gene-set-enrichment

What problem does it solves? Interpreting lists of genes from genomic experiments (e.g., differential expression) is a complex, manual, and often overwhelming task. This Skill automates the process of identifying common biological pathways, functions, and disease associations, transforming raw gene lists into actionable biological insights.

Core Features & Use Cases

• Pathway & Disease Analysis: Automatically identify enriched biological pathways (KEGG, Reactome), processes (GO terms), and disease connections (OMIM) for your gene sets.
• Functional Interpretation: Discover common biological functions, tissue-specific expression patterns, and potential drug targets associated with your genes.
• Template-Based Analysis: Utilize a reusable template to easily input gene lists and specify analysis context, ensuring consistent and reproducible results.
• Use Case: After identifying 50 upregulated genes in a cancer study, use this Skill to quickly understand what biological processes these genes are involved in, which diseases they are linked to, and potential therapeutic implications, saving hours of manual database searching.

Quick Start

Perform quick gene set enrichment analysis on a list of human genes

uv run deep-research-client research
--template .claude/skills/gene-set-enrichment/examples/enrichment_template.md
--var "geneset=APOH APP COL3A1 VEGFA THBD"
--var "organism=human"
--provider perplexity
--model sonar-deep-research