The mathematical framework of multiplex networks has been increasingly realized as a more suitable framework for modeling real-world complex systems. In this work, we investigate the optimization of synchronizability in multiplex networks by evolving only one layer while keeping other layers fixed. …

[Phys. Rev. E 95, 040301(R)] Published Thu Apr 27, 2017

]]>Although redistribution of red blood cells at bifurcated vessels is highly dependent on flow rate, it is still challenging to quantitatively express the dependence of flow rate in plasma skimming due to nonlinear cellular interactions. We suggest a plasma skimming model that can involve the effect o…

[Phys. Rev. E 95, 040401(R)] Published Tue Apr 25, 2017

]]>We study a complex plasma under microgravity conditions that is first stabilized with an oscillating electric field. Once the stabilization is stopped, the so-called heartbeat instability develops. We study how the kinetic energy spectrum changes during and after the onset of the instability and com…

[Phys. Rev. E 95, 041201(R)] Published Mon Apr 10, 2017

]]>Thorough numerical studies reveal that spatially extended dissipative systems with long-range interactions may give rise to a large-scale dynamics. This phenomenon, which generalizes mean-field chaos, can be interpreted as a form of subtle pattern formation, where a chaotic microscopic dynamics coex…

[Phys. Rev. E 95, 040201(R)] Published Mon Apr 03, 2017

]]>We show that chimera states, where differentiated subsets of synchronized and desynchronized dynamical elements coexist, can emerge in networks of hyperbolic chaotic oscillators subject to global interactions. As local dynamics we employ Lozi maps, which possess hyperbolic chaotic attractors. We con…

[Phys. Rev. E 95, 030202(R)] Published Fri Mar 31, 2017

]]>Suspensions of cornstarch in water exhibit strong dynamic shear thickening. We show that partly replacing water with ethanol strongly alters the suspension rheology. We perform steady and nonsteady rheology measurements combined with atomic force microscopy to investigate the role of fluid chemistry…

[Phys. Rev. E 95, 030602(R)] Published Fri Mar 31, 2017

]]>Measurements of hydrodynamic instability growth for a high-density carbon ablator for indirectly driven inertial confinement fusion implosions on the National Ignition Facility are reported. We observe significant unexpected features on the capsule surface created by shadows of the capsule fill tube…

[Phys. Rev. E 95, 031204(R)] Published Thu Mar 30, 2017

]]>We numerically examine clogging transitions for bidisperse disks flowing through a two-dimensional periodic obstacle array. We show that clogging is a probabilistic event that occurs through a transition from a homogeneous flowing state to a heterogeneous or phase-separated jammed state where the di…

[Phys. Rev. E 95, 030902(R)] Published Wed Mar 29, 2017

]]>A calculation which describes the spin-up of toroidal plasmas by the radial propagation of turbulence fronts with broken parallel symmetry is presented. The associated flux of parallel momentum is calculated by using a two-scale direct-interaction approximation in the weak turbulence limit. We show …

[Phys. Rev. E 95, 031203(R)] Published Wed Mar 29, 2017

]]>Recommender systems play an essential role in the modern business world. They recommend favorable items such as books, movies, and search queries to users based on their past preferences. Applying similar ideas and techniques to Monte Carlo simulations of physical systems boosts their efficiency wit…

[Phys. Rev. E 95, 031301(R)] Published Wed Mar 29, 2017

]]>We propose a model of superdiffusive Lévy walk as an emergent nonlinear phenomenon in systems of interacting individuals. The aim is to provide a qualitative explanation of recent experiments [G. Ariel *et al.*, Nat. Commun. **6**, 8396 (2015)] revealing an intriguing behavior: swarming bacteria fundamen…

[Phys. Rev. E 95, 030107(R)] Published Tue Mar 28, 2017

]]>We model a set of point-to-point transports on a network as a system of polydisperse interacting self-avoiding walks (SAWs) over a finite square lattice. The ends of each SAW may be located both at random, uniformly distributed, positions or with one end fixed at a lattice corner. The total energy o…

[Phys. Rev. E 95, 030108(R)] Published Tue Mar 28, 2017

]]>The robustness of spatial patterns against perturbations is an indispensable property of developmental processes for organisms, which need to adapt to changing environments. Although specific mechanisms for this robustness have been extensively investigated, little is known about a general mechanism…

