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A stochastic framework for the design of transient and steady state behavior of biochemical reaction networks
Abstract Stochasticity plays an essential role in b …
Stochasticity plays an essential role in biochemical systems. Stochastic behaviors of bimodality, excitability, and fluctuations have been observed in biochemical reaction networks at low molecular numbers. Stochastic dynamics can be captured by modeling the system using a forward Kolmogorov equation known in the biochemical literature as the chemical master equation. The chemical master equation describes the time evolution of the probability distributions of the molecule species. We develop a stochastic framework for the design of these time evolving probability distributions that includes specifying their uni-/multi-modality, their first moments, and their rate of convergence to the stationary distribution. By solving the corresponding optimizations programs, we determine the reaction rates of the biochemical systems that satisfy our design specifications. We then apply the design framework to examples of biochemical reaction networks to illustrate its strengths and limitations.
illustrate its strengths and limitations.  +
Authors Ania A. Baetica, Ye Yuan, Jorge Goncalves and Richard M. Murray  +
Funding Theory-Based Engineering of Biomolecular Circuits in Living Cells +
ID 2015d  +
Source 2015 Conference on Decision and Control (CDC)  +
Tag bygm15-cdc  +
Title A stochastic framework for the design of transient and steady state behavior of biochemical reaction networks +
Type Conference Paper  +
Categories Papers
Modification date
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3 September 2019 16:32:03  +
URL
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http://www.cds.caltech.edu/~murray/preprints/bygm15-cdc_s.pdf  +
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