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Unofficial Reactome MCP Server

@Augmented-Nature

Repository

Basic information

Category

Other

License

MIT license

Transports

stdio

Author

Augmented-Nature

About Unofficial Reactome MCP Server

Model Context Protocol server for accessing Reactome pathway and systems biology data.

#reactome#mcp-server#biological-data

Unofficial Reactome MCP Server config

Add this server to your MCP-compatible client using the configuration below.

{
  "mcpServers": {
    "Reactome-MCP-Server": {
      "command": "node",
      "args": [
        "build/index.js"
      ]
    }
  }
}

Unofficial Reactome MCP Server tools

Tool list not available yet

This listing does not currently have a tool list to display. This does not mean the server has no tools; check its documentation for supported capabilities.

We auto-extract tools from the README. The maintainer can list them under a ## Tools heading to populate this section.

Overview

What is Unofficial Reactome MCP Server 🧬?

It is a Model Context Protocol server that provides access to curated biological pathway and systems biology data from the Reactome database. Developed by Augmented Nature, it is designed for researchers and scientists exploring cellular processes, disease mechanisms, and drug targets.

How to use Unofficial Reactome MCP Server 🧬?

Install via npm (npm install), build (npm run build), then run with node build/index.js. Configure your MCP client (e.g., Claude Desktop) by adding a reactome-server entry that points to the built script. Use any of the eight available tools by sending JSON‑RPC requests with the specified arguments.

Key features of Unofficial Reactome MCP Server 🧬

  • Eight tools for searching and retrieving Reactome pathway data
  • Covers 2,500+ pathways, 25,000+ reactions, and 14,000+ proteins
  • Supports gene‑to‑pathway and disease‑associated pathway lookups
  • Provides pathway hierarchy, participants, reactions, and protein interactions
  • Cross‑references UniProt, ChEMBL, Ensembl, and other databases
  • TypeScript implementation with robust error handling and 30‑second timeouts

Use cases of Unofficial Reactome MCP Server 🧬

  • Systems biology workflow: search DNA repair pathways, retrieve details, and explore gene involvement
  • Disease mechanism research: find cancer‑related pathways and analyze their reactions and hierarchy
  • Drug discovery pipeline: map a drug target gene to pathways, examine protein interactions, and study participants

Frequently asked questions

1

Is this an official Reactome product?

No. It is an unofficial server developed independently by Augmented Nature. It uses the public Reactome Content Service API but is not affiliated with or endorsed by the Reactome project.

2

What are the system requirements?

You need Node.js installed. The server is built from TypeScript source using `npm install` and `npm run build`, then runs via `node build/index.js`.

3

Where does the data come from and is authentication required?

All data is fetched live from the Reactome Content Service REST API (`https://reactome.org/ContentService`, v79). No authentication is required for normal research use, and rate limits are generous.

4

What data coverage does the server offer?

It provides access to over 2,500 curated pathways, 25,000+ reactions, and 14,000+ proteins across 20+ species, including human, mouse, and rat. It covers signal transduction, metabolism, gene regulation, cell cycle, DNA repair, immune response, and disease mechanisms.

Comments

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