We provide highly accurate equation-of-state data determined by means of cluster Monte Carlo simulations for the isotropic phase of oblate hard ellipsoids of revolution. Both equation-of-state data and phase boundaries of the isotropic phase are obtained from relatively large ensembles with typicall...

[Phys. Rev. E 105, 014125] Published Tue Jan 25, 2022

]]>Spiral waves lead to dangerous arrhythmias in the cardiac system. In 2015 Burton *et al.* demonstrated the reversal of the spiral wave chirality through the rotating spiral-shaped illumination on the optogenetically modified cardiac monolayers. We show that this process entails the recreation of a spi...

[Phys. Rev. E 105, 014214] Published Tue Jan 25, 2022

]]>We present a path-integral formulation of the motion of a particle subjected to fluctuating active and thermal forces. This general framework predicts the statistical behavior associated with the stochastic trajectories of the particle, accounting for all possible realizations of Brownian and active...

[Phys. Rev. E 105, 014415] Published Tue Jan 25, 2022

]]>Bistability in the firing rate is a prominent feature in different types of neurons as well as in neural networks. We show that for a constant input below a critical value, such bistability can lead to a giant spike-count diffusion. We study the transmission of a periodic signal and demonstrate that...

[Phys. Rev. E 105, 014416] Published Tue Jan 25, 2022

]]>We analyze the conformational dynamics and statistical properties of an active polymer model. The polymer is described as a freely jointed bead-rod chain subject to stochastic active force dipoles that act on the suspending solvent where they drive long-ranged fluid flows. Using Langevin simulations...

[Phys. Rev. E 105, 014608] Published Tue Jan 25, 2022

]]>Interactions between rigid inclusions in continuous three-dimensional linearly elastic solids and low-Reynolds-number viscous fluids have largely been quantified in the past. Prime example systems are given by functionalized elastic composite materials or fluid colloidal suspensions. Here, we addres...

[Phys. Rev. E 105, 014609] Published Tue Jan 25, 2022

]]>Although multi-phase-field models are applied extensively to simulate various pattern formations, their asymptotic analysis is not typically performed at a level of rigor common to their scalar counterparts. Most of the time, arguments given, such as for the justification of the selection of the bul...

[Phys. Rev. E 105, 014802] Published Tue Jan 25, 2022

]]>The effect of rotation on small-scale characteristics and scaling law in the mixing zone of the three-dimensional turbulent Rayleigh-Taylor instability (RTI) is investigated by the lattice Boltzmann method at small Atwood number. The mixing zone width $h\left(t\right)$, the root mean square of small scale fluctu...

[Phys. Rev. E 105, 015103] Published Tue Jan 25, 2022

]]>We study the relaxation dynamics of a binary liquid mixture near a light-absorbing Janus particle after switching on and off illumination using experiments and theoretical models. The dynamics is controlled by the temperature gradient formed around the heated particle. Our results show that the rela...

[Phys. Rev. E 105, 014123] Published Mon Jan 24, 2022

]]>Numerous attempts have been made to obtain earthquake statistics from a theoretical-physics perspective, but these studies mostly involve regular earthquakes. In recent years, a new category of earthquakes, referred to as slow earthquakes, has been discovered. Slow earthquakes emit only weak or no s...

[Phys. Rev. E 105, 014124] Published Mon Jan 24, 2022

]]>We discuss here the application of the simultaneous block diagonalization (SBD) of matrices to the study of the stability of both complete and cluster synchronization in random (generic) networks. For both problems, we define indices that measure success (or failure) of application of the SBD techni...

[Phys. Rev. E 105, 014313] Published Mon Jan 24, 2022

]]>Many species are unsustainable at small population densities (Allee effect); i.e., below the so-called Allee threshold, the population decreases instead of growing. In a closed local population, environmental fluctuations always lead to extinction. Here, we show how, in spatially extended habitats, ...

[Phys. Rev. E 105, 014413] Published Mon Jan 24, 2022

]]>When blood flows through vessel networks, red blood cells (RBCs) are typically concentrated close to the vessel center line, creating a lubrication layer near the vessel wall. As RBCs bind oxygen, the width of this cell-free layer (CFL) impacts not only the blood rheology inside the vasculature, but...

