biomcp

Search genes, variants, trials, and articles across biomedical data sources.

581|113|Updated Apr 1, 2025
One-click install
npx skills add https://github.com/genomoncology/biomcp --skill biomcp
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: biomcp
Source: https://github.com/genomoncology/biomcp/tree/main/skills
Command: npx skills add https://github.com/genomoncology/biomcp --skill biomcp

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Solves multisource biomedical data discovery by enabling unified search and retrieval.

Core Features & Use Cases

  • Unified command grammar for cross-source discovery and retrieval across genes, variants, trials, articles, drugs, diseases, and more.
  • Cross-entity pivots and study analytics enable integrated workflows from discovery to evidence, with compact markdown outputs.
  • Use Case: researchers can perform a gene-level query across literature, trials, and databases and compile results into concise, evidence-oriented outputs.

Quick Start

Install biomcp CLI and run a simple cross-entity search, e.g., biomcp search gene BRAF.

Frequently Asked Questions about biomcp

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I search for biomedical literature and clinical trials across multiple sources at once?▼

Cross-source biomedical data discovery allows you to query genes, variants, trials, and articles simultaneously. BioMCP applies a unified command grammar to retrieve and integrate these diverse data types into concise, evidence-oriented markdown outputs.

What is cross-entity pivoting in biomedical data integration?▼

Cross-entity pivoting connects genes, variants, trials, and articles to enable evidence-backed workflows. BioMCP executes these pivots to help researchers transition from initial discovery to literature and trial analytics, generating compact markdown outputs.

How do I retrieve gene, variant, and disease data using a CLI?▼

Retrieving gene, variant, and disease data via CLI requires a unified command grammar like BioMCP. You run simple search commands, such as querying a specific gene, to retrieve machine-readable JSON outputs compiled from diverse biomedical databases.

Can I use a single command grammar for both bioinformatics literature search and clinical trial retrieval?▼

Yes, a single command grammar can handle both literature search and clinical trial retrieval. BioMCP applies a unified CLI syntax to query diverse sources, enabling researchers and clinicians to obtain evidence-backed results and machine-readable JSON outputs.

Do I need to install dependencies to run biomedical data discovery queries?▼

No external dependencies are required to run biomedical data discovery queries with BioMCP. The Skill operates independently, requiring only a YAML frontmatter in the SKILL.md file to define its name and description before executing searches.

What format are biomedical search results output in for integration workflows?▼

Biomedical search results are output in machine-readable JSON format for integration workflows. BioMCP utilizes schemas and examples to structure these results, also providing compact markdown outputs to support human-readable cross-entity pivots and study analytics.