950 results on '"fluctuation theorem"'
Search Results
2. Fluctuation Theorems for Heat Exchanges between Passive and Active Baths.
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Semeraro, Massimiliano, Suma, Antonio, and Negro, Giuseppe
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RANDOM noise theory , *DISTRIBUTION (Probability theory) , *KINETIC energy - Abstract
In addition to providing general constraints on probability distributions, fluctuation theorems allow us to infer essential information on the role played by temperature in heat exchange phenomena. In this numerical study, we measure the temperature of an out-of-equilibrium active bath using a fluctuation theorem that relates the fluctuations in the heat exchanged between two baths to their temperatures. Our setup consists of a single particle moving between two wells of a quartic potential accommodating two different baths. The heat exchanged between the two baths is monitored according to two definitions: as the kinetic energy carried by the particle whenever it jumps from one well to the other and as the work performed by the particle on one of the two baths when immersed in it. First, we consider two equilibrium baths at two different temperatures and verify that a fluctuation theorem featuring the baths temperatures holds for both heat definitions. Then, we introduce an additional Gaussian coloured noise in one of the baths, so as to make it effectively an active (out-of-equilibrium) bath. We find that a fluctuation theorem is still satisfied with both heat definitions. Interestingly, in this case the temperature obtained through the fluctuation theorem for the active bath corresponds to the kinetic temperature when considering the first heat definition, while it is larger with the second one. We interpret these results by looking at the particle jump phenomenology. [ABSTRACT FROM AUTHOR]
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- 2024
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3. Harnessing Information Thermodynamics: Conversion of DNA Information into Mechanical Work in RNA Transcription and Nanopore Sequencing.
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Tsuruyama, Tatsuaki
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MOLECULAR motor proteins , *DNA , *FOKKER-Planck equation , *THERMODYNAMICS , *RNA , *DIFFUSION coefficients - Abstract
Recent advancements in information thermodynamics have revealed that information can be directly converted into mechanical work. Specifically, RNA transcription and nanopore sequencing serve as prime examples of this conversion, by reading information from a DNA template. This paper introduces an information thermodynamic model in which these molecular motors can move along the DNA template by converting the information read from the template DNA into their own motion. This process is a stochastic one, characterized by significant fluctuations in forward movement and is described by the Fokker–Planck equation, based on drift velocity and diffusion coefficients. In the current study, it is hypothesized that by utilizing the sequence information of the template DNA as mutual information, the fluctuations can be reduced, thereby biasing the forward movement on DNA and, consequently, reducing reading errors. Further research into the conversion of biological information by molecular motors could unveil new applications, insights, and important findings regarding the characteristics of information processing in biology. [ABSTRACT FROM AUTHOR]
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- 2024
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4. Adaptive nonequilibrium design of actin-based metamaterials: Fundamental and practical limits of control.
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Chennakesavalu, Shriram, Manikandan, Sreekanth K., Frank Hu, and Rotskoff, Grant M.
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REINFORCEMENT learning , *BIOMATERIALS , *METAMATERIALS , *NONEQUILIBRIUM statistical mechanics - Abstract
The adaptive and surprising emergent properties of biological materials self-assembled in far-from-equilibrium environments serve as an inspiration for efforts to design nanomaterials. In particular, controlling the conditions of self-assembly can modulate material properties, but there is no systematic understanding of either how to parameterize external control or how controllable a given material can be. Here, we demonstrate that branched actin networks can be encoded with metamaterial properties by dynamically controlling the applied force under which they grow and that the protocols can be selected using multi-task reinforcement learning. These actin networks have tunable responses over a large dynamic range depending on the chosen external protocol, providing a pathway to encoding "memory" within these structures. Interestingly, we obtain a bound that relates the dissipation rate and the rate of "encoding" that gives insight into the constraints on control--both physical and information theoretical. Taken together, these results emphasize the utility and necessity of nonequilibrium control for designing self-assembled nanostructures. [ABSTRACT FROM AUTHOR]
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- 2024
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5. On a thermodynamic foundation of Eyring rate theory for plastic deformation of polymer solids.
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Nitta, Koh-hei
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MATERIAL plasticity , *POTENTIAL barrier , *POLYMERS , *NONEQUILIBRIUM thermodynamics , *CONTINUUM mechanics - Abstract
The plastic deformation of almost all solid polymers can be represented by a thermally activated rate process involving the motion of cooperative mobile elements over potential barriers, based on the Eyring activated rate theory. The present study shows that the governing equations for the Eyring rate theory can be completely derived based on the principle of microscopic reversibility in the framework of non-equilibrium dynamics. [ABSTRACT FROM AUTHOR]
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- 2023
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6. Dissipation bounds the amplification of transition rates far from equilibrium
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Kuznets-Speck, Benjamin and Limmer, David T
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stochastic thermodynamics ,fluctuation theorem ,response theory ,first passage - Abstract
Complex systems can convert energy imparted by nonequilibrium forces to regulate how quickly they transition between long-lived states. While such behavior is ubiquitous in natural and synthetic systems, currently there is no general framework to relate the enhancement of a transition rate to the energy dissipated or to bound the enhancement achievable for a given energy expenditure. We employ recent advances in stochastic thermodynamics to build such a framework, which can be used to gain mechanistic insight into transitions far from equilibrium. We show that under general conditions, there is a basic speed limit relating the typical excess heat dissipated throughout a transition and the rate amplification achievable. We illustrate this tradeoff in canonical examples of diffusive barrier crossings in systems driven with autonomous and deterministic external forcing protocols. In both cases, we find that our speed limit tightly constrains the rate enhancement.
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- 2021
7. Foundations of Nonequilibrium Statistical Mechanics in Extended State Space.
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Gujrati, Purushottam Das
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QUANTUM thermodynamics ,MICROSTATES (Statistical mechanics) ,SECOND law of thermodynamics ,STATISTICAL mechanics ,UNIQUENESS (Mathematics) - Abstract
The review provides a pedagogical but comprehensive introduction to the foundations of a recently proposed statistical mechanics (μ NEQT) of a stable nonequilibrium thermodynamic body, which may be either isolated or interacting. It is an extension of the well-established equilibrium statistical mechanics by considering microstates m k in an extended state space in which macrostates (obtained by ensemble averaging A ^ ) are uniquely specified so they share many properties of stable equilibrium macrostates. The extension requires an appropriate extended state space, three distinct infinitessimals d α = (d , d e , d i) operating on various quantities q during a process, and the concept of reduction. The mechanical process quantities (no stochasticity) like macrowork are given by A ^ d α q , but the stochastic quantities C ^ α q like macroheat emerge from the commutator C ^ α of d α and A ^ . Under the very common assumptions of quasi-additivity and quasi-independence, exchange microquantities d e q k such as exchange microwork and microheat become nonfluctuating over m k as will be explained, a fact that does not seem to have been appreciated so far in diverse branches of modern statistical thermodynamics (fluctuation theorems, quantum thermodynamics, stochastic thermodynamics, etc.) that all use exchange quantities. In contrast, dq k and d i q k are always fluctuating. There is no analog of the first law for a microstate as the latter is a purely mechanical construct. The second law emerges as a consequence of the stability of the system, and cannot be violated unless stability is abandoned. There is also an important thermodynamic identity d i Q ≡ d i W ≥ 0 with important physical implications as it generalizes the well-known result of Count Rumford and the Gouy-Stodola theorem of classical thermodynamics. The μ NEQT has far-reaching consequences with new results, and presents a new understanding of thermodynamics even of an isolated system at the microstate level, which has been an unsolved problem. We end the review by applying it to three different problems of fundamental interest. [ABSTRACT FROM AUTHOR]
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- 2023
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8. Fluctuation Theorem for Information Thermodynamics of Quantum Correlated Systems.
