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Bioinformatics Advance Access published online on April 27, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp269
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© The Author (2009). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Rahnuma: Hypergraph based tool for metabolic pathway prediction and network comparison

Aziz Mithani 1, Gail M. Preston 2,* and Jotun Hein 1

1Department of Statistics, University of Oxford, 1 South Parks Road, Oxford, OX1 3TG, UK
2Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK

*To whom correspondence should be addressed. Dr. Gail Preston, E-mail: gail.preston{at}plants.ox.ac.uk


  Abstract

Summary: We present a tool called Rahnuma for prediction and analysis of metabolic pathways and comparison of metabolic networks. Rahnuma represents metabolic networks as hypergraphs and computes all possible pathways between two or more metabolites. It provides an intuitive way to answer biological questions focusing on differences between organisms or the evolution of different species by allowing pathway based metabolic network comparisons at an organism as well as at a phylogenetic level.

Availability: Rahnuma is available online at http://portal.stats.ox.ac.uk:8080/rahnuma/.

Contact: gail.preston{at}plants.ox.ac.uk

Supplementary Information: Supplementary information is available at the journal's website.

Associate Editor: Prof. Thomas Lengauer

Received on November 18, 2008; revised on March 26, 2009; accepted on April 17, 2009

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