Query Reactome ContentService and AnalysisService APIs for pathway and gene information.
npx skills add https://github.com/yf8578/clawomics --skill query-reactome-yf8578
Please help me install this Agent Skill. Skill: query-reactome Source: https://github.com/yf8578/clawomics/tree/main/skills/query-reactome Command: npx skills add https://github.com/yf8578/clawomics --skill query-reactome-yf8578
This Skill helps researchers and bioinformaticians understand complex biological processes by querying the Reactome database for pathways, reactions, and gene information.
Use the query-reactome skill to search for pathways related to 'cell cycle'.
High-intent search queries and answers about installing and using this skill.
Pathway enrichment analysis on a list of genes is performed by querying the Reactome AnalysisService API to identify over-represented biological pathways. This allows researchers to determine which pathways are significantly affected in their specific study context.
Biological pathway information retrieved from the Reactome database includes pathway details, reaction mechanisms, and pathway participants. Querying the ContentService API allows users to search pathways by keyword and look up specific gene information within Reactome.
Searching for biological pathways by specific keywords like DNA repair is supported through the Reactome ContentService API. This returns matching pathways and reaction mechanisms, enabling targeted discovery of molecular processes related to the search terms.
Finding reaction mechanisms and participants for a specific biological pathway involves fetching detailed pathway information via the Reactome ContentService API. This provides a breakdown of the molecular participants and the specific reactions that constitute the pathway.
Querying Reactome for gene enrichment and molecular mechanisms is best handled by utilizing the AnalysisService for gene list enrichment and the ContentService for reaction mechanisms. This approach provides comprehensive pathway analysis by leveraging both APIs to map genes to biological processes.
Yezez9Query Reactome REST API for pathway enrichment and gene-pathway mapping.
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