http://pre.aps.org/ Accepted Papers for Physical Review E hourly 1 2013-05-21T21:07:21-04:00 rss@aps.org assocpub@aps.org 2013-05-21T21:07:21-04:00 en Copyright © 2013 the American Physical Society. Personal use only, all commercial or other reuse prohibited Copyright © 2013 the American Physical Society assocpub@aps.org http://pre.aps.org/accepted/E/47072R62P091121dc29455c6f129a4109be365955 We demonstrate manipulation and transport of microparticles and even fluorescent molecules by thermally induced gradient of the order parameter in the nematic liquid crystal. We use IR light absorption of the tightly focused beam of the laser tweezers to heat locally a thin layer of the nematic liqu... Transport of particles by a thermally induced gradient of the order parameter in nematic liquid crystals 2013-05-21T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/47072R62P091121dc29455c6f129a4109be365955 Liquid Crystals Liquid Crystals http://pre.aps.org/accepted/E/cd07aR73O371331f313000a453f830c9989ffb6c7 Time perception in the supra-second range is crucial for fundamental cognitive processes like decision making, rate calculation, and planning. In the vast majority of species, behavioral and neurophysiological manipulations, interval timing is scale invariant: the time-estimation errors are proporti... How noise contributes to time-scale invariance of interval timing 2013-05-21T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/cd07aR73O371331f313000a453f830c9989ffb6c7 Biological Physics Biological Physics http://pre.aps.org/accepted/E/e407eRb1P7d14a10a3c522382dab4fb0c67e66822 By using Molecular Dynamics simulations, we determine the jamming phase diagrams at high densities for a bidisperse mixture of soft spheres that interact according to repulsive power law pair potentials. We observe that the relaxation time varies non-monotonically as a function of density at constan... Multiple reentrant glass transitions of soft spheres at high densities: Monotonicity of the curves of constant relaxation times in jamming phase diagrams depending on temperature over pressure and pressure 2013-05-21T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/e407eRb1P7d14a10a3c522382dab4fb0c67e66822 Colloids and Complex Fluids Colloids and Complex Fluids http://pre.aps.org/accepted/E/cc07dR43P591481691033f734b8f629a1587a42dd In this work, the role of the hydrodynamic forces on a swimming microorganism near an air-liquid interface is studied. The lubrication theory is utilized to analyze hydrodynamic effects within the narrow gap between a flat interface and a small swimmer. By using an archetypal low-Reynolds-number swi... Swimming of a model ciliate near an air-liquid interface 2013-05-21T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/cc07dR43P591481691033f734b8f629a1587a42dd Fluid Dynamics Fluid Dynamics http://pre.aps.org/accepted/E/60073R45N7d14f08a9219a8258dbe603197de1def It is a well-known fact that the statistical behaviors of level fluctuation and level-correlation in the energy-level spectra is the most efficient tool to characterize quantum chaos in nonintegrable quantum systems. The system of interacting trapped bosons is a complex system where the low-lying en... Spectral fluctuation and correlation structure of $\delta_n$ statistics in the spectra of interacting trapped bosons 2013-05-21T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/60073R45N7d14f08a9219a8258dbe603197de1def Statistical Physics Statistical Physics http://pre.aps.org/accepted/E/c9074Y17Ic615c3401c04b81a067a684860466432 Pseudochaotic properties are systematically investigated in a one-parameter family of irrational triangular billiards (all angles irrational with $\pi$). The position correlation function $C_x(t)$ decays like $\sim t^{-\alpha}$. Fast $(\alpha \thickapprox 1)$ and slow $(0 Ergodicity and quantum correlations in irrational triangular billiards 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/c9074Y17Ic615c3401c04b81a067a684860466432 Nonlinear Dynamics and Chaos Nonlinear Dynamics and Chaos http://pre.aps.org/accepted/E/dc07fY74Lfa14e3945e02f692943742381a9643d8 A measure to estimate the direct and directional coupling in multivariate time series is proposed. The measure is an extension of a recently published measure of conditional Mutual Information from Mixed Embedding (MIME) for bivariate time series. In the proposed measure of Partial MIME (PMIME), the... Direct coupling information measure from nonuniform embedding 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/dc07fY74Lfa14e3945e02f692943742381a9643d8 