How do I visualize the interaction networks?

The skill includes helper functions to generate PNG visualizations that can be colored by evidence type, confidence scores, or functional actions (activation/inhibition).

What is the STRING database skill used for?

It is used to query protein-protein interactions, perform functional enrichment analysis, and visualize biological networks across thousands of species directly within your coding environment.

Can I perform enrichment analysis with this skill?

Yes, it supports functional enrichment for Gene Ontology (GO), KEGG pathways, Pfam domains, InterPro, and UniProt keywords.

Does this skill support multiple organisms?

Yes, it supports over 5,000 organisms including human (9606), mouse (10090), and fruit fly (7227) via NCBI taxon IDs.

What identification formats does it support?

It includes an ID mapping tool to convert common gene names, protein names, and external identifiers into canonical STRING IDs for faster querying.

STRING Protein Interaction Database

Name: STRING Protein Interaction Database
Author: Yezez9

byYezez9

0•

Data Science & ML

Queries the STRING database to analyze protein-protein interaction networks and perform functional enrichment for systems biology.

The STRING Database skill integrates one of the world's most comprehensive protein interaction resources directly into your development workflow. It enables researchers to query over 20 billion interactions across 5,000 organisms, providing specialized tools for identifier mapping, network retrieval, and evidence-based analysis. Whether you are identifying hub proteins, performing Gene Ontology (GO) and KEGG enrichment, or generating publication-quality network visualizations, this skill streamlines the transition from raw genomic or proteomic data to biological insight.

Key Features

010 GitHub stars

02High-quality network visualization generation in PNG format

03Protein interaction network retrieval and evidence analysis

04Statistical PPI enrichment testing to validate functional modules

05Functional enrichment analysis for GO, KEGG, Pfam, and InterPro

06Automated identifier mapping for 5,000+ species

Use Cases

01Identifying novel interaction partners and hub proteins in signaling pathways

02Analyzing differentially expressed genes to discover functional connectivity

03Conducting cross-species homology and protein family comparisons

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent string-database

For use in Claude.ai and ChatGPT

Key Features

010 GitHub stars

02High-quality network visualization generation in PNG format

03Protein interaction network retrieval and evidence analysis

04Statistical PPI enrichment testing to validate functional modules

05Functional enrichment analysis for GO, KEGG, Pfam, and InterPro

06Automated identifier mapping for 5,000+ species

Use Cases

01Identifying novel interaction partners and hub proteins in signaling pathways

02Analyzing differentially expressed genes to discover functional connectivity

03Conducting cross-species homology and protein family comparisons

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent string-database

For use in Claude.ai and ChatGPT