Testing the transition state theory in stochastic dynamics of a genetic switch
arXiv:cond-mat/0608548 · doi:10.1016/j.cplett.2006.08.114
Abstract
Stochastic dynamics of chemical reactions in a mutually repressing two-gene circuit is numerically simulated. The circuit has a rich variety of different states when the kinetic change of DNA status is slow. The stochastic switching transition between those states are compared with the theoretical estimation of the switching rate derived from the idea similar to the transition state theory. Even though the circuit is kept far from equilibrium, the method gives a consistent explanation of the switching kinetics for a wide range of parameters. The transition state theory-like estimation, however, fails to describe transitions involving the state which has the extremely small numbers of protein molecules.
References in corpus (6)
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- Structure of Stochastic Dynamics near Fixed Points
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Cited by in corpus (5)
- Stochastic phenotype transition of a single cell in an intermediate region of gene-state switching
- A stochastic spectral analysis of transcriptional regulatory cascades
- Reaction coordinates for the flipping of genetic switches
- Eliminating fast reactions in stochastic simulations of biochemical networks: a bistable genetic switch
- Effects of the DNA state fluctuation on single-cell dynamics of self-regulating gene