Overview
Key features
- Search literature across PubTator3 and Europe PMC
- Deduplicate PMID/PMCID/DOI identifiers
- Add Semantic Scholar leg with filters
- Pivot between gene, variant, drug, disease, pathway, protein, or article
- Analyze studies locally with native terminal, SVG, and PNG charts
- Enrich and batch processing with biomcp enrich and biomcp batch
Pricing
- Model
- Free
- Category
- MCP Servers
- Rating
- No reviews yet
Use cases
Literature Search
Use BioMCP to search article fans out across PubTator3 and Europe PMC, deduplicating PMID/PMCID/DOI identifiers.
Study Analysis
Use BioMCP to analyze studies locally with native terminal, SVG, and PNG charts for downloaded cBioPortal-style datasets.
Pros & Cons
Pros
- Unified interface for searching and analyzing biomedical data
- Supports searching literature across multiple sources
- Allows pivoting between entities without rebuilding workflows
- Enables local study analysis with native terminal, SVG, and PNG charts
Cons
- Steep learning curve due to unique command grammar
- Limited to biomedical data sources
Reviews
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Q&A
How do I report reproducible issues?
Include: exact command, expected vs actual behavior, biomcp --version, relevant environment details, whether the issue reproduces with --json.
Asked by Anya Sokolova · May 29, 2026
Is BioMCP suitable for final clinical decisions?
BioMCP is a retrieval and workflow tool. Clinical decisions require domain-expert review and institutional validation processes.
Asked by Fiorella Bianchi · May 25, 2026
How do I inspect available commands quickly?
biomcp list biomcp list trial biomcp list variant
Asked by Ekaterina Orlova · May 5, 2026
Why are some fields missing?
BioMCP returns concise defaults and depends on upstream source completeness. When you need more detail: request a section, switch to JSON, verify source availability with biomcp health --apis-only.
Asked by Thandiwe Dlamini · Mar 25, 2026
How do I deploy BioMCP as an MCP server, and how is authentication handled?
Use biomcp serve for local stdio clients. Use biomcp serve-http --host <host> --port <port> for remote Streamable HTTP deployments; the MCP endpoint is /mcp, with /health, /readyz, and / available for probes. The HTTP transport is unauthenticated by design. BioMCP does not implement user login, bearer tokens, OAuth, or per-user authorization. Put remote deployments behind your own gateway, reverse proxy, SSO/mTLS layer, VPN, or private network policy. Provider keys for built-in sources are environment variables on the BioMCP process. See the MCP server reference and API keys.
Asked by Amina Diallo · Mar 14, 2026
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