[Phys. Rev. E 95, 030201(R)] Published Fri Mar 24, 2017

]]>In recent work it was clarified that amorphous solids under strain control do not possess nonlinear elastic theory in the sense that the shear modulus exists but nonlinear moduli exhibit sample-to-sample fluctuations that grow without bound with the system size. More relevant, however, for experimen…

[Phys. Rev. E 95, 031001(R)] Published Fri Mar 24, 2017

]]>A general scheme is derived to connect transitions in configuration space with features in the heat capacity. A formulation in terms of occupation probabilities for local minima that define the potential energy landscape provides a quantitative description of how contributions arise from competition…

[Phys. Rev. E 95, 030105(R)] Published Wed Mar 22, 2017

]]>We consider a spring-block model with both dry and viscous frictions, subjected to a periodic driving allowing mechanically stable configurations to be sampled. We show that under strong driving, the scaling of the correlation length with the energy density is incompatible with the prediction of the…

[Phys. Rev. E 95, 030106(R)] Published Wed Mar 22, 2017

]]>Recently, it was shown that the probability distribution function (PDF) of the free energy of a single continuum directed polymer (DP) in a random potential, equivalently to the height of a growing interface described by the Kardar-Parisi-Zhang (KPZ) equation, converges at large scale to the Tracy-W…

[Phys. Rev. E 95, 030103(R)] Published Tue Mar 21, 2017

]]>Motivated by the demand for efficient quantum devices to engineer energy transport, we analyze some inhomogeneous quantum spin systems, including $XXZ$ chains, with magnetization baths at the ends. With a goal of finding general properties, we study the effects of suitable transformations on the bound…

[Phys. Rev. E 95, 030104(R)] Published Tue Mar 21, 2017

]]>The collective behavior of vibrated hexagonal disks confined in a monolayer is investigated experimentally. Due to the broken circular symmetry, hexagons prefer to rotate upon sufficiently strong driving. Due to the formation of liquid bridges, short-ranged cohesive interactions are introduced upon …

[Phys. Rev. E 95, 030901(R)] Published Mon Mar 20, 2017

]]>Octahedral spherical hohlraums with a single laser ring at an injection angle of ${55}^{\circ}$ are attractive concepts for laser indirect drive due to the potential for achieving the x-ray drive symmetry required for high convergence implosions. Laser-plasma instabilities, however, are a concern given the lon…

[Phys. Rev. E 95, 031202(R)] Published Mon Mar 20, 2017

]]>The deformation and fragmentation of liquid metal microdroplets by intense subpicosecond Ti:sapphire laser pulses is experimentally studied with stroboscopic shadow photography. The experiments are performed at a peak intensity of ${10}^{14}\phantom{\rule{0.16em}{0ex}}\mathrm{W}/\mathrm{c}{\mathrm{m}}^{2}$ at the target's surface, which produces shock waves with pr…

[Phys. Rev. E 95, 031101(R)] Published Fri Mar 17, 2017

]]>We present a self-contained engine, which is made of one or more two-level systems, each of which is coupled to a single bath, as well as to a common load composed of a particle on a tilted lattice. We show that an increase in time of energy and entropy in the system composed of the spins and the pa…

[Phys. Rev. E 95, 030102(R)] Published Thu Mar 16, 2017

]]>We show that current fluctuations in a stochastic pump can be robustly mapped to fluctuations in a corresponding time-independent nonequilibrium steady state. We thus refine a recently proposed mapping so that it ensures equivalence of not only the averages, but also optimal representation of fluctu…

[Phys. Rev. E 95, 030101(R)] Published Wed Mar 15, 2017

]]>We present equation of state (EOS) measurements of solid-density copper heated to 5–10 eV. A copper sample was heated isochorically by hydrogen ions accelerated from an adjacent foil by a high intensity pulsed laser, and probed optically. The measured temperature and expansion are compared against s…

[Phys. Rev. E 95, 031201(R)] Published Mon Mar 13, 2017

]]>We investigate the hydrodynamic fluctuations in suspensions of swimming microorganisms (*Chlamydomonas*) by observing the probe particles dispersed in the media. Short-term fluctuations of probe particles were superdiffusive and displayed heavily tailed non-Gaussian distributions. The analytical theor…

[Phys. Rev. E 95, 030601(R)] Published Thu Mar 09, 2017

]]>This paper describes the behavior of Taylor-Couette flows at large Reynolds numbers and shows the onset of a linear instability in this extreme regime. The instability also appears in flows where the square of the angular momentum is increasing outward from the axis of rotation and which are stable according to the inviscid Rayleigh criterion.

