Open targets

Skill BioTender-max/awesome-bio-agent-skills/skills/drugclaw/open_targets

A curated collection of AI agent skills for biomedical research, covering genomics, proteomics, single-cell analysis, clinical AI, and protein design.

Install

npx -y skills add BioTender-max/awesome-bio-agent-skills --skill open_targets

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Query the Open Targets Platform for drug-target-disease associations. Use whenever the user asks about drug targets, gene-disease associations, drug indications, clinical trial phases, or wants to look up any entity (Ensembl gene ID, ChEMBL drug ID, or free-text gene/drug name) in Open Targets. Also trigger when the user mentions Open Targets, ENSG IDs, CHEMBL IDs, or asks about target prioritization for diseases.

SKILL.md

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Open Targets Platform Query Skill

Query the Open Targets GraphQL API for drug, target, and disease association data. No API key required.

Entity Auto-Detection

Input Pattern	Detected As	Example
`ENSG00000...`	Target (Ensembl gene ID)	`ENSG00000146648` (EGFR)
`CHEMBL...`	Drug (ChEMBL ID)	`CHEMBL941` (Imatinib)
anything else	Free-text search	`BRCA1`, `aspirin`

API

Function	Input	Returns
`query(entity)`	single entity string	dict with type, name, associations
`query_batch(entities)`	list of entity strings	list[dict]
`summarize(result)`	query result dict	compact one-line text
`get_target_info(ensembl_id)`	Ensembl ID string	raw GraphQL response
`get_drug_info(chembl_id)`	ChEMBL ID string	raw GraphQL response
`search_entities(term)`	free-text string	raw GraphQL response

Return Format

Target result:

{"entity": "ENSG00000146648", "type": "target", "found": true,
 "symbol": "EGFR", "name": "epidermal growth factor receptor",
 "biotype": "protein_coding",
 "top_diseases": [{"disease": "lung carcinoma", "score": 0.78}]}

Drug result:

{"entity": "CHEMBL941", "type": "drug", "found": true,
 "name": "IMATINIB", "drug_type": "Small molecule",
 "max_phase": 4,
 "indications": [{"disease": "chronic myeloid leukemia", "phase": 4}]}

Search result:

{"entity": "BRCA1", "type": "search", "found": true,
 "hits": [{"id": "ENSG00000012048", "name": "BRCA1", "entity_type": "target"}]}

Usage

See if __name__ == "__main__" block in 12_Open_Targets_Platform.py for runnable examples covering: single target/drug/search query, batch query, and JSON output.

Source

Endpoint: https://api.platform.opentargets.org/api/v4/graphql
Docs: https://platform.opentargets.org/
Paper: https://doi.org/10.1093/nar/gkac1046