Nucleic Acids Research Advance Access published online on June 22, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm261
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PathExpress: a web-based tool to identify relevant pathways in gene expression data
ARC Centre of Excellence for Integrative Legume Research and Bioinformatics Laboratory, Genomic Interactions Group, Research School of Biological Sciences, Australian National University, GPO Box 475, Canberra, ACT 2601 Australia
*To whom correspondence should be addressed. Tel: +61 2 6125 5916; Fax: +61 2 6125 7879; Email: Georg.Weiller{at}anu.edu.au
Received January 30, 2007. Revised March 30, 2007. Accepted April 8, 2007.
PathExpress is a web-based tool developed to interpret gene expression data obtained from microarray experiments by identifying the most relevant metabolic pathways associated with a subset of genes (e.g. differentially expressed genes). A graphical pathway representation permits the visualization of the expressed genes in a functional context. Based on the publicly accessible KEGG Ligand database, PathExpress can be adapted to any organism and is currently available for seven Affymetrix genome arrays. About 20% of the probe sets of each array have been assigned to Enzyme Commission numbers by homology relationship and linked to corresponding metabolic pathways.
PathExpress is available at http://bioinfoserver.rsbs.anu.edu.au/utils/PathExpress/.
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