Nonlinear Dynamics and Chaos Nonlinear Dynamics and Chaos http://pre.aps.org/accepted/E/81077YffK131af24d8c10974458d42bc7bd1d69b8 Many eukaryotic cells are able to perform directional mechanosensing by directly measuring minute spatial differences in the mechanical stress on their membrane. Here, we explore the limits of a single mechanosensitive channel activation using a two-state double-well model for the gating mechanism. ... Physical limits on cellular directional mechanosensing 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/81077YffK131af24d8c10974458d42bc7bd1d69b8 Biological Physics Biological Physics http://pre.aps.org/accepted/E/8a078R61Mb21310368a530f195fd726dc29e0d517 Outflow boundary condition (OBC) is a critical issue in computational fluid dynamics. As a new type of numerical method for fluid flows, the lattice Boltzmann equation (LBE) method has gained much success in a variety of complex flows, and certain OBCs have been suggested for the LBE in simulating s... Evaluation of outflow boundary conditions for two-phase lattice Boltzmann equation 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/8a078R61Mb21310368a530f195fd726dc29e0d517 Computational Physics Computational Physics http://pre.aps.org/accepted/E/df071Rc2Oad1dd1d11987338daa4fa0ca1d16a015 Dynamic hysteresis phenomena are widespread in physical sciences, and describe the complex behaviour of systems driven out of equilibrium by a periodic forcing. We use here paramagnetic colloids above a stripe patterned garnet film as model system to study dynamic hysteresis, the latter induced when... Unconventional dynamic hysteresis in periodic assembly of paramagnetic colloids 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/df071Rc2Oad1dd1d11987338daa4fa0ca1d16a015 Colloids and Complex Fluids Colloids and Complex Fluids http://pre.aps.org/accepted/E/c007cYb4P151cc45211080117121153d1c29d3db1 Based on conventional Ito or Stratonovich interpretation, zero-mean multiplicative noise can induce shifts of attractors or even changes of topology to a deterministic dynamics. The inconsistency usually introduces additional complications in analysis of these systems. We employ in this paper a new ... Exploring a noisy van der Pol type oscillator with a stochastic approach 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/c007cYb4P151cc45211080117121153d1c29d3db1 Statistical Physics Statistical Physics http://pre.aps.org/accepted/E/15077Y1fP2a1c94300c25605b2b8ed08826eff592 Advances in precise focusing of colloidal particles in microfluidic systems open up the possibility to use microfluidic junctions for particle separation and filtering applications. We present a comprehensive numerical study of the dynamics of solid and porous microparticles in T-shaped junctions. G... One- and two-particle dynamics in microfluidic T-junctions 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/15077Y1fP2a1c94300c25605b2b8ed08826eff592 Colloids and Complex Fluids Colloids and Complex Fluids http://pre.aps.org/accepted/E/1a079R1fI1b1820f390e4419744fda011f23fa65e Molecular dynamics (MD) simulation method is used to study the translocation of a single strand DNA through nanopores opened on graphene membranes. Simulation results uncover that the translocation time for four DNA strands (20G, 20A, 20T and 20C) is proportional to the size of the four DNA bases. H... Molecular dynamics study of DNA translocation through graphene nanopores 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/1a079R1fI1b1820f390e4419744fda011f23fa65e Biological Physics Biological Physics http://pre.aps.org/accepted/E/4e078Y56M7e1ee3353201ab8a7903e4b249135ab9 Non-local electrostatic interactions associated with the finite solvent size and ion polarizability are investigated within the mean-field linear response theory. To this end, we introduce a field theoretic model of a polar liquid composed of linear multipole solvent molecules and embedding polariza... Microscopic formulation of nonlocal electrostatics in polar liquids embedding polarizable ions 2013-05-20T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/4e078Y56M7e1ee3353201ab8a7903e4b249135ab9 Classical Physics Classical Physics http://pre.aps.org/accepted/E/d6076R28Je217701e91234771c90022ca6a99e3ec We consider propagating, spatially localised waves in a class of equations that contain variational and non-variational terms. The dynamics of the waves is analysed through a collective coordinate approach. Motivated by the variational approximation, we show that there is a natural