Datasets:
dataesr
/
paragraph_classification_eval

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dataset
10.1038_s41598-022-05932-2
doi10.1038_s41598-022-05932-2
Data availability All ISI system code is deposited at https://github.com/haiderlab/ISI, and source data and analysis code to rep- licate the main results will be publicly available at DOI (https://doi.org/10.6084/m9.fgshare.16200711) upon publication.
false
true
true
dataset
10.1371_journal.pone.0255335
doi10.1371_journal.pone.0255335
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
false
true
true
dataset
10.1089_cmb.2022.0149
doi10.1089_cmb.2022.0149
AVAILABILITYIntOMICS is open source software written in R, under GPL-2, and available at https://bioconductor.org/packages/IntOMICS. The implementation relies on existing R packages.
false
true
true
dataset
10.1093_gbe_evad119
doi10.1093_gbe_evad119
Data AvailabilityNCBI accession numbers for all genes analyzed are provided in supplementary data file 1, Supplementary Material online. Alignments and trees used in positive selection analyses are provided in supplementary data file 2, Supplementary Material online. Genotypes for great ape species at the position of the rs2306894 human polymorphism were obtained from: https://www.biologiaevolutiva.org/greatape/data.html. For analyses of MelLec in human populations, the following links were used to download or access the relevant datasets:Sampling locations: https://www.internationalgenome.org/data-portal/population.HGDP Chr12: https://ngs.sanger.ac.uk/production/hgdp/hgdp_wgs.20190516/.1KG Chr12: http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/data_collections/1000G_2504_high_coverage/working/20201028_3202_phased/.Ancestral FASTA files for GRCh38 (homo sapiens ancestor GRCh38.tar.gz downloaded March 2023): https://ftp.ensembl.org/pub/current_fasta/ancestral_alleles/.eQTL analysis available from GTEx: https://gtexportal.org/home/snp/rs2306894.FST, Tajima's D, β(1) statistics, and statistics from linkage disequilibrium analysis are provided in supplementary data file 1, Supplementary Material online. AlphaFold-modeled CLEC12A CTLD structures can be found on figshare at: dx.doi.org/10.6084/m9.figshare.23535738.
false
true
true
dataset
10.1186_s12879-021-05907-0
doi10.1186_s12879-021-05907-0
Availability of data and materials All data is publically available through Google Trends and through The Behavioral Risk Factor Surveillance System (BRFSS).
false
true
false
dataset
10.3390_genes14061211
doi10.3390_genes14061211
Data Availability Statement The whole genome data used in this manuscript are available in the GenBank database under BioProject accession PRJNA416233, PRJEB10098, PRJEB10854, PRJNA168142, PRJNA205517, PRJNA230019, PRJNA233529, PRJNA288817 and PRJNA291776.
false
true
true
dataset
10.1038_s41590-023-01504-2
doi10.1038_s41590-023-01504-2
Data availability Raw and processed bulk, scRNA-seq and Visium data from mouse are available from the Gene Expression Omnibus under super series accession GSE202159. Human tumor scRNA-seq data are available at the Human Tumor Atlas Network (HTAN) data coordinating center web platform (https://humantumoratlas.org/). Source data are provided with this paper.
false
true
true
dataset
10.1155_2019_8132520
doi10.1155_2019_8132520
Data Availability The data used to support the findings of this study are available from the corresponding author upon request.
false
true
false
dataset
10.1186_s12884-019-2192-z
doi10.1186_s12884-019-2192-z
Availability of data and materialsQualified researchers may request access to patient-level data and related study documents including the clinical study report, study protocol with any amendments, blank case report form, statistical analysis plan, and dataset specifications. Patient level data will be anonymized and study documents will be redacted to protect the privacy of trial participants. Further details on Sanofi’s data sharing criteria, eligible studies, and process for requesting access can be found at: https://www.clinicalstudydatarequest.com.
false
true
false
dataset
10.1371_journal.pone.0244962
doi10.1371_journal.pone.0244962
Data Availability Statement Data cannot be shared publicly because of this was not permitted by the consent form signed by participants. Data are available from the Keller-Lamar Health Foundation (info@keller-lamar.org) for researchers who can provide evidence of IRB approval for access.
