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|---|---|---|---|---|---|---|
dataset
|
10.1073_pnas.2221064120
|
doi10.1073_pnas.2221064120
|
Data, Materials, and Software AvailabilityAll study data are included in the article, SI Appendix and/or the OSF repository (https://osf.io/r4zsp/?view_only=6da09fcb508d4ab2b93c1d13ee406b18) (28).
| true
| true
| true
|
dataset
|
10.1371_journal.pone.0264137
|
doi10.1371_journal.pone.0264137
|
Data Availability Statement The data was stored in Zenodo. The digital object identifier is:10.5281/zenodo.5999622.
| false
| true
| false
|
dataset
|
10.1038_s41467-023-39837-z
|
doi10.1038_s41467-023-39837-z
|
Data availabilityAll data used to generate all figures is available in Supplementary Data 1. Viral sequences have been deposited in GenBank with the accession codes OQ948507-OQ953743.Code availabilityAll custom plotting scripts and code used for modeling and to generate all figures are freely available at https://github.com/dbrvs/IPDAmodel/releases/tag/v1.
| false
| true
| true
|
dataset
|
10
|
doi10
|
Data availability statement All data relevant to the study are included in the article or uploaded as online supplemental information. The model used is available online at https://www.paho.org/en/provac-toolkit.
| false
| true
| false
|
dataset
|
10.1371_journal.pone.0239320
|
doi10.1371_journal.pone.0239320
|
Data Availability Statement All relevant data are within the paper and its Supporting Information files.
| false
| true
| false
|
dataset
|
10
|
doi10
|
Data availability The source data for graphs are available in Supplementary data 1. Uncropped Western blot images are available in Supplementary Fig. 5. Plasmids for S300P-LOXL2 (AddGene ID 200061), ΔN-LOXL2 (AddGene ID 200062), and R338G/V339P-LOXL2 (AddGene ID 200063) are available from Addgene.
| false
| true
| false
|
dataset
|
10.1186_s12917-019-1925-6
|
doi10.1186_s12917-019-1925-6
|
Availability of data and materialsThe datasets supporting the results of this document are contained within the article. Any additional data may be requested to the corresponding author.
| false
| true
| false
|
dataset
|
10.1261_rna.079608.123
|
doi10.1261_rna.079608.123
|
DATA DEPOSITION All sequencing data generated in this study is deposited in the Gene Expression Omnibus (GEO) under accession number GSE223557. Human data is in subseries GSE223555 and Drosophila data is in subseries GSE223556. The TRIBE analysis pipeline is publicly available at https://github.com/rosbashlab/HyperTRIBE. All scripts used in this manuscript are available at https://github.com/rosbashlab/Comparison-of-TRIBE-and-STAMP.
| false
| true
| true
|
dataset
|
10.1371_journal.pone.0284204
|
doi10.1371_journal.pone.0284204
|
Data Availability Statement All relevant data are within the paper and its Supporting Information files.
| false
| true
| false
|
dataset
|
10.1155_2021_6675579
|
doi10.1155_2021_6675579
|
Data Availability All data related to the findings of this study are available from the Multiple Indicator Cluster Survey (MICS) website upon request
| false
| true
| false
|
dataset
|
10.1371_journal.pone.0287610
|
doi10.1371_journal.pone.0287610
|
Data Availability Statement The data underlying the results presented in the study are available from Chinese public database of Statistics Yearbook, i.e. Jiangsu Statistics Yearbook (http://tj.jiangsu.gov.cn/col/col86293/index.html), Jiangsu Culture and Tourism Statistics Yearbook (https://navi.cnki.net/knavi/yearbooks/YJSWH/detail?uniplatform=NZKPT&language=chs) China City Statistics Yearbook (https://navi.cnki.net/knavi/yearbooks/YZGCA/detail?uniplatform=NZKPT&language=chs), and the Statistics Yearbooks of the 13 cities (https://navi.cnki.net/knavi/yearbooks/YNJTJ/detail?uniplatform=NZKPT&language=chs).
| false
| true
| true
|
dataset
|
10.1371_journal.pdig.0000242
|
doi10.1371_journal.pdig.0000242
|
Data Availability Statement One of the study funder, the COVID-19 Immunity Task Force (CITF), has a data sharing protocol for all funded projects. We will transfer relevant anonymized study data as available to the CITF as a part of these standard data sharing requirements. This is submitted together with a data dictionary defining each field in the set. External researchers will be able to submit a request to the CITF to receive access to all CITF data through their data access committee. The CITF will employ a rigorous checklist to ensure that these external requests follow all necessary ethical and privacy protocols. The data provided to the CITF will be stored on the CITF Database. The data on the CITF Database will be held under the custodianship of McGill University or one of its collaborators and be shared via the cloud, both nationally and internationally. Data in the CITF Database can be used by researchers across Canada and in other countries following Data Access Committee (DAC) approval. These transfers will also be made in compliance with Canadian law and research ethics. A DAC will be responsible for reviewing applications for access to the data and for approving applications that respect the privacy and access policies of the CITF. The DAC will require that researchers confirm that their intended research activities have received necessary ethics approvals. The data may also be shared with other COVID- 19 research databases that follow similar protections and procedures as the CITF Database. Further the main study protocol, statistical analysis plan, informed consent form and full protocol are available on the study website www.stopcov.ca.
