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GWAS Catalog (EBI)

scientific-skills/database-lookup/references/gwas-catalog.md

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GWAS Catalog (EBI)

Base URL

https://www.ebi.ac.uk/gwas/rest/api

Auth

No API key required.

Note: Responses use HAL+JSON format with _links and _embedded keys.

Key Endpoints

EndpointDescription
/studies/{accession}Single study (e.g. GCST001633)
/studies/search/findByPubmedId?pubmedId={id}Studies by PubMed ID
/singleNucleotidePolymorphisms/{rsId}SNP details
/singleNucleotidePolymorphisms/{rsId}/associationsAssociations for a SNP
/singleNucleotidePolymorphisms/search/findByRsId?rsId={rsId}Search by rsID
/associationsList associations
/associations/{id}Single association
/efoTraitsList EFO traits
/efoTraits/search/findByEfoTrait?trait={name}Search traits

Pagination

?page=0&size=20 (zero-indexed, max ~500)

Example Calls

# Get a study
https://www.ebi.ac.uk/gwas/rest/api/studies/GCST001633

# Associations for a SNP
https://www.ebi.ac.uk/gwas/rest/api/singleNucleotidePolymorphisms/rs7329174/associations

# Search traits
https://www.ebi.ac.uk/gwas/rest/api/efoTraits/search/findByEfoTrait?trait=diabetes&page=0&size=5

Response Format

HAL+JSON. Results in _embedded.studies[] or _embedded.associations[]. Key fields: pvalue, riskFrequency, orPerCopyNum, betaNum.

Rate Limits

No published limit. Bulk data via FTP at ftp.ebi.ac.uk/pub/databases/gwas/