A Modified Sensitive Driving Cellular Automaton Model
Institute of Scientific and Technical Information of China (English)
GE Hong-Xia; DAI Shi-Qiang; DONG Li-Yun; LEI Li
2005-01-01
A modified cellular automaton model for traffic flow on highway is proposed with a novel concept about the variable security gap. The concept is first introduced into the original Nagel-Schreckenberg model, which is called the non-sensitive driving cellular automaton model. And then it is incorporated with a sensitive driving NaSch model,in which the randomization brake is arranged before the deterministic deceleration. A parameter related to the variable security gap is determined through simulation. Comparison of the simulation results indicates that the variable security gap has different influence on the two models. The fundamental diagram obtained by simulation with the modified sensitive driving NaSch model shows that the maximumflow are in good agreement with the observed data, indicating that the presented model is more reasonable and realistic.
A cellular automaton evacuation model based on mobile robot's behaviors
Institute of Scientific and Technical Information of China (English)
WENG WenGuo; YUAN HongYong; FAN WeiCheng
2007-01-01
The research of evacuation in some emergencies, e.g. fire, is of great benefit to reducing the injuries of persons. In this paper, a cellular automaton evacuation model based on mobile robot's behaviors is presented. Each person is treated as an intelligent mobile robot, and motor schemas, including move-to-goal, avoid-obstacle, swirl-obstacle and nervous-motion, drive persons to interact with their environment. The motor schemas are combined with cellular automaton theory, and an evacuation model is built. Evacuation simulation of persons with different move velocities shows that the presented model can predict accurately the evacuation phenomena in some emergencies.
A Modified Cellular Automaton Model for Traffic Flow
Institute of Scientific and Technical Information of China (English)
葛红霞; 董力耘; 雷丽; 戴世强
2004-01-01
A modified cellular automaton model for traffic flow was proposed. A novel concept about the changeable security gap was introduced and a parameter related to the variable security gap was determined. The fundamental diagram obtained by simulation shows that the maximum flow more approaches to the observed data than that of the NaSch model, indicating that the presented model is more reasonable and realistic.
Fire Spread Model for Old Towns Based on Cellular Automaton
Institute of Scientific and Technical Information of China (English)
GAO Nan; WENG Wenguo; MA Wei; NI Shunjiang; HUANG Quanyi; YUAN Hongyong
2008-01-01
Old towns like Lijiang have enormous historic,artistic,and architectural value.The buildings in such old towns are usually made of highly combustible materials,such as wood and grass.If a fire breaks out,it will spread to multiple buildings,so fire spreading and controlling in old towns need to be studied.This paper presents a fire spread model for old towns based on cellular automaton.The cellular automaton rules were set according to historical fire data in empirical formulas.The model also considered the effects of climate.The simulation results were visualized in a geography information system.An example of a fire spread in Lijiang was investigated with the results showing that this model provides a realistic tool for predicting fire spread in old towns.Fire brigades can use this tool to predict when and how a fire spreads to minimize the losses.
Mathematical model for flood routing based on cellular automaton
Directory of Open Access Journals (Sweden)
Xin CAI
2014-04-01
Full Text Available Increasing frequency and severity of flooding have caused tremendous damage in China, requiring more essential countermeasures to alleviate the damage. In this study, the dynamic simulation property of a cellular automaton was used to make further progress in flood routing. In consideration of terrain’s influence on flood routing, we regarded the terrain elevation as an auxiliary attribute of a two-dimensional cellular automaton in path selection for flood routing and developed a mathematical model based on a cellular automaton. A numerical case of propagation of an outburst flood in an area of the lower Yangtze River was analyzed with both the fixed-step and variable-step models. The results show that the flood does not spread simultaneously in all directions, but flows into the lower place first, and that the submerged area grows quickly at the beginning, but slowly later on. The final submerged areas obtained from the two different models are consistent, and the flood volume balance test shows that the flood volume meets the requirement of the total volume balance. The analysis of the case shows that the proposed model can be a valuable tool for flood routing.
A New Cellular Automaton Model for Traffic Flow
Institute of Scientific and Technical Information of China (English)
YongtaoHU
1999-01-01
Establishment of effective traffic models to reveal fundamental traffic characteristics is an essential requirement in the design,planning and operation of transportation systems .In 1992 Nagel and Schreckenberg presented a cellular automaton model describing traffic flow of N cars on a single lane and applied it in the famous project TRANSIMS on transportation simulation.In this paper,the author proposes a new model for the same problem and gives a comparison of simulation results with the former ones.The comparison shows that the new model works better under the condition of high traffic density.
A Realistic Cellular Automaton Model for Synchronized Traffic Flow
Institute of Scientific and Technical Information of China (English)
ZHAO Bo-Han; HU Mao-Bin; JIANG Rui; WU Qing-Song
2009-01-01
A cellular automaton model is proposed to consider the anticipation effect in drivers' behavior. It is shown that the anticipation effect can be one of the origins of synchronized traffic flow. With anticipation effect, the congested traffic flow simulated by the model exhibits the features of synchronized flow. The spatiotemporal patterns induced by an on-ramp are also consistent with the three-phaee traffic theory. Since the origin of synchronized flow is still controversial, our work can shed some light on the mechanism of synchronized flow.
A cellular automaton model for a bridge traffic bottleneck
Institute of Scientific and Technical Information of China (English)
Shifa Xiao; Lingjiang Kong; Muren Liu
2005-01-01
A cellular automaton (CA) model is proposed in this paper to analyze a bridge traffic bottleneck. The simulation results with this model show that there are several phase transitions in the traffic average density, velocity and flow for each lane under a periodic boundary condition. An unstable phase in the traffic average density and velocity for the upstream and downstream lanes of the bridge is shown in a range of initial traffic densities. The critical points of the phase transitions and the phenomenon of the unstable phase found in the simulation are also explained with the mean-field theory.
Infinity computations in cellular automaton forest-fire model
Iudin, D. I.; Sergeyev, Ya. D.; Hayakawa, M.
2015-03-01
Recently a number of traditional models related to the percolation theory has been considered by means of a new computational methodology that does not use Cantor's ideas and describes infinite and infinitesimal numbers in accordance with the principle 'The whole is greater than the part' (Euclid's Common Notion 5). Here we apply the new arithmetic to a cellular automaton forest-fire model which is connected with the percolation methodology and in some sense combines the dynamic and the static percolation problems and under certain conditions exhibits critical fluctuations. It is well known that there exist two versions of the model: real forest-fire model where fire catches adjacent trees in the forest in the step by step manner and simplified version with instantaneous combustion. Using new approach we observe that in both situations we deal with the same model but with different time resolution. We show that depending on the "microscope" we use the same cellular automaton forest-fire model reveals either instantaneous forest combustion or step by step firing. By means of the new approach it was also observed that as far as we choose an infinitesimal tree growing rate and infinitesimal ratio between the ignition probability and the growth probability we determine the measure or extent of the system size infinity that provides the criticality of the system dynamics. Correspondent inequalities for grosspowers are derived.
