drug-discovery-prompts/upstream/K-Dense-AI-scientific-agent-skills/skills/database-lookup/references/clinpgx.md

title, task, lineage_type, upstream_source, upstream_sha, imported_at, prompt_class, upstream_changes, author, validated

title	task	lineage_type	upstream_source	upstream_sha	imported_at	prompt_class	upstream_changes	author	validated
PharmGKB (Clinical Pharmacogenomics)		import	https://github.com/K-Dense-AI/scientific-agent-skills/blob/9c9bd2e9/skills/database-lookup/references/clinpgx.md	9c9bd2e9	2026-06-26	prompt	accepted	upstream	false

PharmGKB (Clinical Pharmacogenomics)

Base URL

https://api.pharmgkb.org/v1/data/

Auth

No API key required for read-only access.

Key Endpoints

General search

GET https://api.pharmgkb.org/v1/search?q={term}&page=0&size=10

Gene data

GET /gene?symbol={symbol}

Example: /gene?symbol=CYP2D6

Response includes: id, symbol, chromosome, hasGuideline, hasClinicalAnnotation, cpicGene

Drug data

GET /drug?name={name}

Example: /drug?name=warfarin

Response includes: id, name, genericNames, tradeNames, rxNormId, atcCodes

Clinical annotations (drug-gene interactions)

GET /clinicalAnnotation?gene={symbol}&drug={name}&level={level}

Evidence levels: 1A, 1B, 2A, 2B, 3, 4

Example:

/clinicalAnnotation?gene=CYP2C19&drug=clopidogrel&level=1A

Response includes: level, gene, drug, phenotype, significance, variants, url

CPIC/DPWG guidelines

GET /guideline?gene={symbol}&drug={name}&source=CPIC

Pharmacokinetic pathways

GET /pathway?drug={name}

Drug labels (FDA, EMA)

GET /drugLabel?drug={name}&source=FDA

Rate Limits

No hard published limit. Be reasonable. Bulk data via PharmGKB download page.