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

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

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 more...

What's New

11/9/2009: GenePattern 3.2.1 is now available. Run analyses on the Broad server or download GenePattern. This release includes support for Java 6. For more information, see the release notes.

10/15/2009: Two GenePattern video tutorials are now available.

9/18/2009: Cancer Outlier Profile Analysis (COPA) is now available on the GenePattern public server. An adaptation of the Bioconductor package (copa) by MacDonald (2006), the analysis can be used to identify recurrent chromosomal translocations in microarray data.

6/22/2009: GenePattern 3.2 is now available. New features include the ability to share analysis result files and new pages for tracking and reviewing analysis jobs. For more information, see the release notes.

5/29/2009: The FLAME modules are now available on the GenePattern public server. They can be used to define and characterize discrete populations in flow cytometric data using FLow analysis with Automated Multivariate Estimation as published by Pyne, et al. in PNAS (2009) 106:8519-8524.

3/10/2009: The ESPPredictor module is now available on the GenePattern public server. It provides a means of predicting, from sequence alone, which peptides for any given protein are likely to work well for targeted mass spec assay development, as described by Fusaro, V., et al. in Nature Biotechnology (2009) 27:190-198.

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Winner of the Editor's Choice award for the 2005 BioIT World Best Practices competition.