false
true
false
dataset
10.1186_s40168-023-01519-9
doi10.1186_s40168-023-01519-9
Availability of data and materials The raw data in this study is from reference [3]. All analyzed data in this study is available in Additional file 3. The source code is available at https://github.com/Neina-0830/WWTP_community_prediction.
false
true
true
dataset
10.1371_journal.pwat.0000137
doi10.1371_journal.pwat.0000137
Data Availability Statement Data have been uploaded to Zenodo 10.5281/zenodo.7447637.
false
true
false
dataset
10.1038_s41467-021-24130-8
doi10.1038_s41467-021-24130-8
Data availabilitySingle-cell RNA-seq data files are available in “GSE151337”. All other relevant data supporting the key findings of this study are available within the article and its Supplementary Information files or from the corresponding author upon reasonable request. A reporting summary for this article is available as a Supplementary Information file. Source data are provided with this paper.Code availabilityCodes used in this analysis were deposited onto GitHub: 10.5281/zenodo.4743036.
false
true
true
dataset
10.1371_journal.pone.0254310
doi10.1371_journal.pone.0254310
Data Availability Statement All data are public and available on the Brazilian Institute of Geography and Statistics website (www.ibge.gov.br).
false
true
false
dataset
10.1111_eva.13529
doi10.1111_eva.13529
DATA AVAILABILITY STATEMENT Sequence data are hosted at the SRA under BIOPROJECT SUB10359598. Plasmids, ancestor, and mutator clones are avail- able on request. Evolved mutants can be shared subject to Material Transfer Agreements. Experimental data are available at Zenodo with a permanent doi: 10.5281/zenodo.7503995.
false
true
false
dataset
10.15252_embj.2022112118
doi10.15252_embj.2022112118
Data availability The data that support the findings of this study are available from the corresponding author. RNA-sequencing data have been deposited in GEO under accession number (GSE215951; http:// www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE215951).
false
true
true
dataset
10.1371_journal.pntd.0007072
doi10.1371_journal.pntd.0007072
Data Availability Statement All relevant data are within the paper and its Supporting Information files.
false
true
false
dataset
10.1088_1361-6501_ad095a
doi10.1088_1361-6501_ad095a
Data availability statementThe data cannot be made publicly available upon publication because they are owned by a third party and the terms of use prevent public distribution. The data that support the findings of this study are available upon reasonable request from the authors.
false
true
false
dataset
10.1016_j.enpol.2022.113313
doi10.1016_j.enpol.2022.113313
Data availabilityThe data that has been used is confidential.
false
true
false
dataset
10.1038_s42255-023-00774-2
doi10.1038_s42255-023-00774-2
Data availability All data generated or analysed during this study are included in the article and its Supplementary Information. Results of the ORFeome, the CRISPR–Cas9 and the PRISM screens are available in Supplementary Table 1. Data from the Cancer Cell Line Encyclopedia are available at https://depmap.org/portal/. Source data are provided with this paper.
false
true
true
dataset
10.1371_journal.pcbi.1010923
doi10.1371_journal.pcbi.1010923
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files. RNA-seq of samples of human left ventricle heart, left atrial appendage, aorta, tibial arteries, and coronary arteries were downloaded from the GTEx project [29] via dbGaP (phs000424.v8.p2). In addition, we downloaded RNA-seq datasets of dilated cardiomyopathy (DCM), ischemic cardiomyopathy (ICM), and controls (SRA database, accession code GSE116250) [40]. The ribosome profiling dataset of DCM patients was downloaded from the SRA database (GSE131111) [47]. finally, we downloaded additional RNA-seq datasets of ICM from the left and right ventricles of left-sided heart failure, biventricular heart failure, and controls (SRA database accession code GSE120852) [65]. Tables with raw data used for figure plotting can be found in S4 Table.
false
true
true
dataset
10.1007_s43076-022-00253-9
doi10.1007_s43076-022-00253-9
Data Availability Data not available due to ethical restrictions.Due to the nature of this research, partici- pants of this study did not agree for their data (whole transcripts) to be shared publicly. However, some supporting material concerning the data analysis process will be available for both reviewers and readers.
