk denoising enables to limit false positive. FDI values in GM and CSF." + "text": "Braet, W., & Humphreys, G. (2006a). Journal of Cognitive Neuroscience,\n18(10), 1666-1675.\n\nBraet, W., & Humphreys, G. W. (2006b). Experimental Brain Research, 168(:\n2), 265-271.\n\nBraet, W., & Humphreys, G. (2007). Neuropsychologia, 45(10), 2226-2233.\n\nRayner, K. (1998). Psychological Bulletin, 124(3), 372-422.\n\nReichle, E. D., Pollatsek, A., Fisher, D. L., & Rayner, K. (1998). Psychological\nReview, 105, 125-157.\n\nReingold, E. M., & Rayner, K. (2006). Psychological Science, 17(9), 742-746.\n\nReingold, E. M., Yang, J., & Rayner, K. (2010). Journal of Experimental\nPsychology: Human Perception and Performance, 36(6), 1677-83.\n\nSternberg, S. (1969). Acta Psychologica, 30, 276-315.\n\nWang, C.-A., & Inhoff, A. W. (2010). Quarterly Journal of Experimental\nPsychology, 63(4), 805-817." }, { - "id": 67454, - "strid": "cb814669-2589-46e2-9ffe-4658b5609cbd", - "image_id": 203144, - "image_name": "119776.png", + "id": 1486, + "strid": "b11dd612-f715-4910-ae11-e55fc922d0e4", + "image_id": 62, + "image_name": "117320.png", "category_id": 9, "category_name": "Root", "bbox": [ - 28.85, - 67.75, - 139.71, - 131.95 + 3407.44, + 4.56, + 192.55999999999995, + 168.57 ], "priority": -1, "parents": [], "children": [ - 67427, - 67428, - 67422, - 67420, - 67423, - 67425, - 67421, - 67424, - 67435, - 67426 + 1488, + 1510, + 1491, + 1498, + 1487, + 1489, + 1514, + 1512 ], - "area": 1954.5875, + "area": 15537.926399999998, "iscrowd": 0, "segmentation": [] }, { - "id": 67420, - "strid": "25601d8f-3590-4b9d-b371-7ad1d44dd2e4", - "image_id": 203144, - "image_name": "119776.png", + "id": 1487, + "strid": "c8ed7e02-378f-45f6-af8b-2b5f0ccbbdf8", + "image_id": 62, + "image_name": "117320.png", "category_id": 1, "category_name": "Title", "bbox": [ - 591.121, - 124.292, - 3384.954, - 55.24799999999999 + 204.215, + 38.628, + 3148.871, + 104.00499999999998 ], "priority": 1, "parents": [ - 67454 + 1486 ], "children": [], - "area": 73471.611332, + "area": 7888.41702, "iscrowd": 0, "segmentation": [], - "text": "COGNITION AND FUNCTIONAL CAPACITY-IN SCHIZOPHRENIA ANB CONTROL SUBJECTS" + "text": "Genomic collaterals of Helicobacter pylori and Ochrobactrumuntermedium" }, { - "id": 67421, - "strid": "defa5abf-e6aa-4938-9979-5732694d01ae", - "image_id": 203144, - "image_name": "119776.png", + "id": 1488, + "strid": "0fc899ed-5892-412e-908b-a82a80579590", + "image_id": 62, + "image_name": "117320.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 204.851, - 276.822, - 3773.892, - 184.36699999999996 + 940.198, + 273.317, + 1683.8900000000003, + 334.76700000000005 ], "priority": 2, "parents": [ - 67454 + 1486 ], "children": [], - "area": 56707.263522, + "area": 256972.096766, "iscrowd": 0, "segmentation": [], - "text": "w\n1 Professor and Head, Department of Psychiatry & San Services, PGIMER- Dr. Ram Manohar Lohia reso pvbin India ,2 Indo- US Project, Department of Pact SOO Fan Manohar Lohia Hospital, New Delhi, India,° siteGnn of\nledici ex\n\nSchizophrenia and Related Disorders, School of M ne (Psychiatry), UT Health Sciences Centre, San Antonio, Te 4Professor, Departments of Psychiatry and Human Genetics”, ersity of Pittsburgh, P.A., USA f°’\n\nCS eres N. Deshpande’, Sreelatha S. NOIR Triptish Bhatia*, Dawn |. Velligan?, Vishwajit L. Nirmgaonkar *" + "text": "Rashmi Singh!; Niyaz Ahmed*!\n\n(Ramani Baddam, Narender Kumar)\n\n1.Department of Biotechnology & Bioinformatics, School of Life,Sciences,\nUniyefsity of Hyderabad, Gachibowli. 500046," }, { - "id": 67422, - "strid": "8af1f645-ecae-4477-a9f6-b1296e09782b", - "image_id": 203144, - "image_name": "119776.png", + "id": 1489, + "strid": "5086b438-a6c3-4c5d-a69b-f51485ac4186", + "image_id": 62, + "image_name": "117320.png", "category_id": 5, "category_name": "Section", "bbox": [ - 208.397, - 541.655, - 208.051, - 36.72199999999998 + 381.778, + 743.931, + 411.722, + 57.823999999999955 ], "priority": 3, "parents": [ - 67454 + 1486 ], "children": [ - 67430, - 67432, - 67431, - 67429 + 1490 ], - "area": 112879.27703499999, + "area": 284016.48931800004, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 67429, - "strid": "f33943d9-6f5c-418f-a1c8-ac3da84f3e68", - "image_id": 203144, - "image_name": "119776.png", + "id": 1490, + "strid": "b09d2bb9-6949-4b1d-b403-2eb828c11a61", + "image_id": 62, + "image_name": "117320.png", "category_id": 3, "category_name": "Text", "bbox": [ - 209.101, - 604.808, - 3834.15, - 109.60199999999998 + 57.306, + 846.453, + 1043.369, + 974.125 ], "priority": 4, "parents": [ - 67422 + 1489 ], "children": [], - "area": 126465.957608, + "area": 48506.835618, "iscrowd": 0, "segmentation": [], - "text": "Background: The MATRICS Consensus Cognitive Battery (MCCB) was developed as a collaborative effort by the FDA, academic researchers, and pharmaceuticalstoJassess different domains of cognitive functioning in schizophrenia. Cognitive functions\nare a distinct symptom categoryofschizophrenia. However neurocognitive tests alone may not/be correlated to ‘real world’ social behavior which depends on, ‘functional capacity’ measured by a different set of tests. The present study describes\nneurocognition and functional capacity among schizophrenia patients and healthy controls in’New Delhi as part of the Cross-cultural Adaptability of Intermediate Measures Study(CIMS) (Velligan et al 2013)." + "text": "Helicobacter pylori is a Gram-negative bacterium which thrives\nin the human gut. It produces large amounts of the enzyme\nurease, which breaks down urea (which is normally secreted into\nthe stomach) to carbon dioxide and ammonia. The ammonia is\nconverted to ammonium by accepting a proton (H*), which\nneutralizes gastric acid. The survival of H. pylori in the acidic\nstomach is dependent on urease. The ammonia produced is toxic\nto the epithelial cells, and, along with the other products of H.\npylori damages those cells causing certain diseases. On the other\nhand, Ochrobactrum spp. are members of the soil microbiota.\nhowever, an increasing numberof studies have reported the\nisolation of Ochrobactrum anthropi and O. intermedium from\nclinical specimens, especially from immuno-compromised\npatients or from patients with nosocomial infections.\nInterestingly, Ochrobactrum sp. were also found to be urease\npositive and has been reported in many cases of gastric infection\ntogether with H. pylori, sharing the same niche. Being urease\npositive, it may lead to false positive urease test for H. pylori\ndetection. Herein we aimed to compare the genomes of H. pylori\nand O.-intermedium, in order to decipher their relationship at\ngenetic levels." }, { - "id": 67430, - "strid": "d5481e39-3a63-4fd4-adf4-9b076518384b", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 3, - "category_name": "Text", + "id": 1491, + "strid": "ad767a3a-4884-486c-8f78-fe378e5a417f", + "image_id": 62, + "image_name": "117320.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 209.513, - 739.713, - 3793.505, - 71.56999999999994 + 392.848, + 1902.545, + 397.167, + 67.5630000000001 ], "priority": 5, "parents": [ - 67422 + 1486 ], - "children": [], - "area": 154979.489769, + "children": [ + 1493, + 1492, + 1495, + 1496, + 1497 + ], + "area": 747410.9981600001, "iscrowd": 0, "segmentation": [], - "text": "Methods: Outpatients affecte@with schizophrenia (DSM IV), and controls fulfilling speciftedwn¢clusion criteria, were enrolled after written informed consent.~he MATRICS Consensus Cognitive Battery (MCCB), Fugctional Assessment Battery (FAB) and\nUniversity of California Sa€f.Diego Performance Based Skill Assessment (UPSA-B).were“administered to both groups. Controls without psychiatric illmess, were enrolled from friends of patients or communities." + "text": "Methodology" }, { - "id": 67431, - "strid": "bb7f5f28-4c8a-42fb-b444-48c74fea864b", - "image_id": 203144, - "image_name": "119776.png", + "id": 1492, + "strid": "a07b12c6-35cc-4481-90f0-84cb84316836", + "image_id": 62, + "image_name": "117320.png", "category_id": 3, "category_name": "Text", "bbox": [ - 208.154, - 836.74, - 3853.349, - 185.68899999999996 + 12.112, + 2006.42, + 1071.228, + 464.8299999999999 ], "priority": 6, "parents": [ - 67422 + 1491 ], "children": [], - "area": 174170.77796, + "area": 24301.75904, "iscrowd": 0, "segmentation": [], - "text": "Results: 51 schizophrenia patients and 30 controls were assessed. Cognitive (MG@B) and functional capacity (FAB and UPSA-B) were comparegusing Mann Whitney U test. Significant differences between cases and controls on education adjusted scores\non verbal learning andyreasoning (p<0.001) and problem solving (p=0.001) werepresent. Significant gender differences with males performing‘etter in social cognition than females in both case (F (1,49) 5!704 p 0.021) and controls (F (1,28) 8.001, p 0.009)\nwere observed, Ageydifferences observed in controls with the older group (>85yrs)performing better in reasoning and problem solving (F (1,28) 6.803, p 0.014) than the younger age group (20-35yrs). On logistic regression FAB (organization and planning)\nwas associated with group status, speed of processing, verbal learning and\\easoning and problem solving. FAB work and productivity wéré associated with verbal learning. Skills associated with financial management like counting and converting into\nchange was assOciated with group only while skills like identifying important details associated with the payment of bills was associated.with group, attention, reasoning and problem solving and sacial cognition." + "text": "1. Genome selection and annotation\n\nDraft genomes of Ochrobactrum intermedium M86 and\nHelicobacter pylori NAD1, which is a newly sequenced genome\nwere selected. Both the genomes were annotated using RAST\nServer. Apart from these some other helicobacter and\nochrobactrum genomes and the genomes of Vibrio\nparahaemolyticus and Burkholderia pseudomallei were selected\nfor phylogenetic analysis (Tablel). The FASTA files of these\ngenomes were obtained with their NCBI genome project IDs." }, { - "id": 67432, - "strid": "6dcfe160-4072-45de-a08e-d803d5e98498", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 3, - "category_name": "Text", + "id": 1493, + "strid": "c75c855a-d074-41ea-afd2-d61fa5743421", + "image_id": 62, + "image_name": "117320.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 207.547, - 1048.643, - 3844.947, - 71.63200000000006 + 81.776, + 2656.7, + 970.3550000000001, + 1461.4679999999998 ], "priority": 7, "parents": [ - 67422 + 1491 ], - "children": [], - "area": 217642.708721, + "children": [ + 1494 + ], + "area": 217254.29919999998, "iscrowd": 0, - "segmentation": [], - "text": "Contributions of the research: Results confirm that schizophrenia patients perform worse than controls on cognitive tests. FunctioningJs specifically affected by cognitive domains of attention and problem solving. Functional capacity is also impaired on\nvarioUs tests measuring social cognition. These findings have significant implications for treatment." + "segmentation": [] }, { - "id": 67423, - "strid": "6c2c7fe9-0a2a-424a-a31f-d025a978fd41", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 5, - "category_name": "Section", + "id": 1494, + "strid": "102ad010-8a76-43a2-b511-586b22c1b62a", + "image_id": 62, + "image_name": "117320.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 210.365, - 1187.94, - 296.745, - 30.460000000000036 + 64.938, + 2534.005, + 999.7900000000001, + 85.48300000000017 ], "priority": 8, "parents": [ - 67454 - ], - "children": [ - 67433 + 1493 ], - "area": 249900.99810000003, + "children": [], + "area": 164553.21669, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Tablel. Selected species with their accession numbers taken\nfor analysis" }, { - "id": 67433, - "strid": "cbd3e31e-812f-44ba-8e57-92c3a542306e", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1495, + "strid": "2e51f8ff-bc33-4b94-ba85-624c4fb8af48", + "image_id": 62, + "image_name": "117320.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 211.871, - 1249.81, - 1877.431, - 509.9100000000001 + 41.581, + 4179.955, + 1049.769, + 587.3469999999998 ], "priority": 9, "parents": [ - 67423 + 1491 ], "children": [], - "area": 264798.49451, + "area": 173806.708855, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "2. Phylogenetic analysis of ribosomal RNA\n\nThe 16S rRNA genes for all the helicobacter and ochrobactrum\ngenomes were identified using rRNA gene finder, RNAmmer\nprogram along with a vibrio genome, which is taken as an\noutgroup for the phylogenetic tree. Among the extracted\n16SrRNA gene sequences, those with a higher score predicted\nby RNAmmer were selected to construct the tree. The\nClustalW2 program for multiple sequence alignment was used\nto align the sequences. Program SplitsTree4 was then used to\nvisualize the tree with UPGMA method. 1000 bootstrap\nresamplings were done to estimate the consensus tree." }, { - "id": 67424, - "strid": "da4caca0-b85f-45a7-b6e7-7596838829a1", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 5, - "category_name": "Section", + "id": 1496, + "strid": "4e6e8fcc-2827-4a6d-8e43-4783714ad24b", + "image_id": 62, + "image_name": "117320.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 210.445, - 1819.652, - 303.75999999999993, - 30.544000000000096 + 1218.493, + 746.112, + 1174.701, + 503.83000000000004 ], "priority": 10, "parents": [ - 67454 - ], - "children": [ - 67434 + 1491 ], - "area": 382936.66514, + "children": [], + "area": 909132.249216, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "3. Phylogenetic analysis of urease-positive organisms.\n\nThe protein FASTA sequence of the urease subunit alpha protein in\nochrobactrum intermedium, which was conserved in all genomes under\nstudy were extracted using BLASTp program. The FASTA sequence of\nthe same protein in Burkholderia pseudomallei, which is also a urease\npositive organism was taken for phylogenetic analysis. ClustalW2\nprogram for multiple sequence alignment was used to align the\nsequences. Program SplitsTree4 was then used to visualize the tree\nwith UPGMA method. 1000 bootstrap resamplings were done to\nestimate the consensus tree." }, { - "id": 67434, - "strid": "a1d88488-b37b-47ef-ae4f-91883d1426dc", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1497, + "strid": "304098bf-1713-49fd-a2fc-c6df04dcabb6", + "image_id": 62, + "image_name": "117320.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 211.801, - 1881.372, - 1878.58, - 388.55100000000016 + 1215.603, + 1311.656, + 1176.531, + 331.501 ], "priority": 11, "parents": [ - 67424 + 1491 ], "children": [], - "area": 398476.470972, + "area": 1594452.968568, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "4. Core genome analysis\nThe core genome set of the Helicobacter pylori NADI and\nOchrobactrum intermedium M86 was determined using PGAP (Pan\nGenome Analysis Pipeline) tool. The core orthologous gene clusters\nalong with their annotation were identified. The cluster functional\ncharaterisation was done in order to identify the common functional\nprocesses involved in both the organisms." }, { - "id": 67435, - "strid": "37b6c1a2-12d7-49c2-8abf-72e0998591cf", - "image_id": 203144, - "image_name": "119776.png", + "id": 1498, + "strid": "6c106bac-0fef-4063-944c-57f6c4d2fe85", + "image_id": 62, + "image_name": "117320.png", "category_id": 5, "category_name": "Section", "bbox": [ - 211.41, - 2321.339, - 168.80000000000004, - 30.67099999999982 + 1713.253, + 1718.926, + 232.18599999999992, + 58.25199999999995 ], "priority": 12, "parents": [ - 67454 + 1486 ], "children": [ - 67436, - 67452, - 67443, - 67453, - 67441, - 67442, - 67438 + 1504, + 1499, + 1506, + 1500, + 1508, + 1502 ], - "area": 490754.27799, + "area": 2944955.126278, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 67436, - "strid": "5759707f-eb71-4337-9bc4-e17924056725", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 7, - "category_name": "Table", + "id": 1499, + "strid": "51185a67-4958-46a4-b1e6-6827f14d795f", + "image_id": 62, + "image_name": "117320.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 307.123, - 2522.115, - 1685.487, - 931.9679999999998 + 1253.263, + 1820.896, + 1116.592, + 273.7270000000001 ], "priority": 13, "parents": [ - 67435 - ], - "children": [ - 67437 + 1498 ], - "area": 774599.525145, + "children": [], + "area": 2282061.583648, "iscrowd": 0, "segmentation": [] }, { - "id": 67437, - "strid": "1c1e1ee4-2af3-449e-94fd-fb4004374490", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 6, - "category_name": "Caption", + "id": 1500, + "strid": "5aa6b11c-b4fd-4f45-98e5-889cfb33f7be", + "image_id": 62, + "image_name": "117320.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 199.948, - 2422.107, - 1879.264, - 84.21399999999994 + 1152.65, + 2195.506, + 1393.3830000000003, + 969.4360000000001 ], "priority": 14, "parents": [ - 67436 + 1498 ], - "children": [], - "area": 484295.450436, + "children": [ + 1501 + ], + "area": 2530649.9909, "iscrowd": 0, - "segmentation": [], - "text": "TABLE 1: Significant Differences Between Cases and Controls on Demographics, Cognitive Domains and\n\nSocial Functioning*" + "segmentation": [] }, { - "id": 67438, - "strid": "470fd201-1c29-4611-9ffc-11e3cb49a326", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1501, + "strid": "d46e2df6-492c-4c58-adf0-c6dffc19b45e", + "image_id": 62, + "image_name": "117320.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 211.135, - 3500.152, - 602.02, - 29.65599999999995 + 1208.311, + 3254.443, + 885.0849999999998, + 40.39800000000014 ], "priority": 15, "parents": [ - 67435 + 1500 ], "children": [], - "area": 739004.59252, + "area": 3932379.275773, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Fig .1: Subsystem distribution of the core genome set" }, { - "id": 67441, - "strid": "572a60b2-e66c-4f2b-96db-a096c58a60b4", - "image_id": 203144, - "image_name": "119776.png", + "id": 1502, + "strid": "14f33ffb-5317-429f-88ac-8a27e26268c1", + "image_id": 62, + "image_name": "117320.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 239.507, - 3674.941, - 742.241, - 340.6579999999999 + 1340.541, + 3387.563, + 754.8900000000001, + 486.98199999999997 ], "priority": 16, "parents": [ - 67435 + 1498 ], "children": [ - 67439 + 1503 ], - "area": 880174.094087, + "area": 4541167.091583, "iscrowd": 0, "segmentation": [] }, { - "id": 67439, - "strid": "78d96fac-81a7-4dd5-9957-6915819bce57", - "image_id": 203144, - "image_name": "119776.png", + "id": 1503, + "strid": "c875d548-d0d0-41ef-a6fb-0e2d1ac7a048", + "image_id": 62, + "image_name": "117320.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 210.218, - 3578.552, - 875.9340000000001, - 35.04100000000017 + 1197.628, + 3946.46, + 1086.6429999999998, + 85.22600000000011 ], "priority": 17, "parents": [ - 67441 + 1502 ], "children": [], - "area": 752276.044336, + "area": 4726390.9968799995, "iscrowd": 0, "segmentation": [], - "text": "Fig1: Comparison of cases.and controls on cognition" + "text": "Fig.2: Venn Diagram showing shared orthologous gene clusters in\nboth the organisms." }, { - "id": 67442, - "strid": "bffb2190-35d9-4a6b-83fd-52e277262b30", - "image_id": 203144, - "image_name": "119776.png", + "id": 1504, + "strid": "ef204c11-ed70-42a6-8569-5df3aab82b26", + "image_id": 62, + "image_name": "117320.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1158.843, - 3673.61, - 722.577, - 320.5160000000001 + 1210.23, + 4070.627, + 1076.5840000000003, + 511.68499999999995 ], "priority": 18, "parents": [ - 67435 + 1498 ], "children": [ - 67440 + 1505 ], - "area": 4257137.23323, + "area": 4926394.91421, "iscrowd": 0, "segmentation": [] }, { - "id": 67440, - "strid": "7e076514-c47f-43e8-902a-dd70ca21e0c4", - "image_id": 203144, - "image_name": "119776.png", + "id": 1505, + "strid": "6c9b47e5-7872-4453-b1b4-1be7ae8d79d6", + "image_id": 62, + "image_name": "117320.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1118.962, - 3578.401, - 875.288, - 35.289999999999964 + 1190.676, + 4653.755, + 912.7980000000002, + 85.61399999999958 ], "priority": 19, "parents": [ - 67442 + 1504 ], "children": [], - "area": 4004094.739762, + "area": 5541114.388379999, "iscrowd": 0, "segmentation": [], - "text": "Fig2: Comparison of cases and’controls on cognition" + "text": "Fig.3: Circular Genome View of (A) Helicobacter pylori\n(B)Ochrobactrum intermedium" }, { - "id": 67443, - "strid": "dd920091-85da-4d3a-ab88-b9f95035f94b", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1506, + "strid": "40d809df-a473-47eb-bd26-d5769b153b35", + "image_id": 62, + "image_name": "117320.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 202.337, - 4063.631, - 1870.567, - 244.0269999999996 + 2469.386, + 786.985, + 1118.5430000000001, + 1534.7779999999998 ], "priority": 20, "parents": [ - 67435 + 1498 ], - "children": [], - "area": 822222.905647, + "children": [ + 1507 + ], + "area": 1943369.7412100001, "iscrowd": 0, "segmentation": [] }, { - "id": 67453, - "strid": "565ff40e-4d8c-497b-9da4-b2064734ffc5", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 3, - "category_name": "Text", + "id": 1507, + "strid": "93b3024d-b4c4-48f3-aae2-baa280089ac7", + "image_id": 62, + "image_name": "117320.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 197.917, - 4332.006, - 1875.9500000000003, - 84.76900000000023 + 2673.753, + 2379.871, + 731.8269999999998, + 86.81500000000005 ], "priority": 21, "parents": [ - 67435 + 1506 ], "children": [], - "area": 857377.631502, + "area": 6363187.225863, "iscrowd": 0, "segmentation": [], - "text": "Regression: Attention, reasoning and problem solving, social cognition and overallscomposite score\nwere significantly associated withthe financial skills of the individual." + "text": "Fig4: Phylogenetic tree : (A) Urease positive\norganisms. (B) Based on 16SrRNA" }, { - "id": 67452, - "strid": "2e0a52b1-f2bf-4f19-aac4-5dc94890eba7", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1508, + "strid": "067ba88f-8eaf-4b61-9a3e-6d3a5f257cc7", + "image_id": 62, + "image_name": "117320.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 201.083, - 4436.776, - 1873.301, - 257.15099999999984 + 2604.999, + 2607.334, + 929.7290000000003, + 684.4079999999999 ], "priority": 22, "parents": [ - 67435 - ], - "children": [], - "area": 892160.228408, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 67425, - "strid": "689f235a-ae28-4ba1-abdb-1ba330c7968e", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 2208.763, - 1193.297, - 372.5250000000001, - 31.721000000000004 - ], - "priority": 23, - "parents": [ - 67454 - ], - "children": [ - 67451, - 67446, - 67444, - 67450 - ], - "area": 2635710.261611, - "iscrowd": 0, - "segmentation": [], - "text": "ASSESMENT\n\nTOOLS" - }, - { - "id": 67444, - "strid": "9fae43b2-2532-4517-a068-38170163315f", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 2211.9, - 1283.71, - 1472.087, - 84.06099999999992 - ], - "priority": 24, - "parents": [ - 67425 - ], - "children": [], - "area": 2839438.149, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 67450, - "strid": "0b41cdda-d82c-4e10-8a9f-d80ea25f0676", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 2208.755, - 1426.412, - 1850.587, - 209.88400000000001 - ], - "priority": 25, - "parents": [ - 67425 - ], - "children": [], - "area": 3150594.63706, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 67451, - "strid": "cc5b4820-b389-464c-be84-aa88b3457fd7", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", - "bbox": [ - 2208.985, - 1689.868, - 1845.6020000000003, - 214.04700000000003 - ], - "priority": 26, - "parents": [ - 67425 - ], - "children": [], - "area": 3732893.06398, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 67446, - "strid": "3fab9d42-e769-4ca0-bfa0-894438ac95a0", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 7, - "category_name": "Table", - "bbox": [ - 2298.441, - 2036.164, - 1703.263, - 1315.421 - ], - "priority": 27, - "parents": [ - 67425 + 1498 ], "children": [ - 67445 + 1509 ], - "area": 4680002.820324, + "area": 6792102.462665999, "iscrowd": 0, "segmentation": [] }, { - "id": 67445, - "strid": "dc15e1a4-f2a7-4fe7-ae10-a35961c77f33", - "image_id": 203144, - "image_name": "119776.png", + "id": 1509, + "strid": "bb3a3757-2dc6-4a7e-89d8-d10d00396b77", + "image_id": 62, + "image_name": "117320.