Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044108
Jun Wu, Mingnan Ding, Xiangjun Xing
{"title":"Stochastic thermodynamics of Brownian motion in a flowing fluid.","authors":"Jun Wu, Mingnan Ding, Xiangjun Xing","doi":"10.1103/PhysRevE.110.044108","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044108","url":null,"abstract":"<p><p>We study stochastic thermodynamics of overdamped Brownian motion in a flowing fluid. Unlike some previous papers, we treat the effects of the flow field as a nonconservational driving force acting on the Brownian particle. This allows us to apply the theoretical formalism developed in a recent paper for general nonconservative Langevin dynamics. We define heat and work both at the trajectory level and at the ensemble level, and prove the second law of thermodynamics explicitly. The entropy production is decomposed into a housekeeping part and an excess part, both of which are non-negative at the ensemble level. Fluctuation theorems are derived for the housekeeping work, the excess work, and the total work, which are further verified using numerical simulations. A comparison between our theory and an earlier theory by Speck et al. [Phys. Rev. Lett. 100, 178302 (2008)0031-900710.1103/PhysRevLett.100.178302] is also carried out.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044108"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677615","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044109
Shiqi Chen, Emmanuel Valenton, Grant M Rotskoff, Andrew L Ferguson, Stuart A Rice, Norbert F Scherer
{"title":"Power dissipation and entropy production rate of high-dimensional optical matter systems.","authors":"Shiqi Chen, Emmanuel Valenton, Grant M Rotskoff, Andrew L Ferguson, Stuart A Rice, Norbert F Scherer","doi":"10.1103/PhysRevE.110.044109","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044109","url":null,"abstract":"<p><p>Entropy production is an essential aspect of creating and maintaining nonequilibrium systems. Despite their ubiquity, calculation of entropy production rates is challenging for high-dimensional systems, so it has only been reported for simple (i.e., l-particle) systems. Moreover, there is a dearth of nontrivial experimental systems where precise measurements of entropy production rate and characterization of the nonequilibrium steady state (NESS) are simultaneously possible. We report an approach to calculate the entropy production rate of overdamped, nonconservative, N-body systems and demonstrate this on a six-particle triangle optical matter (OM) system as a nontrivial example. OM systems consist of (nano-)particles organized into ordered arrays that are bound by electrodynamic interactions associated with the scattering and interference of light, and the associated induced-polarizations in and among the particles in coherent optical beams. The flux of laser light in OM systems in a solution environment necessitates that they dissipate energy, produce entropy, and relax to a NESS. The NESS may have several ordered particle configurations (i.e., isomers) that can interchange by barrier crossing processes. Understanding the power dissipation and entropy production rate of a NESS in an OM system along different (collective) modes of motion can advance understanding of the relative stability of the NESSs as well as inform design and control of OM structures. Therefore, we compute the components of the entropy production rate and power dissipation along the collective coordinates of the 6 Ag nanoparticle triangle OM system from OM NESS trajectory data and verify the Seifert relation [U. Seifert, Rep. Prog. Phys. 75, 126001 (2012)10.1088/0034-4885/75/12/126001] for these complex systems with a nuanced interpretation.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044109"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677598","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044119
Josselin Garnier, Harry L F Ip, Laurent Mertz
{"title":"Sensitivity analysis of colored-noise-driven interacting particle systems.","authors":"Josselin Garnier, Harry L F Ip, Laurent Mertz","doi":"10.1103/PhysRevE.110.044119","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044119","url":null,"abstract":"<p><p>We propose an efficient sensitivity analysis method for a wide class of colored-noise-driven interacting particle systems (IPSs). Our method is based on unperturbed simulations and significantly extends the Malliavin weight sampling method proposed by Szamel [Europhys. Lett. 117, 50010 (2017)0295-507510.1209/0295-5075/117/50010] for evaluating sensitivities such as linear response functions of IPSs driven by simple Ornstein-Uhlenbeck processes. We show that the sensitivity index depends not only on two effective parameters that characterize the variance and correlation time of the noise, but also on the noise spectrum. In the case of a single particle in a harmonic potential, we obtain exact analytical formulas for two types of linear response functions. By applying our method to a system of many particles interacting via a repulsive screened Coulomb potential, we compute the mobility and effective temperature of the system. Our results show that the system dynamics depend, in a nontrivial way, on the noise spectrum.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044119"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677605","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044201
M Mugnaine, I L Caldas, J D Szezech, R L Viana, P J Morrison