[Phys. Rev. E 105, 014414] Published Mon Jan 24, 2022

]]>The impact of nanoparticles (NPs) composed of atoms with covalent bonding is investigated numerically and theoretically. We use recent models of covalent bonding of carbon atoms and elaborate a numerical model of amorphous carbon (a-C) NPs, which may be applied for modeling soot particles. We comput...

[Phys. Rev. E 105, 014607] Published Mon Jan 24, 2022

]]>The Fermi acceleration model describes how cosmic ray particles accelerate to great speeds by interacting with moving magnetic fields. We identify a variation of the model where light ions interact with a moving wall while undergoing pitch angle scattering through Coulomb collisions due to the prese...

[Phys. Rev. E 105, 015207] Published Mon Jan 24, 2022

]]>In a recent paper, Lucco Castello *et al.* [arXiv:2107.03537] performed systematic extractions of classical one-component plasma bridge functions from molecular dynamics simulations and provided an accurate parametrization that was incorporated in their isomorph-based empirically modified hypernetted ...

[Phys. Rev. E 105, 015208] Published Mon Jan 24, 2022

]]>Linear irreversible thermodynamics predicts that the entropy production rate can become negative. We demonstrate this prediction for metals under AC driving whose conductivity is well described by the Drude-Sommerfeld model. We then show that these negative rates are fully compatible with stochastic...

[Phys. Rev. E 105, L012105] Published Mon Jan 24, 2022

]]>A striking and highly versatile feature of magnetic (nano)particles is their ability to be manipulated at will at a distance by external fields. In this paper, the influence of gravity on the self-assembly of dipolar particles near a surface in the presence of a strong vertical magnetic field is inv...

[Phys. Rev. E 105, L012602] Published Mon Jan 24, 2022

]]>This work takes advantage of the nonmonotonic dependence of the surface tension of liquid crystals on temperature to study Marangoni flow in sandwich cells under controlled temperature. The authors find intricate behaviors depending on the phases of the material as well as on the anchoring conditions.

[Phys. Rev. E 105, L012701] Published Mon Jan 24, 2022

]]>The spontaneous generation of electrical activity underpins a number of essential physiological processes, and is observed even in tissues where specialized pacemaker cells have not been identified. The emergence of periodic oscillations in diffusively coupled assemblies of excitable and electricall...

[Phys. Rev. E 105, 014311] Published Fri Jan 21, 2022

]]>Statistical methods for reconstructing networks from repeated measurements typically assume that all measurements are generated from the same underlying network structure. This need not be the case, however. People's social networks might be different on weekdays and weekends, for instance. Brain ne...

[Phys. Rev. E 105, 014312] Published Fri Jan 21, 2022

]]>The Hawk-Dove evolutionary game offers a paradigm of the trade-offs associated with aggressive and passive behaviors. When two (or more) populations of players compete, their success or failure is measured by their frequency in the population, and the system is governed by the replicator dynamics. W...

[Phys. Rev. E 105, 014412] Published Fri Jan 21, 2022

]]>We present a theoretical study of the transition energies $\omega $ and the oscillator strengths $gf$ for the C-like ions (with $Z$ from 14–36) subject to plasma environment for atomic transitions, which meet the spatial and temporal criteria of the Debye-Hückel (DH) approximation. Two strong dipole-allowed tra...

[Phys. Rev. E 105, 015206] Published Fri Jan 21, 2022

]]>Neural network potentials (NNPs) combine the computational efficiency of classical interatomic potentials with the high accuracy and flexibility of the *ab initio* methods used to create the training set, but can also result in unphysical predictions when employed outside their training set distributi...

[Phys. Rev. E 105, 015311] Published Fri Jan 21, 2022

]]>Delay embeddings of time series data have emerged as a promising coordinate basis for data-driven estimation of the Koopman operator, which seeks a linear representation for observed nonlinear dynamics. Recent work has demonstrated the efficacy of dynamic mode decomposition (DMD) for obtaining finit...

[Phys. Rev. E 105, 015312] Published Fri Jan 21, 2022

]]>The phenomenon of the two-state process is observed in various systems and is increasingly attracting attention, such that there is a need for a theoretical model of the process. In this paper, we present a prototypal two-state random walk (TSRW) model of a renewal process alternating between the co...