- Author
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Park, Jung Jun and Nha, Hyunchul
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QUANTUM thermodynamics , *QUANTUM correlations , *QUANTUM statistics , *QUANTUM fluctuations , *PHOTONS , *STATISTICAL correlation - Abstract
We establish a fluctuation theorem for an open quantum bipartite system that explicitly manifests the role played by quantum correlation. Generally quantum correlations may substantially modify the universality of classical thermodynamic relations in composite systems. Our fluctuation theorem finds a non-equilibrium parameter of genuinely quantum nature that sheds light on the emerging quantum information thermodynamics. Specifically we show that the statistics of quantum correlation fluctuation obtained in a time-reversed process can provide a useful insight into addressing work and heat in the resulting thermodynamic evolution. We illustrate these quantum thermodynamic relations by two examples of quantum correlated systems. [ABSTRACT FROM AUTHOR]
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- 2023
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9. A new symmetry for large deviation functions of time-integrated dynamical variables
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F Jafarpour Hamadani and P Torkaman
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out of equilibrium systems ,fluctuation theorem ,large deviation in out of equilibrium systems ,symmetries of large deviation function ,Physics ,QC1-999 - Abstract
A new type of symmetry in the large deviation function of a time-integrated current is introduced. This current is different from the fluctuating entropy production for which the large deviation function is symmetric in the content of the fluctuation theorem. The origin of this symmetry, similar to that of the Gallavotti-Cohen-Evans-Morriss symmetry, is related to time-reversal. The symmetry is more unveiled when one performs an appropriate grouping of stochastic trajectories in the space of microscopic configurations. It turns out that the characteristic polynomial of the modified generator of this current is not symmetric; however, its minimum eigenvalue is symmetric.
- Published
- 2021
10. Nonequilibrium thermodynamics for a harmonic potential moving in time
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Lee, Hyun Keun, Kwon, Youngchae, and Kwon, Chulan
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- 2023
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11. Fluctuations When Driving Between Nonequilibrium Steady States
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Riechers, Paul M and Crutchfield, James P
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Stochastic thermodynamics ,Fluctuation theorem ,Nonequilibrium ,Neuronal ion channel ,cond-mat.stat-mech ,nlin.AO ,physics.bio-ph ,q-bio.NC ,Mathematical Sciences ,Physical Sciences ,Fluids & Plasmas - Abstract
Maintained by environmental fluxes, biological systems are thermodynamic processes that operate far from equilibrium without detailed-balanced dynamics. Yet, they often exhibit well defined nonequilibrium steady states (NESSs). More importantly, critical thermodynamic functionality arises directly from transitions among their NESSs, driven by environmental switching. Here, we identify the constraints on excess heat and dissipated work necessary to control a system that is kept far from equilibrium by background, uncontrolled “housekeeping” forces. We do this by extending the Crooks fluctuation theorem to transitions among NESSs, without invoking an unphysical dual dynamics. This and corresponding integral fluctuation theorems determine how much work must be expended when controlling systems maintained far from equilibrium. This generalizes thermodynamic feedback control theory, showing that Maxwellian Demons can leverage mesoscopic-state information to take advantage of the excess energetics in NESS transitions. We also generalize an approach recently used to determine the work dissipated when driving between functionally relevant configurations of an active energy-consuming complex system. Altogether, these results highlight universal thermodynamic laws that apply to the accessible degrees of freedom within the effective dynamic at any emergent level of hierarchical organization. By way of illustration, we analyze a voltage-gated sodium ion channel whose molecular conformational dynamics play a critical functional role in propagating action potentials in mammalian neuronal membranes.
- Published
- 2017
12. Thermodynamics of exponential Kolmogorov–Nagumo averages
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Pablo A Morales, Jan Korbel, and Fernando E Rosas
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Kolmogorov–Nagumo average ,Rényi entropy ,H-theorem ,Bregman divergence ,fluctuation theorem ,multifractals ,Science ,Physics ,QC1-999 - Abstract
This paper investigates generalized thermodynamic relationships in physical systems where relevant macroscopic variables are determined by the exponential Kolmogorov–Nagumo average. We show that while the thermodynamic entropy of such systems is naturally described by Rényi’s entropy with parameter γ , an ordinary Boltzmann distribution still describes their statistics under equilibrium thermodynamics. Our results show that systems described by exponential Kolmogorov–Nagumo averages can be interpreted as systems originally in thermal equilibrium with a heat reservoir with inverse temperature β that are suddenly quenched to another heat reservoir with inverse temperature $\beta^{^{\prime}} = (1-\gamma)\beta$ . Furthermore, we show the connection with multifractal thermodynamics. For the non-equilibrium case, we show that the dynamics of systems described by exponential Kolmogorov–Nagumo averages still observe a second law of thermodynamics and the H-theorem. We further discuss the applications of stochastic thermodynamics in those systems—namely, the validity of fluctuation theorems—and the connection with thermodynamic length.
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- 2023
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13. Fluctuation Theorems for Entropy Production and Heat Dissipation in Periodically Driven Markov Chains
- Author
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Shargel, Benjamin Hertz and Chou, Tom
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Physics ,Quantum Physics ,Physical Chemistry ,Theoretical, Mathematical and Computational Physics ,Statistical Physics, Dynamical Systems and Complexity ,Fluctuation theorem ,Large deviations ,Entropy production - Abstract
Asymptotic fluctuation theorems are statements of a Gallavotti-Cohen symmetry in the rate function of either the time-averaged entropy production or heat dissipation of a process. Such theorems have been proved for various general classes of continuous-time deterministic and stochastic processes, but always under the assumption that the forces driving the system are time independent, and often relying on the existence of a limiting ergodic distribution. In this paper we extend the asymptotic fluctuation theorem for the first time to inhomogeneous continuous-time processes without a stationary distribution, considering specifically a finite state Markov chain driven by periodic transition rates. We find that for both entropy production and heat dissipation, the usual Gallavotti-Cohen symmetry of the rate function is generalized to an analogous relation between the rate functions of the original process and its corresponding backward process, in which the trajectory and the driving protocol have been time-reversed. The effect is that spontaneous positive fluctuations in the long time average of each quantity in the forward process are exponentially more likely than spontaneous negative fluctuations in the backward process, and vice-versa, revealing that the distributions of fluctuations in universes in which time moves forward and backward are related. As an additional result, the asymptotic time-averaged entropy production is obtained as the integral of a periodic entropy production rate that generalizes the constant rate pertaining to homogeneous dynamics.