choice of project... Variational approximation and the use of collective coordinates 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/d6076R28Je217701e91234771c90022ca6a99e3ec Classical Physics Classical Physics http://pre.aps.org/accepted/E/87077RecNdc1d51e801e01210c30b51b58cf2ffb0 We study the kicked rotator in the classically fully chaotic regime using Izrailev's $N$-dimensional model for various $N \le 4000$, which in the limit $N \rightarrow \infty$ tends to the quantized kicked rotator. We do not treat only the case $K=5$ as studied previously, but many different values o... Dynamical localization in chaotic systems: Spectral statistics and localization measure in a kicked rotator as a paradigm for time-dependent and time-independent systems 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/87077RecNdc1d51e801e01210c30b51b58cf2ffb0 Nonlinear Dynamics and Chaos Nonlinear Dynamics and Chaos http://pre.aps.org/accepted/E/bc07fYb4Q3f1624fe36c7f54d7d84a2799ec4ba26 Impact dynamics is measured for spherical and cylindrical projectiles of many different densities dropped onto a variety non-cohesive granular media. The results are analyzed in terms of the material-dependent scaling of the inertial and frictional drag contributions to the total stopping force. The... Drag force scaling for penetration into granular media 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/bc07fYb4Q3f1624fe36c7f54d7d84a2799ec4ba26 Granular Materials Granular Materials http://pre.aps.org/accepted/E/fb078Rc1P1d1c31a713978e6cfd22dce5e5d3433b Based on the theory of shape instability and diffusive instability for single bubbles, we have studied the instability of an individual bubble in a bubble chain and found that its stable area enlarges the narrower the distance between bubbles. The spatial stability of the bubble chain is due to the ... Instability of a bubble chain 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/fb078Rc1P1d1c31a713978e6cfd22dce5e5d3433b Fluid Dynamics Fluid Dynamics http://pre.aps.org/accepted/E/1b071R57P1d10c1591e904449c8c98ac3b91c23f6 We derive, from the dimensional cross-over criterion, a fundamental-measure density functional for parallel hard curved rectangles moving on a cylindrical surface. We derive it from the density functional of circular arcs of length $\sigma$ with centers of mass located on an external circumference o... Dimensional crossover of hard parallel cylinders confined on cylindrical surfaces 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/1b071R57P1d10c1591e904449c8c98ac3b91c23f6 Colloids and Complex Fluids Colloids and Complex Fluids http://pre.aps.org/accepted/E/69074Y72I8b1bc24b7d99035694e16ac2d058583e In pipe, channel and boundary layer flows turbulence first occurs intermittently in space and time: At moderate Reynolds numbers domains of disordered turbulent motion are separated by quiescent laminar regions. Based on direct numerical simulations of pipe flow we here argue that the spatial interm... Nature of laminar-turbulence intermittency in fluid flows 2013-05-17T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/69074Y72I8b1bc24b7d99035694e16ac2d058583e Fluid Dynamics Fluid Dynamics http://pre.aps.org/accepted/E/4707cYa6Ka615632c5194f870ffb59fb089157eab We consider a family of two-dimensional nonlinear area-preserving mappings that generalize the Chirikov standard map and model a variety of periodically forced systems. The action variable diffuses with increments whose phase is controlled by a negative power of the action and hence effectively unco... Scaling invariance of the diffusion coefficient in a family of two-dimensional Hamiltonian mappings 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/4707cYa6Ka615632c5194f870ffb59fb089157eab Nonlinear Dynamics and Chaos Nonlinear Dynamics and Chaos http://pre.aps.org/accepted/E/3f079R5aOf419f06b9ed618587629d729aaebec1f SLE($\kappa,\vec{\rho}$) is a variant of Schramm-Loewner Evolution (SLE) which describes the curves which are not conformal invariant, but are self-similar due to the presence of some other preferred points on the boundary. In this paper we study the left passage probability (LPP) of SLE($\kappa,\ve... Left passage probability of Schramm-Loewner Evolution 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/3f079R5aOf419f06b9ed618587629d729aaebec1f Statistical Physics Statistical Physics http://pre.aps.org/accepted/E/48072RdaG0e10202095e0961456d28623ec668693 We present an analytical approach to determining the expected cascade size in a broad range of dynamical models