Video microscopy can be used to simultaneously track several microparticles embedded in a complex material. The trajectories are used to extract a sample of displacements at random locations in the material. From this sample, averaged quantities characterizing the dynamics of the probes are calculated to evaluate structural and/or mechanical properties of the assessed material. However, the sampling of measured displacements in heterogeneous systems is singular because the volume of observation with video microscopy is finite. By carefully characterizing the sampling design in the experimental output of the multiple particle tracking technique, we derive estimators for the mean and variance of the probes’ dynamics that are independent of the peculiar statistical characteristics. We expose stringent tests of these estimators using simulated and experimental complex systems with a known heterogeneous structure. Up to a certain fundamental limitation, which we characterize through a material degree of sampling by the embedded probe tracking, these estimators can be applied to quantify the heterogeneity of a material, providing an original and intelligible kind of information on complex fluid properties. More generally, we show that the precise assessment of the statistics in the multiple particle tracking output sample of observations is essential in order to provide accurate unbiased measurements.

We apply elastic continuum theory to model critical parameters influencing the free-energy equilibrium configuration and the dynamic performance of a continuous and in-plane liquid crystal profile acting as a polarization grating. We present analytical expressions for the threshold voltage, critical thickness, and the dynamic switching times under strong anchoring conditions, negligible flow, and arbitrary splay, twist, and bend constants. We also study the influence of weak anchoring, and derive expressions describing a dramatic reduction of the critical thickness and voltage threshold, even for modest grating periods and surface anchoring strengths. Good correlation exists with previously reported experimental data, except in the dynamic response; we therefore show that flow effects (backflow and kickback) likely play an essential role in the fall times, presumably due to the prominent splay-bend deformation of the zero-field configuration. We consider the impact of surface pretilt, and validate our entire analysis with numerical simulations. The approximation technique we employ is likely broadly useful for many problems which include nano- or micropatterned surfaces.

We studied the transient dynamics of synchronized coupled neuronal bursters subjected to repeatedly applied stimuli, using a hybrid neuroelectronic system of paddlefish electroreceptors. We show experimentally that the system characteristically undergoes poststimulus transients, in which the relative phases of the oscillators may be grouped in several clusters, traversing alternate phase trajectories. These signature transient dynamics can be detected and characterized quantitatively using specific statistical measures based on a stochastic approach to transient oscillator responses.

Replication via sporulation is the replication strategy for all multicellular life, and may even be observed in unicellular life (such as with budding yeast). We consider diploid populations replicating via one of two possible sporulation mechanisms. (1) Asexual sporulation, whereby adult organisms produce single-celled diploid spores that grow into adults themselves. (2) Sexual sporulation, whereby adult organisms produce single-celled diploid spores that divide into haploid gametes. The haploid gametes enter a haploid “pool,” where they may recombine with other haploids to form a diploid spore that then grows into an adult. We consider a haploid fusion rate given by second-order reaction kinetics. We work with a simplified model where the diploid genome consists of only two chromosomes, each of which may be rendered defective with a single point mutation of the wild-type. We find that the asexual strategy is favored when the rate of spore production is high compared to the characteristic growth rate from a spore to a reproducing adult. Conversely, the sexual strategy is favored when the rate of spore production is low compared to the characteristic growth rate from a spore to a reproducing adult. As the characteristic growth time increases, or as the population density increases, the critical ratio of spore production rate to organism growth rate at which the asexual strategy overtakes the sexual one is pushed to higher values. Therefore, the results of this model suggest that, for complex multicellular organisms, sexual replication is favored at high population densities and low growth and sporulation rates.

Motivated by the growing importance of fidelity in quantum critical phenomena, we establish a general relation between the fidelity and structure factor of the driving term in a Hamiltonian through the concept of fidelity susceptibility. Our discovery, as shown by some examples, facilitates the evaluation of fidelity in terms of susceptibility using well-developed techniques, such as density matrix renormalization group for the ground state, or Monte Carlo simulations for the states in thermal equilibrium.