[Phys. Rev. E 95, 021102(R)] Published Tue Feb 28, 2017

]]>We present a semiclassical prediction of regular-to-chaotic tunneling in systems with a mixed phase space, including the effect of a nonlinear resonance chain. We identify complex paths for direct and resonance-assisted tunneling in the phase space of an integrable approximation with one nonlinear r…

[Phys. Rev. E 95, 020202(R)] Published Mon Feb 27, 2017

]]>Spatially extended systems can support local transient excitations in which just a part of the system is excited. The mechanisms reported so far are local excitability and excitation of a localized structure. Here we introduce an alternative mechanism based on the coexistence of two homogeneous stab…

[Phys. Rev. E 95, 020201(R)] Published Thu Feb 23, 2017

]]>The neutron-spin-echo method (NSE) is a powerful technique for studying internal dynamics of macromolecules in solutions because it can simultaneously probe length and time scales comparable to intramolecular density fluctuations of macromolecules. Recently, there has been increased, strong interest…

[Phys. Rev. E 95, 020501(R)] Published Thu Feb 16, 2017

]]>Understanding fundamental growth processes is key to the control of nonequilibrium structure formation for a wide range of materials on all length scales, from atomic to molecular and even colloidal systems. While atomic systems are relatively well studied, molecular and colloidal growth are current…

[Phys. Rev. E 95, 020801(R)] Published Mon Feb 13, 2017

]]>Using the largest database of isotropic turbulence available to date, generated by the direct numerical simulation (DNS) of the Navier-Stokes equations on an ${8192}^{3}$ periodic box, we show that the longitudinal and transverse velocity increments scale identically in the inertial range. By examining the…

[Phys. Rev. E 95, 021101(R)] Published Fri Feb 10, 2017

]]>We explore the effect of interplay of interfacial noise and curvature-driven dynamics in a binary spin system. An appropriate model is the generalized two-dimensional voter model proposed earlier [M. J. de Oliveira, J. F. F. Mendes, and M. A. Santos, J. Phys. A: Math. Gen. **26**, 2317 (1993)], where th…

[Phys. Rev. E 95, 020101(R)] Published Tue Feb 07, 2017

]]>We study the collective dynamics of elongated swimmers in a very thin fluid layer by devising long filamentous nontumbling bacteria. The strong confinement induces weak nematic alignment upon collision, which, for large enough density of cells, gives rise to global nematic order. This homogeneous bu…

[Phys. Rev. E 95, 020601(R)] Published Tue Feb 07, 2017

]]>We present simulations of a three-dimensional percolation model studied recently by K. J. Schrenk *et al.* [Phys. Rev. Lett. **116**, 055701 (2016)], obtained with a new and more efficient algorithm. They confirm most of their results in spite of larger systems and higher statistics used in the present Ra…

[Phys. Rev. E 95, 010103(R)] Published Mon Jan 23, 2017

]]>We demonstrate that chimera behavior can be observed in small networks consisting of three identical oscillators, with mutual all-to-all coupling. Three different types of chimeras, characterized by the coexistence of two coherent oscillators and one incoherent oscillator (i.e., rotating with anothe…

[Phys. Rev. E 95, 010203(R)] Published Fri Jan 20, 2017

]]>We define a “$k$-booklet” to be a set of $k$ semi-infinite planes with $-\infty <x<\infty $ and $y\ge 0$, glued together at the edges (the “spine”) $y=0$. On such booklets we study three critical phenomena: self-avoiding random walks, the Ising model, and percolation. For $k=2$, a booklet is equivalent to a single infin…

[Phys. Rev. E 95, 010102(R)] Published Thu Jan 19, 2017

]]>Multistable systems exhibit a rich front dynamics between equilibria. In one-dimensional scalar gradient systems, the spread of the fronts is proportional to the energy difference between equilibria. Fronts spreading proportionally to the energetic difference between equilibria is a characteristic o…

[Phys. Rev. E 95, 010202(R)] Published Tue Jan 17, 2017

]]>The spanning cluster properties of a percolation model with nucleation and preferential growth exhibit first-order transitions depending on the values of the growth parameter ${g}_{0}$ and the initial seed concentration $\rho $. Except for the preferential growth of smaller clusters with a size-dependent growth …