{"title":"Shearless effective barriers to chaotic transport induced by even twin islands in nontwist systems.","authors":"M Mugnaine, I L Caldas, J D Szezech, R L Viana, P J Morrison","doi":"10.1103/PhysRevE.110.044201","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044201","url":null,"abstract":"<p><p>For several decades now it has been known that systems with shearless invariant tori, nontwist Hamiltonian systems, possess barriers to chaotic transport. These barriers are resilient to breakage under perturbation and therefore regions where they occur are natural places to look for barriers to transport. Here we describe a kind of effective barrier that persists after the shearless torus is broken. Because phenomena are generic, for convenience we study the standard nontwist map (SNM), an area-preserving map that violates the twist condition locally in the phase space. The barrier occurs in nontwist systems when twin even period islands are present, which happens for a broad range of parameter values in the SNM. With a phase space composed of regular and irregular orbits, the movement of chaotic trajectories is hampered by the existence of shearless curves, total barriers, and a network of partial barriers formed by the stable and unstable manifolds of the hyperbolic points. Being a degenerate system, the SNM has twin islands and, consequently, twin hyperbolic points. We show that the structures formed by the manifolds intrinsically depend on period parity of the twin islands. For this even scenario the structure that we call a torus free barrier occurs because the manifolds of different hyperbolic points form an intricate chain atop a dipole configuration and the transport of chaotic trajectories through the chain becomes a rare event. This structure impacts the emergence of transport, the escape basin for chaotic trajectories, the transport mechanism, and the chaotic saddle. The case of odd periodic orbits is different: we find for this case the emergence of transport immediately after the breakup of the last invariant curve, and this leads to a scenario of higher transport, with intricate escape basin boundary and a chaotic saddle with nonuniformly distributed points.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044201"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677608","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044313
Mathias Roman, Ivan L'Heureux, Arthur Powanwe, André Longtin
{"title":"Threshold crossing time theory for quasicycles with application to brain rhythms.","authors":"Mathias Roman, Ivan L'Heureux, Arthur Powanwe, André Longtin","doi":"10.1103/PhysRevE.110.044313","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044313","url":null,"abstract":"<p><p>The amplitude of a two-dimensional Ornstein-Uhlenbeck colored noise process evolves according to the one-dimensional Rayleigh process. This is a general model for the random amplitude fluctuations of a quasicycle, i.e., of a noise-induced oscillation around an equilibrium with complex eigenvalues in physical and biological systems. We consider the probability density of time intervals during which the amplitude is either below or above a fixed threshold. The statistics of such first return times (FRTs) are of particular interest in neuroscience to characterize brain rhythm power excursions known as bursts, as well as avalanches and other branching processes. In contrast with the density of first passage times computed using Fokker-Planck theory between a start point and a different endpoint, the density of FRTs is non-normalizable. A recently proposed technique reframes the problem using an expansion of the Fokker-Planck eigenfunctions along with a correction to the normalization. Analytical expressions for the FRT density for the Rayleigh process are shown to be in good agreement with those computed from numerical realizations over a wide range of parameters, both for trajectories above and below threshold. Special care is required to evaluate the theory above threshold due to the crowded roots of the Tricomi confluent hypergeometric function. The results provide insight into the statistics of threshold crossing times in quasicycles generally, and in the stochastic Wilson-Cowan neural equations in particular. Surprisingly, FRTs are governed by a single meta-parameter Δ given by the ratio of the noise strength and the linear stability coefficient. We find the universal property that the mean FRT is invariant to the ratio of threshold to sqrt[Δ]. The FRT density further exhibits exponential behavior over medium to long timescales, and mixtures of exponentials at shorter FRTs, thereby establishing the absence of strict power-law scaling in these threshold-crossing statistics.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044313"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677618","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044128
P L Krapivsky, S Redner
{"title":"Charged aggregation.","authors":"P L Krapivsky, S Redner","doi":"10.1103/PhysRevE.110.044128","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044128","url":null,"abstract":"<p><p>We introduce an aggregation process that begins with equal concentrations of positively and negatively \"charged\" monomers. Oppositely charged monomers merge to form neutral dimers. These dimers are the seeds for subsequent aggregation events in which neutral clusters of necessarily even mass join irreversibly to form neutral aggregates of ever-increasing size. In the mean-field approximation with mass independent reaction rates, we solve for the reaction kinetics and show that the concentration of clusters of mass k, c_{k}(t), asymptotically scales as A_{k}/t, with A_{k} having a nontrivial dependence on k. We also investigate the phenomenon of gelation in charged aggregation when the reaction rate equals the product of the two incident cluster masses. Finally, we generalize our model to the case of three and more types of monomers.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044128"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677341","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044304
Saif Eddin Jabari
