CLENCH is a program for calculating cluster enrichment using the Gene Ontology. Analysis of microarray data most often produces lists of genes with similar expression patterns, which are then subdivided into functional categories for biological interpretation. Such functional categorization is most commonly accomplished using Gene Ontology (GO) categories. Although there are several programs that identify and analyze functional categories for human, mouse and yeast genes none, of them accept Arabidopsis thaliana data. In order to address this need for A. thaliana community, we have developed a program that retrieves GO annotations for A. thaliana genes and performs functional category analysis for lists of genes selected by the user.
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Bioinformatics. 2004 May 1;20(7):1196-7. Epub 2004 Feb 5.
CLENCH: a program for calculating Cluster ENriCHment using the Gene Ontology.
Shah NH, Fedoroff NV.