Motor Schema-Based Cellular Automaton Model for Pedestrian Dynamics
Weng, Wenguo; Hasemi, Yuji; Fan, Weicheng
A new cellular automaton model for pedestrian dynamics based on motor schema is presented. Each pedestrian is treated as an intelligent mobile robot, and motor schemas including move-to-goal, avoid-away and avoid-around drive pedestrians to interact with their environment. We investigate the phenomenon of many pedestrians with different move velocities escaping from a room. The results show that the pedestrian with high velocity have predominance in competitive evacuation, if we only consider repulsion from or avoiding around other pedestrians, and interaction with each other leads to disordered evacuation, i.e., decreased evacuation efficiency. Extensions of the model using learning algorithms for controlling pedestrians, i.e., reinforcement learning, neural network and genetic algorithms, etc. are noted.
Cellular automaton model considering headway-distance effect
Institute of Scientific and Technical Information of China (English)
Hu Shou-Xin; Gao Kun; Wang Bing-Hong; Lu Yu-Feng
2008-01-01
This paper presents a cellular automaton model for single-lane traffic flow.On the basis of the Nagel-Schreckenberg (NS) model,it further considers the effect of headway-distance between two successive cars on the randomization of the latter one.In numerical simulations,this model shows the following characteristics.(1) With a simple structure,this model succeeds in reproducing the hysteresis effect,which is absent in the NS model.(2) Compared with the slow-tostart models,this model exhibits a local fundamental diagram which is more consistent to empirical observations.(3)This model has much higher efficiency in dissolving congestions compared with the so-called NS model with velocitydependent randomization (VDR model).(4) This model is more robust when facing traffic obstructions.It can resist much longer shock times and has much shorter relaxation times on the other hand.To summarize,compared with the existing models,this model is quite simple in structure,but has good characteristics.
Cellular automaton model of mass transport with chemical reactions
International Nuclear Information System (INIS)
The transport and chemical reactions of solutes are modelled as a cellular automaton in which molecules of different species perform a random walk on a regular lattice and react according to a local probabilistic rule. The model describes advection and diffusion in a simple way, and as no restriction is placed on the number of particles at a lattice site, it is also able to describe a wide variety of chemical reactions. Assuming molecular chaos and a smooth density function, we obtain the standard reaction-transport equations in the continuum limit. Simulations on one-and two-dimensional lattices show that the discrete model can be used to approximate the solutions of the continuum equations. We discuss discrepancies which arise from correlations between molecules and how these discrepancies disappear as the continuum limit is approached. Of particular interest are simulations displaying long-time behaviour which depends on long-wavelength statistical fluctuations not accounted for by the standard equations. The model is applied to the reactions a + b ↔ c and a + b → c with homogeneous and inhomogeneous initial conditions as well as to systems subject to autocatalytic reactions and displaying spontaneous formation of spatial concentration patterns. (author) 9 figs., 34 refs
Cellular automaton for chimera states
García-Morales, Vladimir
2016-01-01
A minimalistic model for chimera states is presented. The model is a cellular automaton (CA) which depends on only one adjustable parameter, the range of the nonlocal coupling, and is built from elementary cellular automata and the majority (voting) rule. This suggests the universality of chimera-like behavior from a new point of view: Already simple CA rules based on the majority rule exhibit this behavior. After a short transient, we find chimera states for arbitrary initial conditions, the...
Cellular automaton for chimera states
García-Morales, Vladimir
2016-04-01
A minimalistic model for chimera states is presented. The model is a cellular automaton (CA) which depends on only one adjustable parameter, the range of the nonlocal coupling, and is built from elementary cellular automata and the majority (voting) rule. This suggests the universality of chimera-like behavior from a new point of view: Already simple CA rules based on the majority rule exhibit this behavior. After a short transient, we find chimera states for arbitrary initial conditions, the system spontaneously splitting into stable domains separated by static boundaries, some synchronously oscillating and the others incoherent. When the coupling range is local, nontrivial coherent structures with different periodicities are formed.
Institute of Scientific and Technical Information of China (English)
ZHANG Lin; ZHANG Cai-bei
2006-01-01
Two-dimensional cellular automaton(CA) simulations of phase transformations of binary alloys during solidification were reported. The modelling incorporates local concentration and heat changes into a nucleation or growth function, which is utilized by the automaton in a probabilistic fashion. These simulations may provide an efficient method of discovering how the physical processes involved in solidification processes dynamically progress and how they interact with each other during solidification. The simulated results show that the final morphology during solidification is related with the cooling conditions. The established model can be used to evaluate the phase transformation of binary alloys during solidification.
Cellular Automaton Model for Immunology of Tumor Growth
Voitikova, M
1998-01-01
The stochastic discrete space-time model of an immune response on tumor spreading in a two-dimensional square lattice has been developed. The immunity-tumor interactions are described at the cellular level and then transferred into the setting of cellular automata (CA). The multistate CA model for system, in which all statesoflattice sites, composing of both immune and tumor cells populations, are the functions of the states of the 12 nearest neighbors. The CA model incorporates the essential featuresof the immunity-tumor system. Three regimes of neoplastic evolution including metastatic tumor growth and screen effect by inactive immune cells surrounding a tumor have been predicted.
A Modified Cellular Automaton Approach for Mixed Bicycle Traffic Flow Modeling
Xiaonian Shan; Zhibin Li; Xiaohong Chen; Jianhong Ye
2015-01-01
Several previous studies have used the Cellular Automaton (CA) for the modeling of bicycle traffic flow. However, previous CA models have several limitations, resulting in differences between the simulated and the observed traffic flow features. The primary objective of this study is to propose a modified CA model for simulating the characteristics of mixed bicycle traffic flow. Field data were collected on physically separated bicycle path in Shanghai, China, and were used to calibrate the C...
Modeling of solidification grain structure for Ti-45%Al alloy ingot by cellular automaton
Institute of Scientific and Technical Information of China (English)
WU Shi-ping; LIU Dong-rong; GUO Jing-jie; FU Heng-zhi
2005-01-01
A cellular automaton model for simulating grain structure formation during solidification processes of Ti45%Al(mole fraction) alloy ingot was developed, based on finite differential method for macroscopic modeling of heat transfer and a cellular automaton technique for microscopic modeling of nucleation, growth, solute redistribution and solute diffusion. The relation between the growth velocity of a dendrite tip and the local undercooling,which consists of constitutional, thermal, curvature and attachment kinetics undercooling is calculated according to the Kurz-Giovanola-Trivedi model. The effect of solidification contraction is taken into consideration. The influence of process variables upon the resultant grain structures was investigated. Special moving allocation technique was designed to minimize the computation time and memory size associated with a large number of cells. The predicted grain structures are in good agreement with the experimental results.
Modeling Recrystallization of Austenite for C-Mn Steels during Hot Deformation by Cellular Automaton
Institute of Scientific and Technical Information of China (English)
无
2002-01-01
By using a cellular automaton method, microstructure evolution of recrystallization in austenite during hot deformation was simulated for C-Mn steels. A model takes into account the influence of deformation temperature, strain, and strain rate on the dynamic recrystallization fraction, and the effect of the keeping time on the static recrystallization fraction based on a hot deformation test on a Gleeble-1500 simulator. In addition, the size changing of γ grains during continuous hot deformation was simulated by applying the model.
