Nucleic Acids Res. 2007 Jul;35(Web Server issue):W186-92. Epub 2007 May 25.

GeneTrail--advanced gene set enrichment analysis.

Backes C, Keller A, Kuentzer J, Kneissl B, Comtesse N, Elnakady YA, Müller R, Meese E, Lenhof HP.

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Center for Bioinformatics, Saarland University, Building E1.1, 66041 Saarbrücken, Germany. cbackes@bioinf.uni-sb.de

Abstract

We present a comprehensive and efficient gene set analysis tool, called 'GeneTrail' that offers a rich functionality and is easy to use. Our web-based application facilitates the statistical evaluation of high-throughput genomic or proteomic data sets with respect to enrichment of functional categories. GeneTrail covers a wide variety of biological categories and pathways, among others KEGG, TRANSPATH, TRANSFAC, and GO. Our web server provides two common statistical approaches, 'Over-Representation Analysis' (ORA) comparing a reference set of genes to a test set, and 'Gene Set Enrichment Analysis' (GSEA) scoring sorted lists of genes. Besides other newly developed features, GeneTrail's statistics module includes a novel dynamic-programming algorithm that improves the P-value computation of GSEA methods considerably. GeneTrail is freely accessible at http://genetrail.bioinf.uni-sb.de.

PMID:: 17526521; [PubMed - indexed for MEDLINE]
PMCID:: PMC1933132

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