Unofficial Reactome MCP Server 🧬
About
Model Context Protocol server for accessing Reactome pathway and systems biology data.
Details
- Author
- Augmented-Nature
- Downloads
- 299
- Categories
- Other, Database, API
Jump to
- 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
Setting up with Highlight
This MCP is not yet compatible with Highlight’s one-click setup. However, you can still use it with Highlight by following these steps:
- Download and install Highlight from highlightai.com/download
- Navigate to the plugins tab and select "Add Custom Plugin"
-
Configure the plugin with the settings below
Plugin Name
Unofficial Reactome MCP Server 🧬Command (node, npx, python, etc.)Please refer to the README for specific instructions on how to obtain API keys or other required environment variables.
- Enable "Start Automatically" if you want the plugin to start when Highlight launches
From the repository
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.
Claude Desktop / Cursor
Paste into your MCP client config file to install this server.
{
"mcpServers": {
"unofficial reactome mcp server \ud83e\uddec": {
"Reactome-MCP-Server": {
"command": "node",
"args": [
"build/index.js"
]
}
}
}
}McpServers
{
"Reactome-MCP-Server": {
"command": "node",
"args": [
"build/index.js"
]
}
}Unofficial Reactome MCP Server 🧬
Model Context Protocol server for accessing Reactome pathway and systems biology data.
Developed by Augmented Nature - Advancing AI for Scientific Discovery
✅ Verified Features
All 8 tools working with live Reactome API data:
- 🔍 Pathway Search - Search biological pathways by name, process, keywords
- 📊 Pathway Details - Comprehensive pathway information and components
- 🧬 Gene-to-Pathways - Find pathways containing specific genes/proteins
- 🦠 Disease Pathways - Disease-associated biological mechanisms
- 🌲 Pathway Hierarchy - Parent/child relationships and pathway structure
- 🧪 Pathway Participants - All molecules participating in pathways
- ⚗️ Biochemical Reactions - Detailed reaction information
- 🔗 Protein Interactions - Molecular interactions within pathways
🚀 Quick Start
```bash
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