[Phys. Rev. E 105, 014122] Published Thu Jan 20, 2022

]]>Inspired by the recent experimental progress in the time-driven phase transition in quantum chaos, we investigate comprehensively the energy diffusion of a kicked rotor in the presence of phase modulation. In the classical case, we found that there always exists anomalous diffusion as long as the ph...

[Phys. Rev. E 105, 014212] Published Thu Jan 20, 2022

]]>The well-known Vicsek model describes the dynamics of a flock of self-propelled particles (SPPs). Surprisingly, there is no direct measure of the chaotic behavior of such systems. Here we discuss the dynamical phase transition present in Vicsek systems in light of the largest Lyapunov exponent (LLE)...

[Phys. Rev. E 105, 014213] Published Thu Jan 20, 2022

]]>We study the dynamics of clustering in systems containing active particles that are immersed in an explicit solvent. For this, we have adopted a hybrid simulation method, consisting of molecular dynamics and multiparticle collision dynamics. In our model, the overlap-avoiding passive interaction of ...

[Phys. Rev. E 105, 014606] Published Thu Jan 20, 2022

]]>Quantifying the ways in which local particle rearrangements contribute to macroscopic plasticity is one of the fundamental pursuits of granular mechanics and soft matter physics. Here we examine local rearrangements that occur naturally during the deformation of three samples of 3D granular material...

[Phys. Rev. E 105, 014904] Published Thu Jan 20, 2022

]]>The counterintuitive phenomenon—that an initially hotter water freezes faster than initially cooler water—is named the “Mpemba effect.” Although it has been known for centuries, the underlying mechanism remains unclear. Recently, the Mpemba effect rekindled the interest of researchers since several ...

[Phys. Rev. E 105, 014119] Published Wed Jan 19, 2022

]]>We study the full distribution of $A={\int}_{0}^{T}{x}^{n}\left(t\right)dt,n=1,2,\cdots $, where $x\left(t\right)$ is an Ornstein-Uhlenbeck process. We find that for $n>2$ the long-time ($T\to \infty $) scaling form of the distribution is of the anomalous form $P(A;T)\sim {e}^{-{T}^{\mu}{f}_{n}(\mathrm{\Delta}A/{T}^{\nu})}$ where $\mathrm{\Delta}A$ is the difference between $A$ and its mean value, and the anomalous ...

[Phys. Rev. E 105, 014120] Published Wed Jan 19, 2022

]]>We consider an open (Brownian) classical harmonic oscillator in contact with a non-Markovian thermal bath and described by the generalized Langevin equation. When the bath's spectrum has a finite upper cutoff frequency, the oscillator may have ergodic and nonergodic configurations. In ergodic config...

[Phys. Rev. E 105, 014121] Published Wed Jan 19, 2022

]]>We study species abundance in the empirical plant-pollinator mutualistic networks exhibiting broad degree distributions, with uniform intragroup competition assumed, by the Lotka-Volterra equation. The stability of a fixed point is found to be identified by the signs of its nonzero components and th...

[Phys. Rev. E 105, 014309] Published Wed Jan 19, 2022

]]>Social interactions may affect the update of individuals' opinions. The existing models such as the majority-vote (MV) model have been extensively studied in different static networks. However, in reality, social networks change over time and individuals interact dynamically. In this work, we study ...

[Phys. Rev. E 105, 014310] Published Wed Jan 19, 2022

]]>We study methylation dynamics of the chemoreceptors as an *Escherichia coli* cell moves around in a spatially varying chemoattractant environment. We consider attractant concentration with strong and weak spatial gradient. During the uphill and downhill motion of the cell along the gradient, we measur...

[Phys. Rev. E 105, 014411] Published Wed Jan 19, 2022

]]>The conformational and dynamical properties of active Brownian polymers embedded in a fluid depend on the nature of the driving mechanism, e.g., self-propulsion or external actuation of the monomers. Implementations of self-propelled and actuated active Brownian polymers in a multiparticle collision...

[Phys. Rev. E 105, 015310] Published Wed Jan 19, 2022

]]>We study microscopic engines that use a single active particle as their “working medium.” Part of the energy required to drive the directed motion of the particle can be recovered as work, even at a constant temperature. A wide class of synthetic active particles can be captured by schematically acc...

