Rheology of dense anisotropic colloidal suspensions often exhibits unsteady flow at constant imposed shear stress and/or shear rate. Using simultaneous high-resolution confocal microscopy and rheology, we find that the temporal behavior arises due to a strong coupling between shear flow and particle...

[Phys. Rev. E 101, 040601(R)] Published Mon Apr 06, 2020

]]>An important physical property for a stochastic process is how it responds to an external force or spatial confinement. This paper aims to study the relaxation dynamics of a generic process confined in a harmonic potential. We find the dependence of ensemble- and time-averaged mean squared displacem...

[Phys. Rev. E 101, 042105] Published Mon Apr 06, 2020

]]>It is known that introducing time delays into the communication network of mobile-agent swarms produces coherent rotational patterns, from both theory and experiments. Often such spatiotemporal rotations can be bistable with other swarming patterns, such as milling and flocking. Yet, most known bifu...

[Phys. Rev. E 101, 042202] Published Mon Apr 06, 2020

]]>Collective behaviors by self-organization are ubiquitous in nature and human society and extensive efforts have been made to explore the mechanisms behind them. Artificial intelligence (AI) as a rapidly developing field is of great potential for these tasks. By combining reinforcement learning with ...

[Phys. Rev. E 101, 042402] Published Mon Apr 06, 2020

]]>The wrinkling transition experimentally identified by Mutz *et al.* [Phys. Rev. Lett. **67**, 923 (1991)] and then thoroughly studied by Chaieb *et al.* [Phys. Rev. Lett. **96**, 078101 (2006)] in partially polymerized lipid membranes is reconsidered. One shows that the features associated with this transition...

[Phys. Rev. E 101, 042602] Published Mon Apr 06, 2020

]]>Surface-diffusion mediated solid-state dewetting has been observed and studied in a number of different systems during the past two decades. This process can be accompanied by the pinching of the film at a finite distance from the retracting triple line. The repetition of this pinching is often refe...

[Phys. Rev. E 101, 042802] Published Mon Apr 06, 2020

]]>Using numerical simulations of a model disk system, we demonstrate that a machine learning generated order-parameter-like measure can detect depinning transitions and different dynamic flow phases in systems driven far from equilibrium. We specifically consider monodisperse passive disks with short ...

[Phys. Rev. E 101, 042101] Published Fri Apr 03, 2020

]]>Transfer entropy is an important index for investigating the causal relationship between random variables. It is known that a phase transition can be detected by transfer entropy. In this work, I propose a method for obtaining the transfer entropy by applying the variational approximation method to ...

[Phys. Rev. E 101, 042102] Published Fri Apr 03, 2020

]]>We consider the statistics of occupation times, the number of visits at the origin, and the survival probability for a wide class of stochastic processes, which can be classified as renewal processes. We show that the distribution of these observables can be characterized by a single exponent, that ...

[Phys. Rev. E 101, 042103] Published Fri Apr 03, 2020

]]>Multiple-spin coupling is a key tool for investigating magnetic quantum systems. In particular, models with four-spin interactions became of great interest since they have been applied to describe material properties such as superconductivity. In this framework, the dynamics of the spin-1/2 Ising tw...

[Phys. Rev. E 101, 042104] Published Fri Apr 03, 2020

]]>Spatial networks are a powerful framework for studying a large variety of systems belonging to a broad diversity of contexts: from transportation to biology, from epidemiology to communications, and migrations, to cite a few. Spatial networks can be described in terms of their total cost (i.e., the ...

[Phys. Rev. E 101, 042301] Published Fri Apr 03, 2020

]]>This paper deals with electron acceleration by a laser pulse in a plasma with a static uniform magnetic field ${B}_{*}$. The laser pulse propagates perpendicular to the magnetic field lines with the polarization chosen such that $({\mathit{E}}_{\mathrm{laser}}\xb7{\mathit{B}}_{*})=0$. The focus of the work is on the electrons with an appreciable i...

[Phys. Rev. E 101, 043201] Published Fri Apr 03, 2020

]]>The stability of the negative ion of hydrogen (${\mathrm{H}}^{-}$) embedded in nonideal classical plasma has been studied by computing the ground state energy of the ion quite accurately. The interactions among the charged particles in plasma have been modelled by a pseudopotential, derived from a solution of Bogol...