false
true
false
dataset
10.7554_elife.88204
doi10.7554_elife.88204
Data availability The 3D cryo-EM density maps have been deposited in the Electron Microscopy Data Bank under the accession number EMD-29861. Atomic coordinates for the atomic model have been deposited in the Protein Data Bank under the accession number 8G94. All other data needed to evaluate the conclusions in the paper are present in the paper and/or the supplementary materials. The following datasets were generated: ChenHLiX2023Structure of CD69-bound S1PR1 coupled to heterotrimeric GiRCSB Protein Data Bank8G94 ChenHLiX2023Structure of CD69-bound S1PR1 coupled to heterotrimeric GiEMBDEMD-29861
false
true
true
dataset
10.1016_j.jbc.2023.105073
doi10.1016_j.jbc.2023.105073
Data availabilityAll relevant data are contained within the main article or supplemental information. Please email rsh@uthscsa.edu with requests for raw data or reagents.
false
true
false
dataset
10.1038_s41598-019-40420-0
doi10.1038_s41598-019-40420-0
Data Availability ESBL or carbapenemase gene sequence data that support the findings of this study have been deposited into GenBank with the accession numbers listed in Table 1. The data that support the descriptive statistical analyses of sample characteristics and resistance gene presence are available from the corresponding author upon reasonable request.
false
true
true
dataset
10.1088_1748-605x_acf90a
doi10.1088_1748-605x_acf90a
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_s41398-023-02450-1
doi10.1038_s41398-023-02450-1
Data availabilityThe source data can be available from the corresponding authors on reasonable request.
true
true
false
dataset
10.1126_sciadv.adg1671
doi10.1126_sciadv.adg1671
Data and materials availability: All data are available in the main text and/or the Supplementary Materials. The raw FASTQ files of the scRNA-seq and the processed files (output from CellRanger) are accessible through GEO (accession number: GSE224031). The code for data analyses is available on figshare (doi: 10.6084/m9.figshare.22490956) and via the link: https://figshare.com/s/ca568d8f44d020cb6389.
true
true
true
dataset
10.1371_journal.ppat.1012032
doi10.1371_journal.ppat.1012032
Data Availability Statement: All relevant data are within the manuscript and its Supporting Information files
false
true
true
dataset
10.1111_jcmm.15814
doi10.1111_jcmm.15814
DATA AVAILABILITY STATEMENT The data that support the findings of this study are available on request from the corresponding author. The data are not publicly available due to privacy or ethical restrictions.
false
true
false
dataset
10.1371_journal.pone.0285473
doi10.1371_journal.pone.0285473
Data Availability Statement All relevant data are available at: https://www.ebi.ac.uk/biostudies/studies/S-BSST1078.
false
true
false
dataset
10.1088_2752-5295_acc08a
doi10.1088_2752-5295_acc08a
Data availability statementThe data that support the findings of this study are available upon request from the authors.
false
true
false
dataset
10.1038_s41586-023-06157-7
doi10.1038_s41586-023-06157-7
Data availabilityThe authors declare that the data supporting the findings of this study are available within the paper and its supplementary information files. Sequencing data are available from the Sequencing Read Archive under BioProject identifiers PRJNA602546 and PRJNA867730. The raw data and all other datasets generated in this study are available from the corresponding authors upon reasonable request. Source data are provided with this paper.Code availabilityScripts and pipelines used for all sequencing data analysis and for image analysis are available at the GitHub online repository (https://github.com/chengzhongzhangDFCI/nature2023)47.
true
true
true
dataset
10.1038_s41467-022-29759-7
doi10.1038_s41467-022-29759-7
Data availability The data generated in this study have been deposited in the figshare database under the accession code: https://doi.org/10.6084/m9.figshare.17026607.v1. Code availability Code used to analyse data in this manuscript are available from the corresponding author upon reasonable request.
false
true
true
dataset
10.1186_s12875-021-01601-x
doi10.1186_s12875-021-01601-x
Availability of data and materials All major data generated or analysed during this study are included in this published article. Additional information can be provided on request.
false
true
false
dataset
10.1371_journal.pgen.1010804
doi10.1371_journal.pgen.1010804
Data AvailabilityAll the relevant data are within the manuscript and its Supporting Information files.
false
true
true
dataset
10.1126_science.adg7883
doi10.1126_science.adg7883
Data and materials availability: The cryo-EM map has been deposited in the Electron Microscopy Data Bank with accession code EMD-40033. The coordinates for the atomic model have been deposited in the Protein Data Bank with accession code 8GH6. The raw cryo-EM data have been deposited in EMPIAR with accession code EMPIAR-11458.
