Inspired by one-dimensional light-particle systems, the dynamics of a non-Hamiltonian system with long-range forces is investigated. While the molecular dynamics does not reach an equilibrium state, it may be approximated in the thermodynamic limit by a Vlasov equation that does possess stable stati...

[Phys. Rev. E 99, 010104(R)] Published Fri Jan 18, 2019

]]>We use an efficient method that eases the daunting task of simulating dynamics in spin systems with long-range interaction. Our Monte Carlo simulations of the long-range Ising model for the nonequilibrium phase ordering dynamics in two spatial dimensions perform significantly faster than the standar...

[Phys. Rev. E 99, 011301(R)] Published Fri Jan 18, 2019

]]>We study the mixing of active swimmers. Two different types of swimmers (modeled as particles) are placed initially in two boxes with an interconnection between them. The mixing of swimmers happens as they move with their own self-propelled forces. The self-propelled force is constant and the direct...

[Phys. Rev. E 99, 012609] Published Fri Jan 18, 2019

]]>We study fragment size distributions after crushing single and many particles under uniaxial compression inside a cylindrical container by means of numerical simulations. Under the assumption that breaking goes through the bulk of the particle we obtain the size distributions of fragments for both c...

[Phys. Rev. E 99, 012904] Published Fri Jan 18, 2019

]]>The column collapse experiment is a simplified version of the complex granular flows observed in both natural and industrial contexts. Due to its simple setup and rich behavior, the column collapse has been studied experimentally and numerically by several authors. The purpose of the analyses presen...

[Phys. Rev. E 99, 012905] Published Fri Jan 18, 2019

]]>A lattice Boltzmann model for compressible flows on standard lattices is developed and analyzed. A consistent two-population thermal lattice Boltzmann is used which allows a variable Prandtl number and a variable adiabatic exponent, and appropriate correction terms are introduced into the kinetic eq...

[Phys. Rev. E 99, 013306] Published Fri Jan 18, 2019

]]>The concept of transport mediated through the dynamics of “jumping” particles is used to develop an iterative method for obtaining steady-state solutions to the nonlocal transport equation in two dimensions. The technique is self-adjoint and capable of correctly treating spatially nonuniform, asymme...

[Phys. Rev. E 99, 013307] Published Fri Jan 18, 2019

]]>A multiphase lattice Boltzmann method is developed to simulate immiscible three-phase flows with contact-line dynamics. In this method, the immiscible three-phase flow is modeled by a multiple-relaxation-time color-gradient model, which not only allows for a full range of interfacial tensions but al...

[Phys. Rev. E 99, 013308] Published Fri Jan 18, 2019

]]>This work proposes a simulation technique that can be used to compute the thermal interaction between a rarefied gas and an atomically rough nanopore. A standard pore geometry, the slit pore, is used to derive the correct version of the cosine law in case the wall consists out of individual atoms. H...

[Phys. Rev. E 99, 013309] Published Fri Jan 18, 2019

]]>Modularity maximization using greedy algorithms continues to be a popular approach toward community detection in graphs, even after various better forming algorithms have been proposed. Apart from its clear mechanism and ease of implementation, this approach is persistently popular because, presumab...

[Phys. Rev. E 99, 010301(R)] Published Thu Jan 17, 2019

]]>In this work we consider the nonequilibrium mechanical and magnetic work performed on a one-dimensional compressible Ising model. In the harmonic approximation we easily integrate the mechanical degrees of freedom of the model, and the resulting effective Hamiltonian depends on two external paramete...

[Phys. Rev. E 99, 012129] Published Thu Jan 17, 2019

]]>We study the random deposition model with power-law distributed noise and rare-event dominated fluctuation. In this model instead of particles with unit sizes, rods with variable lengths are deposited onto the substrate. The length of each rod is chosen from a power-law distribution $P\left(l\right)\sim {l}^{-(\mu +1)}$, an...

[Phys. Rev. E 99, 012130] Published Thu Jan 17, 2019

]]>We study numerically the aging properties of the two-dimensional Ising model with quenched disorder considered in our recent paper [Phys. Rev. E **95**, 062136 (2017)], where frustration can be tuned by varying the fraction of antiferromagnetic interactions. Specifically, we focus on the scaling propert...