We consider a type of intermittent behavior that occurs as the result of the interplay between dynamical mechanisms giving rise to type-I intermittency and random dynamics. We analytically deduce the laws for the distribution of the laminar phases, with the law for the mean length of the laminar phases versus the critical parameter deduced earlier [W.-H. Kye and C.-M. Kim, Phys. Rev. E 62, 6304 (2000)] being the corollary fact of the developed theory. We find a very good agreement between the theoretical predictions and the data obtained by means of both the experimental study and numerical calculations. We discuss also how this mechanism is expected to take place in other relevant physical circumstances.

Density modulation of charged particle beams may occur as a consequence of deliberate action, or may occur inadvertently because of imperfections in the particle source or acceleration method. In the case of intense beams, where space charge and external focusing govern the beam dynamics, density modulation may, under some circumstances, be converted to velocity modulation, with a corresponding conversion of potential energy to kinetic energy. Whether this will occur depends on the properties of the beam and the initial modulation. This paper describes the evolution of discrete and continuous density modulations on intense beams and discusses three recent experiments related to the dynamics of density-modulated electron beams.

By means of the variational formalism for the nonlinear Schrödinger equation, we find an explicit relation for the power of a pulse in terms of its duration, chirp and fiber parameters (group-velocity dispersion and self-phase modulation parameters). Then, using that relation, we derive the explicit analytical expressions for the variational equations corresponding to the amplitude, width, and chirp of the pulse. The derivation of the analytical expressions for the variational equations is possible for the condition when the Hamiltonian of the system is zero. Finally, for Gaussian and hyperbolic secant ansatz, we show good agreement between the results obtained from the analytical expressions and the direct numerical simulation of the nonlinear Schrödinger equation.

We investigate how the degree-mixing pattern affects the emergence of cooperation in the networked prisoner’s dilemma game. Our study shows that when a network becomes assortative mixing by degree, the large-degree vertices (hubs) tend to interconnect to each other closely, which destroys the sustainability among cooperators and promotes the invasion of defectors, whereas in disassortative networks, the isolation among hubs protects the cooperative hubs in holding onto their initial strategies to avoid extinction.

Granular media composed of elongated particles rearrange and order vertically upon vertical vibration. We perform pseudo-two-dimensional discrete element model simulations and show that this phenomenon also takes place with no help from vertical walls. We quantitatively analyze the sizes of voids forming during vibrations and consider a void-filling mechanism to explain the observed vertical ordering. Void filling can explain why short rods are less prone to align vertically than long ones. We cannot, however, explain, invoking just void filling, the existence of an optimum acceleration to promote vertical ordering and its dependence on particle length. We finally introduce an interpretation of the phenomenon, by considering the energetic barriers that particles have to overcome to exit a horizontal or a vertical lattice. By comparing these energetic thresholds with the peak mean particle fluctuant kinetic energy, we identify three different regimes. In the intermediate regime a vertical lattice is stable, while a horizontal is not. This interpretation succeeds in reconciling both dependencies on vibration acceleration and on particle length.

We simulate interactions between adsorbing and nonadsorbing surfaces immersed in solutions containing monodisperse semiflexible chains. Apart from the nature of the surfaces, we investigate responses to changes of the intrinsic chain stiffness, the degree of polymerization, and the bulk concentration. Our simulations display a sufficient accuracy and precision to reveal free-energy barriers that are small on a typical scale of surface force simulations, but still of the same order as the expected van der Waals interactions. Two different approaches have been tested: grand canonical simulations, improved by configurational-biased techniques, and a perturbation method utilizing the isotension ensemble. We find the former to be preferable when the surfaces are nonadsorbing, whereas the isotension approach is superior for calculations of interactions between adsorbing surfaces, especially if the polymers are stiff. We also compare our simulation results with predictions from several versions of polymer density functional theory. We find that a crucial aspect of these theories, in quantitative terms, is that they recognize that end monomers exclude more volume to the surrounding than inner ones do. Those theories provide satisfactorily accurate predictions, particularly when the surfaces are nonadsorbing.

