EuroPMCAnnot Get Article Annotations

Overview

Get text-mined annotations from a scientific article using the Europe PMC Annotations API. Returns entities extracted from the article text including chemicals, organisms, gene ontology terms, diseases, and gene/protein mentions, with their exact text, surrounding context, ontology URIs, and section locations. Powered by Europe PMC's SciLite text mining pipeline. Use this to extract structured biological entities from published literature without reading the full text. Example: PMC4353746 returns 19 chemical annotations and 12 GO annotations.

Status

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

Last probed

1d ago

Last success

1d ago

Last latency

118ms

Schema

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

{
  "properties": {
    "annotation_type": {
      "description": "Filter by annotation type: 'Chemicals', 'Organisms', 'Gene Ontology', 'Diseases', 'Genes & Proteins', 'Accession Numbers'. Default: all types.",
      "type": [
        "string",
        "null"
      ]
    },
    "article_id": {
      "description": "Article identifier in format 'PMC:PMCXXXXXXX' or 'MED:PMID'. Examples: 'PMC:PMC4353746', 'PMC:PMC3531190', 'MED:25780448'.",
      "type": "string"
    }
  },
  "required": [
    "article_id"
  ],
  "type": "object"
}

Examples (1)

{
  "article_id": ""
}

Identifiers

Catalog ID

tu_EuroPMCAnnot_get_article_annotations

Tool name

EuroPMCAnnot_get_article_annotations

Added

2026-04-30 22:47Z

Tags

tooluniverse