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 2209.78, - 1960.303, - 1805.659, - 38.07899999999995 + 2649.839, + 3288.062, + 868.9299999999998, + 85.89800000000014 ], - "priority": 28, + "priority": 23, "parents": [ - 67446 + 1508 ], "children": [], - "area": 4331838.363340001, + "area": 8712834.922017999, "iscrowd": 0, "segmentation": [], - "text": "TABEE 2: Association between MCCB domains and.FAB and UPSA (Only significant values included)" + "text": "Fig.5.: Genome Alignment of Helicobacter pylori and\nOchrobactrum intermedium using MAUVE" }, { - "id": 67426, - "strid": "cf9c792d-5b4a-4adf-a93e-7473ea88f112", - "image_id": 203144, - "image_name": "119776.png", + "id": 1510, + "strid": "d118db62-8d54-45e1-88a8-d5ad905f1f74", + "image_id": 62, + "image_name": "117320.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2211.637, - 3404.666, - 241.7539999999999, - 30.702999999999975 + 2811.479, + 3472.893, + 347.15099999999984, + 55.38200000000006 ], - "priority": 29, + "priority": 24, "parents": [ - 67454 + 1486 ], "children": [ - 67447 + 1511 ], - "area": 7529885.298242001, + "area": 9763965.738746999, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Conclusion" }, { - "id": 67447, - "strid": "ecc30735-7260-4f52-aaaf-585893b93c07", - "image_id": 203144, - "image_name": "119776.png", - "category_id": 4, - "category_name": "List", + "id": 1511, + "strid": "1e8ae48f-b4b6-4ec6-8dfc-160569b0153d", + "image_id": 62, + "image_name": "117320.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2211.727, - 3459.53, - 1860.1080000000002, - 599.06 + 2422.694, + 3582.629, + 1143.6110000000003, + 431.433 ], - "priority": 30, + "priority": 25, "parents": [ - 67426 + 1510 ], "children": [], - "area": 7651535.90831, + "area": 8679613.782526, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "The genomes of H. pylori and O. intermedium were compared in order\nto get a link between the species at genetic levels. The phylogenetic\ntree based on 16SrRNA and the urease alpha genes were created\nthat showed a distinct class for O. intermedium. The core genome set\nof these strains appears shared somewhat and having 584\northologous gene clusters in common and related mostly to basal\nmetabolic processes and replication along with few others entailing\npathogenesis. The functional relevance of these genes and further\npathway analysis will shed light on the coexistence of these organisms\nin the human gut ecosystem." }, { - "id": 67427, - "strid": "9adeeec5-ac86-4262-8c5b-5730c97aeb07", - "image_id": 203144, - "image_name": "119776.png", + "id": 1514, + "strid": "7896a5a1-b7c2-4fb5-baa0-d58f64ea2b58", + "image_id": 62, + "image_name": "117320.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2211.507, - 4113.314, - 241.1959999999999, - 30.204999999999927 + 2813.92, + 4057.782, + 345.0920000000001, + 55.23099999999977 ], - "priority": 31, + "priority": 26, "parents": [ - 67454 + 1486 ], "children": [ - 67448 + 1515 ], - "area": 9096622.704198001, + "area": 11418273.92544, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "References" }, { - "id": 67448, - "strid": "ab28f059-4ca2-4490-a223-122f67627f5f", - "image_id": 203144, - "image_name": "119776.png", + "id": 1515, + "strid": "d7d51916-784f-4036-95c5-1a54007a07ea", + "image_id": 62, + "image_name": "117320.png", "category_id": 4, "category_name": "List", "bbox": [ - 2211.182, - 4165.969, - 1159.549, - 99.92000000000007 + 2417.414, + 4169.16, + 1123.2940000000003, + 313.97500000000036 ], - "priority": 32, + "priority": 27, "parents": [ - 67427 + 1514 ], "children": [], - "area": 9211715.665358, + "area": 10078585.75224, "iscrowd": 0, "segmentation": [] }, { - "id": 67428, - "strid": "cceadb15-d5e8-489e-8181-f93cb7213d79", - "image_id": 203144, - "image_name": "119776.png", + "id": 1512, + "strid": "fb1b5144-f9f2-4ea1-9d5b-ae61dd9ce5a7", + "image_id": 62, + "image_name": "117320.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2208.954, - 4329.718, - 442.6010000000001, - 31.91399999999976 + 2698.713, + 4559.265, + 576.123, + 69.70700000000033 ], - "priority": 33, + "priority": 28, "parents": [ - 67454 + 1486 ], "children": [ - 67449 + 1513 ], - "area": 9564147.894972, + "area": 12304147.725945001, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Acknowledgement" }, { - "id": 67449, - "strid": "9cb85490-f76a-495c-8b3c-a3ecde641f87", - "image_id": 203144, - "image_name": "119776.png", + "id": 1513, + "strid": "aee67739-c14b-46f7-b26f-8a4a6814a0fe", + "image_id": 62, + "image_name": "117320.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2209.644, - 4375.707, - 1862.9810000000002, - 128.77000000000044 + 2433.903, + 4652.876, + 1099.469, + 127.20300000000043 ], - "priority": 34, + "priority": 29, "parents": [ - 67428 + 1512 ], "children": [], - "area": 9668754.718308, + "area": 11324648.855028, "iscrowd": 0, "segmentation": [], - "text": "We thank our study participants. Funded in part by grants from the National ‘institute of Health, USA\n(Training Program foreRsychiatric Genetics in India, D43 TW06167; The impact of yoga supplementation\non cognitive function,among patients with SZ RO1TW008289) and University of Texas , USA." + "text": "| gratefully acknowledge Dr. Niyaz Anmed, Narender Kumar, Ramani\nBaddam, Shaik Sabiha and all the Pathogen Biology Laboratory\nmembers for their constant support and guidance." }, { - "id": 75519, - "strid": "74ebe598-57e4-4e65-85c1-d52d9291dfa1", - "image_id": 203444, - "image_name": "120242.png", + "id": 1516, + "strid": "66f915e0-44d5-4daa-92a4-8253fae03624", + "image_id": 63, + "image_name": "117322.png", "category_id": 9, "category_name": "Root", "bbox": [ - 50.37, - 61.39, - 157.24, - 147.70999999999998 + 47.7, + 51.7, + 127.39, + 315.12 ], "priority": -1, "parents": [], "children": [ - 75514, - 75506, - 75516, - 75518, - 75497, - 75510, - 75494, - 75496, - 75495 + 1517, + 1559, + 1519, + 1535, + 1546, + 1521, + 1518, + 1563, + 1561 ], - "area": 3092.2143, + "area": 2466.09, "iscrowd": 0, "segmentation": [] }, { - "id": 75494, - "strid": "2c36be1c-fcdd-4103-8f23-247da7784eef", - "image_id": 203444, - "image_name": "120242.png", + "id": 1517, + "strid": "bdc11b9e-66fa-434e-a1ad-7d6778fcb4a6", + "image_id": 63, + "image_name": "117322.png", "category_id": 1, "category_name": "Title", "bbox": [ - 915.473, - 134.992, - 2487.04, - 184.951 + 1453.584, + 147.482, + 2689.9040000000005, + 101.93300000000002 ], "priority": 1, "parents": [ - 75519 + 1516 ], "children": [], - "area": 123581.53121599999, + "area": 214377.475488, "iscrowd": 0, "segmentation": [], - "text": "Arabidopsis CHROMOSOME TRANSMISSION FIDELITY:7\n(AtCTF7/ECQO1) is required for meiosis, mitosis and DNA«repair" + "text": "Overt Fixations Reflect a Natural Central Bias" }, { - "id": 75495, - "strid": "46ccfecf-b2fb-40b7-bed3-c9893afc1527", - "image_id": 203444, - "image_name": "120242.png", + "id": 1518, + "strid": "94915ae0-1294-4029-a118-b97ea927789a", + "image_id": 63, + "image_name": "117322.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 316.905, - 416.62, - 3677.888, - 174.99799999999993 + 1873.245, + 369.668, + 1868.217, + 170.341 ], "priority": 2, "parents": [ - 75519 + 1516 ], "children": [], - "area": 132028.9611, + "area": 692478.73266, "iscrowd": 0, "segmentation": [], - "text": "Pablo Bolanos-Villegas'**, Xiaohui.Yang4, Huei-Jing Wang', Chien-TaJuan', Min-Hsiang Chuang', Chris Makaroff* and Guang-Yuh Jauh'?\n\n‘ Molécular and Biological Agricultural Sciences ProgramMaiwan International Graduate Program, Academia Sinica\\Taipei, ? Institute of Plant and Microbial Biology, AcademiaSinica, Taipei, \"Graduate Institute of Biotechnology, National Chung-Hsing\nUniversity, Taichung, Taiwan, “Department of Chemistry and Biochemistry, Miami University, Oxford, Ohio, 45056, United States of America." + "text": "Calden Wloka and John K. Tsotsos\n\nDepartment of Electrical Engineering and Computer Science, York University, Toronto, Canada\nCentre for Vision Research, York University, Toronto, Canada" }, { - "id": 75496, - "strid": "eb27347b-23e3-4ae4-9d54-fdd7827cff77", - "image_id": 203444, - "image_name": "120242.png", + "id": 1519, + "strid": "4c66dae9-a751-4ff1-8394-504f04f96f4c", + "image_id": 63, + "image_name": "117322.png", "category_id": 5, "category_name": "Section", "bbox": [ - 360.936, - 681.122, - 856.883, - 54.40499999999997 + 460.458, + 614.298, + 474.88999999999993, + 57.13499999999999 ], "priority": 3, "parents": [ - 75519 + 1516 ], "children": [ - 75505, - 75502, - 75500, - 75501, - 75503, - 75504 + 1520 ], - "area": 245841.45019199996, + "area": 282858.42848400003, "iscrowd": 0, "segmentation": [], - "text": "1. ctf7 mutants are dwarf and sterile" + "text": "" }, { - "id": 75500, - "strid": "32c27c72-e429-4a7e-87f2-37628f57d23f", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1520, + "strid": "a88dc645-8613-4647-95c0-3231365621f0", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 362.865, - 793.858, - 886.538, - 285.21000000000004 + 45.378, + 691.011, + 1306.293, + 553.4740000000002 ], "priority": 4, "parents": [ - 75496 + 1519 ], "children": [], - "area": 288063.28317, + "area": 31356.697158, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A common characteristic of psychophysical eye-tracking data taken during free-\nviewing conditions is a strong central bias in the set of fixation locations. Although\ntrends in photographic composition may contribute to a centralized distribution of\nfixations, it does not appear to account for the entire phenomenon [1]. We propose\nthat a more fundamental explanation arises from a train of explicit overt fixations.\nWe show first that a 2D random walk implicitly encodes a central bias around the\nstarting location, and compare the statistical spread of fixation points with human\npsychophysical data. Based on the principles of our statistical results, we\nimplement a saccade controller for overt fixation control. Using the saccade\ncontroller in conjunction with the AIM saliency algorithm, [2], (which does not\ncontain a central bias component) we demonstrate an improved performance in\nreproducing more human-like fixation patterns." }, { - "id": 75501, - "strid": "3f576fb4-50c1-493c-b0f3-6780c8e32970", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1521, + "strid": "b2be1ec2-c46f-4083-bb2b-6e2be0fefb5f", + "image_id": 63, + "image_name": "117322.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 357.245, - 1086.092, - 362.48300000000006, - 304.8789999999999 + 194.805, + 1305.52, + 1007.7919999999999, + 62.596000000000004 ], "priority": 5, "parents": [ - 75496 + 1516 ], - "children": [], - "area": 388000.93654, + "children": [ + 1531, + 1528, + 1526, + 1523, + 1527, + 1534, + 1532, + 1529, + 1522, + 1524 + ], + "area": 254321.8236, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "2. Fixations as a Random Walk" }, { - "id": 75502, - "strid": "36c4f838-ce2a-466f-b4f8-df85ef158fb7", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1522, + "strid": "b01a384d-858a-455f-bc1e-a607e07f595e", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 732.373, - 1083.282, - 512.815, - 304.87900000000013 + 47.462, + 1386.071, + 1258.883, + 132.837 ], "priority": 6, "parents": [ - 75496 + 1521 ], "children": [], - "area": 793366.488186, + "area": 65785.701802, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "In the absence of any knowledge about the image statistics or appearance, a\nfixation train may be roughly approximated as a random walk over a constrained\n2D plane." }, { - "id": 75504, - "strid": "4ddd34e6-f0fd-4e1d-9c13-6947b52293f3", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1523, + "strid": "b7e449d1-3c34-4541-a622-6a7cd47883e7", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 357.245, - 1412.046, - 425.707, - 299.259 + 102.293, + 1726.988, + 336.354, + 223.586 ], "priority": 7, "parents": [ - 75496 + 1521 ], "children": [], - "area": 504446.37327000004, + "area": 176658.783484, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Fixation data formed\nby a series of random\nwalks forms a\nunimodal distribution\n(Figures | and 2)" }, { - "id": 75503, - "strid": "d8905cb2-f9a1-454d-8614-bc871f94ba8e", - "image_id": 203444, - "image_name": "120242.png", + "id": 1524, + "strid": "a546b530-eb6f-40ee-9b65-1cd299402e83", + "image_id": 63, + "image_name": "117322.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 806.837, - 1410.641, - 428.51700000000005, - 302.06899999999996 + 525.358, + 1575.319, + 810.9179999999999, + 628.79 ], "priority": 8, "parents": [ - 75496 + 1521 ], - "children": [], - "area": 1138157.352517, + "children": [ + 1525 + ], + "area": 827606.4392019999, "iscrowd": 0, "segmentation": [] }, { - "id": 75505, - "strid": "ea3529e0-fd98-420b-bf0e-0d1f171e4425", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1525, + "strid": "c1e0d893-af3a-4ec2-848f-43cdbdaa6c6e", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 355.84, - 1718.33, - 892.1580000000001, - 206.53099999999995 + 863.615, + 2212.955, + 131.47299999999996, + 33.547999999999774 ], "priority": 9, "parents": [ - 75496 + 1524 ], "children": [], - "area": 611450.5471999999, + "area": 1911141.132325, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure |:" }, { - "id": 75506, - "strid": "9e028cea-07fc-407b-92f8-347aa4e0ea4f", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 5, - "category_name": "Section", + "id": 1526, + "strid": "5877e504-399c-4433-9b91-adb44bc31265", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 362.859, - 2007.571, - 1002.6990000000001, - 120.89300000000003 + 534.001, + 2252.203, + 800.48, + 110.70400000000018 ], "priority": 10, "parents": [ - 75519 + 1521 ], - "children": [ - 75508, - 75509, - 75507 - ], - "area": 728465.205489, + "children": [], + "area": 1202678.654203, "iscrowd": 0, "segmentation": [], - "text": "2. ctf7-chromosomes show fragmentation,\nand poor segregation during meiosis" + "text": "A scatter plot of randomly generated fixation sequences\nconstrained to a 1024x1024 region with a maximum step of\n200 in each direction." }, { - "id": 75509, - "strid": "82e49ddb-1edd-404a-82a4-4cc054dedc11", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1527, + "strid": "b6d90daf-0f81-4e70-a377-e2a9acb141dd", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 362.774, - 2206.597, - 907.0590000000001, - 401.69799999999987 + 95.266, + 2268.891, + 356.883, + 273.60300000000007 ], "priority": 11, "parents": [ - 75506 + 1521 ], "children": [], - "area": 800496.020078, + "area": 216148.17000600003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Statistical moments,\nmy, = E(x — p)*\nprovide quantitative\n\nmeasures of\ndistribution properties!" }, { - "id": 75508, - "strid": "e342c30c-3622-4e81-bf7d-9f501052f228", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1528, + "strid": "25f805f5-7a3f-4302-af23-025c1cb00fe9", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 359.894, - 2618.373, - 905.6189999999999, - 408.89699999999993 + 95.896, + 2887.609, + 358.374, + 318.06500000000005 ], "priority": 12, "parents": [ - 75506 + 1521 ], "children": [], - "area": 942336.732462, + "area": 276910.152664, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "For practical purposes,\ndistributions which\ncorrespond in the first\nfour moments may\nserve as strong\napproximations for\neach other [3]" }, { - "id": 75507, - "strid": "7d1bba27-0c1e-432e-9eb4-b345a77d4a39", - "image_id": 203444, - "image_name": "120242.png", + "id": 1529, + "strid": "d4d12c29-0514-4897-a34f-5d3853ad0350", + "image_id": 63, + "image_name": "117322.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 362.774, - 3038.788, - 904.179, - 394.49900000000025 + 595.291, + 2471.989, + 722.4710000000001, + 621.3879999999999 ], "priority": 13, "parents": [ - 75506 + 1521 ], - "children": [], - "area": 1102393.277912, + "children": [ + 1530 + ], + "area": 1471552.803799, "iscrowd": 0, "segmentation": [] }, { - "id": 75497, - "strid": "22303322-a161-4e50-bab5-7833860ddd4e", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 5, - "category_name": "Section", + "id": 1530, + "strid": "1b9ee6e7-28c0-4758-80ed-e108995a9e34", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1600.599, - 663.635, - 878.2560000000001, - 110.75400000000002 + 883.23, + 3122.717, + 127.625, + 32.427000000000135 ], "priority": 14, "parents": [ - 75519 - ], - "children": [ - 75498, - 75499 + 1529 ], - "area": 1062213.517365, + "children": [], + "area": 2758077.3359100004, "iscrowd": 0, "segmentation": [], - "text": "3. ctf7 meiotic chromosomes display\nan excess.of centromeric foci" + "text": "Figure 2:" }, { - "id": 75499, - "strid": "5cd56e35-d0cf-4bdc-92b4-5fa771cab073", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1531, + "strid": "32a859fd-5667-4804-9ed0-58cebe5c075a", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1561.738, - 801.591, - 928.7749999999999, - 464.38800000000003 + 568.393, + 3162.308, + 759.6500000000001, + 76.85199999999986 ], "priority": 15, "parents": [ - 75497 + 1521 ], "children": [], - "area": 1251875.125158, + "area": 1797433.731044, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "A histogram of the data from Figure | using 32 bins. The\ndistribution forms a unimodal peak." }, { - "id": 75498, - "strid": "1a7cf06d-5671-44ed-8a14-962153eaba78", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1532, + "strid": "613d0e69-e123-492d-8394-ab5d83ffd88d", + "image_id": 63, + "image_name": "117322.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 1561.738, - 1282.554, - 925.722, - 466.13200000000006 + 139.101, + 3357.715, + 1115.172, + 178.47400000000016 ], "priority": 16, "parents": [ - 75497 + 1521 ], - "children": [], - "area": 2003013.3188520002, + "children": [ + 1533 + ], + "area": 467061.51421500003, "iscrowd": 0, "segmentation": [] }, { - "id": 75510, - "strid": "36175078-298b-4a6b-b60a-c8bf3659b046", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 5, - "category_name": "Section", + "id": 1533, + "strid": "ecdf5ebd-b2d3-41e8-aecc-05c5732c1d0e", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1603.861, - 1787.622, - 865.3060000000003, - 109.423 + 237.229, + 3554.01, + 924.1769999999999, + 66.86299999999983 ], "priority": 17, "parents": [ - 75519 - ], - "children": [ - 75511 + 1532 ], - "area": 2867097.2085420005, + "children": [], + "area": 843114.2382900001, "iscrowd": 0, "segmentation": [], - "text": "4. ctf7 shows reduced abundanceof\ncohesin subunits during meiosis" + "text": "Table 1: Chart of distributional moments in the x and y directions for\nrandom walk data." }, { - "id": 75511, - "strid": "79531079-a2c2-4189-9c92-21192f04717d", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1534, + "strid": "18612f75-7eaa-4d62-b814-3c329b7c352f", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1555.205, - 1912.639, - 934.1610000000001, - 1518.823 + 149.059, + 3721.352, + 1083.864, + 86.64300000000003 ], "priority": 18, "parents": [ - 75510 + 1521 ], "children": [], - "area": 2974545.7359949998, + "area": 554701.007768, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Random walk data forms a distribution almost identical to a Gaussian\ndistribution except a slightly broader peak (kurtosis < 0)." }, { - "id": 75518, - "strid": "09b6668c-7e6a-4b1a-8135-3e8429bb0827", - "image_id": 203444, - "image_name": "120242.png", + "id": 1535, + "strid": "ccd43470-ec20-4481-9407-ad68d4bf73a7", + "image_id": 63, + "image_name": "117322.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2712.971, - 668.819, - 1087.9299999999998, - 167.11799999999994 + 1627.245, + 611.241, + 925.2469999999998, + 59.27099999999996 ], "priority": 19, "parents": [ - 75519 + 1516 ], "children": [ - 75517 + 1545, + 1540, + 1544, + 1536, + 1541, + 1543, + 1539, + 1537 ], - "area": 1814486.5512489998, + "area": 994638.8610449999, "iscrowd": 0, "segmentation": [], - "text": "5». ctf7 meiocytes show upregulation of genes\nrequired for homologous recombination and\ncohesion" + "text": "3. Human Fixation Statistics" }, { - "id": 75517, - "strid": "84877b10-ded5-456d-981f-3ccdb5ebcb6a", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1536, + "strid": "ba1633c0-5fa8-4515-9e63-2c0380d0ada1", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2812.578, - 901.235, - 1002.71, - 532.3440000000002 + 1439.486, + 690.291, + 1297.1869999999997, + 227.96799999999996 ], "priority": 20, "parents": [ - 75518 + 1535 ], "children": [], - "area": 2534793.73383, + "area": 993664.2304260002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Judd et al. provide a large (1003 images) and useful psychophysical eye-tracking\ndata set from which human fixation statistics may be examined [4]. Judd et al. took\ntheir recorded subject fixations and turned them into saliency maps by convolving\nthe fixation point maps with a Gaussian kernel; the average of these maps produces\na strongly centralized blob of high salience as shown in Figure 3." }, { - "id": 75516, - "strid": "24fa784d-a3c6-464f-be21-bab81950ebff", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 5, - "category_name": "Section", + "id": 1537, + "strid": "89eb4a91-7bb3-4990-b5c4-dc420f78f884", + "image_id": 63, + "image_name": "117322.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 2710.758, - 1490.023, - 1207.458, - 118.42200000000003 + 1471.823, + 976.643, + 1249.224, + 956.943 ], "priority": 21, "parents": [ - 75519 + 1535 ], "children": [ - 75515 + 1538 ], - "area": 4039091.7674339996, + "area": 1437445.6301890002, "iscrowd": 0, - "segmentation": [], - "text": "6i.ctf7 leaves show upregulation of genes required\nfor DNA repair and cell cycle progression" + "segmentation": [] }, { - "id": 75515, - "strid": "9223b419-962c-4cd8-afac-1f60db6ea00b", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1538, + "strid": "d71e3222-caa6-46bd-a860-a894e53f8779", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 2821.432, - 1687.024, - 1020.4180000000001, - 547.8380000000002 + 1999.691, + 1952.949, + 129.96299999999997, + 33.32899999999995 ], "priority": 22, "parents": [ - 75516 + 1537 ], "children": [], - "area": 4759823.498368, + "area": 3905294.538759, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 3:" }, { - "id": 75514, - "strid": "d1918264-9dd3-443c-852b-b1a029f428d7", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 5, - "category_name": "Section", + "id": 1539, + "strid": "cf8afc62-170a-4e69-a6e5-b3723b3506f9", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2717.278, - 2279.312, - 608.1379999999999, - 48.85699999999997 + 1515.76, + 1994.443, + 1105.8620000000003, + 31.66599999999994 ], "priority": 23, "parents": [ - 75519 + 1535 ], - "children": [ - 75513, - 75512 - ], - "area": 6193524.352735999, + "children": [], + "area": 3023096.92168, "iscrowd": 0, "segmentation": [], - "text": "7.Aodel and conclusions" + "text": "Average of human saliency maps taken from the dataset provided by Judd et al. [4]" }, { - "id": 75513, - "strid": "112ff6c7-bb83-4fd3-b9de-0ba0e4b6fd74", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 2, - "category_name": "Figure", + "id": 1540, + "strid": "24b14a0e-07b1-4317-a70b-867425cc4aba", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2822.102, - 2360.311, - 965.5639999999999, - 323.99800000000005 + 1504.029, + 2130.201, + 1195.982, + 78.41300000000001 ], "priority": 24, "parents": [ - 75514 + 1535 ], "children": [], - "area": 6661038.3937220005, + "area": 3203884.079829, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Raw fixation data can be interpreted as a distribution about the image centre.