String Database
This connects Claude to the STRING database's 59 million proteins and 20 billion interaction records across 5000+ species. You get six core functions: map gene names to STRING IDs, pull interaction networks with confidence scores, generate network visualizations, discover interaction partners, run GO/KEGG enrichment analysis, and test if protein sets are significantly connected. The confidence thresholds matter here: 400 is standard, 700 is high confidence, 900 is very stringent. It's built for systems biology work where you need to move quickly from a gene list to pathway context or from one protein to its functional neighborhood. The enrichment uses Fisher's exact test with FDR correction, so the statistics are proper.
- skills.sh installs
- 255
- GitHub stars
- 33.2K
- last updated
- Aug 21, 2026
Install
$ npx -y skills add davila7/claude-code-templates --skill string-database --agent claude-codeInstalls into .claude/skills of the current project.
Files
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:
- Python helper functions (
scripts/string_api.py) for all STRING REST API operations - Comprehensive reference documentation (
references/string_reference.md) with detailed API specifications
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- Repository
- github.com/davila7/claude-code-templates
- Categories
- Backend & APIs, Sales & Marketing, Design & UI/UX, Databases
- First seen
- Jun 3, 2026
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