We study the stochastic kinetics of a signaling module consisting of a two-state stochastic point process with negative feedback. In the active state, a product is synthesized which increases the active-to-inactive transition rate of the process. We analyze this simple autoregulatory module using a path-integral technique based on the temporal statistics of state flips of the process. We develop a systematic framework to calculate averages, autocorrelations, and response functions by treating the feedback as a weak perturbation. Explicit analytical results are obtained to first order in the feedback strength. Monte Carlo simulations are performed to test the analytical results in the weak feedback limit and to investigate the strong feedback regime. We conclude by relating some of our results to experimental observations in the olfactory and visual sensory systems.

Mechanical forces generated by contractile cells allow the cells to sense their environment and to interact with other cells. By locally pulling on their environment, cells can sense and respond to mechanical features such as the local stress (or strain), the shape of a cellular domain, and the surrounding rigidity; at the same time, they also modify the mechanical state of the system. This creates a mechanical feedback loop that can result in self-polarization of cells. In this paper, we present a quantitative mechanical model that predicts the self-polarization of cells in spheroidally shaped domains, comprising contractile cells and an elastic matrix, that are embedded in a three-dimensional, cell-free gel. The theory is based on a generalization of the known results for passive inclusions in solids to include the effects of cell activity. We use the active cellular susceptibility tensor presented by Zemel et al. [Phys. Rev. Lett. 97, 128103 (2006)] to calculate the polarization response and hence the elastic stress field developed by the cells in the cellular domain. The cell polarization is analyzed as a function of the shape and the elastic moduli of the cellular domain compared with the cell-free surrounding material. Consistent with experiment, our theory predicts the development of a stronger contractile force for cells in a gel that is surrounded by a large, cell-free material whose elastic modulus is stiffer than that of the gel that contains the cells. This provides a quantitative explanation of the differences in the development of cellular forces as observed in free and fixed gels. In the case of an asymmetrically shaped (spheroidal) domain of cells, we show that the anisotropic elastic field within the domain leads to a spontaneous self-polarization of the cells along the long axis of the domain.

We consider the problem of initiation of propagating waves in a one-dimensional excitable fiber. In the FitzHugh-Nagumo theory, the key role is played by “critical nucleus” and “critical pulse” solutions whose (center-) stable manifold is the threshold surface separating initial conditions leading to propagation and those leading to decay. We present evidence that in cardiac excitation models, this role is played by “critical front” solutions.

We measured the flexural stiffness of single microvilli on live human neutrophils and lymphocytes using 40-nm fluorescent beads. The beads were bound to the tips of the microvilli by anti-$L$-selectin antibodies. Digital bead images were acquired with an exposure time of $3\mathrm{s}$ at high magnification. Using a Gaussian point spread function, we obtained an analytical expression that relates the image profile to the flexural stiffness. We found that the flexural stiffnesses were 7 and $4\mathrm{pN}∕\mathrm{\mu }\mathrm{m}$ for single microvilli on human neutrophils and lymphocytes, respectively. We also verified with live cells that 75% of neutrophil $L$-selectin and 72% of lymphocyte $L$-selectin were on the microvillus tips. Our results indicate that the leukocyte microvilli in contact with the endothelium or other surfaces will bend easily under physiological shear stresses.

An efficient control scheme of resonant three-oscillator interactions using an external chirped frequency drive is suggested. The approach is based on formation of a double phase-locked (autoresonant) state in the system, as the driving oscillation passes linear resonance with one of the interacting oscillators. When doubly phase locked, the amplitudes of the oscillators increase with time in proportion to the driving frequency deviation from the linear resonance. The stability of this phase-locked state and the effects of dissipation and of the initial three-oscillator frequency mismatch on the autoresonance are analyzed. The associated autoresonance threshold phenomenon in the driving amplitude is also discussed. In contrast to other nonlinear systems, driven, autoresonant three-oscillator excitations are independent of the sign of the driving frequency chirp rate.