| false
| true
| false
|
dataset
|
10.1088_1361-648x_ad0dcc
|
doi10.1088_1361-648x_ad0dcc
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1371_journal.pbio.3002117
|
doi10.1371_journal.pbio.3002117
|
Data AvailabilityAll data is available in the supplementary tables. RNA and mtDNA sequencing data has been deposited in GEO under identifier GSE219203 and in SRA under PRJNA910556. Code can be found at https://github.com/MoothaLab/ercc1-mouse-rob.
| false
| true
| true
|
dataset
|
10.1186_s13071-020-04129-8
|
doi10.1186_s13071-020-04129-8
|
Availability of data and materials All data generated or analysed during this study are included in this published article. The type material was deposited in the Australian Helminthological Collection, South Australian Museum. DNA sequence data generated during this study are available from the GenBank database under the accession nos. MT080008-MT080027.
| false
| true
| false
|
dataset
|
10.1088_1361-6420_ad08ed
|
doi10.1088_1361-6420_ad08ed
|
Data availability statementNo new data were created or analysed in this study.
| false
| true
| false
|
dataset
|
10.1136_jitc-2023-006921
|
doi10.1136_jitc-2023-006921
|
Data availability statementData are available upon reasonable request.
| false
| true
| false
|
dataset
|
10.1038_s41467-023-41013-2
|
doi10.1038_s41467-023-41013-2
|
Data availabilityCaDNAno files and sequences of DNA nanostructures are available online. A cryo-ET video is available online. Source data are provided with this paper.
| true
| true
| false
|
dataset
|
10.3390_e24040456
|
doi10.3390_e24040456
|
Data Availability Statement: Data and results can be found in Section 3 and Appendix A.
| false
| true
| false
|
dataset
|
10.1590_acb382323
|
doi10.1590_acb382323
|
Data availability statement All generated data were presented in this study.
| false
| true
| false
|
dataset
|
10.1038_s41467-023-35820-w
|
doi10.1038_s41467-023-35820-w
|
Data availability The compiled database and the MSI data generated in this study are provided in Supplementary Data 1 and 2 respectively with an inter- active HTML interface plot of the geological Δ33S record through time provided as Supplementary Data 3. Code availability The code used in this study can be found online in a GitHub repository https://github.com/buveges/Sulfur-MSI-Database along with an updating version of the MSI database. The MATLAB model was ori- ginally created by S.O. for Luo et al.22, and subsequently modified and augmented by S.O. and B.T.U. for this study. The R code was writ- ten by B.T.U.
| false
| true
| true
|
dataset
|
10.1371_journal.pone.0237277
|
doi10.1371_journal.pone.0237277
|
Data Availability Statement All relevant data are available from public sources and are aggregated in the github repository pertaining to the manuscript: https://github.com/zidatalab/causalcovid19.
| true
| true
| true
|
dataset
|
10.1172_jci.insight.150114
|
doi10.1172_jci.insight.150114
|
Data availability. The authors declare that the data supporting the findings of this study are available within the paper and its supplementary information files or are available in the public GEO database (accession GSE160984).
| true
| true
| false
|
dataset
|
10.1186_s13018-023-03907-1
|
doi10.1186_s13018-023-03907-1
|
Availability of data and materials The datasets used and analyzed during the current study are available from the corresponding author on reasonable request.
| false
| true
| false
|
dataset
|
10.1186_s12872-019-1064-9
|
doi10.1186_s12872-019-1064-9
|
Availability of data and materialsThe datasets used and analysed during the current study are available from the corresponding author on reasonable request.
| false
| true
| false
|
dataset
|
10.1371_journal.pone.0213888
|
doi10.1371_journal.pone.0213888
|
Data Availability Statement All relevant data are within the paper and the public repository GitHub at the following URL: https://github.com/kw-ictl/A-MPDU-802.11ac-delay.
| false
| true
| true
|
dataset
|
10.1080_15502783.2023.2206802
|
doi10.1080_15502783.2023.2206802
|
Availability of data and materialThe data presented in this study are available on request from the corresponding author.
