Phenotype, pathway & integrative
Reactome
Curated pathway database
"The open, deeply-curated pathway database — with disease-variant pathways too."
About the resource
Reactome is the most-cited open, manually-curated pathway database, co-developed at EMBL-EBI, the Ontario Institute for Cancer Research and NYU. Pathways are organised in a hierarchy from broad processes (metabolism, signal transduction, immune system, disease) down to individual reactions, each linked to gene products and small molecules. The Disease module captures disease-variant pathways — how cancer-driver mutations, channelopathies, infectious agents and metabolic-disease variants perturb the canonical pathway.
Reactome is the open counterpart to KEGG in many workflows. Pathway data ships in BioPAX, SBML, SBGN and graph databases, with reasoning-rich enrichment tools. CC BY 4.0.
What you'd use it for
- 01Run pathway enrichment analysis on a disease-associated gene set
- 02Trace how a cancer-driver mutation perturbs a Reactome pathway
- 03Pull pathway data into Cytoscape for systems-level visualisation
- 04Use Reactome's reasoning engine for over-representation analysis
How you access it
Web UIREST APINeo4j graph downloadsBioPAX / SBML / SBGN exports