BioMCP: Biomedical Model Context Protocol

BioMCP is an open source (MIT License) toolkit that empowers AI assistants and agents with specialized biomedical knowledge. Built following the Model Context Protocol (MCP), it connects AI systems to authoritative biomedical data sources, enabling them to answer questions about clinical trials, scientific literature, and genomic variants with precision and depth.

MCPHub Certification

BioMCP is certified by MCPHub. This certification ensures that BioMCP follows best practices for Model Context Protocol implementation and provides reliable biomedical data access.

Why BioMCP?

While Large Language Models have broad general knowledge, they often lack specialized domain-specific information or access to up-to-date resources. BioMCP bridges this gap for biomedicine by:

• Providing structured access to clinical trials, biomedical literature, and genomic variants
• Enabling natural language queries to specialized databases without requiring knowledge of their specific syntax
• Supporting biomedical research workflows through a consistent interface
• Functioning as an MCP server for AI assistants and agents

Biomedical Data Sources

BioMCP integrates with multiple biomedical data sources:

Literature Sources

• PubTator3/PubMed - Peer-reviewed biomedical literature with entity annotations
• bioRxiv/medRxiv - Preprint servers for biology and health sciences