\nStatistical moments for this distribution are shown in Table 2." }, { - "id": 75512, - "strid": "68324600-5350-4ed1-a20f-6ad418fbe6c2", - "image_id": 203444, - "image_name": "120242.png", - "category_id": 4, - "category_name": "List", + "id": 1541, + "strid": "b0d62ecd-a78d-49b4-b1b6-13e4ce99f8b9", + "image_id": 63, + "image_name": "117322.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 2733.389, - 2737.023, - 1315.2759999999998, - 480.8539999999998 + 1521.953, + 2338.936, + 1116.134, + 180.38499999999976 ], "priority": 25, "parents": [ - 75514 - ], - "children": [], - "area": 7481348.560947001, - "iscrowd": 0, - "segmentation": [] - }, - { - "id": 197892, - "strid": "77adb85b-3ef0-48d6-8203-651b9d339b99", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 9, - "category_name": "Root", - "bbox": [ - 98.23, - 363.15, - 332.03999999999996, - 223.49 + 1535 ], - "priority": -1, - "parents": [], "children": [ - 197888, - 197880, - 197879, - 197891, - 197889, - 197878, - 197886, - 197872, - 197883, - 197887, - 197890, - 197873, - 197884, - 197882, - 197881, - 197885 + 1542 ], - "area": 35672.2245, + "area": 3559750.662008, "iscrowd": 0, "segmentation": [] }, { - "id": 197872, - "strid": "ea044003-dd7f-4879-8428-8ac00f6cc787", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 1, - "category_name": "Title", + "id": 1542, + "strid": "7ddc5af4-d792-41a9-aee8-b2cec2245ced", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 567.426, - 119.608, - 1619.217, - 258.582 + 1558.383, + 2538.883, + 1024.3590000000002, + 73.70600000000013 ], - "priority": 1, + "priority": 26, "parents": [ - 197892 + 1541 ], "children": [], - "area": 67868.689008, + "area": 3956552.106189, "iscrowd": 0, "segmentation": [], - "text": "CAMUR: Knowledge extraction\nfrom RNA-seg cancer data\nthrough equivalent classification rules" + "text": "Table 2: Chart of distributional moments in the x and y directions for human\npsychophysical data." }, { - "id": 197873, - "strid": "cbf72a51-47bb-4d92-bfd4-fcc867f2d18f", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1543, + "strid": "7e323702-96ee-4d37-b614-d7bfcd21a233", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 489.219, - 400.782, - 1774.6709999999998, - 180.04300000000006 + 1490.059, + 2714.462, + 1216.6030000000003, + 131.288 ], - "priority": 2, + "priority": 27, "parents": [ - 197892 + 1535 ], "children": [], - "area": 196070.16925799998, + "area": 4044708.533258, "iscrowd": 0, "segmentation": [], - "text": "V. Cestarelli+, G. Fiscon’, G. Felici+, P. Bertolazzi?, E. Weitschek?2\n\n‘nstitute of Systems Analysis and Computer Science, National Research Council, Rome, Italy\n3Department of Engineering, Uninettuno International University, Rome, Italy" + "text": "The psychophysical data has a small variance and high kurtosis, and therefore\nan even sharper central peak than in either a random walk or a Gaussian\ndistribution" }, { - "id": 197884, - "strid": "e4497707-ae57-4821-bdab-efe9be256dbc", - "image_id": 208253, - "image_name": "9775.png", + "id": 1544, + "strid": "e35b6b22-c030-4b69-adc5-1c4bd47ce2be", + "image_id": 63, + "image_name": "117322.png", "category_id": 3, "category_name": "Text", "bbox": [ - 128.331, - 649.918, - 2494.803, - 401.5189999999999 + 1495.061, + 3002.045, + 1217.8529999999998, + 87.52500000000009 ], - "priority": 3, + "priority": 28, "parents": [ - 197892 + 1535 ], "children": [], - "area": 83404.62685799999, + "area": 4488240.399745, "iscrowd": 0, "segmentation": [], - "text": "Motivations: Next Generation Sequencing (NGS) techniques are rapidly spreading, providing huge amounts of genomic data.\nTherefore, knowledge extraction methods from NGS data are highly requested. In this work, we focus on RNA-seq gene expression\nanalysis and specifically on case-control studies for cancer with rule-based classification algorithms designed to build models, that\ndiscriminate cases from controls.\n\nState of the art algorithms typically extract a single classification model that contains few features (genes). On the other hand, our goal is\nto elicit a higher amount of knowledge by computing more alternative classification models and therefore to discover several features\n\nthat are related to the predicted class." + "text": "The spread of fixation points is distinctly broader in the x-direction than in the\ny-direction" }, { - "id": 197885, - "strid": "f9fa52cc-4dea-4e78-bb65-dfc8f8fbadcc", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 3, - "category_name": "Text", + "id": 1545, + "strid": "37331cfe-22c0-4c7d-8358-1bf061e1f18d", + "image_id": 63, + "image_name": "117322.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 127.965, - 1147.946, - 2496.746, - 275.47299999999996 + 1472.554, + 3294.63, + 1247.862, + 508.89699999999993 ], - "priority": 4, + "priority": 29, "parents": [ - 197892 + 1535 ], "children": [], - "area": 146896.90988999998, + "area": 4851520.58502, "iscrowd": 0, - "segmentation": [], - "text": "Materials and Methods: we propose CAMUR (Classifier with Alternative and \\ViUltiple Rule-based models), a new method and\nsoftware package able to extract multiple, alternative, and equivalent classification models. CAMUR iteratively computes a rule-based\nclassification model, calculates the power set (or a partial combination) of the features present in the rules, iteratively eliminates those\ncombinations from the data set, and performs again the classification procedure until a stopping criterion is verified. CAMUR includes an\nad-hoc knowledge repository (database) and a complete querying tool." + "segmentation": [] }, { - "id": 197886, - "strid": "38db2deb-f995-4ff3-9002-24d9aac7538f", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 4, - "category_name": "List", + "id": 1546, + "strid": "e48a8115-d421-4cc0-a0f9-45c73b1308ea", + "image_id": 63, + "image_name": "117322.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 130.151, - 1545.851, - 685.2239999999999, - 177.14200000000005 + 2951.997, + 610.698, + 1090.505, + 68.74199999999996 ], - "priority": 5, + "priority": 30, "parents": [ - 197892 + 1516 ], - "children": [], - "area": 201194.05350100002, + "children": [ + 1556, + 1547, + 1558, + 1555, + 1552, + 1548, + 1553, + 1551, + 1550 + ], + "area": 1802778.6639059999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "4. Peripheral Saliency Map Model" }, { - "id": 197887, - "strid": "8fe38272-2216-4fff-a95f-2eb19eb19136", - "image_id": 208253, - "image_name": "9775.png", + "id": 1547, + "strid": "440c2feb-e526-407d-8b9f-45fb519bab76", + "image_id": 63, + "image_name": "117322.png", "category_id": 3, "category_name": "Text", "bbox": [ - 130.151, - 1746.99, - 885.4479999999999, - 524.7099999999998 + 2852.156, + 688.427, + 1257.0550000000003, + 131.44399999999996 ], - "priority": 6, + "priority": 31, "parents": [ - 197892 + 1546 ], "children": [], - "area": 227372.49549000003, + "area": 1963501.198612, "iscrowd": 0, "segmentation": [], - "text": "In Figure 1, we show how the MSE is composed:\nCAMUR Launcher that iteratively performs the\nclassification procedure, after loading the data\nthrough the Input Manager, and managing it\nwith the Data Elaborator. After that, MSE stores\nthe results into a data base using a module\ncalled Results Elaborator.\n\nThe MSA is a querying too! used for knowledge\nextraction from the data base. A screen shot of\nthe MSA GUI is depicted in Figure 2." + "text": "A saccade controller is shown in Figure 4. This is a model developed as part of a\nlarger effort to understand human visual attention (see [7] for a more complete\ndescription), but also provides a useful test platform." }, { - "id": 197881, - "strid": "6815e0cd-450b-4f81-86cb-93d5b50df8f2", - "image_id": 208253, - "image_name": "9775.png", + "id": 1548, + "strid": "bcdb6f98-ce1c-4b4a-b79a-2b0b695743a3", + "image_id": 63, + "image_name": "117322.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1157.358, - 1553.557, - 625.163, - 712.423 + 2881.511, + 902.155, + 1177.6399999999999, + 891.471 ], - "priority": 7, + "priority": 32, "parents": [ - 197892 + 1546 ], "children": [ - 197874 + 1549 ], - "area": 1798021.622406, + "area": 2599569.556205, "iscrowd": 0, "segmentation": [] }, { - "id": 197874, - "strid": "3d498b6d-0f78-4036-abcd-5f4b95264b78", - "image_id": 208253, - "image_name": "9775.png", + "id": 1549, + "strid": "04b7ff0e-c6f1-491d-985a-01c0d7d399c5", + "image_id": 63, + "image_name": "117322.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1221.915, - 2338.822, - 496.576, - 27.16800000000012 + 3422.48, + 1823.534, + 126.94900000000007, + 32.95399999999995 ], - "priority": 8, + "priority": 33, "parents": [ - 197881 + 1548 ], "children": [], - "area": 2857841.68413, + "area": 6241008.64432, "iscrowd": 0, "segmentation": [], - "text": "Figure 1. CAMUR MSE Components Scheme" + "text": "Figure 4:" }, { - "id": 197880, - "strid": "d2cf3074-b7f6-444a-abd2-02567f2de50c", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 2, - "category_name": "Figure", + "id": 1550, + "strid": "0b43a40b-fd63-4789-a6ab-2a579726540e", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1956.878, - 1525.975, - 675.1859999999999, - 759.1579999999999 + 2955.244, + 1863.617, + 1065.185, + 114.36500000000001 ], - "priority": 9, + "priority": 34, "parents": [ - 197892 - ], - "children": [ - 197875 + 1546 ], - "area": 2986146.90605, + "children": [], + "area": 5507442.957548, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Peripheral Saliency Map Model (PSMM) to control sequence of overt fixations.\nAIM was used to provide the Peripheral Priority Map (13°x11°) and the central\nfield was approximated at roughly foveal size (2°). Figure modified from [7]" }, { - "id": 197875, - "strid": "03537f9b-dd47-4b7f-b9ab-d8f1bf58ab5d", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 6, - "category_name": "Caption", + "id": 1551, + "strid": "80e38b22-678e-4951-bfe1-54f07c2c848e", + "image_id": 63, + "image_name": "117322.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 2101.866, - 2334.294, - 394.69500000000016, - 27.922999999999774 + 2873.416, + 2117.728, + 1236.375, + 614.3760000000002 ], - "priority": 10, + "priority": 35, "parents": [ - 197880 + 1546 ], "children": [], - "area": 4906373.192604, + "area": 6085113.518848, "iscrowd": 0, - "segmentation": [], - "text": "Figure 2. CAMUR MSA Screen Shot" + "segmentation": [] }, { - "id": 197888, - "strid": "9f755615-2d9f-4483-90e0-9f5e6a3fcf9f", - "image_id": 208253, - "image_name": "9775.png", + "id": 1552, + "strid": "ff3afd3b-9388-4319-8b72-2652215f536e", + "image_id": 63, + "image_name": "117322.png", "category_id": 3, "category_name": "Text", "bbox": [ - 127.965, - 2444.418, - 887.635, - 317.01200000000017 + 2867.408, + 2911.57, + 1270.877, + 180.61099999999988 ], - "priority": 11, + "priority": 36, "parents": [ - 197892 + 1546 ], "children": [], - "area": 312799.94937000005, + "area": 8348659.11056, "iscrowd": 0, "segmentation": [], - "text": "Queries: Through CAMUR MSA, the user can\nset up and execute a query, through which he\ncan extract gene and disease relationships. An\nexample of query is shown in Table 1, where the\npairs of genes that appear most frequently and\ntheir occurrences are depicted." + "text": "The PSMM fixation controller was tested against the pure AIM algorithm [2] on\n501 randomly selected images from Judd et al.’s dataset [3]. An example image is\nshown in Figure 5, performance of the two algorithms is shown in Figure 6.\nPSMM increased the fidelity of fixations to those of humans by 10.84%." }, { - "id": 197879, - "strid": "c8d9bd23-d905-47b4-b397-d04680493b23", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 7, - "category_name": "Table", + "id": 1553, + "strid": "22ae8e5b-6fc9-4990-b2a5-4164fc7d116d", + "image_id": 63, + "image_name": "117322.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1083.84, - 2464.258, - 771.287, - 338.88200000000006 + 2942.203, + 3183.771, + 1108.078, + 640.587 ], - "priority": 12, + "priority": 37, "parents": [ - 197892 + 1546 ], - "children": [], - "area": 2670861.3907199996, + "children": [ + 1554 + ], + "area": 9367300.587513, "iscrowd": 0, "segmentation": [] }, { - "id": 197878, - "strid": "5de10a99-1741-4da4-be10-35a28d022664", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 7, - "category_name": "Table", + "id": 1554, + "strid": "2993889c-6e66-4dbb-ae05-681d71645816", + "image_id": 63, + "image_name": "117322.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1989.08, - 2510.337, - 652.5709999999999, - 210.35199999999986 + 3517.509, + 3520.0, + 140.69700000000012, + 40.621999999999844 ], - "priority": 13, + "priority": 38, "parents": [ - 197892 + 1553 ], "children": [], - "area": 4993261.11996, + "area": 12381631.68, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Figure 5:" }, { - "id": 197889, - "strid": "4875ca21-81bc-46a0-aae0-96def15320c7", - "image_id": 208253, - "image_name": "9775.png", + "id": 1555, + "strid": "d670cba6-86f9-4940-af88-d9529fbbef5f", + "image_id": 63, + "image_name": "117322.png", "category_id": 3, "category_name": "Text", "bbox": [ - 121.406, - 2881.676, - 872.3310000000001, - 533.4549999999999 + 3516.473, + 3567.047, + 514.9189999999999, + 203.5680000000002 ], - "priority": 14, + "priority": 39, "parents": [ - 197892 + 1546 ], "children": [], - "area": 349852.75645600003, + "area": 12543424.465231, "iscrowd": 0, "segmentation": [], - "text": "Results: we downloaded, processed, and\nanalyzed three different RNA-Seq data sets\n(Breast, Head and Neck, and Stomach Cancer,\nTable 2) from The Cancer Genome Atlas\n(TCGA). Our experimental results (Figure 3)\nshow the efficacy of CAMUR: we obtain several\nhigh reliable equivalent classification models,\nfrom which the most frequent genes, their\nrelationships, and the relation with a particular\ncancer are deduced." + "text": "PSMM fixation results are shown\nin the upper left, AIM fixation\nresults are shown in the upper\nright. Human fixations from [3] are\nshown in lower left." }, { - "id": 197882, - "strid": "ab4c6567-b321-49e9-8a98-edaa50c6eca9", - "image_id": 208253, - "image_name": "9775.png", + "id": 1556, + "strid": "4a75768c-e385-4526-b34b-7544bad26d9c", + "image_id": 63, + "image_name": "117322.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1181.149, - 2881.793, - 577.4470000000001, - 453.7109999999998 + 4284.805, + 642.336, + 1241.728, + 1003.5910000000001 ], - "priority": 15, + "priority": 40, "parents": [ - 197892 + 1546 ], "children": [ - 197876 + 1557 ], - "area": 3403826.920157, + "area": 2752284.50448, "iscrowd": 0, "segmentation": [] }, { - "id": 197876, - "strid": "f81323b5-2acb-4d21-8fff-005bedf62d70", - "image_id": 208253, - "image_name": "9775.png", + "id": 1557, + "strid": "25fd7dba-abe1-4b99-b593-3cc1191460ed", + "image_id": 63, + "image_name": "117322.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1108.416, - 3385.316, - 711.251, - 60.96399999999994 + 4858.287, + 1667.547, + 127.8819999999996, + 33.662000000000035 ], - "priority": 16, + "priority": 41, "parents": [ - 197882 + 1556 ], "children": [], - "area": 3752338.4194559995, + "area": 8101421.911989001, "iscrowd": 0, "segmentation": [], - "text": "Figure 3. Venn Diagram of the extracted genes for Breast\n(BRCA), Head and Neck (HNSC), and Stomach Cancer (STAD)" + "text": "Figure 6:" }, { - "id": 197883, - "strid": "5bd862d2-3da2-42d5-bb29-c0c868ab9524", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 2, - "category_name": "Figure", + "id": 1558, + "strid": "62506cae-2f1d-4add-a2e2-b9f6c31a7678", + "image_id": 63, + "image_name": "117322.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1860.432, - 2855.423, - 838.5800000000002, - 495.0909999999999 + 4349.632, + 1707.572, + 1148.1090000000004, + 114.09400000000005 ], - "priority": 17, + "priority": 42, + "parents": [ + 1546 + ], + "children": [], + "area": 7427309.813503999, + "iscrowd": 0, + "segmentation": [], + "text": "ROC results for 501 randomly selected images from Judd et al.’s dataset [3]. The\nPSMM is consistently closer to human performance than the standard AIM algorithm,\nimproving performance by 10.84%." + }, + { + "id": 1559, + "strid": "cd154a67-9275-477c-adaa-c213dae190ef", + "image_id": 63, + "image_name": "117322.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4658.487, + 1952.949, + 487.71500000000015, + 58.919000000000096 + ], + "priority": 43, "parents": [ - 197892 + 1516 ], "children": [ - 197877 + 1560 ], - "area": 5312320.322736, + "area": 9097787.528163001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "5 Conclusions" }, { - "id": 197877, - "strid": "7f782796-20cf-4950-aa5e-81a6be99f438", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 6, - "category_name": "Caption", + "id": 1560, + "strid": "84c8aa22-d8a0-4039-b438-d37a960648c9", + "image_id": 63, + "image_name": "117322.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1904.122, - 3387.516, - 770.3350000000003, - 58.646999999999935 + 4276.666, + 2080.116, + 1266.643, + 683.3339999999998 ], - "priority": 18, + "priority": 44, "parents": [ - 197883 + 1559 ], "children": [], - "area": 6450243.740952, + "area": 8895961.373256, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1563, + "strid": "dd782a3f-c11c-47b1-9378-90ef2287b174", + "image_id": 63, + "image_name": "117322.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 4723.115, + 2987.836, + 367.8029999999999, + 58.36499999999978 + ], + "priority": 45, + "parents": [ + 1516 + ], + "children": [ + 1564 + ], + "area": 14111893.029139997, "iscrowd": 0, "segmentation": [], - "text": "Figure 4. Venn Diagram of the extracted genes by CAMUR ana\ndifferential expression analysis fro the three data sets" + "text": "References" }, { - "id": 197890, - "strid": "95c48a88-6822-4714-a005-e73da003c055", - "image_id": 208253, - "image_name": "9775.png", - "category_id": 3, - "category_name": "Text", + "id": 1564, + "strid": "fba76def-1eb5-4461-8164-f477ccd56f96", + "image_id": 63, + "image_name": "117322.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 121.406, - 3520.073, - 1751.22, - 168.3449999999998 + 4275.194, + 3065.458, + 1263.88, + 686.654 ], - "priority": 19, + "priority": 46, "parents": [ - 197892 + 1563 ], "children": [], - "area": 427357.982638, + "area": 13105427.648852002, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1561, + "strid": "2e587c97-8125-40ff-948a-9cf533002cf0", + "image_id": 63, + "image_name": "117322.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 50.67, + 3946.492, + 720.141, + 79.06100000000015 + ], + "priority": 47, + "parents": [ + 1516 + ], + "children": [ + 1562 + ], + "area": 199968.74964000002, "iscrowd": 0, "segmentation": [], - "text": "Conclusions: tn this work, we presented CAMUR a new method for multiple solutions\nextraction in rule-based classification problems. We show that knowledge extraction obtained\nby our algorithm is higher than a standard supervised classification." + "text": "Acknowledgements:" }, { - "id": 197891, - "strid": "e755bc9c-a81a-4a58-ad6f-4a34d4565ce2", - "image_id": 208253, - "image_name": "9775.png", + "id": 1562, + "strid": "08385926-d740-40ac-9c79-59b9c21ae3d4", + "image_id": 63, + "image_name": "117322.png", "category_id": 3, "category_name": "Text", "bbox": [ - 125.778, - 3758.379, - 2501.119, - 111.5010000000002 + 57.62, + 4041.106, + 3498.0, + 84.9670000000001 ], - "priority": 20, + "priority": 48, "parents": [ - 197892 + 1561 ], "children": [], - "area": 472721.393862, + "area": 232848.52772, "iscrowd": 0, "segmentation": [], - "text": "Citation: v. Cestarelli, G. Fiscon, G. Felici, P. Bertolazzi, E. Weitschek: CAMUR: Knowledge extraction from RNA-seq cancer data\nthrough equivalent classification rules. Bioinformatics, 32(5): 697-704, 2016." + "text": "Financial support was provided in part by the Ontario Graduate Scholarship (OGS) program, the Natural Science and Engineering Research Council (NSERC), and the Canada Research Chairs Program.\nAdditionally, we would like to thank Neil Bruce, Albert Rothenstein, Eugene Simine, Erich Leung, and Xun Shi for their helpful advice and discussions related to this work." }, { - "id": 62682, - "strid": "1335570f-6ece-481d-8782-3d45bb3032f6", - "image_id": 202970, - "image_name": "119526.png", + "id": 1565, + "strid": "3b6a56ab-febe-45ed-a063-e83660a9274b", + "image_id": 64, + "image_name": "117347.png", "category_id": 9, "category_name": "Root", "bbox": [ - 744.19, - 387.29, - 205.3699999999999, - 128.35999999999996 + 544.9, + 68.39, + 440.6, + 229.88 ], "priority": -1, "parents": [], "children": [ - 62662, - 62666, - 62675, - 62660, - 62667, - 62659, - 62656, - 62655, - 62661 + 1575, + 1595, + 1588, + 1585, + 1596, + 1566, + 1577, + 1567, + 1568, + 1593, + 1598, + 1579, + 1574 ], - "area": 288217.34510000004, + "area": 37265.710999999996, "iscrowd": 0, "segmentation": [] }, { - "id": 62655, - "strid": "606e1057-c8f6-4788-9e38-2278639054e7", - "image_id": 202970, - "image_name": "119526.png", + "id": 1566, + "strid": "83e2feba-2918-4dec-b8dc-1b2c28dae2b7", + "image_id": 64, + "image_name": "117347.png", "category_id": 1, "category_name": "Title", "bbox": [ - 723.344, - 126.041, - 3878.334, - 145.04900000000004 + 1073.002, + 124.216, + 3270.448, + 107.15999999999998 ], "priority": 1, "parents": [ - 62682 + 1565 ], "children": [], - "area": 91171.00110400001, + "area": 133284.01643199997, "iscrowd": 0, "segmentation": [], - "text": "Early Impulsivity in Youth at Familial Risk of Bipolar Disorder" + "text": "Attention Restores Awareness of Changing Colors in Moving Objects" }, { - "id": 62656, - "strid": "351e2faa-f23d-4b5b-8ecf-b0189131013d", - "image_id": 202970, - "image_name": "119526.png", + "id": 1567, + "strid": "eaad9c3b-f31b-4602-949e-81e4ad290b41", + "image_id": 64, + "image_name": "117347.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1177.632, - 304.044, - 2750.605, - 281.318 + 2199.205, + 301.397, + 1016.011, + 141.88100000000003 ], "priority": 2, "parents": [ - 62682 + 1565 ], "children": [], - "area": 358051.943808, + "area": 662833.789385, "iscrowd": 0, "segmentation": [], - "text": "Simona Graur, Cecile D. Ladouceur, Anna Manelis, Kelly Monk, Lisa K. Bonar,\n\nGenna M. Bebko, Michele Bertocci, Boris Birmaher, Mary L. Phillips\nDepartment of Psychiatry, University of Pittsburgh School of Medicine, Pittsburgh, PA" + "text": "Scott McLean & James E. Hoffman\nUNIVERSITY OF DELAWARE" }, { - "id": 62660, - "strid": "920621e0-c4cf-4fb2-8c04-0a109a75bec1", - "image_id": 202970, - "image_name": "119526.png", + "id": 1568, + "strid": "8ab21393-e992-409f-8b24-eb0c7f96283e", + "image_id": 64, + "image_name": "117347.png", "category_id": 5, "category_name": "Section", "bbox": [ - 405.047, - 740.826, - 549.581, - 75.51499999999999 + 244.918, + 536.581, + 1133.567, + 128.17700000000002 ], "priority": 3, "parents": [ - 62682 + 1565 ], "children": [ - 62657 + 1570, + 1571, + 1572, + 1573, + 1569 ], - "area": 300069.348822, + "area": 131418.34535800002, "iscrowd": 0, "segmentation": [], - "text": "BACKGROUND" + "text": "Motion Silences Awareness for Color Change\n(Suchow and Alvarez, 2011) _»#Aisior" }, { - "id": 62657, - "strid": "adbdcb0c-e0b6-437d-ab70-4100dabb5982", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1569, + "strid": "2da6fd4a-def2-439d-98c8-dbea9978e095", + "image_id": 64, + "image_name": "117347.