true
true
true
dataset
10.2196_39479
doi10.2196_39479
Data Availability Statement The data supporting the findings of this study are available from the corresponding author upon reasonable request.
false
true
false
dataset
10.1088_2050-6120_acf97b
doi10.1088_2050-6120_acf97b
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.pone.0238646
doi10.1371_journal.pone.0238646
Data Availability Statement All relevant data are within the paper.
false
true
false
dataset
10.3389_fphy.2022.1005333
doi10.3389_fphy.2022.1005333
Data availability statement Publicly available datasets were analyzed in this study. This data can be found here: https://inspirehep.net.
false
true
false
dataset
10.1371_journal.pcbi.1011928
doi10.1371_journal.pcbi.1011928
Data Availability Statement: Code can be downloaded from https://git.exeter.ac.uk/mv286/hormonebayes.
false
true
true
dataset
10.1088_1367-2630_ad121c
doi10.1088_1367-2630_ad121c
Data availability statementAll data that supports the findings of this study are included within the article.
false
true
false
dataset
10.1088_1361-665x_acf970
doi10.1088_1361-665x_acf970
Data availability statementThe data that support the findings of this study are available upon reasonable request from the authors.
false
true
false
dataset
10.1186_s40478-022-01399-4
doi10.1186_s40478-022-01399-4
Availability of data and materials The datasets that were used and analyzed during the current study are avail‐ able from the corresponding author on reasonable request.
false
true
false
dataset
10.1371_journal.pone.0267316
doi10.1371_journal.pone.0267316
Data Availability Statement Data were submitted to European Bioinformatic Institute, EBI (https://www.ebi.ac.uk/). The accession was assigned as ArrayExpress accession E-MTAB-11136. Additionally, this information is available as a footnote in Tables 2 and 3 of the manuscript.
false
true
true
dataset
10.1371_journal.pone.0227835
doi10.1371_journal.pone.0227835
Data Availability Statement: All serum biomarker values, imaging analysis results, and appropriate demographic data files are available via Open Science Framework: DOI 10.17605/OSF.IO/92ERQ.
false
true
false
dataset
10.1371_journal.pone.0283603
doi10.1371_journal.pone.0283603
Data Availability Statement All relevant data are within the paper and its Supporting information files.
false
true
false
dataset
10.7554_elife.80854
doi10.7554_elife.80854
Data availabilitySource files of all original gels and Western Blots were provided for the following figures: Figure 1—figure supplement 2B; Figure 4—figure supplement 1A, C, D, E; Figure 5—figure supplement 2B, F, G. RNA sequencing and ChIP sequencing data files that support the findings of this study have been deposited in the Gene Expression Omnibus under the accession code GSE85055, as well as in the Dryad digital repository (doi:10.5061/dryad.7pvmcvdwm; doi:10.5061/dryad.f1vhhmh0h). Sequences of sgRNAs, shRNAs, and primers used in this manuscript are included in the Supplementary File 1.
false
true
true
dataset
10.1371_journal.pstr.0000097
doi10.1371_journal.pstr.0000097
Data Availability Statement: We have no data to report.
true
true
false
dataset
10.1371_journal.pone.0287011
doi10.1371_journal.pone.0287011
Data Availability Statement All relevant data are within the paper and its Supporting information files.
false
true
false
dataset
10.1371_journal.pone.0286598
doi10.1371_journal.pone.0286598
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
false
true
true
dataset
10.1093_cvr_cvab085
doi10.1093_cvr_cvab085
Data availability The data underlying this article will be shared on reasonable request to the corresponding author.
false
true
false
dataset
10.1007_s00220-023-04637-5
doi10.1007_s00220-023-04637-5
Data Availability Data sharing not applicable to this article as no datasets were generated or analysed during the current study.
false
true
false
dataset
10.1038_s41467-023-37945-4
doi10.1038_s41467-023-37945-4
Data availability Whole genome bisulfite sequencing data are available at GenBank/NCBI under accession number GSE182212. RNA-sequencing data are available at GenBank / NCBI under accession number PRJNA780766. All other data are available as Source Data files as part of this publication. Source data are provided with this paper.
false
true
true
dataset
10.1186_s12870-023-04147-5
doi10.1186_s12870-023-04147-5
Availability of data and materialsThe datasets generated and/or analyzed during the current study are available in the NCBI repository, [ https://www.ncbi.nlm.nih.gov/bioproject/906276] [Accession number: PRJNA906276].