[Phys. Rev. E 101, 043202] Published Fri Apr 03, 2020

]]>Time and cost are two main hurdles to acquiring a large number of digital image **I** of the microstructure of materials. Thus, use of stochastic methods for producing plausible realizations of materials' morphology based on one or very few images has become an increasingly common practice in their mode...

[Phys. Rev. E 101, 043301] Published Fri Apr 03, 2020

]]>We cast the metabolism of interacting cells within a statistical mechanics framework considering both the actual phenotypic capacities of each cell and its interaction with its neighbors. Reaction fluxes will be the components of high-dimensional spin vectors, whose values will be constrained by the...

[Phys. Rev. E 101, 042401] Published Thu Apr 02, 2020

]]>We study the evolution of unstable liquid films via numerical solutions of the thin-film equation. The film is placed on a coated substrate with disorder. This is modeled by a random spatial variation of the relative value of the Hamaker constants for the substrate and coating. The free energy consi...

[Phys. Rev. E 101, 042801] Published Thu Apr 02, 2020

]]>Linearization around unstable traveling waves in excitable systems can be used to approximate strength-extent curves in the problem of initiation of excitation waves for a family of spatially confined perturbations to the rest state. This theory relies on the knowledge of the unstable traveling wave...

[Phys. Rev. E 101, 042201] Published Wed Apr 01, 2020

]]>The dynamics of a membrane coupled to an active fluid on top of a substrate is considered theoretically. It is assumed that the director field of the active fluid has rotational symmetry in the membrane plane. This situation is likely to be relevant for *in vitro* reconstructed actomyosin-membrane sys...

[Phys. Rev. E 101, 042601] Published Wed Apr 01, 2020

]]>The evaporation of a sessile drop in a gaseous environment may be critical to many practical applications. Evaporation dynamics of interacting sessile droplets is strongly influenced by the proximity of adjacent droplets. We study the effects of droplet-droplet vapor-mediated interactions on the eva...

[Phys. Rev. E 101, 043101] Published Wed Apr 01, 2020

]]>A mixture of Brownian particles at different temperatures has been a useful model for studying the out-of-equilibrium properties of systems made up of microscopic components with differing levels of activity. This model was previously studied analytically for two-particle interactions in the dilute ...

[Phys. Rev. E 101, 032131] Published Tue Mar 31, 2020

]]>We study two versions of the *XY* model where the spins but also the interaction topology is allowed to change. In the free *XY* model, the number of links is fixed, but their positions in the network are not. We also study a more relaxed version where even the number of links is allowed to vary, we cal...

[Phys. Rev. E 101, 032311] Published Tue Mar 31, 2020

]]>The dispersion of airborne pollutants in the urban atmosphere is a complex, canopy-driven process. The intricate structure of the city, the high number of potential sources, and the large spatial domain make it difficult to predict dispersion patterns, to simulate a great number of scenarios, and to...

[Phys. Rev. E 101, 032312] Published Tue Mar 31, 2020

]]>In 2000, Gillespie rehabilitated the chemical Langevin equation (CLE) by describing two conditions that must be satisfied for it to yield a valid approximation of the chemical master equation (CME). In this work, we construct an original path-integral description of the CME and show how applying Gil...

[Phys. Rev. E 101, 032417] Published Tue Mar 31, 2020

]]>Nanostructured materials made through flow-assisted assembly of proteinaceous or polymeric nanosized fibrillar building blocks are promising contenders for a family of high-performance biocompatible materials in a wide variety of applications. Optimization of these processes relies on improving our ...

[Phys. Rev. E 101, 032610] Published Tue Mar 31, 2020

]]>Using Monte Carlo simulations, we investigate how geometric percolation and electrical conductivity in suspensions of hard conducting platelets are affected by the addition of platelets and their degree of spontaneous alignment. In our simulation results for aspect ratios 10, 25, and 50, we consiste...

[Phys. Rev. E 101, 032706] Published Tue Mar 31, 2020

]]>Structural glasses formed by quenching a melt possess a population of soft quasilocalized excitations—often called “soft spots”—that are believed to play a key role in various thermodynamic, transport, and mechanical phenomena. Under a narrow set of circumstances, quasilocalized excitations assume t...