| false
| true
| false
|
dataset
|
10.1088_1741-2552_acf959
|
doi10.1088_1741-2552_acf959
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1038_s42005-022-01022-x
|
doi10.1038_s42005-022-01022-x
|
Data availability The data that support the findings of this study are available from the corresponding author upon request. Code availability The code that supports the findings of this study is available from the corresponding author upon request.
| false
| true
| true
|
dataset
|
10.1371_journal.pcbi.1007990
|
doi10.1371_journal.pcbi.1007990
|
Data Availability Statement All code and data are available at https://github.com/kpzoo/model-selection-for-epidemic-renewal-models.
| false
| true
| true
|
dataset
|
10.1080_15476286.2023.2231280
|
doi10.1080_15476286.2023.2231280
|
Data availability statementThe data that support the findings of this study can be accessed online at https://doi.org/10.6084/m9.figshare.c.6569116.
| false
| true
| false
|
dataset
|
10.1088_1361-6455_acf631
|
doi10.1088_1361-6455_acf631
|
Data availability statementThe data that support the findings of this study are available upon reasonable request from the authors.
| false
| true
| false
|
dataset
|
10.1073_pnas.2220528120
|
doi10.1073_pnas.2220528120
|
Data, Materials, and Software Availability GitHub hosts the FPalyze (github.com/whemphil/FPalyze) (59) R package. The custom scripts referenced in these methods are available on GitHub (github.com/whemphil/PRC2_Direct-Transfer_Manuscript) (60). pFastBac vectors for PRC2 expression have been deposited to AddGene (ID #125161-125165) by the Davidovich lab. All ligands and competitors are available from IDT via the sequences in SI Appendix, Table S2. Methodology on single-molecule simulations and equations can be found in SI Appendix, Materials and Methods. All other data are included in the manuscript and/or SI Appendix.
| false
| true
| true
|
dataset
|
10.5194_bg-19-5401-2022
|
doi10.5194_bg-19-5401-2022
|
Code availability. Water column model code, Darwin- MITgcm model code, and output files are available at Zenodo (https://doi.org/10.5281/zenodo.6384810, Zakem, 2022).
| false
| true
| true
|
dataset
|
10.1088_1748-9326_ad0a1b
|
doi10.1088_1748-9326_ad0a1b
|
Data availability statementSAGE-IGP data are available from Harvard Dataverse at https://doi.org/10.7910/DVN/JUMXOL. Daily averaged atmospheric concentrations of PM2.5 data are available at https://app.cpcbccr.com/ccr/#/caaqm-dashboard-all/caaqm-landing/data.
| false
| true
| false
|
dataset
|
10.3389/fphys.2022
|
doi10.3389/fphys.2022
|
Data availability statement The original contributions presented in the study are included in the article/supplementary materials, further inquiries can be directed to the corresponding author.
| false
| true
| false
|
dataset
|
10.1371_journal.pone.0287584
|
doi10.1371_journal.pone.0287584
|
Data Availability Statement All data files are available from the OSF database (https://doi.org/10.17605/OSF.IO/PQUNJ).
| false
| true
| false
|
dataset
|
10.3390_biom11050662
|
doi10.3390_biom11050662
|
Data Availability StatementThe authors confirm that the data supporting the findings of this study are available within the present article.
| false
| true
| false
|
dataset
|
10.1088_2058-9565_ad0a48
|
doi10.1088_2058-9565_ad0a48
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10
|
doi10
|
Data availability Atomic coordinates of the CaKip3-MDN-ADP X-ray crystal structure have been deposited in the Protein Data Bank (PDB) under accession code 7LFF (Table 1). Atomic coordinates and corresponding cryo-EM density maps, including the half maps, masks and FSC curves used to estimate spatial resolution have been deposited in the Protein Data Bank (PDB) and Electron Microscopy Data Bank (EMDB) under the accession codes 7TQX, 7TQY, 7TQZ, 7TR0, 7TR1, 7TR2, 7TR3, and EMD-26074, EMD-26075, EMD-26076, EMD-26077, EMD-26078, EMD-26079, EMD-26080 (Table 2). Source data are provided with this paper.
| false
| true
| true
|
dataset
|
10.1088_2058-8585_ad0ea6
|
doi10.1088_2058-8585_ad0ea6
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1371_journal.ppat.1011015
|
doi10.1371_journal.ppat.1011015
|
Data Availability Statement With respect to Data Availability Statement statement, please amend to X-ray structural data has been deposited in the PDB repository under PDB ID 8BBY. Both the Raw RNA seq and whole genomic sequencing data have been deposited within Gene Expression Omnibus (GEO) repository and can be accessed using the reference ID GSE205747. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE205747. All other relevant data are available within the manuscript and its Supporting information files.
