BridgeDb Xrefs

Overview

Map a biological identifier across databases using BridgeDb. Given an identifier from one database (e.g., HMDB0000122 from HMDB), returns equivalent identifiers in all other supported databases (ChEBI, KEGG, PubChem, Wikidata, CAS, etc.). Supports genes, proteins, metabolites, and other biological entities across 45+ databases and 30+ organisms. System codes: Ch=HMDB, Ce=ChEBI, Ck=KEGG Compound, En=Ensembl, H=HGNC, S=UniProt, L=NCBI Gene, Cpc=PubChem-compound, Ik=InChIKey. Use this when you need to convert between database identifiers for the same biological entity.

Status

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

Last probed

1d ago

Last success

1d ago

Last latency

109ms

Schema

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

{
  "properties": {
    "identifier": {
      "description": "The identifier to look up (e.g., 'HMDB0000122' for glucose, 'ENSG00000141510' for TP53, '17234' for ChEBI glucose)",
      "type": "string"
    },
    "operation": {
      "description": "Operation type (fixed: xrefs)",
      "enum": [
        "xrefs"
      ],
      "type": "string"
    },
    "organism": {
      "description": "Organism name (default: Human). Options include: Human, Mouse, Rat, Yeast, Worm, Fruit fly, Zebra fish, Arabidopsis thaliana, and others.",
      "type": "string"
    },
    "source": {
      "description": "Source database name or system code. Common codes: Ch=HMDB, Ce=ChEBI, Ck=KEGG Compound, En=Ensembl, H=HGNC, S=UniProt, L=NCBI Gene, Cpc=PubChem-compound",
      "type": "string"
    },
    "source_database": {
      "description": "Alias for source. Source database name or system code.",
      "type": "string"
    },
    "target_database": {
      "description": "Alias for target_source. Filter results to a specific target database.",
      "type": "string"
    },
    "target_source": {
      "description": "Optional: filter results to a specific target database. Use database name or system code.",
      "type": "string"
    }
  },
  "required": [
    "identifier"
  ],
  "type": "object"
}

Examples (1)

{
  "identifier": ""
}

Identifiers

Catalog ID

tu_BridgeDb_xrefs

Tool name

BridgeDb_xrefs

Added

2026-04-30 22:47Z

Tags

tooluniverse