PharmacoDB Get Biomarker Assoc

Overview

Get gene-compound biomarker associations from PharmacoDB showing how gene expression or other molecular features correlate with drug sensitivity. Returns statistical associations including effect estimate, p-values, FDR, sensitivity statistic (AAC/IC50), molecular data type (rna/cnv/mutation), sample size, and tissue/dataset context. Filter by compound, gene (Ensembl ID), tissue, and molecular data type. Useful for pharmacogenomics biomarker discovery and validating drug sensitivity predictors. Example: find genes associated with Paclitaxel sensitivity in breast cancer.

Status

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

Last probed

1d ago

Last success

1d ago

Last latency

107ms

Schema

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

{
  "properties": {
    "compound_id": {
      "description": "PharmacoDB compound ID. Either compound_name or compound_id required.",
      "type": [
        "integer",
        "null"
      ]
    },
    "compound_name": {
      "description": "Compound name (e.g., 'Paclitaxel', 'Erlotinib'). Either compound_name or compound_id required.",
      "type": [
        "string",
        "null"
      ]
    },
    "gene_name": {
      "description": "Gene Ensembl ID to filter (e.g., 'ENSG00000141510' for TP53)",
      "type": [
        "string",
        "null"
      ]
    },
    "mdata_type": {
      "description": "Molecular data type: 'rna' (gene expression), 'cnv' (copy number), 'mutation'",
      "type": [
        "string",
        "null"
      ]
    },
    "operation": {
      "description": "Operation type",
      "enum": [
        "get_biomarker_associations"
      ],
      "type": "string"
    },
    "per_page": {
      "default": 20,
      "description": "Number of results per page (default 20, max 100)",
      "maximum": 100,
      "minimum": 1,
      "type": "integer"
    },
    "tissue_name": {
      "description": "Tissue type to filter (e.g., 'Breast', 'Lung', 'Skin')",
      "type": [
        "string",
        "null"
      ]
    }
  },
  "required": [
    "operation"
  ],
  "type": "object"
}

Examples (1)

{
  "operation": "",
  "per_page": 1
}

Identifiers

Catalog ID

tu_PharmacoDB_get_biomarker_assoc

Tool name

PharmacoDB_get_biomarker_assoc

Added

2026-04-30 22:47Z

Tags

tooluniverse