[Phys. Rev. E 101, 032130] Published Mon Mar 30, 2020

]]>Multibody interactions in models for consensus dynamics can reveal higher-order effects that are not captured by two-body models. The three-body consensus models studied in this work show dynamics that can lead to a shift of the average state of the system. This work also demonstrates that nonlinear interactions are necessary for a multibody dynamical system not to be reducible to a two-body system.

[Phys. Rev. E 101, 032310] Published Mon Mar 30, 2020

]]>Elastic waves propagating at the interface of soft solids can be altered by the presence of external forces such as capillarity and gravity. We measure the dispersion relation of waves at the free surface of agarose gels with great accuracy, revealing the existence of multiple modes as well as an ap...

[Phys. Rev. E 101, 032609] Published Mon Mar 30, 2020

]]>It is shown that the anomalous elasticity of membranes affects the profile and thermodynamics of a bubble in van der Waals heterostructures. Our theory generalizes the nonlinear plate theory as well as the membrane theory of the pressurised blister test to incorporate the power-law scale dependence ...

[Phys. Rev. E 101, 033005] Published Mon Mar 30, 2020

]]>We perform equilibrium molecular dynamics simulations for nanoscale fluids confined between two parallel walls and investigate how the autocorrelation function of force acting on one wall is related to the slip length. We demonstrate that for atomically smooth surfaces, the autocorrelation function ...

[Phys. Rev. E 101, 033109] Published Mon Mar 30, 2020

]]>Tracy-Widom and Baik-Rains distributions appear as universal limit distributions for height fluctuations in the one-dimensional Kardar-Parisi-Zhang (KPZ) *stochastic* partial differential equation (PDE). We obtain the same universal distributions in the spatiotemporally chaotic, nonequilibrium, but st...

[Phys. Rev. E 101, 030103(R)] Published Fri Mar 27, 2020

]]>“Can one hear the shape of a drum?” Kac raised this famous question in 1966, referring to the possibility of the existence of nonisometric planar domains with identical Dirichlet eigenvalue spectra of the Laplacian. Pairs of nonisometric isospectral billiards were eventually found by employing the t...

[Phys. Rev. E 101, 032215] Published Fri Mar 27, 2020

]]>Temperature-controlled polarization modulation near-field scanning optical microscopy measurements of a single supported ${L}_{{\beta}^{\prime}}$ 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) lipid bilayer are presented. The effective retardance ($S=\frac{2\pi ({n}_{e}-{n}_{o})t}{\lambda}$, where $t$ is the thickness of the bilayer and $\lambda $ is the w...

[Phys. Rev. E 101, 032416] Published Fri Mar 27, 2020

]]>On the basis of phase-field theory, we develop a lattice Boltzmann model for ternary fluids containing solid. We develop a modified bounce-back method to describe the interactions between the solid and *N*-phase $(N\ge 2)$ fluids. We derive a wetting boundary condition for three-phase flows from the point ...

[Phys. Rev. E 101, 033307] Published Fri Mar 27, 2020

]]>We report a mechanism for nucleation in a monolayer of hexagonally packed monodisperse droplet arrays. Upon cooling, we observe solidified droplets to nucleate their supercooled neighbors giving rise to an autocatalyticlike mechanism for accelerated crystallization. This collective mode of nucleatio...

[Phys. Rev. E 101, 030602(R)] Published Wed Mar 25, 2020

]]>We numerically study the propagation of reacting fronts in a shallow and horizontal layer of fluid with solutal feedback and in the presence of a thermally driven flow field of counterrotating convection rolls. We solve the Boussinesq equations along with a reaction-convection-diffusion equation for...

[Phys. Rev. E 101, 032214] Published Wed Mar 25, 2020

]]>We present a study comparing atomic motional amplitudes in calcium rich and depleted alpha-lactalbumin. The investigations were performed by elastic incoherent neutron scattering (EINS) and molecular dynamics (MD) simulations. As the variations were expected to be very small, three different hydrati...

[Phys. Rev. E 101, 032415] Published Wed Mar 25, 2020

]]>In this article, we present a Monte Carlo study of phase transition and coarsening dynamics in the nonconserved two-dimensional random-bond $q$-state clock model (RBCM) deriving from a pure clock model [Chatterjee *et al.*, Phys. Rev. E **98**, 032109 (2018)]. Akin to the pure clock model, RBCM also passes ...