[Phys. Rev. E 105, L012601] Published Wed Jan 19, 2022

]]>In this paper we analyze the asymptotic behavior of Lévy walks with rests. Applying recent results in the field of functional convergence of continuous-time random walks we find the corresponding limiting processes. Depending on the parameters of the model, we show that in the limit we can obtain st...

[Phys. Rev. E 105, 014114] Published Tue Jan 18, 2022

]]>Classical equilibrium thermodynamics provides, in a general way, upper Carnot bounds for the performance of energy converters. Nevertheless, to suggest lower bounds is a much more subtle issue, especially when they are related to a definition of *convenience*. Here, this issue is investigated in a uni...

[Phys. Rev. E 105, 014115] Published Tue Jan 18, 2022

]]>In our effort to tackle the problem of letting nontrivial interactions, thermodynamic equilibrium, and full synchronicity coexist, and in the hope of reviving interest in cellular automata as promising tools for the quantitative, large-scale investigation of multiparticle systems, we built a fully s...

[Phys. Rev. E 105, 014116] Published Tue Jan 18, 2022

]]>We present a statistical mechanical description of randomly packed spherical particles, where the average coordination number is treated as a macroscopic thermodynamic variable. The overall packing entropy is shown to have two contributions: geometric, reflecting statistical weights of individual co...

[Phys. Rev. E 105, 014117] Published Tue Jan 18, 2022

]]>The time series recordings of typical songs of songbirds exhibit highly complex and structured behavior, which is characteristic of their species and stage of development, and need to be analyzed by methods that can uncover their correlation structure. Here we analyze a typical song of a canary usin...

[Phys. Rev. E 105, 014118] Published Tue Jan 18, 2022

]]>Linear stability of synchronized states in networks of delay-coupled oscillators depends on the type of interaction, the network, and oscillator properties. For inert oscillator response, found ubiquitously from biology to engineering, states with time-dependent frequencies can arise. These generate...

[Phys. Rev. E 105, 014210] Published Tue Jan 18, 2022

]]>We study the collective behavior of swarmalators, generalizations of phase oscillators that both sync and swarm, confined to move on a one-dimensional (1D) ring. This simple model captures the essence of movement in two or three dimensions, but has the benefit of being solvable: most of the collecti...

[Phys. Rev. E 105, 014211] Published Tue Jan 18, 2022

]]>As opposed to most previous works focusing on random walks on deterministic tree networks, in this paper, we pay more attention on random growth tree networks. Specifically, we propose two distinct types of random growth tree networks $\mathcal{T}(1;t,p)$ and $\mathcal{T}(2;t,p)$ where $t$ represents time step and $p$ is a pro...

[Phys. Rev. E 105, 014307] Published Tue Jan 18, 2022

]]>It is often stated that human languages, as other biological systems, are shaped by cost-cutting pressures but, to what extent? Attempts to quantify the degree of optimality of languages by means of an optimality score have been scarce and focused mostly on English. Here we recast the problem of the...

[Phys. Rev. E 105, 014308] Published Tue Jan 18, 2022

]]>Liquids near the glass transition exhibit dynamical heterogeneity, i.e., correlated regions in the liquid relax at either a much faster rate or a much slower rate than the average. This collective phenomenon has been characterized by measurements of a dynamic susceptibility ${\chi}_{4}\left(t\right)$, which is sometimes...

[Phys. Rev. E 105, 014605] Published Tue Jan 18, 2022

]]>Understanding the relaxation dynamics of colloidal suspensions is crucial to identifying the elements that influence the mobility of their constituents, assessing their macroscopic response across the relevant time and length scales, and thus disclosing the fundamentals underpinning their exploitati...

[Phys. Rev. E 105, 014703] Published Tue Jan 18, 2022

]]>Microstructure characterization and reconstruction (MCR) is one of the most important components of discovering processing-structure-property relations of porous media behavior and inverse porous media design in computational materials science. Since the algorithms for describing and controlling the...