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 142.843, - 847.805, - 1065.599, - 1254.386 + 208.879, + 722.911, + 593.617, + 603.6439999999999 ], "priority": 4, "parents": [ - 62660 + 1568 ], "children": [], - "area": 121103.00961499999, + "area": 151000.92676899998, "iscrowd": 0, "segmentation": [] }, { - "id": 62662, - "strid": "81ac5d38-7950-483d-b63c-449a244dfc47", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 5, - "category_name": "Section", + "id": 1570, + "strid": "dc04c90c-1b6d-41ec-bbc2-72fea145c4c6", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 488.953, - 2139.949, - 381.77, - 73.41699999999992 + 268.228, + 1432.37, + 557.107, + 96.18100000000004 ], "priority": 5, "parents": [ - 62682 - ], - "children": [ - 62681, - 62680 + 1568 ], - "area": 1046334.483397, + "children": [], + "area": 384201.74036, "iscrowd": 0, "segmentation": [], - "text": "METHODS" + "text": "Stationary\nColor Change Detection is Easy" }, { - "id": 62681, - "strid": "34dcc3f8-4747-465d-bb23-4f90e9da29ed", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1571, + "strid": "59bc2afe-f0a2-4cd4-b051-570783851140", + "image_id": 64, + "image_name": "117347.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 143.183, - 2252.907, - 1012.5329999999999, - 177.63700000000017 + 1001.651, + 672.856, + 615.063, + 717.874 ], "priority": 6, "parents": [ - 62662 + 1568 ], "children": [], - "area": 322577.982981, + "area": 673966.885256, "iscrowd": 0, "segmentation": [] }, { - "id": 62680, - "strid": "50e95ec8-20e2-41a1-8f54-b7ca30b8697b", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 7, - "category_name": "Table", + "id": 1572, + "strid": "41e75ed0-2c7b-40e1-b16b-5371b5d31dc2", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 147.477, - 2436.459, - 1062.935, - 793.415 + 1040.393, + 1410.351, + 543.1579999999999, + 145.56999999999994 ], "priority": 7, "parents": [ - 62662 + 1568 ], "children": [], - "area": 359321.66394299996, + "area": 1467319.3079430002, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Movement\n‘Blind’ to the Color Change\n“Motion Silencing Awareness”" }, { - "id": 62659, - "strid": "dc5591b1-90f3-4081-af31-4e69c0f875f0", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 5, - "category_name": "Section", + "id": 1573, + "strid": "6ae13140-4004-48e7-9a4f-a4928d9f94b8", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1653.14, - 738.728, - 390.1600000000001, - 81.80799999999999 + 35.384, + 1659.452, + 1701.01, + 529.9469999999999 ], "priority": 8, "parents": [ - 62682 - ], - "children": [ - 62663, - 62658 + 1568 ], - "area": 1221220.80592, + "children": [], + "area": 58718.049568, "iscrowd": 0, "segmentation": [], - "text": "METHODS" + "text": "The mechanisms reapers for “blindness” to changing color in moving objects\nmay be similar to e observed in other cases of change blindness. Namely,\nretinotopic change detectors are masked by flicker or other transi . Often, the\nchanging regt can be perceived by attending to its oration.\n\nWee Se this possibility for color change detection iving people two tasks:\ntr SN ibset of moving objects with random colors and try to detect one object\nie is changing color. If attention restores awareness of changing color, then color\nchanges should be easy to see on tracked objects-and difficult otherwise." }, { - "id": 62663, - "strid": "db915f38-a514-4036-a4a1-299d85fec788", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 2, - "category_name": "Figure", + "id": 1574, + "strid": "d65f684f-da8a-4a75-a551-cd79f7e1463a", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1306.132, - 849.903, - 1081.781, - 882.5049999999999 + 508.5, + 2250.673, + 574.1799999999998, + 59.884000000000015 ], "priority": 9, "parents": [ - 62659 + 1565 ], "children": [], - "area": 1110085.505196, + "area": 1144467.2204999998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Current Experiments" }, { - "id": 62658, - "strid": "07307fc8-3889-46d6-b707-bc1b2fdcd027", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1575, + "strid": "b1a7b1da-4bcf-4389-9fca-c525f39da566", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1298.64, - 1741.398, - 1040.427, - 180.39699999999993 + 55.789, + 2365.816, + 337.077, + 53.85199999999986 ], "priority": 10, "parents": [ - 62659 + 1565 ], - "children": [], - "area": 2261449.09872, + "children": [ + 1576 + ], + "area": 131986.508824, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Experiment 1" }, { - "id": 62661, - "strid": "9774b7af-8050-468c-a499-89719ebc4b0c", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 5, - "category_name": "Section", + "id": 1576, + "strid": "16e0bd8a-0d25-4f24-81b9-b4bd3a8d08b9", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1678.312, - 1955.357, - 352.403, - 71.31999999999994 + 38.312, + 2449.13, + 1704.586, + 538.5749999999998 ], "priority": 11, "parents": [ - 62682 - ], - "children": [ - 62676, - 62677, - 62679, - 62678 + 1575 ], - "area": 3281699.1173839998, + "children": [], + "area": 93831.06856, "iscrowd": 0, "segmentation": [], - "text": "RESULTS" + "text": "Color Change Detection During Multiple Object Tracking\n\nMethod: Participants track 1-3 target disks in a display of 20 colored disks. At a random time\non half of the trials, one of the disks (either target or distractor) begins a continuous change in\nhue lasting 100 msec. Participants make a speeded detection response to this change.\n\nOn the other half of the trials , a color change doesn’t occur and participants are required to\nclick on the tracked objects at the end of the trial. Tracking and Change trials were randomly\n\npresented.\n\nIn a control condition, observers monitor all 20 disks for the color change." }, { - "id": 62676, - "strid": "cdae7a43-c3b1-48e8-b2b7-7707466e5336", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 7, - "category_name": "Table", + "id": 1577, + "strid": "10b01f4c-bcdd-4958-a943-446a371b452c", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1311.841, - 2069.054, - 1058.3470000000002, - 254.07600000000002 + 56.0, + 3127.666, + 399.233, + 50.57900000000018 ], "priority": 12, "parents": [ - 62661 + 1565 ], - "children": [], - "area": 2714269.8684139997, + "children": [ + 1578 + ], + "area": 175149.296, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Example Displays" }, { - "id": 62678, - "strid": "963c7981-410f-4b1c-8304-81644dea613e", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1578, + "strid": "3689fac2-ef07-4932-bb16-6bba980bdee2", + "image_id": 64, + "image_name": "117347.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1306.358, - 2339.581, - 1076.626, - 116.98500000000013 + 93.044, + 3001.51, + 1470.091, + 984.5230000000001 ], "priority": 13, "parents": [ - 62661 + 1577 ], "children": [], - "area": 3056330.355998, + "area": 279272.49644, "iscrowd": 0, "segmentation": [] }, { - "id": 62677, - "strid": "af25f957-5afb-43ed-b384-653b25b83e82", - "image_id": 202970, - "image_name": "119526.png", + "id": 1579, + "strid": "61a58f54-bef1-4af1-9f60-6e6dc9cbc408", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 1866.768, + 604.964, + 621.335, + 56.27800000000002 + ], + "priority": 14, + "parents": [ + 1565 + ], + "children": [ + 1580, + 1583, + 1582, + 1581, + 1584 + ], + "area": 1129327.436352, + "iscrowd": 0, + "segmentation": [], + "text": "Results for Experiment 1" + }, + { + "id": 1580, + "strid": "79f4d39d-e2fa-4735-b6df-e01f2ec9e03f", + "image_id": 64, + "image_name": "117347.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1299.046, - 2483.984, - 784.164, - 711.0480000000002 + 1777.213, + 765.841, + 1116.986, + 841.4619999999999 ], - "priority": 14, + "priority": 15, "parents": [ - 62661 + 1579 ], "children": [], - "area": 3226809.479264, + "area": 1361062.581133, "iscrowd": 0, "segmentation": [] }, { - "id": 62679, - "strid": "0fe32b82-9593-4850-8cfd-8a0baa75799b", - "image_id": 202970, - "image_name": "119526.png", + "id": 1581, + "strid": "99daf295-9df3-4740-a8b7-9769dc19783c", + "image_id": 64, + "image_name": "117347.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2099.661, - 2507.747, - 301.6010000000001, - 654.384 + 2925.702, + 905.952, + 669.268, + 351.7839999999999 ], - "priority": 15, + "priority": 16, "parents": [ - 62661 + 1579 ], "children": [], - "area": 5265418.573767, + "area": 2650545.578304, "iscrowd": 0, "segmentation": [], - "text": "Negative\nassociation\nbetween age\nand errors of\ncommission\nfor BIOS\nparticipants\n(r=-0.69)) but\nnot in°;CONT\nFisher's test\nP=01" + "text": "Main Effect of Set Size F(2,20)=4.804,\np=.02\n\nMain Effect of Tracked vs. Untracked\nF(1,10)=110.398, p<.001.\n\nNo Interaction" }, { - "id": 62666, - "strid": "f4fc682c-4169-4d45-8472-dee45cb98ed9", - "image_id": 202970, - "image_name": "119526.png", + "id": 1582, + "strid": "964ad440-f9f6-421c-9edb-0354b2dd23cf", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 1963.564, + 1883.265, + 684.6890000000001, + 93.8409999999999 + ], + "priority": 17, + "parents": [ + 1579 + ], + "children": [], + "area": 3697911.3564600004, + "iscrowd": 0, + "segmentation": [], + "text": "Main Effect of Set Size, F(2,20)=31.66,\np<.001" + }, + { + "id": 1583, + "strid": "6c2c503a-53ab-43d8-9314-fc46e57713aa", + "image_id": 64, + "image_name": "117347.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2809.796, + 1567.495, + 802.5189999999998, + 720.7049999999999 + ], + "priority": 18, + "parents": [ + 1579 + ], + "children": [], + "area": 4404341.181019999, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1584, + "strid": "763af31a-572d-49c7-977e-83a7ae37b2f8", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 2009.688, + 2455.474, + 1415.313, + 201.52599999999984 + ], + "priority": 19, + "parents": [ + 1579 + ], + "children": [], + "area": 4934736.632112, + "iscrowd": 0, + "segmentation": [], + "text": "Observers are much better at detecting color change in\na tracked object than a dist r. This holds even when\nattention is divided acros many as three objects." + }, + { + "id": 1585, + "strid": "36e090f7-9bab-4c0f-9c5a-f11f1051b9b3", + "image_id": 64, + "image_name": "117347.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2831.912, - 743.237, - 349.6060000000002, - 76.69899999999996 + 1939.802, + 2913.07, + 334.865, + 58.72600000000011 ], - "priority": 16, + "priority": 20, "parents": [ - 62682 + 1565 ], "children": [ - 62671, - 62673, - 62669, - 62670, - 62664, - 62672, - 62665 + 1586, + 1587 ], - "area": 2104781.779144, + "area": 5650779.01214, "iscrowd": 0, "segmentation": [], - "text": "RESULTS" + "text": "Experiment 2" }, { - "id": 62665, - "strid": "3ee5c665-eafa-4779-9a36-b7993393567d", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1586, + "strid": "f3535008-b3ea-4e2f-a331-fec200a0770d", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2485.873, - 848.476, - 1038.116, - 60.64599999999996 + 1973.833, + 3023.77, + 1632.2310000000002, + 311.62599999999975 ], - "priority": 17, + "priority": 21, "parents": [ - 62666 + 1585 ], "children": [], - "area": 2109203.579548, + "area": 5968417.010410001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Control Experiment: Stationary Objects\n\nDetection of Color Change for stationary objects is probably based on retinotopic change\ndetectors. If so, change detection should be accurate and independent of whether the\ncolor change occurs in an attended object. This will confirm that it is the motion in\nExperiment 1 that causes blindness to color change." }, { - "id": 62664, - "strid": "1e19beb8-3968-4451-907a-9c89877c72b2", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 2, - "category_name": "Figure", + "id": 1587, + "strid": "ac4dba50-ba0d-48cf-bcc2-51ec3051c699", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2494.792, - 914.473, - 997.0909999999999, - 738.453 + 2035.418, + 3434.635, + 1467.4109999999998, + 178.92799999999988 ], - "priority": 18, + "priority": 22, "parents": [ - 62666 + 1585 ], "children": [], - "area": 2281419.9246159997, + "area": 6990917.90243, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Method: Methods were the same as Experiment 1 except that the disks remained\nstationary throughout the trial. Participants were still cued to attend to 1-3 objects and, ona\nsubset of trials, they were still required to indicate their locations after display termination.\nWe refer to these cued objects as “tracked objects” to be consistent with Experiment 1." }, { - "id": 62670, - "strid": "005a2947-f009-4975-898c-7a7839535ab7", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 2, - "category_name": "Figure", + "id": 1588, + "strid": "ff07d3a8-e730-4dab-a013-6b8646b1e402", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2480.631, - 1672.438, - 568.7829999999999, - 605.185 + 3700.657, + 553.923, + 603.0649999999996, + 59.57299999999998 ], - "priority": 19, + "priority": 23, "parents": [ - 62666 + 1565 ], - "children": [], - "area": 4148701.548378, + "children": [ + 1592, + 1591, + 1589, + 1590 + ], + "area": 2049879.027411, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Results of Experiment 2" }, { - "id": 62669, - "strid": "bdc20b2b-10dc-4ec9-a9ca-6c22d32e88ba", - "image_id": 202970, - "image_name": "119526.png", + "id": 1589, + "strid": "9879c1a3-7e70-4e34-9fa6-2101b72f26d6", + "image_id": 64, + "image_name": "117347.png", "category_id": 3, "category_name": "Text", "bbox": [ - 3056.998, - 1682.145, - 471.40700000000015, - 590.3209999999999 + 4155.074, + 686.13, + 614.6409999999996, + 42.70799999999997 ], - "priority": 20, + "priority": 24, "parents": [ - 62666 + 1588 ], "children": [], - "area": 5142313.90071, + "area": 2850920.9236199996, "iscrowd": 0, "segmentation": [], - "text": "ADHD removed:\nsig. group x age\ninteraction remains\n(F (1,38) =7.14999=.01)\nAge still negatively\nassociated with\ncommission errors in\nBIOS (r=-0.65), but\nnot in CONT\nFisher’s test, p=.03" + "text": "Color Change Detection Accuracy" }, { - "id": 62671, - "strid": "ef965726-8c93-49a8-96e8-45dd795d77a8", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1590, + "strid": "021dd8af-8610-46a3-9162-ac2a1f060bc0", + "image_id": 64, + "image_name": "117347.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 2488.215, - 2291.274, - 1011.6759999999999, - 56.11999999999989 + 3746.119, + 744.17, + 1574.252, + 424.3639999999999 ], - "priority": 21, + "priority": 25, "parents": [ - 62666 + 1588 ], "children": [], - "area": 5701182.33591, + "area": 2787749.37623, "iscrowd": 0, "segmentation": [] }, { - "id": 62672, - "strid": "35cde765-29af-4c24-adfe-980e057750cf", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 2, - "category_name": "Figure", + "id": 1591, + "strid": "0f17445d-fc2f-4207-b2ae-48e714977f2a", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2482.148, - 2359.528, - 1046.5609999999997, - 574.8499999999999 + 3776.797, + 1230.401, + 676.0030000000002, + 150.4000000000001 ], - "priority": 22, + "priority": 26, "parents": [ - 62666 + 1588 ], "children": [], - "area": 5856697.7061439995, + "area": 4646974.805597, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "No main effects, F(3,30)=.931, p=.432\n\nNo Interaction, F(3,30)=.347, p=.792" }, { - "id": 62673, - "strid": "7491cfb5-0293-4706-abea-cb78cefa54cb", - "image_id": 202970, - "image_name": "119526.png", + "id": 1592, + "strid": "ea58fcae-d282-462a-9593-62510c88d569", + "image_id": 64, + "image_name": "117347.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2494.282, - 2941.962, - 1013.192, - 297.2840000000001 + 3753.291, + 1469.389, + 1533.8739999999998, + 119.49399999999991 ], - "priority": 23, + "priority": 27, "parents": [ - 62666 + 1588 ], "children": [], - "area": 7338082.861284001, + "area": 5515044.509199, "iscrowd": 0, "segmentation": [], - "text": "% commission positively associated with\npositive affect scores in BIOS (r=.51), but not\nin CONT (Fisher’s test,p=.01). However, age\nlikely driving effect. Age and positive affect\nnegatively correlated in BIOS" + "text": "Sie objects are stationary, detection of color change is easy and\nappears to result from a “pop out “ of the color change event." }, { - "id": 62667, - "strid": "8c854b93-0a82-4df6-aac5-452fe4c38156", - "image_id": 202970, - "image_name": "119526.png", + "id": 1593, + "strid": "a578e5c9-1d3c-42b7-8af9-8c3a586a16d3", + "image_id": 64, + "image_name": "117347.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3880.73, - 741.454, - 506.57199999999966, - 71.34799999999996 + 3759.284, + 1705.975, + 264.17999999999984, + 45.478000000000065 ], - "priority": 24, + "priority": 28, "parents": [ - 62682 + 1565 ], "children": [ - 62668 + 1594 ], - "area": 2877382.78142, + "area": 6413244.5219, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Discussion" }, { - "id": 62668, - "strid": "6e6e6530-f79f-4e41-93fc-7923d56a87ef", - "image_id": 202970, - "image_name": "119526.png", + "id": 1594, + "strid": "781c33e7-1f9f-44b5-87fd-7b2fc23a48a1", + "image_id": 64, + "image_name": "117347.png", "category_id": 4, "category_name": "List", "bbox": [ - 3598.48, - 862.491, - 1061.7280000000005, - 1439.7039999999997 + 3678.802, + 1817.973, + 1591.3749999999995, + 1089.783 ], - "priority": 25, + "priority": 29, "parents": [ - 62667 + 1593 ], "children": [], - "area": 3103656.61368, + "area": 6687962.708346, "iscrowd": 0, "segmentation": [] }, { - "id": 62675, - "strid": "b072d113-29b0-4cf0-a19d-de93119caae5", - "image_id": 202970, - "image_name": "119526.png", + "id": 1595, + "strid": "6479417c-d7e1-480d-87d3-07fae6559c6e", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3712.589, + 3089.238, + 1446.8599999999997, + 118.30999999999995 + ], + "priority": 30, + "parents": [ + 1565 + ], + "children": [], + "area": 11469071.017182, + "iscrowd": 0, + "segmentation": [], + "text": "Conclusion: Motion silencing can be overcome by attending to\nthe objects." + }, + { + "id": 1598, + "strid": "f7956346-163a-45ce-8a69-14602e3316ac", + "image_id": 64, + "image_name": "117347.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3877.728, - 2362.943, - 506.875, - 72.22600000000011 + 3717.077, + 3443.509, + 229.60699999999997, + 32.98900000000003 ], - "priority": 26, + "priority": 31, "parents": [ - 62682 + 1565 ], "children": [ - 62674 + 1599 ], - "area": 9162850.233504001, + "area": 12799788.103193, "iscrowd": 0, "segmentation": [], - "text": "REFERENCES" + "text": "" }, { - "id": 62674, - "strid": "fb40710d-14da-4cea-9b6c-381cef099559", - "image_id": 202970, - "image_name": "119526.png", - "category_id": 4, - "category_name": "List", + "id": 1599, + "strid": "800c1fdc-62df-47e3-ad9d-00147d7ad42a", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3591.402, - 2476.442, - 1073.0779999999995, - 737.741 + 3714.05, + 3532.414, + 1164.643, + 126.16600000000017 ], - "priority": 27, + "priority": 32, "parents": [ - 62675 + 1598 ], "children": [], - "area": 8893898.751684, + "area": 13119562.2167, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Pylyshyn, Z. W., & Storm, R. W. (1988). Tracking multiple independent targets: Evidence for a parallet\ntracking mechanism. Spatial Vision, 3, 179-197.\n\nSuchow, J. W., & Alvarez, G. a. (2011). Motion silences awareness of visual change. Current biology :\nCB, 21(2), 140-3." }, { - "id": 86019, - "strid": "371fabf2-8303-4577-92a7-7856a44f9b03", - "image_id": 203847, - "image_name": "121017.png", + "id": 1596, + "strid": "b9455b85-bf9b-4291-ab71-961f5a2c9cf6", + "image_id": 64, + "image_name": "117347.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 3715.89, + 3774.885, + 369.4720000000002, + 41.87699999999995 + ], + "priority": 33, + "parents": [ + 1565 + ], + "children": [ + 1597 + ], + "area": 14027057.42265, + "iscrowd": 0, + "segmentation": [], + "text": "Acknowledgements" + }, + { + "id": 1597, + "strid": "d29c0e24-6360-4f3c-b664-3e6d0f9f7e7f", + "image_id": 64, + "image_name": "117347.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 3722.463, + 3823.947, + 552.9590000000003, + 69.82700000000023 + ], + "priority": 34, + "parents": [ + 1596 + ], + "children": [], + "area": 14234501.221461002, + "iscrowd": 0, + "segmentation": [], + "text": "Annie Tran\n\nResearch supported by NSF grant BCS-1059560 to JEH." + }, + { + "id": 1600, + "strid": "3a5c75db-5a8e-4a9a-8bf4-d1f342a7d5bb", + "image_id": 65, + "image_name": "117393.png", "category_id": 9, "category_name": "Root", "bbox": [ - 355.85, - 330.46, - 196.92999999999995, - 318.55 + 222.07, + 206.59, + 279.42, + 287.17999999999995 ], "priority": -1, "parents": [], "children": [ - 86009, - 86013, - 86002, - 86017, - 86001, - 86014, - 86000, - 86016 + 1611, + 1628, + 1604, + 1623, + 1603, + 1602, + 1601, + 1627, + 1616 ], - "area": 117594.191, + "area": 45877.4413, "iscrowd": 0, "segmentation": [] }, { - "id": 86000, - "strid": "29184e05-0279-4074-bcbf-729dd22a2dc3", - "image_id": 203847, - "image_name": "121017.png", + "id": 1601, + "strid": "cf505c0c-a8e2-4ab1-b76e-aa1cf90b8ebb", + "image_id": 65, + "image_name": "117393.png", "category_id": 1, "category_name": "Title", "bbox": [ - 761.919, - 99.452, - 3989.4790000000003, - 249.85699999999997 + 881.361, + 233.81, + 2770.992, + 287.425 ], "priority": 1, "parents": [ - 86019 + 1600 ], "children": [], - "area": 75774.368388, + "area": 206071.01541, "iscrowd": 0, "segmentation": [], - "text": "Oxytocin receptor (OXTR) genotype (rs1042778) predicts individual\ndifferences in threat-related amygdala reactivity:in young males" + "text": "PAGET DISEASE OF THE NIPPLE\n\nCOMPARATIVE ANALYSIS OF DIAGNOSTIC TOOLS AND SURGICAL TREATMENT PLANNING" }, { - "id": 86001, - "strid": "9e6eb6d1-250d-4b12-b278-0d764b5839e6", - "image_id": 203847, - "image_name": "121017.png", + "id": 1602, + "strid": "ac6a2afb-caba-459e-a3b4-b94bde9e7ea6", + "image_id": 65, + "image_name": "117393.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 1011.491, - 363.153, - 3619.7800000000007, - 425.275 + 939.385, + 627.339, + 1556.553, + 303.879 ], "priority": 2, "parents": [ - 86019 + 1600 ], "children": [], - "area": 367325.99112300004, + "area": 589312.8465150001, "iscrowd": 0, "segmentation": [], - "text": "Bianca Vannucci!, Nadia S. Corral-Frias!, Emily M..Drabant2, Kelly Faig?,\nRyan Bogdan! and Ahmad R. Hariri*\n\n1. BRAINLab, ‘Department of Psychology, Washington University in St. Louis, St. Louis, MO, USA; 2. 23andMe, Mountain View,\nCA, USA;\\3s Department of Psychology, University of Chicago, Chicago, IL, USA; 4.-Laboratory of Neurogenetics, Department\nof Psychology & Neuroscience, Institute for Genome Sciences & Policy,,Duke University, Durham, NC, USA" + "text": "M. Schettino’, O.A. Catalano MD?, C. Iannace MD?