Cortexa research tool·structure·pathwaycommons

PathwayCommons Get Neighborhood

Get the interaction neighborhood for a gene from Pathway Commons. Returns all known interactions (protein-protein, regulatory, catalytic, complex membership) for the query gene from 22 integrated databases. Each interaction includes the partner gene, interaction type (interacts-with, controls-state-change-of, controls-expression-of, in-complex-with, etc.), data source, and PubMed references. Useful for building gene interaction networks and finding functional partners.

Livelast probed 2026-04-30 23:07Z· 100msCortexa

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed: 1d ago
Last success: 1d ago
Last latency: 100ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "datasource": {
      "description": "Filter by data source: reactome, kegg, biogrid, intact, hprd, pid, corum, ctd, drugbank",
      "type": [
        "string",
        "null"
      ]
    },
    "gene": {
      "description": "Gene symbol (e.g., BRCA1, TP53, EGFR)",
      "type": "string"
    },
    "limit": {
      "default": 1,
      "description": "Graph search depth (1 = direct neighbors, 2 = neighbors of neighbors). Default 1. Higher values return much more data.",
      "maximum": 100,
      "minimum": 1,
      "type": [
        "integer",
        "null"
      ]
    },
    "max_results": {
      "default": 100,
      "description": "Maximum number of interactions to return (default: 100)",
      "maximum": 500,
      "minimum": 1,
      "type": [
        "integer",
        "null"
      ]
    }
  },
  "required": [
    "gene"
  ],
  "type": "object"
}

Examples (1)

Default PathwayCommons Get Neighborhood call

public-safeinput

{
  "gene": "BRCA1"
}

Expected response keys: success

Anonymous-safe example. Rate-limited; no sign-in required.

Identifiers

Catalog ID: tu_PathwayCommons_get_neighborhood
Tool name: PathwayCommons_get_neighborhood
Added: 2026-04-30 22:47Z
Tags: tooluniverse

PathwayCommons Get Neighborhood

Livelast probed 2026-04-30 23:07Z· 100msCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "properties": { "datasource": { "description": "Filter by data source: reactome, kegg, biogrid, intact, hprd, pid, corum, ctd, drugbank", "type": [ "string", "null" ] }, "gene": { "description": "Gene symbol (e.g., BRCA1, TP53, EGFR)", "type": "string" }, "limit": { "default": 1, "description": "Graph search depth (1 = direct neighbors, 2 = neighbors of neighbors). Default 1. Higher values return much more data.", "maximum": 100, "minimum": 1, "type": [ "integer", "null" ] }, "max_results": { "default": 100, "description": "Maximum number of interactions to return (default: 100)", "maximum": 500, "minimum": 1, "type": [ "integer", "null" ] } }, "required": [ "gene" ], "type": "object" }