[Phys. Rev. E 99, 012131] Published Thu Jan 17, 2019

]]>Customarily, the Kirkendall effect is associated with the vacancy-mediated balance of diffusion fluxes of atoms at the interface between two metals. Nowadays, this effect attracts appreciable attention due to its crucial role in the formation of various hollow nanoparticles via oxidation of metal na...

[Phys. Rev. E 99, 012132] Published Thu Jan 17, 2019

]]>In our previous paper [Terekhov *et al.*, Phys. Rev. E **95**, 062133 (2017)] we considered the optical channel modeled by the nonlinear Schrödinger equation with zero dispersion and additive Gaussian noise. We found per-sample channel capacity for this model. In the present paper we extend the per-sample...

[Phys. Rev. E 99, 012133] Published Thu Jan 17, 2019

]]>We investigate the role of a transverse field on the Ising square antiferromagnet with first (${J}_{1}$) and second (${J}_{2}$) neighbor interactions. Using a cluster mean-field approach, we provide a telltale characterization of the frustration effects on the phase boundaries and entropy accumulation process eme...

[Phys. Rev. E 99, 012134] Published Thu Jan 17, 2019

]]>Memory effects, sometimes, cannot be neglected. In the framework of continuous-time random walk, memory effect is modeled by the correlated waiting times. In this paper, we derive the two-point probability distribution of the correlated waiting time process, as well as the one of its inverse process...

[Phys. Rev. E 99, 012135] Published Thu Jan 17, 2019

]]>Spinodal decomposition is a well-known pattern-forming mechanism in metallurgic alloys, semiconductor crystals, and colloidal gels. In metallurgy, if a heated sample of a homogeneous Zn-Al alloy is suddenly quenched below a critical temperature, then the sample can spontaneously precipitate into inh...

[Phys. Rev. E 99, 012318] Published Thu Jan 17, 2019

]]>Many biological activities are induced by cellular chemical reactions of diffusing reactants. The dynamics of such systems can be captured by stochastic reaction networks. A recent numerical study has shown that diffusion can significantly enhance the fluctuations in gene regulatory networks. Howeve...

[Phys. Rev. E 99, 012416] Published Thu Jan 17, 2019

]]>We study a minimal model for the growth of a phenotypically heterogeneous population of cells subject to a fluctuating environment in which they can replicate (by exploiting available resources) and modify their phenotype within a given landscape (thereby exploring novel configurations). The model d...

[Phys. Rev. E 99, 012417] Published Thu Jan 17, 2019

]]>A mechanism for diffusiophoresis of a charged colloidal particle undergoing surface chemical reaction is proposed. A theoretical model is constructed to describe the dynamics of the particle and the surrounding solution of a weak electrolyte. Theoretical analysis and numerical simulations of the mod...

[Phys. Rev. E 99, 012608] Published Thu Jan 17, 2019

]]>Previous work [Davidovits and Fisch, Phys. Rev. Lett. **116**, 105004 (2016)] demonstrated that the compression of a turbulent field can lead to a sudden viscous dissipation of turbulent kinetic energy (TKE), and that paper suggested this mechanism could potentially be used to design new fast-ignition s...

[Phys. Rev. E 99, 013107] Published Thu Jan 17, 2019

]]>We present an analysis of a Hall-magnetohydrodynamics model of the magnetospheric plasma with finite Larmor radius effect. Through a bifurcation analysis of the resultant nonlinear system, we show that this nonlinear model does not possess a limit cycle, which rules out regular periodic oscillations...

[Phys. Rev. E 99, 013205] Published Thu Jan 17, 2019

]]>We introduce an elementary quantum system consisting of a set of spins on a graph and a particle hopping between its nodes. The quantum state is build sequentially, applying a unitary transformation that couples neighboring spins and, at each node, couples the local spin with the particle. We observ...

[Phys. Rev. E 99, 012127] Published Wed Jan 16, 2019

]]>We consider the motion of overdamped particles over random potentials subjected to a Gaussian white noise and a time-dependent periodic external forcing. The random potential is modeled as the potential resulting from the interaction of a point particle with a random polymer. The random polymer is m...