[Phys. Rev. E 105, 015308] Published Tue Jan 18, 2022

]]>Event-chain Monte Carlo (ECMC) accelerates the sampling of hard-sphere systems, and has been generalized to the potentials used in classical molecular simulations. Rather than imposing detailed balance on the transition probabilities, the method enforces a weaker global-balance condition in order to...

[Phys. Rev. E 105, 015309] Published Tue Jan 18, 2022

]]>Polygonal billiards constitute some of the simplest yet counterintuitive dynamical systems in physics. Even basic features of the dynamics, such as ergodicity of the microcanonical distribution or the decay of correlations have not been settled in general. In this Letter, we will highlight the impor...

[Phys. Rev. E 105, L012201] Published Tue Jan 18, 2022

]]>We investigate the nonergodicity of the generalized Lévy walk introduced by Shlesinger *et al.* [Phys. Rev. Lett. **58**, 1100 (1987)] with respect to the squared displacements. We present detailed analytical derivations of our previous findings outlined in a recent letter [Phys. Rev. Lett. **120**, 104501 (2...

[Phys. Rev. E 105, 014113] Published Fri Jan 14, 2022

]]>The life cycle of messenger RNA can be modeled by a reaction scheme that includes a stochastic element. The authors develop a mean-field approach that is able to predict the number of molecules at each stage of the mRNA life cycle, and confirm their result using stochastic simulations.

[Phys. Rev. E 105, 014410] Published Fri Jan 14, 2022

]]>In this work, using the generalized Boltzmann equation of Zadehgol [Phys. Rev. E **94**, 023316 (2016)] a lattice Boltzmann time-domain (LBTD) method is proposed. The time-domain methods, such as the finite-difference time-domain method (FDTD), have been proposed by researchers, as tools in the study an...

[Phys. Rev. E 105, 015307] Published Fri Jan 14, 2022

]]>Oscillations in the preexponential of the nucleation rate are due to the discrete nature of small nuclei. An accurate elementary expression to describe such oscillations is derived in the limit of a high nucleation barrier. The result is applied to the standard Becker-Döring equation in two and thre...

[Phys. Rev. E 105, 014111] Published Thu Jan 13, 2022

]]>We study the enumeration of closed walks of given length and algebraic area on the honeycomb lattice. Using an irreducible operator realization of honeycomb lattice moves, we map the problem to a Hofstadter-like Hamiltonian and show that the generating function of closed walks maps to the grand part...

[Phys. Rev. E 105, 014112] Published Thu Jan 13, 2022

]]>Over the past few decades, formation of Turing patterns in reaction-diffusion systems has been shown to be the underlying process in several examples of biological morphogenesis, confirming Alan Turing's hypothesis, put forward in 1952. However, theoretical studies suggest that Turing patterns forma...

[Phys. Rev. E 105, 014209] Published Thu Jan 13, 2022

]]>We analyze the stability of linear dynamical systems defined on sparse, random graphs with predator-prey, competitive, and mutualistic interactions. These systems are aimed at modeling the stability of fixed points in large systems defined on complex networks, such as ecosystems consisting of a larg...

[Phys. Rev. E 105, 014305] Published Thu Jan 13, 2022

]]>We consider the mean-field analog of the $p$-star model for homogeneous random networks, and we compare its behavior with that of the $p$-star model and its classical mean-field approximation in the thermodynamic regime. We show that the partition function of the mean-field model satisfies a sequence of...

[Phys. Rev. E 105, 014306] Published Thu Jan 13, 2022

]]>The impact of ribosome exit tunnel electrostatics on the protein elongation rate or on forces acting upon the nascent polypeptide chain are currently not fully elucidated. In the past, researchers have measured the electrostatic potential inside the ribosome polypeptide exit tunnel at a limited numb...

[Phys. Rev. E 105, 014409] Published Thu Jan 13, 2022

]]>Here we study how curvature affects the structure of two-dimensional crystals growing on spheres. The mechanism of crystal growth is described by means of a Landau model in curved space that accounts for the excess of strain on crystal bonds caused by the substrate's curvature (packing frustration)....

[Phys. Rev. E 105, 014801] Published Thu Jan 13, 2022

]]>The capability to simulate a two-way coupled interaction between a rarefied gas and an arbitrary-shaped colloidal particle is important for many practical applications, such as aerospace engineering, lung drug delivery, and semiconductor manufacturing. By means of numerical simulations based on the ...

