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Bioinformatics Advance Access originally published online on May 11, 2007
Bioinformatics 2007 23(19):2638-2640; doi:10.1093/bioinformatics/btm245
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© The Author 2007. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

PLMaddon: a power-law module for the MatlabTM SBToolbox

Julio Vera *, Cheng Sun , Yvonne Oertel and Olaf Wolkenhauer

Systems Biology and Bioinformatics Group, Department of Computer Science. University of Rostock, 18051 Rostock, Germany

*To whom correspondence should be addressed.


  Abstract

Summary: PLMaddon is a General Public License (GPL) software module designed to expand the current version of the SBToolbox (a Matlab TM toolbox for systems biology; www.sbtoolbox.org) with a set of functions for the analysis of power-law models, a specific class of kinetic models, set in ordinary differential equations (ODE) and in which the kinetic orders can have positive/negative non-integer values. The module includes functions to generate power-law Taylor expansions of other ODE models (e.g. Michaelis-Menten type models), as well as algorithms to estimate steady-states. The robustness and sensitivity of the models can also be analysed and visualized by computing the power-law's logarithmic gains and sensitivities.

Availability: PLMaddon is an open source module for the analysis of power-law models based on the SBToolbox. The latest version of PLMaddon is freely available from:

www.sbi.uni-rostock.de/plmaddon

The website contains a tutorial with examples, as well as an interactive introductory course on power-law models in systems biology.

Contact: olaf.wolkenhauer{at}uni-rostock.de

Associate Editor: Thomas Lengauer

Received on January 8, 2007; revised on April 11, 2007; accepted on April 30, 2007

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