[Phys. Rev. E 101, 032128] Published Tue Mar 24, 2020

]]>Obtaining adiabatic processes that connect equilibrium states in a given time represents a challenge for mesoscopic systems. In this paper, we explicitly show how to build these finite-time adiabatic processes for an overdamped Brownian particle in an arbitrary potential, a system that is relevant a...

[Phys. Rev. E 101, 032129] Published Tue Mar 24, 2020

]]>Understanding interactions between DNA molecules in water in the presence of ions is an important issue in biological physics. The authors use molecular dynamics simulations to explain how the free-energy landscape of DNA-DNA interactions depends on the separation and orientation of the DNA molecules, and provide insights into the molecular mechanisms behind the specific interactions between double-stranded DNA molecules in solution.

[Phys. Rev. E 101, 032414] Published Tue Mar 24, 2020

]]>The flow of a colloidal suspension in a narrow channel of periodically varying width is described by the one-dimensional generalized asymmetric exclusion process. Each site admits multiple particle occupancy. We consider particles of two different sizes. The sites available to particles form a combl...

[Phys. Rev. E 101, 032608] Published Tue Mar 24, 2020

]]>It is well known that collisionless systems are dissipation free from the perspective of particle collision and thus conserve entropy. However, processes such as magnetic reconnection and turbulence appear to convert large-scale magnetic energy into heat. In this paper, we investigate the energizati...

[Phys. Rev. E 101, 033208] Published Tue Mar 24, 2020

]]>It is difficult to characterize by experiment the structural features of liquids and glasses which lack long-range translational periodicity in the structure. Here, we suggest that the height and shape of the first peak of the structure function $S\left(Q\right)$ carry significant information about the nature of...

[Phys. Rev. E 101, 030601(R)] Published Mon Mar 23, 2020

]]>The inversion of the electron energy distribution function (EEDF) at low energies and the absolute negative electron conductivity are predicted and confirmed by numerical modeling of a direct current glow discharge in argon. It is shown that, in contrast to the local approximation used earlier for s...

[Phys. Rev. E 101, 031202(R)] Published Mon Mar 23, 2020

]]>The fully connected Ising $p$-spin model has for $p>2$ a discontinuous phase transition from the paramagnetic phase to a stable state with one-step replica symmetry breaking (1RSB). However, simulations in three dimension do not look like these mean-field results and have features more like those whi...

[Phys. Rev. E 101, 032127] Published Mon Mar 23, 2020

]]>Recently, it was shown that certain systems with large time-varying delay exhibit different types of chaos, which are related to two types of time-varying delay: conservative and dissipative delays. The known high-dimensional turbulent chaos is characterized by strong fluctuations. In contrast, the ...

[Phys. Rev. E 101, 032213] Published Mon Mar 23, 2020

]]>In the past few decades, the frequency of pandemics has been increased due to the growth of urbanization and mobility among countries. Since a disease spreading in one country could become a pandemic with a potential worldwide humanitarian and economic impact, it is important to develop models to es...

[Phys. Rev. E 101, 032309] Published Mon Mar 23, 2020

]]>We present a full kinetic model of a hydrogel that undergoes phase separation during swelling and deswelling. The model accounts for the interfacial energy of coexisting phases, finite strain of the polymer network, and solvent transport across free boundaries. For the geometry of an initially dry l...

[Phys. Rev. E 101, 032501] Published Mon Mar 23, 2020

]]>The equilibrium properties of a finite-length linear polymer chain confined in an infinite wedge composed of two perfectly reflecting hard walls meeting at a variable apex angle ($\alpha $) are presented. One end of the polymer is anchored a distance $y$ from the apex on the conical axis of symmetry, while th...

[Phys. Rev. E 101, 030502(R)] Published Fri Mar 20, 2020

]]>Identifying protein-protein interactions is crucial for a systems-level understanding of the cell. Recently, algorithms based on inverse statistical physics, e.g., direct coupling analysis (DCA), have allowed to use evolutionarily related sequences to address two conceptually related inference tasks...