false
true
false
dataset
10.1073_pnas.2221415120
doi10.1073_pnas.2221415120
Data, Materials, and Software AvailabilityMatlab code and data have been deposited in Zenodo repositories (86, 87).
true
true
true
dataset
10.1371_journal.pone.0251004
doi10.1371_journal.pone.0251004
Data Availability Statement All data files are available from the Open Science Framework (OSF) database. URL: https://osf.io/2zty9/.
false
true
false
dataset
10.1371_journal.pgph.0001789
doi10.1371_journal.pgph.0001789
Data Availability Statement The data presented here are from the Low Birthweight Infant Feeding Exploration (LIFE) study which is filed with Clinicaltrials.gov NCT04002908 and Clinical Trial Registry of India CTRI/2019/02/017475. De-identified individual participant data (including data dictionaries) will be made available, in addition to study protocols, and the informed consent form in a public, open access repository. The data will be made available upon publication through the Harvard Dataverse Platform under the BetterBirth Dataverse website. This can be found at: https://dataverse.harvard.edu/dataverse/BetterBirthData
false
true
false
dataset
10.1371_journal.pone.0245201
doi10.1371_journal.pone.0245201
Data Availability Statement All sequences are available from the GenBank database (accession number: MN816222, MN816223, MN816224, MN816225, MN816226, MN814829, MN814830, MN814831, MT012386 and MT012387). Other relevant data are within the paper and its Supporting Information files.
false
true
false
dataset
10.1088_1361-6501_ad180f
doi10.1088_1361-6501_ad180f
Data availability statementThe data cannot be made publicly available upon publication due to legal restrictions preventing unrestricted public distribution. The data that support the findings of this study are available upon reasonable request from the authors.
false
true
false
dataset
10.1371_journal.pone.0260153
doi10.1371_journal.pone.0260153
Data Availability Statement Data cannot be shared publicly because to do so could potentially identify our study participants and individual healthcare facilities, and assurances were given to respondents that any publication would not do so. Requests for access to the data underlying our findings will be considered by the National Ethical Committee of Public Health/CNES South Kivu province, and should be addressed to Prof Kitoka Moke at kitoka02@yahoo.fr.
false
true
false
dataset
10.1371_journal.pone.0270817
doi10.1371_journal.pone.0270817
Data Availability Statement All relevant data are within the paper and its Supporting Information files.
false
true
false
dataset
10.1371_journal.pntd.0011435
doi10.1371_journal.pntd.0011435
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
false
true
true
dataset
10.1088_1402-4896_ad03bf
doi10.1088_1402-4896_ad03bf
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
10.1038_s41593-023-01332-5
doi10.1038_s41593-023-01332-5
Data availability Data from this study are available at https://github.com/axellaboratory/Cury_and_Axel_2023 and upon request. Trained pose estimation models and the supervised behavioral classifier can be accessed via Dropbox (https://www.dropbox.com/sh/jh4422f3ld95j1a/AAAHVb-pFsmcEk40BgSHm1TEa?dl=0).
false
true
true
dataset
10.1038_s41598-019-41663-7
doi10.1038_s41598-019-41663-7
Data Availability The datasets generated during and/or analyzed during the current study cannot be publicly available because they are owned by Yamagata Municipalities Mutual Aid Association and Sports Medical Research Center, Keio University. Please ask Sports Center of Keio University about data availability (http://sports.hc.keio.ac.jp/ja/).
false
true
false
dataset
10.1186_s13071-020-3970-1
doi10.1186_s13071-020-3970-1
Availability of data and materialsThe RNA-seq data obtained in this study were deposited in the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) database (https://www.ncbi.nlm.nih.gov/sra) under accession number SUB6209220.
