SEGS: Search for enriched gene sets in microarray data
Journal of Biomedical Informatics
Point-distribution algorithm for mining vector-item patterns
Proceedings of the ACM SIGKDD Workshop on Useful Patterns
A hypothesis test for equality of bayesian network models
EURASIP Journal on Bioinformatics and Systems Biology
GeneFuncster: a web tool for gene functional enrichment analysis and visualisation
CMSB'12 Proceedings of the 10th international conference on Computational Methods in Systems Biology
MaskedPainter: Feature selection for microarray data analysis
Intelligent Data Analysis
Curbing false discovery rates in interpretation of genome-wide expression profiles
Journal of Biomedical Informatics
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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 previous release through the addition of a leading edge analysis component, seamless integration with the Molecular Signature Database (MSigDB) and an embedded browser that allows users to search for gene sets and map them to a variety of microarray platform formats. This functionality makes it possible for users to directly import gene sets from MSigDB for analysis with GSEA. We have also improved the visualizations in GSEA-P 2.0 and added links to a new form of concise gene set annotations called Gene Set Cards. These additions, as well as other improvements suggested by over 3500 users who have downloaded the software over the past year have been incorporated into this new release of the GSEA-P Java desktop program. Availability:GSEA-P 2.0 is freely available for academic and commercial users and can be downloaded from http://www.broad.mit.edu/GSEA Contact: mesirov@broad.mit.edu Supplementary information: Supplementary data are available at Bioinformatics online.