Reactome¶
Reactome is the best source page to reach for when a question has moved past single genes and into mechanism, signaling flow, or pathway membership. It matters because pathway context is where isolated biomarkers start to look like a biological story instead of a disconnected list of hits.
BioMCP pathway search and detail are multi-source across Reactome, KEGG, and WikiPathways. This page covers the Reactome-backed part of that surface: Reactome IDs, Reactome detail cards, contained events, and Reactome-gated enrichment sections. Top-level biomcp enrich is a g:Profiler workflow and does not belong on this page.
What BioMCP exposes¶
| Command | What BioMCP gets from this source | Integration note |
|---|---|---|
search pathway |
Pathway search rows that can resolve to Reactome IDs | Pathway search is multi-source; this page focuses on Reactome-backed rows |
get pathway <id> |
Reactome pathway summary card | Reactome ID path |
get pathway <id> genes |
Member genes for a Reactome pathway | Reactome detail section |
get pathway <id> events |
Contained-events view | Reactome-only section |
get pathway <id> enrichment |
Reactome-gated enrichment summary | This is a Reactome pathway workflow, not generic top-level enrichment |
get gene <symbol> pathways |
Gene-to-pathway links that can include Reactome entries | Cross-entity helper that surfaces Reactome pathway links |
Example commands¶
Returns a pathway table with source, ID, and name columns.
Returns a Reactome pathway card with source and summary context.
Returns the genes section for that Reactome pathway.
Returns a contained-events section for the Reactome record.
Returns a gene pathways section that can include Reactome IDs and links.
API access¶
No BioMCP API key required.
Official source¶
Reactome is the official curated pathway knowledgebase behind BioMCP's Reactome-specific pathway views.