[Phys. Rev. E 99, 012128] Published Wed Jan 16, 2019

]]>We consider the long-time evolution of pulses in the Korteweg–de Vries equation theory for initial distributions which produce no soliton but instead lead to the formation of a dispersive shock wave and of a rarefaction wave. An approach based on Whitham modulation theory makes it possible to obtain...

[Phys. Rev. E 99, 012210] Published Wed Jan 16, 2019

]]>We study the dynamics of knotted vortices in a bulk excitable medium using the FitzHugh-Nagumo model. From a systematic survey of all knots of at most eight crossings we establish that the generic behavior is of unsteady, irregular dynamics, with prolonged periods of expansion of parts of the vorte...

[Phys. Rev. E 99, 012211] Published Wed Jan 16, 2019

]]>Previously, the controllability problem of a linear time-invariant dynamical system was mapped to the maximum matching (MM) problem on the bipartite representation of the underlying directed graph, and the sizes of MMs on random bipartite graphs were calculated analytically with the cavity method at...

[Phys. Rev. E 99, 012317] Published Wed Jan 16, 2019

]]>A drop of lipid lateral self-diffusion coefficient at the liquid-gel phase transition in lipid membranes is calculated. So far this drop was missing theoretical description. Our microscopic model captures so-called subdiffusion regime, which takes place on 1 ps–100 ns timescale and reveals a jump of...

[Phys. Rev. E 99, 012414] Published Wed Jan 16, 2019

]]>The energy landscape is widely used to quantify the stability of multistable nonlinear systems, such as bistable gene regulation networks. In physics, the potential can be obtained through integration only for gradient systems. However, multidimensional nonlinear systems are often nongradient, for w...

[Phys. Rev. E 99, 012415] Published Wed Jan 16, 2019

]]>Cloaking and scattering cancellation of electromagnetic waves have attracted much attention since they allow control of rf and light waves and are of scientific interest. The analytical results demonstrated in this paper reveal that plasmonic cloaking, which is one of the schemes for scattering canc...

[Phys. Rev. E 99, 013204] Published Wed Jan 16, 2019

]]>The investigation on grid sensitivity for the bifurcation problem of the canonical lid-driven cavity (LDC) flow results is reported here with very fine grids. This is motivated by different researchers presenting different first bifurcation critical Reynolds number (${\text{Re}}_{\text{cr}1}$), which appears to depend o...

[Phys. Rev. E 99, 013305] Published Wed Jan 16, 2019

]]>A recently developed nonlinear fluctuating hydrodynamics theory has been quite successful in describing various features of anomalous energy transport. However, the diffusion and the noise terms present in this theory are not derived from microscopic descriptions but rather added phenomenologically....

[Phys. Rev. E 99, 012124] Published Tue Jan 15, 2019

]]>This paper discusses analytical and numerical results for nonharmonic, undamped, single-well, stochastic oscillators driven by additive noises. It focuses on average kinetic, potential, and total energies together with the corresponding distributions under random drivings, involving Gaussian white, ...

[Phys. Rev. E 99, 012125] Published Tue Jan 15, 2019

]]>We explore how the expectation values $\langle \psi \left|A\right|\psi \rangle $ of a largely arbitrary observable $A$ are distributed when normalized vectors $|\psi \rangle $ are randomly sampled from a high-dimensional Hilbert space. Our analytical results predict that the distribution exhibits a very narrow peak of approximately Gaussian shape, ...

[Phys. Rev. E 99, 012126] Published Tue Jan 15, 2019

]]>This paper analyzes the forces on a cylindrical straight rod penetrated into a granular bed in the partially fluidized state. As gas flow is blown from the bed bottom, the resistance force decreases linearly with increasing gas flow velocity. After the bed is fluidized, the resistance force is close...

[Phys. Rev. E 99, 012903] Published Tue Jan 15, 2019

]]>In thermal glasses at temperatures sufficiently lower than the glass transition, the constituent particles are trapped in their cages for a sufficiently long time such that their *time-averaged positions* can be determined before diffusion and structural relaxation takes place. The effective forces ar...