false
true
false
dataset
10.1038_s41467-023-38328-5
doi10.1038_s41467-023-38328-5
Data availability The raw data from the prospective study, the raw scores of the retrospective analysis, the input structures and benchmarking scores for the efficiency study, and the raw data from the biolayer interferometry measurements are available at the following repository hosted by the Institute for Protein Design: The main supplement (136 MB) Contains these files: design_models_final_combo_optimized/ design_models_sequence/ design_models_ssm_natives/ design_stats/ dna_production_scripts/ figure_data/ ngs_analysis_scripts/ files.ipd.uw.edu/pub/improving_dl_binders_2023/supplemental_files/scripts_and_main_pdbs.tar.gz Experimental data and data derived from that data (155 MB) Contains these files: ngs_data/ ngs_data_analysis/ files.ipd.uw.edu/pub/improving_dl_binders_2023/supplemental_files/experimental_data_and_analysis.tar.gz All ordered proteins in.pdb.gz format: (~100 K files; 15 GB) Contains these files: design_models_pdbs/ files.ipd.uw.edu/pub/improving_dl_binders_2023/supplemental_files/design_models_pdb.tar.gz All ordered proteins in Rosetta binary silent format (6.1 GB) Contains these files: design_models_silent/ files.ipd.uw.edu/pub/improving_dl_binders_2023/supplemental_files/design_models_silent.tar.gz The docks we used for the efficiency benchmark (6.1 GB) Contains these files: efficiency_benchmark_docks/ files.ipd.uw.edu/pub/improving_dl_binders_2023/supplemental_files/efficiency_benchmark_docks.tar.gz. Source data are provided with this paper.
false
true
true
dataset
10.1523_eneuro.0144-22.2022
doi10.1523_eneuro.0144-22.2022
Code accessibility The code is included as Extended Data 1 and is available at https://github.com/tsmanning/bayesIdealObserverMoG.
false
true
true
dataset
10.3389_fimmu.2021.689397
doi10.3389_fimmu.2021.689397
DATA AVAILABILITY STATEMENT The raw data supporting the conclusions of this article will be made available by the authors, without undue reservation.
false
true
false
dataset
10.1038_s41467-023-36872-8
doi10.1038_s41467-023-36872-8
Data availability Source data are provided within this paper. Raw data that support the findings of this study are available from the corresponding author upon request. Source data are provided with this paper.
false
true
false
dataset
10.1371_journal.pone.0283491
doi10.1371_journal.pone.0283491
Data Availability Statement Data cannot be shared publicly because we have used third-party data from National Health Insurance Service, and are not entitled to share the data. Data are available from the Review Board of National Health Insurance Service (contact via NHIS) for researchers who meet the criteria for access to confidential data. Anyone who conducts a joint study with a Korean researcher can access NHIS for customized health information data. Applications for data are available through National Health Insurance Data Sharing website (https://nhiss.nhis.or.kr/bd/ab/bdaba000eng.do), and additional information can be found at a customized health information data webpage (https://nhiss.nhis.or.kr/bd/ab/bdaba032eng.do).
false
true
true
dataset
10.1371_journal.pone.0222639
doi10.1371_journal.pone.0222639
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
false
true
true
dataset
10.1371_journal.pone.0240995
doi10.1371_journal.pone.0240995
Data Availability Statement The medical ethical technical committee of Erasmus MC did not grant permission to publish these data due to ethical considerations and the sensitivity of the data. Data are however available from the Erasmus MC upon reasonable request. Contact person: Dr. Juliëtte Severin, Infection prevention and control (IPC) and antimicrobial resistance (AMR) (Data Access) E-mail: info.microbiologie.infectieziekten@erasmusmc.nl.
true
true
false
dataset
10.1126_scitranslmed.adh9917
doi10.1126_scitranslmed.adh9917
Data and Materials Availability:All data associated with this study are in the paper or supplementary materials. All reasonable requests for materials to the corresponding author will be fulfilled. The VirScan library is available from S.J.E. under a material transfer agreement with the Brigham and Women’s Hospital.
true
true
false
dataset
10.1088_1748-3190_ad0dae
doi10.1088_1748-3190_ad0dae
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
10.1371_journal.pdig.0000457
doi10.1371_journal.pdig.0000457
Data Availability Statement: Data from this study has been made available as supplementary information.
false
true
false
dataset
10.1371_journal.pone.0221212
doi10.1371_journal.pone.0221212
Data Availability Statement All relevant data for reproducing indicators are within the paper and the Supporting Information files. All these data have been downloaded from https://www.scival.com/ under provision of the institutional standard contract held by University of Siena. Authors did not have any special access privileges to SCIVAL. Interested researchers may access Scival in the same way the authors did.
false
true
false
dataset
10.1371_journal.pntd.0011960
doi10.1371_journal.pntd.0011960
Data Availability Statement: The authors confirm that all data underlying the findings are fully available without restriction. All relevant data are within the paper and its Supporting information files.