| false
| true
| true
|
dataset
|
10.1088_1361-648x_ad1362
|
doi10.1088_1361-648x_ad1362
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1038_s41467-021-25279-y
|
doi10.1038_s41467-021-25279-y
|
Data availability The raw data and gene expression matrices for mouse tumor scRNA-seq data have been deposited in the Gene Expression Omnibus as GSE175882. For human intestinal organoids, interactive visualization tools, metadata, and digital gene expression matrices can be found through the Broad Institute’s Single-Cell Portal as study SCP1457. Digital gene expression matrices annotated with cell types, photoactivation regions, and other metadata can also be found in Supplementary Data 1 (human intestinal organoids, corresponding to Fig. 2) and Supplementary Data 3 (mouse KP lung tumors, corresponding to Fig. 4). Gene lists corresponding to differential expression tests for human intestinal organoids and mouse KP lung tumors can be found in Supplementary Data 2 and 4, respectively. FASTQ data for the human intestinal organoids is available upon request and with a data use agreement. Source data are provided with this paper. Code availability Cell Profiler v 3.1.9 was used to segment microscopic images, and resulting data were analyzed using MATLAB R2020a. Sequencing data were demultiplexed using bl2fastq v2.17.1.14. Smart-Seq2 sequencing reads were aligned using STAR v2.5b and transcripts were quantified with RSEM v1.2.3. Seq-Well sequencing reads were aligned and processed according to the Drop-Seq Computational Protocol v2.0 (https://github.com/broadinstitute/Drop-seq). Single-cell RNA-seq analysis was performed in R version 4.0.2 using ggplot2 (v3.3.2130), Seurat (v4.0.1), and ComplexHeatmap (v2.7.3132). Gene ontologies were evaluated for enrichment using DAVID v6.8. Additional NMR processing was done with MestReNova (9.0.1) (Santiago de Compostela, Spain). MS data were processed using the MassHunter Workstation Software – Qualitative Analysis Version B.03.01 • build 3.1.346.6 • service pack 2 (Agilent Technologies). Code for analysis is available at https://github.com/ctzouanas/spacecat.
| false
| true
| true
|
dataset
|
10.1371_journal.pntd.0011948
|
doi10.1371_journal.pntd.0011948
|
Data Availability Statement: Individual data for reproducing figures may be shared with outside investigators following UC Berkeley IRB approval, as data may contain potentially identifying patient information. Consent documents enable data sharing via collaboration but not public access to patient data. Please contact the UC Berkeley Committee for the Protection of Human Subjects at ophs@berkeley.edu or 510-642-7461 to arrange for data access. The materials and data used in this study are covered by standard data and material transfer agreements. Code used in this paper is available on GitHub at https://github.com/colinwarnes/Post-AcuteChikungunyaArthralgia.git.
| false
| true
| true
|
dataset
|
10.1371_journal.ppat.1012031
|
doi10.1371_journal.ppat.1012031
|
Data Availability Statement: Programming code and data necessary to generate plots shown in this manuscript were deposited at Github: https://github.com/SchSascha/Cal_Translocation. Raw sequencing data is submitted under project accession number GSE237496 to the GEO gene accession omnibus.
| true
| true
| true
|
dataset
|
10.1371_journal.pone.0261952
|
doi10.1371_journal.pone.0261952
|
Data Availability Statement Data cannot be shared publicly due to restrictions by law. Data can be requested through the Statistics Finland (info@stat.fi) and Finnish Social and Health Data Permit Authority Findata (info@findata.fi) after approval from relevant ethical committees.
| true
| true
| false
|
dataset
|
10.1126_sciimmunol.ade5872
|
doi10.1126_sciimmunol.ade5872
|
DATA AND MATERIALS AVAILABILITY The accession number for RNA-sequencing data generated in this study is GEO:GSE196549. The remaining data supporting the findings of this study are available in the article, its supplementary information files, and/or from the corresponding author by request.
| false
| true
| true
|
dataset
|
10.1126_science.add6162
|
doi10.1126_science.add6162
|
Data and materials availability:All newly generated materials in the manuscript are available upon reasonable request. All data are available in the manuscript and associated supplementary materials.
| true
| true
| true
|
dataset
|
10.1371_journal.pntd.0012027
|
doi10.1371_journal.pntd.0012027
|
Data Availability Statement: All relevant data are in the manuscript and its Supporting information files.
| false
| true
| true
|
dataset
|
10.1073_pnas.2218085120
|
doi10.1073_pnas.2218085120
|
Data, Materials, and Software Availability Datasets and software are available by requests to the corresponding author. Microscopy images data have been deposited in Dryad (doi:10.5061/dryad.83bk3j9ws) (82).
| false
| true
| true
|
dataset
|
10.1088_1361-6560_ad0a58
|
doi10.1088_1361-6560_ad0a58
|
Data availability statementThe data that support the findings of this study are openly available at the following URL/DOI: https://doi.org/10.5281/zenodo.8164568.
