| name | GDKD-query |
| description | 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.
|
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)