false
true
false
dataset
10.1088_1361-6463_ad005f
doi10.1088_1361-6463_ad005f
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 The datasets, code for generating all figures, and Supplementary figures can be found at https://github.com/AndersenLab/swept_ broods. Supplementary File S1 contains the haplotype data of 403 C. elegans isotypes from CeNDR release 20200815. Supplementary File S2 contains genetic relatedness of 403 C. elegans isotypes. Supplementary File S3 contains lifetime fecundity of 121 C. ele- gans strains, their classification of swept strains and divergent strains, and the assay blocks of these strains. Supplementary File S4 contains daily fecundity and daily intrinsic growth rate of 121 C. elegans strains. Supplementary File S5 contains GWA results on lifetime fecundity of 121 C. elegans strains. Supplementary File S6 contains genotype and phenotype data of 121 C. elegans strains at the peak markers of GWA mapping. Supplementary File S7 con- tains the sampling locations of 121 C. elegans strains. Supplementary File S8 contains the GPS coordinates of sampling locations of 121 C. elegans strains. Supplementary File S9 contains lifetime fecundity and swept and divergent classifications of each of the four swept chromosomes for each of the 121 C. elegans strains. Supplementary File S10 contains LD results among the three QTL of GWA using 121 C. elegans strains. Supplementary File S11 contains the shared haplotypes of the 121 strains within the QTL of GWA mapping. Supplementary File S12 contains GWA results on fecundity data of 236 strains from a previous study (Hahnel et al. 2018). Supplementary File S13 contains genotype G. Zhang, J. D. Mostad, and E. C. Andersen | 3 and phenotype data of 236 strains at the peak marker of GWA mapping. Supplementary File S14 contains the shared haplotypes of the 236 strains within the QTL of GWA mapping. Supplementary File S15 contains the linkage mapping results for the 402 RIAILs in 1% water condition. Supplementary File S16 contains genotype and phenotype data of the 402 RIAILs at the peak markers and phenotype data of the parents in linkage map- ping results. Supplementary File S17 contains the linkage map- ping results for the 417 RIAILs in 1% DMSO condition. Supplementary File S18 contains genotype and phenotype data of the 417 RIAILs at the peak markers and phenotype data of the parents in linkage mapping results. Supplementary File S19 con- tains the linkage mapping results for the 432 RIAILs in 0.5% DMSO condition. Supplementary File S20 contains genotype and phenotype data of the 432 RIAILs at the peak markers and pheno- type data of the parents in linkage mapping results.
false
true
true
dataset
10.1038_s41477-023-01439-4
doi10.1038_s41477-023-01439-4
Data availabilityImage data are available at http://neomorph.salk.edu/downloads/phytomap/. Sequences of all the DNA probes used in this study are provided in Supplementary Table 2. Processed and annotated scRNA-seq data is available at the Gene Expression Omnibus (GSE152766).Code availabilityThe code to analyse PHYTOMap data is available at https://github.com/tnobori/PHYTOMap.
false
true
true
dataset
10.1088_1478-3975_acf5bd
doi10.1088_1478-3975_acf5bd
Data availability statementThe data cannot be made publicly available upon publication because the cost of preparing, depositing and hosting the data would be prohibitive within the terms of this research project. The data that support the findings of this study are available upon reasonable request from the authors.
false
true
false
dataset
10.1126_sciadv.adh0411
doi10.1126_sciadv.adh0411
Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials.
true
true
false
dataset
10.1038_s41586-023-06271-6
doi10.1038_s41586-023-06271-6
Data availabilityAll calcium imaging and fly behaviour time-course datasets analysed in the main figures are available on DANDI archive (calcium imaging data, 000247; fly choice tracking data, 000212; fly behavioural sequence tracking data, 000250). Technical documents (for example, CAD files and plasmid maps) and source data for all scatter plots and histograms are available on Figshare (10.6084/m9.figshare.c.6505732).Code availabilityScripts for data processing and plotting are available on request.
