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Titlebook: Stochastic Chemical Reaction Systems in Biology; Hong Qian,Hao Ge Book 2021 The Editor(s) (if applicable) and The Author(s), under exclusi

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Mesoscopic Thermodynamics of Markov ProcessesIn the present chapter, we will follow Boltzmann’s spirit and mathematically introduce the notion of entropy into stochastic dynamics as represented by Markov processes.
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Emergent Macroscopic Chemical ThermodynamicsCompared with the macroscopic chemical thermodynamics we have touched upon in Sections 2.2 and 2.5, J. W. Gibbs’ equilibrium statistical mechanics is a much more widely known contribution to the theoretical science, in which he first formulated the . and discussed a variational principle for equilibrium.
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Phase Transition and Mesoscopic Nonlinear BistabilityThe phenomenon of ., in a nutshell, is associated with a bistable, nonlinear stochastic dynamical system The system undergoes a change via a saddlenode bifurcation with . as t → ∞, followed by the stochasticity (noise, fluctuations) tending to zero.
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Classic Enzyme Kinetics—The Michaelis–Menten and Briggs–Haldane TheoriesMany chemical reactions inside a cell are very slow if the reactants are simply mixed alone as a multicomponent aqueous solution in a test tube.
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Single-Molecule Enzymology and Driven Biochemical Kinetics with ChemostatThe new millennium has witnessed a resurgence of interest in the theory of enzyme kinetics due to several developments in biochemical research: The foremost was the systems approach to cell biology, which demands quantitative representations of cellular enzymatic reactions in terms of Michaelis–Menten (MM)-like kinetics.
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Stochastic Linear Reaction Kinetic SystemsIn Chapter 10, we discussed the single-molecular enzyme kinetics, which consists of a set of unimolecular, or pseudo first-order reactions representing conformational transitions of an individual enzyme molecule.
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Kinetics of the Central Dogma of Molecular Cell BiologyIn a living cell, there is usually only one copy of a particular gene. The genetic information encoded in DNA needs to be “expressed” in terms of biochemically functioning proteins and enzymes, and their numbers, as well as their locations, inside a cell matter.
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