Nonequilibrium Potential Function of Chemically Driven Single Macromolecules via Jarzynski-Type Log-Mean-Exponential Heat

Qian, Hong

doi:10.1021/jp0545391

Cited by 6 publications

(14 citation statements)

References 46 publications

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“…[13] for the basic approach, although a slightly different result is discussed there). The expression can be generalized to allow particle fluxes into and out of chemical baths, in which case an extra term involving chemical potentials must be added to the Q F in the exponent [14][15][16].…”

Section: A Microscopic Reversibilitymentioning

confidence: 99%

Far-from-equilibrium distribution from near-steady-state work fluctuations

Marsland¹,

England²

2015

Phys. Rev. E

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A long-standing goal of nonequilibrium statistical mechanics has been to extend the conceptual power of the Boltzmann distribution to driven systems. We report some new progress towards this goal. Instead of writing the nonequilibrium steady-state distribution in terms of perturbations around thermal equilibrium, we start from the linearized driven dynamics of observables about their stable fixed point, and expand in the strength of the nonlinearities encountered during typical fluctuations away from the fixed point. The first terms in this expansion retain the simplicity of known expansions about equilibrium, but can correctly describe the statistics of a certain class of systems even under strong driving. We illustrate this approach by comparison with a numerical simulation of a sheared Brownian colloid, where we find that the first two terms in our expansion are sufficient to account for the shear thinning behavior at high shear rates.

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Section: A Microscopic Reversibilitymentioning

confidence: 99%

Far-from-equilibrium distribution from near-steady-state work fluctuations

Marsland¹,

England²

2015

Phys. Rev. E

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“…In addition, the average of Q[s(·)] is the same with the average of the total entropy since the first terms of eqs. (11) and (10) vanish. We are not very clear whether eq.…”

Section: Discussionmentioning

confidence: 98%

A generalized integral fluctuation theorem for general jump processes

Liu¹,

Luo²,

Huang³

et al. 2009

J. Phys. A: Math. Theor.

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Using the Feynman-Kac and Cameron-Martin-Girsanov formulas, we obtain a generalized integral fluctuation theorem (GIFT) for discrete jump processes by constructing a time-invariable inner product. The existing discrete IFTs can be derived as its specific cases. A connection between our approach and the conventional time-reversal method is also established. Different from the latter approach that were extensively employed in existing literature, our approach can naturally bring out the definition of a time-reversal for a Markovian stochastic system. Intriguingly, we find the robust GIFT usually does not result into a detailed fluctuation theorem.

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“…This would suggest that colored noises can be entered into Eq. (53). In fact, we already know such examples.…”

Section: Free Energy Difference In Dynamical Processesmentioning

confidence: 99%

“…There have renewed interests in stochastic phenomena, ranging from physics, [41,[43][44][45][46][47][48][49][50][51] chemistry, [52][53][54][55] material science, [56][57][58] biology, [19,[59][60][61] and to other fields. [24] These works demonstrate the strong on-going exchange of ideas between physical and biological sciences.…”

Section: What Can We Learn From Darwinian Dynamics?mentioning

confidence: 99%

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Emerging of Stochastic Dynamical Equalities and Steady State Thermodynamics from Darwinian Dynamics

Ao¹

2008

Commun. Theor. Phys.

133

176

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The evolutionary dynamics first conceived by Darwin and Wallace, referring to as Darwinian dynamics in the present paper, has been found to be universally valid in biology. The statistical mechanics and thermodynamics, while enormous successful in physics, have been in an awkward situation of wanting a consistent dynamical understanding. Here we present from a formal point of view an exploration of the connection between thermodynamics and Darwinian dynamics and a few related topics. We first show that the stochasticity in Darwinian dynamics implies the existence temperature, hence the canonical distribution of Boltzmann-Gibbs type. In term of relative entropy the Second Law of thermodynamics is dynamically demonstrated without detailed balance condition, and is valid regardless of size of the system. In particular, the dynamical component responsible for breaking detailed balance condition does not contribute to the change of the relative entropy. Two types of stochastic dynamical equalities of current interest are explicitly discussed in the present approach: One is based on Feynman-Kac formula and another is a generalization of Einstein relation. Both are directly accessible to experimental tests. Our demonstration indicates that Darwinian dynamics represents logically a simple and straightforward starting point for statistical mechanics and thermodynamics and is complementary to and consistent with conservative dynamics that dominates the physical sciences. Present exploration suggests the existence of a unified stochastic dynamical framework both near and far from equilibrium.

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Nonequilibrium Potential Function of Chemically Driven Single Macromolecules via Jarzynski-Type Log-Mean-Exponential Heat

Cited by 6 publications

References 46 publications

Far-from-equilibrium distribution from near-steady-state work fluctuations

Far-from-equilibrium distribution from near-steady-state work fluctuations

A generalized integral fluctuation theorem for general jump processes

Emerging of Stochastic Dynamical Equalities and Steady State Thermodynamics from Darwinian Dynamics

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