false
true
true
dataset
10.1038_s41467-023-38867-x
doi10.1038_s41467-023-38867-x
Data availabilityComplete genome sequences for the viral isolates cultured from nasal swabs (BA.1 and BA.1.23) are available in GenBank (accession numbers ON220548, ON220539, ON196014, ON193425, ON220529, ON220571, ON220533, ON934538, ON934577, ON934030, ON934607, ON854465, ON619382). RNA-seq data are available in the Sequence Read Archive (SRA), submission SUB12865927 under BioProject number PRJNA623586 (BioSample accession numbers SAMN33273632 - SAMN33273655). Datasets generated and/or analysed during the current study are appended as supplementary data. Source data are provided with this paper.Code availabilityThe vRAPID pipeline was developed for reference-based viral genome assembly of short-read sequencing data. The custom code is at vRAPID [https://zenodo.org/record/7829342].
false
true
true
dataset
10.1126_sciadv.adi3088
doi10.1126_sciadv.adi3088
Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials. The data for this study have been deposited in the database: https://doi.org/10.5281/zenodo.8161407.
true
true
false
dataset
10.3390_s22093318
doi10.3390_s22093318
Data Availability StatementNot applicable.
false
true
false
dataset
10.1371_journal.pone.0255090
doi10.1371_journal.pone.0255090
Data Availability Statement All relevant data are within the paper and its Supporting Information files.
false
true
false
dataset
10.1371_journal.pone.0261838
doi10.1371_journal.pone.0261838
Data Availability Statement All relevant data are within the manuscript and its Supporting information files.
false
true
true
dataset
10.1016_j.celrep.2023.112621
doi10.1016_j.celrep.2023.112621
Data and code availability Cryo-EM maps and atomic models have been deposited at the Electron Microscopy DataBank and the Protein DataBank under the following accession codes: EMD: EMD-26058 and PDB: 7TPK (SARS-CoV-2 E406W RBD) and EMD: EMD-26056 and PDB: 7TPI (SARS-CoV-2 E406W Ectodomain). This paper does not report original code. Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.
false
true
true
dataset
10.1186_s13071-019-3601-x
doi10.1186_s13071-019-3601-x
Availability of data and materials All data generated or analysed during this study are included in this published article. The datasets used and/or analysed during the present study available from the corresponding author upon reasonable request.
false
true
false
dataset
10.1371_journal.pgph.0001413
doi10.1371_journal.pgph.0001413
Data Availability Statement The data supporting the results of this study are available within the article and the accompanying Supplementary material. The metadata described in this article are available in the Open Science Framework at http://osf.io/xec69.
false
true
false
dataset
10.1002_acn3.51270
doi10.1002_acn3.51270
Data availability statement Deidentified data related to this study will be made available from the corresponding author upon request.
false
true
false
dataset
10.1038_s41467-023-40788-8
doi10.1038_s41467-023-40788-8
Data availabilityThe NCBI non-redundant protein sequences (nr) database can be found at https://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastp&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome. All other data supporting the findings of this study are available within the paper and its Supplementary Information. Source data are provided with this paper.
false
true
true
dataset
10.1088_1402-4896_ad0f84
doi10.1088_1402-4896_ad0f84
Data availability statementNo new data were created or analysed in this study.
false
true
false
dataset
10.1186_s12889-023-15729-1
doi10.1186_s12889-023-15729-1
Availability of data and materials The datasets used during the current study are available from the corresponding author on reasonable request.
false
true
false
dataset
10.1088_1748-9326_ad13b7
doi10.1088_1748-9326_ad13b7
Data availability statementThe NSIDC ice age version 4.1 (V4.1) data is freely distributed at https://nsidc.org/data/nsidc-0611/versions/4. The NSIDC ice motion V4.1 and sea ice concentration V1.1 products are used for the sea ice budget analyses and can be downloaded at https://nsidc.org/data/nsidc-0116/versions/4 and https://nsidc.org/data/nsidc-0051/versions/1, respectively. Open access monthly oceanic and atmospheric reanalysis: ORAS5 (www.copernicus.eu/en/access-data/copernicus-services-catalogue/reanalysis-oras5), ERA5 (www.ecmwf.int/en/forecasts/datasets/browse-reanalysis-datasets), NCEP/DOE R2 (https://psl.noaa.gov/data/gridded/data.ncep.reanalysis2.html). All data were accessed 18 August 2023. All data that support the findings of this study are included within the article (and any supplementary files).
false
true
true
dataset
10.1371_journal.pone.0247356
doi10.1371_journal.pone.0247356
Data Availability Statement All relevant data are within the manuscript and its Supporting Information files.
false
true
true