[Phys. Rev. E 105, 015306] Published Thu Jan 13, 2022

]]>We apply the concept of Lagrangian descriptors to the dynamics on the Bunimovich stadium billiard, a two-dimensional ergodic system with singular families of trajectories, namely, the bouncing ball and the whispering gallery orbits. They play a central role in structuring the phase space, which is u...

[Phys. Rev. E 105, 014208] Published Wed Jan 12, 2022

]]>Reaction-diffusion systems implemented as dynamical processes on networks have recently renewed the interest in their self-organized collective patterns known as Turing patterns. We investigate the influence of network topology on the emerging patterns and their diversity, defined as the variety of ...

[Phys. Rev. E 105, 014304] Published Wed Jan 12, 2022

]]>Despite substantial evidence that mechanical variables play a crucial role in transmembrane voltage regulation, most research efforts focus mostly on the nerve cell's biochemical or electrophysiological activities. We propose an electromechanical model of a nerve in order to advance our understandin...

[Phys. Rev. E 105, 014407] Published Wed Jan 12, 2022

]]>Understanding microbial biofilm growth is important to public health because biofilms are a leading cause of persistent clinical infections. In this paper, we develop a thin-film model for microbial biofilm growth on a solid substratum to which it adheres strongly. We model biofilms as two-phase vis...

[Phys. Rev. E 105, 014408] Published Wed Jan 12, 2022

]]>In a recent work [Bret, EPL **135**, 35001 (2021)], quantum electrodynamic (QED) effects were evaluated for the two-stream instability. It pertains to the growth of perturbations with a wave vector oriented along the flow in a collisionless counter-streaming system. Here, the analysis is extended to eve...

[Phys. Rev. E 105, 015205] Published Wed Jan 12, 2022

]]>In this paper, an analytical solution of a linear nonlocal Poisson-Boltzmann equation (NPBE) test model with multiple charges in a spherical solute region surrounded by a water spherical shell is derived as a single series of Legendre polynomials and modified spherical Bessel functions. The classic ...

[Phys. Rev. E 105, 015305] Published Wed Jan 12, 2022

]]>From the exact solution of the stochastic telegrapher's equation, Fourier plane-wave-like modes are introduced. Then the time evolution of the plane-wave modes are analyzed when the absorption of energy in the telegrapher's equation has strong time fluctuations. We demonstrate that fluctuations in t...

[Phys. Rev. E 105, 014110] Published Tue Jan 11, 2022

]]>Fixed-energy sandpile (FES) models, introduced to understand the self-organized criticality, show a continuous phase transition between absorbing and active phases. In this work, we study the dynamics of the deterministic FES models on random networks. We observe that close to absorbing transition t...

[Phys. Rev. E 105, 014303] Published Tue Jan 11, 2022

]]>How ecosystems maintain stability is an active area of research. Inspired by applications of random matrix theory in nuclear physics, May showed decades ago that in an ecosystem model with many randomly interacting species, increasing species diversity decreases the stability of the ecosystem. There...

[Phys. Rev. E 105, 014406] Published Tue Jan 11, 2022

]]>We investigate simple models of a monodisperse system of soft, frictionless disks flowing through a two-dimensional microchannel in the presence of a single or a double constriction using Brownian dynamics simulation. After a transient time, a stationary state is observed with an increase in particl...

[Phys. Rev. E 105, 014604] Published Tue Jan 11, 2022

]]>The evolution of structural defects during phase transition is of great significance to the understanding of the mechanism of solid-liquid transition. However, the current research on topological defects still uses the pair-correlation function and the orientational order correlation function, so it...

[Phys. Rev. E 105, 014903] Published Tue Jan 11, 2022

]]>We have inferred the energy distribution of trapped ions in an electron beam ion trap (EBIT) from simulations of the spatial distribution of ${\mathrm{Fe}}^{13+}$ ions and a comparison with measured visible light images of the ion cloud. We simulated the cloud of ${\mathrm{Fe}}^{13+}$ ions by computing ion trajectories in the EBIT...

