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Bioinformatics Advance Access originally published online on April 27, 2009
Bioinformatics 2009 25(14):1831-1832; 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

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

* To whom correspondence should be addressed.


  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 ques- tions 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 data are available at the Bioinformatics online.

Associate Editor: Thomas Lengauer

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

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