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- 2009
14. Free energy differences : representations, estimators, and sampling strategies
- Author
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Acharya, Arjun R., Bruce, Alastair, and Ackland, Graeme
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519 ,Phase Mapping ,Phase Switch ,Lattice Switch ,Simulated Tempering ,Weighted Histogram Analysis Method ,Fast Growth ,Jarzynski method ,Umbrella ,Multi-stage ,Multicanonical ,Path Integral Monte Carlo ,Path Sampling ,fluctuation theorem ,equilibrium ,non-equilibrium ,statistical mechanics ,condensed matter ,computational ,crystal ,feynman - Abstract
In this thesis we examine methodologies for determining free energy differences (FEDs) of phases via Monte Carlo simulation. We identify and address three generic issues that arise in FED calculations; the choice of representation, the choice of estimator, and the choice of sampling strategy. In addition we discuss how the classical framework may be extended to take into account quantum effects. Key words: Phase Mapping, Phase Switch, Lattice Switch, Simulated Tempering, Multi-stage, Weighted Histogram Analysis Method, Fast Growth, Jarzynski method, Umbrella, Multicanonical, Path Integral Monte Carlo, Path Sampling, Multihamiltonian, fluctuation theorem.
- Published
- 2004
15. Tensor-network approaches to counting statistics for the current in a boundary-driven diffusive system
- Author
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Jiayin Gu and Fan Zhang
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tensor networks ,counting statistics ,stochastic process ,fluctuation theorem ,Science ,Physics ,QC1-999 - Abstract
We apply tensor networks to counting statistics for the stochastic particle transport in an out-of-equilibrium diffusive system. This system is composed of a one-dimensional channel in contact with two particle reservoirs at the ends. Two tensor-network algorithms, namely, density matrix renormalization group and time evolving block decimation, are respectively implemented. The cumulant generating function for the current is numerically calculated and then compared with the analytical solution. Excellent agreement is found, manifesting the validity of these approaches in such an application. Moreover, the fluctuation theorem for the current is shown to hold.
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- 2022
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16. Adiabatic Processes Realized with a Trapped Brownian Particle
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Martínez, Ignacio A., Roldán Estébanez, Édgar, Dinis Vizcaíno, Luis Ignacio, Petrov, Dimitri, Rica, Raúl A., Martínez, Ignacio A., Roldán Estébanez, Édgar, Dinis Vizcaíno, Luis Ignacio, Petrov, Dimitri, and Rica, Raúl A.
- Abstract
© 2015 American Physical Society. We acknowledge theoretical discussions with J. M. R. Parrondo. I. A. M., E. R., D. P., and R. A. R. acknowledge financial support from the Fundació Privada Cellex Barcelona, Generalitat de Catalunya Grant No. 2009-SGR-159, and from grant NANOMQ (MINECO FIS2011-24409). E. R. and L. D. acknowledge financial support from grant ENFASIS (MINECO FIS2011-22644). I. A. M. acknowledges financial support from the European Research Council Grant OUTEFLUCOP. The initial ideas of this work were conceived by Professor D. Petrov, leader of the Optical Tweezers group at ICFO, who has sincepassed away., The ability to implement adiabatic processes in the mesoscale is of key importance in the study of artificial or biological micro- and nanoengines. Microadiabatic processes have been elusive to experimental implementation due to the difficulty in isolating Brownian particles from their fluctuating environment. Here we report on the experimental realization of a microscopic quasistatic adiabatic process employing a trapped Brownian particle. We circumvent the complete isolation of the Brownian particle by designing a protocol where both characteristic volume and temperature of the system are changed in such a way that the entropy of the system is conserved along the process. We compare the protocols that follow from either the overdamped or underdamped descriptions, demonstrating that the latter is mandatory in order to obtain a vanishing average heat flux to the particle. We provide analytical expressions for the distributions of the fluctuating heat and entropy and verify them experimentally. Our protocols could serve to implement the first microscopic engine that is able to attain the fundamental limit for the efficiency set by Carnot., MINECO, Fundacio Privada Cellex Barcelona, Generalitat de Catalunya, European Research Council Grant OUTEFLUCOP, Depto. de Estructura de la Materia, Física Térmica y Electrónica, Fac. de Ciencias Físicas, TRUE, pub
- Published
- 2023
17. Fluctuation-theorem method of measuring a particle's mass without knowing its shape or density.
- Author
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Wong, Chun-Shang, Gopalakrishnan, Ranganathan, and Goree, J.
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PARTICLES - Abstract
Abstract Tracking the Brownian motion of aerosol particles as they settle in air allows a mass measurement. The particle typically falls downward at its terminal settling velocity; however, the particle occasionally will be displaced upwards due to Brownian fluctuations. The number of occurrences of upward and downward fluctuations is compared, using the formula for the work fluctuation theorem, to yield the mass. This method can be applied to either a single particle or a collection of particles. The advantages of this method include no required information about the size, shape, or density of the particle. Details of the analysis method are presented and illustrated with experimental data. Highlights • Tracking the Brownian motion of particles settling in air allows a mass measurement. • A falling particle is occasionally displaced upwards. • Occurrences of upward and downward displacements depend on a particle's mass. • The formula used is the work fluctuation theorem. • Advantages include no requirement for data on particle's size, shape, or density. [ABSTRACT FROM AUTHOR]
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- 2019
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18. Stochastic thermodynamics and fluctuation theorems for non-linear systems
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Jan Korbel and David H Wolpert
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stochastic thermodynamics ,non-linear systems ,fluctuation theorem ,generalized entropies ,Science ,Physics ,QC1-999 - Abstract
We extend stochastic thermodynamics by relaxing the two assumptions that the Markovian dynamics must be linear and that the equilibrium distribution must be a Boltzmann distribution. We show that if we require the second law to hold when those assumptions are relaxed, then it cannot be formulated in terms of Shannon entropy. However, thermodynamic consistency is salvaged if we reformulate the second law in terms of generalized entropy; our first result is an equation relating the precise form of the non-linear master equation to the precise associated generalized entropy which results in thermodynamic consistency. We then build on this result to extend the usual trajectory-level definitions of thermodynamic quantities that are appropriate even when the two assumptions are relaxed. We end by using these trajectory-level definitions to derive extended versions of the Crooks fluctuation theorem and Jarzynski equality which apply when the two assumptions are relaxed.
- Published
- 2021
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19. Nonlinear Non-Equilibrium Thermodynamics Based on the Ehrenfest–Klein Model
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Gleb A. Zhernokleev and Leonid M. Martyushev
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entropy ,urn model ,fluctuation theorem ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Nonlinear non-equilibrium thermodynamic relations have been constructed based on the generalized Ehrenfest−Klein model. Using these relations, the behavior of the entropy and its production in time at arbitrary deviations from equilibrium has been studied. It has been shown that the transient fluctuation theorem is valid for this model if a dissipation functional is treated as the thermodynamic entropy production.
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- 2020
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20. Application of the fluctuation theorem to motor proteins: from F1-ATPase to axonal cargo transport by kinesin and dynein.
