Web site v3.87 Release Notes

<a href="http://www.broadinstitute.org/gsea/">GSEA Home</a> | <a href="http://www.broadinstitute.org/gsea/downloads.jsp">Downloads</a> | <a href="http://www.broadinstitute.org/gsea/msigdb/">Molecular Signatures Database</a> | <a href="http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Main_Page">Documentation</a> | <a href="http://www.broadinstitute.org/gsea/contact.jsp">Contact</a>

Release 3.87 of the GSEA public Web site contains several updates and bug fixes, including:

• The Web site now exposes all gene set original members, in addition to the corresponding Entrez Gene IDs and gene symbols; unmapped members are indicated with a grey background and titleAdding FDR q-values to the Compute Overlaps output: Compute Overlaps now reports both raw hypergeometric p-values and their analogs after multiple test corrections according to Benjamini and Hochberg. For more information, see the Compute Overlaps Help page.
• Modifying the Compute Overlaps procedure: Previously, gene universe (N) was defined as a union of the sets selected for testing and those from the input list. This caused N to vary and also affected the final p-values. The revised procedure defines the gene universe as all human gene symbols derived from the current version of the human Entrez Gene IDs, which provides a standard N = 46576, now used throughout Compute Overlaps. For more information, see the Compute Overlaps Help page
• Fixing broken links that caused a 404 error when trying to download a number of gene set collections from the About Collections page.