[Phys. Rev. E 95, 010101(R)] Published Mon Jan 09, 2017

]]>We address the long-standing challenge of how to reconstruct links in directed networks from measurements, and present a general method that makes use of a noise-induced relation between network structure and both the time-lagged covariance of measurements taken at two different times and the covari…

[Phys. Rev. E 95, 010301(R)] Published Thu Jan 05, 2017

]]>An array of excitable Josephson junctions under a global mean-field interaction and a common periodic forcing shows the emergence of two important classes of coherent dynamics, librational and rotational motion, in the weaker and stronger coupling limits, respectively, with transitions to chimeralik…

[Phys. Rev. E 95, 010201(R)] Published Wed Jan 04, 2017

]]>We introduce a minimal geometric partial differential equation framework to understand pattern formation from interacting, counterpropagating fronts. Our approach concentrates on the interfaces between different states in a system, and relies on both nonlocal interactions and mean-curvature flow to …

[Phys. Rev. E 94, 060401(R)] Published Thu Dec 29, 2016

]]>Detailed analysis of the static structure factor $S\left(Q\right)$ in several glass-forming liquids reveals that the temperature variations of the width of the main diffraction peak $\mathrm{\Delta}Q\left(T\right)$ correlate with the fragility of these liquids. This observation suggests a direct connection between rather subtle structural…

[Phys. Rev. E 94, 060603(R)] Published Thu Dec 29, 2016

]]>*In vitro* reconstituted active systems, such as the adenosine triphosphate (ATP)-driven microtubule bundle suspension developed by the Dogic group [T. Sanchez, D. T. Chen, S. J. DeCamp, M. Heymann, and Z. Dogic, Nature (London) **491**, 431 (2012)], provide a fertile testing ground for elucidating the ph…

[Phys. Rev. E 94, 060602(R)] Published Wed Dec 28, 2016

]]>We study the relation between flow structure and fluid deformation in steady flows through two-dimensional heterogeneous media, which are characterized by a broad spectrum of stretching behaviors, ranging from sub- to superlinear. We analyze these behaviors from first principles, which uncovers inte…

[Phys. Rev. E 94, 061102(R)] Published Tue Dec 27, 2016

]]>We show that the Bayesian inference of recently measured x-ray diffraction spectra from laser-shocked aluminum [L. B. Fletcher *et al.*, Nat. Photon. **9**, 274 (2015)] with the one-component-plasma (OCP) model performs remarkably well at estimating the ionic density and temperature. This statistical app…

[Phys. Rev. E 94, 061202(R)] Published Tue Dec 27, 2016

]]>We characterize the properties of the asymptotic stage of modulational instability arising from localized perturbations of a constant background, including the number and location of the individual peaks in the oscillation region. We show that, for long times, the solution tends to an ensemble of cl…

[Phys. Rev. E 94, 060201(R)] Published Fri Dec 23, 2016

]]>A point source on a plane constantly emits particles which rapidly diffuse and then stick to a growing cluster. The growth probability of a cluster is presented as a sum over all possible scenarios leading to the same final shape. The classical point for the action, defined as a minus logarithm of t…

[Phys. Rev. E 94, 060103(R)] Published Mon Dec 19, 2016

]]>We present an exact mathematical framework able to describe site-percolation transitions in real multiplex networks. Specifically, we consider the average percolation diagram valid over an infinite number of random configurations where nodes are present in the system with given probability. The appr…

[Phys. Rev. E 94, 060301(R)] Published Fri Dec 16, 2016

]]>Molecular dynamic simulations are performed to reveal the long-time behavior of the velocity autocorrelation function (VAF) by utilizing the finite-size effect in a Lennard-Jones binary mixture. Whereas in normal liquids the classical positive ${t}^{-3/2}$ long-time tail is observed, we find in supercooled…

[Phys. Rev. E 94, 060601(R)] Published Thu Dec 15, 2016

]]>The temperature dependence of the orientational order parameters $\langle {P}_{2}\left(\mathrm{cos}\beta \right)\rangle $ and $\langle {P}_{4}\left(\mathrm{cos}\beta \right)\rangle $ in the nematic ($N$) and twist-bend nematic $\left({N}_{\mathrm{tb}}\right)$ phases of the liquid crystal dimer CB7CB have been measured using x-ray and polarized Raman scattering. The $\langle {P}_{2}\left(\mathrm{cos}\beta \right)\rangle $ obtained from both techniques are the same…

