@pipeworx/ebi-ols

EBI Ontology Lookup Service (OLS) MCP — search and traverse ~250 biomedical ontologies (GO, EFO, MONDO, CL, ChEBI, HP, …). Keyless.

Part of Pipeworx — an MCP gateway connecting AI agents to 1394+ live data sources.

Tools

• list_ontologies(size?, page?) — list all loaded ontologies

• get_ontology(id) — ontology metadata (latest release, term count, …)

• search(query, ontology?, type?, exact?, rows?) — full-text search across terms

• get_term(ontology, iri|short_form|obo_id) — term details

• term_ancestors(ontology, iri) — transitive parents

• term_children(ontology, iri) — direct children

Related MCP server: mcp-ubergraph-query

Data source

https://www.ebi.ac.uk/ols4/api/

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 1394+ 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

• Docs and guides

• pipeworx.io

License

MIT