[Phys. Rev. E 101, 032413] Published Fri Mar 20, 2020

]]>We consider two-dimensional turbulence in the presence of a condensate. The nondiagonal correlation functions of the Lagrangian accelerations are calculated, and it is shown that they have the same universality properties as the nondiagonal correlation functions of the velocity fluctuations.

[Phys. Rev. E 101, 033108] Published Fri Mar 20, 2020

]]>We study, numerically, a system of active particles with either a single noise value or a mixture of equal proportions of particles with two noise values under the influence of an attractive periodic background potential, and we observe their diffusion regimes and trapping states. For the single noi...

[Phys. Rev. E 101, 032126] Published Thu Mar 19, 2020

]]>Emergence and collapse of coherent motions of self-propelled particles are affected more by particle motions and interactions than by their material or biological details. In the reconstructed systems of biofilaments and molecular motors, several types of collective motion including a global-order p...

[Phys. Rev. E 101, 032607] Published Thu Mar 19, 2020

]]>We apply time-dependent Ginzburg-Landau (TDGL) numerical simulations to study the finite frequency electrodynamics of superconductors subjected to an intense rf magnetic field. Much recent TDGL work has focused on spatially uniform external magnetic fields and largely ignores the Meissner state scre...

[Phys. Rev. E 101, 033306] Published Thu Mar 19, 2020

]]>[Phys. Rev. E 101, 039903] Published Thu Mar 19, 2020

]]>In this paper, we describe the unification and extension of multiple kinematic theories on the advection of colloidal particles through periodic obstacle lattices of arbitrary geometry and infinitesimally small obstacle size. We focus specifically on the particle displacement lateral to the flow dir...

[Phys. Rev. E 101, 032125] Published Wed Mar 18, 2020

]]>Many real-world networks exhibit degree-degree correlations between nodes separated by more than one step. Such long-range degree correlations (LRDCs) can be fully described by one joint and four conditional probability distributions with respect to degrees of two randomly chosen nodes and shortest ...

[Phys. Rev. E 101, 032308] Published Wed Mar 18, 2020

]]>A model of physiological age, accompanied by nonlinear diffusion in space, is studied analytically and numerically, and is shown to develop nonstationary traveling population waves. A window of intermediate growth rates is found where collective supercycles are formed from individual (stochastic) li...

[Phys. Rev. E 101, 032412] Published Wed Mar 18, 2020

]]>Segmental dynamics is considered as a major factor governing ionic conductivity of polymerized ionic liquids (PILs), envisioned as potential electrolytes in fuel cells and batteries. Our dielectric studies performed in $T-P$ thermodynamic space on ionene, composed of the positively charged polymer bac...

[Phys. Rev. E 101, 032606] Published Wed Mar 18, 2020

]]>The effect of confinement on the behavior of liquid crystals is interesting from a fundamental and practical standpoint. In this work, we report Monte Carlo simulations of hard rods in an array of hard nanoposts, where the surface-to-surface separations between nanoposts are comparable to or less th...

[Phys. Rev. E 101, 032705] Published Wed Mar 18, 2020

]]>We use numerical simulations to study the flow of athermal, frictionless, soft-core two-dimensional spherocylinders driven by a uniform steady-state simple shear applied at a fixed volume and a fixed finite strain rate $\stackrel{\u0307}{\gamma}$. Energy dissipation is via a viscous drag with respect to a uniformly sheared ...

[Phys. Rev. E 101, 032907] Published Wed Mar 18, 2020

]]>Two-dimensional particle-in-cell simulations for laser plasma interaction with laser intensity of ${10}^{16}\phantom{\rule{0.28em}{0ex}}\mathrm{W}/{\mathrm{cm}}^{2}$, plasma density range of $0.01\u20130.28{n}_{c}$, and scale length of $230\u2013330\phantom{\rule{0.28em}{0ex}}\mu \mathrm{m}$ showed significant pump depletion of the laser energy due to stimulated Raman scattering (SRS) and stimulated Brillouin scat...

[Phys. Rev. E 101, 033206] Published Wed Mar 18, 2020

]]>Complex plasma mixtures with three or more components are often encountered in astrophysics or in inertial confinement fusion (ICF) experiments. For mixtures containing species with large differences in atomic number Z, the modeling needs to consider at the same time the kinetic theory for low-Z ele...

