OmniPath Get Signaling Interactions

Overview

Get intracellular signaling pathway interactions from OmniPath's curated datasets. Supports querying the main OmniPath signaling network (literature-curated, directed PPI), pathwayextra (activity flow from Reactome/KEGG/WikiPathways), kinaseextra (kinase-substrate from PhosphoSite/dbPTM), and more. Returns directed, signed interactions with stimulation/inhibition annotations and supporting evidence. Useful for reconstructing signaling cascades downstream of receptor activation. Example: NOTCH1 has 110 directed signaling interactions; SRC kinase connects to 200+ downstream substrates; TP53 has 500+ pathway interactions.

Status

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

Last probed

1d ago

Last success

1d ago

Last latency

98ms

Schema

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

{
  "properties": {
    "datasets": {
      "description": "Which OmniPath dataset(s) to query, comma-separated. Options: 'omnipath' (curated signaling, default), 'pathwayextra' (activity flow from pathway DBs), 'kinaseextra' (kinase-substrate), 'dorothea' (TF-target), 'tf_target' (TF regulation), 'mirnatarget' (miRNA targets), 'lncrna_mrna' (lncRNA regulation). Default: 'omnipath'.",
      "type": [
        "string",
        "null"
      ]
    },
    "directed": {
      "description": "Filter for directed interactions only (default: true for signaling).",
      "type": [
        "boolean",
        "null"
      ]
    },
    "limit": {
      "description": "Maximum number of interactions to return.",
      "type": [
        "integer",
        "null"
      ]
    },
    "organisms": {
      "description": "NCBI taxonomy ID. Default: 9606 (human). Options: 9606, 10090, 10116.",
      "type": [
        "integer",
        "null"
      ]
    },
    "partners": {
      "description": "Gene symbol(s) or UniProt ID(s) to query. Comma-separated for multiple. Examples: 'TP53', 'NOTCH1', 'SRC,ABL1'.",
      "type": [
        "string",
        "null"
      ]
    },
    "signed": {
      "description": "Filter for interactions with known stimulation/inhibition sign.",
      "type": [
        "boolean",
        "null"
      ]
    },
    "sources": {
      "description": "Gene symbol(s) or UniProt ID(s) for source/upstream proteins only.",
      "type": [
        "string",
        "null"
      ]
    },
    "targets": {
      "description": "Gene symbol(s) or UniProt ID(s) for target/downstream proteins only.",
      "type": [
        "string",
        "null"
      ]
    }
  },
  "required": [],
  "type": "object"
}

Examples (1)

{}

Identifiers

Catalog ID

tu_OmniPath_get_signaling_interactions

Tool name

OmniPath_get_signaling_interactions

Added

2026-05-01 00:58Z

Tags

tooluniverse