Simulating synchronized traffic flow and wide moving jam based on the brake light rule

A new cellular automaton (CA) model based on brake light rules is proposed, which considers the influence of deterministic deceleration on randomization probability and deceleration extent. To describe the synchronized flow phase of Kerner’s three-phase theory in accordance with empirical data, we have changed some rules of vehicle motion with the aim to improve speed and acceleration vehicle behavior in synchronized flow simulated with earlier cellular automaton models with brake lights. The fundamental diagrams and spatial–temporal diagrams are analyzed, as well as the complexity of the traffic evolution, the emergence process of wide moving jam. Simulation results show that our new model can reproduce the three traffic phases: free flow, synchronized flow and wide moving jam. In addition, our new model can well describe the complexity of traffic evolution: (1) with initial homogeneous distribution and large densities, the traffic will evolve into multiple steady states, in which the numbers of wide moving jams are not invariable. (2) With initial homogeneous distribution and the middle range of density, the wide moving jam will emerge stochastically. (3) With initial mega-jam distribution and the density close to a point with the low value, the initial mega-jam will disappear stochastically. (4) For the cases with multiple wide moving jams, the process is analyzed involving the generation of narrow moving jam due to “pinch effect”, which leads to wide moving jam emergence.     

Cellular automaton model within the fundamental-diagram approach reproducing some findings of the three-phase theory

We propose a simple cellular automaton for traffic flow within the fundamental diagram, which could reproduce aspects of the three-phase theory. This so-called average space gap model (ASGM) is based on the Nagel–Schreckenberg model with additional slow-to-start and anticipation rules. The anticipation rule takes into account the average space gap of multiple leading vehicles and conveys to the model its three-phase property. Due to the anticipation rule, ASGM can show the transition from free flow to synchronized flow. Due to the slow-to-start rule, ASGM can show the spontaneous wide moving jam emerges in the synchronized flow. Simulations are carried out for periodic and open boundary conditions. Under periodic boundary condition, the fundamental diagram, and the properties of synchronized flow are studied. Under open boundary condition, different congested patterns induced by an on-ramp are analyzed. We found that the ASGM produces the same spatiotemporal dynamics as many of the more complex three-phase models. Due to its simplicity and its close relation to conventional slow-to-start models, this model can shed light on the relation between ‘two-phase’ and three-phase models.     

Game of life on phyllosilicates: Gliders,oscillators and still life

A phyllosilicate is a sheet of silicate tetrahedra bound by basal oxygens. A phyllosilicate automaton is a regular network of finite state machines — silicon nodes and oxygen nodes — which mimics structure of the phyllosilicate. A node takes states 0 and 1. Each node updates its state in discrete time depending on a sum of states of its three (silicon) or six (oxygen) neighbours. Phyllosilicate automata exhibit localisations attributed to Conway?s Game of Life: gliders, oscillators, still lifes, and a glider gun. Configurations and behaviour of typical localisations, and interactions between the localisations are illustrated.     

Cellular automaton model in the fundamental diagram approach reproducing the synchronized outflow of wide moving jams

Velocity effect and critical velocity are incorporated into the average space gap cellular automaton model [J.F. Tian, et al., Phys. A 391 (2012) 3129], which was able to reproduce many spatiotemporal dynamics reported by the three-phase theory except the synchronized outflow of wide moving jams. The physics of traffic breakdown has been explained. Various congested patterns induced by the on-ramp are reproduced. It is shown that the occurrence of synchronized outflow, free outflow of wide moving jams is closely related with drivers time delay in acceleration at the downstream jam front and the critical velocity, respectively.     

Modelling the morphology of migrating bacterial colonies

We present a model which aims at describing the morphology of colonies of Proteus mirabilis and Bacillus subtilis. Our model is based on a cellular automaton which is obtained by the adequate discretisation of a diffusion-like equation, describing the migration of the bacteria, to which we have added rules simulating the consolidation process. Our basic assumption, following the findings of the group of Chuo University, is that the migration and consolidation processes are controlled by the local density of the bacteria. We show that it is possible within our model to reproduce the morphological diagrams of both bacteria species. Moreover, we model some detailed experiments done by the Chuo University group, obtaining a fine agreement.     

The effect of migration on the spatial structure of intraguild predation in metapopulations

We consider the effects of migration on intraguild predation (IGP) via lattice models and pair approximation. The following results can be found: there exists asymmetry between two consumers’ migration effects on the spatial structure of IGP; migration of each consumer reduces its own clumping degree; the spatial structure is influenced by the ecological neighborhood.     

The finite-size scaling study of the specific heat and the Binder parameter for the six-dimensional Ising model

The six-dimensional Ising model with nearest-neighbor pair interactions is simulated on the Creutz cellular automaton by using the finite-size lattices with the linear dimensions L=4,6,8,10. The temperature variations and the finite-size scaling plots of the specific heat and Binder parameter verify the theoretically predicted expression near the infinite lattice critical temperature. The approximate values for the critical temperature of the infinite lattice T_C=10.838(1), T_C=10.836(20) and T_C=10.835(1) are obtained from the intersection points of specific heat curves, Binder parameter curves and the straight line fit of specific heat maxima, respectively. These results are in agreement with the more precise value of T_C=10.835(5). The value obtained for the critical exponent of the specific heat, i.e., =0.012(2) is also in agreement with =0 predicted by the theory.     