[Phys. Rev. E 101, 033207] Published Wed Mar 18, 2020

]]>In this paper we present a technique based on deep reinforcement learning that allows for numerical analytic continuation of integrals that are often encountered in one-loop diagrams in quantum field theory. To extract certain quantities of two-point functions, such as spectral densities, mass poles...

[Phys. Rev. E 101, 033305] Published Wed Mar 18, 2020

]]>Previously, we developed a minimal model based on random cooperative strings for the relaxation of supercooled liquids in the bulk and near free interfaces, and we recovered some key experimental observations. In this article, after recalling the main ingredients of the cooperative string model, we ...

[Phys. Rev. E 101, 032122] Published Tue Mar 17, 2020

]]>The celebrated Sutherland-Einstein relation for systems at thermal equilibrium states that spread of trajectories of Brownian particles is an increasing function of temperature. Here, we scrutinize the diffusion of underdamped Brownian motion in a biased periodic potential and analyze regimes in whi...

[Phys. Rev. E 101, 032123] Published Tue Mar 17, 2020

]]>The capacity to identify realizable many-body configurations associated with targeted functional forms for the pair correlation function ${g}_{2}\left(r\right)$ or its corresponding structure factor $S\left(k\right)$ is of great fundamental and practical importance. While there are obvious necessary conditions that a prescribed s...

[Phys. Rev. E 101, 032124] Published Tue Mar 17, 2020

]]>Different attempts to describe financial markets, and stock prices in particular, with the tools of statistical mechanics can be found in the literature, although a general framework has not been achieved yet. In this paper we use the physics of many-particle systems and the typical concepts of soft...

[Phys. Rev. E 101, 032307] Published Tue Mar 17, 2020

]]>A cell can be described as a complex viscoelastic material with structural relaxations that is modulated by thermal and chemically nonequilibrium processes. Tissue morphology and function rely upon cells' physical responses to mechanical force. We measured the frequency-dependent mechanical relaxati...

[Phys. Rev. E 101, 032410] Published Tue Mar 17, 2020

]]>The central goal of a dynamical theory of evolution is to abstract the mean evolutionary trajectory in the trait space by considering ecological processes at the level of the individual. In this work we develop such a theory for a class of deterministic individual-based models describing individual ...

[Phys. Rev. E 101, 032411] Published Tue Mar 17, 2020

]]>Colloidal particles, which are ubiquitous, have become ideal testing grounds for the structural glass transition theories. In these systems glassy behavior arises as the density of the particles is increased. Thus, soft colloidal particles with varying degree of softness capture diverse glass-formin...

[Phys. Rev. E 101, 032605] Published Tue Mar 17, 2020

]]>We report experimental studies on the phase behavior of binary mixtures of 1″,7″-bis(4-cyanobiphenyl-4′-yl)heptane (CB7CB) and 4,4-diheptyloxyazoxybenzene, which exhibit, apart from the nematic ($N$) and twist-bend nematic (${N}_{\mathrm{TB}}$) phases, the induced smectic-$A$ ($\mathrm{Sm}-A$) phase for weight fraction of CB7CB b...

[Phys. Rev. E 101, 032704] Published Tue Mar 17, 2020

]]>We present direct measurements of electron temperature variations within an inertially confined deuterium-tritium plasma caused by localized mix of higher-Z materials into the central hot spot. The data are derived from newly developed differentially filtered penumbral imaging of the bremsstrahlung ...

[Phys. Rev. E 101, 033205] Published Tue Mar 17, 2020

]]>A tensor variant of molecular-statistical theory is developed, within the framework of which it is possible to describe the appearance of spontaneous magnetization of anisotropic ferromagnetic nanoparticles dispersed in a nematic liquid crystal. Along with the tensor order parameters characterizing ...

[Phys. Rev. E 101, 030701(R)] Published Mon Mar 16, 2020

]]>Starting from the Bogoliubov diagonalization for the Hamiltonian of a weakly interacting Bose gas under the presence of a Bose-Einstein condensate, we derive the kinetic equation for the Bogoliubov excitations. Without dropping any of the commutators, we find three collisional processes. One of them...

