GeneFoundry is a FastMCP gateway that federates 21 biomedical MCP servers (280 tools) behind a single HTTP endpoint at https://genefoundry.org/mcp. Any Model Context Protocol host reaches gnomAD, Orphadata, HPO, MaveDB, ClinGen, GTEx and more sources through one connection.

How do I connect GeneFoundry to my MCP host?

Add the Streamable-HTTP endpoint to any MCP host. In Claude Code run: claude mcp add --transport http genefoundry https://genefoundry.org/mcp. Cursor, Gemini CLI and VS Code use the same URL in their MCP config. No install, no per-server setup and no API keys.

How does tool discovery work?

Instead of loading all 280 tool schemas up front, the agent calls search_tools to rank the federated catalog by relevance, pulls only the schemas it needs, then runs the chosen tool with call_tool by its namespaced name, for example spliceai_predict_splicing.

Is GeneFoundry free and open source?

Yes. The genefoundry-router is open source under the MIT license. You can self-host it or use the free hosted endpoint at https://genefoundry.org/mcp.

Can GeneFoundry be used for clinical decisions?

No. GeneFoundry is for research use only. It is not clinical decision support and must not be used for diagnosis, treatment or patient management.

Every biomedical MCP, behind one endpoint

GeneFoundry is a FastMCP gateway that federates 21 biomedical MCP servers (280 tools) behind a single HTTP endpoint, so any Model Context Protocol host taps gnomAD, Orphadata, HPO, MaveDB, ClinGen, GTEx and more sources through one connection.

How it works

Add one endpoint: claude mcp add --transport http genefoundry https://genefoundry.org/mcp
Discover tools with search_tools, ranked by relevance, so your agent pulls only the schemas it needs.
Run any result with call_tool by its namespaced name. Results stay grounded in the source.

Federated sources

PubTator3, gnomAD, Orphadata, ClinGen, Human Phenotype Ontology, MaveDB, UniProt, MGI, GeneReviews, Mondo, GenCC, MetaDome, STRING, GTEx Portal, HGNC, PanelApp, AutoPVS1, SpliceAI Lookup, Ensembl VEP, ClinVar and LitVar2.

Source on GitHub (open source, MIT licensed). Research use only. Not clinical decision support.