Does this skill require specific Python packages?

While it can utilize the reactome2py package, it is optimized to use direct REST API calls for the most up-to-date database functionality and features.

What is the Reactome Database skill?

It is a specialized capability for Claude Code that enables programmatic access to the Reactome pathway database for biological data analysis and research.

Can I perform pathway enrichment with this skill?

Yes, the skill supports overrepresentation analysis for gene and protein lists using the Reactome Analysis Service to identify statistically significant pathways.

What identifier types are supported?

The skill supports a wide range of identifiers including UniProt accessions, Gene symbols, Ensembl IDs, EntrezGene IDs, and ChEBI IDs for small molecules.

Can I visualize the analysis results?

Yes, the skill provides methods to generate visualization URLs that allow you to view your specific analysis results within the Reactome Pathway Browser.

Reactome Biological Pathway Analysis

Name: Reactome Biological Pathway Analysis
Author: ovachiever

byovachiever

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数据科学与机器学习

Automates querying the Reactome pathway database for gene enrichment, molecular interactions, and systems biology research.

This skill empowers researchers and developers to interact seamlessly with the Reactome pathway database, an open-source, curated resource for human biological processes. It facilitates complex bioinformatics tasks such as overrepresentation analysis of gene lists, mapping proteins to specific signaling pathways, and analyzing quantitative expression data to identify biological signatures. By providing direct integration with Reactome’s Content and Analysis REST APIs, it streamlines the workflow for systems biology studies, disease mechanism exploration, and comparative species analysis directly within the Claude Code environment.

主要功能

01Quantitative expression data analysis for identifying pathway perturbations

025 GitHub stars

03Direct querying of biological entities, reactions, and molecular complexes

04Integration with the Reactome Pathway Browser for interactive visual exploration

05Pathway enrichment and overrepresentation analysis for gene/protein lists

06Support for multiple identifiers including UniProt, Ensembl, and Gene Symbols

使用场景

01Conducting comparative pathway analysis across species to study conserved processes

02Mapping high-throughput proteomics data to human signaling and metabolic networks

03Identifying statistically significant biological pathways from differential expression results

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add ovachiever/droid-tings reactome-database

For use in Claude.ai and ChatGPT

Download Skill