NDLI: Résolution de Contraintes Temporelles pour l'Analyse de Systèmes Biologiques

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Résolution de Contraintes Temporelles pour l'Analyse de Systèmes Biologiques

Content Provider	Semantic Scholar
Author	Rizk, Aurélien
Copyright Year	2011
Abstract	Temporal logics have proven useful as specification languages for describing the behavior of a broad variety of Systems ranging from electronic circuits to software programs, and more recently biological Systems. Finding mathematical models satisfying a specification built from the formalization of biological experiments is a common task of the modeler. We show that the formalization of biological temporal properties of Systems, as observed in experiments, in temporal logics specifications enable the transposition of programming concepts and tools, like model-checking, to the analysis of living processes at the cellular level. Also as temporal logics allow one to express both qualitative and quantitative information they are well suited to the increasingly quantitative, yet incomplete, uncertain and imprecise information now accumulated in the field of quantitative Systems biology. However the usual binary evaluation of temporal logic formulas is not adapted to several problems such as parameter search and quantitative robustness analysis. We show that temporal logic constraint solving enables the definition of a continuous degree of satisfaction of temporal logic formula and how it can be used as a fitness function for continuous optimization methods to provide an efficient parameter search procedure for biochemical reaction networks with respect to temporal specifications. Then we describe how we can use such a satisfaction measure for the robustness analysis and sensitivity analysis of biological models. Finally we apply these methods on several biological problems.
File Format	PDF HTM / HTML
Alternate Webpage(s)	http://contraintes.inria.fr/~arizk/thesis_aurelien_rizk.pdf
Language	English
Access Restriction	Open
Content Type	Text
Resource Type	Article

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