expasy.ch

# Expasy

> Expasy is the bioinformatics resource portal of the SIB Swiss Institute of Bioinformatics,
> providing free access to over 160 databases, software tools, and data sets supporting
> life science and biomedical research worldwide. Founded in August 1993, it was the first
> life science website on the internet.
> Canonical citation: Duvaud et al. (2021), Nucleic Acids Research 49(W1):W216-W227. DOI: 10.1093/nar/gkab225

## About

- [About Expasy](https://www.expasy.org/about): History, governance, funding, maintainers, and citation information for the Expasy portal.
- [Help](https://www.expasy.org/help): Explanation of resource types catalogued (software tools, databases, data sets), search modes, EDAM ontology classification, and filtering system.
- [Terms of Use](https://www.expasy.org/terms-of-use): Licensing and usage terms. All content available under CC BY 4.0.
- [Contact](https://www.expasy.org/contact): Contact information for the Expasy helpdesk.

## Resources by Domain

- [Proteins & Proteomes](https://www.expasy.org/search/proteins-proteomes): Databases and tools for protein sequence, function, and structure analysis, including UniProtKB/Swiss-Prot, PROSITE, HAMAP, and neXtProt.
- [Structural Biology](https://www.expasy.org/search/structural-biology): Resources for 3D structure analysis and prediction, including SWISS-MODEL and SWISS-MODEL Repository.
- [Genes & Genomes](https://www.expasy.org/search/genes-genomes): Genomics tools and databases including Bgee, OMA, and OrthoDB.
- [Evolution & Phylogeny](https://www.expasy.org/search/evolution-phylogeny): Resources for comparative genomics and evolutionary analysis.
- [Systems Biology](https://www.expasy.org/search/systems-biology): Resources including STRING (protein interaction networks) and MetaNetX.
- [Text Mining & Machine Learning](https://www.expasy.org/search/text-mining-machine-learning): AI-powered tools for biological text and data analysis.
- [Glycomics, Lipidomics & Metabolomics](https://www.expasy.org/search/glycomics-lipidomics-metabolomics): Specialised chemistry databases including SwissLipids.

## Key SIB Resources

- [UniProtKB/Swiss-Prot](https://www.expasy.org/resources/uniprotkb-swiss-prot): Manually reviewed protein sequence and functional information knowledgebase. ELIXIR Core Data Resource.
- [SWISS-MODEL](https://www.expasy.org/resources/swiss-model): Automated protein structure homology modelling server.
- [STRING](https://www.expasy.org/resources/string): Database of known and predicted protein-protein interactions. ELIXIR Core Data Resource.
- [PROSITE](https://www.expasy.org/resources/prosite): Database of protein domains, families, and functional sites with patterns and profiles.
- [Bgee](https://www.expasy.org/resources/bgee): Database for gene expression data in animals. ELIXIR Core Data Resource.
- [neXtProt](https://www.expasy.org/resources/nextprot): Human protein knowledge platform integrating data on human proteins.
- [ENZYME](https://www.expasy.org/resources/enzyme): Repository of enzyme nomenclature based on IUBMB recommendations.
- [ViralZone](https://www.expasy.org/resources/viralzone): Reference resource for all virus genera with genomic and proteomic data.
- [OMA](https://www.expasy.org/resources/oma): Orthologous MAtrix — database and method for inferring orthologs among complete genomes. ELIXIR Core Data Resource.
- [OrthoDB](https://www.expasy.org/resources/orthodb): Hierarchical catalogue of eukaryotic, bacterial and viral orthologs. ELIXIR Core Data Resource.
- [Cellosaurus](https://www.expasy.org/resources/cellosaurus): Knowledge resource on cell lines used in biomedical research.
- [SwissLipids](https://www.expasy.org/resources/swisslipids): Expert-curated resource for lipids and their biology.

## Chat & AI Tools

- [ExpasyGPT](https://www.expasy.org/chat): AI-powered assistant for querying SIB bioinformatics resources using natural language. Powered by SPARQL-based federated knowledge graph queries across SIB databases.
- [About ExpasyGPT](https://www.expasy.org/about-chat): Technical description, data retention policy, and scope of the ExpasyGPT system.

## Optional

- [Sitemap](https://www.expasy.org/sitemap.xml): Complete index of all Expasy pages including all 160+ resource entries.
- [FAIRsharing record](https://doi.org/10.25504/FAIRsharing.ceeffa): FAIR data certification and persistent identifier for the Expasy portal.
- [Canonical citation DOI](https://doi.org/10.1093/nar/gkab225): Duvaud S et al. (2021). Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users. Nucleic Acids Research 49(W1):W216-W227.