[Phys. Rev. E 105, 015204] Published Tue Jan 11, 2022

]]>In this work, a lattice Boltzmann (LB) model based on the phase-field method is proposed for simulating large density ratio two-phase flows. An improved multiple-relaxation-time (MRT) LB equation is first developed to solve the conserved Allen-Cahn (AC) equation. By utilizing a nondiagonal relaxatio...

[Phys. Rev. E 105, 015304] Published Tue Jan 11, 2022

]]>When a randomness is introduced at the level of real matrix elements, depending on its particular realization, a pair of eigenvalues can appear as real or form a complex conjugate pair. We show that in the limit of large matrix size the density of such real eigenvalues is proportional to the square ...

[Phys. Rev. E 105, L012104] Published Tue Jan 11, 2022

]]>We investigate the local elastic properties of polystyrene doped with ${\mathrm{SiO}}_{2}$ nanoparticles by analyzing the local density fluctuations. The density fluctuations were established from coarse-grained molecular dynamics simulations performed with the MARTINI force field. A significant increase in polysty...

[Phys. Rev. E 105, L012501] Published Tue Jan 11, 2022

]]>We describe analytically, and simulate numerically, traveling waves with oscillatory tails in a bistable, piecewise-linear reaction-diffusion-advection system of the FitzHugh-Nagumo type with linear cross-diffusion and cross-advection terms of opposite signs. We explore the dynamics of two wave type...

[Phys. Rev. E 105, 014207] Published Mon Jan 10, 2022

]]>A molecular model describing the effective anchoring energy of a liquid crystal (LC) system, composed of 4-$n$-pentyl-${4}^{\prime}$-cyanobiphenyl (5CB) molecules deposited on a photosensitive azobenzene layer consisting of 6Az10PVA molecules, is proposed. This model takes into account the interaction between the...

[Phys. Rev. E 105, 014702] Published Mon Jan 10, 2022

]]>It has recently been shown that altering the shape of the metastable and unstable branches of an equation of state (EOS) can substantially improve the numerical accuracy of liquid and vapor densities in the pseudopotential lattice Boltzmann method [Peng *et al.*, Phys. Rev. E **101**, 063309 (2020)]. We ...

[Phys. Rev. E 105, 015303] Published Mon Jan 10, 2022

]]>In this paper we examine some foundational issues of a class of quantum engines where the system consists of a single quantum parametric oscillator, operating in an Otto cycle consisting of four stages of two alternating phases: the isentropic phase is detached from any bath (thus a closed system) w...

[Phys. Rev. E 105, 014108] Published Fri Jan 07, 2022

]]>Eigenstates of local many-body interacting systems that are far from spectral edges are thought to be ergodic and close to being random states. This is consistent with the eigenstate thermalization hypothesis and volume-law scaling of entanglement. We point out that systematic departures from comple...

[Phys. Rev. E 105, 014109] Published Fri Jan 07, 2022

]]>In this paper, we study in detail the nonlinear propagation of a magnetic soliton in a ferromagnetic film. The sample is magnetized to saturation by an external field perpendicular to film plane. A generalized ($2+1$)-dimensional short-wave asymptotic model is derived. The bilinearlike forms of this e...

[Phys. Rev. E 105, 014205] Published Fri Jan 07, 2022

]]>We predict negative temperature states in the discrete nonlinear Schödinger (DNLS) equation as exact solutions of the associated wave kinetic equation. Within the wave kinetic approach, we define an entropy that results monotonic in time and reaches a stationary state, that is consistent with classi...

[Phys. Rev. E 105, 014206] Published Fri Jan 07, 2022

]]>During the outbreak of a virus, perhaps the greatest concern is the future evolution of the epidemic: How many people will be infected and which regions will be affected the most? The accurate prediction of an epidemic enables targeted disease countermeasures (e.g., allocating medical staff and quar...

[Phys. Rev. E 105, 014302] Published Fri Jan 07, 2022

]]>We examine stationary regimes in granular materials from a dynamical systems theory perspective. The aim is to enrich the classical view of the critical state regime in granular materials, and more broadly, to improve the fundamental understanding of the underlying mesoscale mechanisms responsible f...

[Phys. Rev. E 105, 014902] Published Fri Jan 07, 2022

]]>In mechanical engineering Wöhler plots serve to measure the average number of load cycles before materials break, as a function of the maximal stress in each cycle. Although such plots have been prevalent in engineering for more than 150 years, their theoretical understanding is lacking. Recently a ...

