GenePattern: Home

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GenePattern is a powerful genomic analysis platform that provides access to more than 180 tools for gene expression analysis, proteomics, SNP analysis, flow cytometry, RNA-seq analysis, and common data processing tasks. A web-based interface provides easy access to these tools and allows the creation of multi-step analysis pipelines that enable reproducible in silico research.

Getting Started

Learn to use GenePattern in 10 minutes:
Learn hands-on with the Quick Start tutorial
Learn by watching short video tutorials

Run analyses on the Broad public server
Use GenePattern to run analyses on a server at the Broad Institute.

Download GenePattern
GenePattern runs on Windows, Mac, and Linux.

RNA-seq Suite

GenePattern now offers a suite of tools to support a wide variety of RNA-seq analyses, including short-read mapping, identification of splice junctions, transcript and isoform detection, quantitation, and differential expression. Please see the overview for more information.

Modules from Recent Publications

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What's New

Follow GenePattern:

GenePattern Reproducible Research Document

The GenePattern Reproducible Research Document (GRRD) Add-In allows authors working in Word 2007 to embed and run GenePattern pipelines in their documents. Please see the overview to learn more about this functionality.

Citing GenePattern
Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP GenePattern 2.0 Nature Genetics 38 no. 5 (2006): pp500-501
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	Funded by the National Cancer Institute and the National Institute of General Medical Sciences.
	GenePattern is participating in the GenomeSpace initiative.