on the class of highly-clustered random graphs introduced in [J. P. Gleeson, Phys. Rev. E \textbf{80}, 036107 (2009)]. A condition for the existence of global cascades is also derived. App... Cascades on clique-based graphs 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/48072RdaG0e10202095e0961456d28623ec668693 Interdisciplinary Physics Interdisciplinary Physics http://pre.aps.org/accepted/E/62075R71Md315206294637a38c49c1d383d740fb6 A novel sharp interface immersed boundary lattice Boltzmann method (IB-LBM) is developed to reduce spurious pressure oscillations in moving boundary problems. We adopt a cut-cell based method, the partially saturated computational cell method, because the primary cause of spurious pressure oscillati... Sharp-interface immersed boundary lattice Boltzmann method with reduced spurious-pressure oscillations for moving boundaries 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/62075R71Md315206294637a38c49c1d383d740fb6 Computational Physics Computational Physics http://pre.aps.org/accepted/E/af07cRfdM621a40d49c11b18f96ddad19f17afa30 Based on a coarse-grained model, we carry out molecular dynamics simulations to analyze the diffusion of a small tracer particle inside a cylindrical channel whose inner wall is covered with randomly grafted short polymeric chains. We observe an interesting transient subdiffusive behavior along the ... Tracer diffusion in a crowded cylindrical channel 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/af07cRfdM621a40d49c11b18f96ddad19f17afa30 Biological Physics Biological Physics http://pre.aps.org/accepted/E/4f078R67M1218300891844f727c1c1ba5d8a6c604 Experiments and simulations of the compaction force in a confined binary granular mixture column were conducted. We measured the resistance force encountered by a piston pushing a vertical granular mixture in this confined arrangement. Granular mixtures with two different particle sizes were conside... Reduction of compaction force in a confined bidisperse granular media 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/4f078R67M1218300891844f727c1c1ba5d8a6c604 Granular Materials Granular Materials http://pre.aps.org/accepted/E/d907fRd0L01W561090916e14023c8f730e42966f3 The interplay between traffic dynamics and epidemic spreading on complex networks has received increasing attention in recent years. However, the control of traffic-driven epidemic spreading remains to be a challenging problem. In this Brief Report, we propose a method to suppress traffic-driven epi... Suppressing traffic-driven epidemic spreading by edge-removal strategies 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/d907fRd0L01W561090916e14023c8f730e42966f3 Interdisciplinary Physics Interdisciplinary Physics http://pre.aps.org/accepted/E/7b07bRa1L5110803176b7a05eedc2cf0796e63948 The Langevin description of Brownian motion in inhomogeneous suspensions is here revisited. Inhomogeneous suspensions are characterized by a position-dependent friction coefficient, which can significantly influence the dynamics of the suspended particles. Outstanding examples are suspensions in con... Brownian motion in inhomogeneous suspensions 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/7b07bRa1L5110803176b7a05eedc2cf0796e63948 Statistical Physics Statistical Physics http://pre.aps.org/accepted/E/c7072RabP921a11900ed7ed925b47e7334d9d91a2 Crossbridge power-stroke model has been widely used to describe the motion of large motor assemblies connected to a common rigid filament. In this paper, we go beyond the original velocity-ensemble approach and propose a master equation approach to account for the cooperative motion of a finite numb... Master equation approach for a cross-bridge power-stroke model with a finite number of motors 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/c7072RabP921a11900ed7ed925b47e7334d9d91a2 Biological Physics Biological Physics http://pre.aps.org/accepted/E/fd075Re3Peb13811709583d515f621ce02004018c A measure is derived to quantify directed information transfer between pairs of vertices in a weighted network, over paths of a specified maximal length. Our approach employs a general, probabilistic model of network traffic, from which the informational distance between dynamics on two weighted net... Network transfer entropy and metric space for causality inference 2013-05-16T10:00:00-04:00 Personal use only, all commercial or other reuse prohibited article http://pre.aps.org/accepted/E/fd075Re3Peb13811709583d515f621ce02004018c Interdisciplinary Physics Interdisciplinary Physics