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primekg

Query the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biological data including genes, drugs, diseases, phenotypes, and more.

backend/cli/skills/databases/primekg/SKILL.md

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Repository stars (not skill ratings): 4,357
Repository last updated: Nov 7, 2026
License: Apache-2.0

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# PrimeKG Knowledge Graph Skill

## Overview

PrimeKG is a precision medicine knowledge graph that integrates over 20 primary databases and high-quality scientific literature into a single resource. It contains over 100,000 nodes and 4 million edges across 29 relationship types, including drug-target, disease-gene, and phenotype-disease associations.

**Key capabilities:**
- Search for nodes (genes, proteins, drugs, diseases, phenotypes)
- Retrieve direct neighbors (associated entities and clinical evidence)
- Analyze local disease context (related genes, drugs, phenotypes)
- Identify drug-disease paths (potential repurposing opportunities)

**Data access:** Programmatic access via `query_primekg.py`. Data is stored at `C:\Users\eamon\Documents\Data\PrimeKG\kg.csv`.