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Erschienen in:
2012 | OriginalPaper | Buchkapitel
Parameter Identification and Model Ranking of Thomas Networks
verfasst von : Hannes Klarner, Adam Streck, David Šafránek, Juraj Kolčák, Heike Siebert
Erschienen in: Computational Methods in Systems Biology
Verlag: Springer Berlin Heidelberg
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We propose a new methodology for identification and analysis of discrete gene networks as defined by René Thomas, supported by a tool chain: (
i
) given a Thomas network with partially known kinetic parameters, we reduce the number of acceptable parametrizations to those that fit time-series measurements and reflect other known constraints by an improved technique of coloured LTL model checking performing efficiently on Thomas networks in distributed environment; (
ii
) we introduce classification of acceptable parametrizations to identify most optimal ones; (
iii
) we propose two ways of visualising parametrizations dynamics wrt time-series data. Finally, computational efficiency is evaluated and the methodology is validated on bacteriophage
λ
case study.