How do I visualize the results of my pathway analysis?

The skill can generate specific URLs using analysis tokens that link directly to the Reactome Pathway Browser for interactive visualization.

How long are analysis tokens valid?

Analysis tokens generated through the Reactome Analysis Service are valid for 7 days, allowing you to retrieve or visualize results across different sessions.

Does this skill support species other than humans?

Yes, while Reactome is human-centric, the skill supports species comparison and can project identifiers from other organisms onto human pathways.

What types of identifiers does the Reactome Database skill support?

It supports a wide range of biological identifiers including UniProt accessions, Gene Symbols, Ensembl IDs, EntrezGene IDs, and ChEBI IDs for small molecules.

Can I perform statistical analysis on gene expression data?

Yes, the skill can process TSV-formatted expression data to identify enriched pathways, providing p-values and False Discovery Rate (FDR) metrics.

Reactome Database

Name: Reactome Database
Author: K-Dense-AI

byK-Dense-AI

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3,719

데이터 과학 및 ML

Facilitates systems biology research by querying the Reactome REST API for pathway analysis, gene mapping, and molecular interactions.

소개

This skill empowers Claude to interact with the Reactome knowledgebase, a premier open-source resource for biological pathways and molecular reactions. It allows researchers and developers to perform complex bioinformatics tasks such as overrepresentation analysis for gene lists, quantitative expression data mapping, and deep queries into biological hierarchies across thousands of human pathways. By integrating Reactome's Content and Analysis services, the skill translates raw genomic or proteomic data into functional biological insights, providing critical statistical metrics and visualization links for the Reactome Pathway Browser.

주요 기능

Pathway overrepresentation analysis for gene and protein lists
Multi-format identifier mapping (UniProt, Ensembl, Entrez, Gene Symbols)
3,719 GitHub stars
Cross-species comparison and projection to human biological pathways
Quantitative expression data analysis with statistical metrics
Comprehensive querying of 2,800+ human pathways and 16,000+ reactions

사용 사례

Generating interactive visualization links for the Reactome Pathway Browser based on custom datasets
Identifying statistically significant pathways from differentially expressed gene lists
Retrieving molecular interaction data and reaction hierarchies for drug target discovery

소개

주요 기능

Pathway overrepresentation analysis for gene and protein lists
Multi-format identifier mapping (UniProt, Ensembl, Entrez, Gene Symbols)
3,719 GitHub stars
Cross-species comparison and projection to human biological pathways
Quantitative expression data analysis with statistical metrics
Comprehensive querying of 2,800+ human pathways and 16,000+ reactions

사용 사례

Generating interactive visualization links for the Reactome Pathway Browser based on custom datasets
Identifying statistically significant pathways from differentially expressed gene lists
Retrieving molecular interaction data and reaction hierarchies for drug target discovery