[Phys. Rev. E 94, 060701(R)] Published Tue Dec 13, 2016

]]>We study the discrete time dynamics of Brownian ratchet models and Parrondo's games. Using the Fourier transform, we calculate the exact probability distribution functions for both the capital dependent and history dependent Parrondo's games. In certain cases we find strong oscillations near the max…

[Phys. Rev. E 94, 060102(R)] Published Mon Dec 12, 2016

]]>We report an experimental observation of a phase-flip transition in the frequency synchronization of two dc glow discharge plasma sources that are coupled in a noninvasive fashion. When the fundamental oscillation frequency of the potential fluctuations of one of the sources is progressively increas…

[Phys. Rev. E 94, 061201(R)] Published Thu Dec 08, 2016

]]>For many organisms, the number of sensory neurons is largely determined during development, before strong environmental cues are present. This is despite the fact that environments can fluctuate drastically both from generation to generation and within an organism's lifetime. How can organisms get b…

[Phys. Rev. E 94, 060101(R)] Published Wed Dec 07, 2016

]]>It is shown that the truncated Euler equation (TEE), i.e., a finite set of ordinary differential equations for the amplitude of the large-scale modes, can correctly describe the complex transitional dynamics that occur within the turbulent regime of a confined two-dimensional flow obeying Navier-Sto…

[Phys. Rev. E 94, 061101(R)] Published Thu Dec 01, 2016

]]>Amorphous media at finite temperatures, be them liquids, colloids, or glasses, are made of interacting particles that move chaotically due to thermal energy, continuously colliding and scattering off each other. When the average configuration in these systems relaxes only at long times, one can intr…

[Phys. Rev. E 94, 051001(R)] Published Tue Nov 29, 2016

]]>Structural transitions are examined in quasi-one-dimensional systems of freely rotating hard squares, which are confined between two parallel walls. We find two competing phases: one is a fluid where the squares have two sides parallel to the walls, while the second one is a solidlike structure with…

[Phys. Rev. E 94, 050603(R)] Published Mon Nov 28, 2016

]]>We report extensive numerical simulations of growth models belonging to the nonlinear molecular beam epitaxy (nMBE) class, on *flat* (fixed-size) and *expanding* substrates (ES). In both $d=1+1$ and $2+1$, we find that growth regime height distributions (HDs), and spatial and temporal covariances are univer…

[Phys. Rev. E 94, 050801(R)] Published Mon Nov 28, 2016

]]>The helical magnetorotational instability is known to work for resistive rotational flows with comparably steep negative or extremely steep positive shear. The corresponding lower and upper Liu limits of the shear are continuously connected when some axial electrical current is allowed to flow throu…

[Phys. Rev. E 94, 051203(R)] Published Wed Nov 23, 2016

]]>We study self-propelled particles with velocity reversal interacting by uniaxial (nematic) alignment within a coarse-grained hydrodynamic theory. Combining analytical and numerical continuation techniques, we show that the physics of this active system is essentially controlled by the reversal frequ…

[Phys. Rev. E 94, 050602(R)] Published Tue Nov 22, 2016

]]>This Rapid Communication sets forth the mechanism by which mesoscale staircase structures condense to form macroscopic states of enhanced confinement. Density, vorticity, and turbulent potential enstrophy are the variables for this model. Formation of the staircase structures is due to inhomogeneous…

[Phys. Rev. E 94, 051202(R)] Published Fri Nov 18, 2016

]]>Using the diagrammatic method, we derive a set of self-consistent equations that describe eigenvalue distributions of large correlated asymmetric random matrices. The matrix elements can have different variances and be correlated with each other. The analytical results are confirmed by numerical sim…

[Phys. Rev. E 94, 050101(R)] Published Thu Nov 17, 2016

]]>We have studied the folding of ribonuclease A by mapping it onto coarse-grained lattice protein models. With replica exchange Wang-Landau sampling, we calculated the free energy vs end-to-end distance as a function of temperature. A mapping to the famous hydrophobic-polar (HP) model shows a relative…

[Phys. Rev. E 94, 050402(R)] Published Tue Nov 15, 2016

]]>We present a general method of utilizing bioelectric recordings from a spatially sparse electrode grid to compute a dynamic vector field describing the underlying propagation of electrical activity. This vector field, termed the wave-front flow field, permits quantitative analysis of the magnitude o…