An Extended Cellular Automaton Model for Train Traffic Flow on the Dedicated Passenger Lines
Directory of Open Access Journals (Sweden)
Wenbo Zhao
2014-01-01
Full Text Available As one of the key components for the railway transportation system, the Train Operation Diagram can be greatly influenced by many extrinsic and intrinsic factors. Therefore, the railway train flow has shown the strong nonlinear characteristics, which makes it quite difficult to take further relative studies. Fortunately, the cellular automaton model has its own advantages in solving nonlinear problems and traffic flow simulation. Considering the mixed features of multispeed running trains on the passenger dedicated lines, this paper presents a new train model under the moving block system with different types of trains running with the cellular automaton idea. By analyzing such key factors as the maintenance skylight, the proportion of the multispeed running trains, and the distance between adjacent stations and departure intervals, the corresponding running rules for the cellular automaton model are reestablished herewith. By means of this CA model, the program of train running system is designed to analyze the potential impact on railway carrying capacity by various factors; the model can also be implemented to simulate the actual train running process and to draw the train operation diagram by computers. Basically the theory can be applied to organize the train operation on the dedicated passenger lines.
Modeling dynamics of HIV infected cells using stochastic cellular automaton
Precharattana, Monamorn; Triampo, Wannapong
2014-08-01
Ever since HIV was first diagnosed in human, a great number of scientific works have been undertaken to explore the biological mechanisms involved in the infection and progression of the disease. Several cellular automata (CA) models have been introduced to gain insights into the dynamics of the disease progression but none of them has taken into account effects of certain immune cells such as the dendritic cells (DCs) and the CD8+ T lymphocytes (CD8+ T cells). In this work, we present a CA model, which incorporates effects of the HIV specific immune response focusing on the cell-mediated immunities, and investigate the interaction between the host immune response and the HIV infected cells in the lymph nodes. The aim of our work is to propose a model more realistic than the one in Precharattana et al. (2010) [10], by incorporating roles of the DCs, the CD4+ T cells, and the CD8+ T cells into the model so that it would reproduce the HIV infection dynamics during the primary phase of HIV infection.
Cellular automaton model of crowd evacuation inspired by slime mould
Kalogeiton, V. S.; Papadopoulos, D. P.; Georgilas, I. P.; Sirakoulis, G. Ch.; Adamatzky, A. I.
2015-04-01
In all the living organisms, the self-preservation behaviour is almost universal. Even the most simple of living organisms, like slime mould, is typically under intense selective pressure to evolve a response to ensure their evolution and safety in the best possible way. On the other hand, evacuation of a place can be easily characterized as one of the most stressful situations for the individuals taking part on it. Taking inspiration from the slime mould behaviour, we are introducing a computational bio-inspired model crowd evacuation model. Cellular Automata (CA) were selected as a fully parallel advanced computation tool able to mimic the Physarum's behaviour. In particular, the proposed CA model takes into account while mimicking the Physarum foraging process, the food diffusion, the organism's growth, the creation of tubes for each organism, the selection of optimum tube for each human in correspondence to the crowd evacuation under study and finally, the movement of all humans at each time step towards near exit. To test the model's efficiency and robustness, several simulation scenarios were proposed both in virtual and real-life indoor environments (namely, the first floor of office building B of the Department of Electrical and Computer Engineering of Democritus University of Thrace). The proposed model is further evaluated in a purely quantitative way by comparing the simulation results with the corresponding ones from the bibliography taken by real data. The examined fundamental diagrams of velocity-density and flow-density are found in full agreement with many of the already published corresponding results proving the adequacy, the fitness and the resulting dynamics of the model. Finally, several real Physarum experiments were conducted in an archetype of the aforementioned real-life environment proving at last that the proposed model succeeded in reproducing sufficiently the Physarum's recorded behaviour derived from observation of the aforementioned
Cellular automatons applied to gas dynamic problems
Long, Lyle N.; Coopersmith, Robert M.; Mclachlan, B. G.
1987-01-01
This paper compares the results of a relatively new computational fluid dynamics method, cellular automatons, with experimental data and analytical results. This technique has been shown to qualitatively predict fluidlike behavior; however, there have been few published comparisons with experiment or other theories. Comparisons are made for a one-dimensional supersonic piston problem, Stokes first problem, and the flow past a normal flat plate. These comparisons are used to assess the ability of the method to accurately model fluid dynamic behavior and to point out its limitations. Reasonable results were obtained for all three test cases, but the fundamental limitations of cellular automatons are numerous. It may be misleading, at this time, to say that cellular automatons are a computationally efficient technique. Other methods, based on continuum or kinetic theory, would also be very efficient if as little of the physics were included.
Bit-Vectorized GPU Implementation of a Stochastic Cellular Automaton Model for Surface Growth
Kelling, Jeffrey; Gemming, Sibylle
2016-01-01
Stochastic surface growth models aid in studying properties of universality classes like the Kardar--Paris--Zhang class. High precision results obtained from large scale computational studies can be transferred to many physical systems. Many properties, such as roughening and some two-time functions can be studied using stochastic cellular automaton (SCA) variants of stochastic models. Here we present a highly efficient SCA implementation of a surface growth model capable of simulating billions of lattice sites on a single GPU. We also provide insight into cases requiring arbitrary random probabilities which are not accessible through bit-vectorization.
Institute of Scientific and Technical Information of China (English)
ZHU Ming-fang; CAO Wei-sheng; CHEN Shuang-lin; XIE Fan-you; HONG Chunpyo; CHANG Y. Austin
2006-01-01
A modified cellular automaton (MCA) model has been extended to the ternary alloy system by coupling thermodynamic and phase equilibrium calculation engine PanEngine. In the present model the dendrite growth is driven by the difference between the local equilibrium liquidus temperature and local actual temperature, incorporating the effect of curvature. The local equilibrium liquidus temperature is calculated with PanEngine according to the local liquid concentrations of two solutes, which are determined by numerically solving the species transport equation in the domain. Model validation was carried out through the comparison of the simulated values to the prediction of the Scheil model for solute profiles in the primary dendrites. The simulated data with zero solid diffusivity and limited liquid diffusivity were increasingly close to the Scheil profiles as the solidification rate decreased. The simulated microstructure and microsegregation in an Al-Cu-Mg ternary alloy were compared with those obtained experimentally.
A Cellular Automaton Model for Heterogeneous and Incosistent Driver Behavior in Urban Traffic
Institute of Scientific and Technical Information of China (English)
LIUMing-Zhe; ZHAO Shi-Bo; WANG Rui-Li
2012-01-01
In this paper a cellular automaton model is proposed to describe driver behavior at a single-lane urban roundabout. Driver behavior has been considered as heterogeneous and inconsistent. Most traffic papers in the literature just discussed heterogeneous driver behavior, to our best knowledge. Two truncated Caussian distributions are used to model heterogeneous and inconsistent driver behavior, respectively. The physical meanings of two truncated distributions are indicated. This method may help enhance a better understanding of driver behavior at roundabout traffic, and even possibly provide references for roundabout design and management.
A Cellular Automaton Model for Heterogeneous and Incosistent Driver Behavior in Urban Traffic
Liu, Ming-Zhe; Zhao, Shi-Bo; Wang, Rui-Li
2012-11-01
In this paper a cellular automaton model is proposed to describe driver behavior at a single-lane urban roundabout. Driver behavior has been considered as heterogeneous and inconsistent. Most traffic papers in the literature just discussed heterogeneous driver behavior, to our best knowledge. Two truncated Gaussian distributions are used to model heterogeneous and inconsistent driver behavior, respectively. The physical meanings of two truncated distributions are indicated. This method may help enhance a better understanding of driver behavior at roundabout traffic, and even possibly provide references for roundabout design and management.