[Phys. Rev. E 99, 011001(R)] Published Mon Jan 14, 2019

]]>Single-molecule experiments have found near-perfect thermodynamic efficiency in the rotary motor ${\mathrm{F}}_{1}$-ATP synthase. To help elucidate the principles underlying nonequilibrium energetic efficiency in such stochastic machines, we investigate driving protocols that minimize dissipation near equilibrium i...

[Phys. Rev. E 99, 012119] Published Mon Jan 14, 2019

]]>Entropy production plays a fundamental role in nonequilibrium thermodynamics to quantify the irreversibility of open systems. Its positivity can be ensured for a wide class of setups, but the entropy production *rate* can become negative sometimes. This is often taken as an indicator of non-Markoviani...

[Phys. Rev. E 99, 012120] Published Mon Jan 14, 2019

]]>We investigate the effects of resetting mechanisms on random processes that follow the telegrapher's equation instead of the usual diffusion equation. We thus study the consequences of a finite speed of signal propagation, the landmark of telegraphic processes. Likewise diffusion processes where sig...

[Phys. Rev. E 99, 012121] Published Mon Jan 14, 2019

]]>The critical properties of the one-dimensional spin-$1/2$ transverse Ising model in the presence of a longitudinal magnetic field were studied by the quantum fidelity method. We used exact diagonalization to obtain the ground-state energies and corresponding eigenvectors for lattice sizes up to 24 spi...

[Phys. Rev. E 99, 012122] Published Mon Jan 14, 2019

]]>The emergence of rigidity upon changes of temperature, density, or applied stresses in disordered assemblies of particles is of interest in a wide range of soft matter, from glass formers, gels, foams, and granular matter. Shear jamming of frictional grains presents an interesting special case where...

[Phys. Rev. E 99, 012123] Published Mon Jan 14, 2019

]]>Polygonal desiccation crack patterns are commonly observed in natural systems. Despite their quotidian nature, it is unclear whether similar crack patterns which span orders of magnitude in length scales share the same underlying physics. In thin films, the characteristic length of polygonal cracks ...

[Phys. Rev. E 99, 012802] Published Mon Jan 14, 2019

]]>A spinning ball moving through air experiences a net lift due to the “Magnus effect” resulting from the pressure difference across its two sides. In this work, with the help of numerical simulations, we present a similar phenomenon on a circular intruder undergoing both translational and rotational ...

[Phys. Rev. E 99, 012902] Published Mon Jan 14, 2019

]]>Acoustic nonreciprocity has been shown to enable a plethora of effects analogous to phenomena seen in quantum physics and electromagnetics, such as immunity from backscattering and unidirectional band gaps, which could lead to the design of direction-dependent acoustic devices. One way to break reci...

[Phys. Rev. E 99, 013001] Published Mon Jan 14, 2019

]]>We study boundary conditions applied to the macroscopic dynamics of Newtonian liquids from the view of microscopic particle systems. We assume the existence of microscopic boundary conditions that are uniquely determined from a microscopic description of the fluid and the wall. By using molecular dy...

[Phys. Rev. E 99, 013106] Published Mon Jan 14, 2019

]]>The recent literature on near-term applications for quantum computers contains several examples of the applications of hybrid quantum-classical variational approaches. This methodology can be applied to a variety of optimization problems, but its practical performance is not well studied yet. This p...

[Phys. Rev. E 99, 013304] Published Mon Jan 14, 2019

]]>Linear response theory (LRT) is one of the main approaches to the dynamics of quantum many-body systems. However, this approach has limitations and requires, e.g., that the initial state is (i) mixed and (ii) close to equilibrium. In this paper, we discuss these limitations and study the nonequilibr...

[Phys. Rev. E 99, 012114] Published Fri Jan 11, 2019

]]>We address the question of the relevance of thermalization and scrambling to the increase of correlations in the quench dynamics of an isolated system with a finite number of interacting bosons. Specifically, we study how, in the process of thermalization, the correlations between occupation numbers...

[Phys. Rev. E 99, 012115] Published Fri Jan 11, 2019

]]>The phase transition and critical properties for the ${\mathrm{RP}}^{2}$ model in two dimensions is investigated by means of the nonequilibrium relaxation method (NER) together with the dynamical scaling analysis. The relaxation of nematic order from the all-aligned state is observed by Monte Carlo simulations. The...