| false
| true
| false
|
dataset
|
10.1186_s12909-023-04193-5
|
doi10.1186_s12909-023-04193-5
|
Availability of data and materials All data generated or analysed during this study are included in this published article and its supplementary information files.
| false
| true
| false
|
dataset
|
10.1016_j.cell.2023.03.031
|
doi10.1016_j.cell.2023.03.031
|
Data and code availability • Bulk RNA-, 10x singe-cell RNA-, ATAC-sequencing data and Cut-and- Run sequencing data from this study have been deposited in the Gene Expression Omnibus (https://www.ncbi.nlm.nih.gov/sra) under accession codes PRJNA731164, PRJNA885018, and PRJNA731304. All other data in the manuscript, supplementary materials and source data are available from the corresponding author upon request. • All original code is available from the lead contact upon request. • Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.
| false
| true
| true
|
dataset
|
10.3390_genes14061303
|
doi10.3390_genes14061303
|
Data Availability Statement Not applicable.
| false
| true
| false
|
dataset
|
10.1093_database_baad043
|
doi10.1093_database_baad043
|
Data availabilityGeniePool source code is available in the GitHub repository (https://github.com/geniepool).GeniePool web UI is available at: https://GeniePool.linkREST API is available using: http://api.geniepool.link/rest/index/$reference/$coordinates (with hg38/hg19 for reference and chr:start-end for coordinates, e.g. http://api.geniepool.link/rest/index/hg38/1:12345789-123456798). Further information and instructions regarding the API are available under the frequently asked questions (FAQ) section of the web UI.
| false
| true
| true
|
dataset
|
10.1038_s41598-021-81432-z
|
doi10.1038_s41598-021-81432-z
|
Data availability After signing a material transfer agreement, limited amounts of the monoclonal antibodies and bioconjugates herein described are available for evaluation purposes upon request to the corresponding author.
| false
| true
| false
|
dataset
|
10.1371_journal.pclm.0000290
|
doi10.1371_journal.pclm.0000290
|
Data Availability Statement: All datasets and code used here are available at the third-party repositories GitHub (https://bit.ly/3pvUkQI) and Open Science Framework (https://osf.io/gsjex/).
| false
| true
| true
|
dataset
|
10.1371_journal.pwat.0000127
|
doi10.1371_journal.pwat.0000127
|
Data Availability Statement: The original contributions presented in the study are publicly available. The data can be found at the following: Service provider data can be accessed at: https://database.ib-net.org/countries_results?ctry=29&years=2018&type=report&ent=country&mult=true&report=1&table=true&chart=false&chartType=column&lang=EN&exch=1. 2018 DHS data is available on application via the public repository: https://dhsprogram.com/methodology/survey/survey-display-542.cfm. Regulator data is openly available and can be extracted from the following report: https://www.nwasco.org.zm/index.php/media-center/publications/water-supply-and-sanitation-sector-reports. All code and publicly available data has been provided as supplementary materials to allow full transparency and replication of the analysis that has been undertaken.
| false
| true
| true
|
dataset
|
10.1038_s41598-023-32581-w
|
doi10.1038_s41598-023-32581-w
|
Data availabilityThe datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.
| false
| true
| false
|
dataset
|
10.1371_journal.pcbi.1011115
|
doi10.1371_journal.pcbi.1011115
|
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
| false
| true
| true
|
dataset
|
10.1101_gad.350434.123
|
doi10.1101_gad.350434.123
|
Data availability Sequencing data have been deposited in the Gene Expression Omnibus (GEO) under the accession code GSE228595. Scripts for data processing and analysis are available at https://github.com/albertdyu/BuTTSeq.
| false
| true
| true
|
dataset
|
10.1371_journal.pone.0215651
|
doi10.1371_journal.pone.0215651
|
Data Availability Statement The wind and water level data is open access provided by the Swedish Meteorological and Hydrological Institute, SMHI, through www.smhi.se. The grain size data is available through an FTP server with address www.tvrl.se/caf/ftp/Sieved_grain_size_samples.xlsx. Model code, input and results files will not be provided open access but can be made available upon request. Contact Caroline Hallin at Lund University, Sweden, at caroline.hallin@tvrl.lth.se. Topographic and bathymetric data cannot be shared publicly because it has not been collected by the authors and is not open access. The topographic data are available from Ängelholm municipality. Requests to access the data should be sent to info@engelholm.se. The bathymetric data is owned by the Swedish Geological Survey (SGU) and can only be accessed by researchers who meet the criteria for access to this confidential data. For more information on how to access the bathymetric data, contact kundservice@sgu.se. Since the authors are not in possession of the topographic and bathymetric data, we cannot guarantee that the organizations who own this data will make it available to other researchers. However, the observed volumetric changes that are presented in the manuscript are sufficient for calibration and validation of the model.