- Author
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Hayashi, Kumiko
- Abstract
The fluctuation theorem is a representative theorem in non-equilibrium statistical physics actively studied in the 1990s. Relating to entropy production in non-equilibrium states, the theorem has been used to estimate the driving power of motor proteins from fluctuation in their motion. In this review, usage of the fluctuation theorem in experiments on motor proteins is illustrated for biologists, especially those who study mechanobiology, in which force measurement is a central issue. We first introduce the application of the fluctuation theorem in measuring the rotary torque of the rotary motor protein F
1 -ATPase. Next, as an extension of this application, a recent trial estimating the force generated during cargo transport in vivo by the microtubule motors kinesin and dynein is introduced. Elucidation of the physical mechanism of such transport is important, especially for neurons, in which deficits in cargo transport are deeply related to neuronal diseases. Finally, perspectives on the fluctuation theorem as a new technique in the field of neuroscience are discussed. [ABSTRACT FROM AUTHOR]- Published
- 2018
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21. Fluctuation Theorems of Work and Entropy in Hamiltonian Systems.
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Lahiri, Sourabh and Jayannavar, Arun M.
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HAMILTONIAN systems ,FREE energy (Thermodynamics) ,EQUATIONS of motion ,STOCHASTIC systems ,MARKOV processes - Abstract
Fluctuation theorems are a group of exact relations that remain valid irrespective of how far the system has been driven away from equilibrium. Other than having practical applications, like determination of equilibrium free energy change from nonequilibrium processes, they help in our understanding of the second law and the emergence of irreversibility from time-reversible equations of motion at microscopic level. A vast number of such theorems have been proposed in literature, ranging from Hamiltonian to stochastic systems, from systems in steady state to those in transient regime, and for both open and closed quantum systems. In this article, we discuss about a few such relations, when the system evolves under Hamiltonian dynamics. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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22. Information Thermodynamics Derives the Entropy Current of Cell Signal Transduction as a Model of a Binary Coding System.
- Author
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Tsuruyama, Tatsuaki
- Subjects
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CELLULAR signal transduction , *FLUCTUATIONS (Physics) , *MATHEMATICS theorems , *THERMODYNAMICS , *ENTROPY (Information theory) - Abstract
The analysis of cellular signaling cascades based on information thermodynamics has recently developed considerably. A signaling cascade may be considered a binary code system consisting of two types of signaling molecules that carry biological information, phosphorylated active, and non-phosphorylated inactive forms. This study aims to evaluate the signal transduction step in cascades from the viewpoint of changes in mixing entropy. An increase in active forms may induce biological signal transduction through a mixing entropy change, which induces a chemical potential current in the signaling cascade. We applied the fluctuation theorem to calculate the chemical potential current and found that the average entropy production current is independent of the step in the whole cascade. As a result, the entropy current carrying signal transduction is defined by the entropy current mobility. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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23. Stochastic Dynamics of Proteins and the Action of Biological Molecular Machines
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Michal Kurzynski and Przemyslaw Chelminiak
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protein dynamics ,conformational transition networks ,fractal-small world transition ,fluctuation theorem ,biological molecular machines ,free energy transduction ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
It is now well established that most if not all enzymatic proteins display a slow stochastic dynamics of transitions between a variety of conformational substates composing their native state. A hypothesis is stated that the protein conformational transition networks, as just as higher-level biological networks, the protein interaction network, and the metabolic network, have evolved in the process of self-organized criticality. Here, the criticality means that all the three classes of networks are scale-free and, moreover, display a transition from the fractal organization on a small length-scale to the small-world organization on the large length-scale. Good mathematical models of such networks are stochastic critical branching trees extended by long-range shortcuts. Biological molecular machines are proteins that operate under isothermal conditions and hence are referred to as free energy transducers. They can be formally considered as enzymes that simultaneously catalyze two chemical reactions: the free energy-donating (input) reaction and the free energy-accepting (output) one. The far-from-equilibrium degree of coupling between the output and the input reaction fluxes have been studied both theoretically and by means of the Monte Carlo simulations on model networks. For single input and output gates the degree of coupling cannot exceed unity. Study simulations of random walks on model networks involving more extended gates indicate that the case of the degree of coupling value higher than one is realized on the mentioned above critical branching trees extended by long-range shortcuts.
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- 2014
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24. Information in Biological Systems and the Fluctuation Theorem
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Yaşar Demirel
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information theory ,biological systems ,fluctuation theorem ,thermodynamic coupling ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Some critical trends in information theory, its role in living systems and utilization in fluctuation theory are discussed. The mutual information of thermodynamic coupling is incorporated into the generalized fluctuation theorem by using information theory and nonequilibrium thermodynamics. Thermodynamically coupled dissipative structures in living systems are capable of degrading more energy, and processing complex information through developmental and environmental constraints. The generalized fluctuation theorem can quantify the hysteresis observed in the amount of the irreversible work in nonequilibrium regimes in the presence of information and thermodynamic coupling.
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- 2014
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25. Fitness Gain of Individually Sensed Information by Cells
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Tetsuya J. Kobayashi and Yuki Sughiyama
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fluctuation theorem ,evolution ,decision-making ,directed information ,information thermodynamics ,auto-encoder ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Mutual information and its causal variant, directed information, have been widely used to quantitatively characterize the performance of biological sensing and information transduction. However, once coupled with selection in response to decision-making, the sensing signal could have more or less evolutionary value than its mutual or directed information. In this work, we show that an individually sensed signal always has a better fitness value, on average, than its mutual or directed information. The fitness gain, which satisfies fluctuation relations (FRs), is attributed to the selection of organisms in a population that obtain a better sensing signal by chance. A new quantity, similar to the coarse-grained entropy production in information thermodynamics, is introduced to quantify the total fitness gain from individual sensing, which also satisfies FRs. Using this quantity, the optimizing fitness gain of individual sensing is shown to be related to fidelity allocations for individual environmental histories. Our results are supplemented by numerical verifications of FRs, and a discussion on how this problem is linked to information encoding and decoding.
- Published
- 2019
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26. Fluctuation Theorem of Information Exchange within an Ensemble of Paths Conditioned on Correlated-Microstates
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Lee Jinwoo
- Subjects
local non-equilibrium thermodynamics ,fluctuation theorem ,mutual information ,entropy production ,local mutual information ,thermodynamics of information ,stochastic thermodynamics ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Fluctuation theorems are a class of equalities that express universal properties of the probability distribution of a fluctuating path functional such as heat, work or entropy production over an ensemble of trajectories during a non-equilibrium process with a well-defined initial distribution. Jinwoo and Tanaka (Jinwoo, L.; Tanaka, H. Sci. Rep. 2015, 5, 7832) have shown that work fluctuation theorems hold even within an ensemble of paths to each state, making it clear that entropy and free energy of each microstate encode heat and work, respectively, within the conditioned set. Here we show that information that is characterized by the point-wise mutual information for each correlated state between two subsystems in a heat bath encodes the entropy production of the subsystems and heat bath during a coupling process. To this end, we extend the fluctuation theorem of information exchange (Sagawa, T.; Ueda, M. Phys. Rev. Lett. 2012, 109, 180602) by showing that the fluctuation theorem holds even within an ensemble of paths that reach a correlated state during dynamic co-evolution of two subsystems.
