UNLABELLED: Gene Set Enrichment Analysis (GSEA) is a computational method that assesses whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states. We report the availability of a new version of the Java based software (GSEA-P 2.0) that represents a major improvement on the. 15) Install GSEA. Go to the GSEA page Register Login In menu, choose Downloads Go to the javaGSEA Java Jar file section and download the gsea-3.0.jar file and save in your Documents folder (do not leave it in the “Downloads”folder). To run GSEA during the workshop, you must use the command line.
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).
Gsea Install
Download the GSEA software and additional resources to analyze, annotate and interpret enrichment results.
Explore the Molecular Signatures Database (MSigDB), a collection of annotated gene sets for use with GSEA software.
View documentation describing GSEA and MSigDB.
View guidelines for using RNA-seq datasets with GSEA.
Use the GenePattern platform to run analyses, including classical GSEA and a variation designed for single-sample analysis (ssGSEA).
What's New
19-Sep-2020: MSigDB 7.2 released. This release includes a substantial reorganization of C5 to accommodate the addition of the Human Phenotype Ontology, the addition of gene sets from WikiPathways to C2:CP, and the promotion of SCSig to C8, among other minor updates and additions. See the release notes for details.
30-Jul-2020: GSEA 4.1.0 released. This release includes improved support for macOS Catalina, updated and improved Enrichment Reports, and numerous bug fixes. See the release notes for more information.
30-Mar-2020: MSigDB 7.1 released. New C3 sub-collections from the Gene Transcription Regulation Database and miRDB. Updated gene sets from Reactome 72 and GO (as of Jan 15, 2020). Gene annotations updated to Ensembl 99. See the release notes for details.
Gsea Java
28-Feb-2020: We've added a new integration to the NDExProject IQuery tool on our Investigate Gene Sets page. To use it from a Gene Set just click on the Advanced query 'Further investigate' link.
20-Aug-2019: MSigDB 7.0 released. This is a major release that includes a complete overhaul of gene symbol annotations, Reactome and GO gene sets, and corrections to miscellaneous errors. See the release notes for more information.
20-Aug-2019: GSEA 4.0.0 released. This release includes support for MSigDB 7.0, plus major internal updates for Java 11 support and performance improvements. See the release notes for more information.