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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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Unified thermodynamic–kinetic uncertainty relation

TL;DR: In this article , a tighter bound on the precision of currents was derived in terms of both thermodynamic and kinetic quantities, demonstrating that these quantities jointly constrain current fluctuations and leading to a tighter classical speed limit, refining the time constraint on the system's state transformation.
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Geometric thermodynamics for the Fokker–Planck equation: stochastic thermodynamic links between information geometry and optimal transport

Sosuke Ito
- 01 Sep 2022 - 
TL;DR: In this paper , a geometric framework of non-equilibrium thermodynamics in terms of information geometry and optimal transport theory has been proposed, which is useful for obtaining thermodynamic trade-off relations between the thermodynamic cost and the fluctuation of the observable, optimal protocols for the minimum cost.
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Thermodynamics of concentration vs flux control in chemical reaction networks

TL;DR: In this paper , the thermodynamic implications of two control mechanisms of open chemical reaction networks were investigated, and it was shown that the two mechanisms can be mapped one into the other and that the thermodynamics theories usually developed in the framework of concentration control can be applied to flux control as well.
Posted Content

Geometrical aspects of entropy production in stochastic thermodynamics based on Wasserstein distance

TL;DR: In this paper, the authors studied the relationship between optimal transport theory and stochastic thermodynamics for the Fokker-Planck equation and derived a lower bound on the partial entropy production by the Wasserstein distance as a generalization of the second law of information thermodynamics.
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Universal constraint on nonlinear population dynamics

TL;DR: In this paper , the authors derive a universal information-theoretical constraint on a broad class of nonlinear dynamical systems represented as population dynamics, interpreted as a generalization of Fisher's fundamental theorem of natural selection.
References
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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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