[Phys. Rev. E 99, 012116] Published Fri Jan 11, 2019

]]>This paper presents a Monte Carlo study of percolation in a distorted square lattice, in which the adjacent sites are not equidistant. Starting with an undistorted lattice, the position of the lattice sites are shifted through a tunable parameter $\alpha $ to create a distorted empty lattice. In this model,...

[Phys. Rev. E 99, 012117] Published Fri Jan 11, 2019

]]>We consider the dynamics of a microswimmer and show that they can be approximated by active Brownian motion. The swimmer is modeled by coupled overdamped Langevin equations with periodic driving. We compare the energy dissipation of the real swimmer to that of the active Brownian motion model, findi...

[Phys. Rev. E 99, 012118] Published Fri Jan 11, 2019

]]>The low- and high-amplitude oscillations in the system of three nonlinear coupled pendula (trimer) are analyzed beyond the quasilinear approximation. The considered oscillations are fundamental for many models of the energy exchange processes in physical, mechanical, and biological systems, in parti...

[Phys. Rev. E 99, 012209] Published Fri Jan 11, 2019

]]>We construct a pathwise formulation for a multitype age-structured population dynamics, which involves an age-dependent cell replication and transition of gene- or phenotypes. By employing the formulation, we derive a variational representation of the stationary population growth rate; the represent...

[Phys. Rev. E 99, 012413] Published Fri Jan 11, 2019

]]>A relationship between the observation of a density anomaly and the underlying crystalline phase diagram is demonstrated. The crystal phase diagram and temperature of maximum density (TMD) lines are calculated over a range of parameter space using a Stillinger-Weber potential. Relationships between ...

[Phys. Rev. E 99, 010103(R)] Published Thu Jan 10, 2019

]]>I provide numerical evidence for the robustness of the Griffiths phase (GP) reported previously in dynamical threshold model simulations on a large human brain network with $N=836\phantom{\rule{0.16em}{0ex}}733$ connected nodes. The model, with equalized network sensitivity, is extended in two ways: introduction of refractory st...

[Phys. Rev. E 99, 012113] Published Thu Jan 10, 2019

]]>The Belousov-Zhabotinsky (BZ) reaction is a famous experimental model for chemical oscillatory reaction and pattern formation. We herein study a diffusive coupled system of two oscillators with global feedback using the photosensitive BZ reaction both experimentally and theoretically. The coupled os...

[Phys. Rev. E 99, 012208] Published Thu Jan 10, 2019

]]>We show that eigenvector centrality exhibits localization phenomena on networks that can be easily partitioned by the removal of a vertex cut set, the most extreme example being networks with a cut vertex. Three distinct types of localization are identified in these structures. One is related to the...

[Phys. Rev. E 99, 012315] Published Thu Jan 10, 2019

]]>Bifurcation theory is a powerful tool for studying how the dynamics of a neural network model depends on its underlying neurophysiological parameters. However, bifurcation theory of neural networks has been developed mostly for mean-field limits of infinite-size spin-glass models, for finite-size dy...

[Phys. Rev. E 99, 012316] Published Thu Jan 10, 2019

]]>During the interphase in mammalian cells, the position of the centrosome is actively maintained at a small but finite distance away from the nucleus. The perinuclear positioning of the centrosome is crucial for cellular trafficking and progression into mitosis. Although the literature suggests that ...

[Phys. Rev. E 99, 012409] Published Thu Jan 10, 2019

]]>We investigate evolutionary dynamics of altruism with long-range interaction on a cycle. The interaction between individuals is described by a simplified version of the prisoner's dilemma (PD) game in which the payoffs are parameterized by $c$, the cost of a cooperative action. In our model, the proba...

[Phys. Rev. E 99, 012410] Published Thu Jan 10, 2019

]]>An emerging mechanism for intracellular organization is liquid-liquid phase separation (LLPS). Found in both the nucleus and the cytoplasm, liquidlike droplets condense to create compartments that are thought to promote and inhibit specific biochemistry. In this work, a multiphase, Cahn-Hilliard dif...

