BioMCP is a server implementation that provides structured access to key biomedical databases through a unified interface. Developed by GenomOncology, it connects to ClinicalTrials.gov, PubMed (via PubTator3), and MyVariant.info to enable searching and retrieving information about clinical trials, research articles, and genetic variants. The server exposes these capabilities as MCP tools that can be used by AI assistants to access up-to-date biomedical data, overcoming knowledge cutoff limitations. BioMCP handles entity normalization, intelligent rendering of complex data as Markdown, and transparent attribution of sources, making it valuable for biomedical research, clinical decision support, and literature review workflows.
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Search for articles across PubTator3 and Europe PMC, deduplicating PMID/PMCID/DOI identifiers. It can also add a Semantic Scholar leg when filters support it.
Displays a catalog of available skills or playbooks that provide worked examples for how-to questions.
Retrieves focused detail for a specified entity and ID, with optional sections for more specific information.
Performs gene-set enrichment analysis using specified genes, with an option to limit the number of results.
Executes up to 10 focused get calls in one command for parallel processing of entity details.
Starts a remote HTTP server for shared or remote deployments, allowing clients to connect for queries.
Fetches a dataset into the local study root for analysis.
Queries a specified study for detailed information on genes, types, and outputs, with the option for chart generation.
Inspects API connectivity and readiness for local dependencies.
Self-updates the BioMCP tool with release SHA256 checksum verification.
Removes the biomcp binary from the local installation.
