Recently, stochastic simulations of networks of chemical reactions have shown distributions of steady states that are inconsistent with the steady state solutions of the corresponding deterministic ordinary differential equations. One such class of systems is comprised of networks that have irreversible reactions, and the origin of the anomalous behavior in these cases is understood to be due to the existence of absorbing states. More puzzling is the report of such anomalies in reaction networks without irreversible reactions. One such biologically important example is the futile cycle. Here we show that, in these systems, nonclassical behavior can originate from a stochastic elimination of all the molecules of a key species. This leads to a reduction in the topology of the network and the sampling of steady states corresponding to a truncated network. Surprisingly, we find that, in spite of the purely discrete character of the topology reduction mechanism revealed by “exact” numerical solutions of the master equations, this phenomenon is reproduced by the corresponding Fokker–Planck equations.
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21 November 2009
Research Article|
November 19 2009
Stochastic bimodalities in deterministically monostable reversible chemical networks due to network topology reduction
Maxim N. Artyomov;
Maxim N. Artyomov
1Department of Chemistry,
Massachusetts Institute of Technology
, Cambridge, Massachusetts 02139, USA
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Manikandan Mathur;
Manikandan Mathur
2Department of Mechanical Engineering,
Massachusetts Institute of Technology
, Cambridge, Massachusetts 02139, USA
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Michael S. Samoilov;
Michael S. Samoilov
3QB3: California Institute for Quantitative Biosciences,
University of California
, Berkeley, California 94720, USA
and Physical Biosciences Division, Lawrence Berkeley National Laboratory
, Berkeley, California 94720, USA
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Arup K. Chakraborty
Arup K. Chakraborty
a)
1Department of Chemistry,
Massachusetts Institute of Technology
, Cambridge, Massachusetts 02139, USA
4Department of Chemical Engineering,
Massachusetts Institute of Technology
, Cambridge, Massachusetts 02139, USA
5Department of Biological Engineering,
Massachusetts Institute of Technology
, Cambridge, Massachusetts 02139, USA
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a)
Electronic mail: arupc@mit.edu.
J. Chem. Phys. 131, 195103 (2009)
Article history
Received:
August 05 2009
Accepted:
October 22 2009
Citation
Maxim N. Artyomov, Manikandan Mathur, Michael S. Samoilov, Arup K. Chakraborty; Stochastic bimodalities in deterministically monostable reversible chemical networks due to network topology reduction. J. Chem. Phys. 21 November 2009; 131 (19): 195103. https://doi.org/10.1063/1.3264948
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