Gdkd

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

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 gdkd

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Query the Gene-Drug Knowledge Database (GDKD) for variant-specific gene–drug associations in oncology. Use when the user asks about cancer genomic biomarkers, drug sensitivity/resistance by gene or variant, targetable mutations, or clinical evidence for cancer therapeutics.

SKILL.md

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GDKD Query Skill

Search canonical GDKD rows by drug or gene entity. Auto-detects input type by pattern:

Input Pattern	Detected As	Match Logic
`ABL1`, `EGFR`	Gene symbol	substring on `gene`
`imatinib`, `erlotinib`	Drug name	substring on `drug`
anything else	Free text	substring on `drug` OR `gene`

API

Function	Input	Returns
`load_gdkd(path)`	CSV path	`list[dict]`
`search(rows, entity)`	single entity string	`list[dict]`
`search_batch(rows, entities)`	list of entity strings	`dict[str, list[dict]]`
`summarize(hits, entity)`	rows + label	compact text
`to_json(hits)`	rows	`list[dict]`

Usage

See if __name__ == "__main__" block in example.py for runnable examples.

Data

Source: GDKD normalized full-package output
Paper: Dienstmann et al., Cancer Discovery 2015;5(2):118-123
Format: CSV
Columns: drug, gene, score, source
Path: resources_metadata/dti/GDKD/gdkd.csv (default DATA_PATH in example.py)