[Phys. Rev. E 105, 015001] Published Fri Jan 07, 2022

]]>We present numerical investigations on the clogging of adhesive particles carrying electric dipoles at pore scale using an adhesive discrete element method (DEM). Based on the simulation results, the long-range dipolar interaction is reported to promote the clogging process, which is quantified by t...

[Phys. Rev. E 105, 015102] Published Fri Jan 07, 2022

]]>We analyze the static response to perturbations of nonequilibrium steady states that can be modeled as one-dimensional diffusions on the circle. We demonstrate that an arbitrary perturbation can be broken up into a combination of three specific classes of perturbations that can be fruitfully address...

[Phys. Rev. E 105, L012102] Published Fri Jan 07, 2022

]]>We study the diffusion of $N$ particles in one dimension interacting via a drift proportional to their rank. In the attractive case (self-gravitating gas) a mapping to the Lieb-Liniger quantum model allows one to obtain stationary time correlations, return probabilities, and the decay rate to the stat...

[Phys. Rev. E 105, L012103] Published Fri Jan 07, 2022

]]>We introduce a class of physically intriguing $\mathcal{P}T$-symmetric Dirac-$\delta $-Scarf-II optical potentials. We find the parameter region making the corresponding non-Hermitian Hamiltonian admit the fully real spectra, and present the stable parameter domains for these obtained peakons, smooth solitons, and doub...

[Phys. Rev. E 105, 014204] Published Thu Jan 06, 2022

]]>Gene expression in individual cells is inherently variable and sporadic, leading to cell-to-cell variability in mRNA and protein levels. Recent single-cell and single-molecule experiments indicate that promoter architecture and translational bursting play significant roles in controlling gene expres...

[Phys. Rev. E 105, 014405] Published Thu Jan 06, 2022

]]>The calculation of the optical properties of hot dense plasmas with a model that has self-consistent plasma physics is a grand challenge for high energy density science. Here we exploit a recently developed electronic structure model that uses multiple scattering theory to solve the Kohn-Sham densit...

[Phys. Rev. E 105, 015203] Published Thu Jan 06, 2022

]]>In order to predict the postcollision velocities in the binary collision, one needs the deflection angle given by the solution of the trajectory equation of classical mechanics. In the direct simulation Monte Carlo, it has been conventional to assume that the scattering is isotropic taking the hard ...

[Phys. Rev. E 105, 015302] Published Thu Jan 06, 2022

]]>A Brownian yet non-Gaussian phenomenon has recently been observed in many biological and active matter systems. The main idea of explaining this phenomenon is to introduce a random diffusivity for particles moving in inhomogeneous environment. This paper considers a Langevin system containing a rand...

[Phys. Rev. E 105, 014106] Published Wed Jan 05, 2022

]]>Soundscape studies help us understand ecological processes, biodiversity distribution, anthropic influences, and even urban quality, across a wide variety of places and time periods. In this work, instead of looking for differences, we ask if there are common characteristics shared by all soundscape...

[Phys. Rev. E 105, 014107] Published Wed Jan 05, 2022

]]>This paper investigates evanescent waves in one-dimensional nonlinear monatomic chains using a first-order Lindstedt-Poincaré approach. Perturbation approaches applied to traveling waves in similar chains have predicted weakly nonlinear phenomena such as dispersion shifts and amplitude-dependent sta...

[Phys. Rev. E 105, 014203] Published Wed Jan 05, 2022

]]>Spiral waves are found in many excitable systems and are thought to play a role in the incoherent electrical activation that underlies cardiac arrhythmias. It is well-known that spiral waves can be permanently trapped by local heterogeneities. In this paper, we demonstrate that spiral waves can also...

[Phys. Rev. E 105, 014404] Published Wed Jan 05, 2022

]]>Equilibrium shapes of magnetic rods and their stability under the action of an applied field are analyzed. The family of shapes is characterized by two magnetoelastic numbers due to the remanent magnetization and paramagnetic susceptibility of the rod. Since in experiments with flexible magnetic rod...

[Phys. Rev. E 105, 014601] Published Wed Jan 05, 2022

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