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Full detail: Where this data comes from
Reactome is a free, open-source, curated, and peer-reviewed biological pathway database. It provides comprehensive pathway data covering human biology and orthologous reactions for over 14 non-human species. The platform exposes two primary REST APIs for programmatic access to pathway data, molecular interactions, species comparisons, reaction network visualization, and pathway enrichment analysis.
Base URL: https://reactome.org/ContentService
Provides access to all Reactome knowledgebase content:
- Query pathways, reactions, physical entities, and complexes by identifier
- Retrieve pathway hierarchies and ancestor relationships
- Export pathway diagrams in PNG, JPG, SVG, GIF, PDF, SBML, and SBGN formats
- Search via Solr full-text search with faceting and autocomplete
- Query PSICQUIC interactor databases
- Map external identifiers (Ensembl, UniProt, etc.) to Reactome entities
- Compare orthologous reactions across species
Documentation: https://reactome.org/dev/content-service Interactive API: https://reactome.org/ContentService/
Base URL: https://reactome.org/AnalysisService
Enables pathway enrichment analysis for gene and protein identifier lists:
- Submit identifier lists via POST, file upload, or URL reference
- Automatic detection of overrepresentation or expression analysis
- Results include pathway hits, p-values, FDR, entity and reaction counts
- Token-based result retrieval (valid 7+ days) without data re-submission
- Filter results by species
- Export results as CSV, JSON, or PDF report
- Species comparison against Homo sapiens
Documentation: https://reactome.org/dev/analysis Interactive API: https://reactome.org/AnalysisService/
Both APIs are freely accessible without authentication or API keys. There are no usage fees or registration requirements.
- Python:
pip install reactome2py— https://reactome.github.io/reactome2py/ - R:
ReactomePAvia Bioconductor — https://bioconductor.org/packages/ReactomePA - R:
rbioapivia CRAN — https://cran.r-project.org/package=rbioapi
Full dataset downloads available at https://reactome.org/download-data including BioPAX, SBML, PSI-MITAB, GMT, and Neo4j database dumps.
All Reactome data is released under Creative Commons Attribution 4.0 International (CC BY 4.0). Application source code is available at https://github.com/reactome under open-source licenses.
- Website: https://reactome.org
- Developer Zone: https://reactome.org/dev
- Documentation: https://reactome.org/documentation
- GitHub: https://github.com/reactome
- Contact: help@reactome.org