`geo_search`

Pack: ncbi-eutils · Connect: https://pipeworx.io/mcp (see Connect below for a single-pack URL)

No MCP client? Call it directly: GET https://gateway.pipeworx.io/v1/tools/geo_search for the schema, then POST the same URL with its arguments for the data.

Search NCBI GEO (Gene Expression Omnibus) for expression series (GSE) by keywords, optionally filtered by organism and experiment type. Returns the matching series with title, organism, sample count, platform, type and release date, plus the total hit count. Follow up with geo_series for one accession.

Parameters

Name	Type	Required	Description
`query`	string	yes	Free-text terms, e.g. “dyskeratosis congenita” or “telomere RNA-seq”
`organism`	string	no	Scientific name, e.g. “Homo sapiens”, “Mus musculus”
`type`	string	no	GEO experiment type, e.g. “Expression profiling by array”, “Expression profiling by high throughput sequencing”, “Methylation profiling by genome tiling array”
`limit`	number	no	1-50 (default 10)

Example call

Arguments

{
  "query": "dyskeratosis congenita",
  "organism": "Homo sapiens",
  "limit": 3
}

curl

curl -X POST https://gateway.pipeworx.io/ncbi-eutils/mcp \
  -H 'Content-Type: application/json' \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/call","params":{"name":"geo_search","arguments":{"query":"dyskeratosis congenita","organism":"Homo sapiens","limit":3}}}'

TypeScript (@pipeworx/sdk)

import { Pipeworx } from '@pipeworx/sdk';
const pipeworx = new Pipeworx();

const result = await pipeworx.call('geo_search', {
  "query": "dyskeratosis congenita",
  "organism": "Homo sapiens",
  "limit": 3
});

More examples

{
  "query": "telomere",
  "type": "Expression profiling by high throughput sequencing",
  "limit": 2
}

Connect

Add this to your MCP client config — every tool in the catalog, including this one — or use one-click install buttons:

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

Connect to just the ncbi-eutils pack

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

See Getting Started for client-specific install steps.

geo_search