\n\n1 \"La Sapienza\" Univesity, Faculty of Medicine and Odontology, Rome, Italy\n2 Fondazione IRCCS SDN, Department of Radiology, Napoli, Italy\n3 \"G. Moscati\" Hospital, Brest Unit-General Surgery Department, Avellino, Italy" }, { - "id": 86002, - "strid": "306f27b0-56e2-47c6-a54c-9937a0621ed0", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 5, - "category_name": "Section", + "id": 1603, + "strid": "ab9dea2d-a051-455b-8e40-b11cbe6dd32b", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 919.472, - 884.313, - 769.345, - 113.13900000000001 + 108.817, + 1329.263, + 346.818, + 2360.636 ], "priority": 3, "parents": [ - 86019 - ], - "children": [ - 86003, - 86006, - 86008, - 86004 + 1600 ], - "area": 813101.0427359999, + "children": [], + "area": 144646.411871, "iscrowd": 0, "segmentation": [], - "text": "Background" + "text": "AjezT ‘ouljeay\nquUsWed|ag A1sdBing jesauUa5-}1UN WesdI1g\n\nWLIdGSOH ,ILVOISOW *5),," }, { - "id": 86003, - "strid": "fab17aa0-569a-401d-b413-ff7e45d70830", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1604, + "strid": "3cc5d289-27c3-4e2d-b890-89b2ba56d59f", + "image_id": 65, + "image_name": "117393.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 72.769, - 1016.118, - 1825.21, - 887.9250000000001 + 556.4, + 995.457, + 349.97400000000005, + 41.46300000000008 ], "priority": 4, "parents": [ - 86002 + 1600 ], - "children": [], - "area": 73941.890742, + "children": [ + 1605, + 1608, + 1610, + 1606 + ], + "area": 553872.2748, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 86008, - "strid": "4b75c618-f284-4399-af9c-0c707b69d89b", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1605, + "strid": "43e0dfec-74da-4b76-9351-a7e1e745877c", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 90.652, - 1975.091, - 1759.252, - 321.86299999999983 + 551.854, + 1054.41, + 1606.758, + 178.529 ], "priority": 5, "parents": [ - 86002 + 1604 ], "children": [], - "area": 179045.949332, + "area": 581880.3761400001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Paget disease of the breast is a rare (1-4.3% of all the breast\ncarcinomas) cancer of the nipple-areola complex often associ-\nated with an underlying in situ or invasive carcinoma." }, { - "id": 86004, - "strid": "a6c163e7-6bb1-4474-8d9e-54290a13ac85", - "image_id": 203847, - "image_name": "121017.png", + "id": 1606, + "strid": "f55d4b26-01f1-4407-a676-2c7261a47c18", + "image_id": 65, + "image_name": "117393.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1987.178, - 1032.297, - 522.7940000000001, - 495.8140000000001 + 583.732, + 1318.279, + 764.088, + 600.796 ], "priority": 6, "parents": [ - 86002 + 1604 ], "children": [ - 86005 + 1607 ], - "area": 2051357.8878660002, + "area": 769521.637228, "iscrowd": 0, "segmentation": [] }, { - "id": 86005, - "strid": "3295c8b7-2c63-4437-92c9-edcdb8f299d8", - "image_id": 203847, - "image_name": "121017.png", + "id": 1607, + "strid": "a59b41a8-cbdd-4255-9e4b-9d4f4b3c4e20", + "image_id": 65, + "image_name": "117393.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1988.735, - 1549.579, - 519.7729999999999, - 90.69200000000001 + 617.53, + 1950.697, + 680.6569999999999, + 100.16299999999978 ], "priority": 7, "parents": [ - 86004 + 1606 ], "children": [], - "area": 3081701.992565, + "area": 1204613.91841, "iscrowd": 0, "segmentation": [], - "text": "Fig. 1 Anatomical subdivisions/of\nthe amygdala" + "text": "A 56-year-old woman, presented with left nipple are-\nolar changes. Photograph shows skin thickening,\nredness, and scaling around the nipple areola area." }, { - "id": 86006, - "strid": "3a80de3e-a6a6-46f2-bace-c8111ada8608", - "image_id": 203847, - "image_name": "121017.png", + "id": 1608, + "strid": "b2ee2d70-a8a9-42ff-9a4d-ddf092cbe8e5", + "image_id": 65, + "image_name": "117393.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2014.778, - 1652.994, - 396.5939999999998, - 619.2210000000002 + 1437.165, + 1328.04, + 663.8310000000001, + 592.3499999999999 ], "priority": 8, "parents": [ - 86002 + 1604 ], "children": [ - 86007 + 1609 ], - "area": 3330415.945332, + "area": 1908612.6065999998, "iscrowd": 0, "segmentation": [] }, { - "id": 86007, - "strid": "58a59d1c-cf6a-4c7e-bfea-84a0e4f77a8c", - "image_id": 203847, - "image_name": "121017.png", + "id": 1609, + "strid": "46429a36-4279-4764-a2b9-b852caf8ba22", + "image_id": 65, + "image_name": "117393.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1989.847, - 2275.642, - 482.6360000000002, - 47.44599999999991 + 1437.437, + 1969.526, + 567.6669999999999, + 29.190000000000055 ], "priority": 9, "parents": [ - 86006 + 1608 ], "children": [], - "area": 4528179.406773999, + "area": 2831069.544862, "iscrowd": 0, "segmentation": [], - "text": "Fig. 2 Plasma OT by genotype?" + "text": "Paget disease of the nipple: Pathophysiology." }, { - "id": 86009, - "strid": "a5035c13-67a8-45b2-9620-dc4206ab0b32", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 5, - "category_name": "Section", + "id": 1610, + "strid": "00da934f-c66b-47bf-be7a-858c0bb7ec10", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1015.604, - 2410.979, - 533.47, - 103.70100000000002 + 548.185, + 2084.262, + 1604.94, + 302.66600000000017 ], "priority": 10, "parents": [ - 86019 + 1604 ], - "children": [ - 86010 - ], - "area": 2448599.916316, + "children": [], + "area": 1142561.16447, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Aim of this study: compare, in patient with proven PD, accura-\ncy of MRI and mammography, detecting underlying invasive\ncancer and ductal carcinoma in situ (DCIS), and related conse-\nquences on the improvement of the surgical treatment plan-\nning. A control group is used." }, { - "id": 86010, - "strid": "6ef80756-2c6d-4a23-b189-6752d6295bfe", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1611, + "strid": "d88506f2-67aa-482d-bc47-fea47b541981", + "image_id": 65, + "image_name": "117393.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 86.894, - 2562.166, - 2375.5639999999994, - 919.1869999999999 + 556.919, + 2453.657, + 547.62, + 41.70499999999993 ], "priority": 11, "parents": [ - 86009 + 1600 ], - "children": [], - "area": 222636.85240400003, + "children": [ + 1615, + 1612, + 1613, + 1614 + ], + "area": 1366488.202783, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 86014, - "strid": "e82a29e6-a62e-4173-9bc0-7acb6a010410", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 5, - "category_name": "Section", + "id": 1612, + "strid": "de2fe787-c77e-4a5c-ac31-0e042c06ba10", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3834.674, - 880.799, - 476.90099999999984, - 116.12900000000002 + 555.518, + 2511.815, + 1598.716, + 237.21799999999985 ], "priority": 12, "parents": [ - 86019 - ], - "children": [ - 86015 + 1611 ], - "area": 3377577.024526, + "children": [], + "area": 1395358.4451700002, "iscrowd": 0, "segmentation": [], - "text": "Results" + "text": "16 consecutive female patients (mean age 44.4; SD 0.53) with\npathological proven PD of the breast who underwent both\nmammography and breast MRI were compared with 16 female\npatients ( mean age 45; SD 0,47) affected by same" }, { - "id": 86015, - "strid": "3d68c943-4bd0-45ab-8092-e0ce4e63708e", - "image_id": 203847, - "image_name": "121017.png", + "id": 1613, + "strid": "a255ceb2-dcdf-4a30-b0c8-2b5a8195b73c", + "image_id": 65, + "image_name": "117393.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2676.493, - 1025.196, - 2726.2400000000002, - 1208.0789999999997 + 603.299, + 2798.507, + 694.47, + 617.4110000000001 ], "priority": 13, "parents": [ - 86014 + 1611 ], "children": [], - "area": 2743929.9176279996, + "area": 1688336.474593, "iscrowd": 0, "segmentation": [] }, { - "id": 86013, - "strid": "2adb35e1-f2d2-4c4c-bbff-7e056287d218", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 5, - "category_name": "Section", + "id": 1614, + "strid": "9ac4f51a-48e4-422d-b8fd-81bcb204076b", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3225.675, - 2379.145, - 754.7399999999998, - 103.6550000000002 + 582.334, + 3425.053, + 743.4830000000001, + 127.5 ], "priority": 14, "parents": [ - 86019 + 1611 ], - "children": [ - 86012, - 86011 - ], - "area": 7674348.547875, + "children": [], + "area": 1994524.8137019998, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "Photomicrograph shows infiltration of malignant cells called\nPaget cells (arrows) among squamous cells of epidermis.\nThese malignant cells are large and show pleomorphism con-\ntaining hyperchromatic nuclei (H&E, x200)." }, { - "id": 86011, - "strid": "00e2aa6b-ca14-49d2-8781-a4f9023b382b", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1615, + "strid": "b68fdaa9-74c0-4880-864c-965a1f75efb0", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2654.905, - 2514.242, - 1824.4820000000004, - 677.855 + 1380.343, + 2752.219, + 775.7270000000001, + 727.9899999999998 ], "priority": 15, "parents": [ - 86013 + 1611 ], "children": [], - "area": 6675073.657010001, + "area": 3799006.2311170003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "kind of breast cancer and sim-\nilar demographics and _ initial\nstaging but without involve-\nment of nipple-areolar area\nwho underwent both mam-\nmography and breast MRI.\nPatients were collected be-\ntween March 2004 and July\n2012. ROC regression meth-\nodology has been used to\ncompare accuracy between\nmammography and MRI." }, { - "id": 86012, - "strid": "88c21acd-de33-41c6-9e34-5dc5f3641c57", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1616, + "strid": "b2c8fd6f-ac8e-42ae-8b72-9cef1226901b", + "image_id": 65, + "image_name": "117393.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2656.263, - 3209.196, - 1726.1819999999998, - 266.03499999999985 + 557.344, + 3652.549, + 204.091, + 41.766999999999825 ], "priority": 16, "parents": [ - 86013 + 1600 ], - "children": [], - "area": 8524468.594548, + "children": [ + 1619, + 1621, + 1618, + 1617, + 1622, + 1620 + ], + "area": 2035726.269856, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 86017, - "strid": "6ec08ddd-2303-4c78-98ed-76b97db5fd2f", - "image_id": 203847, - "image_name": "121017.png", + "id": 1617, + "strid": "89f53c7a-02c0-4d8b-8aac-242290bf70ed", + "image_id": 65, + "image_name": "117393.png", "category_id": 3, "category_name": "Text", "bbox": [ - 4598.126, - 3105.927, - 808.21, - 266.88200000000006 + 552.539, + 3713.233, + 1603.7080000000003, + 785.7430000000004 ], "priority": 17, "parents": [ - 86019 + 1616 ], "children": [], - "area": 14281443.692802, + "area": 2051706.048587, "iscrowd": 0, "segmentation": [], - "text": "Acknowledgements\n\nThank you to the BRAIN Lab (especially Lindsay\nMichalski), to the participants of the Duke\nNeurogenetics Study and everyone at the Duke\nUniversity Laboratory of NeuroGenetics." + "text": "Surgical pathology identified cancer in 16 of 16 patients (7 in-\nvasive ductal carcinoma, 8 ductal carcinoma in situ, 1 PD with-\nout underlying carcinoma).\n\nPreoperative imaging detected 14 of 15 cancers- in 1 case they\nwere completely negative.\n\nMammography detected 5 cancers, of these, accurately\ndemonstrating extent of disease in 3 of 5 patients, but failed to\nidentify 10 malignancies, either confined either extended to\nthe mammary gland, (positive predictive value 100%, negative\npredictive value 9%, sensitivity 34%, specificity 100%).\n\nWhen positive, MMG accurately predicted extent of disease in\n82% (3 of 5) of patients. Three patients proceeded to mastec-\ntomy, yielding two unifocal invasive cancer and one multicen-" }, { - "id": 86016, - "strid": "1a448993-2add-465f-9b7e-05afa4f76942", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 5, - "category_name": "Section", + "id": 1618, + "strid": "ded6bc41-17e4-498f-a850-f7a24c5df17d", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 4677.56, - 2370.427, - 711.9639999999999, - 117.67999999999984 + 2207.554, + 991.529, + 1602.96, + 667.722 ], "priority": 18, "parents": [ - 86019 + 1616 ], - "children": [ - 86018 - ], - "area": 11087814.518120002, + "children": [], + "area": 2188853.810066, "iscrowd": 0, "segmentation": [], - "text": "References" + "text": "tric DCIS with microinvasion, the extent of which was accu-\nrately predicted by the MRI in all patients. The two patients re-\nmaining underwent central lumpectomy.\n\nMRI detected 12 cancers, demonstrating extent of disease in 8\nof 12 patients but failed to identify 2 malignancies (PPV 100%,\nNPV 33%, sensitivity 86%, specificity 100%). Four of 12 MRI-\ndetected cancers were mammographically occult. MRI accu-\nrately predicted extent of disease in 4 of 4 patients. After neg-\native MMG, MRI accurately confirmed the need for mastectomy\nin 4 patients and accurately supported the feasibility of breast\nconserving surgery in the remaining patient." }, { - "id": 86018, - "strid": "db9d88b7-6aa8-4a85-8aaa-a50e11d052e0", - "image_id": 203847, - "image_name": "121017.png", - "category_id": 4, - "category_name": "List", + "id": 1619, + "strid": "c9c211b4-a10e-471a-a803-81480ce2411c", + "image_id": 65, + "image_name": "117393.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 4601.068, - 2532.237, - 844.3540000000003, - 526.6179999999999 + 2248.347, + 1716.235, + 612.058, + 639.0919999999999 ], "priority": 19, "parents": [ - 86016 + 1616 ], "children": [], - "area": 11650994.629116, + "area": 3858691.8135450003, "iscrowd": 0, "segmentation": [] }, { - "id": 74709, - "strid": "a83380c9-4579-4b5e-bb49-4c4a96ecb30d", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 9, - "category_name": "Root", + "id": 1620, + "strid": "aa51aa86-44f8-42b8-9a77-d2a778e57ef7", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 176.55, - 101.81, - 251.08999999999997, - 279.9 + 2956.912, + 1660.639, + 853.261, + 663.8129999999999 ], - "priority": -1, - "parents": [], - "children": [ - 74675, - 74667, - 74674, - 74671, - 74672, - 74676, - 74666, - 74665, - 74673, - 74670, - 74668, - 74669 + "priority": 20, + "parents": [ + 1616 ], - "area": 17974.555500000002, + "children": [], + "area": 4910363.386767999, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "In the setting of negative MRI,\nthese patients were successfully\noffered central lumpectomy.\n\nThe area under the receiver op-\nerating curve (AUC) for mam-\nmography and breast MRI is 0.31\nand 0.75, respectively. Mastecto-\nmy was performed in seven pa-\ntients, quadrantectomy in eight,\nwide local excision in one patient." }, { - "id": 74665, - "strid": "6616aef1-35ff-4b64-86de-72f26d77aa3d", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 1, - "category_name": "Title", + "id": 1621, + "strid": "ad9d3f92-622d-47b3-8e49-018d087d9d09", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 488.493, - 49.655, - 3011.382, - 190.187 + 2210.145, + 2449.886, + 883.3160000000003, + 657.3519999999999 ], - "priority": 1, + "priority": 21, "parents": [ - 74709 + 1616 ], "children": [], - "area": 24256.119915, + "area": 5414603.29347, "iscrowd": 0, "segmentation": [], - "text": "Evaluation of methodologies to assess intracellular cGMP levels induced by\nsoluble guanylate cyclase (SGC) stimulators in whole cells" + "text": "Analyzing the data of the control\ngroup: the area under the receiver\noperating curve (AUC) for mam-\nmography and breast MRI is 0.40\nand 0.55, respectively. This sug-\ngests that usefulness of MRI, in\ndetecting occult breast cancer, is\nparticularly required in the man-\nagements of patients with PD;\nmostly than in the other types of\nbreast cancer." }, { - "id": 74666, - "strid": "1c140a0b-84b9-479e-aa24-f22627da6b73", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1622, + "strid": "d22b05d5-c12a-4ca4-915a-82f7ee39965f", + "image_id": 65, + "image_name": "117393.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 610.387, - 260.382, - 2728.1770000000006, - 105.094 + 3162.507, + 2486.821, + 660.9560000000001, + 646.549 ], - "priority": 2, + "priority": 22, "parents": [ - 74709 + 1616 ], "children": [], - "area": 158933.787834, + "area": 7864588.820247, "iscrowd": 0, - "segmentation": [], - "text": "Guang Liu\", Christina Butler’, Kim Long’, Renee Sarno, Rob Solinga?, Kim Tang®, Yueh-tyng Chien', Ken Carlson’ and Jeif Segal!\n‘Cellular and Molecular Pharmacology, 7DMPK, *Discovery Pharmacology, Ironwood Pharmaceuticals, Inc. Cambridge, MA, USA" + "segmentation": [] }, { - "id": 74667, - "strid": "7d57557e-bbbf-4a80-a019-0caab982eb75", - "image_id": 203412, - "image_name": "120187.png", + "id": 1623, + "strid": "ec679b54-55fc-41fb-ac2e-fcd7907fa98a", + "image_id": 65, + "image_name": "117393.png", "category_id": 5, "category_name": "Section", "bbox": [ - 66.419, - 460.916, - 187.485, - 40.16199999999998 + 2212.599, + 3244.573, + 302.06100000000015, + 40.53200000000015 ], - "priority": 3, + "priority": 23, "parents": [ - 74709 + 1600 ], "children": [ - 74677 + 1626, + 1624, + 1625 ], - "area": 30613.579803999997, + "area": 7178938.975227, "iscrowd": 0, "segmentation": [], "text": "" }, { - "id": 74677, - "strid": "40358bda-853b-4053-a30f-e723dbf26c47", - "image_id": 203412, - "image_name": "120187.png", + "id": 1624, + "strid": "d65d5f67-ccf1-4ba6-8ec3-ffe84a4df3c6", + "image_id": 65, + "image_name": "117393.png", "category_id": 3, "category_name": "Text", "bbox": [ - 75.346, - 548.679, - 967.0250000000001, - 419.42500000000007 + 2211.335, + 3300.206, + 603.0950000000003, + 785.7910000000002 ], - "priority": 4, + "priority": 24, "parents": [ - 74667 + 1623 ], "children": [], - "area": 41340.767934, + "area": 7297861.035010001, "iscrowd": 0, "segmentation": [], - "text": "‘hwo methodologies were evaluated to assess cGMP responses‘elicited by sGC\nstimulators (YC-1, BAY 41-2272 and several Ironwood copapeunds) in whole cells: an\nLC-MS/MS-based bioanalytical method to directly meastire CGMP generated in Human\nEmbryonic Kidney (HEK) cells or a cGMP GloSensor(feporter-based assay in HEK\ncells. Both assays had excellent signal to noise, low variability (%CV and Z prime\nvalues) and were highly reproducible. Each assay enabled efficient characterization of\nsGC stimulators with regard to potency, effi¢acy(E,,,), and synergy with NO. The\nGloSensor assay had the benefits of rapid tufmaround time and the ability to measure\ncGMP response in real time with endpoihiand kinetic profiling. However, the\nGloSensor assay did not have the same résolution to differentiate compounds with\ndifferent maximal levels of stimulation, likely due to a narrower linear range based on\nits reporter-based amplification Ofthé signal. The LC-MS/MS assay had a linear range\nof detection that spanned neamy four logs and provided a very precise measure of\npotency and efficacy butwas a*more labor-intensive method." + "text": "In our experience, MRI\nhad better accuracy\nand facilitated the se-\nlection of the appropri-\nate surgical treatment.\nUsing only mammogra-\nphy was found to un-\nderestimate the extent\nof the lesion. However\nneither negative mam-\nmography nor MRI can\nreliably exclude an un-\nderlying malignancy" }, { - "id": 74668, - "strid": "87862d25-e95b-40fa-a917-8a0f0f187fe6", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 5, - "category_name": "Section", + "id": 1625, + "strid": "b551f837-d84d-4aea-a2c8-41fccc84bf2d", + "image_id": 65, + "image_name": "117393.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 72.079, - 1044.633, - 284.707, - 47.45100000000002 + 2875.101, + 3309.626, + 924.681, + 678.3159999999998 ], - "priority": 5, + "priority": 25, "parents": [ - 74709 - ], - "children": [ - 74680, - 74678, - 74679 + 1623 ], - "area": 75296.102007, + "children": [], + "area": 9515509.022226, "iscrowd": 0, - "segmentation": [], - "text": "Introduction" + "segmentation": [] }, { - "id": 74678, - "strid": "e8e38d5a-92d8-44d7-8b82-0c51a0c56dd0", - "image_id": 203412, - "image_name": "120187.png", + "id": 1626, + "strid": "8a925f66-6716-48fc-852c-b0e514e96dac", + "image_id": 65, + "image_name": "117393.png", "category_id": 3, "category_name": "Text", "bbox": [ - 81.621, - 1124.882, - 922.954, - 600.3029999999999 + 2872.539, + 4010.862, + 928.0300000000002, + 65.93600000000015 ], - "priority": 6, + "priority": 26, "parents": [ - 74668 + 1623 ], "children": [], - "area": 91813.993722, + "area": 11521357.518618, "iscrowd": 0, "segmentation": [], - "text": "Soluble guanylate cyclase (SGC) is a key enzyme in the nitric oxide (NO)-signaling\npathway~Upon binding of NO, sGC catalyzes synthesis of the second Méssenger\ncGMR, which produces vasorelaxation and inhibits smooth muscle, prdtiferation,\nléukocyte recruitment and platelet aggregation through a numbernofkdownstream\nmechanisms.\n\nThe NO-sGC-cGMP signaling pathway is of interest ag’a therapeutic target in\ncardiopulmonary disease, including pulmonary hypertension (PH). As shown in\nFigure 1A, PH is associated with reduced levels of NO, which results in decreased\nlevels of cGMP. Recent efforts have been centeréd’on identifying pharmacological\nagents that target the sGC-cGMP signaling pathway directly, such as\nphosphodiesterase inhibitors that increaseythe intracellular levels of CGMP by\nreducing its hydrolysis or sGC stimulatorswthat act directly on sGC to effect an\nincrease in cGMP synthesis. The recent*DA approval of Bayer’s sGC stimulator\nAdempas for PH supports this conéept: To successfully investigate the sGC-cGMP.\nsignaling pathway, it is necessaryAo have effective tools to measure the cellular\nformation of cGMP in a robust and’ quantitative way. In this work we described two\ndifferent methodologies, aeGloSensor assay and a LC-MS/MS method, to measure\nsGC stimulator-induced/EGMP responses in whole cells, and further evaluate the\npros and cons of these two methods, as shown in Figure 1B." + "text": "In the setting of negative MRI, patients were offered breast conserving\nsurgery: nipple reconstruction and nipple tattoo." }, { - "id": 74679, - "strid": "bdfe4154-7aed-4e8e-bbcf-10ac892436fb", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1628, + "strid": "bbde7cea-683c-432e-ba36-4d1b9c91714e", + "image_id": 65, + "image_name": "117393.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 91.321, - 1744.678, - 511.019, - 411.93000000000006 + 2208.803, + 4211.02, + 1602.366, + 261.8159999999998 ], - "priority": 7, + "priority": 27, "parents": [ - 74668 - ], - "children": [ - 74681 + 1600 ], - "area": 159325.739638, + "children": [], + "area": 9301313.60906, "iscrowd": 0, "segmentation": [] }, { - "id": 74681, - "strid": "6130846a-ae39-4750-b00e-14e84c297c74", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1627, + "strid": "823335da-7edc-4d86-9f13-998dbf0a3b79", + "image_id": 65, + "image_name": "117393.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 106.257, - 2162.531, - 401.892, - 39.710999999999785 + 726.542, + 4539.581, + 3101.956, + 56.37299999999959 ], - "priority": 8, + "priority": 28, "parents": [ - 74679 + 1600 ], "children": [], - "area": 229784.05646700002, + "area": 3298196.2589020003, "iscrowd": 0, "segmentation": [], - "text": "Figure 1A: Pharmacological targets in the NO-sGC\nsignaling pathway in PH" + "text": "ISCOMS — International Student Congress of (bio)Medical Sciences - June 2013 - Groningen, The Netherlands" }, { - "id": 74680, - "strid": "65f95890-5ea4-4de0-af55-3710678a2f67", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1629, + "strid": "1c9e2586-9766-4cd0-bf52-2cb9c85168a1", + "image_id": 66, + "image_name": "117406.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 635.394, - 1769.064, - 397.3610000000001, - 317.5429999999999 - ], - "priority": 9, - "parents": [ - 74668 + 7.49, + 99.53, + 89.49000000000001, + 61.120000000000005 ], + "priority": -1, + "parents": [], "children": [ - 74682 + 1636, + 1631, + 1632, + 1630, + 1648 ], - "area": 1124052.651216, + "area": 745.4797, "iscrowd": 0, "segmentation": [] }, { - "id": 74682, - "strid": "457d53f7-af15-494d-bc6f-d1dac0542993", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1630, + "strid": "b7b4abfa-ad79-4118-80e3-3f001432c9a7", + "image_id": 66, + "image_name": "117406.