- Published
- 2019
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27. Fluctuation Theorem of Information Exchange between Subsystems that Co-Evolve in Time
- Author
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Lee Jinwoo
- Subjects
fluctuation theorem ,thermodynamics of information ,stochastic thermodynamics ,mutual information ,non-equilibrium free energy ,entropy production ,Mathematics ,QA1-939 - Abstract
Sagawa and Ueda established a fluctuation theorem of information exchange by revealing the role of correlations in stochastic thermodynamics and unified the non-equilibrium thermodynamics of measurement and feedback control. They considered a process where a non-equilibrium system exchanges information with other degrees of freedom such as an observer or a feedback controller. They proved the fluctuation theorem of information exchange under the assumption that the state of the other degrees of freedom that exchange information with the system does not change over time while the states of the system evolve in time. Here we relax this constraint and prove that the same form of the fluctuation theorem holds even if both subsystems co-evolve during information exchange processes. This result may extend the applicability of the fluctuation theorem of information exchange to a broader class of non-equilibrium processes, such as a dynamic coupling in biological systems, where subsystems that exchange information interact with each other.
- Published
- 2019
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28. Quantum measurement arrow of time and fluctuation relations for measuring spin of ultracold atoms
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Nicholas P. Bigelow, Sreenath K. Manikandan, Andrew N. Jordan, and Maitreyi Jayaseelan
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Physics ,Condensed Matter::Quantum Gases ,Multidisciplinary ,Quantum information ,Fluctuation theorem ,Science ,General Physics and Astronomy ,General Chemistry ,01 natural sciences ,General Biochemistry, Genetics and Molecular Biology ,Article ,010305 fluids & plasmas ,Ultracold atom ,Arrow of time ,Quantum mechanics ,0103 physical sciences ,Weak measurement ,Statistical physics ,Physics::Atomic Physics ,010306 general physics ,Spin (physics) ,Quantum thermodynamics ,Wave function collapse ,Quantum - Abstract
The origin of macroscopic irreversibility from microscopically time-reversible dynamical laws—often called the arrow-of-time problem—is of fundamental interest in both science and philosophy. Experimentally probing such questions in quantum theory requires systems with near-perfect isolation from the environment and long coherence times. Ultracold atoms are uniquely suited to this task. We experimentally demonstrate a striking parallel between the statistical irreversibility of wavefunction collapse and the arrow of time problem in the weak measurement of the quantum spin of an atomic cloud. Our experiments include statistically rare events where the arrow of time is inferred backward; nevertheless we provide evidence for absolute irreversibility and a strictly positive average arrow of time for the measurement process, captured by a fluctuation theorem. We further demonstrate absolute irreversibility for measurements performed on a quantum many-body entangled wavefunction—a unique opportunity afforded by our platform—with implications for studying quantum many-body dynamics and quantum thermodynamics., Irreversibility in quantum measurements shares conceptual links with statistical and thermodynamical irreversibility. Here, the authors are able to operationally associate an "arrow of time” to quantum weak measurements, testing it experimentally on a cloud of ultracold atoms.
- Published
- 2021
29. Role of work in matter exchange between finite quantum systems.
- Author
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Euijin Jeon, Talkner, Peter, Juyeon Yi, and Yong Woon Kim
- Subjects
- *
QUANTUM mechanics , *EQUILIBRIUM , *CHEMICAL potential , *MACROSCOPIC cross sections , *HEAT exchangers - Abstract
Close to equilibrium, the exchange of particles and heat between macroscopic systems at different temperatures and different chemical potentials is known to be governed by a matrix of transport coefficients which are positive and symmetric. We investigate the amounts of heat and particles that are exchanged between two small quantum systems within a given time, and find them characterized by a transport matrix which neither needs to be symmetric nor positive. At larger times even spontaneous transport can be observed in the total absence of temperature and chemical potential differences provided that the two systems are different in size. All these deviations from standard transport behavior can be attributed to the fact that work is done on the system in the processes contacting and separating those parts of the system that initially possess different temperatures and chemical potentials. The standard transport properties are recovered for vanishing work and also in the limit of large systems and sufficiently large contact times. The general results are illustrated by an example. [ABSTRACT FROM AUTHOR]
- Published
- 2017
- Full Text
- View/download PDF
30. Admitting Spontaneous Violations of the Second Law in Continuum Thermomechanics.
- Author
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Ostoja-Starzewski, Martin
- Subjects
- *
CONTINUUM mechanics , *ELASTICITY , *ENTROPY , *STOCHASTIC analysis , *THERMOMECHANICAL treatment - Abstract
We survey new extensions of continuum mechanics incorporating spontaneous violations of the Second Law (SL), which involve the viscous flow and heat conduction. First, following an account of the Fluctuation Theorem (FT) of statistical mechanics that generalizes the SL, the irreversible entropy is shown to evolve as a submartingale. Next, a stochastic thermomechanics is formulated consistent with the FT, which, according to a revision of classical axioms of continuum mechanics, must be set up on random fields. This development leads to a reformulation of thermoviscous fluids and inelastic solids. These two unconventional constitutive behaviors may jointly occur in nano-poromechanics. [ABSTRACT FROM AUTHOR]
- Published
- 2017
- Full Text
- View/download PDF
31. Computing Equilibrium Free Energies Using Non-Equilibrium Molecular Dynamics
- Author
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Christoph Dellago and Gerhard Hummer
- Subjects
fast switching simulations ,non-equilibrium work theorem ,fluctuation theorem ,non-equilibrium molecular dynamics ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
As shown by Jarzynski, free energy differences between equilibrium states can be expressed in terms of the statistics of work carried out on a system during non-equilibrium transformations. This exact result, as well as the related Crooks fluctuation theorem, provide the basis for the computation of free energy differences from fast switching molecular dynamics simulations, in which an external parameter is changed at a finite rate, driving the system away from equilibrium. In this article, we first briefly review the Jarzynski identity and the Crooks fluctuation theorem and then survey various algorithms building on these relations. We pay particular attention to the statistical efficiency of these methods and discuss practical issues arising in their implementation and the analysis of the results.