Driver’s Awareness and Lane Changing Maneuver in Traffic Flow based on Cellular Automaton Model
Kohei Arai; Steven Ray Sentinuwo
2015-01-01
Effect of driver’s awareness (e.g., to estimate the speed and arrival time of another vehicle) on the lane changing maneuver is discussed. “Scope awareness” is defined as the visibility which is required for the driver to make a visual perception about road condition and the speed of vehicle that appears in the target lane for lane changing in the road. Cellular automaton based simulation model is created and applied to simulation studies for driver awareness behavior. This study clarifies re...
Reprint of Infinity computations in cellular automaton forest-fire model
Iudin, D. I.; Sergeyev, Ya. D.; Hayakawa, M.
2015-04-01
Recently a number of traditional models related to the percolation theory has been considered by means of a new computational methodology that does not use Cantor's ideas and describes infinite and infinitesimal numbers in accordance with the principle 'The whole is greater than the part' (Euclid's Common Notion 5). Here we apply the new arithmetic to a cellular automaton forest-fire model which is connected with the percolation methodology and in some sense combines the dynamic and the static percolation problems and under certain conditions exhibits critical fluctuations. It is well known that there exist two versions of the model: real forest-fire model where fire catches adjacent trees in the forest in the step by step manner and simplified version with instantaneous combustion. Using new approach we observe that in both situations we deal with the same model but with different time resolution. We show that depending on the "microscope" we use the same cellular automaton forest-fire model reveals either instantaneous forest combustion or step by step firing. By means of the new approach it was also observed that as far as we choose an infinitesimal tree growing rate and infinitesimal ratio between the ignition probability and the growth probability we determine the measure or extent of the system size infinity that provides the criticality of the system dynamics. Correspondent inequalities for grosspowers are derived.
Simulation of emotional contagion using modified SIR model: A cellular automaton approach
Fu, Libi; Song, Weiguo; Lv, Wei; Lo, Siuming
2014-07-01
Emotion plays an important role in the decision-making of individuals in some emergency situations. The contagion of emotion may induce either normal or abnormal consolidated crowd behavior. This paper aims to simulate the dynamics of emotional contagion among crowds by modifying the epidemiological SIR model to a cellular automaton approach. This new cellular automaton model, entitled the “CA-SIRS model”, captures the dynamic process ‘susceptible-infected-recovered-susceptible', which is based on SIRS contagion in epidemiological theory. Moreover, in this new model, the process is integrated with individual movement. The simulation results of this model show that multiple waves and dynamical stability around a mean value will appear during emotion spreading. It was found that the proportion of initial infected individuals had little influence on the final stable proportion of infected population in a given system, and that infection frequency increased with an increase in the average crowd density. Our results further suggest that individual movement accelerates the spread speed of emotion and increases the stable proportion of infected population. Furthermore, decreasing the duration of an infection and the probability of reinfection can markedly reduce the number of infected individuals. It is hoped that this study will be helpful in crowd management and evacuation organization.
An implementation of cellular automaton model for single-line train working diagram
Institute of Scientific and Technical Information of China (English)
Hua Wei; Liu Jun
2006-01-01
According to the railway transportation system's characteristics,a new cellular automaton model for the singleline railway system is presented in this paper.Based on this model,several simulations were done to imitate the train operation under three working diagrams.From a different angle the results show how the organization of train operation impacts on the railway carrying capacity.By using the non-parallel train working diagram the influence of fast-train on slow-train is found to be the strongest.Many slow-trains have to wait in-between neighbouring stations to let the fast-train(s) pass through first.So the slow-train will advance like a wave propagating from the departure station to the arrival station.This also resembles the situation of a highway jammed traffic flow.Furthermore,the nonuniformity of travel times between the sections also greatly limits the railway carrying capacity.After converting the nonuniform sections into the sections with uniform travel times while the total travel time is kept unchanged,all three carrying capacities are improved greatly as shown by simulation.It also shows that the cellular automaton model is an effective and feasible way to investigate the railway transDortation system.
A Cellular Automaton Model for Tumor Dormancy: Emergence of a Proliferative Switch
Chen, Duyu; Torquato, Salvatore
2014-01-01
Malignant cancers that lead to fatal outcomes for patients may remain dormant for very long periods of time. Although individual mechanisms such as cellular dormancy, angiogenic dormancy and immunosurveillance have been proposed, a comprehensive understanding of cancer dormancy and the "switch" from a dormant to a proliferative state still needs to be strengthened from both a basic and clinical point of view. Computational modeling enables one to explore a variety of scenarios for possible but realistic microscopic dormancy mechanisms and their predicted outcomes. The aim of this paper is to devise such a predictive computational model of dormancy with an emergent "switch" behavior. Specifically, we generalize a previous cellular automaton (CA) model for proliferative growth of solid tumor that now incorporates a variety of cell-level tumor-host interactions and different mechanisms for tumor dormancy, for example the effects of the immune system. Our new CA rules induce a natural "competition" between the tu...
A traffic flow cellular automaton model to considering drivers' learning and forgetting behaviour
Institute of Scientific and Technical Information of China (English)
Ding Jian-Xun; Huang Hai-Jun; Tian Qiong
2011-01-01
It is known that the commonly used NaSch cellular automaton (CA) model and its modifications can help explain the internal causes of the macro phenomena of traffic flow. However, the randomization probability of vehicle velocity used in these models is assumed to be an exogenous constant or a conditional constant, which cannot reflect the learning and forgetting behaviour of drivers with historical experiences. This paper further modifies the NaSch model by enabling the randomization probability to be adjusted on the bases of drivers' memory. The Markov properties of this modified model are discussed. Analytical and simulation results show that the traffic fundamental diagrams can be indeed improved when considering drivers' intelligent behaviour. Some new features of traffic are revealed by differently combining the model parameters representing learning and forgetting behaviour.
2D cellular automaton model for the evolution of active region coronal plasmas
Fuentes, Marcelo López
2016-01-01
We study a 2D cellular automaton (CA) model for the evolution of coronal loop plasmas. The model is based on the idea that coronal loops are made of elementary magnetic strands that are tangled and stressed by the displacement of their footpoints by photospheric motions. The magnetic stress accumulated between neighbor strands is released in sudden reconnection events or nanoflares that heat the plasma. We combine the CA model with the Enthalpy Based Thermal Evolution of Loops (EBTEL) model to compute the response of the plasma to the heating events. Using the known response of the XRT telescope on board Hinode we also obtain synthetic data. The model obeys easy to understand scaling laws relating the output (nanoflare energy, temperature, density, intensity) to the input parameters (field strength, strand length, critical misalignment angle). The nanoflares have a power-law distribution with a universal slope of -2.5, independent of the input parameters. The repetition frequency of nanoflares, expressed in t...
Steady state speed distribution analysis for a combined cellular automaton traffic model
Institute of Scientific and Technical Information of China (English)
Wang Jun-Feng; Chen Gui-Sheng; Liu Jin
2008-01-01
Cellular Automaton (CA) baaed traffic flow models have been extensively studied due to their effectiveness and simplicity in recent years. This paper develops a discrete time Markov chain (DTMC) analytical framework for a Nagel-Schreckenberg and Fukui-Ishibashi combined CA model (W2H traffic flow model) from microscopic point of view to capture the macroscopic steady state speed distributions. The inter-vehicle spacing Markov chain and the steady state speed Markov chain are proved to be irreducible and ergodie. The theoretical speed probability distributions depending on the traffic density and stochastic delay probability are in good accordance with numerical simulations. The derived fundamental diagram of the average speed from theoretical speed distributions is equivalent to the results in the previous work.
