Individual skill
string-database
Access the STRING database to map identifiers, retrieve protein–protein interaction networks, and run functional/PPI enrichment when you need interaction context for a gene/protein set.
scientific-skills/Evidence Insight/string-database/SKILL.md
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- bioinformatics Repository topic
- computational-biology Repository topic
- data-analysis Repository topic
- ai Repository topic
- biology Repository topic
- cancer-genomics Repository topic
- data-visualization Repository topic
- differential-expression Repository topic
- genomics Repository topic
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- data-databases Derived category
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SKILL.mdcore · 3,716 bytesSKILL.mdcore · 3,716 bytesSKILL.mdcore · 3,716 bytesreferences/string_reference.mddoc · 1,431 bytesscripts/__init__.pyruns · 0 bytesscripts/string_api.pyruns · 9,190 bytesstring-database_audit_result_v1.jsonasset · 12,234 bytes
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> **Source**: [https://github.com/aipoch/medical-research-skills](https://github.com/aipoch/medical-research-skills)
## When to Use
- You have gene symbols (e.g., `TP53`) and need to resolve them to STRING protein identifiers for downstream analysis.
- You want to retrieve a protein–protein interaction (PPI) network (functional/physical) with confidence scores for one or more proteins.
- You need to find interaction partners for a target protein to expand a candidate list (e.g., add top N neighbors).
- You want to perform functional enrichment (GO/KEGG/Reactome, etc.) for a protein set to interpret biological themes.
- You need a quick static visualization (PNG/SVG) of a STRING network for reports or notebooks.
## Key Features
- **ID Mapping**: Convert gene/protein names to STRING identifiers for a given organism.
- **Network Retrieval**: Fetch interaction edges with confidence scores from STRING.
- **Interaction Partners**: Expand a protein list by retrieving interaction partners.