- Published
- 2013
- Full Text
- View/download PDF
32. Full Counting Statistics and Fluctuation–Dissipation Relation for Periodically Driven Two-State Systems
- Author
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Yuki Hino, Kazutaka Takahashi, Hisao Hayakawa, and Keisuke Fujii
- Subjects
Physics ,Current (mathematics) ,Condensed Matter - Mesoscale and Nanoscale Physics ,Statistical Mechanics (cond-mat.stat-mech) ,Entropy production ,Fluctuation theorem ,FOS: Physical sciences ,Statistical and Nonlinear Physics ,Dissipation ,01 natural sciences ,010305 fluids & plasmas ,T-symmetry ,Mesoscale and Nanoscale Physics (cond-mat.mes-hall) ,0103 physical sciences ,Time derivative ,Master equation ,Statistical physics ,010306 general physics ,Adiabatic process ,Condensed Matter - Statistical Mechanics ,Mathematical Physics - Abstract
We derive the fluctuation theorem for a stochastic and periodically driven system coupled to two reservoirs with the aid of a master equation. We write down the cumulant generating functions for both the current and entropy production in closed compact forms so as to treat the adiabatic and nonadiabatic contributions systematically. We derive the fluctuation theorem by taking into account the time reversal symmetry and the property that the instantaneous currents flowing into the left and the right reservoir are not equal. It is found that the fluctuation-dissipation relation derived from the fluctuation theorem involves an expansion with respect to the time derivative of the affinity., Comment: 22 pages, 7 figures, revised for publication
- Published
- 2020
- Full Text
- View/download PDF
33. Hierarchical Information Entropy System Model for TWfMS
- Author
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Qiang Han and Deren Yang
- Subjects
Trustworthy Workflow Management System ,information entropy system model ,fluctuation theorem ,dissipative structure system ,the second law of thermodynamics ,system engineering ,service computing ,software engineering ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Under the infrastructure of three gradually deepening layers consisting of System, Service and Software, the information entropy of the Trustworthy Workflow Management System (TWfMS) will evolve from being more precise to more undetermined, due to a series of exception event X occurring on certain components (ExCs), along with the life cycle of TWfMS, experienced in its phased original, as-is, to-be, and agile-consistent stages, and recover, more precisely again, by turning back to the original state from the agile-consistent stage, due to its self-autonomous improvement. With a special emphasis on the system layer, to assure the trustworthiness of WfMS, this paper firstly introduces the preliminary knowledge of the hierarchical information entropy model with correlation theories. After illustrating the fundamental principle, the transformation rule is deduced, step by step, followed by a case study, which is conducive to generating discussions and conclusions in the different research areas of TWfMS. Overall, in this paper, we argue that the trustworthiness maintenance of WfMS could be analyzed and computational, through the viewpoint that all the various states of TWfMS can be considered as the transformation between WfMS and its trustworthiness compensate components, whose information entropy fluctuate repeatedly and comply with the law of the dissipative structure system.
- Published
- 2018
- Full Text
- View/download PDF
34. Entropy in Cell Biology: Information Thermodynamics of a Binary Code and Szilard Engine Chain Model of Signal Transduction
- Author
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Tatsuaki Tsuruyama
- Subjects
biological reaction cascade ,binary code system ,average entropy production rate ,mutual entropy ,Szilard engine chain ,fluctuation theorem ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
A model of signal transduction from the perspective of informational thermodynamics has been reported in recent studies, and several important achievements have been obtained. The first achievement is that signal transduction can be modelled as a binary code system, in which two forms of signalling molecules are utilised in individual steps. The second is that the average entropy production rate is consistent during the signal transduction cascade when the signal event number is maximised in the model. The third is that a Szilard engine can be a single-step model in the signal transduction. This article reviews these achievements and further introduces a new chain of Szilard engines as a biological reaction cascade (BRC) model. In conclusion, the presented model provides a way of computing the channel capacity of a BRC.
- Published
- 2018
- Full Text
- View/download PDF
35. Detailed Fluctuation Theorems: A Unifying Perspective
- Author
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Riccardo Rao and Massimiliano Esposito
- Subjects
stochastic thermodynamics ,fluctuation theorem ,Markov jump process ,entropy production ,graph theory ,conservation laws ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
We present a general method to identify an arbitrary number of fluctuating quantities which satisfy a detailed fluctuation theorem for all times within the framework of time-inhomogeneous Markovian jump processes. In doing so, we provide a unified perspective on many fluctuation theorems derived in the literature. By complementing the stochastic dynamics with a thermodynamic structure (i.e., using stochastic thermodynamics), we also express these fluctuating quantities in terms of physical observables.
- Published
- 2018
- Full Text
- View/download PDF
36. Analysis of Cell Signal Transduction Based on Kullback–Leibler Divergence: Channel Capacity and Conservation of Its Production Rate during Cascade
- Author
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Tatsuaki Tsuruyama
- Subjects
average entropy production rate ,fluctuation theorem ,signal transduction ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Kullback–Leibler divergence (KLD) is a type of extended mutual entropy, which is used as a measure of information gain when transferring from a prior distribution to a posterior distribution. In this study, KLD is applied to the thermodynamic analysis of cell signal transduction cascade and serves an alternative to mutual entropy. When KLD is minimized, the divergence is given by the ratio of the prior selection probability of the signaling molecule to the posterior selection probability. Moreover, the information gain during the entire channel is shown to be adequately described by average KLD production rate. Thus, this approach provides a framework for the quantitative analysis of signal transduction. Moreover, the proposed approach can identify an effective cascade for a signaling network.
- Published
- 2018
- Full Text
- View/download PDF
37. The Conservation of Average Entropy Production Rate in a Model of Signal Transduction: Information Thermodynamics Based on the Fluctuation Theorem
- Author
-
Tatsuaki Tsuruyama
- Subjects
signal transduction ,fluctuation theorem ,average entropy production rate ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
Cell signal transduction is a non-equilibrium process characterized by the reaction cascade. This study aims to quantify and compare signal transduction cascades using a model of signal transduction. The signal duration was found to be linked to step-by-step transition probability, which was determined using information theory. By applying the fluctuation theorem for reversible signal steps, the transition probability was described using the average entropy production rate. Specifically, when the signal event number during the cascade was maximized, the average entropy production rate was found to be conserved during the entire cascade. This approach provides a quantitative means of analyzing signal transduction and identifies an effective cascade for a signaling network.
- Published
- 2018
- Full Text
- View/download PDF
38. Information Thermodynamics of the Cell Signal Transduction as a Szilard Engine
- Author
-
Tatsuaki Tsuruyama
- Subjects
Szilard engine ,mutual entropy ,signal transduction ,information thermodynamics ,fluctuation theorem ,Science ,Astrophysics ,QB460-466 ,Physics ,QC1-999 - Abstract
A cell signaling system is in a non-equilibrium state, and it includes multistep biochemical signaling cascades (BSCs), which involve phosphorylation of signaling molecules, such as mitogen-activated protein kinase (MAPK) pathways. In this study, the author considered signal transduction description using information thermodynamic theory. The ideal BSCs can be considered one type of the Szilard engine, and the presumed feedback controller, Maxwell’s demon, can extract the work during signal transduction. In this model, the mutual entropy and chemical potential of the signal molecules can be redefined by the extracted chemical work in a mechanicochemical model, Szilard engine, of BSC. In conclusion, signal transduction is computable using the information thermodynamic method.
