string-database

# STRING Database ## Overview STRING is a comprehensive database of known and predicted protein-protein interactions covering 59M proteins and 20B+ interactions across 5000+ organisms. Query interaction networks, perform functional enrichment, discover partners via REST API for systems biology and pathway analysis. ## When to Use This Skill This skill should be used when: - Retrieving protein-protein interaction networks for single or multiple proteins - Performing functional enrichment analysis (GO, KEGG, Pfam) on protein lists - Discovering interaction partners and expanding protein networks - Testing if proteins form significantly enriched functional modules - Generating network visualizations with evidence-based coloring - Analyzing homology and protein family relationships - Conducting cross-species protein interaction comparisons - Identifying hub proteins and network connectivity patterns ## Quick Start The skill provides: 1. Python helper functions (`scripts/string_api.py`) for all STRING REST API operations 2. Comprehensive reference documentation (`references/string_reference.md`) with detailed API specifications When users request STRING data, determine which operation is needed and use the appropriate function from `scripts/string_api.py`. ## Core Operations ### 1. Identifier Mapping (`string_map_ids`) Convert gene names, protein names, and external IDs to STRING identifiers. **When to use**: Starting any STRING analysis, validating protein names, findi...