[Phys. Rev. E 94, 050401(R)] Published Wed Nov 09, 2016

]]>We report experimental results and simulations showing efficient laser energy coupling into plasmas at conditions relevant to the magnetized liner inertial fusion (MagLIF) concept. In MagLIF, to limit convergence and increase the hydrodynamic stability of the implosion, the fuel must be efficiently …

[Phys. Rev. E 94, 051201(R)] Published Wed Nov 02, 2016

]]>We use space-charge (SC) theory (also called the capillary pore model) to describe the ionic conductance, $G$, of charged carbon nanotubes (CNTs). Based on the reversible adsorption of hydroxyl ions to CNT pore walls, we use a Langmuir isotherm for surface ionization and make calculations as a functio…

[Phys. Rev. E 94, 050601(R)] Published Tue Nov 01, 2016

]]>Gelation transitions in a colloidal system, where there is a strong reversible attraction between small, soft microgels and large, hard spheres, are systematically investigated. Different from widely studied depletion attraction systems that are also two-component systems, the strong attraction betw…

[Phys. Rev. E 94, 040601(R)] Published Mon Oct 31, 2016

]]>A kinetic equation for a dilute gas of hard spheres confined between two parallel plates separated a distance smaller than two particle diameters is derived. It is a Boltzmann-like equation, which incorporates the effect of the confinement on the particle collisions. A function $S\left(t\right)$ is constructed b…

[Phys. Rev. E 94, 040103(R)] Published Thu Oct 27, 2016

]]>Reconstructing the structural connectivity between interacting units from observed activity is a challenge across many different disciplines. The fundamental first step is to establish whether or to what extent the interactions between the units can be considered pairwise and, thus, can be modeled a…

[Phys. Rev. E 94, 040301(R)] Published Thu Oct 27, 2016

]]>The roles that metal ions play in the structure and dynamics of RNA molecules are long-standing problems that have been studied extensively but are still not well understood. Here we show that metal ions have distributions around RNA molecules that strongly depend on the types and concentrations of …

[Phys. Rev. E 94, 040401(R)] Published Mon Oct 24, 2016

]]>We show that critical Casimir effects can be accessed through direct simulation of a model binary fluid passing through the demixing transition. We work in the semi-grand-canonical ensemble, in slab geometry, in which the Casimir force appears as the excess of the generalized pressure, ${P}_{\perp}-n\mu $. The ex…

[Phys. Rev. E 94, 040102(R)] Published Fri Oct 21, 2016

]]>Crook's fluctuation theorem (CFT) and Jarzynski equality (JE) are effective tools for obtaining free-energy difference $\mathrm{\Delta}F({\lambda}_{A}\to {\lambda}_{B},{T}_{0})$ through a set of finite-time protocol driven nonequilibrium transitions between two equilibrium states $A$ and $B$ [parametrized by the time-varying protocol $\lambda \left(t\right)$] at the s…

[Phys. Rev. E 94, 040101(R)] Published Thu Oct 20, 2016

]]>Channel flow, the pressure driven flow between parallel plates, has exact coherent structures that show various degrees of localization. For states which are localized in streamwise direction but extended in spanwise direction, we show that they are exponentially localized, with decay constants that…

[Phys. Rev. E 94, 041101(R)] Published Fri Oct 14, 2016

]]>We calculate the distribution of the size of the percolating cluster on a tree in the subcritical, critical, and supercritical phase. We do this by exploiting a mapping between continuum trees and Brownian excursions, and arrive at a diffusion equation with suitable boundary conditions. The exact so…

[Phys. Rev. E 94, 030102(R)] Published Fri Sep 30, 2016

]]>I report on experiments demonstrating the appearance of Wood's anomalies in surface gravity waves propagating along a channel with a submerged obstacle. Space-time measurements of surface gravity waves allow one to compute the stationary complex field of the wave and the amplitude growth of localize…

[Phys. Rev. E 94, 031101(R)] Published Fri Sep 30, 2016

]]>Symmetries constrain dynamics. We test this fundamental physical principle, experimentally and by molecular dynamics simulations, for a hot Janus swimmer operating far from thermal equilibrium. Our results establish scalar and vectorial steady-state fluctuation theorems and a thermodynamic uncertain…

