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135 results for “Coronavirus infection”
MHC class II genes mediate susceptibility and resistance to coronavirus infections in bats
<p>Understanding the immunogenetic basis of coronavirus (CoV) susceptibility in major pathogen reservoirs, such as bats, is central to infer their zoonotic potential. Members of the cryptic <em>Hipposideros</em> bat species complex differ in CoV susceptibility, but the underlying mechanisms remain unclear. The genes of the major histocompatibility complex (MHC) are the best understood genetic basis of pathogen resistance, and differences in MHC diversity are one possible reason for asymmetrical infection patterns among closely related species. Here, we aimed to link asymmetries in observed CoV (CoV-229E, CoV-2B, and CoV-2Bbasal) susceptibility to immunogenetic differences amongst four <em>Hipposideros</em> bat species. From the 2,072 bats assigned to their respective species using the mtDNA cytochrome b gene, members of the most numerous and ubiquitous species, <em>Hipposideros caffer</em> D, were most infected with CoV-229E and SARS-related CoV-2B. Using a subset of 569 bats we determined that much of the existent allelic and functional (i.e., supertype) MHC DRB class II diversity originated from common ancestry. One MHC supertype shared amongst all species, ST12, was consistently linked to susceptibility with CoV-229E, which is closely related to the common cold agent HCoV-229E, and infected bats with ST12 had a lower body condition. The same MHC supertype was connected to resistance to CoV-2B, and bats with ST12 were less likely be co-infected with CoV-229E and CoV-2B. Our work suggests a role of immunogenetics in determining CoV susceptibility in bats. We advocate for the preservation of functional genetic and species diversity in reservoirs as means of mitigating the risk of disease spillover.</p>
MHC class II genes mediate susceptibility and resistance to coronavirus infections in bats
Open the record for dataset details and reuse information.
Population-based age-stratified seroepidemiological investigation protocol for coronavirus 2019 (COVID-19) infection in the Federation of Bosnia and Herzegovina
<p>Results of population-based age stratified seroepidemiological investigation in the Federation of Bosnia and Herzegovina</p>
Pandemic Triage Score in Patients With Known or Suspected Severe Acute Respiratory Syndrome (SARS) CoronaVirus (CoV) 2 Infection
ClinicalTrials.gov study NCT04371471. IPD Sharing: YES. Countries: 1. Publications: 7.
Prevention of Infection and Incidence of COVID-19 in Medical Personnel Assisting Patients With New Coronavirus Disease
ClinicalTrials.gov study NCT04405999. IPD Sharing: NO. Countries: 1. Publications: 1.
Administration of Intravenous Vitamin C in Novel Coronavirus Infection (COVID-19) and Decreased Oxygenation
ClinicalTrials.gov study NCT04357782. IPD Sharing: NO. Countries: 1. Publications: 7.
Datasets of the study: "Describing variability in pig genes involved in coronavirus infections: towards a One Health perspective in conservation of animal genetic resources"
<p><strong>Dataset description</strong></p> <p>Sequencing data (*.bam files) of four pig genes (<em>ACE2</em>, <em>ANPEP</em>, <em>DPP4</em> and <em>TMPRSS2</em>)<em> </em>that can serve as receptors or protease for priming the infection of coronaviruses.</p> <p>The datasets are related to 22 European pig breeds and wild boars (Alentejana, AL; Apulo-Calabrese, AC; Basque, BA; Bísara, BI; Black Slavonian, BS; Casertana, CA; Cinta Senese, CS; Gascon, GA; Krškopolje, KR; Lithuanian Indigenous Wattle, LIW; Lithuanian White Old Type, LWOT; Majorcan Black, MB; Mora Romagnola, MR; Moravka, MO; Nero Siciliano, NS; Sarda, SA; Schwäbisch-Hällisches Schwein, SHS; Swallow-Bellied Mangalitsa, SBMA; Turopolje, TU; Italian Duroc, IDU; Italian Large White, ILW; Italian Landrace, ILA; Wild Boar, WB). This work took advantage of a study design developed within the Horizon 2020 TREASURE project.</p> <p>Each folder contains *.bam files and the related indexes *.bai. The name of the investigated breed and gene is part of the file name (e.g. ILW.ACE2.bam identifies the sequencing data related to the ACE2 gene in the Italian Large White pig breed). Details of sequencing and the bioinformatic pipeline are below reported.