Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “spatial structure”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,459 records · Page 81Linked to original sources

Effect of inertia in Rayleigh-Bénard convection.

We have investigated the influence of the Prandtl number on the dynamics of high Rayleigh number thermal convection. A numerical parameter study in a three-dimensional Rayleigh-Bénard configuration was carried out, where we varied the Prandtl number between 10(-3)< or =Pr< or =10(2). The Rayleigh number was fixed at a value of Ra=10(6). Our main focus lay on the question how the value of the Prandtl number affects the spatial structure of the flow. We investigated the functional dependence of the Nusselt number and the Reynolds number and compared our results with a recent theoretical approach of Grossmann and Lohse [J. Fluid Mech. 407, 27 (2000); Phys. Rev. Lett. 86, 3316 (2001)].

Journal Article↗

Preventing alternans-induced spiral wave breakup in cardiac tissue: an ion-channel-based approach.

The detailed processes involved in spiral wave breakup, believed to be one major mechanism by which tachycardia evolves into fibrillation, are still poorly understood. This has rendered difficult the proper design of an efficient and practical control stimulus protocol to eliminate such events. In order to gain new insights into the underlying electrophysiological and dynamical mechanisms of breakup, we applied linear perturbation theory to a steadily rotating spiral wave in two spatial dimensions. The tissue was composed of cells modeled using the Fenton-Karma equations whose parameters were chosen to emphasize alternans as a primary mechanism for breakup. Along with one meandering mode, not just one but several unstable alternans modes were found with differing growth rates, frequencies, and spatial structures. As the conductance of the fast inward current was increased, the instability of the modes increased, consistent with increased meandering and propensity for spiral breakup in simulations. We also explored a promising new approach, based on the theory, for the design of an energy efficient electrical stimulus protocol to control spiral wave breakup. The novelty lies in addressing the problem directly at the ion channel level and taking advantage of the inherent two dimensional nature of the rotating wave. With the help of the eigenmode method, we were able to calculate the exact timing and amplitude of the stimulus, and locate it optimally to maximize efficiency. The analysis led to a special-case example that demonstrated that a single, properly timed stimulus can have a global effect, suppressing all growing alternans modes over the entire tissue, thus inhibiting spiral wave breakup.

Animals↗

Forward-backward equations for nonlinear propagation in axially invariant optical systems.

We present a general framework to deal with forward and backward components of the electromagnetic field in axially invariant nonlinear optical systems, which include those having any type of linear or nonlinear transverse inhomogeneities. With a minimum amount of approximations, we obtain a system of two first-order equations for forward and backward components, explicitly showing the nonlinear couplings among them. The modal approach used allows for an effective reduction of the dimensionality of the original problem from 3 + 1 (three spatial dimensions plus one time dimension) to 1 + 1 (one spatial dimension plus one frequency dimension). The new equations can be written in a spinor Dirac-like form, out of which conserved quantities can be calculated in an elegant manner. Finally, these equations inherently incorporate spatiotemporal couplings, so that they can be easily particularized to deal with purely temporal or purely spatial effects. Nonlinear forward pulse propagation and nonparaxial evolution of spatial structures are analyzed as examples.

Journal Article↗

Effect of eigenmodes on the optical transmission through one-dimensional random media.

Using the transfer matrix method as well as numerical solutions to the one-dimensional wave equation derived from the Maxwell equations, we study the transition from a photonic crystal with a finite size to a random dielectric medium. We examine the validity of the Kronig-Penney model for a finite size crystal and analyze the spatial structure of the eigenmodes as the crystal is made more irregular.

Journal Article↗

Discrete time model for chemical or biological decay in chaotic flows: reentrance phase transitions.

We consider a discrete time model of advection, reaction, and diffusion on a lattice to investigate the steady-state spatial structure of chemically decaying substances. The time discretization of the dynamics has a considerable impact on these structures. Additional smooth-filamental phase transitions, nonexistent in the continuous-time description, appear. We show how these structures and their scaling properties depend on the time step of the discrete dynamics. Exploiting the analogies of this discrete model with the logistic map, some general features are discussed.

Journal Article↗

Scaling, genetic drift, and clonal interference in the extinction pattern of asexual population.

We investigate the dynamics of loss of favorable mutations in an asexual haploid population. In the current work, we consider homogeneous as well as spatially structured population models. We focus our analysis on statistical measurements of the probability distribution of the maximum population size N(sb) achieved by those mutations that have not reached fixation. Our results show a crossover behavior which demonstrates the occurrence of two evolutionary regimes. In the first regime, which takes place for small N(sb) , the probability distribution is described by a power law with characteristic exponent theta(d) =1.8 +/- 0.01. This power law is not influenced by the rate of beneficial mutations. The second regime, which occurs for intermediate to large values of N(sb), has a characteristic exponent theta(c) which increases as the rate of beneficial mutations grows. These results establish where genetic drift and clonal interference become the main underlying mechanism in the extinction of advantageous mutations.

