Literature DB >> 23011381

Dynamics of a stochastic spatially extended system predicted by comparing deterministic and stochastic attractors of the corresponding birth-death process.

Pawel J Zuk1, Marek Kochańczyk, Joanna Jaruszewicz, Witold Bednorz, Tomasz Lipniacki.   

Abstract

Living cells may be considered as biochemical reactors of multiple steady states. Transitions between these states are enabled by noise, or, in spatially extended systems, may occur due to the traveling wave propagation. We analyze a one-dimensional bistable stochastic birth-death process by means of potential and temperature fields. The potential is defined by the deterministic limit of the process, while the temperature field is governed by noise. The stable steady state in which the potential has its global minimum defines the global deterministic attractor. For the stochastic system, in the low noise limit, the stationary probability distribution becomes unimodal, concentrated in one of two stable steady states, defined in this study as the global stochastic attractor. Interestingly, these two attractors may be located in different steady states. This observation suggests that the asymptotic behavior of spatially extended stochastic systems depends on the substrate diffusivity and size of the reactor. We confirmed this hypothesis within kinetic Monte Carlo simulations of a bistable reaction- diffusion model on the hexagonal lattice. In particular, we found that although the kinase-phosphatase system remains inactive in a small domain, the activatory traveling wave may propagate when a larger domain is considered.

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Year:  2012        PMID: 23011381     DOI: 10.1088/1478-3975/9/5/055002

Source DB:  PubMed          Journal:  Phys Biol        ISSN: 1478-3967            Impact factor:   2.583


  7 in total

1.  Stochastic transitions in a bistable reaction system on the membrane.

Authors:  Marek Kochanczyk; Joanna Jaruszewicz; Tomasz Lipniacki
Journal:  J R Soc Interface       Date:  2013-05-01       Impact factor: 4.118

2.  Type of noise defines global attractors in bistable molecular regulatory systems.

Authors:  Joanna Jaruszewicz; Pawel J Zuk; Tomasz Lipniacki
Journal:  J Theor Biol       Date:  2012-10-11       Impact factor: 2.691

3.  Toggle switch: noise determines the winning gene.

Authors:  Joanna Jaruszewicz; Tomasz Lipniacki
Journal:  Phys Biol       Date:  2013-06-04       Impact factor: 2.583

4.  SPATKIN: a simulator for rule-based modeling of biomolecular site dynamics on surfaces.

Authors:  Marek Kochanczyk; William S Hlavacek; Tomasz Lipniacki
Journal:  Bioinformatics       Date:  2017-11-15       Impact factor: 6.937

5.  Bioinformatics and computational biology in Poland.

Authors:  Janusz M Bujnicki; Jerzy Tiuryn
Journal:  PLoS Comput Biol       Date:  2013-05-02       Impact factor: 4.475

6.  Stochastic stabilization of phenotypic States: the genetic bistable switch as a case study.

Authors:  Marc Weber; Javier Buceta
Journal:  PLoS One       Date:  2013-09-11       Impact factor: 3.240

7.  Bistability: requirements on cell-volume, protein diffusion, and thermodynamics.

Authors:  Robert G Endres
Journal:  PLoS One       Date:  2015-04-15       Impact factor: 3.240

  7 in total

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