clinpgx-database

Featured

Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.

AI & Automation 2,489 stars 183 forks Updated 5 days ago Apache-2.0

Install

View on GitHub

Quality Score: 96/100

Stars 20%
100
Recency 20%
100
Frontmatter 20%
70
Documentation 15%
100
Issue Health 10%
50
License 10%
100
Description 5%
100

Skill Content

# ClinPGx Database ## Overview ClinPGx (Clinical Pharmacogenomics Database) is a comprehensive resource for clinical pharmacogenomics information, successor to PharmGKB. It consolidates data from PharmGKB, CPIC, and PharmCAT, providing curated information on how genetic variation affects medication response. Access gene-drug pairs, clinical guidelines, allele functions, and drug labels for precision medicine applications. ## When to Use This Skill This skill should be used when: - **Gene-drug interactions**: Querying how genetic variants affect drug metabolism, efficacy, or toxicity - **CPIC guidelines**: Accessing evidence-based clinical practice guidelines for pharmacogenetics - **Allele information**: Retrieving allele function, frequency, and phenotype data - **Drug labels**: Exploring FDA and other regulatory pharmacogenomic drug labeling - **Pharmacogenomic annotations**: Accessing curated literature on gene-drug-disease relationships - **Clinical decision support**: Using PharmDOG tool for phenoconversion and custom genotype interpretation - **Precision medicine**: Implementing pharmacogenomic testing in clinical practice - **Drug metabolism**: Understanding CYP450 and other pharmacogene functions - **Personalized dosing**: Finding genotype-guided dosing recommendations - **Adverse drug reactions**: Identifying genetic risk factors for drug toxicity ## Installation and Setup ### Python API Access The ClinPGx REST API provides programmatic access to all database...

Details

Author
foryourhealth111-pixel
Repository
foryourhealth111-pixel/Vibe-Skills
Created
5 months ago
Last Updated
5 days ago
Language
Python
License
Apache-2.0

Integrates with

Similar Skills

Semantically similar based on skill content — not just same category

API & Backend Solid

clinpgx-database

Query the ClinPGx (formerly PharmGKB) REST API plus the CPIC PostgREST companion API for pharmacogenomic clinical annotations, CPIC/DPWG dosing guidelines, gene-drug pairs, variant-drug associations, FDA/EMA drug labels, and PGx pathways. Two-host architecture: api.clinpgx.org for annotation records, api.cpicpgx.org for genotype→recommendation lookups. No auth. For germline pathogenicity use clinvar-database; for somatic cancer PGx use cosmic-database or opentargets-database; for drug bioactivity use chembl-database-bioactivity.

284 Updated 3 days ago
jaechang-hits
DevOps & Infrastructure Listed

genomics-precision-medicine

When the user wants to design, build, or integrate genomics and precision-medicine informatics. Use when the user mentions "genomics," "precision medicine," "VCF," "gVCF," "BAM," "CRAM," "FASTQ," "variant calling," "variant annotation," "HGVS," "ACMG," "AMP/CAP/ASCO," "ClinGen," "ClinVar," "PharmGKB," "CPIC," "pharmacogenomics," "PGx," "GA4GH," "VRS," "Phenopackets," "FHIR Genomics," "mCODE," "molecular tumor board," "liquid biopsy," "ctDNA," "MRD," "polygenic risk score," "PRS," "incidental findings," "ACMG SF," "GINA," "GRCh38," or "T2T-CHM13." For broader clinical AI lifecycle, see clinical-ai-ml. For SaMD on genomic algorithms, see fda-samd. For the EHR integration of orders/results, see ehr-integration and fhir-integration.

1 Updated 2 days ago
aks-builds
API & Backend Solid

cbioportal-database

Cancer genomics (TCGA et al.) via cBioPortal REST API. Retrieve somatic mutations, CNAs, expression, clinical data (survival/stage/treatment) across thousands of studies. Use for TMB, oncoprints, survival analysis. For population frequencies use gnomad-database; for drug-gene interactions use opentargets-database.

284 Updated 3 days ago
jaechang-hits