AlphaFold DB is an open-access repository of AlphaFold protein structure predictions—over 200 million models from DeepMind and EMBL‑EBI—providing downloadable PDB/mmCIF coordinates, per-residue confidence (pLDDT), PAE, and bulk search/download tools.
BioGRID is a curated, versioned repository of protein, genetic, chemical and CRISPR interactions that provides searchable datasets, structured metadata, and downloadable standardized files to support network analysis, hypothesis generation and data reuse.
BRENDA is a comprehensive, curated enzyme information resource that aggregates enzyme function, classification (EC numbers), ligands and application data for research and education; data are available via web search and downloadable JSON under CC BY 4.0.
cBioPortal is a web-based platform for interactive exploration, visualization, and download of curated cancer clinicogenomic datasets, enabling cohort-level and patient-level analysis across TCGA, MSK, CPTAC, ICGC and many published studies.
ChEMBL is a manually curated, open bioactivity database linking chemical structures, assay measurements and target/genomic data to support drug discovery, repurposing and medicinal chemistry workflows via web services and downloads.
DDBJ (DNA Data Bank of Japan) is a public nucleotide-sequence archive and bioinformatics center—part of the INSDC—providing sequence repositories (DRA, GEA, JGA, MetaboBank), annotation and analysis tools (DFAST, pipelines), APIs (WABI) and supercomputer-backed services for data submission, retrieval and analysis.
DrugBank is a curated, comprehensive database of drugs, chemical structures, targets, mechanisms, interactions and clinical data for researchers, clinicians, and drug-discovery teams.
The European Nucleotide Archive (ENA) at EMBL-EBI is a global, open repository of nucleotide sequencing data—raw reads, assemblies and functional annotations—accessible via browser, search tools, bulk download and programmatic APIs.
Ensembl Genomes provides curated genome sequence and annotation data for non-vertebrate species, plus web and analysis tools to browse, manipulate, visualise and download gene and protein feature annotations with frequent releases.
ESM Atlas is an open, large-scale catalog of metagenomic protein structure predictions and pretrained protein language models (ESM family) that enable fast structure prediction, embeddings, sequence design, and large-scale search via web, API, and downloadable resources.
The GTEx Portal is a public resource for exploring how genetic variation shapes tissue- and cell-specific gene expression and regulation across human tissues, developmental stages, and related non-human primates.
InterPro is an integrated protein classification resource that combines predictive signatures from multiple member databases to assign protein families, domains, repeats and functional sites, enabling comprehensive functional annotation of sequences and proteomes.
