A Model of Gene Expression Based on Random Dynamical Systems Reveals Modularity Properties of Gene Regulatory Networks (original) (raw)
Here we propose a new approach to modeling gene expression based on the theory of random dynamical systems (RDS) that provides a general coupling prescription between the nodes of any given regulatory network provided the dynamics of each node is modeled by a RDS. The main virtues of this approach are the following: (i) it provides a natural way to obtain arbitrarily complicated systems by coupling together simple basic pieces, thus revealing the modularity of regulatory networks; (ii) the assumptions about the stochastic processes used in the modeling are fairly general, in the sense that the only requirement is stationarity; (iii) there is a well developed mathematical theory, which is a blend of smooth dynamical systems theory, ergodic theory and stochastic analysis that allows one to extract relevant dynamical and statistical information without solving the system; (iv) the time evolution can be easily discretized, rendering the dynamics suitable for computer simulation in a simple and direct way. Finally, it is shown that one obtains the classical rate equations form the stochastic models by averaging over an ensemble.
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