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. |

Quick Start

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"
    }
  }
}

Using with ask_pipeworx

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.

More

• All tools and guides
• pipeworx.io

License

MIT