[Phys. Rev. E 101, 032119] Published Mon Mar 16, 2020

]]>The universal form of the density of nonphononic, quasilocalized vibrational modes of frequency $\omega $ in structural glasses, $\mathcal{D}\left(\omega \right)$, was predicted theoretically decades ago, but only recently revealed in numerical simulations. In particular, it has been recently established that, in generic computer glass...

[Phys. Rev. E 101, 032120] Published Mon Mar 16, 2020

]]>We explore the role of inertia in the properties of active Brownian particles (ABPs) immersed in an underdamped background in two dimensions using Langevin dynamics computer simulation. Similar to an equilibrium two-dimensional passive interacting particle system, the system of ABPs transits from a ...

[Phys. Rev. E 101, 032121] Published Mon Mar 16, 2020

]]>The symmetric harmonic three-mass system with finite rest lengths, despite its apparent simplicity, displays a wide array of interesting dynamics for different energy values. At low energy the system shows regular behavior that produces a deformation-induced rotation with a constant averaged angular...

[Phys. Rev. E 101, 032211] Published Mon Mar 16, 2020

]]>The entanglement production in bipartite quantum systems is studied for initially unentangled product eigenstates of the subsystems, which are assumed to be quantum chaotic. Based on a perturbative computation of the Schmidt eigenvalues of the reduced density matrix, explicit expressions for the tim...

[Phys. Rev. E 101, 032212] Published Mon Mar 16, 2020

]]>In this paper the time evolution of a finite bipartite graph initially comprising two sorts of isolated vertices is considered. The graph is assumed to evolve by adding edges, one at a time. Each new edge connects either two linked components and forms a new component of a larger order (coalescence ...

[Phys. Rev. E 101, 032306] Published Mon Mar 16, 2020

]]>We investigate the Brownian dynamics of a nanoparticle bound to a thermally undulating elastic membrane. The ligand-functionalized nanoparticle is assumed to interact monovalently with the receptor expressed on the membrane. In order to resolve the nanoparticle transient motion subject to the instan...

[Phys. Rev. E 101, 032604] Published Mon Mar 16, 2020

]]>This paper describes the construction of equilibrium configurations for smectic-$A$ liquid crystals subjected to nonuniform physical boundary conditions, with two-dimensional dependence on the director and layer normal, and a nonlinear layer function. Euler-Lagrange equations are constructed that desc...

[Phys. Rev. E 101, 032703] Published Mon Mar 16, 2020

]]>With materials of anisotropic electrical conductivity, it is possible to generate a dynamo with a simple velocity field, of the type precluded by Cowling's theorems with isotropic materials. Following a previous study by Ruderman and Ruzmaikin [M. S. Ruderman and A. A. Ruzmaikin, Magnetic field gene...

[Phys. Rev. E 101, 033107] Published Mon Mar 16, 2020

]]>We study dipolarly coupled three-dimensional spin systems in both the microcanonical and the canonical ensembles by introducing appropriate numerical methods to determine the microcanonical temperature and by realizing a canonical model of heat bath. In the microcanonical ensemble, we show the exist...

[Phys. Rev. E 101, 030102(R)] Published Fri Mar 13, 2020

]]>We investigate conformations and dynamics of a polymer considering its monomers to be active Brownian particles. This active polymer shows very intriguing physical behavior which is absent in an active Rouse chain. The chain initially shrinks with active force, which starts swelling on further incre...

[Phys. Rev. E 101, 030501(R)] Published Fri Mar 13, 2020

]]>Hermitian operators with exact zero modes subject to non-Hermitian perturbations are considered. Specific focus is on the distribution of the former zero eigenvalues of the Hermitian operators. The broadening of these zero modes is found to follow an elliptic Gaussian random matrix ensemble of fixed...

[Phys. Rev. E 101, 032117] Published Fri Mar 13, 2020

]]>When a regular lattice is perturbed, traces of the original lattice usually remain visible as Bragg peaks in the diffraction pattern. The authors of this paper consider uniformly randomized lattices and show that fine-tuned distributions of perturbations can hide the Bragg peaks. Interestingly, as the strength of the perturbations increases, long-range order oscillates and Bragg peaks appear and disappear.

[Phys. Rev. E 101, 032118] Published Fri Mar 13, 2020

]]>We report intermittent large spiking events in a heterogeneous network of forced Josephson junctions under the influence of repulsive interaction. The response of the individual junctions has been inspected instead of the collective response of the ensemble, which reveals the large spiking events in...

