`search_pathways`

Pack: wikipathways · Endpoint: https://gateway.pipeworx.io/wikipathways/mcp

Search WikiPathways (open community pathway database) for biological pathways by name. Pathways map genes/proteins/metabolites in processes like glycolysis, apoptosis, or signaling. Optionally restrict to one organism by Latin or common name. Keyless. Complements KEGG/Reactome.

Parameters

Name	Type	Required	Description
`query`	string	yes	Text to match in the pathway name (case-insensitive), e.g. “glycolysis”, “apoptosis”.
`organism`	string	no	Optional. Restrict to an organism by Latin or common name, e.g. “Homo sapiens” or “human”.
`limit`	number	no	Max results (default 25, max 100).

Example call

Arguments

{
  "query": "glycolysis"
}

curl

curl -X POST https://gateway.pipeworx.io/wikipathways/mcp \
  -H 'Content-Type: application/json' \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/call","params":{"name":"search_pathways","arguments":{"query":"glycolysis"}}}'

TypeScript (@pipeworx/sdk)

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

const result = await pipeworx.call('search_pathways', {
  "query": "glycolysis"
});

More examples

{
  "query": "apoptosis",
  "organism": "human",
  "limit": 10
}

Connect

Add this to your MCP client config, or use one-click install buttons:

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

See Getting Started for client-specific install steps.

search_pathways