</p> <p><strong>Sequencing data</strong></p> <p>A total of 22 DNA pools were constructed from the European pig breeds and one DNA pool was constructed from European wild boars, including in each pool 30 or 35 individual DNA samples pooled at equimolar concentration. For the 22 DNA pools, libraries were prepared and fed into an Illumina HiSeq X Ten sequencer for paired-end sequencing, obtaining 150 bp length reads. The wild boar DNA pool was sequenced from 250 bp fragment libraries, with 100 bp long paired-end reads, on the BGISeq 500 platform, following the provider’s procedures.</p> <p><strong>Data processing</strong></p> <p>Reads that were obtained from the sequenced libraries were cleaned by removing adapter sequences and filtering out sequences presenting more than 10% unknown bases (N) and/or containing low-quality bases (Q ≤ 5) over 50% of the total sequenced bases. Then, filtered high-quality reads were mapped on the latest version of the <em>Sus scrofa</em> reference genome (Sscrofa11.1; https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/003/025/GCF_000003025.6_Sscrofa11.1/GCF_000003025.6_Sscrofa11.1_genomic.fna.gz) using the BWA-MEM algorithm v.0.7.17 and the parameters for paired-end data. Picard v.2.1.1 (https://broadinstitute.github.io/picard/) was used to remove duplicated reads. Whole sequence data are available in the EMBL-EBI European Nucleotide Archive (ENA) repository (http://www.ebi.ac.uk/ena), under the study accession PRJEB36830. </p> <p>Reads covering the four genes (ACE2: NC_010461.5:12094853-12156275; ANPEP: NC_010449.5:55346083-55378881; DPP4: NC_010457.5:68655849-68748818; TMPRSS2: NC_010455.5:204871561-204907561) were extracted with samtools v.1.7 and exported as aligned, sorted and indexed *.bam files. Gene length includes UTRs and flanking regions of 5 kbp upstream [flanking (5’-UTR)] and downstream [flanking (3’-UTR)].</p>
Using big sequencing data to identify chronic SARS-Coronavirus-2 infections
<p>This dataset supports the "Using big sequencing data to identify chronic SARS-Coronavirus-2 infections" publication in Nature Communications. </p><p>It contains the following files and folders:<br> </p><ul><li>Readme.txt - detailed information on all folders and files.</li><li>Supplementary Dataset 1</li><li>Supplementary Dataset 2</li><li>Supplementary Dataset 3</li><li>Supplementary Dataset 4</li><li>Supplementary Dataset 5</li><li>Supplementary Dataset 6</li><li>Supplementary Dataset 7</li></ul>
Population-based age-stratified seroepidemiological investigation protocol for coronavirus 2019 (COVID-19) infection in Kyrgyz Republic
<p>Results of population-based age stratified seroepidemiological investigation in Kyrgyzstan.</p>
Population-based seroepidemiological investigation for coronavirus 2019 (COVID-19) infection in Cox's Bazar Rohingya camps
<p>Population-based age stratified seroepidemiological investigation in Bangladesh</p>
Population-based Age-Stratified Seroepidemiological Investigation for Coronavirus 2019 (COVID-19) Infection in Indonesia
<p>Results of population-based age stratified seroepidemiological investigation in Indonesia</p>
Seroepidemiological survey of coronavirus 2019 (COVID-19) infection in the general population in Gabon
<p>Results of population-based age stratified seroepidemiological investigation in Gabon</p>
The influence of behavioral aspects on the formation of the value of assets during the period of coronavirus infection
<p>The dataset contains data on the dynamics of the industry indices of the Moscow Stock Exchange and the index IMOEX, the dynamics of macroeconomic factors, abnormal returns</p>
Coronavirus Infection in Primary or Secondary Immunosuppressed Children and Adults.
ClinicalTrials.gov study NCT04382508. IPD Sharing: NO. Countries: 1. Publications: 1.
Muscle Evaluation of Patients Infected by the Coronavirus
ClinicalTrials.gov study NCT05063214. IPD Sharing: YES. Countries: 1. Publications: 20.
Prospective Hospital Registry of Patients With Suspected or Confirmed Coronavirus Infection (COVID-19) and Community-acquired Pneumonia
ClinicalTrials.gov study NCT04522076. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Quality of Life and Physical Performance After Novel Coronavirus Infection (COVID-19);
ClinicalTrials.gov study NCT04375709. IPD Sharing: NO. Countries: 1. Publications: 23.
Clinical Study to Evaluate the Effect of Food Supplement in People Infected With Coronavirus
ClinicalTrials.gov study NCT05446961. IPD Sharing: NO. Countries: 1. Publications: 9.
Novel Coronavirus Infection and Reproductive Function
ClinicalTrials.gov study NCT05685992. IPD Sharing: UNDECIDED. Countries: 1. Publications: 15.
Follow-up and Rehabilitation of Survivors of Severe Coronavirus Disease 2019 (COVID-19) Infection
ClinicalTrials.gov study NCT04563156. IPD Sharing: NO. Countries: 1. Publications: 2.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.