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Nucleic Acids Research Advance Access published online on June 6, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn284
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© 2008 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.

Web Server Issue

Comparative Pathway Analyzer—a web server for comparative analysis, clustering and visualization of metabolic networks in multiple organisms

Sebastian Oehm1,5,*, David Gilbert2, Andreas Tauch1,3, Jens Stoye1,4 and Alexander Goesmann1,5

1Center for Biotechnology (CeBiTec), Bielefeld University, D-33594 Bielefeld, Germany, 2Bioinformatics Research Centre, University of Glasgow, Glasgow G12 8QQ, UK, 3Institut für Genomforschung und Systembiologie, 4AG Genominformatik, Faculty of Technology and 5Bioinformatics Resource Facility (BRF), Bielefeld University, D-33594 Bielefeld, Germany

*To whom correspondence should be addressed. Tel: +49 521 106 5166; Fax: +49 521 106 6419; Email: sebastian.oehm{at}cebitec.uni-bietefeld.de

Received February 11, 2008. Revised April 18, 2008. Accepted April 26, 2008.

In order to understand the phenotype of any living system, it is essential to not only investigate its genes, but also the specific metabolic pathway variant of the organism of interest, ideally in comparison with other organisms. The Comparative Pathway Analyzer, CPA, calculates and displays the differences in metabolic reaction content between two sets of organisms. Because results are highly dependent on the distribution of organisms into these two sets and the appropriate definition of these sets often is not easy, we provide hierarchical clustering methods for the identification of significant groupings. CPA also visualizes the reaction content of several organisms simultaneously allowing easy comparison. Reaction annotation data and maps for visualizing the results are taken from the KEGG database. Additionally, users can upload their own annotation data. This website is free and open to all users and there is no login requirement. It is available at https://www.cebitec.uni-bielefeld.de/groups/brf/software/cpa/index.html.


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