Overview

Gene Set Enrichment Analysis (GSEA) is a computational method that determines whether an a priori defined set of genes shows statistically
significant, concordant differences between two biological states
(e.g. phenotypes).

From this web site, you can:

What's New

23-Jan-2014: Version 2.0.14 of the GSEA desktop application is now available, which contains a number of upgrades and bug fixes. See the GSEA v2.0.14 Release Notes for details.

20-Dec-2013: The Broad Institute will be closed from December 23, 2013 through January 1, 2014. The GSEA/MSigDB team will respond to help questions when we are back in the office on January 2, 2014.

05-Jun-2013: Version 4.0 of the Molecular Signatures Database (MSigDB) is now available, which includes a new gene set collection (C7) of 1,910 immunologic signatures generated as part of the Human Immunology Project Consortium. We also released a newer version (2.0.13) of the GSEA desktop application. There were no changes to the GSEA algorithm.

29-May-2013: GSEA and MSigDB may experience intermittent connectivity issues on Monday, June 3rd between the hours of 6AM and 9AM (Eastern Time).

08-Apr-2013: Version 2.0.12 of the GSEA desktop application is now available. Version 3.87 of the public web site is now available, which includes a number of bug fixes and enhancements of the Compute Overlaps tool. Please refer to the release notes for further details.

17-Jan-2013: Version 2.0.10 of the GSEA desktop application is now available. This version fixes recent FTP access issues.

15-Oct-2012: Version 3.1 of the Molecular Signatures Database (MSigDB) is now available. Highlights include:

  1. more than 1,000 new gene sets curated from publications,
  2. a new collection of gene sets representing oncogenic pathway activation modules,
  3. two new sources of gene sets representing canonical pathways, and
  4. an improved mapping to common gene identifiers for all gene sets.
See the MSigDB 3.1 Release Notes for details. A minor update of the GSEA desktop application has also been released. See the GSEA 2.0.8 Release Notes for details.

01-Oct-2012: We recently submitted a manuscript to Statistical Methods in Medical Research which provides a systematic comparison of the GSEA method with other methods employing a "simpler" t-test assessment of enrichment.

01-Oct-2012: We now have a CiteULike page where users can browse a list of all citations of the GSEA algorithm.

Registration

Please register to download the GSEA software and view the MSigDB gene sets. After registering, you can log in at any time using your email address. Registration is free. Its only purpose is to help us track usage for reports to our funding agencies.

Contributors

GSEA and MSigDB are maintained by the GSEA team with the support of our MSigDB Scientific Advisory Board. Our thanks to our many contributors. Funded by: National Cancer Institute, National Institutes of Health, National Institute of General Medical Sciences.

Citing GSEA

To cite your use of the GSEA software, please reference Subramanian, Tamayo, et al. (2005, PNAS 102, 15545-15550) and Mootha, Lindgren, et al. (2003, Nat Genet 34, 267-273).