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aav-vector-design-agent
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BI
bio-clinical-databases-pharmacogenomics
Maintainer FreedomIntelligence · Last updated April 1, 2026
Query PharmGKB and CPIC for drug-gene interactions, pharmacogenomic annotations, and dosing guidelines. Use when predicting drug response from genetic variants or implementing clinical pharmacogenomics.
Original source
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-clinical-databases-pharmacogenomics
- Maintainer
- FreedomIntelligence
- License
- MIT
- Last updated
- April 1, 2026
Skill Snapshot
Key Details From SKILL.md
Key Notes
- PM: 0.
- IM: 0 < score <= 1.25.
- NM: 1.25 < score <= 2.25.
- UM: > 2.25 (gene duplications).
- CYP2D6_ACTIVITY = { '1': 1.0, # Normal function '2': 1.0, # Normal function '3': 0.0, # No function '4': 0.0, # No function '5': 0.0, # Gene deletion '6': 0.0, # No function '9': 0.5, # Decreased function '10': 0.25, # Decreased function (common in East Asian) '17': 0.5, # Decreased function '41': 0.5, # Decreased function }.
Source Doc
Excerpt From SKILL.md
Star Allele Interpretation
Goal: Determine metabolizer phenotype from CYP star allele diplotypes using CPIC activity scores.
Approach: Sum per-allele activity scores and classify into PM/IM/NM/UM categories based on CPIC thresholds.
Drug Interaction Lookup
Goal: Check whether a specific drug-gene-variant combination has a known pharmacogenomic interaction.
Approach: Query PharmGKB variant annotation endpoint filtered by drug and gene, then match to the target variant.
Common PGx Gene-Drug Pairs
| Gene | Drugs | Clinical Impact |
|---|---|---|
| CYP2D6 | Codeine, tamoxifen, ondansetron | Efficacy, toxicity |
| CYP2C19 | Clopidogrel, omeprazole, escitalopram | Efficacy, dosing |
| CYP2C9 | Warfarin, phenytoin, NSAIDs | Bleeding risk, dosing |
| VKORC1 | Warfarin | Dosing |
| TPMT | Azathioprine, mercaptopurine | Myelosuppression |
| DPYD | Fluorouracil, capecitabine | Severe toxicity |
| HLA-B*57:01 | Abacavir | Hypersensitivity |
| HLA-B*15:02 | Carbamazepine | SJS/TEN |
| SLCO1B1 | Simvastatin | Myopathy risk |
| UGT1A1 | Irinotecan | Neutropenia |
Use cases
- Use when predicting drug response from genetic variants or implementing clinical pharmacogenomics.
Not for
- Do not rely on this catalog entry alone for installation or maintenance details.
Upstream Related Skills
- clinical-databases/clinvar-lookup - Pathogenicity classification
- variant-calling/clinical-interpretation - ACMG guidelines
- clinical-databases/variant-prioritization - Clinical filtering
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