`pathways_for_entity`

Pack: reactome · 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/pathways_for_entity for the schema, then POST the same URL with its arguments for the data.

Pathways containing an entity, looked up by external resource id (e.g. UniProt accession).

Parameters

Name	Type	Required	Description
`resource`	string	no	UniProt \| ChEBI \| Ensembl \| NCBI \| GeneCards \| … (default UniProt)
`entity_id`	string	yes	Identifier within the resource, e.g. “P04637” for TP53.
`species`	string	no	NCBI taxonomy id as a string (default “9606” — human).

Example call

Arguments

{
  "entity_id": "P04637"
}

curl

curl -X POST https://gateway.pipeworx.io/reactome/mcp \
  -H 'Content-Type: application/json' \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/call","params":{"name":"pathways_for_entity","arguments":{"entity_id":"P04637"}}}'

TypeScript (@pipeworx/sdk)

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

const result = await pipeworx.call('pathways_for_entity', {
  "entity_id": "P04637"
});

More examples

{
  "entity_id": "CHEBI:15377",
  "resource": "ChEBI",
  "species": "9606"
}

Response shape

Always returns: items, count

Field	Type	Description
`items`	array	Pathways containing the specified entity
`count`	integer	Number of items returned.

Full JSON Schema

{
  "type": "object",
  "properties": {
    "items": {
      "type": "array",
      "description": "Pathways containing the specified entity",
      "items": {
        "type": "object",
        "properties": {
          "dbId": {
            "type": "number",
            "description": "Internal database ID"
          },
          "displayName": {
            "type": "string",
            "description": "Pathway name"
          },
          "stableId": {
            "type": "string",
            "description": "Stable identifier"
          },
          "className": {
            "type": "string",
            "description": "Type (usually Pathway)"
          },
          "schemaClass": {
            "type": "string",
            "description": "Schema class"
          },
          "species": {
            "type": "object",
            "properties": {
              "dbId": {
                "type": "number"
              },
              "displayName": {
                "type": "string"
              }
            }
          }
        }
      }
    },
    "count": {
      "type": "integer",
      "description": "Number of items returned."
    }
  },
  "required": [
    "items",
    "count"
  ]
}

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 reactome pack

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

See Getting Started for client-specific install steps.

pathways_for_entity