Cortexa research tool·genomics·ensembl_regulation

EnsemblReg Get Binding Matrix

Get a transcription factor binding matrix (position weight matrix/PWM) by stable ID from the Ensembl REST API. Returns the nucleotide frequency matrix, threshold, associated TF complexes, and consensus sequence. Binding matrices describe the DNA sequence preferences of transcription factors and are essential for predicting TF binding sites and understanding gene regulation. Example: ENSPFM0320 returns the PAX5 binding matrix with 18 positions.

Livelast probed 2026-04-30 23:07Z· 113msCortexa

Status

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

Last probed: 1d ago
Last success: 1d ago
Last latency: 113ms

Schema

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

{
  "properties": {
    "binding_matrix_id": {
      "description": "Ensembl binding matrix stable ID. Format: 'ENSPFM0XXX'. Examples: 'ENSPFM0320' (PAX5), 'ENSPFM0423' (NR2F1), 'ENSPFM0001' (ALX3).",
      "type": "string"
    },
    "species": {
      "default": "homo_sapiens",
      "description": "Species name. Use 'homo_sapiens' for human. Default: 'homo_sapiens'.",
      "type": "string"
    }
  },
  "required": [
    "binding_matrix_id"
  ],
  "type": "object"
}

Examples (1)

Default EnsemblReg Get Binding Matrix call

public-safeinput

{
  "binding_matrix_id": ""
}

Expected response keys: success

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

Identifiers

Catalog ID: tu_EnsemblReg_get_binding_matrix
Tool name: EnsemblReg_get_binding_matrix
Added: 2026-04-30 22:47Z
Tags: tooluniverse

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