[Phys. Rev. E 101, 032209] Published Fri Mar 13, 2020

]]>Following the paper exploring the Anderson localization of monochromatically perturbed kicked quantum maps [Phys. Rev. E **97**, 012210 (2018)], the delocalization-localization transition phenomena in polychromatically perturbed quantum maps (QM) is investigated focusing particularly on the dependency o...

[Phys. Rev. E 101, 032210] Published Fri Mar 13, 2020

]]>Lies can have a negating impact on governments, companies, and the society as a whole. Understanding the dynamics of lying is therefore of crucial importance across different fields of research. While lying has been studied before in well-mixed populations, it is a fact that real interactions are ra...

[Phys. Rev. E 101, 032305] Published Fri Mar 13, 2020

]]>Cofilin and ADF are cytoskeleton remodeling proteins that cooperatively bind and fragment actin filaments. Bound cofilin molecules do not directly interact with each other, indicating that cooperative binding of cofilin is mediated by the actin filament lattice. Cofilactin is therefore a model syste...

[Phys. Rev. E 101, 032409] Published Fri Mar 13, 2020

]]>In superionic compounds one component premelts, providing high ionic conductivity to solid-state electrolytes. Here we find sublattice melting in colloidal crystals of oppositely charged particles that are highly asymmetric in size and charge in salt solutions. The small particles in ionic compounds...

[Phys. Rev. E 101, 032603] Published Fri Mar 13, 2020

]]>A computational technique was developed to simulate wettable particles trapped at a fluid-fluid interface under gravity. The proposed technique combines the improved smoothed profile-lattice Boltzmann method (iSP-LBM) for the treatment of moving solid-fluid boundaries and the free-energy LBM for the...

[Phys. Rev. E 101, 033304] Published Fri Mar 13, 2020

]]>We study the sandpile model on three-dimensional spanning Ising clusters with the temperature $T$ treated as the control parameter. By analyzing the three-dimensional avalanches and their two-dimensional projections (which show scale-invariant behavior for all temperatures), we uncover two universalit...

[Phys. Rev. E 101, 032116] Published Thu Mar 12, 2020

]]>Phase coherence is an important measure in nonlinear science. Whereas there is no generally accepted definition for phase and therefore for phase coherence, many works associate this feature with topological aspects of the systems, such as having a well-defined rotating center. Given the relevance o...

[Phys. Rev. E 101, 032207] Published Thu Mar 12, 2020

]]>One-dimensional localized sequences of bound (coupled) traveling pulses, wave trains with a finite number of pulses, are described in a piecewise-linear reaction-diffusion system of the FitzHugh-Nagumo type with linear cross-diffusion terms of opposite signs. The simplest case of two bound pulses, t...

[Phys. Rev. E 101, 032208] Published Thu Mar 12, 2020

]]>The nucleoprotein filament (NPF) is the fundamental element of homologous recombination (HR), a major mechanism for the repair of double-strand DNA breaks in the cell. The NPF is made of the damaged DNA strand surrounded by recombinase proteins, and its sensitivity to base-pairing mismatches is a cr...

[Phys. Rev. E 101, 032407] Published Thu Mar 12, 2020

]]>In order to understand the motion of single cells, the authors of this paper measure the trajectories of cancer cells moving on a circular track and analyze them using a generalized Langevin equation. They are able to extract information from the experimental results that can be used in a nonequilibrium model to describe the dynamics of these systems.

[Phys. Rev. E 101, 032408] Published Thu Mar 12, 2020

]]>We report on the enhancement of the hydrodynamic damping of gravity waves at the surface of a fluid layer as they interact with a turbulent vortex flow in a sloshing experiment. Gravity surface waves are excited by oscillating horizontally a square container holding our working fluid (water). At the...

[Phys. Rev. E 101, 033106] Published Thu Mar 12, 2020

]]>We find the moment generating function (mgf) of the nonequilibrium work for open systems undergoing a thermal process, i.e., when the stochastic dynamics maps thermal states into time-dependent thermal states. The mgf is given in terms of a temperaturelike scalar satisfying a first-order ordinary di...

[Phys. Rev. E 101, 030101(R)] Published Wed Mar 11, 2020

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