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Nucleic Acids Research Advance Access published online on May 27, 2009
Nucleic Acids Research, doi:10.1093/nar/gkp432
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© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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PathExpress update: the enzyme neighbourhood method of associating gene-expression data with metabolic pathways

Nicolas Goffard1,2, Tancred Frickey1 and Georg Weiller1,*

1ARC Centre of Excellence for Integrative Legume Research, Genomic Interactions Group, School of Biology, Australian National University, Canberra ACT 2601, Australia and 2Institut Louis Malardé, Papeete, Tahiti, French Polynesia

*To whom correspondence should be addressed. Tel: +61 2 6125 5916; Fax: +61 2 6125 7879; Email: Georg.Weiller{at}anu.edu.au

Received February 1, 2009. Revised April 21, 2009. Accepted May 11, 2009.

The post-genomic era presents us with the challenge of linking the vast amount of raw data obtained with transcriptomic and proteomic techniques to relevant biological pathways. We present an update of PathExpress, a web-based tool to interpret gene-expression data and explore the metabolic network without being restricted to predefined pathways. We define the Enzyme Neighbourhood (EN) as a sub-network of linked enzymes with a limited path length to identify the most relevant sub-networks affected in gene-expression experiments. PathExpress is freely available at: http://bioinfoserver.rsbs.anu.edu.au/utils/PathExpress/.


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