[Phys. Rev. E 94, 030602(R)] Published Thu Sep 29, 2016

]]>The question of how stiff polymers are able to pack into small containers is particularly relevant to the study of DNA packaging in viruses. A reduced version of the problem based on coarse-grained representations of the main components of the system—the DNA polymer and the spherical viral capsid—ha…

[Phys. Rev. E 94, 030401(R)] Published Wed Sep 28, 2016

]]>We present an approach for modeling nanoscale wetting and dewetting of textured solid surfaces that exploits recently developed, sophisticated techniques for computing exact long-range dispersive van der Waals (vdW) or (more generally) Casimir forces in arbitrary geometries. We apply these technique…

[Phys. Rev. E 94, 030801(R)] Published Thu Sep 22, 2016

]]>We present a rigorous efficient event-chain Monte Carlo algorithm for long-range interacting particle systems. Using a cell-veto scheme within the factorized Metropolis algorithm, we compute each single-particle move with a fixed number of operations. For slowly decaying potentials such as Coulomb i…

[Phys. Rev. E 94, 031302(R)] Published Wed Sep 21, 2016

]]>The structural properties of liquid silica at high pressure and moderate temperature conditions, also referred to as the warm dense matter regime, were investigated using time-resolved $K$-edge x-ray absorption spectroscopy and *ab initio* calculations. We used a nanosecond laser beam to compress unifor…

[Phys. Rev. E 94, 031201(R)] Published Fri Sep 16, 2016

]]>We propose an efficient Monte Carlo method for the computation of the volumes of high-dimensional bodies with arbitrary shape. We start with a region of known volume within the interior of the manifold and then use the multistate Bennett acceptance-ratio method to compute the dimensionless free-ener…

[Phys. Rev. E 94, 031301(R)] Published Thu Sep 15, 2016

]]>Based on the linear response theory, we propose a resonance phonon (r-ph) approach to study the renormalized phonons in a few one-dimensional nonlinear lattices. Compared with the existing anharmonic phonon (a-ph) approach, the dispersion relations derived from this approach agree with the expectati…

[Phys. Rev. E 94, 030101(R)] Published Wed Sep 14, 2016

]]>An x-ray scattering approach to determine the two-dimensional (2D) pair distribution function (PDF) in partially ordered 2D systems is proposed. We derive relations between the structure factor and PDF that enable quantitative studies of positional and bond-orientational (BO) order in real space. We…

[Phys. Rev. E 94, 030701(R)] Published Wed Sep 14, 2016

]]>Translationally diffusive behavior arising from the combination of orientational diffusion and powered motion at microscopic scales is a known phenomenon, but the peculiarities of the evolution of expected position conditioned on initial position and orientation have been neglected. A theory is give…

[Phys. Rev. E 94, 030601(R)] Published Tue Sep 13, 2016

]]>We consider the observability model in networks with arbitrary topologies. We introduce a system of coupled nonlinear equations, valid under the locally treelike ansatz, to describe the size of the largest observable cluster as a function of the fraction of directly observable nodes present in the n…

[Phys. Rev. E 94, 030301(R)] Published Wed Sep 07, 2016

]]>We use small-angle neutron scattering (SANS) to study labeled short chains with and without the influence of an entangled and highly stretched surrounding environment of longer chains. We find unequivocal evidence of nematic effects as the blend chains in steady state flow are stretched a factor $\sim \mathrm{1.\dots}$

[Phys. Rev. E 94, 020502(R)] Published Wed Aug 24, 2016

]]>Using an event-driven molecular dynamics simulation, we show that simple monodisperse granular beads confined in coupled columns may oscillate as a different type of granular clock. To trigger this oscillation, the system needs to be driven against gravity into a density-inverted state, with a high-…

[Phys. Rev. E 94, 020901(R)] Published Tue Aug 23, 2016

]]>A laminar flow control technique based on spanwise mean velocity gradients (SVGs) has recently proven successful in delaying transition in boundary layers. Here we take advantage of a well-known nonlinear effect, namely, the interaction of two oblique waves at high amplitude, to produce spanwise mea…

[Phys. Rev. E 94, 021103(R)] Published Fri Aug 19, 2016

]]>When a droplet of water impacts a heated surface, the drop may be observed to bounce. Recently is has been found that small quantities ($\sim 100$ ppm) of polymer additives such as polyethylene oxide can significantly increase the maximum bouncing height of drops. This effect has been explained in terms o…