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 620.873, - 2117.247, - 432.55999999999995, - 19.30699999999979 + 37.796, + 34.589, + 749.49, + 51.92099999999999 ], - "priority": 10, + "priority": 1, "parents": [ - 74680 + 1629 ], "children": [], - "area": 1314541.496631, + "area": 1307.325844, "iscrowd": 0, "segmentation": [], - "text": "Figure 1B: Diagram of cGMP production and detection" + "text": "Dynamics of whole tree sap flux density of a mixed Eucalyptus woodland\npre-, during and post a hot bushfire in the wet-dry tropics" }, { - "id": 74670, - "strid": "01b63fca-f253-4ed7-b1a1-bc3d935eaa2e", - "image_id": 203412, - "image_name": "120187.png", + "id": 1631, + "strid": "9d6c57fe-1e02-4d48-9c46-6813160d011b", + "image_id": 66, + "image_name": "117406.png", + "category_id": 0, + "category_name": "Author Info", + "bbox": [ + 316.946, + 99.337, + 81.24099999999999, + 24.433000000000007 + ], + "priority": 2, + "parents": [ + 1629 + ], + "children": [], + "area": 31484.464802000002, + "iscrowd": 0, + "segmentation": [], + "text": "Ping Lu" + }, + { + "id": 1632, + "strid": "04c0500c-1c05-449c-93dc-bb8bedc65f19", + "image_id": 66, + "image_name": "117406.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1350.067, - 460.149, - 886.5129999999999, - 39.011000000000024 + 367.645, + 170.804, + 87.95999999999998, + 20.15700000000001 ], - "priority": 11, + "priority": 3, "parents": [ - 74709 + 1629 ], "children": [ - 74689, - 74686, - 74690, - 74685, - 74688, - 74691, - 74687 + 1633, + 1634, + 1635 ], - "area": 621231.979983, + "area": 62795.23658, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 74685, - "strid": "ed6f698a-3dae-47e9-a491-725f22ea7339", - "image_id": 203412, - "image_name": "120187.png", + "id": 1633, + "strid": "657476f9-7854-4fb2-a734-63ab627bd22d", + "image_id": 66, + "image_name": "117406.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1227.731, - 519.607, - 488.826, - 284.02700000000004 + 2.106, + 198.291, + 281.419, + 222.517 ], - "priority": 12, + "priority": 4, "parents": [ - 74670 + 1632 ], "children": [], - "area": 637937.6217169999, + "area": 417.600846, "iscrowd": 0, "segmentation": [] }, { - "id": 74686, - "strid": "90b5eb1c-4a74-4c13-afc0-d0fa99c6e141", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1634, + "strid": "3ca3d728-ec93-438a-b1c2-60d7e78a2bec", + "image_id": 66, + "image_name": "117406.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1249.913, - 808.762, - 451.44100000000003, - 293.84199999999987 + 287.888, + 200.473, + 249.42299999999994, + 215.973 ], - "priority": 13, + "priority": 5, "parents": [ - 74670 + 1632 ], "children": [], - "area": 1010882.1377059999, + "area": 57713.771024, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "As part of a large scale @pohydrological study, xylem\nsap flue densities in 32 trees trom a native mixed\nEucalypt woodland were monitored in the wel-dry\ntropics of northern Australia in 2008,\n\nAbout 1 month alter the start of the measurement, @\nhot wildfire ravaged the study area. The fre caused\nvarious degrees of damage tothe tree canopies trom\ntoll defoliation to almost no defoliation, depending on\ntheir topographic locations in the 86 ha catchment\n\nFortunately all monitoring equipment survived th fre\nand recorded all the envionmental and eap fo data\nover this unplanned event\n\nThis poster presents some results form the most\natfected site, which represents. of the study\no lchmant are." }, { - "id": 74687, - "strid": "8658e8bd-e537-4e02-92d2-1157d927c30b", - "image_id": 203412, - "image_name": "120187.png", + "id": 1635, + "strid": "48f3f6e8-e758-445d-93af-3ab631743677", + "image_id": 66, + "image_name": "117406.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1200.426, - 1106.713, - 570.6469999999999, - 239.46499999999992 - ], - "priority": 14, - "parents": [ - 74670 + 546.037, + 199.746, + 277.783, + 221.79 + ], + "priority": 6, + "parents": [ + 1632 ], "children": [], - "area": 1328527.059738, + "area": 109068.706602, "iscrowd": 0, "segmentation": [] }, { - "id": 74688, - "strid": "c07463d0-1b85-4890-a283-6f187f0bf670", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 4, - "category_name": "List", + "id": 1636, + "strid": "57b0162d-2948-40ab-ae73-a15309b64742", + "image_id": 66, + "image_name": "117406.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1135.051, - 1342.522, - 642.566, - 55.58899999999994 + 369.149, + 443.302, + 93.23000000000002, + 16.69799999999998 ], - "priority": 15, + "priority": 7, "parents": [ - 74670 + 1629 ], - "children": [], - "area": 1523830.938622, + "children": [ + 1643, + 1640, + 1637, + 1647, + 1646, + 1641, + 1644, + 1639 + ], + "area": 163644.489998, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Observations" }, { - "id": 74690, - "strid": "5b048099-230d-4da1-8a78-07df024b78f5", - "image_id": 203412, - "image_name": "120187.png", + "id": 1637, + "strid": "48ffc48f-b631-4be2-89e6-3971d1e268d5", + "image_id": 66, + "image_name": "117406.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1892.165, - 521.789, - 485.741, - 393.328 + 74.118, + 456.44, + 153.414, + 137.76900000000006 ], - "priority": 16, + "priority": 8, "parents": [ - 74670 + 1636 ], - "children": [], - "area": 987310.8831849999, + "children": [ + 1638 + ], + "area": 33830.41992, "iscrowd": 0, "segmentation": [] }, { - "id": 74691, - "strid": "4f0cf133-a781-49ee-993c-0a5116e24c41", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1638, + "strid": "8708caf3-b97f-41ce-86a7-42c97e60c17a", + "image_id": 66, + "image_name": "117406.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1793.154, - 936.947, - 656.346, - 387.0659999999999 + 111.069, + 600.01, + 71.617, + 9.162000000000035 ], - "priority": 17, + "priority": 9, "parents": [ - 74670 + 1637 ], "children": [], - "area": 1680090.260838, + "area": 66642.51069, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 74689, - "strid": "43a369b7-46c8-47e1-9166-fdb6e924afe1", - "image_id": 203412, - "image_name": "120187.png", + "id": 1639, + "strid": "7475167e-a18e-4a9a-903f-f530de89cbb1", + "image_id": 66, + "image_name": "117406.png", "category_id": 4, "category_name": "List", "bbox": [ - 1798.457, - 1339.665, - 608.8680000000002, - 58.730999999999995 + 282.876, + 466.029, + 252.32400000000007, + 28.75799999999998 ], - "priority": 18, + "priority": 10, "parents": [ - 74670 + 1636 ], "children": [], - "area": 2409329.896905, + "area": 131828.419404, "iscrowd": 0, "segmentation": [] }, { - "id": 74671, - "strid": "90ec21b8-672f-4808-a373-bbc3e1307071", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 5, - "category_name": "Section", + "id": 1640, + "strid": "c175688e-63f2-4005-9fdc-933f277ac4d1", + "image_id": 66, + "image_name": "117406.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1172.641, - 1428.6, - 1240.0459999999998, - 93.94100000000003 + 291.689, + 503.6, + 236.55400000000003, + 51.02200000000005 ], - "priority": 19, + "priority": 11, "parents": [ - 74709 - ], - "children": [ - 74693, - 74692 + 1636 ], - "area": 1675234.9326, + "children": [], + "area": 146894.5804, "iscrowd": 0, "segmentation": [], - "text": "Both methods can characterize the dose response profiles\nof sGC stimulators" + "text": "Sap fluc deflaity rapidly increased in many of the\ntrees and remained high over several hours (Fig. 1)\nin contrast some other trees of diferent spacies had\nhardly noticeable increase in night-time sap flow." }, { - "id": 74692, - "strid": "b7b42dee-fd5f-44c4-ba06-a43f0a0fa571", - "image_id": 203412, - "image_name": "120187.png", + "id": 1641, + "strid": "ff591853-cfcb-40ee-a0b7-0eec40e97ea3", + "image_id": 66, + "image_name": "117406.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1163.889, - 1544.066, - 572.9750000000001, - 283.89300000000003 + 583.123, + 444.805, + 207.24599999999998, + 138.16400000000004 ], - "priority": 20, + "priority": 12, "parents": [ - 74671 + 1636 ], "children": [ - 74694 + 1642 ], - "area": 1797121.4326739998, + "area": 259376.02601500004, "iscrowd": 0, "segmentation": [] }, { - "id": 74694, - "strid": "ff2ae2ec-b29f-40e8-a744-aae26045b18c", - "image_id": 203412, - "image_name": "120187.png", + "id": 1642, + "strid": "d96168d7-3ac3-43a5-9ce3-dfeeea9350ff", + "image_id": 66, + "image_name": "117406.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 1216.403, - 1834.075, - 1112.0400000000002, - 39.21399999999994 + 572.307, + 587.09, + 231.91599999999994, + 19.94500000000005 ], - "priority": 21, + "priority": 13, "parents": [ - 74692 + 1641 ], "children": [], - "area": 2230974.332225, + "area": 335995.71663000004, "iscrowd": 0, "segmentation": [], - "text": "Figure 2: ECs) and E,,,, were calculated for sG\nThe % activation is determined relative to a pI\n\n \n\n‘imulators in GloSensor assay (A) and LC-MS/MS method (B) using GraphPad softwar;\nstary IRWD sGC stimulator used in each experiment that gives a maximal cGMP respon!" + "text": "‘Figure 1 Diurnal changes of the hourly sap ux density showing\n‘Figure 1 Olurnad changes of he hourly sap Mux density showing" }, { - "id": 74693, - "strid": "535289b2-2ced-405a-aaa6-66ed16877ae8", - "image_id": 203412, - "image_name": "120187.png", + "id": 1643, + "strid": "6c942e43-5ae1-4064-86dc-d81ea69eee7a", + "image_id": 66, + "image_name": "117406.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1840.057, - 1544.468, - 520.3900000000001, - 281.155 + 0.294, + 617.91, + 825.756, + 143.33299999999997 ], - "priority": 22, + "priority": 14, "parents": [ - 74671 + 1636 ], "children": [], - "area": 2841909.154676, + "area": 181.66554, "iscrowd": 0, "segmentation": [] }, { - "id": 74672, - "strid": "ee030ce5-8980-4aea-a387-2b3510053ecc", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 5, - "category_name": "Section", + "id": 1644, + "strid": "253be77b-4540-40aa-b4db-6e43c9b741b8", + "image_id": 66, + "image_name": "117406.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1203.34, - 1899.483, - 1177.9749999999997, - 100.66799999999989 + 3.063, + 767.056, + 270.419, + 317.57400000000007 ], - "priority": 23, + "priority": 15, "parents": [ - 74709 + 1636 ], "children": [ - 74684, - 74699, - 74696, - 74695 + 1645 ], - "area": 2285723.87322, + "area": 2349.492528, "iscrowd": 0, - "segmentation": [], - "text": "Both methods provide high quality, reproducible data in\n384-well plate format" + "segmentation": [] }, { - "id": 74684, - "strid": "571b80d5-c2ac-4828-a239-f988657b119f", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 7, - "category_name": "Table", + "id": 1645, + "strid": "b01ceed3-9594-419e-bceb-6c0a6b71121c", + "image_id": 66, + "image_name": "117406.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1159.456, - 2039.661, - 567.0930000000001, - 126.5619999999999 + 19.423, + 1087.998, + 235.774, + 27.426999999999907 ], - "priority": 24, + "priority": 16, "parents": [ - 74672 - ], - "children": [ - 74683 + 1644 ], - "area": 2364897.184416, + "children": [], + "area": 21132.185154, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Bgwed Seer siege heey\nfreer ees Showing up hat ery pre uring ona the" }, { - "id": 74683, - "strid": "71a710a8-347d-4213-8121-f8d8a413aed4", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1646, + "strid": "654f1de0-0c48-4720-abbf-21f159657e88", + "image_id": 66, + "image_name": "117406.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1216.713, - 2190.005, - 303.086, - 19.309000000000196 + 284.549, + 763.207, + 257.427, + 215.56499999999994 ], - "priority": 25, + "priority": 17, "parents": [ - 74684 + 1636 ], "children": [], - "area": 2664607.553565, + "area": 217169.78864299998, "iscrowd": 0, - "segmentation": [], - "text": "Table“ QC data of plate performance" + "segmentation": [] }, { - "id": 74695, - "strid": "bdd36dea-34a2-479f-8189-5ceca1e1059b", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 7, - "category_name": "Table", + "id": 1647, + "strid": "67a7bc46-20b3-4193-9183-5539e1d0e06b", + "image_id": 66, + "image_name": "117406.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1796.882, - 2010.321, - 277.058, - 214.221 + 565.593, + 765.311, + 260.414, + 350.775 ], - "priority": 26, + "priority": 18, "parents": [ - 74672 - ], - "children": [ - 74698 + 1636 ], - "area": 3612309.619122, + "children": [], + "area": 432854.544423, "iscrowd": 0, "segmentation": [] }, { - "id": 74698, - "strid": "9ad1226b-1804-4662-a67a-9a84833694ad", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1648, + "strid": "61ca4379-fd5d-485d-9710-9e29754fb018", + "image_id": 66, + "image_name": "117406.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1801.79, - 2224.751, - 254.0999999999999, - 13.483999999999924 + 378.377, + 981.659, + 90.94200000000001, + 22.134000000000015 ], - "priority": 27, + "priority": 19, "parents": [ - 74695 + 1629 ], - "children": [], - "area": 4008534.10429, + "children": [ + 1649 + ], + "area": 371437.18744300003, "iscrowd": 0, "segmentation": [], - "text": "lable 2: Glosens@r aSsay consistency" + "text": "Conclusions" }, { - "id": 74699, - "strid": "bb1816b3-ed1e-4a51-ae8e-ea5a6f15cdde", - "image_id": 203412, - "image_name": "120187.png", + "id": 1649, + "strid": "f1516889-427e-45b7-b5d7-1d89c6d9dd8e", + "image_id": 66, + "image_name": "117406.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1805.152, - 2238.684, - 486.9499999999998, - 12.958000000000084 + 293.21, + 1012.454, + 253.09700000000004, + 124.14200000000005 ], - "priority": 28, + "priority": 20, "parents": [ - 74672 + 1648 ], "children": [], - "area": 4041164.8999680006, + "area": 296861.63733999996, "iscrowd": 0, "segmentation": [], - "text": "Variance is galct the ratio of the max/min replicate for EC, and E_... within each method" + "text": "‘The amazing speed of recovery of transpiration (sap.\ntow), Key physiological function of the tee, reflacied\nthe high level of resilience ofthe natural woodland to\nadverse natural disturbances, i this case, a hot fe.\n\nThis resiionce is apparently achieved by the vight\nmisture of ee species evolved and adapted to the local\nfie ragimes. The uilimate purpose ol his study i to\nprovide key knowledge tothe establishment ofa sol\nsustaining woodland on a rehabilatated mine site." }, { - "id": 74696, - "strid": "70521453-4741-45b7-8ff1-3073c00f5289", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 7, - "category_name": "Table", + "id": 1650, + "strid": "b9b6207b-bdb2-4612-93c1-d11757814b4e", + "image_id": 67, + "image_name": "117414.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2121.787, - 2010.071, - 274.7080000000001, - 215.47299999999996 - ], - "priority": 29, - "parents": [ - 74672 + 53.33, + 3.48, + 96.04, + 54.57 ], + "priority": -1, + "parents": [], "children": [ - 74697 + 1663, + 1665, + 1667, + 1659, + 1653, + 1651, + 1655, + 1652 ], - "area": 4264942.516876999, + "area": 185.5884, "iscrowd": 0, "segmentation": [] }, { - "id": 74697, - "strid": "ac36ad0a-1b81-41ee-ba82-5905b7c19872", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1651, + "strid": "5311baef-58da-43d1-b3d6-030af835d545", + "image_id": 67, + "image_name": "117414.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 2131.306, - 2225.709, - 263.24299999999994, - 13.719000000000051 + 10.811, + 78.147, + 639.569, + 42.092 ], - "priority": 30, + "priority": 1, "parents": [ - 74696 + 1650 ], "children": [], - "area": 4743666.945954, + "area": 844.847217, "iscrowd": 0, "segmentation": [], - "text": "Table 3: LC-MS/Ms method consistency" + "text": "ACCESSIBILITY TO THE TREATMENT OF CHRONIC BENIGN PAIN.\nSURVEY INTO ITALLAN PAIN CLINICS." }, { - "id": 74673, - "strid": "f8df1a7b-a05c-442c-b42b-c91d45151e05", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 5, - "category_name": "Section", + "id": 1652, + "strid": "1bd4a9b1-6bfa-41e3-a78e-dbcba0c40bbc", + "image_id": 67, + "image_name": "117414.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 2558.171, - 460.259, - 630.5880000000002, - 91.86799999999994 + 16.916, + 153.942, + 803.745, + 97.84300000000002 ], - "priority": 31, + "priority": 2, "parents": [ - 74709 - ], - "children": [ - 74707 + 1650 ], - "area": 1177421.226289, + "children": [], + "area": 2604.0828720000004, "iscrowd": 0, "segmentation": [], - "text": "Potency and activity correlate\nwell between two methods" + "text": "Se ee cn ee ee ee ee A (1), Cattaruzza MS (1), Mastroianni C/(4), Notaro P (5), Casale\nCY Nnen AMON EO te tN ocd)\n\nOR NU eam RR ear) EM a RR on aidan\nON rN NE a Lae TT CRC oe ere MMM tee eM oe\nOR erat eee as At en ee a ea\neal 2 Ai sll aerial gael sagt ce BS." }, { - "id": 74707, - "strid": "0a625fee-26eb-432f-8c7a-4457b0475d96", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1653, + "strid": "e477a1e3-11c2-48b4-a48d-d0c5ca45a659", + "image_id": 67, + "image_name": "117414.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 2580.372, - 583.073, - 472.4749999999999, - 477.7409999999999 + 30.577, + 262.134, + 81.717, + 14.961999999999989 ], - "priority": 32, + "priority": 3, "parents": [ - 74673 + 1650 ], "children": [ - 74705 + 1654 ], - "area": 1504545.2431559998, + "area": 8015.271318000001, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 74705, - "strid": "6c037f07-1191-4383-8c3a-ceb300a20922", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1654, + "strid": "9cd8e3c0-e5b5-4ff5-83c8-98296d9d0166", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2551.963, - 1069.469, - 615.913, - 59.480999999999995 + 30.316, + 281.422, + 243.155, + 593.12 ], - "priority": 33, + "priority": 4, "parents": [ - 74707 + 1653 ], "children": [], - "area": 2729245.3176470003, + "area": 8531.589352, "iscrowd": 0, "segmentation": [], - "text": "Figure 3: A set of 59 compounds were evaluated for their relative EG@;, Values\n(A) and E,,., (B). The results were compared between GloSe Sopass! (n=3)\nand LC-MS/MS method (n=2)." + "text": "Chronic pain is one of the most sig-\nnificant causes of suffering at European\nand Worldwide level, it has a significant\neconomic impact on those affected\nmaking them unable to work (Breivick\net al, 2006; Blyth et al., 2001)\n\nPain management should involve a\nholistic approach focusing on patients,\nwho experience acute andlor chronic\npain and their fanilies. Cooper etal\n(2003) describe how patients with\nchronic musculoskeletal pain have\nnegative experiences with a traditional\nmodel of care; they often consult sev-\neral specialists (including orthopaedic\nsurgeons, pain anaesthetists, rheuma-\ntologists and physiotherapists but re-\nceive little or no practical advices on\nmanaging their symptoms\n\nIn taly, charities which support\nchronic patients (Cittadinanzattiva,\n2009) have called attention to obsta-\ncles in obtaining pain therapy in Pain\nClinics where physicians play a key\nrole in starting all therapeutic proc-\nesses for obtaining relief from pain.\nFurthermore, often the first consulted\nphysician needs time to give to patient\ntailor made information about pain clin-\nics, this leads to a delay, even of\nmonths, in pain management." }, { - "id": 74674, - "strid": "e127e2a6-c897-4411-82a0-65983ce4fde9", - "image_id": 203412, - "image_name": "120187.png", + "id": 1655, + "strid": "b30d5750-e534-4eb2-adde-6de1a29db233", + "image_id": 67, + "image_name": "117414.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3280.098, - 456.793, - 618.663, - 102.03999999999996 + 30.997, + 896.414, + 64.343, + 16.201999999999998 ], - "priority": 34, + "priority": 5, "parents": [ - 74709 + 1650 ], "children": [ - 74708 + 1657, + 1656 ], - "area": 1498325.805714, + "area": 27786.144758, "iscrowd": 0, "segmentation": [], - "text": "Both methods allow for the\ndetection of synergy with NO" + "text": "" }, { - "id": 74708, - "strid": "a6e90c23-befd-4973-ab6a-84ab0fa599aa", - "image_id": 203412, - "image_name": "120187.png", + "id": 1656, + "strid": "85276283-9c54-444c-8348-f7eca95f95aa", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 29.703, + 932.21, + 239.60299999999998, + 107.58199999999988 + ], + "priority": 6, + "parents": [ + 1655 + ], + "children": [], + "area": 27689.43363, + "iscrowd": 0, + "segmentation": [], + "text": "The aim of this study is to investigate\nwho recommends to the patient to visit\nor to make contact with Pain Clinic, by\nanalyzing the records of three Centers\nin Lazio Region (Fig.1)." + }, + { + "id": 1657, + "strid": "38eeb15e-95d9-41ec-9620-2f7315c11546", + "image_id": 67, + "image_name": "117414.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 3290.85, - 576.113, - 635.844, - 453.4280000000001 + 290.186, + 255.192, + 181.75100000000003, + 238.29200000000003 ], - "priority": 35, + "priority": 7, "parents": [ - 74674 + 1655 ], "children": [ - 74706 + 1658 ], - "area": 1895901.4660500002, + "area": 74053.145712, "iscrowd": 0, "segmentation": [] }, { - "id": 74706, - "strid": "11095df3-8380-4cb6-8f2c-e7c65c1abf7e", - "image_id": 203412, - "image_name": "120187.png", + "id": 1658, + "strid": "7c7d297e-3e8b-4e1a-9056-839c4431d6ec", + "image_id": 67, + "image_name": "117414.png", "category_id": 6, "category_name": "Caption", "bbox": [ - 3257.939, - 1031.834, - 644.5239999999999, - 100.89599999999996 + 301.694, + 508.3, + 156.40799999999996, + 15.595999999999947 ], - "priority": 36, + "priority": 8, "parents": [ - 74708 + 1657 ], "children": [], - "area": 3361652.230126, + "area": 153351.0602, "iscrowd": 0, "segmentation": [], - "text": "Figure 5: Activities of sGC stimulators IWP-989 (A, C) and IWP-391 (B, D/were\nassessed at different concentrations of DETA-NO by GloSensor asgay (A, B) and\nLC-MS/MS method (C, D). Both methods detect the synergy of t GC\nstimulators with NO. However, LC-MS/MS seems to have higher séngitivity than\nGloSensor assay when DETA-NO concentration is low. aN" + "text": "Figure 1: Italy and Lazio Region" }, { - "id": 74675, - "strid": "461e9651-1552-4cc2-9702-a49cb948462d", - "image_id": 203412, - "image_name": "120187.png", + "id": 1659, + "strid": "3ec9f837-7ee7-4bbc-a49c-5328a11db493", + "image_id": 67, + "image_name": "117414.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2598.255, - 1164.09, - 557.2240000000002, - 156.28199999999993 + 492.105, + 267.158, + 55.480999999999995, + 14.541999999999973 ], - "priority": 37, + "priority": 9, "parents": [ - 74709 + 1650 ], "children": [ - 74701 + 1660, + 1662, + 1661 ], - "area": 3024602.66295, + "area": 131469.78759000002, "iscrowd": 0, "segmentation": [], - "text": "GloSensor assay may not\ndifferentiate the activity of\npartial stimulators" + "text": "Results" }, { - "id": 74701, - "strid": "2754314a-79e6-4f9d-9bd8-8fe52f7ae3f3", - "image_id": 203412, - "image_name": "120187.png", + "id": 1660, + "strid": "1b65dfdf-7ea6-4627-8604-06477fadc4f6", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", + "bbox": [ + 490.896, + 289.007, + 306.30699999999996, + 95.83300000000003 + ], + "priority": 10, + "parents": [ + 1659 + ], + "children": [], + "area": 141872.380272, + "iscrowd": 0, + "segmentation": [], + "text": "19.8% of cases were referred to the pain clinics\nby their GP, 45% by the specialist, and 38% on\nthe patient’ initiative or following the advice of\nfiends. 72.7% of the later group are patients who\nattended a regional health centre." + }, + { + "id": 1661, + "strid": "245d5413-c56e-4416-b1e0-7ef526d6350c", + "image_id": 67, + "image_name": "117414.