Micro-macroscopic coupling in the cellular automaton model of solidification
Directory of Open Access Journals (Sweden)
Vinicius Bertolazzi Biscuola
2010-12-01
Full Text Available A cellular automaton (CA model to predict the formation of grain macrostructure during solidification has been implemented and the coupling between the microscopic and the macroscopic submodels has been investigated. The microscopic submodel simulates the nucleation and growth of grains, whereas the macroscopic solves the heat conduction equation. The directional solidification of an Al-7 wt. (% Si alloy was simulated, enabling the calculation of the temperature and solid fraction profiles. The calculated temperature was used to obtain the solid fraction profile by an application of Scheil equation. This solid fraction disagrees with that calculated in the micro-macro coupling of the model, although this coupling is completely based on Scheil equation. Careful examination of the discrepancies shows that it is a result of the undercoolings for nucleation and growth of grains and also of the interpolations of enthalpy change and temperature from the finite volume mesh to the CA cell mesh.
An improved cellular automaton model considering the effect of traffic lights and driving behaviour
He, Hong-Di; Lu, Wei-Zhen; Dong, Li-Yun
2011-04-01
This paper proposes an improved cellular automaton model to describe the urban traffic flow with the consideration of traffic light and driving behaviour effects. Based on the model, the characteristics of the urban traffic flow on a single-lane road are investigated under three different control strategies, i.e., the synchronized, the green wave and the random strategies. The fundamental diagrams and time-space patterns of the traffic flows are provided for these strategies respectively. It finds that the dynamical transition to the congested flow appears when the vehicle density is higher than a critical level. The saturated flow is less dependent on the cycle time and the strategies of the traffic light control, while the critical vehicle density varies with the cycle time and the strategies. Simulated results indicate that the green wave strategy is proven to be the most effective one among the above three control strategies.
Driver’s Awareness and Lane Changing Maneuver in Traffic Flow based on Cellular Automaton Model
Directory of Open Access Journals (Sweden)
Kohei Arai
2015-08-01
Full Text Available Effect of driver’s awareness (e.g., to estimate the speed and arrival time of another vehicle on the lane changing maneuver is discussed. “Scope awareness” is defined as the visibility which is required for the driver to make a visual perception about road condition and the speed of vehicle that appears in the target lane for lane changing in the road. Cellular automaton based simulation model is created and applied to simulation studies for driver awareness behavior. This study clarifies relations between the lane changing behavior and the scope awareness parameter that reflects driver behavior. Simulation results show that the proposed model is valid for investigation of the important features of lane changing maneuver.
An improved cellular automaton model considering the effect of traffic lights and driving behaviour
Institute of Scientific and Technical Information of China (English)
He Hong-Di; Lu Wei-Zhen; Dong Li-Yun
2011-01-01
This paper proposes an improved cellular automaton model to describe the urban traffic flow with the consideration of traffic light and driving behaviour effects. Based on the model, the characteristics of the urban traffic flow on a singlelane road are investigated under three different control strategies, i.e., the synchronized, the green wave and the random strategies. The fundamental diagrams and time-space patterns of the traffic flows are provided for these strategies respectively. It finds that the dynamical transition to the congested flow appears when the vehicle density is higher than a critical level. The saturated flow is less dependent on the cycle time and the strategies of the traffic light control,while the critical vehicle density varies with the cycle time and the strategies. Simulated results indicate that the green wave strategy is proven to be the most effective one among the above three control strategies.
Jiao, Yang
2011-01-01
Understanding tumor invasion and metastasis is of crucial importance for both fundamental cancer research and clinical practice. In vitro experiments have established that the invasive growth of malignant tumors is characterized by the dendritic invasive branches composed of chains of tumor cells emanating from the primary tumor mass. The preponderance of previous tumor simulations focused on non-invasive (or proliferative) growth. The formation of the invasive cell chains and their interactions with the primary tumor mass and host microenvironment are not well understood. Here, we present a novel cellular automaton (CA) model that enables one to efficiently simulate invasive tumor growth in a heterogeneous host microenvironment. By taking into account a variety of microscopic-scale tumor-host interactions, including the short-range mechanical interactions between tumor cells and tumor stroma, degradation of extracellular matrix by the invasive cells and oxygen/nutrient gradient driven cell motions, our CA mo...
Modeling of aluminum-silicon irregular eutectic growth by cellular automaton model
Directory of Open Access Journals (Sweden)
Rui Chen
2016-03-01
Full Text Available Due to the extensive application of Al-Si alloys in the automotive and aerospace industries as structural components, an understanding of their microstructural formation, such as dendrite and (Al+Si eutectic, is of great importance to control the desirable microstructure, so as to modify the performance of castings. Since previous major themes of microstructural simulation are dendrite and regular eutectic growth, few efforts have been paid to simulate the irregular eutectic growth. Therefore, a multiphase cellular automaton (CA model is developed and applied to simulate the time-dependent Al-Si irregular eutectic growth. Prior to model establishment, related experiments were carried out to investigate the influence of cooling rate and Sr modification on the growth of eutectic Si. This CA model incorporates several aspects, including growth algorithms and nucleation criterion, to achieve the competitive and cooperative growth mechanism for nonfaceted-faceted Al-Si irregular eutectic. The growth kinetics considers thermal undercooling, constitutional undercooling, and curvature undercooling, as well as the anisotropic characteristic of eutectic Si growth. The capturing rule takes into account the effects of modification on the silicon growth behaviors. The simulated results indicate that for unmodified alloy, the higher eutectic undercooling results in the higher eutectic growth velocity, and a more refined eutectic microstructure as well as narrower eutectic lamellar spacing. For modified alloy, the eutectic silicon tends to be obvious fibrous morphology and the morphology of eutectic Si is determined by both chemical modifier and cooling rate. The predicted microstructure of Al-7Si alloy under different solidification conditions shows that this proposed model can successfully reproduce both dendrite and eutectic microstructures.
A self-modifying cellular automaton model of historical urbanization in the San Francisco Bay area
Clarke, K.C.; Hoppen, S.; Gaydos, L.
1997-01-01
In this paper we describe a cellular automaton (CA) simulation model developed to predict urban growth as part of a project for estimating the regional and broader impact of urbanization on the San Francisco Bay area's climate. The rules of the model are more complex than those of a typical CA and involve the use of multiple data sources, including topography, road networks, and existing settlement distributions, and their modification over time. In addition, the control parameters of the model are allowed to self-modify: that is, the CA adapts itself to the circumstances it generates, in particular, during periods of rapid growth or stagnation. In addition, the model was written to allow the accumulation of probabilistic estimates based on Monte Carlo methods. Calibration of the model has been accomplished by the use of historical maps to compare model predictions of urbanization, based solely upon the distribution in year 1900, with observed data for years 1940, 1954, 1962, 1974, and 1990. The complexity of this model has made calibration a particularly demanding step. Lessons learned about the methods, measures, and strategies developed to calibrate the model may be of use in other environmental modeling contexts. With the calibration complete, the model is being used to generate a set of future scenarios for the San Francisco Bay area along with their probabilities based on the Monte Carlo version of the model. Animated dynamic mapping of the simulations will be used to allow visualization of the impact of future urban growth.
Transition between immune and disease states in a cellular automaton model of clonal immune response
Bezzi, M; Ruffo, S; Seiden, P E; Bezzi, Michele; Celada, Franco; Ruffo, Stefano; Seiden, Philip E.
