Skip to main content
Swedish Pathogens Portal SciLifeLab

Data repositories

Resources where users can both access and submit data.

AI4Life BioImage Model Zoo
AI4Life BioImage Model Zoo
A collaborative effort to bring artificial intelligence models to the bioimaging community.
Array Express
Array Express
ArrayExpress is an archive of functional genomics data, such as gene expression or DNA methylation profiling data. The data is open for reuse by the research community.
BioImage archive
BioImage archive
A free, publicly available online resource that stores and distributes biological images. It accepts submissions of data from any imaging modality.
BioModels
BioModels
A repository of mathematical models related to biological and biomedical system. It contains many literature-based physiologically and pharmaceutically relevant mechanistic models.
BioSamples
BioSamples
BioSamples stores and supplies metadata for a large number of biological samples used in research and development. The samples are either 'reference' samples or samples used in an assay database.
BioStudies
BioStudies
Includes descriptions of biological studies, and links data from them to other databases and data that does not fit in structured archives. Accepts a wide range of studies, and supplementary information.
ClinVar
ClinVar
The primary site for the deposition and retrieval of variant data and annotations from individual submitters. It helps with explorations of how genomic variation is related to human health.
DECIPHER
DECIPHER
An interactive database that includes a suite of tools related to the interpretation of genomic variants. It contains data from around 50k patients that have given consent for broad data sharing.
Dryad Digital Repository
Dryad Digital Repository
A general purpose repository for data underlying scientific and medical publications. Over 100,000 datasets have been made available.
Electron Microscopy Data Bank
Electron Microscopy Data Bank
A public repository for cryoEM and representative tomograms of macromolecular complexes and subcellular structures. Multiple different techniques are covered.
Electron Microscopy Public Image Archive
Electron Microscopy Public Image Archive
A public resource for raw electron microscopy images. Includes images underpinning 3D cryo-EM maps and tomograms, as well as 3D datasets generated using volume EM techniques and X-ray tomography.
European Genome-phenome Archive
European Genome-phenome Archive
A service for permanently archive and share personally identifiable genetic, phenotypic, and clinical data generated for biomedical research or for research-focused healthcare systems.
European Nucleotide Archive
European Nucleotide Archive
An open, global data resource for nucleotide sequences, including raw sequence data, alignments, and assemblies. The data is shared openly.
FEGA Sweden
FEGA Sweden
Secure archiving and sharing of genetic and phenotypic data resulting from Swedish biomedical research projects. Access to the data only will be granted after a formal application procedure.
Gene Expression Omnibus
Gene Expression Omnibus
An international public repository that archives and freely distributes microarray, next-generation sequencing, and other high-throughput functional genomics data submitted by the research community.
GISAID
GISAID
A sequencing data repository on emerging infectious diseases, including influenza and SARS-CoV-2. Requires registration to access the data, and there are multiple conditions regarding data sharing.
GWAS Catalog
GWAS Catalog
The GWAS Catalog is a curated collection of human genome-wide association studies. It is results from a collaboration between EMBL-EBI and NHGRI.
IntAct Molecular Interaction Database
IntAct Molecular Interaction Database
An open source database system and set of analysis tools for molecular interaction data. Interactions are derived from literature curation or direct user submission.
MassIVE
MassIVE
A community resource developed by the NIH-funded Center for Computational Mass Spectrometry to promote the global, free exchange of mass spectrometry data.
Mendeley Data
Mendeley Data
A general purpose, cloud-based repository intended for research data. Data can be shared privately or publicly, and are assigned unique identifiers.
Protein Data Bank
Protein Data Bank
Includes over 170k 3D protein structures, nucleic acids, and complex assemblies available for download. Allows users to explore computational structural models alongside data from AlphaFold DB and ModelArchive.
ProteomeXchange
ProteomeXchange
A single point of submission for mass spectrometry proteomics data. It includes a globally coordinated data submission and dissemination pipeline that involves the main proteomics repositories.
PRoteomics IDEntifications Archive database
PRoteomics IDEntifications Archive database
A repository for mass spectrometry (MS) proteomics data. Includes protein and peptide identifications, with corresponding expression values, post-translational modifications, and supporting MS evidence.
Resistance bank
Resistance bank
The resistance bank is an open access repository for surveys and maps of antimicrobial resistance (AMR) in animals. It focuses particularly on low and middle-income countries.
SciLifeLab Data Repository
SciLifeLab Data Repository
Repository for publishing any kind of research-related data, posters, presentations, and more.
Sequence Read Archive
Sequence Read Archive
A bioinformatics database that provides a public repository for DNA sequencing data. In particular, short reads generated using high‐throughput sequencing (typically less than 1000 base pairs long).
Swedish National Data Service
Swedish National Data Service
A service for Swedish research in humanities, social sciences, and medicine. It includes multiple collections of research data from Sweden, as well as links to international data.
Uniprot
Uniprot
A comprehensive resource for protein sequence and annotation data. UniProt is a collaboration between EMBL-EBI, the Swiss Institute of Bioinformatics (SIB), and the Protein Information Resource (PIR).
↑