{"title":"Countering adversarial perturbations in graphs using error correcting codes.","authors":"Saif Eddin Jabari","doi":"10.1103/PhysRevE.110.044304","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044304","url":null,"abstract":"<p><p>We consider the problem of a graph subjected to adversarial perturbations, such as those arising from cyber attacks, where edges are covertly added or removed. The adversarial perturbations occur during the transmission of the graph between a sender and a receiver. To counteract potential perturbations, this study explores a repetition coding scheme with sender-assigned noise and majority voting on the receiver's end to rectify the graph's structure. The approach operates without prior knowledge of the attack's characteristics. We analytically derive a bound on the number of repetitions needed to satisfy probabilistic constraints on the quality of the reconstructed graph. The method can accurately and effectively decode Erdős-Rényi graphs that were subjected to nonrandom edge removal, namely, those connected to vertices with the highest eigenvector centrality, in addition to random addition and removal of edges by the attacker. The method is also effective against attacks on large scale-free graphs generated using the Barabási-Albert model but require a larger number of repetitions than needed to correct Erdős-Rényi graphs.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044304"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677347","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.045301
Vyacheslav Mozolenko, Marina Fadeeva, Lev Shchur
{"title":"Comparison of the microcanonical population annealing algorithm with the Wang-Landau algorithm.","authors":"Vyacheslav Mozolenko, Marina Fadeeva, Lev Shchur","doi":"10.1103/PhysRevE.110.045301","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.045301","url":null,"abstract":"<p><p>The development of new algorithms for simulations in physics is as important as the development of new analytical methods. In this paper, we present a comparison of the recently developed microcanonical population annealing (MCPA) algorithm with the rather mature Wang-Landau algorithm. The comparison is performed on two cases of the Potts model that exhibit a first-order phase transition. We compare the simulation results of both methods with exactly known results, including the finite-dimensional dependence of the maximum of the specific heat capacity. We evaluate the Binder cumulant minimum, the ratio of peaks in the energy distribution at the critical temperature, the energies of the ordered and disordered phases, and interface tension. Both methods exhibit similar accuracy at selected sets of modeling parameters.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-2","pages":"045301"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142676487","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.045311
Zhipeng Chang, Jerry Zhijian Yang, Xiaofei Zhao
{"title":"Solving initial-terminal value problem of time evolutions by a deep least action method: Newtonian dynamics and wave equations.","authors":"Zhipeng Chang, Jerry Zhijian Yang, Xiaofei Zhao","doi":"10.1103/PhysRevE.110.045311","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.045311","url":null,"abstract":"<p><p>We introduce a deep least action method (DLAM) rooted in the principle of least action to solve the trajectory of an evolution problem. DLAM offers an efficient unsupervised solution and can be applied once the action or Lagrangian of the concerned physical system is clear, totally avoiding the differential equations. As required by the least action principle, we incorporate a normalized deep neural network to exactly satisfy the initial-terminal value conditions; thus the evolution problem is transformed into an unconstrained optimization problem. We conduct systematic investigations, initially focusing on Newtonian dynamics modeled by ordinary differential equations. Subsequently, we move on to the wave dynamics modeled by partial differential equations, covering nonlinear, high-order, and high-dimensional cases in detail. Our results showcase the effectiveness of DLAM and illustrate its efficiency and accuracy.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-2","pages":"045311"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677425","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Physical Review EPub Date : 2024-10-01DOI: 10.1103/PhysRevE.110.044127
Yoana R Chorbadzhiyska, Peter A Ivanov
{"title":"Onset of quantum thermalization in the Jahn-Teller model.","authors":"Yoana R Chorbadzhiyska, Peter A Ivanov","doi":"10.1103/PhysRevE.110.044127","DOIUrl":"https://doi.org/10.1103/PhysRevE.110.044127","url":null,"abstract":"<p><p>We investigate the onset of quantum thermalization in a system governed by the Jahn-Teller Hamiltonian, which describes the interaction between a single spin and two bosonic modes. We find that the Jahn-Teller model exhibits a finite-size quantum phase transition between the normal phase and two types of super-radiant phase when the ratios of spin-level splitting to each of the two bosonic frequencies grow to infinity. We test the prediction of the eigenstate thermalization hypothesis in the Jahn-Teller model. We show that the expectation value of the spin observable quickly approaches its long-time average value. We find that the distance between the diagonal ensemble average and the microcanonical ensemble average of the spin observable decreases with the effective thermodynamic parameter. Furthermore, we show that the mean time fluctuations of the spin observable are small and are inversely proportional to the effective system dimension.</p>","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"110 4-1","pages":"044127"},"PeriodicalIF":2.2,"publicationDate":"2024-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142677593","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}