1997-01-01
In this paper we extend the Celada-Seiden (CS) model of the humoral immune response to include infectious virus and cytotoxic T lymphocytes (cellular response). The response of the system to virus involves a competition between the ability of the virus to kill the host cells and the host's ability to eliminate the virus. We find two basins of attraction in the dynamics of this system, one is identified with disease and the other with the immune state. There is also an oscillating state that exists on the border of these two stable states. Fluctuations in the population of virus or antibody can end the oscillation and drive the system into one of the stable states. The introduction of mechanisms of cross-regulation between the two responses can bias the system towards one of them. We also study a mean field model, based on coupled maps, to investigate virus-like infections. This simple model reproduces the attractors for average populations observed in the cellular automaton. All the dynamical behavior connect...
Institute of Scientific and Technical Information of China (English)
2012-01-01
A cellular automaton （CA）-finite element （FE） model and a phase field （PF）-FE model were used to simulate equiaxed dendritic growth during the solidification of hexagonal metals. In the CA-FE model, the conservation equations of mass and energy were solved in order to calculate the temperature field, solute concentration, and the dendritic growth morphology. CA-FE simulation results showed reasonable agreement with the previously reported experimental data on secondary dendrite arm spacing （SDAS） vs cooling rate. In the PF model, a PF variable was used to distinguish solid and liquid phases similar to the conventional PF models for solidification of pure materials. Another PF variable was considered to determine the evolution of solute concentration. Validation of both models was performed by comparing the simulation results with the analytical model developed by Lipton-Glicksman-Kurz （LGK）, showing quantitatively good agreement in the tip growth velocity at a given melt undercooling. Application to magnesium alloy AZ91 （approximated with the binary Mg-8.9 wt% AI） illustrates the difficulty of modeling dendrite growth in hexagonal systems using CA-FE regarding mesh-induced anisotropy and a better performance of PF-FE in modeling multiple arbitrarily-oriented dendrites growth.
Akbari, Mostafa; Asadi, Parviz; Besharati Givi, MohammadKazem; Zolghadr, Parisa
2016-03-01
To predict the grain size and microstructure evolution during friction stir welding (FSW) of AZ91 magnesium alloy, a finite element model (FEM) is developed based on the combination of a cellular automaton model and the Kocks - Mecking and Laasraoui-Jonas models. First, according to the flow stress curves and using the Kocks - Mecking model, the hardening and recovery parameters and the strain rate sensitivity were calculated. Next, an FEM model was established in Deform-3D software to simulate the FSW of AZ91 magnesium alloy. The results of the FEM model are used in microstructure evolution models to predict the grain size and microstructure of the weld zone. There is a good agreement between the simulated and experimental microstructures, and the proposed model can simulate the dynamic recrystallization (DRX) process during FSW of AZ91 alloy. Moreover, microstructural properties of different points in the SZ as well as the effect of the w/v parameter on the grain size and microstructure are considered.
A Modified Cellular Automaton Approach for Mixed Bicycle Traffic Flow Modeling
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Xiaonian Shan
2015-01-01
Full Text Available Several previous studies have used the Cellular Automaton (CA for the modeling of bicycle traffic flow. However, previous CA models have several limitations, resulting in differences between the simulated and the observed traffic flow features. The primary objective of this study is to propose a modified CA model for simulating the characteristics of mixed bicycle traffic flow. Field data were collected on physically separated bicycle path in Shanghai, China, and were used to calibrate the CA model using the genetic algorithm. Traffic flow features between simulations of several CA models and field observations were compared. The results showed that our modified CA model produced more accurate simulation for the fundamental diagram and the passing events in mixed bicycle traffic flow. Based on our model, the bicycle traffic flow features, including the fundamental diagram, the number of passing events, and the number of lane changes, were analyzed. We also analyzed the traffic flow features with different traffic densities, traffic components on different travel lanes. Results of the study can provide important information for understanding and simulating the operations of mixed bicycle traffic flow.
Large-scale parallel lattice Boltzmann-cellular automaton model of two-dimensional dendritic growth
Jelinek, Bohumir; Eshraghi, Mohsen; Felicelli, Sergio; Peters, John F.
2014-03-01
An extremely scalable lattice Boltzmann (LB)-cellular automaton (CA) model for simulations of two-dimensional (2D) dendritic solidification under forced convection is presented. The model incorporates effects of phase change, solute diffusion, melt convection, and heat transport. The LB model represents the diffusion, convection, and heat transfer phenomena. The dendrite growth is driven by a difference between actual and equilibrium liquid composition at the solid-liquid interface. The CA technique is deployed to track the new interface cells. The computer program was parallelized using the Message Passing Interface (MPI) technique. Parallel scaling of the algorithm was studied and major scalability bottlenecks were identified. Efficiency loss attributable to the high memory bandwidth requirement of the algorithm was observed when using multiple cores per processor. Parallel writing of the output variables of interest was implemented in the binary Hierarchical Data Format 5 (HDF5) to improve the output performance, and to simplify visualization. Calculations were carried out in single precision arithmetic without significant loss in accuracy, resulting in 50% reduction of memory and computational time requirements. The presented solidification model shows a very good scalability up to centimeter size domains, including more than ten million of dendrites. Catalogue identifier: AEQZ_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEQZ_v1_0.html Program obtainable from: CPC Program Library, Queen’s University, Belfast, UK Licensing provisions: Standard CPC license, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 29,767 No. of bytes in distributed program, including test data, etc.: 3131,367 Distribution format: tar.gz Programming language: Fortran 90. Computer: Linux PC and clusters. Operating system: Linux. Has the code been vectorized or parallelized?: Yes. Program is parallelized using MPI
CellLab-CTS 2015: continuous-time stochastic cellular automaton modeling using Landlab
Tucker, Gregory E.; Hobley, Daniel E. J.; Hutton, Eric; Gasparini, Nicole M.; Istanbulluoglu, Erkan; Adams, Jordan M.; Siddartha Nudurupati, Sai
2016-02-01
CellLab-CTS 2015 is a Python-language software library for creating two-dimensional, continuous-time stochastic (CTS) cellular automaton models. The model domain consists of a set of grid nodes, with each node assigned an integer state code that represents its condition or composition. Adjacent pairs of nodes may undergo transitions to different states, according to a user-defined average transition rate. A model is created by writing a Python code that defines the possible states, the transitions, and the rates of those transitions. The code instantiates, initializes, and runs one of four object classes that represent different types of CTS models. CellLab-CTS provides the option of using either square or hexagonal grid cells. The software provides the ability to treat particular grid-node states as moving particles, and to track their position over time. Grid nodes may also be assigned user-defined properties, which the user can update after each transition through the use of a callback function. As a component of the Landlab modeling framework, CellLab-CTS models take advantage of a suite of Landlab's tools and capabilities, such as support for standardized input and output.
A nanoflare based cellular automaton model and the observed properties of the coronal plasma
Fuentes, Marcelo López
2016-01-01
We use the cellular automaton model described in L\\'opez Fuentes \\& Klimchuk (2015, ApJ, 799, 128) to study the evolution of coronal loop plasmas. The model, based on the idea of a critical misalignment angle in tangled magnetic fields, produces nanoflares of varying frequency with respect to the plasma cooling time. We compare the results of the model with active region (AR) observations obtained with the Hinode/XRT and SDO/AIA instruments. The comparison is based on the statistical properties of synthetic and observed loop lightcurves. Our results show that the model reproduces the main observational characteristics of the evolution of the plasma in AR coronal loops. The typical intensity fluctuations have an amplitude of 10 to 15\\% both for the model and the observations. The sign of the skewness of the intensity distributions indicates the presence of cooling plasma in the loops. We also study the emission measure (EM) distribution predicted by the model and obtain slopes in log(EM) versus log(T) betw...
