BioMCP Server

---name: biomcp-server description: Open source biomedical Model Context Protocol (MCP) toolkit for connecting LLMs to biomedical data sources (PubMed, ClinicalTrials, Genomics). license: MIT metadata: author: LobeHub / GenomOncology source: "https://lobehub.com/mcp/genomoncology-biomcp" version:...

majiayu000/claude-skill-registry·0installs663starsProductivity & Planning

SKILL.md

Full skill instructions

BioMCP Server

BioMCP is a standardized Model Context Protocol (MCP) server that provides AI agents with direct, structured access to essential biomedical databases and APIs. It acts as a bridge between the LLM and the vast world of biomedical data.

When to Use This Skill

Literature Search: When you need to search PubMed or PMC for recent papers.
Entity Normalization: When you need to map text to gene IDs, disease codes, or chemical IDs (using PubTator3).
Clinical Data: To search for active clinical trials.
Genomic Information: To look up variant information or gene summaries.

Core Capabilities

PubMed/PMC Search: Execute complex queries against the NCBI literature databases.
PubTator3 API: Annotate biomedical text with normalized entities (Genes, Diseases, Chemicals, Species).
ClinicalTrials.gov: Search and retrieve clinical trial protocols.
Genomic Variants: Retrieve information about specific genetic variants.

Workflow

Connect: The agent connects to the running BioMCP server.
Call Tool: The agent selects the appropriate tool (e.g., search_pubmed, annotate_text).
Process: The server executes the API call and returns structured JSON.
Response: The agent uses the data to answer the user's query.

Example Usage

User: "Find recent clinical trials for CAR-T therapy in glioblastoma and list the key inclusion criteria."

Agent Action:

Calls biomcp_search_clinical_trials(query="CAR-T glioblastoma", status="Recruiting").
Parses the returned trial JSON.
Extracts and summarizes the inclusion criteria.

Install skill

Copy and run in your terminal

npx -y skills add https://github.com/majiayu000/claude-skill-registry --skill BioMCP

View on GitHub

skills/data/BioMCP/SKILL.md

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