What is the Reactome Database skill for Claude?

It is a specialized capability that allows Claude to interact with the Reactome REST API to perform pathway analysis, query molecular interactions, and conduct gene enrichment studies.

How long are analysis results valid?

Reactome provides analysis tokens that remain valid for 7 days, allowing you to retrieve results or view them in the Reactome Pathway Browser across different sessions.

Can I analyze my own expression data with this skill?

Yes, you can submit quantitative expression data in TSV format to identify pathways that are significantly correlated with your experimental values.

Which biological identifiers 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.

Does this skill require the reactome2py package?

While the skill includes support for reactome2py, it also provides direct REST API integration which is recommended for accessing the most up-to-date Reactome features.

Reactome Database Integration

Name: Reactome Database Integration
Author: lifangda

bylifangda

•

Data Science & ML

Integrates Reactome's curated pathway database into Claude for advanced systems biology research and gene enrichment analysis.

This skill empowers researchers and bioinformaticians to perform complex systems biology tasks directly through Claude, including pathway enrichment analysis, gene-to-pathway mapping, and the exploration of molecular interactions. By leveraging the Reactome REST API and Python client, it facilitates the analysis of gene expression datasets, identification of statistically significant biological pathways, and visualization of results. It is an essential tool for high-throughput biological data interpretation, providing access to over 2,800 human pathways and tens of thousands of curated reactions.

Key Features

01Direct access to Reactome Content and Analysis REST APIs

02Quantitative expression data analysis for pathway identification

03Support for multiple identifier types including UniProt, Ensembl, and Entrez

04Automated species projection to map non-human data to human pathways

05Overrepresentation analysis for gene and protein lists

0616 GitHub stars

Use Cases

01Identifying enriched pathways from experimental gene or protein lists

02Automating bioinformatics workflows using the reactome2py Python package

03Exploring disease-related molecular mechanisms and interactions

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add lifangda/claude-plugins reactome-database

For use in Claude.ai and ChatGPT

Download Skill