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Thermodynamic Uncertainty Relation and Thermodynamic Speed Limit in Deterministic Chemical Reaction Networks.

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TLDR
In this article, the authors generalize the thermodynamic uncertainty relation (TUR) and thermodynamic speed limit (TSL) for deterministic chemical reaction networks (CRNs) and derive the scaled diffusion coefficient derived by considering the connection between macro-and mesoscopic CRNs.
Abstract
We generalize the thermodynamic uncertainty relation (TUR) and thermodynamic speed limit (TSL) for deterministic chemical reaction networks (CRNs). The scaled diffusion coefficient derived by considering the connection between macro- and mesoscopic CRNs plays an essential role in our results. The TUR shows that the product of the entropy production rate and the ratio of the scaled diffusion coefficient to the square of the rate of concentration change is bounded below by two. The TSL states a trade-off relation between speed and thermodynamic quantities, the entropy production, and the time-averaged scaled diffusion coefficient. The results are proved under the general setting of open and nonideal CRNs.

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Phase shift in periodically driven non-equilibrium systems: its identification and a bound

TL;DR: In this paper , a generalized phase difference was introduced to quantify the time-dependently driven stochastic system and proved a tight upper bound for the phase difference, which depends only on the relative speed of the driving.
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Multidimensional entropic bound: Estimator of entropy production for Langevin dynamics with an arbitrary time-dependent protocol

TL;DR: In this paper , the multidimensional entropic bound (MEB) estimator is introduced, which is applicable to both overdamped and underdamped Langevin dynamics, irrespective of the time dependence of the driving protocol.
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Riemannian geometry of optimal driving and thermodynamic length and its application to chemical reaction networks

TL;DR: In this article , a weighted Fisher information metric on the space of chemical concentrations is introduced to characterize the dissipation caused by diffusive driving, with arbitrary dissipation rate constants.
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Information-geometric structure for chemical thermodynamics: An explicit construction of dual affine coordinates

- 24 Oct 2022 - 
TL;DR: In this article , an information-geometric structure for chemical thermodynamics, applicable to a wide range of chemical reaction systems including nonideal and open systems, was constructed, using the extent of reactions and the affinities of reactions as coordinates on a linearly constrained space of amounts of substances.
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Thermodynamic role of main reaction pathway and multi-body information flow in membrane transport

TL;DR: In this paper , the second law of information thermodynamics of the autonomous demon in the four-state model composed of two subsystems was extended to the 16 state model with four subsystems representing the membrane transport, and the coarse-grained information flow and the multi-body information flow expressed the quantitative difference between secondary active and passive transport.
References
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Journal ArticleDOI

Stochastic thermodynamics, fluctuation theorems and molecular machines

TL;DR: Efficiency and, in particular, efficiency at maximum power can be discussed systematically beyond the linear response regime for two classes of molecular machines, isothermal ones such as molecular motors, and heat engines such as thermoelectric devices, using a common framework based on a cycle decomposition of entropy production.
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On the Equilibrium of Heterogeneous Substances

TL;DR: The article ''On the Equilibrium of Heterogeneous Substances'', which was published in ''Transactions of the Connecticut Academy of Arts and Sciences'', vol. 3 (1874-78), pp. 108-248 and 343-524 as mentioned in this paper
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The chemical Langevin equation

TL;DR: In this article, it is shown that the chemical Langevin equation can be derived from the microphysical premise from which the chemical master equation is derived, which leads directly to an approximate time-evolution equation of the Langevin type.
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Cooperation and Competition in the Evolution of ATP-Producing Pathways

TL;DR: It is shown that ATP production with a low rate and high yield can be viewed as a form of cooperative resource use and may evolve in spatially structured environments and argued that the high ATP yield of respiration may have facilitated the evolutionary transition from unicellular to undifferentiated multicellular organisms.
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A rigorous derivation of the chemical master equation

TL;DR: In this paper, it was shown that the chemical master equation is exact for any gas-phase chemical system that is kept well stirred and thermally equilibrated, and that the exactness of the master equation has no rigorous microphysical basis, and hence no a priori claim to validity.
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