Dynamics of the HIV infection under antiretroviral therapy: A cellular automata approach

The dynamics of human immunodeficiency virus infection under antiretroviral therapy is investigated using a cellular automata model where the effectiveness of each drug is self-adjusted by the concentration of CD4⁺  T infected cells present at each time step. The effectiveness of the drugs and the infected cell concentration at the beginning of treatment are the control parameters of the cell population’s dynamics during therapy. The model allows describing processes of mono and combined therapies. The dynamics that emerges from this model when considering combined antiretroviral therapies reproduces with fair qualitative agreement the phases and different time scales of the process. As observed in clinical data, the results reproduce the significant decrease in the population of infected cells and a concomitant increase of the population of healthy cells in a short timescale (weeks) after the initiation of treatment. Over long time scales, early treatment with potent drugs may lead to undetectable levels of infection. For late treatment or treatments starting with a low density of CD4⁺  T healthy cells it was observed that the treatment may lead to a steady state in which the T cell counts are above the threshold associated with the onset of AIDS. The results obtained are validated through comparison to available clinical trial data.     

Two-dimensional wave patterns of spreading depolarization: Retracting, re-entrant, and stationary waves

We present spatio-temporal characteristics of spreading depolarizations (SD) in two experimental systems: retracting SD wave segments observed with intrinsic optical signals in chicken retina, and spontaneously occurring re-entrant SD waves that repeatedly spread across gyrencephalic feline cortex observed by laser speckle flowmetry. A mathematical framework of reaction-diffusion systems with augmented transmission capabilities is developed to explain the emergence and transitions between these patterns. Our prediction is that the observed patterns are reaction-diffusion patterns controlled and modulated by weak nonlocal coupling such as long-range, time-delayed, and global coupling. The described spatio-temporal characteristics of SD are of important clinical relevance under conditions of migraine and stroke. In stroke, the emergence of re-entrant SD waves is believed to worsen outcome. In migraine, retracting SD wave segments cause neurological symptoms and transitions to stationary SD wave patterns may cause persistent symptoms without evidence from noninvasive imaging of infarction.     

Pattern formation in the thiourea-iodate-sulfite system: Spatial bistability, waves, and stationary patterns

We present a detailed study of the reaction-diffusion patterns observed in the thiourea-iodate-sulfite (TuIS) reaction, operated in open one-side-fed reactors. Besides spatial bistability and spatio-temporal oscillatory dynamics, this proton autoactivated reaction shows stationary patterns, as a result of two back-to-back Turing bifurcations, in the presence of a low-mobility proton binding agent (sodium polyacrylate). This is the third aqueous solution system to produce stationary patterns and the second to do this through a Turing bifurcation. The stationary pattern forming capacities of the reaction are explored through a systematic design method, which is applicable to other bistable and oscillatory reactions. The spatio-temporal dynamics of this reaction is compared with that of the previous ferrocyanide-iodate-sulfite mixed Landolt system.     

Emergence and transitions of dynamic patterns of thickness oscillation of the plasmodium of the true slime mold Physarum polycephalum

The emergence and transitions of various spatiotemporal patterns of thickness oscillation were studied in the freshly isolated protoplasm of the Physarum plasmodium. New patterns, such as standing waves, and chaotic and rotating spirals, developed successively before the well-documented synchronous pattern appeared. There was also a spontaneous opposite transition from synchrony to chaotic and rotating spirals. Rotating spiral waves were observed in the large migrating plasmodium, where the vein structures were being destroyed. Thus, the Physarum plasmodium exhibits versatile patterns, which are generally expected in coupled oscillator systems. This paper discusses the physiological roles of spatiotemporal patterns, comparing them with other biological systems.     

If BZ medium did spanning trees these would be the same trees as Physarum built

A sub-excitable Belousov-Zhabotinsky (BZ) medium exhibits self-localized wave-fragments which may travel for relatively long time preserving their shape. Using Oregonator model of the BZ medium we imitate foraging behavior of a true slime mold, Physarum polycephalum, on a nutrient-poor substrate. We show that given erosion post-processing operations the BZ medium can approximate a spanning tree of a planar set and thus is computationally equivalent to Physarum in the domain of proximity graph construction.     