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 2541.109, - 1337.801, - 676.875, - 523.268 + 546.187, + 388.871, + 196.06000000000006, + 129.62199999999996 ], - "priority": 38, + "priority": 11, "parents": [ - 74675 + 1659 ], - "children": [ - 74703 - ], - "area": 3399498.1613089996, + "children": [], + "area": 212396.284877, "iscrowd": 0, "segmentation": [] }, { - "id": 74703, - "strid": "2e3820bb-01fe-43ad-a574-8b4ca8906212", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1662, + "strid": "d5ee157e-1139-4ce3-b7a3-2b01903111fb", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2566.259, - 1867.541, - 609.098, - 40.11400000000003 + 491.091, + 520.593, + 299.587, + 14.277000000000044 ], - "priority": 39, + "priority": 12, "parents": [ - 74701 + 1659 ], "children": [], - "area": 4792593.899119, + "area": 255658.536963, "iscrowd": 0, "segmentation": [], - "text": "Figure 4: The GloSensor assay accurately detec} stimulator (A) and a\nweak stimulator (B), but has less resolution at finding\\partial stimulators (C)." + "text": "DU Ce A ee ae ea ae Le" }, { - "id": 74676, - "strid": "63ea3dbb-db18-450b-9bd5-d296dd6a48ed", - "image_id": 203412, - "image_name": "120187.png", + "id": 1663, + "strid": "54f7faee-84d3-4a33-a993-4735427b13da", + "image_id": 67, + "image_name": "117414.png", "category_id": 5, "category_name": "Section", "bbox": [ - 3287.643, - 1163.687, - 604.3969999999999, - 155.43599999999992 + 287.154, + 541.402, + 74.35000000000002, + 15.82899999999995 ], - "priority": 40, + "priority": 13, "parents": [ - 74709 + 1650 ], "children": [ - 74702 + 1664 ], - "area": 3825787.4197409996, + "area": 155465.749908, "iscrowd": 0, "segmentation": [], - "text": "GloSensor assay offers real-\ntime measurement of cGMP\nresponses in cells" + "text": "" }, { - "id": 74702, - "strid": "a0e15c00-daf3-480c-8c1e-e501950b6a13", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 2, - "category_name": "Figure", + "id": 1664, + "strid": "2ba0dbcd-a1ab-472e-8c8c-c3e876ae0e5c", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3258.963, - 1334.999, - 660.3119999999999, - 449.26700000000005 + 285.733, + 560.887, + 507.796, + 382.794 ], - "priority": 41, + "priority": 14, + "parents": [ + 1663 + ], + "children": [], + "area": 160263.92517099998, + "iscrowd": 0, + "segmentation": [], + "text": "Despite the high prevalence of chronic pain in the general population, surprisingly\nitl is known about the impact of chronic pain on the total access of Pain Clinic\n(PC). As preliminary, itis interesting note that just a litle percentage of patients are\nin the Pain Clinics following GPs’ indications. According to Stannard et al, (2003) in\nchronic therapeutic process, G.Ps. health care can be insufficient; pain is generally\nperceived by patients as a symptom of an illness clearly identified, however as re-\ncalled by Varassi and colleagues (2011) chronic pain in several cases is not a\nsymptom but is a illness in itself. In the light of above a number of patients are in\nPC following specialists’ indication this drives to think that several patients have\nbeen kept waiting months and even years before then access to PC. The so called\n“pass the word\" seems to be important in order to exchange information on the\nsubject. G.P. often is not the first person who address properly the patient towards\nan effective treatment; this is due to two main factors: ie. culture and education\n(Joint Commission International, 2010) and the fact that PC net pain therapy is not\nwell known and framed properly in Lazio Region. It could be said that the role of a\nGP or Nurse in referring patients for pain therapy is not instrumental; this could be\nattributed to the high labour costs involved or to a lack of awareness about the ser-\nvices offer. When a referral is made by a specialist, there can be delays in treating\npain. A more detailed, large scale survey is perhaps required to map the availablity\nof chronic pain services." + }, + { + "id": 1665, + "strid": "229fa262-afae-4a2f-b07e-3a3e54a1313a", + "image_id": 67, + "image_name": "117414.png", + "category_id": 5, + "category_name": "Section", + "bbox": [ + 287.083, + 966.908, + 83.41699999999997, + 15.600999999999999 + ], + "priority": 15, "parents": [ - 74676 + 1650 ], "children": [ - 74704 + 1666 ], - "area": 4350712.346037, + "area": 277582.849364, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Conclusions" }, { - "id": 74704, - "strid": "3bc19356-cda2-46cc-90ab-e103e2cfa7e3", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 6, - "category_name": "Caption", + "id": 1666, + "strid": "ecca20c8-847b-4c7e-85b5-7c95a669fde2", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 3262.105, - 1789.201, - 652.5619999999999, - 119.75600000000009 + 286.186, + 986.602, + 507.233, + 75.3080000000001 ], - "priority": 42, + "priority": 16, "parents": [ - 74702 + 1665 ], "children": [], - "area": 5836561.528105, + "area": 282351.67997199995, "iscrowd": 0, "segmentation": [], - "text": "using the GloSensor assay. Kinetic profiles are shown for t\\ mpound\nconcentrations, 117nM (B) and 7.5uM (C) that represent di stages of the\ncompound dose response curves (A). Individual comp displayed different\nkinetic responses at the same concentration. The s: pound at different\nconcentrations also displayed distinct kinetic reepee\n\nFigure 6: Time-dependence of cGMP-responses mediated thee sG@’stimulators" + "text": "‘There is a continuing cultural barrier species among health care professionals to\nconsider chronic pain as a symptom and not a disease. This problem increases the\ntime of an effective treatment. The figure of the GP and the nurse may be key in\nthe orientation of these patients." }, { - "id": 74669, - "strid": "7cc954a2-f451-4bfa-9f03-0e7b0afda053", - "image_id": 203412, - "image_name": "120187.png", + "id": 1667, + "strid": "78d1710c-e742-4b40-b87f-897f05a8d0c9", + "image_id": 67, + "image_name": "117414.png", "category_id": 5, "category_name": "Section", "bbox": [ - 2529.849, - 1943.812, - 267.3130000000001, - 39.277000000000044 + 26.787, + 1077.105, + 123.6, + 18.590999999999894 ], - "priority": 43, + "priority": 17, "parents": [ - 74709 + 1650 ], "children": [ - 74700 + 1668 ], - "area": 4917550.844388, + "area": 28852.411635, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "Acknowledgement" }, { - "id": 74700, - "strid": "fd101a4a-64ab-4afe-b580-4ca9d2b4cc7d", - "image_id": 203412, - "image_name": "120187.png", - "category_id": 4, - "category_name": "List", + "id": 1668, + "strid": "ac60a594-75c8-4d79-8863-856b604eb7ba", + "image_id": 67, + "image_name": "117414.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 2528.799, - 2009.293, - 1404.1149999999998, - 237.7360000000001 + 33.466, + 1096.917, + 437.25, + 31.220000000000027 ], - "priority": 44, + "priority": 18, "parents": [ - 74669 + 1667 ], "children": [], - "area": 5081098.129106999, + "area": 36709.424322, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Prof. lsaac Benabu, PhD, The Hebrew University of Jerusalem, Israel.\nFerdinant Banda, Bsc Universiteti Katolik Zoia e Keshillit te Mire, Tirana, Albany" }, { - "id": 104347, - "strid": "a3d407a4-1aff-41bf-8e27-cbc7d79b551e", - "image_id": 204532, - "image_name": "122295.png", + "id": 1669, + "strid": "c6222d25-592f-4bbc-9772-96d0aaf0c2bc", + "image_id": 68, + "image_name": "117415.png", "category_id": 9, "category_name": "Root", "bbox": [ - 191.11, - 352.66, - 252.64, - 277.09 + 244.07, + 95.6, + 290.94, + 273.83000000000004 ], "priority": -1, "parents": [], "children": [ - 104335, - 104332, - 104334, - 104329, - 104328, - 104333, - 104330, - 104331 + 1670, + 1674, + 1672, + 1676, + 1693, + 1679, + 1671, + 1686 ], - "area": 67396.85260000001, + "area": 23333.091999999997, "iscrowd": 0, "segmentation": [] }, { - "id": 104328, - "strid": "5b5d2fc6-6d0f-438a-bdda-5aa3ec555c47", - "image_id": 204532, - "image_name": "122295.png", + "id": 1670, + "strid": "6eb4c02e-60fa-4191-96b9-a45e043fd8f8", + "image_id": 68, + "image_name": "117415.png", "category_id": 1, "category_name": "Title", "bbox": [ - 401.84, - 198.77, - 2709.708, - 355.05000000000007 + 807.179, + 149.788, + 2362.125, + 223.40300000000002 ], "priority": 1, "parents": [ - 104347 + 1669 ], "children": [], - "area": 79873.7368, + "area": 120905.728052, "iscrowd": 0, "segmentation": [], - "text": "Interaction Network Analysis links Tumor\n_~ Mutations with Expression Patterns" + "text": "Poor Glycemic Control Results\nin Increased Platelet Activation in Diabetic Children" }, { - "id": 104329, - "strid": "26e77547-3ea2-4b5f-a7c6-a11cdbbaf580", - "image_id": 204532, - "image_name": "122295.png", + "id": 1671, + "strid": "69c90bdf-c1f5-4cf9-9aff-b154b84a3749", + "image_id": 68, + "image_name": "117415.png", "category_id": 0, "category_name": "Author Info", "bbox": [ - 817.48, - 620.041, - 1960.4860000000003, - 272.168 + 1148.677, + 411.213, + 1429.0619999999997, + 155.185 ], "priority": 2, "parents": [ - 104347 + 1669 ], "children": [], - "area": 506871.11668000004, + "area": 472350.915201, "iscrowd": 0, "segmentation": [], - "text": "Christos Dimitrakopoulos', Jonas Behr’? and Ni keBeerenwinkel\n1. Swiss Institute of Bioinformatics\nLy ETH Zurich, D-BSSE, Basel, Switzerland" + "text": "Barttomiej Tomasik1, Beata Matachowska*\nTutors: Professor Wojciech Mtynarski M.D., Ph.D., Wojciech Fendler M.D., Ph.D.\nDepartment of Pediatrics, Oncology, Hematology and Diabetology." }, { - "id": 104330, - "strid": "928ded8e-976e-475a-8c09-fa496711cfd1", - "image_id": 204532, - "image_name": "122295.png", + "id": 1672, + "strid": "a7d202c5-9bf4-4487-8973-f2ec7a000487", + "image_id": 68, + "image_name": "117415.png", "category_id": 5, "category_name": "Section", "bbox": [ - 217.002, - 927.125, - 385.73099999999994, - 89.64700000000005 + 449.89, + 721.032, + 725.0370000000001, + 85.57000000000005 ], "priority": 3, "parents": [ - 104347 + 1669 ], "children": [ - 104340, - 104341 + 1673 ], - "area": 201187.97925, + "area": 324385.08648, "iscrowd": 0, "segmentation": [], - "text": "Abstract" + "text": "" }, { - "id": 104341, - "strid": "04e2172f-9a5e-4941-8bd9-2ba72c685ffe", - "image_id": 204532, - "image_name": "122295.png", + "id": 1673, + "strid": "e99412c5-63a8-4b5a-b651-d47fae495254", + "image_id": 68, + "image_name": "117415.png", "category_id": 3, "category_name": "Text", "bbox": [ - 221.138, - 1043.205, - 1441.178, - 830.6570000000002 + 80.978, + 872.913, + 1438.694, + 233.40699999999993 ], "priority": 4, "parents": [ - 104330 + 1672 ], "children": [], - "area": 230692.26729, + "area": 70686.748914, "iscrowd": 0, "segmentation": [], - "text": "Somatic tumor mutation data is a valuable but not sufficient source to uncover\nnew cancer genes and pathways,.as the genomic alterations of same-clinical-\ntype tumors are extremely diverse. Based on graph diffusion methods we\nidentify groups of mutated genes (modules) with similar effects on the\nexpression patterns of downstream genes. Our approach addresses the\ncommon phenomenon. of mutational heterogeneity and simultaneous\nhomogeneity of expression patterns between patients. Based on known\nregulatory network connections we generate statistically sound hypothesis of\nhow common. expression changes in many patients can be achieved by\nmutations in various genes of the network. Our approach allows for detecting\nnetwork modules of mutated genes that cover a large number of samples with\nsignificantly different mutations, closely connected to the same differentially\nexpressed genes and can potentially handle different sources of differential\nexpression data and different types of interactions." + "text": "Chronic complications of diabetes are associated with platelets\nabnormalities. Many studies reported alterations in platelets function\nand morphology, but data on this issue in children with type 1 diabetes\n(T1DM) are lacking." }, { - "id": 104340, - "strid": "5c4561ca-283e-4249-a669-287b81030d95", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 2, - "category_name": "Figure", + "id": 1674, + "strid": "9af3eac8-e315-4ba5-bc64-41ba2c81d51f", + "image_id": 68, + "image_name": "117415.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 635.363, - 1912.141, - 604.8990000000001, - 456.424 + 678.293, + 1162.502, + 249.76, + 86.65100000000007 ], "priority": 5, "parents": [ - 104330 + 1669 ], - "children": [], - "area": 1214903.6421830002, + "children": [ + 1675 + ], + "area": 788516.969086, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 104332, - "strid": "b0efba53-e4cc-4fc3-8970-4bde8e5daa2c", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 5, - "category_name": "Section", + "id": 1675, + "strid": "29bd8e94-4ce1-4833-a103-1ff02a434a6a", + "image_id": 68, + "image_name": "117415.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 202.953, - 2394.62, - 685.818, - 92.6579999999999 + 93.276, + 1294.812, + 1453.503, + 171.40599999999995 ], "priority": 6, "parents": [ - 104347 - ], - "children": [ - 104336, - 104344 + 1674 ], - "area": 485995.31286, + "children": [], + "area": 120774.88411199999, "iscrowd": 0, "segmentation": [], - "text": "TCGA Database" + "text": "The aim of this study was to compare platelet parameters between\nchildren with T1DM and healthy controls and determine the influence\nof metabolic control on platelet morphology." }, { - "id": 104344, - "strid": "07c9909f-a119-471d-9fc6-c5306c7607ae", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 3, - "category_name": "Text", + "id": 1676, + "strid": "b13b68a0-c130-4219-8bf1-91f017f3489e", + "image_id": 68, + "image_name": "117415.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 211.001, - 2532.042, - 1464.597, - 191.95199999999977 + 584.373, + 1523.563, + 474.068, + 86.13000000000011 ], "priority": 7, "parents": [ - 104332 + 1669 ], - "children": [], - "area": 534263.3940419999, + "children": [ + 1677, + 1678 + ], + "area": 890329.0809990001, "iscrowd": 0, "segmentation": [], - "text": "The Cancer Genome Atlas has helped set the standards for characterizing the\ngenomic underpinnings of dozens of cancers on a large scale which are all\n\nknown to exhibit large mutational heterogeneity. We run our methodology to\nthe well-studied breast invasive carcinoma." + "text": "" }, { - "id": 104336, - "strid": "3289969e-d5d3-48d9-b0a0-7616333e0b2e", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 2, - "category_name": "Figure", + "id": 1677, + "strid": "6694be4d-c600-486d-8cd7-babbb02f217f", + "image_id": 68, + "image_name": "117415.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 164.209, - 2749.977, - 1517.659, - 1178.7020000000002 + 102.28, + 1664.401, + 733.368, + 579.5449999999998 ], "priority": 8, "parents": [ - 104332 + 1676 ], "children": [], - "area": 451570.973193, + "area": 170234.93428000002, "iscrowd": 0, "segmentation": [] }, { - "id": 104335, - "strid": "e48c272e-38c6-4711-b309-a718b75de345", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 5, - "category_name": "Section", + "id": 1678, + "strid": "2741f477-90b4-4310-9131-956867248bbb", + "image_id": 68, + "image_name": "117415.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 201.707, - 3998.24, - 375.43999999999994, - 87.19900000000007 + 874.329, + 1666.245, + 738.3790000000001, + 830.5569999999998 ], "priority": 9, "parents": [ - 104347 - ], - "children": [ - 104345, - 104342 + 1676 ], - "area": 806472.9956799999, + "children": [], + "area": 1456846.3246049997, "iscrowd": 0, - "segmentation": [], - "text": "Methods" + "segmentation": [] }, { - "id": 104345, - "strid": "7cdf7b03-574e-476e-b1c0-e918c82ab8a5", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 3, - "category_name": "Text", + "id": 1679, + "strid": "7606d223-93b9-48ef-9b70-d99bb538c113", + "image_id": 68, + "image_name": "117415.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 206.202, - 4121.215, - 1467.224, - 855.5779999999995 + 672.226, + 2565.238, + 381.82499999999993, + 84.30600000000004 ], "priority": 10, "parents": [ - 104335 + 1669 ], - "children": [], - "area": 849802.77543, + "children": [ + 1682, + 1683, + 1680, + 1684 + ], + "area": 1724419.679788, "iscrowd": 0, "segmentation": [], - "text": "Influence Network of a Mutation: Use Random Walk with Restart to create\nconnectivity strengths between the mutated gene and the rest of the genes in\nthe network\n\n \n\nPry =A - a)W'p, + apy\nWw =A)? wal?\n\nAti] =) Wi\nJ\nFunctionally Linked Mutations: Two mutations are functionally linked if the\n\ncommon differentially expressed genes in their neighbourhoods are higher than\nexpected by chance\n\n \n\nPr(overlap => |ND(m1)NND(m2)|)\n\n_ 1 yee (INPoma)1) (\" _ pond)\n\n( ( y i=|ND(m1)NND(m2)| i |ND(m2)| —i\nND(m2" + "text": "" }, { - "id": 104342, - "strid": "00008637-fe6a-4589-89d1-464edf2b32a2", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 3, - "category_name": "Text", + "id": 1680, + "strid": "d4f16e7c-ae37-47b5-93a5-ac71f4767272", + "image_id": 68, + "image_name": "117415.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1751.836, - 1048.652, - 1474.405, - 100.10300000000007 + 88.162, + 2727.176, + 851.553, + 640.1839999999997 ], "priority": 11, "parents": [ - 104335 + 1679 ], - "children": [], - "area": 1837066.325072, + "children": [ + 1681 + ], + "area": 240433.290512, "iscrowd": 0, - "segmentation": [], - "text": "Cluster of Mutations: Two or more mutations form a cluster of mutations if every\nsingle pair of mutations in the cluster are functionally linked" + "segmentation": [] }, { - "id": 104331, - "strid": "08da63f8-09c8-47b1-8c96-b4e1cad697a6", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 5, - "category_name": "Section", + "id": 1681, + "strid": "8f57cdd3-a62e-44b0-8071-7270f8a4211e", + "image_id": 68, + "image_name": "117415.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1750.823, - 1193.186, - 818.5260000000001, - 89.27999999999997 + 102.003, + 3404.759, + 1016.1639999999999, + 109.65599999999995 ], "priority": 12, "parents": [ - 104347 - ], - "children": [ - 104343, - 104339, - 104338 + 1680 ], - "area": 2089057.492078, + "children": [], + "area": 347295.632277, "iscrowd": 0, "segmentation": [], - "text": "Network Diffusion" + "text": "Figure 1. Sex distibution in the study population\n(blue bars —study group, red bars — control group)." }, { - "id": 104339, - "strid": "eeefba3d-dc66-450d-9ae7-f14fad196258", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 2, - "category_name": "Figure", + "id": 1682, + "strid": "806ce541-89cb-4380-a576-c7757ad5bec3", + "image_id": 68, + "image_name": "117415.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1736.132, - 1392.453, - 1444.1929999999998, - 690.2759999999998 + 952.705, + 2725.016, + 539.3749999999999, + 228.80200000000013 ], "priority": 13, "parents": [ - 104331 + 1679 ], "children": [], - "area": 2417482.211796, + "area": 2596136.36828, "iscrowd": 0, "segmentation": [] }, { - "id": 104343, - "strid": "9e98defc-7946-44ec-b44c-13aba14c59bf", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 3, - "category_name": "Text", + "id": 1683, + "strid": "aa230ab3-093b-403a-815f-1a5af1f5610b", + "image_id": 68, + "image_name": "117415.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1754.476, - 2135.558, - 1470.4299999999998, - 147.78099999999995 + 959.136, + 3023.397, + 585.883, + 290.19900000000007 ], "priority": 14, "parents": [ - 104331 + 1679 ], "children": [], - "area": 3746785.257608, + "area": 2899848.9049919997, "iscrowd": 0, - "segmentation": [], - "text": "Cliques (clusters) of mutations are tested for statistical significance in their\ncoverage by performing a network permutation of the differentially expressed\ngenes labels." + "segmentation": [] }, { - "id": 104338, - "strid": "74dc75ec-deff-4233-b11f-1a19eb52ea9b", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 2, - "category_name": "Figure", + "id": 1684, + "strid": "9f7d9628-83aa-4b6e-988b-1d6f24f1c3cc", + "image_id": 68, + "image_name": "117415.png", + "category_id": 7, + "category_name": "Table", "bbox": [ - 2068.394, - 2337.108, - 795.8310000000001, - 650.3119999999999 + 22.331, + 3580.215, + 1561.63, + 789.1409999999996 ], "priority": 15, "parents": [ - 104331 + 1679 ], - "children": [], - "area": 4834060.164551999, + "children": [ + 1685 + ], + "area": 79949.78116500001, "iscrowd": 0, "segmentation": [] }, { - "id": 104333, - "strid": "07fb5b37-8764-4bb4-b3f7-9cc4dca49daa", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 5, - "category_name": "Section", + "id": 1685, + "strid": "505a1883-f43f-423e-a81c-98fa9f5c7f8a", + "image_id": 68, + "image_name": "117415.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1765.758, - 3064.952, - 929.9269999999999, - 94.27399999999989 + 41.357, + 4408.72, + 1598.348, + 52.021999999999935 ], "priority": 16, "parents": [ - 104347 - ], - "children": [ - 104337 + 1684 ], - "area": 5411963.513616, + "children": [], + "area": 182331.43304, "iscrowd": 0, "segmentation": [], - "text": "Networks Uncovered" + "text": "Table 1 - Analysis between groups before and after adjustment for age and sex." }, { - "id": 104337, - "strid": "f82a9a11-c373-4fb0-98e5-70b043de6ae1", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 2, - "category_name": "Figure", + "id": 1686, + "strid": "fe86fdd8-45bc-43b8-b225-3d2c3f24fdd6", + "image_id": 68, + "image_name": "117415.png", + "category_id": 5, + "category_name": "Section", "bbox": [ - 1871.056, - 3248.71, - 1466.0139999999997, - 1106.6660000000002 + 2248.276, + 719.707, + 388.55499999999984, + 87.83699999999999 ], "priority": 17, "parents": [ - 104333 + 1669 ], - "children": [], - "area": 6078518.3377600005, + "children": [ + 1690, + 1689, + 1692, + 1687 + ], + "area": 1618099.975132, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "" }, { - "id": 104334, - "strid": "79ea3f3b-c24a-492b-9662-7285dbbfa01a", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 5, - "category_name": "Section", + "id": 1687, + "strid": "e5850160-483c-4ca8-9523-86db0591c8ca", + "image_id": 68, + "image_name": "117415.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1764.298, - 4494.494, - 486.91099999999983, - 89.81900000000041 + 1717.875, + 877.124, + 1127.3810000000003, + 845.733 ], "priority": 18, "parents": [ - 104347 + 1686 ], "children": [ - 104346 + 1688 ], - "area": 7929626.775211999, + "area": 1506789.3915000001, "iscrowd": 0, - "segmentation": [], - "text": "References" + "segmentation": [] }, { - "id": 104346, - "strid": "4c4c15b2-8f95-4171-b90e-f926b6f3ba79", - "image_id": 204532, - "image_name": "122295.png", - "category_id": 3, - "category_name": "Text", + "id": 1688, + "strid": "d5c8c0df-57a4-4733-94a7-b7cc36c8a682", + "image_id": 68, + "image_name": "117415.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 1763.334, - 4641.384, - 1471.1810000000003, - 98.9340000000002 + 1713.633, + 1757.537, + 1453.8640000000003, + 105.32400000000007 ], "priority": 19, "parents": [ - 104334 + 1687 ], "children": [], - "area": 8184310.214256001, + "area": 3011773.4019210003, "iscrowd": 0, "segmentation": [], - "text": "Cancer Genome Atlas Network, Comprehensive molecular portraits of human\nbreast tumors. Nature 490, 61-70 (2012)." + "text": "Figure 2. The corelation between HbA1c and platelet count in the group\nof patients with T1DM." }, { - "id": 61437, - "strid": "f48a988c-05ec-4225-9337-124540430f78", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 9, - "category_name": "Root", + "id": 1689, + "strid": "51a82f62-9f2c-4e23-8007-b087dc183fd0", + "image_id": 68, + "image_name": "117415.