This study is devoted to experimental and theoretical investigation of splash produced by spray impact onto a smooth, rigid target under microgravity conditions. In particular, the formation of a film by the deposited liquid, the propagation and breakup of uprising sheets created by drop impacts, and the creation of secondary droplets have been observed. Three scenarios of splash have been identified during the experiments: (i) cusp formation and jetting due to the rim transverse instability, (ii) sheet destruction and the consequent rapid axisymmetric capillary breakup of a free rim, and (iii) the rim merging. Experimental data for various geometrical parameters of splash have been collected. Next, in order to predict the typical length scales of the interjet distance, a linear stability analysis of the rim in relation to transverse disturbances has been performed. The influence of the sheet stretching has been investigated and shown to be significant. The experimentally measured average values of the interjet distances agree well with the theoretical predictions. The sheet stretching is responsible for the appearance of the relatively long interjet distances.

Calculation details of radiative opacity for lowly ionized gold plasmas by using our developed fully relativistic detailed level-accounting approach are presented to show the importance of accurate atomic data for a quantitative reproduction of the experimental observations. Even though a huge number of transition lines are involved in the radiative absorption of high-$Z$ plasmas so that one believes that statistical models can often give a reasonable description of their opacities, we first show in detail that an adequate treatment of physical effects, in particular the configuration interaction (including the core-valence electron correlation), is essential to produce atomic data of bound-bound and bound-free processes for gold plasmas, which are accurate enough to correctly explain the relative intensity of two strong absorption peaks experimentally observed located near photon energy of 70 and $80\mathrm{eV}$. A detailed study is also carried out for gold plasmas of an average ionization degree sequence of 10, for both spectrally resolved opacities and Rosseland and Planck means. For comparison, results obtained by using an average atom model are also given to show that even for a relatively higher density of matter, correlation effects are also important to predict the correct positions of absorption peaks of transition arrays.

The temperature dependence of the effective kinematic viscosity of turbulent $\mathrm{He}\mathrm{II}$, ${\nu }_{eff}\left(T\right)$, is deduced from second sound attenuation data using the late stage of decay of thermally induced counterflow $\mathrm{He}\mathrm{II}$ turbulence in two channels of square cross section. It is shown to qualitatively agree with the published data for ${\nu }_{eff}\left(T\right)$ calculated based on experiments on decaying-grid-generated $\mathrm{He}\mathrm{II}$ turbulence [Niemela et al., J. Low Temp. Phys. 138, 537 (2005)]. Corrections to these data due to the “sine squared” law that describes attenuation of the second sound wave propagating along an arbitrary direction with respect to the direction of the core of a quantized vortex in turbulent $\mathrm{He}\mathrm{II}$ are discussed and applied.

The dynamic scaling properties of the one-dimensional Burgers equation are expected to change with the inclusion of additional conserved degrees of freedom. We study this by means of one-dimensional (1D) driven lattice gas models that conserve both mass and momentum. The most elementary version of this is the Arndt-Heinzel-Rittenberg (AHR) process, which is usually presented as a two-species diffusion process, with particles of opposite charge hopping in opposite directions and with a variable passing probability. From the hydrodynamics perspective this can be viewed as two coupled Burgers equations, with the number of positive and negative momentum quanta individually conserved. We determine the dynamic scaling dimension of the AHR process from the time evolution of the two-point correlation functions, and find numerically that the dynamic critical exponent is consistent with simple Kardar-Parisi-Zhang- (KPZ) type scaling. We establish that this is the result of perfect screening of fluctuations in the stationary state. The two-point correlations decay exponentially in our simulations and in such a manner that in terms of quasiparticles, fluctuations fully screen each other at coarse grained length scales. We prove this screening rigorously using the analytic matrix product structure of the stationary state. The proof suggests the existence of a topological invariant. The process remains in the KPZ universality class but only in the sense of a factorization, as $(\mathrm{KPZ}{)}^2$. The two Burgers equations decouple at large length scales due to the perfect screening.