A matrix perturbation method for computing the steady-state probability distributions of probabilistic Boolean networks with gene perturbations
نویسندگان
چکیده
منابع مشابه
An approximation method for solving the steady-state probability distribution of probabilistic Boolean networks
MOTIVATION Probabilistic Boolean networks (PBNs) have been proposed to model genetic regulatory interactions. The steady-state probability distribution of a PBN gives important information about the captured genetic network. The computation of the steady-state probability distribution usually includes construction of the transition probability matrix and computation of the steady-state probabil...
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Boolean networks form a class of disordered dynamical systems that have been studied in physics owing to their relationships with disordered systems in statistical mechanics and in biology as models of genetic regulatory networks. Recently they have been generalized to probabilistic Boolean networks (PBNs) to facilitate the incorporation of uncertainty in the model and to represent cellular con...
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Probabilistic Boolean networks (PBNs) have received much attention in modeling genetic regulatory networks. A PBN can be regarded as a Markov chain process and is characterised by a transition probability matrix. In this study, the authors propose efficient algorithms for constructing a PBN when its transition probability matrix is given. The complexities of the algorithms are also analysed. Th...
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Computation of steady-state probabilities is an important aspect of analysing biological systems modelled as probabilistic Boolean networks (PBNs). For small PBNs, efficient numerical methods can be successfully applied to perform the computation with the use of Markov chain state transition matrix underlying the studied networks. However, for large PBNs, numerical methods suffer from the state...
متن کاملGene perturbation and intervention in probabilistic Boolean networks.
MOTIVATION A major objective of gene regulatory network modeling, in addition to gaining a deeper understanding of genetic regulation and control, is the development of computational tools for the identification and discovery of potential targets for therapeutic intervention in diseases such as cancer. We consider the general question of the potential effect of individual genes on the global dy...
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ژورنال
عنوان ژورنال: Journal of Computational and Applied Mathematics
سال: 2011
ISSN: 0377-0427
DOI: 10.1016/j.cam.2010.10.021