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 120.6, - 40.87, - 191.13000000000002, - 162.17 + 2885.344, + 890.88, + 402.6869999999999, + 583.814 ], - "priority": -1, - "parents": [], - "children": [ - 61378, - 61375, - 61402, - 61429, - 61410, - 61406, - 61393, - 61401, - 61412, - 61403, - 61404, - 61409, - 61411, - 61426, - 61414, - 61413, - 61408, - 61425, - 61377, - 61430, - 61407, - 61395, - 61376 + "priority": 20, + "parents": [ + 1686 ], - "area": 4928.922, + "children": [], + "area": 2570495.26272, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Among children\nwith diabetes a\nsignificant\ncorrelation\nbetween metabolic\ncontrol measured\nby HbA1c and\nplatelet count\n(r=0.12, p=0.0143)\nwas found." }, { - "id": 61375, - "strid": "8829bc18-f0e8-457f-a632-1dce40a7ee3a", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 1, - "category_name": "Title", + "id": 1690, + "strid": "a744e887-7130-47ae-8ea6-b4045e81edc6", + "image_id": 68, + "image_name": "117415.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 515.015, - 54.432, - 3202.261, - 118.407 + 1655.185, + 1915.847, + 1498.4500000000003, + 825.5979999999997 ], - "priority": 1, + "priority": 21, "parents": [ - 61437 + 1686 ], - "children": [], - "area": 28033.29648, + "children": [ + 1691 + ], + "area": 3171081.216695, "iscrowd": 0, - "segmentation": [], - "text": "Implementing the MNREAD Reading Acuity Fest on an iPad3" + "segmentation": [] }, { - "id": 61376, - "strid": "d7f3ef58-a9c0-48c5-9cec-aa1abc834554", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 0, - "category_name": "Author Info", + "id": 1691, + "strid": "950b0adb-a50d-4eef-95b8-6a8cfc5a5ea1", + "image_id": 68, + "image_name": "117415.png", + "category_id": 6, + "category_name": "Caption", "bbox": [ - 157.053, - 205.557, - 3924.487, - 174.251 + 1652.975, + 2778.153, + 1548.1460000000002, + 182.4079999999999 ], - "priority": 2, + "priority": 22, "parents": [ - 61437 + 1690 ], "children": [], - "area": 32283.343521, + "area": 4592217.455174999, "iscrowd": 0, "segmentation": [], - "text": "wT\n\n‘© Aurelie Calabrese ', Safa Gamam ' J. Stephen Mansfield, Gordon E. Legge '\n1. Psychology, University of Minnesota, Minneapolis cNIN. 2. Psychology, State University of New York College at Plattsburgh, Plattsburgh, NY." + "text": "Figure 3. Seasonal variability of HbA1c - in multivariate analysis season of\nstudy was found to be an independent factor factors associated with HbA1c\n(B..ino=(-0.03), B =(-0.04), B =(0.05), p=0.0473) .\n\nspring summer winter" }, { - "id": 61411, - "strid": "ad514e0d-40e6-4ada-923a-e697adb4c74f", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", + "id": 1692, + "strid": "b3c853ad-fa6e-4cbf-bb4d-6642371189be", + "image_id": 68, + "image_name": "117415.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 424.415, - 594.034, - 573.5520000000001, - 103.87199999999996 + 1642.993, + 3026.111, + 1614.5390000000002, + 700.2449999999999 ], - "priority": 3, + "priority": 23, "parents": [ - 61437 + 1686 ], "children": [], - "area": 252116.94011, + "area": 4971879.190223, "iscrowd": 0, - "segmentation": [], - "text": "Background" + "segmentation": [] }, { - "id": 61412, - "strid": "74e5dd55-a4d3-4e32-94c3-009955317652", - "image_id": 202923, - "image_name": "119454.png", + "id": 1693, + "strid": "0cb16063-e3f8-4189-9804-dde1b8232deb", + "image_id": 68, + "image_name": "117415.png", "category_id": 5, "category_name": "Section", "bbox": [ - 76.671, - 842.423, - 1176.459, - 88.06500000000005 + 2108.31, + 3837.43, + 673.5050000000001, + 88.01800000000003 ], - "priority": 4, + "priority": 24, "parents": [ - 61437 + 1669 ], "children": [ - 61417, - 61415, - 61416 + 1694 ], - "area": 64589.413833000006, + "area": 8090492.043299999, "iscrowd": 0, "segmentation": [], - "text": "What is the MNREAD Acuity Chart ?" + "text": "" }, { - "id": 61415, - "strid": "ebaee0a9-30c4-466e-b0be-e0c7b3cf0154", - "image_id": 202923, - "image_name": "119454.png", + "id": 1694, + "strid": "3664e1ae-f2a4-4503-8779-c97c54ff70ad", + "image_id": 68, + "image_name": "117415.png", "category_id": 4, "category_name": "List", "bbox": [ - 111.291, - 950.698, - 1227.469, - 135.86500000000012 + 1671.769, + 3979.038, + 1530.698, + 587.935 ], - "priority": 5, + "priority": 25, "parents": [ - 61412 + 1693 ], "children": [], - "area": 105804.13111799999, + "area": 6652032.378222, "iscrowd": 0, "segmentation": [] }, { - "id": 61417, - "strid": "774b4df8-d52d-4869-adbc-87c76de220c7", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 2, - "category_name": "Figure", + "id": 1695, + "strid": "e34c1ee2-67ac-47f2-b0d7-60dc534af43a", + "image_id": 69, + "image_name": "117457.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 310.403, - 1107.646, - 1026.014, - 571.569 + 173.61, + 437.5, + 342.28999999999996, + 290.95000000000005 ], - "priority": 6, + "priority": -1, + "parents": [], + "children": [ + 1711, + 1715, + 1697, + 1717, + 1700, + 1696, + 1698 + ], + "area": 75954.375, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1696, + "strid": "1dede7a3-7ece-4b15-9116-7d390d5d21e9", + "image_id": 69, + "image_name": "117457.png", + "category_id": 1, + "category_name": "Title", + "bbox": [ + 55.993, + 42.585, + 3184.805, + 316.586 + ], + "priority": 1, "parents": [ - 61412 + 1695 ], "children": [], - "area": 343816.641338, + "area": 2384.461905, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "STRATEGIES FOR OPTIMISING PROTEOMIC STUDIES OF THE CARTILAGE SECRETOME:\nESTABLISHING THE TIME COURSE OF:PROTEIN RELEASE AND‘EVALUATING\nVea] RESPONSES TO IL-1; TNF-c. AND CARPROFEN" }, { - "id": 61416, - "strid": "e49897b8-e7c6-4103-80cf-0601a96eff48", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 4, - "category_name": "List", + "id": 1697, + "strid": "89fe6705-a80e-4b62-9ace-97254518ea8d", + "image_id": 69, + "image_name": "117457.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 106.606, - 1676.872, - 941.684, - 189.74199999999996 + 624.225, + 424.112, + 2067.282, + 148.82300000000004 ], - "priority": 7, + "priority": 2, "parents": [ - 61412 + 1695 ], "children": [], - "area": 178764.616432, + "area": 264741.31320000003, "iscrowd": 0, - "segmentation": [] + "segmentation": [], + "text": "Adam Williams?, Julia Smith2, David*Allaway?, Pat Harris?, Susan Liddell+ and Ali Mobasheri*\n1University of Nottingham, UK,“@Bruker UK Limited, }WALTHAM Centresfor Pet Nutrition, UK" }, { - "id": 61413, - "strid": "859eb26c-0281-47ed-9f09-99d69eee3739", - "image_id": 202923, - "image_name": "119454.png", + "id": 1698, + "strid": "3556e688-3ebb-409f-b04f-f06f759255cc", + "image_id": 69, + "image_name": "117457.png", "category_id": 5, "category_name": "Section", "bbox": [ - 79.521, - 1954.361, - 338.234, - 73.45499999999993 + 581.649, + 635.556, + 390.6940000000001, + 66.26599999999996 ], - "priority": 8, + "priority": 3, "parents": [ - 61437 + 1695 ], "children": [ - 61422 + 1699 ], - "area": 155412.74108100001, + "area": 369670.511844, "iscrowd": 0, "segmentation": [], - "text": "" + "text": "Introduction" }, { - "id": 61422, - "strid": "d755410f-2005-4b04-906b-50dab5a77702", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 3, - "category_name": "Text", + "id": 1699, + "strid": "279b1300-22cf-4111-a223-4ec95a22de0b", + "image_id": 69, + "image_name": "117457.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 460.99, - 1933.822, - 833.354, - 105.01600000000008 + 47.979, + 750.179, + 1424.371, + 1209.15 ], - "priority": 9, + "priority": 4, "parents": [ - 61413 + 1698 ], "children": [], - "area": 891472.60378, + "area": 35992.838241, "iscrowd": 0, - "segmentation": [], - "text": "To design & test a digital version of the\nMNREAD acuity chart on an iPad3" + "segmentation": [] }, { - "id": 61425, - "strid": "0340fa3c-0f05-4962-9423-dfe1327ad69f", - "image_id": 202923, - "image_name": "119454.png", + "id": 1700, + "strid": "cf8c488f-cfe3-41c2-90ac-8228aea94500", + "image_id": 69, + "image_name": "117457.png", "category_id": 5, "category_name": "Section", "bbox": [ - 78.466, - 2132.896, - 447.65, - 89.01099999999997 + 2245.039, + 632.464, + 289.5279999999998, + 70.35299999999995 ], - "priority": 10, + "priority": 5, "parents": [ - 61437 + 1695 ], "children": [ - 61423 + 1705, + 1708, + 1704, + 1706, + 1710, + 1702, + 1707, + 1709, + 1703, + 1701 ], - "area": 167359.817536, + "area": 1419906.3460960002, "iscrowd": 0, "segmentation": [], - "text": "Advantages" + "text": "Methods" }, { - "id": 61423, - "strid": "c1eded93-9743-4942-b553-106eef93304f", - "image_id": 202923, - "image_name": "119454.png", + "id": 1701, + "strid": "49abc91f-4edd-4122-a602-c914f7762de4", + "image_id": 69, + "image_name": "117457.png", "category_id": 4, "category_name": "List", "bbox": [ - 566.006, - 2106.59, - 745.276, - 232.05200000000013 + 1595.613, + 722.787, + 962.624, + 369.789 ], - "priority": 11, + "priority": 6, "parents": [ - 61425 + 1700 ], "children": [], - "area": 1192342.57954, + "area": 1153288.3334310001, "iscrowd": 0, "segmentation": [] }, { - "id": 61426, - "strid": "32c5c93d-a587-49d0-a24b-eb0c2182071a", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", + "id": 1702, + "strid": "082cd13d-8612-47b7-8381-4f822f4210ba", + "image_id": 69, + "image_name": "117457.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 75.009, - 2392.153, - 421.724, - 90.73999999999978 + 2591.499, + 752.135, + 583.0529999999999, + 164.351 ], - "priority": 12, + "priority": 7, "parents": [ - 61437 + 1700 ], - "children": [ - 61424, - 61427 - ], - "area": 179433.00437699998, + "children": [], + "area": 1949157.1003649998, "iscrowd": 0, "segmentation": [], - "text": "Challenges" + "text": "15 explant discs per well were\nincubated in different treatment\nmedia (all serum free)" }, { - "id": 61424, - "strid": "1cd697da-2415-45f2-9df6-5c988ce77ff7", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 3, - "category_name": "Text", + "id": 1703, + "strid": "83fcba9a-22e5-482d-89f7-de8086785ab5", + "image_id": 69, + "image_name": "117457.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 638.944, - 2398.029, - 501.2640000000001, - 85.34700000000021 + 2583.673, + 912.573, + 538.0520000000001, + 273.918 ], - "priority": 13, + "priority": 8, "parents": [ - 61426 + 1700 ], "children": [], - "area": 1532206.241376, + "area": 2357790.2206289996, "iscrowd": 0, - "segmentation": [], - "text": "What print size range can be\nrendered on the iPad?" + "segmentation": [] }, { - "id": 61427, - "strid": "ea6efea7-c3db-4f6f-8729-9d3a944ae834", - "image_id": 202923, - "image_name": "119454.png", + "id": 1704, + "strid": "f4d09264-7baa-4619-9326-ef77652bfb45", + "image_id": 69, + "image_name": "117457.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 77.025, - 2503.057, - 1267.476, - 640.94 + 1769.746, + 1116.054, + 487.1819999999998, + 344.35300000000007 ], - "priority": 14, + "priority": 9, "parents": [ - 61426 + 1700 ], "children": [], - "area": 192797.965425, + "area": 1975132.1022840003, "iscrowd": 0, "segmentation": [] }, { - "id": 61429, - "strid": "47fc4697-379e-4401-952f-00aeddb00dec", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", + "id": 1705, + "strid": "e4e4e541-4879-4909-bccc-62fb4876e832", + "image_id": 69, + "image_name": "117457.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 72.91, - 3213.131, - 733.737, - 75.51400000000012 + 2579.759, + 1194.316, + 598.7049999999999, + 360.0060000000001 ], - "priority": 15, + "priority": 10, "parents": [ - 61437 + 1700 ], - "children": [ - 61428 + "children": [], + "area": 3081047.449844, + "iscrowd": 0, + "segmentation": [] + }, + { + "id": 1706, + "strid": "86a6a3ae-ed63-4f25-a7a0-7573f8524368", + "image_id": 69, + "image_name": "117457.png", + "category_id": 2, + "category_name": "Figure", + "bbox": [ + 2577.803, + 1658.02, + 254.35199999999986, + 301.30899999999997 ], - "area": 234269.38121, + "priority": 11, + "parents": [ + 1700 + ], + "children": [], + "area": 4274048.93006, "iscrowd": 0, - "segmentation": [], - "text": "General Conclusion" + "segmentation": [] }, { - "id": 61428, - "strid": "51d59ad6-f7cc-4465-97ea-902ef03d1b25", - "image_id": 202923, - "image_name": "119454.png", + "id": 1707, + "strid": "31561b2e-a1ef-4e27-8478-6b7d3169eecf", + "image_id": 69, + "image_name": "117457.png", "category_id": 3, "category_name": "Text", "bbox": [ - 102.951, - 3321.155, - 1206.983, - 185.80000000000018 + 2883.025, + 1650.194, + 361.962, + 322.83100000000013 ], - "priority": 16, + "priority": 12, "parents": [ - 61429 + 1700 ], "children": [], - "area": 341916.228405, + "area": 4757550.55685, "iscrowd": 0, "segmentation": [], - "text": "The iPad version & the printed*chart yield similar estimates of the\nMNREAD parameters (Maximum Reading Speed, Critical Print Size &\nReading Acuity) when testéd on both a normally-sighted population\nand’a‘low-vision population." + "text": "Spent culture\nmedia were\nremoved at specific\ntime intervals and\ntreatment media\nwere replenished" }, { - "id": 61401, - "strid": "456b79bc-da84-463d-9a13-d1988df47c41", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", + "id": 1708, + "strid": "a7a68ccc-72aa-43fa-a4bf-3fd592913c9b", + "image_id": 69, + "image_name": "117457.png", + "category_id": 3, + "category_name": "Text", "bbox": [ - 1751.704, - 545.827, - 720.3280000000002, - 199.664 + 2323.571, + 1635.859, + 182.67799999999988, + 43.923 ], - "priority": 17, + "priority": 13, "parents": [ - 61437 + 1700 ], "children": [], - "area": 956127.339208, + "area": 3801034.532489, "iscrowd": 0, "segmentation": [], - "text": "Experiment 1\n- Normal Vision -" + "text": "SDS-PAGE" }, { - "id": 61409, - "strid": "a2e52cee-9035-415e-aaf8-d3ee50492143", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", + "id": 1709, + "strid": "10557ebc-96f2-4d49-978f-0825d2ab0693", + "image_id": 69, + "image_name": "117457.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1485.711, - 817.584, - 189.6790000000001, - 81.29100000000005 + 1775.616, + 1485.843, + 487.1819999999998, + 385.44100000000003 ], - "priority": 18, + "priority": 14, "parents": [ - 61437 - ], - "children": [ - 61419 + 1700 ], - "area": 1214693.542224, + "children": [], + "area": 2638286.604288, "iscrowd": 0, - "segmentation": [], - "text": "Goal" + "segmentation": [] }, { - "id": 61419, - "strid": "81279041-b457-4fbe-b493-0df9465f22ec", - "image_id": 202923, - "image_name": "119454.png", + "id": 1710, + "strid": "e2905b18-d8c0-4d94-98e4-d71873b57c2b", + "image_id": 69, + "image_name": "117457.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1806.59, - 817.176, - 629.845, - 102.78300000000002 + 1603.439, + 1877.154, + 664.1099999999999, + 98.58600000000001 ], - "priority": 19, + "priority": 15, "parents": [ - 61409 + 1700 ], "children": [], - "area": 1476301.98984, + "area": 3009901.932606, "iscrowd": 0, "segmentation": [], - "text": "To determinethe’smallest\nusable print)size’on the iPad3" + "text": "Bands were excised and the proteins\nidentified using mass spectrometry" }, { - "id": 61410, - "strid": "325b2a85-cdf4-4e9a-b154-3b5c5ae1e023", - "image_id": 202923, - "image_name": "119454.png", + "id": 1711, + "strid": "2a299b42-ca3f-4ae9-8f31-f444fdbd1068", + "image_id": 69, + "image_name": "117457.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1485.711, - 1007.262, - 329.67899999999986, - 81.29099999999994 + 1543.171, + 2069.069, + 224.96299999999997, + 61.353999999999814 ], - "priority": 20, + "priority": 16, "parents": [ - 61437 + 1695 ], "children": [ - 61420, - 61421, - 61418 + 1712, + 1713, + 1714 ], - "area": 1496500.2332819998, + "area": 3192927.277799, "iscrowd": 0, "segmentation": [], - "text": "Methods" + "text": "Results" }, { - "id": 61421, - "strid": "59f2401e-bc6e-45f4-9a0b-f317a9834137", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 4, - "category_name": "List", + "id": 1712, + "strid": "bb305282-b855-417d-a6fb-320e274e8bdd", + "image_id": 69, + "image_name": "117457.png", + "category_id": 2, + "category_name": "Figure", "bbox": [ - 1941.642, - 996.449, - 709.9199999999998, - 136.24699999999996 + 20.464, + 2145.011, + 2086.175, + 1100.3740000000003 ], - "priority": 21, + "priority": 17, "parents": [ - 61410 + 1711 ], "children": [], - "area": 1934747.229258, + "area": 43895.505103999996, "iscrowd": 0, "segmentation": [] }, { - "id": 61418, - "strid": "32616ae2-89fc-4919-8d3e-716c0586fbd2", - "image_id": 202923, - "image_name": "119454.png", + "id": 1713, + "strid": "277f7459-9604-4abd-8ca9-5f3d48e258c0", + "image_id": 69, + "image_name": "117457.png", "category_id": 2, "category_name": "Figure", "bbox": [ - 1491.022, - 1175.578, - 953.3959999999997, - 634.817 + 2120.96, + 2185.589, + 1169.594, + 1050.248 ], - "priority": 22, + "priority": 18, "parents": [ - 61410 + 1711 ], "children": [], - "area": 1752812.6607159998, + "area": 4635546.84544, "iscrowd": 0, "segmentation": [] }, { - "id": 61420, - "strid": "3ac0c41c-cc47-4ede-aaf2-819b9763244d", - "image_id": 202923, - "image_name": "119454.png", + "id": 1714, + "strid": "dff7b35c-5997-4d9a-9372-05a33b953424", + "image_id": 69, + "image_name": "117457.png", "category_id": 3, "category_name": "Text", "bbox": [ - 2325.286, - 1327.506, - 425.47400000000016, - 326.27600000000007 + 24.994, + 3254.932, + 3248.852, + 440.31500000000005 ], - "priority": 23, + "priority": 19, "parents": [ - 61410 + 1711 ], "children": [], - "area": 3086831.1167160003, + "area": 81353.770408, "iscrowd": 0, "segmentation": [], - "text": "By manipulating\nthe viewing distance,\nwe evaluated the\nsmallest'print size\nthat ean be displayed\nwithesufficient resolution\non the iPad" + "text": "(A) SDS-PAGE images of the time course of protein release from the articular cartilage explant model. M = molecular weight markers, C = control (no\ntreatment), IL = IL-1B (10 ng/ml), TIL = TNF-a (10 ng/mi) + IL-1B, R = Rimadyl® (100 ug/ml), RIL = Rimadyl® + IL-1B, RTIL = Rimadyl® + TNF-a + IL-1B.\nNumber of days that explants have been incubated since the start of time course. 0 Days corresponds to the 24 hour equilibration phase culture fluid.\n(B) SDS-PAGE of proteins from the time course at Day 6 displaying identities of selected proteins determined by tandem MS.\n\nPro-inflammatory cytokines treatment (IL-18 and TNF-a) stimulated alterations in the protein release profile (compared to control).\n\nMMP-3 release was stimulated by IL-1B and TNF-a, but after 12 days Rimadyl® treatment down-regulated MMP-3 levels (red box).\n\nBovine Serum Albumin (BSA) is present in IL-1B and TNF-a treated samples because it is used as a carrier protein for these cytokines." }, { - "id": 61414, - "strid": "7abc8355-834c-41a1-a923-96141dd5f48d", - "image_id": 202923, - "image_name": "119454.png", + "id": 1715, + "strid": "3afc202e-c02b-4565-a59f-9d5141710299", + "image_id": 69, + "image_name": "117457.png", "category_id": 5, "category_name": "Section", "bbox": [ - 1491.727, - 1868.931, - 269.96399999999994, - 72.471 + 1460.751, + 3759.193, + 393.85799999999995, + 70.07299999999987 ], - "priority": 24, + "priority": 20, "parents": [ - 61437 + 1695 ], "children": [ - 61436, - 61433, - 61434, - 61435 + 1716 ], - "area": 2787934.833837, + "area": 5491244.933943001, "iscrowd": 0, "segmentation": [], - "text": "Results" + "text": "Conciusions" }, { - "id": 61433, - "strid": "0d94d25c-1395-48a2-ba35-bfe4fdea66ec", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 2, - "category_name": "Figure", + "id": 1716, + "strid": "0ad65fc3-ae54-49e6-83f4-16daac12450c", + "image_id": 69, + "image_name": "117457.png", + "category_id": 4, + "category_name": "List", "bbox": [ - 1487.348, - 1961.9, - 601.3559999999998, - 590.3330000000001 + 26.959, + 3853.199, + 3207.364, + 546.5459999999998 ], - "priority": 25, + "priority": 21, "parents": [ - 61414 + 1715 ], "children": [], - "area": 2918028.0412, + "area": 103878.391841, "iscrowd": 0, "segmentation": [] }, { - "id": 61436, - "strid": "258f7ec8-6601-4461-8789-aa9b8f157f68", - "image_id": 202923, - "image_name": "119454.png", + "id": 1717, + "strid": "f118c77b-d606-45da-8d1b-185f8a13c36a", + "image_id": 69, + "image_name": "117457.png", "category_id": 3, "category_name": "Text", "bbox": [ - 1606.149, - 2598.774, - 356.30099999999993, - 139.39399999999978 + 1092.812, + 4426.867, + 1201.991, + 214.27400000000034 ], - "priority": 26, + "priority": 22, "parents": [ - 61414 + 1695 ], "children": [], - "area": 4174018.2613259996, + "area": 4837733.380004, "iscrowd": 0, "segmentation": [], - "text": "Reading speed is\n60% slower at 20cm\n(95% Cl [55,63])" + "text": "Acknowledgements\n\nThis work received financial support, from the Biotechnology and\nBiological Sciences Research Councit(BBSRC) (Grant Reference No.\nBB/G018030/1) and the WALTHAM Centre for Pet Nutrition, UK." }, { - "id": 61434, - "strid": "276815e4-693f-42f2-8b44-c5e66f1a75c8", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 2, - "category_name": "Figure", + "id": 1718, + "strid": "0cd73a01-98f4-40d8-83f6-b45385929fad", + "image_id": 70, + "image_name": "117473.png", + "category_id": 9, + "category_name": "Root", "bbox": [ - 2146.267, - 1955.777, - 600.1309999999999, - 596.4569999999999 + 329.29, + 83.89, + 231.09999999999997, + 249.34000000000003 ], - "priority": 27, - "parents": [ - 61414 + "priority": -1, + "parents": [], + "children": [ + 1734, + 1719, + 1732, + 1720, + 1726, + 1740, + 1723, + 1738, + 1721 ], - "children": [], - "area": 4197619.634459, + "area": 27624.1381, "iscrowd": 0, "segmentation": [] }, { - "id": 61435, - "strid": "f14f96fd-cd6e-45ec-ac20-bde87ac59db7", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 3, - "category_name": "Text", + "id": 1719, + "strid": "7075c826-3541-4367-a340-a0ba4e215122", + "image_id": 70, + "image_name": "117473.png", + "category_id": 1, + "category_name": "Title", "bbox": [ - 2300.586, - 2601.223, - 346.6060000000002, - 142.07200000000012 + 645.515, + 65.518, + 3504.912, + 246.417 ], - "priority": 28, + "priority": 1, "parents": [ - 61414 + 1718 ], "children": [], - "area": 5984337.216677999, - "iscrowd": 0, - "segmentation": [], - "text": "Reading speed is\n'4%.slower at 20cm\n(95% Cl [4.5,20])" - }, - { - "id": 61430, - "strid": "6c546499-cd35-4e69-a34d-05bd29cbf3c6", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 5, - "category_name": "Section", - "bbox": [ - 1484.898, - 2882.918, - 458.05899999999997, - 78.38400000000001 - ], - "priority": 29, - "parents": [ - 61437 - ], - "children": [ - 61432, - 61431 - ], - "area": 4280839.172364, + "area": 42292.85177, "iscrowd": 0, "segmentation": [], - "text": "Conclusions" + "text": "ia Homogeneityand Resting State Functional Gennectivity:\nAssociations with Eafly Life Stress >" }, { - "id": 61431, - "strid": "09ad3eeb-6ae0-4e1a-8ddd-59fb03e90ac1", - "image_id": 202923, - "image_name": "119454.png", - "category_id": 3, - "category_name": "Text", + "id": 1720, + "strid": "71b36082-e971-46f9-874b-5f9d60840dc7", + "image_id": 70, + "image_name": "117473.png", + "category_id": 0, + "category_name": "Author Info", "bbox": [ - 1475.1, - 3032.338, - 540.1179999999999, - 423.7660000000001 + 863.63, + 378.612, + 3060.674, + 300.9030000000001 ], - "priority": 30, + "priority": 2, "parents": [ - 61430 + 1718 ], "children": [], - "area": 4473001.7838, + "area": 326980.68156, "iscrowd": 0, "segmentation": [], - "text": "Only 14 print sizes in\n0.1 logMAR increments_can be\ndisplayed reliably On'the iPad\n(vs. 19 on the’chart)\n\nThis reduced number\ncan beyovercome by\nchanging,the viewing distance\nfor both normal & low vision" + "text": "Noah S. Philip, M.D.