S-system parameter estimation for noisy metabolic profiles using newton-flow analysis.

Details

Serval ID
serval:BIB_5E56B914B70F
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
S-system parameter estimation for noisy metabolic profiles using newton-flow analysis.
Journal
IET Systems Biology
Author(s)
Kutalik Z., Tucker W., Moulton V.
ISSN
1751-8849 (Print)
ISSN-L
1751-8849
Publication state
Published
Issued date
2007
Volume
1
Number
3
Pages
174-180
Language
english
Abstract
Biochemical systems are commonly modelled by systems of ordinary differential equations (ODEs). A particular class of such models called S-systems have recently gained popularity in biochemical system modelling. The parameters of an S-system are usually estimated from time-course profiles. However, finding these estimates is a difficult computational problem. Moreover, although several methods have been recently proposed to solve this problem for ideal profiles, relatively little progress has been reported for noisy profiles. We describe a special feature of a Newton-flow optimisation problem associated with S-system parameter estimation. This enables us to significantly reduce the search space, and also lends itself to parameter estimation for noisy data. We illustrate the applicability of our method by applying it to noisy time-course data synthetically produced from previously published 4- and 30-dimensional S-systems. In addition, we propose an extension of our method that allows the detection of network topologies for small S-systems. We introduce a new method for estimating S-system parameters from time-course profiles. We show that the performance of this method compares favorably with competing methods for ideal profiles, and that it also allows the determination of parameters for noisy profiles.
Keywords
Algorithms, Artificial Intelligence, Computer Simulation, Gene Expression Profiling/methods, Gene Expression Regulation/physiology, Models, Biological, Models, Statistical, Proteome/metabolism, Signal Transduction/physiology, Stochastic Processes
Pubmed
Web of science
Create date
12/03/2013 12:33
Last modification date
20/08/2019 14:16
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