Demography↗

Inverse melting and inverse freezing: a spin model.

Systems of highly degenerate ordered or frozen state may exhibit inverse melting (reversible crystallization upon heating) or inverse freezing (reversible glass transition upon heating). This phenomenon is reviewed, and a list of experimental demonstrations and theoretical models is presented. A simple spin model for inverse melting is introduced and solved analytically for infinite range, constant paramagnetic exchange interaction. The random exchange analogue of this model yields inverse freezing, as implied by the analytic solution based on the replica trick. The qualitative features of this system (generalized Blume-Capel spin model) are shown to resemble a large class of inverse melting phenomena. The appearance of inverse melting is related to an exact rescaling of one of the interaction parameters that measures the entropy of the system. For the case of almost degenerate spin states, perturbative expansion is presented, and the first three terms correspond to the empiric formula for the Flory-Huggins chi parameter in the theory of polymer melts. The possible microscopic origin of this chi parameter and the limitations of the Flory-Huggins theory where the state degeneracy is associated with the different conformations of a single polymer or with the spatial structures of two interacting molecules are discussed.

Journal Article↗

Modeling growth from the vapor and thermal annealing on micro- and nanopatterned substrates.

We propose a -dimensional mesoscopic model to describe the most relevant physical processes that take place while depositing and/or annealing micro- and nanopatterned solid substrates. The model assumes that a collimated incident beam impinges over the growing substrate; scattering effects in the vapor and reemission processes are introduced in a phenomenological way as an isotropic flow. Surface diffusion is included as the main relaxation process at the micro- or nanoscale. The stochastic model is built following population dynamics considerations; both stochastic simulations and the deterministic limit are analyzed. Numerical aspects regarding its implementation are also discussed. We study the shape-preserving growth mode, the coupling between shadowing effects and random fluctuations, and the spatial structure of noises using numerical simulations. We report important deviations from linear theories of surface diffusion when the interfaces are not compatible with the small slope approximation, including spontaneous formation of overhangs and nonexponential decay of pattern amplitudes. We discuss the dependence of stationary states with respect to the boundary conditions imposed on the system.

Journal Article↗

Fluctuations and correlations in lattice models for predator-prey interaction.

Including spatial structure and stochastic noise invalidates the classical Lotka-Volterra picture of stable regular population cycles emerging in models for predator-prey interactions. Growth-limiting terms for the prey induce a continuous extinction threshold for the predator population whose critical properties are in the directed percolation universality class. We discuss the robustness of this scenario by considering an ecologically inspired stochastic lattice predator-prey model variant where the predation process includes next-nearest-neighbor interactions. We find that the corresponding stochastic model reproduces the above scenario in dimensions 1< d < or =4, in contrast with the mean-field theory, which predicts a first-order phase transition. However, the mean-field features are recovered upon allowing for nearest-neighbor particle exchange processes, provided these are sufficiently fast.

Adaptation, Physiological↗

Regular patterns in dichotomically driven activator-inhibitor dynamics.

We investigate Turing pattern formation in the presence of additive dichotomous fluctuations in the context of an extended system with diffusive coupling and FitzHugh-Nagumo kinetics. The fluctuations vary in space and/or time. Depending on the realization of the dichotomous switching the system is, at a given time (for spatial disorder at a given position) in one of two possible excitable dynamical regimes. Each of the two excitable dynamics for itself does not support pattern formation. With proper dichotomous fluctuations, however, the homogeneous steady state is destabilized via a Turing instability. We investigate the influence of different switching rates (different correlation length of the spatial disorder) on pattern formation. We find three distinct mechanisms: For slow switching existing boundaries become unstable, for high rates the system exhibits "effective bistability" which allows for a Turing instability. For medium rates the fluctuations create spatial structures via a new mechanism where the influence of the fluctuations is twofold. First they produce local inhomogeneities, which then grow (again caused by fluctuations) until the whole space is covered. Utilizing a nonlinear map approach we show bistability of a period-one and a period-two orbit being associated with the steady homogeneous and the Turing pattern state, respectively. Finally, for purely static dichotomous disorder we find destabilization of homogeneous steady states for finite nonzero correlation length of the disorder resulting again in Turing patterns.

