BioMCP
Biomedical research integration for AI — query PubMed, clinical trials, and genomic databases
data Python Intermediate Self-hostable No API key
⭐ 300 stars 📅 Updated: 1mo ago
Description
MCP server designed for biomedical research workflows. BioMCP connects AI assistants to major biomedical databases including PubMed, ClinicalTrials.gov, and genomic resources. Perform literature searches, discover active clinical trials, and analyze gene and variant information — all through natural language queries. Built by GenomOncology for researchers, clinicians, and bioinformaticians who want to accelerate their research with AI-assisted data retrieval and analysis.
✅ Best for
Researchers and clinicians who need AI-assisted access to biomedical literature and databases
⏭️ Skip if
You need access to proprietary or institutional biomedical databases
💡 Use cases
- Searching PubMed for relevant literature on specific diseases or treatments
- Discovering clinical trials by condition, intervention, or eligibility criteria
- Querying gene and variant information for genomic research
- Building AI-powered research assistants for biomedical teams
👍 Pros
- ✓ No API key required — free access to public biomedical databases
- ✓ Covers multiple major data sources (PubMed, ClinicalTrials.gov, genomic DBs)
- ✓ Simple pip install with Python-based setup
- ✓ Purpose-built for scientific and clinical research workflows
👎 Cons
- ✗ Limited to publicly available biomedical databases
- ✗ Results depend on the quality and coverage of upstream data sources
- ✗ Python-only — requires a Python environment
🔧 Exposed tools (5 tools)
| Tool | Category | Description |
|---|---|---|
| get_gene_info | query | Retrieve gene information and annotations |
| get_variant_info | query | Look up genetic variant details and pathogenicity |
| search_pubmed | search | Search PubMed for biomedical literature |
| search_clinical_trials | search | Search ClinicalTrials.gov for active and completed trials |
| search_literature | search | Broad literature search across biomedical databases |
⚡ Installation
Prerequisites:
- • python v3.10+
Check Claude Code documentation to configure this MCP server.
💡 Tips & tricks
Install with pip install biomcp and configure as a stdio MCP server. Combine PubMed search with clinical trials discovery for comprehensive research overviews.
🔄 Alternatives
Quick info
- Author
- GenomOncology
- License
- MIT
- Runtime
- Python 3.10+
- Transport
- stdio
- Category
- data
- Difficulty
- Intermediate
- Self-hostable
- ✅
- Auth
- —
- Docker
- —
- Version
- latest
- Updated
- Feb 28, 2026
Client compatibility
- ✅ Claude Code
- ✅ Cursor
- ✅ VS Code Copilot
- ❓ Gemini CLI
- ❓ Windsurf
- ❓ Cline
- ❓ JetBrains AI
- ❓ Warp
Platforms
🍎 macOS 🐧 Linux 🪟 Windows