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pipeworx-io

mcp-reactome

by pipeworx-io
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mcp-reactome

Reactome MCP — open biological pathway knowledge-base.

Part of Pipeworx — an MCP gateway connecting AI agents to 673+ live data sources.

Tools

Tool

Description

search

Search across all Reactome objects.

pathway

Full pathway record by stable id (e.g. R-HSA-68886).

participants

Entity participants of a pathway.

pathways_for_entity

Pathways containing an entity, looked up by external resource id (e.g. UniProt accession).

orthologous_events

Orthologous pathways/reactions in another species.

Related MCP server: gwas-mcp

Quick Start

Add to your MCP client (Claude Desktop, Cursor, Windsurf, etc.):

{
  "mcpServers": {
    "reactome": {
      "url": "https://gateway.pipeworx.io/reactome/mcp"
    }
  }
}

Or connect to the full Pipeworx gateway for access to all 673+ data sources:

{
  "mcpServers": {
    "pipeworx": {
      "url": "https://gateway.pipeworx.io/mcp"
    }
  }
}

Using with ask_pipeworx

Instead of calling tools directly, you can ask questions in plain English:

ask_pipeworx({ question: "your question about Reactome data" })

The gateway picks the right tool and fills the arguments automatically.

More

License

MIT

This server cannot be installed

A
license - permissive license
-
quality - not tested
C
maintenance

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Resources

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Looking for Admin?

If you are the server author, to access and configure the admin panel.

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