Self-organized patterns and traffic flow in Colonies of organisms: from bacteria and social insects to vertebrates

Flocks of birds and schools of fish are familiar examples of spatial patterns formed by living organisms. In contrast to the patterns on the skins of, say, zebras and giraffes, the patterns of our interest are transient although different patterns change over different timescales. The aesthetic beauty of these patterns has attracted the attention of poets and philosophers for centuries. Scientists from various disciplines, however, are in search of common underlying principles that give rise to the transient patterns in colonies of organisms. Such patterns are observed not only in colonies of organisms as simple as single-cell bacteria, but also in social insects like ants and termites. They are also observed in colonies of vertebrates as complex as birds and fish, and in human societies. In recent years, physicists have utilized the framework of statistical physics to understand these patterns. In this article, we present an overview emphasizing the common trends that rely on theoretical modeling of these systems using the so-called agent-based Lagrangian approach.     

Equilibrium, kinetic and thermodynamic studies on the adsorption of the toxins of Bacillus thuringiensis subsp. kurstaki by clay minerals

The persistence of Bacillus thuringiensis (Bt) toxins in soil is further enhanced through association with soil particles. Such persistence may improve the effectiveness of controlling target pests, but impose a hazard to non-target organisms in soil ecosystems. In this study, the equilibrium adsorption of the Bt toxin by four clay minerals (montmorillonite, kaolinite, goethite, and silicon dioxide) was investigated, and the kinetic and thermodynamic parameters were calculated. The results showed that Bt toxin could be adsorbed easily by minerals, and the adsorption was much easier at low temperature than at high temperature at the initial concentration varying from 0 to 1000 mg L⁻¹. The adsorption fitted well to both Langmuir and Freundlich isotherm models, but the Freundlich equation was more suitable. The pseudo-second-order (PSO) was the best application model to describe the adsorption kinetic. The adsorption process appeared to be controlled by chemical process, and the intra-particle diffusion was not the only rate-controlling step. The negative standard free energy () values of the adsorption indicated that the adsorption of the Bt toxin by the minerals was spontaneous, and the changes of the standard enthalpy () showed that the adsorption of the Bt toxin by montmorillonite was endothermic while the adsorption by the other three minerals was exothermic.     

Quantitative measurement of the deformation of ultra-thin platinum foils during adsorption and reaction of CO and O2

An ultra-thin self-supporting Pt-foil with a thickness of 300 nm and 4 mm diameter has a heat capacity of only 10 μJ/K. Thus, even small amounts of heat deposited within the thin metal foil cause a significant temperature increase. During the adsorption of, for example, CO heat in the order of 30 μJ/ML is released into the metal. If the rim of a Pt(1 1 0) single crystal foil is rigidly mounted on a substrate, a temperature increase of the foil induced by adsorption and reaction of CO and O₂ causes thermo-elastic stress. This will lead to macroscopic deformations of the metal foil. To quantify these deformations an imaging Michelson-interferometer was set up, capable to detect small deflections of the ultra-thin Pt catalyst down to 10-20 nm. Adsorption of CO and O₂ causes a clear mechanical response of the Pt foil. Depending on sample temperature and partial pressures of the reactants fronts and pulses of deformation were found. The system can be calibrated by using continuous and chopped laser light. The optical properties of the catalytic surface change in the presence of adsorbates. This complicates the analysis, but can be avoided in an improved setup.     

Spatio-temporal patterns in the thermoconvection of a planar nematic layer: II. Experiments

We study experimentally the evolution of thermoconvection in a laterally extended planar nematic layer, at zero or weak stabilizing magnetic field. As the applied thermal gradient is increased, a cascade of symmetry breakings occurs, towards structures of increasing spatial complexity, and ultimately towards oscillating states. The patterns are characterized optically, and simple models for the distortion of the vertical (out of plane) component of the director field are proposed. Received: 1st December 1997 / Revised: 25 May 1998 / Accepted: 2 June 1998     

Spatial and temporal feedback control of traveling wave solutions of the two-dimensional complex Ginzburg-Landau equation

Previous work has shown that Benjamin-Feir unstable traveling waves of the complex Ginzburg-Landau equation (CGLE) in two spatial dimensions cannot be stabilized using a particular time-delayed feedback control mechanism known as ‘time-delay autosynchronization’. In this paper, we show that the addition of similar spatial feedback terms can be used to stabilize such waves. This type of feedback is a generalization of the time-delay method of Pyragas [K. Pyragas, Continuous control of chaos by self-controlling feedback, Phys. Lett. A 170 (1992) 421-428] and has been previously used to stabilize waves in the one-dimensional CGLE by Montgomery and Silber [K. Montgomery, M. Silber, Feedback control of traveling wave solutions of the complex Ginzburg Landau equation, Nonlinearity 17 (6) (2004) 2225-2248]. We consider two cases in which the feedback contains either one or two spatial terms. We focus on how the spatial terms may be chosen to select the direction of travel of the plane waves. Numerical linear stability calculations demonstrate the results of our analysis.     

The simulation study for the nanometer-scale selective growth of Si islands on Si(0 0 1) windows in ultrathin SiO2 films

The nanometer-scale selective growth of Si islands on Si(0 0 1) windows in ultrathin SiO₂ films are studied using the kinetic Monte Carlo simulation. The growth of Si islands is reproduced in simulation where we assume that the migration barrier energy for Si adatom on SiO₂ film is far lower than that on the Si surface at the window.