[Phys. Rev. E 94, 021102(R)] Published Tue Aug 16, 2016

]]>An accurate understanding of burn dynamics in implosions of cryogenically layered deuterium (D) and tritium (T) filled capsules, obtained partly through precision diagnosis of these experiments, is essential for assessing the impediments to achieving ignition at the National Ignition Facility. We pr…

[Phys. Rev. E 94, 021202(R)] Published Mon Aug 15, 2016

]]>Particle simulations confined by sharp walls usually develop an oscillatory density profile. For some applications, most notably soft matter liquids, this behavior is often unrealistic and one expects a monotonic density climb instead. To reconcile simulations with experiments, we propose mirror-and…

[Phys. Rev. E 94, 021302(R)] Published Mon Aug 15, 2016

]]>We develop a consistent stochastic thermodynamics for environments composed of thermodynamic reservoirs in an external conservative force field, that is, environments described by the generalized or Gibbs canonical ensemble. We demonstrate that small systems weakly coupled to such reservoirs exchang…

[Phys. Rev. E 94, 020102(R)] Published Fri Aug 12, 2016

]]>A universal characteristic of mesoscale turbulence in active suspensions is the emergence of a typical vortex length scale, distinctly different from the scale invariance of turbulent high-Reynolds number flows. Collective length-scale selection has been observed in bacterial fluids, endothelial tis…

[Phys. Rev. E 94, 020601(R)] Published Tue Aug 09, 2016

]]>Micron-sized colloidal spheres that are dispersed in an isotropic-nematic biphasic host suspension of charged rods (fd-virus particles) are shown to spontaneously form dimers, which exhibit a synchronized oscillatory motion. Dimer formation is not observed in the monophase of isotropic and nematic s…

[Phys. Rev. E 94, 020602(R)] Published Tue Aug 09, 2016

]]>This paper presents a simulation method that uses Monte Carlo sampling techniques in the microcanonical ensemble, instead of the more traditional scheme based on the canonical ensemble. The authors find that the method is computationally competitive with other, more advanced, techniques when applied to first-order transitions, and hint at the possibility of using a similar proposal to create tailored ensembles for specific problems.

[Phys. Rev. E 94, 021301(R)] Published Tue Aug 09, 2016

]]>This paper proposes a hydrodynamic theory of nematic liquid crystals confined to a thin curved surface. The authors use a variational approach to tackle the problem and find an underlying coupling between the curvature, the flow, and the nematic ordering of the liquid crystal. The results can be useful to describe more complicated systems such as topological defects interacting with a backflow, as well as active nematics.

[Phys. Rev. E 94, 020701(R)] Published Mon Aug 08, 2016

]]>We quantify the disorder-induced heating (DIH) of ultracold neutral plasmas (UCNPs) created from cold atoms in optical lattices with partial filling fractions, using a conservation of energy model involving the spatial correlations of the initial state and the equation of state in thermal equilibriu…

[Phys. Rev. E 94, 021201(R)] Published Mon Aug 08, 2016

]]>The two criteria of ensemble equivalence, i.e., macrostate equivalence and measure equivalence, are investigated for a general pair of states. Macrostate equivalence implies the two ensembles are indistinguishable by the measurement of macroscopic quantities obeying the large-deviation principle, an…

[Phys. Rev. E 94, 020101(R)] Published Fri Aug 05, 2016

]]>Bead-rod-spring models are the foundation of the kinetic theory of polymer solutions. We derive the diffusion equation for the probability density function of the configuration of a general bead-rod-spring model in short-correlated Gaussian random flows. Under isotropic conditions, we solve this equ…

[Phys. Rev. E 94, 020501(R)] Published Wed Aug 03, 2016

]]>A paradigmatic microswimmer is the three-linked-spheres model, which follows a minimalist approach for propulsion by shape shifting. As such, it has been the subject of numerous analytical and numerical studies. In this Rapid Communication, an experimental three-linked-spheres swimmer is created by …

[Phys. Rev. E 94, 021101(R)] Published Mon Aug 01, 2016

]]>The entanglement and localization in eigenstates of strongly chaotic subsystems are studied as a function of their interaction strength. Excellent measures for this purpose are the von Neumann entropy, Havrda-Charvát-Tsallis entropies, and the averaged inverse participation ratio. All the entropies …

[Phys. Rev. E 94, 010205(R)] Published Fri Jul 22, 2016

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