[Phys. Rev. E 99, 012411] Published Thu Jan 10, 2019

]]>A general trait of living cells is their ability to exert contractile stresses on their surroundings and thus respond to substrate rigidity. At the cellular scale, this response affects cell shape, polarity, and ultimately migration. The regulation of cell shape together with rigidity sensing remain...

[Phys. Rev. E 99, 012412] Published Thu Jan 10, 2019

]]>Highly concentrated particle suspensions (also called slurries) can undergo a sharp increase in viscosity, or shear thickening, under applied stress. Understanding the fundamental features leading to such rheological change is crucial to optimize flow conditions or to design flow modifiers for slurr...

[Phys. Rev. E 99, 012607] Published Thu Jan 10, 2019

]]>In relativistic fluid mechanics, positive entropy production is known to be insufficient for guaranteeing stability. Much stronger criteria for thermodynamic admissibility have become available in nonequilibrium thermodynamics. We here perform a linear stability analysis for a model of relativistic ...

[Phys. Rev. E 99, 013105] Published Thu Jan 10, 2019

]]>The self-diffusion phenomenon in a two-dimensional dusty plasma at extremely strong (effective) magnetic fields is studied experimentally and by means of molecular dynamics simulations. In the experiment the high magnetic field is introduced by rotating the particle cloud and observing the particle ...

[Phys. Rev. E 99, 013203] Published Thu Jan 10, 2019

]]>Chimera states in spatiotemporal dynamical systems have been investigated in physical, chemical, and biological systems, and have been shown to be robust against random perturbations. How do chimera states achieve their robustness? We uncover a self-adaptation behavior by which, upon a spatially loc...

[Phys. Rev. E 99, 010201(R)] Published Wed Jan 09, 2019

]]>We show that the dominant mode of alignment plays an important role in dry active nematics, leading to two dynamical subclasses defined by the nature of the instability of the nematic bands that characterize, in these systems, the coexistence phase separating the isotropic and fluctuating nematic st...

[Phys. Rev. E 99, 010601(R)] Published Wed Jan 09, 2019

]]>The authors studied the phase evolution of breathers in two different systems: hydrodynamic waves in a water tank and light waves in a single-mode fiber. In both cases, their experimental results confirm several theoretical predictions regarding phase shifts between the central peak and the continuous background. Applications of the work to other systems are suggested.

[Phys. Rev. E 99, 012207] Published Wed Jan 09, 2019

]]>Spatially extended excitable systems can exhibit spiral defect chaos (SDC) during which spiral waves continuously form and disappear. To address how this dynamical state terminates using simulations can be computationally challenging, especially for large systems. To circumvent this limitation, we t...

[Phys. Rev. E 99, 012407] Published Wed Jan 09, 2019

]]>Bacterial movement in confined spaces is routinely encountered either in a natural environment or in artificial structures. Consequently, the ability to understand and predict the behavior of motile bacterial cells in confined geometries is essential to many applications, spanning from the more clas...

[Phys. Rev. E 99, 012408] Published Wed Jan 09, 2019

]]>We numerically examine a two-dimensional system of repulsively interacting particles with dynamics that are governed by both a damping term and a Magnus term. The magnitude of the Magnus term has one value for half of the particles and a different value for the other half of the particles. In the ab...

[Phys. Rev. E 99, 012606] Published Wed Jan 09, 2019

]]>Turbulence mixing models of different degree of complexity are investigated for Rayleigh-Taylor mixing flows with reference to high-resolution implicit large eddy simulations. The models considered, in order of increasing complexity, comprise the (i) two-equation *K-L*, (ii) three-equation *K-L-a*, (iii...

[Phys. Rev. E 99, 013104] Published Wed Jan 09, 2019

]]>The subatomic experimental exploration of physical processes on extremely short time scales has become possible by the generation of high-quality electron bunches and x-ray pulses with subfemtosecond durations. Increasing the photon energy from the x-ray to gamma-ray regime makes probing of extremel...

[Phys. Rev. E 99, 013202] Published Wed Jan 09, 2019

]]>We discuss a resource-competition model, which takes MacArthur's model as a platform, to unveil interesting connections with glassy features and jamming in high dimensions. This model, as first studied by Tikhonov and Monasson, presents two qualitatively different phases: a *shielded* phase, where a c...