Yao Xiao; Jing Shi
2015-01-01
This paper aimed to analyze the influence of drivers’ behavior of phone use while driving on traffic flow, including both traffic efficiency and traffic safety. An improved cellular automaton model was proposed to simulate traffic flow with distracted drivers based on the Nagel-Schreckenberg model. The driving characters of drivers using a phone were first discussed and a value representing the probability to use a phone while driving was put into the CA model. Simulation results showed that ...
ONE-DIMENSIONAL CELLULAR AUTOMATON MODEL OF TRAFFIC FLOW BASED ON CAR-FOLLOWING IDEA
Institute of Scientific and Technical Information of China (English)
董力耘; 薛郁; 戴世强
2002-01-01
An improved one-dimensional CA (Cellular Automaton) traffic model was proposed to describe the highway traffic under the periodic boundary conditions. This model was based on the idea of the car-following model, which claims that the motion of a vehicle at one time step depends on both its headway and the synchronous motion of the front vehicle,thus including indirectly the influence of its sub-neighboring vehicle. In addition, the socalled safety distance was introduced to consider the deceleration behavior of vehicles and the stochastic factor was taken into account by introducing the deceleration probability.Meanwhile, the conditional deceleration in the model gives a better description of the phenomena observed on highways. It is found that there exists the metastability and hysteresis effect of traffic flow in the neighborhood of critical density under different initial conditions.Since this model gives a reasonable depiction of the motion of a single vehicle, it is easy to be extended to the case of traffic flow under the control of traffic lights in cities.
Ito equations out of domino cellular automaton with efficiency parameters
Czechowski, Zbigniew
2011-01-01
Ito equations are derived for simple stochastic cellular automaton with parameters and compared with results obtained from the histogram method. Good agreement for various parameters supports wide applicability of the Ito equation as a macroscopic model.
Institute of Scientific and Technical Information of China (English)
LI Jun-chao; XIE Zhi-yuan; LI Song-pu; ZANG Yan-yan
2016-01-01
The dynamic recrystallization (DRX) process of hot compressed aluminium alloy 7050 was predicted using cellular automaton (CA) combined with topology deformation. The hot deformatation characteristics of aluminium alloy 7050 were investigated by hot uniaxial compression tests in order to obtain the material parameters used in the CA model. The influences of process parameters (strain, strain rate and temperature) on the fraction of DRX and the average recrystallization grain (R-grain) size were investigated and discussed. It is found that larger stain, higher temperature and lower strain rate (less than 0.1 s–1) are beneficial to the increasing fraction of DRX. And the deformation temperature affects the mean R-grain size much more greatly than other parameters. It is also noted that there is a critical strain for the occurrence of DRX which is related to strain rate and temperature. In addition, it is shown that the CA model with topology deformation is able to simulate the microstructural evolution and the flow behavior of aluminium alloy 7050 material under various deformation conditions.
Cellular automaton models for traffic flow considering opposite driving of an emergency vehicle
Zhao, Han-Tao; Li, Jing-Ru; Nie, Cen
2015-12-01
Aiming at two-lane road, this paper establishes three models to analyze the opposite-overtaking rules of emergency vehicle based on cellular automaton (CCA) model. Based on the simulation of mixed traffic flow for multi-density conditions, the density-speed diagrams have been obtained consequently. According to the analysis, when the traffic density of the opposite lane is low, the opposite driving behavior of emergency vehicle can improve the average speed effectively. At the same time, if the cocurrent lane is in high-density traffic, the traffic in the opposite lane will be disturbed, but the vehicles in the cocurrent lane will not be affected. The paper has further discussed the influence of different emergency vehicle driving behaviors on traffic. The results reveal that as the traffic of the opposite lane is in a low-density range, if emergency vehicle operates overtaking behavior precisely, the greater the density of the cocurrent lane is, the more obviously the speed improve. Meanwhile large random fluctuation of overtaking times will occur. While the risky lane change behavior displays different traffic characteristics, that is when the same direction lane is in high density, the speed increases slightly and the lane change number is changed regularly.
Institute of Scientific and Technical Information of China (English)
A.Yu. SMOLIN; E.V. SHILKO; S.V. ASTAFUROV; I.S. KONOVALENKO; S.P. BUYAKOVA; S.G. PSAKHIE
2015-01-01
Two classes of composite materials are considered: classical metaleceramic composites with reinforcing hard inclusions as well as hard ceramics matrix with soft gel inclusions. Movable cellular automaton method is used for modeling the mechanical behaviors of such different heterogeneous materials. The method is based on particle approach and may be considered as a kind of discrete element method. The main feature of the method is the use of many-body forces of inter-element interaction within the formalism of simply deformable element approximation. It was shown that the strength of reinforcing particles and the width of particle-binder interphase boundaries had determining influence on the service characteristics of metaleceramic composite. In particular, the increasing of strength of carbide inclusions may lead to significant increase in the strength and ultimate strain of composite material. On the example of porous zirconia ceramics it was shown that the change in the mechanical properties of pore surface leads to the corresponding change in effective elastic modulus and strength limit of the ceramic sample. The less is the pore size, the more is this effect. The increase in the elastic properties of pore surface of ceramics may reduce its fracture energy.
Mobile Robot Motion Using Cellular Automaton Model to Avoid Transient Obstacles
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Kohei Arai
2013-10-01
Full Text Available The obstacle avoidance is currently treated by methods that fall into two broad categories: global and local approach. This paper considers the obstacles whose velocity and direction cannot be easily predicted. Such obstacle is called transient obstacle. To avoid such kind of obstacle, we introduce a local path planning method for a robotics by using cellular automaton approach. The cellular automaton was combined with Dijkstra shortest path algorithm as global path planning to obtain a path for mobile robot to be able to avoid transient obstacle along the path. Using the proposed method, a scene in a typical corridor has been created. Moreover, this paper also evaluated two kinds of obstacle avoidance motion. First, the robot uses the “stop and go” method, which is the robot decreases its speed while encounter a transient obstacle. The second one is detour method, in which the robot makes a detour motion to avoid a transient obstacle. To coupe the drawbacks of local path planning, this paper also propose the enhancement of detour method. The simulation results show that in dynamic environment with transient obstacles, the “stop and go” method produces minimal collision with shortest-distance path. While, using the detour method generates minimal collision with time-minimal navigation path.