| false
| true
| true
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dataset
|
10.1038_s41467-023-38932-5
|
doi10.1038_s41467-023-38932-5
|
Data availabilityThe three-dimensional cryo-EM density maps have been deposited into the Electron Microscopy Data Bank under accession numbers EMD-28552. The coordinates are deposited into the Protein Data Bank with accession number 8ERC. This study also cited published structures 7F3X (chicken MBOAT5 in complex with lyso-PC) and 7F40 (chicken MBOAT5 in complex with arachidonyl-CoA). The raw TLC, gel and blot data generated in this study are provided in the Source Data file. Source data are provided with this paper.
| false
| true
| true
|
dataset
|
10.1088_1367-2630_ad11b7
|
doi10.1088_1367-2630_ad11b7
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files). Data will be available from 25 April 2023.
| false
| true
| false
|
dataset
|
10.1073_pnas.2301987120
|
doi10.1073_pnas.2301987120
|
Data, Materials, and Software AvailabilityThe data that support the findings of this study as well as the associated protocols are all presented in the paper. Bacterial strains and other reagents generated during the course of this study are available from the corresponding author upon reasonable request.
| false
| true
| true
|
dataset
|
10.1371_journal.pone.0284587
|
doi10.1371_journal.pone.0284587
|
Data Availability Statement Illumina reads are available as FASTQ files in the NCBI Sequence Read Archive (SRA) repository, accession PRJNA847933 (https://dataview.ncbi.nlm.nih.gov/object/PRJNA847933?reviewer=nac1b0jr7e3tb4r1hgtsbcej7s). The DNA sequences used for host strain identification are deposited into GenBank (accession numbers ON704174 - ON704629).
| false
| true
| true
|
dataset
|
10.1073_pnas.2300099120
|
doi10.1073_pnas.2300099120
|
Data, Materials, and Software Availability All study data are included in this article and/or SI Appendix.
| true
| true
| true
|
dataset
|
10
|
doi10
|
Data availability Source data underlying Figs. 1–4, Figs. 6–9 and Supplementary Figs. 6 and 7 are available as a Source Data file. All other data that support the findings of this study, the custom software used and the newly generated mouse lines will be made available upon request.
| false
| true
| true
|
dataset
|
10.1038_s41586-023-05870-7
|
doi10.1038_s41586-023-05870-7
|
Data availability All plasmids generated during this work (Supplementary Table 7) are available from Addgene. Sequencing reads are available from the Sequence Read Archive under BioProject ID PRJNA929529. Uncropped gel and immunoblot images can be found in Supplementary Fig. 1. Source data are provided with this paper. All additional data are available from the authors upon request.
| false
| true
| true
|
dataset
|
10.1007_s00114-023-01842-z
|
doi10.1007_s00114-023-01842-z
|
Data availabilityData are provided as electronic supplementary material.
| false
| true
| false
|
dataset
|
10.1088_1361-6595_ad0836
|
doi10.1088_1361-6595_ad0836
|
Data availability statementThe data cannot be made publicly available upon publication because no suitable repository exists for hosting data in this field of study. The data that support the findings of this study are available upon reasonable request from the authors.
| false
| true
| false
|
dataset
|
10.1088_1361-651x_ad041b
|
doi10.1088_1361-651x_ad041b
|
Data availability statementThe data cannot be made publicly available upon publication because they contain commercially sensitive information. The data that support the findings of this study are available upon reasonable request from the authors.
| false
| true
| false
|
dataset
|
10.7150_ijbs.74123
|
doi10.7150_ijbs.74123
|
Data Availability StatementGenerated Statement: The datasets analyzed in this manuscript are not publicly available. Requests to access the datasets should be directed to Yuming Huang, huangyuming@jsph.org.cn.
| false
| true
| true
|
dataset
|
10.1371_journal.pone.0229861
|
doi10.1371_journal.pone.0229861
|
Data Availability Statement Data cannot be shared publicly in order to protect participant confidentiality. All requests to review data that may include potential subject and/or patient identifiers will be reviewed by our University’s Privacy Office and Institutional Review Board to ensure adequate protection of subjects. Any dissemination approved by the University will be reviewed by a University honest data broker to ensure appropriate legal and ethical compliance with regulatory agencies. Requests for data should be addressed to Chris Harle at the University of Florida (charle@ufl.edu).
| false
| true
| false
|
dataset
|
10.1088_1361-6501_ad042c
|
doi10.1088_1361-6501_ad042c
|
Data availability statementThe data cannot be made publicly available upon publication because they are not available in a format that is sufficiently accessible or reusable by other researchers. The data that support the findings of this study are available upon reasonable request from the authors.