[Phys. Rev. E 99, 010401(R)] Published Tue Jan 08, 2019

]]>Water is ubiquitous, and the surface properties of ice have been studied for some time, due to their importance. A liquidlike layer (LLL) is known to exist on ice, below the melting point. We use surface thermal fluctuation spectroscopy to study the LLL, including its thickness, for pure ice, and fo...

[Phys. Rev. E 99, 010801(R)] Published Tue Jan 08, 2019

]]>We investigate the scaling of the interfacial adsorption of the two-dimensional Blume-Capel model using Monte Carlo simulations. In particular, we study the finite-size scaling behavior of the interfacial adsorption of the pure model at both its first- and second-order transition regimes, as well as...

[Phys. Rev. E 99, 012111] Published Tue Jan 08, 2019

]]>We study the heat fluctuation of an overdamped Brownian particle trapped in a harmonic potential and driven by active noise. Employing the phase-space path integral method we derive a general formula for the probability distribution of heat exchange in a generic model of an active bath. The work has...

[Phys. Rev. E 99, 012112] Published Tue Jan 08, 2019

]]>For perturbative scalar field theories, the late-time-limit of the out-of-time-ordered correlation function that measures (quantum) chaos is shown to be equal to a Boltzmann-type kinetic equation that measures the total gross (instead of net) particle exchange between phase-space cells, weighted by ...

[Phys. Rev. E 99, 012206] Published Tue Jan 08, 2019

]]>Various types of walks on complex networks have been used in recent years to model search and navigation in several kinds of systems, with particular emphasis on random walks. This gives valuable information on network properties, but self-avoiding walks (SAWs) may be more suitable than unrestricted...

[Phys. Rev. E 99, 012314] Published Tue Jan 08, 2019

]]>Mathematical modeling may be an excellent tool to analyze and explain complex biological phenomena. In this paper, we use a mathematical model to reveal various interesting dynamical features of phytoplankton-zooplankton interaction and attempt to explain the reason for contrasting dynamics shown by...

[Phys. Rev. E 99, 012406] Published Tue Jan 08, 2019

]]>We provide analytical formulas for the movement of spherical particles in a corrugated tube, in the approximation of small amplitude of the tube diameter variation. We calculate how the particle is pushed toward the wall at some places and pulled off the wall at others. We show that this effect caus...

[Phys. Rev. E 99, 012604] Published Tue Jan 08, 2019

]]>We generalize the particle-conserving dynamics method of de las Heras *et al.* [J. Phys.: Condens. Matter **28**, 244024 (2016)] to binary mixtures and apply this to hard rods in one dimension. Considering the case of one species consisting of only one particle enables us to address the tagged-particle dy...

[Phys. Rev. E 99, 012605] Published Tue Jan 08, 2019

]]>The evolution of a uniform interface subjected to a perturbed shock wave has been experimentally studied over a range of Atwood numbers $0.22\le A\le 0.68$ and Mach numbers $1.2\le M\le 1.8$ using a vertical shock tube. The perturbed shock wave is produced by diffracting a planar incident shock over a rigid cylinde...

[Phys. Rev. E 99, 013103] Published Tue Jan 08, 2019

]]>The determination of statistical characteristics for particles undergoing Brownian motion in constrained domains has multiple applications in various areas of research. This work presents an attempt to systematically compute globally optimal configurations of traps inside a three-dimensional domain ...

[Phys. Rev. E 99, 012109] Published Mon Jan 07, 2019

]]>The following question is the subject of our work: could a two-dimensional (2D) random path pushed by some constraints to an improbable “large-deviation regime” possess extreme statistics with one-dimensional (1D) Kardar-Parisi-Zhang (KPZ) fluctuations? The answer is positive, though nonuniversal, s...

[Phys. Rev. E 99, 012110] Published Mon Jan 07, 2019

]]>Experiments on interacting pinned self-propelled rotators are presented. The rotators are made from paper with camphor infused in its matrix. The ribbons rotate due to Marangoni effect driven forces arising by virtue of surface tension gradients. Two such self-rotating camphor ribbons are observed t...

