SEGS: Search for enriched gene sets in microarray data

Gene Ontology (GO) terms are often used to interpret the results of microarray experiments. The most common approach is to perform Fisher's exact tests to find gene sets annotated by GO terms which are over-represented among the genes declared to be differentially expressed in the analysis of microarray data. Another way is to apply Gene Set Enrichment Analysis (GSEA) that uses predefined gene sets and ranks of genes to identify significant biological changes in microarray data sets. However, after correcting for multiple hypotheses testing, few (or no) GO terms may meet the threshold for statistical significance, because the relevant biological differences are small relative to the noise inherent to the microarray technology. In addition to the individual GO terms, we propose testing of gene sets constructed as intersections of GO terms, Kyoto Encyclopedia of Genes and Genomes Orthology (KO) terms, and gene sets constructed by using gene

• Type: Journal
• Year: 2008
• Where: JBI
• Authors: Igor Trajkovski, Nada Lavrac, Jakub Tolar
• Keywords: Gene Sets, GO Terms, JBI 2004, JBI 2008, Microarray Data