coresh-signature-search
CommunityUncover GEO contexts for your gene signature.
Authortony-zhelonkin
Version1.0.0
Installs0
System Documentation
What problem does it solve?
CORESH enables researchers to connect short, 10-200 gene signatures to biological contexts by ranking tens of thousands of public GEO datasets for co-regulation, providing a data-driven path to hypothesis generation and context-aware interpretation.
Core Features & Use Cases
- Data-driven dataset ranking: evaluates how strongly a user-supplied gene signature co-varies across GEO datasets, returning a pctVar score and optional GESECA p-value.
- Derived gene sets for GSEA: uses the CoReSh-to-GSEA bridge to extract co-moving genes and generate data-driven GMTs for downstream analysis.
- Cross-species and programmatic use: supports human/mouse comparisons and both web UI and local/R-based workflows for scalable pipelines.
Quick Start
Provide a short gene signature (10-200 genes) and run the CORESH workflow to rank GEO datasets by co-regulation and generate data-driven gene sets for GSEA.
Dependency Matrix
Required Modules
None requiredComponents
references
💻 Claude Code Installation
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Please help me install this Skill: Name: coresh-signature-search Download link: https://github.com/tony-zhelonkin/SciAgent-toolkit/archive/main.zip#coresh-signature-search Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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