- Published
- 2018
- Full Text
- View/download PDF
39. Quantum–Classical Correspondence Principle for Heat Distribution in Quantum Brownian Motion
- Author
-
Haitao Quan, Jin-Fu Chen, and Tian Qiu
- Subjects
Work (thermodynamics) ,heat statistics ,Science ,QC1-999 ,General Physics and Astronomy ,FOS: Physical sciences ,Astrophysics ,Classical limit ,Article ,open quantum systems ,phase-space formulation ,quantum Brownian motion ,Phase space formulation ,Quantum thermodynamics ,Brownian motion ,Condensed Matter - Statistical Mechanics ,Physics ,Quantum Physics ,Statistical Mechanics (cond-mat.stat-mech) ,Fluctuation theorem ,Langevin equation ,QB460-466 ,Classical mechanics ,Correspondence principle ,Quantum Physics (quant-ph) - Abstract
Quantum Brownian motion, described by the Caldeira-Leggett model, brings insights to understand phenomena and essence of quantum thermodynamics, especially the quantum work and heat associated with their classical counterparts. By employing the phase-space formulation approach, we study the heat distribution of a relaxation process in the quantum Brownian motion model. The analytical result of the characteristic function of heat is obtained at any relaxation time with an arbitrary friction coefficient. By taking the classical limit, such a result approaches the heat distribution of the classical Brownian motion described by the Langevin equation, indicating the quantum-classical correspondence principle for heat distribution. We also demonstrate that the fluctuating heat at any relaxation time satisfies the exchange fluctuation theorem of heat, and its long-time limit reflects complete thermalization of the system. Our research brings justification for the definition of the quantum fluctuating heat via two-point measurements., Comment: 32 pages, 2 figures
- Published
- 2021
40. Quantum Thermodynamics with Degenerate Eigenstate Coherences.
- Author
-
Cuetara, Gregory Bulnes, Esposito, Massimiliano, and Schaller, Gernot
- Subjects
- *
QUANTUM thermodynamics , *QUANTUM coherence , *QUANTUM dots , *DEGENERATE perturbation theory , *FLUCTUATIONS (Physics) - Abstract
We establish quantum thermodynamics for open quantum systems weakly coupled to their reservoirs when the system exhibits degeneracies. The first and second law of thermodynamics are derived, as well as a finite-time fluctuation theorem for mechanical work and energy and matter currents. Using a double quantum dot junction model, local eigenbasis coherences are shown to play a crucial role on thermodynamics and on the electron counting statistics. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
41. Fluctuation theorems for synchronization of interacting Pólya’s urns.
- Author
-
Crimaldi, Irene, Dai Pra, Paolo, and Minelli, Ida Germana
- Subjects
- *
FLUCTUATIONS (Physics) , *SYNCHRONIZATION , *PARAMETER estimation , *STOCHASTIC convergence , *DISTRIBUTION (Probability theory) - Abstract
We consider a system of N two-colors urns in which the reinforcement of each urn depends also on the content of all the other urns. This interaction is of mean-field type and it is tuned by a parameter α ∈ [ 0 , 1 ] ; in particular, for α = 0 the N urns behave as N independent Pólya’s urns. For α > 0 urns synchronize, in the sense that the fraction of balls of a given color converges a.s. to the same (random) limit in all urns. In this paper we study fluctuations around this synchronized regime. The scaling of these fluctuations depends on the parameter α . In particular the standard scaling t − 1 / 2 appears only for α > 1 / 2 . For α ≥ 1 / 2 we also determine the limit distribution of the rescaled fluctuations. We use the notion of stable convergence, which is stronger than convergence in distribution. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
42. Steps toward the foundations of statistical mechanics: in and out of equilibrium
- Author
-
D.Karevski
- Subjects
foundations of statistical mechanics ,fluctuation theorem ,jarzynski equality ,Physics ,QC1-999 - Abstract
The first part of the paper is devoted to the foundations, that is the mathematical and physical justification, of equilibrium statistical mechanics. It is a pedagogical attempt, mostly based on Khinchin's presentation, which purpose is to clarify some aspects of the development of statistical mechanics. In the second part, we discuss some recent developments that appeared out of equilibrium, such as fluctuation theorem and Jarzynski equality.
- Published
- 2006
- Full Text
- View/download PDF
43. Entropy production of a closed Hamiltonian system via the detailed fluctuation relation
- Author
-
Masahito Ueda, Naoto Kura, and Yûto Murashita
- Subjects
Nonlinear Sciences::Chaotic Dynamics ,Physics ,Relation (database) ,Entropy production ,Fluctuation theorem ,Statistical physics ,Imperfect ,Hamiltonian system - Abstract
We revisit the problem of emergent irreversibility in a closed Hamiltonian system in light of the detailed fluctuation relation by invoking an imperfect Loschmidt demon that performs a time-reversal operation with a finite precision. The imperfect time reversal can be utilized to evaluate entropy production \`a la Kolmogorov and Sinai in a manner consistent with the fluctuation theorem with absolute irreversibility.
- Published
- 2021
- Full Text
- View/download PDF
44. Conservation laws shape dissipation
- Author
-
Riccardo Rao and Massimiliano Esposito
- Subjects
stochastic thermodynamics ,network ,fluctuation theorem ,conservation law ,entropy production ,cycles ,Science ,Physics ,QC1-999 - Abstract
Starting from the most general formulation of stochastic thermodynamics—i.e. a thermodynamically consistent nonautonomous stochastic dynamics describing systems in contact with several reservoirs—we define a procedure to identify the conservative and the minimal set of nonconservative contributions in the entropy production. The former is expressed as the difference between changes caused by time-dependent drivings and a generalized potential difference. The latter is a sum over the minimal set of flux-force contributions controlling the dissipative flows across the system. When the system is initially prepared at equilibrium (e.g. by turning off drivings and forces), a finite-time detailed fluctuation theorem holds for the different contributions. Our approach relies on identifying the complete set of conserved quantities and can be viewed as the extension of the theory of generalized Gibbs ensembles to nonequilibrium situations.
- Published
- 2018
- Full Text
- View/download PDF
45. Stochastic thermodynamics and hierarchy of fluctuation theorems with multiple reservoirs
- Author
-
Jae Sung Lee and Hyunggyu Park
- Subjects
stochastic thermodynamics ,fluctuation theorem ,multiple reservoir ,noise-mixing ,Science ,Physics ,QC1-999 - Abstract
We reformulate stochastic thermodynamics in terms of noise realizations for Langevin systems in contact with multiple reservoirs and investigate the structure of the second laws of thermodynamics. We derive a hierarchy of fluctuation theorems when one degree of freedom of the system is affected by multiple reservoirs simultaneously, that is, when noise-mixing occurs. These theorems and the associated second laws of thermodynamics put stricter bounds on the thermodynamics of Langevin systems. We apply our results to a stochastic machine in noise-mixing environments and demonstrate that our new bounds play a crucial role in determining the potential function and performance of the machine.
