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EBI Ontology Lookup Service — 250+ biomedical ontologies
About
EBI Ontology Lookup Service — 250+ biomedical ontologies
Remote endpoints: streamable-http: https://gateway.pipeworx.io/ebi-ols/mcp
Security Report
10.0
Low Risk10.0Low RiskValid MCP server (1 strong, 0 medium validity signals). No known CVEs in dependencies. Imported from the Official MCP Registry. Trust signals: trusted author (377/377 approved). 1 finding(s) downgraded by scanner intelligence.
17 tools verified · Open access · 1 issue found
Security scores are indicators to help you make informed decisions, not guarantees. Always review permissions before connecting any MCP server.
Permissions Required
This plugin requests these system permissions. Most are normal for its category.
How to Connect
Remote Plugin
No local installation needed. Your AI client connects to the remote endpoint directly.
Add this to your MCP configuration to connect:
{
"mcpServers": {
"io-github-pipeworx-io-ebi-ols": {
"url": "https://gateway.pipeworx.io/ebi-ols/mcp"
}
}
}Documentation
View on GitHubFrom the project's GitHub README.
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.
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License
MIT
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