[Phys. Rev. E 99, 012204] Published Mon Jan 07, 2019

]]>We examine a model of two interacting populations of phase oscillators labeled “blue” and “red.” To this we apply tempered stable Lévy noise, a generalization of Gaussian noise where the heaviness of the tails parametrized by a power law exponent $\alpha $ can be controlled by a tempering parameter $\lambda $. This ...

[Phys. Rev. E 99, 012205] Published Mon Jan 07, 2019

]]>Nonautonomous driving of an oscillator has been shown to enlarge the Arnold tongue in parameter space, but little is known about the analogous effect for a network of oscillators. To test the hypothesis that deterministic nonautonomous perturbation is a good candidate for stabilizing complex dynamic...

[Phys. Rev. E 99, 012309] Published Mon Jan 07, 2019

]]>We explore the relation between the topological relevance of a node in a complex network and the individual dynamics it exhibits. When the system is weakly coupled, the effect of the coupling strength against the dynamical complexity of the nodes is found to be a function of their topological roles,...

[Phys. Rev. E 99, 012310] Published Mon Jan 07, 2019

]]>Networks are often made up of several layers that exhibit diverse degrees of interdependencies. An interdependent network consists of a set of graphs $G$ that are interconnected through a weighted interconnection matrix $B$, where the weight of each intergraph link is a non-negative real number $p$. Vario...

[Phys. Rev. E 99, 012311] Published Mon Jan 07, 2019

]]>The robustness in real-world complex systems with dependency connectivities differs from that in isolated networks. Although most complex network research has focused on interdependent undirected systems, many real-world networks—such as gene regulatory networks and traffic networks—are directed. We...

[Phys. Rev. E 99, 012312] Published Mon Jan 07, 2019

]]>Neural field models are commonly used to describe wave propagation and bump attractors at a tissue level in the brain. Although motivated by biology, these models are phenomenological in nature. They are built on the assumption that the neural tissue operates in a near synchronous regime, and hence,...

[Phys. Rev. E 99, 012313] Published Mon Jan 07, 2019

]]>We study fluctuation effects of nonsteric molecular interactions between RNA polymerase (RNAP) motors that move simultaneously on the same DNA track during transcription elongation. Based on a stochastic model that allows for the exact analytical computation of the stationary distribution of RNAPs a...

[Phys. Rev. E 99, 012405] Published Mon Jan 07, 2019

]]>Using computer simulation we explore how two-dimensional systems of colloids with a combination of short-range attractive and long-range repulsive interactions generate complex structures and kinetics. Cooperative effects mean the attractive potential, despite being very short-ranged compared to the...

[Phys. Rev. E 99, 012603] Published Mon Jan 07, 2019

]]>The packing fraction dynamics of a wet granular material submitted to freeze-thaw cycling is investigated experimentally. The dynamics is strongly influenced by the liquid volume fraction $\omega $ in the considered range of $0.03<\omega <0.32$. This range of liquid contents covers different regimes of wetnes...

[Phys. Rev. E 99, 012901] Published Mon Jan 07, 2019

]]>The transport of chemical species in porous media is ubiquitous in subsurface processes, including contaminant transport, soil drying, and soil remediation. We study vapor transport in a multiscale porosity material, a smectite clay, in which water molecules travel in mesopores and macropores betwee...

[Phys. Rev. E 99, 013102] Published Mon Jan 07, 2019

]]>Molecular dynamics represents a key enabling technology for applications ranging from biology to the development of new materials. However, many real-world applications remain inaccessible to fully resolved simulations due to their unsustainable computational costs and must therefore rely on semiemp...

[Phys. Rev. E 99, 013303] Published Mon Jan 07, 2019

]]>An isolated quantum system in a pure state may be perceived as thermal if only a substantially small fraction of all degrees of freedom is probed. We propose that in a quantum chaotic many-body system all states with sufficiently small energy fluctuations are approximately thermal. We refer to this ...

[Phys. Rev. E 99, 010102(R)] Published Fri Jan 04, 2019

]]>Stable glassy configurations can be generated numerically at a low computational cost, through the minimization of an enhanced potential where the particle radii are used as additional degrees of freedom. The authors obtain similar configurations to those published in the literature and study some of their structural and mechanical properties.

[Phys. Rev. E 99, 012106] Published Fri Jan 04, 2019

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