BioSamples

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EBI BioSamples — search and fetch metadata for biological samples (cell lines, tissues, organisms) referenced across EBI archives.

2 tools
0ms auth
free tier 50 calls/day

Tools

search_samples

Search EBI BioSamples — metadata for biological samples (cell lines, tissues, organisms) referenced across EBI archives. Free-text search by organism, tissue, or keyword; returns matching samples with

No parameters required.

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get_sample

Fetch a single EBI BioSamples record by accession. Returns the sample name, dates, taxId, organism, and a flattened map of its characteristics (organism, tissue, sex, cell type, etc.). Keyless.

No parameters required.

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Test with curl

The gateway speaks JSON-RPC 2.0 over HTTP POST. You can test any pack directly from the terminal.

List available tools
bash 
curl -X POST https://gateway.pipeworx.io/biosamples/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/list"}'
Call a tool
bash 
curl -X POST https://gateway.pipeworx.io/biosamples/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":2,"method":"tools/call","params":{"name":"search_samples","arguments":{}}}'

Use with the SDK

Install @pipeworx/sdk to call tools from any TypeScript/Node project.

TypeScript 
import { Pipeworx } from '@pipeworx/sdk';
const px = new Pipeworx();
const result = await px.call("search_samples", {});
ask_pipeworx 
// Or ask in plain English:
const answer = await px.ask("ebi biosamples — search and fetch metadata for biological samples (cell lines, tissues, organisms) referenced across ebi archives");