mcp-ebi-ols

EBI Ontology Lookup Service — 250+ biomedical ontologies

Part of Pipeworx — an MCP gateway connecting AI agents to 250+ live data sources.

Tools

Tool	Description
`list_ontologies`	List loaded ontologies (paginated).
`get_ontology`	Ontology metadata by id (e.g. "efo", "mondo", "go").
`search`	Full-text search across all ontologies (or one).
`get_term`	Term details. Pass either iri, short_form, or obo_id (the latter two require ontology).
`term_ancestors`	Transitive ancestors of a term.
`term_children`	Direct children of a term.

Add to your MCP client (Claude Desktop, Cursor, Windsurf, etc.):

{
  "mcpServers": {
    "ebi-ols": {
      "url": "https://gateway.pipeworx.io/ebi-ols/mcp"
    }
  }
}

Or connect to the full Pipeworx gateway for access to all 250+ data sources:

{
  "mcpServers": {
    "pipeworx": {
      "url": "https://gateway.pipeworx.io/mcp"
    }
  }
}

Instead of calling tools directly, you can ask questions in plain English:

ask_pipeworx({ question: "your question about Ebi Ols data" })

The gateway picks the right tool and fills the arguments automatically.

MIT