| false
| true
| false
|
dataset
|
10.1371_journal.pgen.1010763
|
doi10.1371_journal.pgen.1010763
|
Data Availability Statement Ros-2FM and Ros-2NM sequence reads are deposited at ENA under Accession PRJEB54033. Por-1SL, He-2SL and Ber-1SL raw sequence reads are deposited at ENA under Accession PRJEB43766. Jean-2NM, Vigo-1NM, Plou-2NM, Lou-2NM, Bria-1SL raw sequence reads are deposited at ENA under Accession PRJEB55328. RAD-seq reads for QTL mapping are deposited at ENA under Accession PRJEB55328. The CLUMA2.0 reference genome is available on the Open Research Data Repository of the Max Planck Society (EDMOND) (https://doi.org/10.17617/3.42NMN2). Results of the genome screens (Figs 3 and 4) are deposited on EDMOND (https://doi.org/10.17617/3.HUYLPR). All other data underlying the figures are given in Tables 1, S1, S2, S3, and S8.
| true
| true
| true
|
dataset
|
10.1371_journal.pone.0226037
|
doi10.1371_journal.pone.0226037
|
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
| false
| true
| true
|
dataset
|
10.1002_hbm.25667
|
doi10.1002_hbm.25667
|
DATA AVAILABILITY STATEMENT Data sharing is not applicable to this article as no new data were created or analyzed in this study.
| false
| true
| false
|
dataset
|
10.1371_journal.pone.0215622
|
doi10.1371_journal.pone.0215622
|
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
| false
| true
| true
|
dataset
|
10.1371_journal.ppat.1010981
|
doi10.1371_journal.ppat.1010981
|
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
| false
| true
| true
|
dataset
|
10.3390_genes14061279
|
doi10.3390_genes14061279
|
Data Availability Statement WGS sequence reads were submitted to the NCBI’s Bioproject database with the accession ID: PRJNA598939.
| true
| true
| false
|
dataset
|
10.1371_journal.pbio.3002514
|
doi10.1371_journal.pbio.3002514
|
Data Availability Statement: The GUIDE-seq raw sequencing reads are available at the Gene Expression Omnibus (GEO) under accession GSE229888
| false
| true
| false
|
dataset
|
10.1088_2515-7620_acf364
|
doi10.1088_2515-7620_acf364
|
Data availability statementThree datasets were used in this work and are openly available. JMA’s historical weather observation data are available at http://www.data.jma.go.jp/gmd/risk/obsdl/index.php. Electricity power supply from PV power-generating systems in each TDO can be accessed on the websites listed in table 10. Climate indexes of the SST in the Tropics are available from the JMA’s website at http://ds.data.jma.go.jp/tcc/tcc/products/elnino/index.html.
| false
| true
| false
|
dataset
|
10.3390_ijms241210191
|
doi10.3390_ijms241210191
|
Data Availability StatementThe data presented in this study are available on request from the corresponding author. The data are not publicly available due to privacy protection.
| false
| true
| false
|
dataset
|
10.1073_pnas.2108421118
|
doi10.1073_pnas.2108421118
|
Data Availability All study data are included in the article and/or SI Appendix.
| true
| true
| false
|
dataset
|
10.1186_s13071-020-04140-z
|
doi10.1186_s13071-020-04140-z
|
Availability of data and materials The dataset supporting the conclusions of this article is included within the article and its additional file.
| true
| true
| false
|
dataset
|
10.1016_j.esr.2022.101031
|
doi10.1016_j.esr.2022.101031
|
Data availabilityThe data that has been used is confidential.
| false
| true
| false
|
dataset
|
10.1088_2053-1591_acff3d
|
doi10.1088_2053-1591_acff3d
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1038_s41467-020-19516-z
|
doi10.1038_s41467-020-19516-z
|
Data availability Data have been deposited to Mendeley data and are available at: 10.17632/4m7z3gy5yc.1. All relevant data are available from the corresponding author. Source data are provided with this paper.
| false
| true
| false
|
dataset
|
10.1038_s41586-023-06427-4
|
doi10.1038_s41586-023-06427-4
|
Data availabilityAll data supporting the article, including the raw MINFLUX analysis output for each experimental condition, are provided as source data. Protein structures were obtained from RCSB Protein Data Bank (PIEZO1 6B3R, PIEZO1 7WLU and PIEZO2 6KG7) and the AlphaFold Protein Structure Database (PIEZO1 E2JF22). Raw data and all reagents not commercially available are available from the corresponding author upon reasonable request. Source data are provided with this paper.Code availabilityThe code for iPALM data pre-processing was previously published26 and is available at https://github.com/gleb-shtengel/PeakSelector. The custom MATLAB code for iPALM data analysis is available at 10.5281/zenodo.8017632. The custom MATLAB code for MINFLUX analysis is available at https://github.com/PatapoutianLab/MINFLUX_Piezo_Analysis.