- Published
- 2018
- Full Text
- View/download PDF
46. On fluctuating momentum exchange in idealised models of air–sea interaction
- Author
-
Achim Wirth, Laboratoire des Écoulements Géophysiques et Industriels [Grenoble] (LEGI ), and Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])
- Subjects
[SDU.OCEAN]Sciences of the Universe [physics]/Ocean, Atmosphere ,Cultural Studies ,Physics ,010504 meteorology & atmospheric sciences ,Fluctuation theorem ,lcsh:QC801-809 ,Momentum transfer ,Atmospheric motion ,Random forcing ,01 natural sciences ,lcsh:QC1-999 ,010305 fluids & plasmas ,Education ,lcsh:Geophysics. Cosmic physics ,Stochastic differential equation ,Phase space ,0103 physical sciences ,lcsh:Q ,[PHYS.MECA.MEFL]Physics [physics]/Mechanics [physics]/Fluid mechanics [physics.class-ph] ,Statistical physics ,lcsh:Science ,lcsh:Physics ,Physics::Atmospheric and Oceanic Physics ,0105 earth and related environmental sciences - Abstract
International audience; The dynamics of three local models, for momentum transfer at the air-sea interface, is compared. The models differ by whether or not the ocean velocity is included in the shear calculation applied to the ocean and the atmosphere. All three cases are employed in climate or ocean simulations. Analytic calculations for the models with deterministic and random forcing (white and coloured) are presented. The short term behaviour is similar in all models, which only small quantitative differences, while the long-term behaviour differs qualitatively between the models. The fluctuation-dissipation-relation, which 5 connects the fast atmospheric motion to the slow oceanic dynamics, is established for all models with random forcing. The fluctuation-dissipation-theorem, which compares the response to an external forcing to internal fluctuations is established for a white-noise forcing and a coloured forcing when the phase space is augmented by the forcing variable. Using results from numerical integrations of stochastic differential equations it is shown that the fluctuation-theorem, which compares the probability of positive to negative fluxes of the same magnitude, averaged over time-intervals of varying length, holds for the 10 energy gained by the ocean from the atmosphere.
- Published
- 2019
- Full Text
- View/download PDF
47. Jarzynski’s Equality, Fluctuation Theorems, and Variance Reduction: Mathematical Analysis and Numerical Algorithms
- Author
-
Christof Schütte, Wei Zhang, and Carsten Hartmann
- Subjects
Work (thermodynamics) ,Current (mathematics) ,Fluctuation theorem ,Importance sampling method ,FOS: Physical sciences ,Non-equilibrium thermodynamics ,Statistical and Nonlinear Physics ,Mathematical Physics (math-ph) ,01 natural sciences ,010305 fluids & plasmas ,82C05, 60J60 ,0103 physical sciences ,Applied mathematics ,Variance reduction ,010306 general physics ,Mathematical Physics ,Energy (signal processing) - Abstract
In this paper, we study Jarzynski's equality and fluctuation theorems for diffusion processes. While some of the results considered in the current work are known in the (mainly physics) literature, we review and generalize these nonequilibrium theorems using mathematical arguments, therefore enabling further investigations in the mathematical community. On the numerical side, variance reduction approaches such as importance sampling method are studied in order to compute free energy differences based on Jarzynski's equality., journal version
- Published
- 2019
- Full Text
- View/download PDF
48. Investigation of multiple-dynein transport of melanosomes by non-invasive force measurement using fluctuation unit χ
- Author
-
Yasushi Okada, Shin Hasegawa, Kazuho Ikeda, Kumiko Hayashi, and Takashi Sagawa
- Subjects
0301 basic medicine ,Dynein ,Melanophores ,Kinesins ,lcsh:Medicine ,macromolecular substances ,Microtubules ,Article ,Melanophore ,03 medical and health sciences ,0302 clinical medicine ,Microtubule ,Organelle ,Animals ,lcsh:Science ,Zebrafish ,Quinazolinones ,Melanosome ,Organelles ,Physics ,Melanosomes ,Multidisciplinary ,biology ,Fluctuation theorem ,lcsh:R ,Dyneins ,biology.organism_classification ,030104 developmental biology ,Biophysics ,Kinesin ,Drosophila ,lcsh:Q ,030217 neurology & neurosurgery - Abstract
Pigment organelles known as melanosomes disperse or aggregate in a melanophore in response to hormones. These movements are mediated by the microtubule motors kinesin-2 and cytoplasmic dynein. However, the force generation mechanism of dynein, unlike that of kinesin, is not well understood. In this study, to address this issue, we investigated the dynein-mediated aggregation of melanosomes in zebrafish melanophores. We applied the fluctuation theorem of non-equilibrium statistical mechanics to estimate forces acting on melanosomes during transport by dynein, given that the energy of a system is related to its fluctuation. Our results demonstrate that multiple force-producing units cooperatively transport a single melanosome. Since the force is generated by dynein, this suggests that multiple dyneins carry a single melanosome. Cooperative transport has been reported for other organelles; thus, multiple-motor transport may be a universal mechanism for moving organelles within the cell.
- Published
- 2019
- Full Text
- View/download PDF
49. A Theoretical Analysis of the Integral Fluctuation Theorem for Accelerated Colloidal Systems in the Long-Time Limit
- Author
-
Yash Lokare
- Subjects
Physics ,Colloid ,Fluctuation theorem ,Quantum electrodynamics ,Time limit ,acoustics - Abstract
A quantitative description of the second law of thermodynamics in relatively small classical systems and over short time scales comes from the fluctuation-dissipation theorem. It has been well established both theoretically and experimentally, the validity of the fluctuation theorem to small scale systems that are disturbed from their initial equilibrium states. Some experimental studies in the past have also explored the validity of the fluctuation theorem to nonequilibrium steady states at long time scales in the asymptotic limit. To this end, a theoretical and/or purely numerical model of the integral fluctuation theorem has been presented. An approximate general expression for the dissipation function has been derived for accelerated colloidal systems trapped/confined in power-law traps. Thereafter, a colloidal particle trapped in a harmonic potential (generated by an accelerating one-dimensional optical trap) and undergoing Brownian motion has been considered for the numerical study. A toy model of a quartic potential trap in addition to the harmonic trap has also been considered for the numerical study. The results presented herein show that the integral fluctuation theorem applies not only to equilibrium steady state distributions but also to nonequilibrium steady state distributions of ideal colloidal systems in accelerated frames of reference over long time scales.
- Published
- 2021
50. On the analysis of the integral fluctuation theorem for accelerated colloidal systems in the long-time limit
- Author
-
Yash Lokare
- Subjects
Physics ,Toy model ,Steady state ,Fluctuation theorem ,Quartic function ,media_common.quotation_subject ,Non-equilibrium thermodynamics ,Second law of thermodynamics ,Statistical physics ,Dissipation ,Brownian motion ,media_common - Abstract
A quantitative description of the violation of the second law of thermodynamics in relatively small classical systems and over short time scales comes from the fluctuation-dissipation theorem. It has been well established both theoretically and experimentally, the validity of the fluctuation theorem to small scale systems that are disturbed from their initial equilibrium states. Some experimental studies in the past have also explored the validity of the fluctuation theorem to nonequilibrium steady states at long time scales in the asymptotic limit. To this end, a theoretical and/or purely numerical model of the integral fluctuation theorem has been presented. An approximate general expression for the dissipation function has been derived for accelerated colloidal systems trapped/confined in power-law traps. Thereafter, a colloidal particle trapped in a harmonic potential (generated by an accelerating one-dimensional optical trap) and undergoing Brownian motion has been considered for the numerical study. A toy model of a quartic potential trap in addition to the harmonic trap has also been considered for the numerical study. The results presented herein show that the integral fluctuation theorem applies not only to equilibrium steady state distributions but also to nonequilibrium steady state distributions of colloidal systems in accelerated frames of reference over long time scales.
- Published
- 2021
- Full Text
- View/download PDF
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