Journal Article↗

Fractal basin boundaries generated by basin cells and the geometry of mixing chaotic flows

Experiments and computations indicate that mixing in chaotic flows generates certain coherent spatial structures. If a two-dimensional basin has a basin cell (a trapping region whose boundary consists of pieces of the stable and unstable manifold of some periodic orbit) then the basin consists of a central body (the basin cell) and a finite number of channels attached to it and the basin boundary is fractal. We demonstrate an amazing property for certain global structures: A basin has a basin cell if and only if every diverging curve comes close to every basin boundary point of that basin.

Journal Article↗

Phase mixing and island saturation in Hamiltonian reconnection.

The nonlinear evolution of a Hamiltonian magnetic field line reconnection in a two-dimensional fluid plasma leads to a macroscopic equilibrium with a finite-size island and fine-scale spatial structures. The latter arise from the phase mixing of the Lagrangian invariant fields. This equilibrium is the analog of the Bernstein-Greene-Kruskal equilibrium solution for electrostatic Langmuir waves.

Journal Article↗

Dynamics of HIV infection: a cellular automata approach.

We use a cellular automata model to study the evolution of human immunodeficiency virus (HIV) infection and the onset of acquired immunodeficiency syndrome (AIDS). The model takes into account the global features of the immune response to any pathogen, the fast mutation rate of the HIV, and a fair amount of spatial localization, which may occur in the lymph nodes. Our results reproduce the three-phase pattern observed in T cell and virus counts of infected patients, namely, the primary response, the clinical latency period, and the onset of AIDS. The dynamics of real experimental data is related to the transient behavior of our model and not to its steady state. We have also found that the infected cells organize themselves into spatial structures, which are responsible for the decrease on the concentration of uninfected cells, leading to AIDS.

Cell Death↗

Ion dynamics in steady collisionless driven reconnection.

Steady collisionless driven reconnection in an open system is investigated by means of a new two-dimensional full-particle simulation. The reconnection rate is controlled by an external driving electric field. Ion-meandering motion plays an important role in ion dynamics which controls the spatial structures of ion quantities. Although the electric current is predominantly carried by electrons, the current layer has the half-width of the ion-meandering orbit scale because the density profile is controlled by massive-ion motion. Thus, the global dynamic behavior of reconnection is dominantly controlled by ion dynamics. An electrostatic field generated through the finite-Larmor-radius effect leads to electron acceleration in the equilibrium current direction in the ion-dissipation region and ion heating by intensifying meandering motion. Our results are in agreement with the recent experimental results of Yamada et al. [Phys. Plasmas 7, 1781 (2000)] and of Hus et al. [Phys. Rev. Lett. 84, 3859 (2000)].

Journal Article↗

Competition of periodic and homogeneous modes in extended dynamical systems.

Despite their simple structure, spatially homogeneous modes can participate directly in pattern-formation processes. This is demonstrated by new experimental and theoretical results for thermo- and electroconvection in planar nematic liquid crystals, where two distinct homogeneous modes, twist and splay distortions of the director field, emerge. Their nonlinear excitation is due to certain spontaneous symmetry-breaking bifurcations.

Journal Article↗

Large four-wave mixing of spatially extended excitonic states in thin GaAs layers.

We study the size dependence of the nonlinear response of weakly confined excitons for the size region beyond the long wavelength approximation regime. The observed degenerate-four-wave mixing signal of GaAs thin layers exhibits an anomalous size dependence, where the signal is resonantly enhanced at a particular thickness region. The theoretical analysis elucidates that this enhancement is due to the size-resonant enhancement of the internal field with a spatial structure relevant to the nondipole-type excitonic state. These results establish the formerly proposed new type of size dependence of nonlinear response due to the nonlocality induced double resonance.

Journal Article↗

Ga(1-x)Mn(x)As: a frustrated ferromagnet.

Starting from a microscopic description of the exchange interaction in Ga(1-x)Mn(x)As, we derive an effective Mn-Mn interaction. Because of the strong spin-orbit coupling in the valence band, this effective interaction is highly anisotropic and has a spatial structure somewhat similar to dipolar interactions. The corresponding ground state has a finite magnetization but is intrinsically spin disordered even at zero temperature, explaining many features of the experimental data. Our results are relevant for many magnetic semiconductors.

Journal Article↗

Uniqueness of reconstruction of multiphase morphologies from two-point correlation functions.

The restoration of the spatial structure of heterogeneous media, such as composites, porous materials, microemulsions, ceramics, or polymer blends from two-point correlation functions, is a problem of relevance to several areas of science. In this contribution we revisit the question of the uniqueness of the restoration problem. We present numerical evidence that periodic, piecewise uniform structures with smooth boundaries are completely specified by their two-point correlation functions, up to a translation and, in some cases, inversion. We discuss the physical relevance of the results.

Journal Article↗