| true
| true
| true
|
dataset
|
10.1084_jem.20221654
|
doi10.1084_jem.20221654
|
Data availability All data supporting the findings of this study are available within the paper or the supplementary materials and from the lead contact upon request. All original code used for epitope analysis has been deposited at Zenodo and is publicly available at https://doi.org/10.5281/zenodo.6360804. Further information and requests for reagents generated or used in this study are available upon request from the lead contact, Scheherazade Sadegh-Nasseri (ssadegh@jhmi.edu).
| false
| true
| true
|
dataset
|
10.3389/fpsyt.2020
|
doi10.3389/fpsyt.2020
|
DATA AVAILABILITY STATEMENT The datasets presented in this article are not readily available because participants aremostlyminors andit contains sensitive data.Therefore, the dataset is available on reasonable requests as deemed by the principal investigator of the study. Requests to access the datasets should be directed to BP, bjorn.philips@psychology.su.se.
| false
| true
| false
|
dataset
|
10.1186_s12903-020-1021-0
|
doi10.1186_s12903-020-1021-0
|
Availability of data and materialsThe datasets used and/or analysed during the current study are available from the corresponding author on reasonable request.
| false
| true
| false
|
dataset
|
10.1101_gad.350461.123
|
doi10.1101_gad.350461.123
|
Data availabilitySource data are provided with this article as Supplemental Material. The chemical shift assignments can be accessed as BMRB IDs 51786 and 51787. Additional data are available from the corresponding author on request.
| true
| true
| false
|
dataset
|
10.1371_journal.pmed.1004343
|
doi10.1371_journal.pmed.1004343
|
Data Availability Statement: The data underlying the results presented in the study are available from NHS England's Data Access Request Service https://dataaccessrequest.hscic.gov.uk/. HES data are managed and released by NHS Digital. The specific extract provided to the research team can only be used for the stated purpose of the study and for the length of time necessary to conduct the study. The extract cannot be shared outside of the research team or for any other purpose according to the legally binding terms under which they were released. Please see our privacy notice for further information on the purpose and legal basis of our use of these data: https://digital.nhs.uk/data-and-information/data-tools-and-services/data-services/hospital-episode-statistics. Access to HES data is available by direct application to NHS Digital and is available to anyone who has a legal basis for accessing these data, meets the requirements for safe and secure use of these data and intends to use these data for demonstrable benefit to health and social care in the UK. A full HES data dictionary, information of how to apply and the costs associated with data applications are available publicly via the NHS digital website: https://digital.nhs.uk. All diagnostic and procedure codes used to define specific study outcomes are provided in the supplementary online material released at time of publication. Aggregated data of the age, sex and deprivation specific post MI absolute risk of new onset disease (as presented in heat maps (Fig 5)) are available to explore freely via: https://multimorbidity-research-leeds.github.io/research-resources Anyone wishing to use these aggregate data to generate their own graphical summaries may do so providing full reference is given to this publication.
| false
| true
| true
|
dataset
|
10.1371_journal.pbio.3001585
|
doi10.1371_journal.pbio.3001585
|
Data Availability Statement All data, code, and the model derivation have been uploaded as main or supplemental files in this submission, or are available on Zenodo (https://zenodo.org/record/5519935).
| false
| true
| false
|
dataset
|
10.1088_1361-6552_acfebd
|
doi10.1088_1361-6552_acfebd
|
Data availability statementAll data that support the findings of this study are included within the article (and any supplementary files).
| false
| true
| false
|
dataset
|
10.1088_2515-7655_acdd9c
|
doi10.1088_2515-7655_acdd9c
|
Data availability statementThe data that support the findings of this study are openly available at the following URL/DOI: https://doi.org/10.5281/zenodo.8022111 [95].
| false
| true
| false
|
dataset
|
10.1371_journal.ppat.1012128
|
doi10.1371_journal.ppat.1012128
|
Data Availability Statement: Some of the data underlying the results presented in the study are parts of the degree theses for Jineui Kim and Chia-Ming Su, and their theses have been deposited to the University of Illinois Urbana-Champaign. The thesis for JK is fully accessible at https://www.ideals.illinois.edu/items/116355. The thesis for CMS contains some additional data unrelated to the current study, which be published in peer-reviewed journals. Once all chapters of the thesis are published, the entire thesis will fully be available without restriction. The University will release the entire thesis after August 2025 regardless of its publication. The CMS thesis is accessible at https://www.ideals.illinois.edu/items/128551.
| false
| true
| false
|
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