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Computing enclosures for uncertain biochemical systems

August, E. and Koeppl, H. (2012):
Computing enclosures for uncertain biochemical systems.
In: IET Systems Biology, pp. 232-240, 6, (6), [Online-Edition: http://digital-library.theiet.org/content/journals/10.1049/i...],
[Article]

Abstract

In this study, the authors present a novel method that provides enclosures for state trajectories of a non-linear dynamical system with uncertainties in initial conditions and parameter values. It is based on solving positivity conditions by means of semi-definite programmes and sum of squares decompositions. The method accounts for the indeterminacy of kinetic parameters, measurement uncertainties and fluctuations in the reaction rates because of extrinsic noise. This is particularly useful in the field of systems biology when one seeks to determine model behaviour quantitatively or, if this is not possible, semiquantitatively. The authors also demonstrate the significance of the proposed method to model selection in biology. The authors illustrate the applicability of their method on the mitogen-activated protein kinase signalling pathway, which is an important and reoccurring network motif that apparently also plays a crucial role in the development of cancer.

Item Type: Article
Erschienen: 2012
Creators: August, E. and Koeppl, H.
Title: Computing enclosures for uncertain biochemical systems
Language: English
Abstract:

In this study, the authors present a novel method that provides enclosures for state trajectories of a non-linear dynamical system with uncertainties in initial conditions and parameter values. It is based on solving positivity conditions by means of semi-definite programmes and sum of squares decompositions. The method accounts for the indeterminacy of kinetic parameters, measurement uncertainties and fluctuations in the reaction rates because of extrinsic noise. This is particularly useful in the field of systems biology when one seeks to determine model behaviour quantitatively or, if this is not possible, semiquantitatively. The authors also demonstrate the significance of the proposed method to model selection in biology. The authors illustrate the applicability of their method on the mitogen-activated protein kinase signalling pathway, which is an important and reoccurring network motif that apparently also plays a crucial role in the development of cancer.

Journal or Publication Title: IET Systems Biology
Volume: 6
Number: 6
Divisions: 18 Department of Electrical Engineering and Information Technology > Institute for Telecommunications > Bioinspired Communication Systems
18 Department of Electrical Engineering and Information Technology
18 Department of Electrical Engineering and Information Technology > Institute for Telecommunications
Date Deposited: 04 Apr 2014 12:43
Official URL: http://digital-library.theiet.org/content/journals/10.1049/i...
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