Recurrence time statistics of landslide events simulated by a cellular automaton model
Piegari, Ester; Di Maio, Rosa; Avella, Adolfo
2014-05-01
The recurrence time statistics of a cellular automaton modelling landslide events is analyzed by performing a numerical analysis in the parameter space and estimating Fano factor behaviors. The model is an extended version of the OFC model, which is a paradigm for SOC in non-conserved systems, but it works differently from the original OFC model as a finite value of the driving rate is applied. By driving the system to instability with different rates, the model exhibits a smooth transition from a correlated to an uncorrelated regime as the effect of a change in predominant mechanisms to propagate instability. If the rate at which instability is approached is small, chain processes dominate the landslide dynamics, and power laws govern probability distributions. However, the power-law regime typical of SOC-like systems is found in a range of return intervals that becomes shorter and shorter by increasing the values of the driving rates. Indeed, if the rates at which instability is approached are large, domino processes are no longer active in propagating instability, and large events simply occur because a large number of cells simultaneously reach instability. Such a gradual loss of the effectiveness of the chain propagation mechanism causes the system gradually enter to an uncorrelated regime where recurrence time distributions are characterized by Weibull behaviors. Simulation results are qualitatively compared with those from a recent analysis performed by Witt et al.(Earth Surf. Process. Landforms, 35, 1138, 2010) for the first complete databases of landslide occurrences over a period as large as fifty years. From the comparison with the extensive landslide data set, the numerical analysis suggests that statistics of such landslide data seem to be described by a crossover region between a correlated regime and an uncorrelated regime, where recurrence time distributions are characterized by power-law and Weibull behaviors for short and long return times
Properties of a Finite Stochastic Cellular Automaton Toy Model of Earthquakes
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Białecki Mariusz
2015-08-01
Full Text Available Finite version of Random Domino Automaton - a recently proposed toy model of earthquakes - is investigated in detail. Respective set of equations describing stationary state of the FRDA is derived and compared with infinite case. It is shown that for a system of large size, these equations are coincident with RDA equations. We demonstrate a non-existence of exact equations for size N ≥ 5 and propose appropriate approximations, the quality of which is studied in examples obtained within the framework of Markov chains.
Institute of Scientific and Technical Information of China (English)
Jiang Rui; Jin Wen-Long; Wu Qing-Song
2008-01-01
Recently, a number of efforts are underway to investigate inter-vehicle communications (IVC). This paper studies the instantaneous information propagation behaviours based on IVC in three different traffic situations (free flow,synchronized flow and stop-and-go waves) in a cellular automaton model. It is shown that different behaviours appear in stop-and-go waves from those in free flow and synchronized flow. While the distribution of Multi-hop Communication Distance (MhCD) is either exponential or uniform in free flow and synchronized flow, the distribution of MhCD is either exponential or with a single peak in stop-and-go waves.
Maerivoet, S; Immers, B; De Moor, B; Maerivoet, Sven; Logghe, Steven; Immers, Ben; Moor, Bart De
2005-01-01
In this paper, we describe a relation between a microscopic traffic cellular automaton (TCA) model (i.e., the stochastic TCA model of Nagel and Schreckenberg) and the macroscopic first-order hydrodynamic model of Lighthill, Whitham, and Richards (LWR). The innovative aspect of our approach, is that we explicitly derive the LWR's fundamental diagram directly from the STCA's rule set, by assuming a stationarity condition that converts the STCA's rules into a set of linear inequalities. In turn, these constraints define the shape of the fundamental diagram, which is then specified to the LWR model. Application of our methodology to a simulation case study, allows us to compare the tempo-spatial behavior of both models. Our results indicate that, in the presence of noise, the capacity flows in the derived fundamental diagram are overestimations of those of the STCA model. Directly specifying the STCA's capacity flows to the LWR fundamental diagram, effectively remedies most of the mismatches between both approach...
Kerner, Boris S.; Klenov, Sergey L.; Hermanns, Gerhard; Schreckenberg, Michael
2013-09-01
Based on simulations with cellular automaton (CA) traffic flow models, a generic physical feature of the three-phase models studied in the paper is disclosed. The generic feature is a discontinuous character of driver over-acceleration caused by a combination of two qualitatively different mechanisms of over-acceleration: (i) Over-acceleration through lane changing to a faster lane, (ii) over-acceleration occurring in car-following without lane changing. Based on this generic feature a new three-phase CA traffic flow model is developed. This CA model explains the set of the fundamental empirical features of traffic breakdown in real heterogeneous traffic flow consisting of passenger vehicles and trucks. The model simulates also quantitative traffic pattern characteristics as measured in real heterogeneous flow.
Directory of Open Access Journals (Sweden)
Yao Xiao
2015-01-01
Full Text Available This paper aimed to analyze the influence of drivers’ behavior of phone use while driving on traffic flow, including both traffic efficiency and traffic safety. An improved cellular automaton model was proposed to simulate traffic flow with distracted drivers based on the Nagel-Schreckenberg model. The driving characters of drivers using a phone were first discussed and a value representing the probability to use a phone while driving was put into the CA model. Simulation results showed that traffic flow rate was significantly reduced if some drivers used a phone compared to no phone use. The flow rate and velocity decreased as the proportion of drivers using a phone increased. While, under low density, the risk of traffic decreased first and then increased as the distracted drivers increased, the distracted behavior of drivers, like using a phone, could reduce the flow rate by 5 percent according to the simulation.
Metastable Congested States in Multisegment Traffic Cellular Automaton
Nishimura, Yutaka; Cheon, Taksu; Seba, Petr
2005-01-01
We investigate a simple multisegment cellular automaton model of traffic flow. With the introduction of segment-dependent deceleration probability, metastable congested states in the intermediate density region emerge, and the initial state dependence of the flow is observed. The essential feature of three-phased structure empirically found in real-world traffic flow is reproduced without elaborate assumptions.
Kizilirmak, Ganimet Mülazımoğlu
2015-12-01
The four-dimensional Ising model is simulated on the Creutz cellular automaton (CCA) near the infinite-lattice critical temperature for the lattice with the linear dimension 4 ⩽ L ⩽ 22. The temperature dependence of Binder parameter ( g L) are analyzed for the lattice with the linear dimension 4 ⩽ L ⩽ 22. In this study conducted highly detailed, two different types of behavior were determined as a result of varying linear lattice dimension. The infinite lattice critical temperatures are obtained to be T c = 6.6845 ± 0.0005 in interval 4 ⩽ L ⩽ 12 and T c = 6.6807 ± 0.0024 in interval 14 ⩽ L ⩽ 22. The finite and infinite lattice critical exponents for the order parameter, the magnetic susceptibility and the specific heat are computed from the results of simulations by using finite-size scaling relations. Critical linear lattice size have been identified as L = 14.
Multidimensional traveling waves in the Allen–Cahn cellular automaton
International Nuclear Information System (INIS)
Ultradiscretization is a limiting procedure transforming a given difference equation into a cellular automaton. The cellular automaton constructed by this procedure preserves the essential properties of the original equation, such as the structure of exact solutions for integrable equations. In this article, a cellular automaton analog of the multidimensional Allen–Cahn equation which is not an integrable system is constructed by the ultradiscretization. Moreover, the traveling wave solutions for the resulting cellular automaton are given. The shape, behavior and stability of the solutions in ultradiscrete systems are similar to those in continuous systems. (paper)
A Computation in a Cellular Automaton Collider Rule 110
Martinez, Genaro J; McIntosh, Harold V
2016-01-01
A cellular automaton collider is a finite state machine build of rings of one-dimensional cellular automata. We show how a computation can be performed on the collider by exploiting interactions between gliders (particles, localisations). The constructions proposed are based on universality of elementary cellular automaton rule 110, cyclic tag systems, supercolliders, and computing on rings.
Cellular automaton-based position sensitive detector equalization
Energy Technology Data Exchange (ETDEWEB)
Ferrando, Nestor [Grupo de Diseno de Sistemas Digitales, Instituto de Aplicaciones de las Tecnologias de la Informacion y de las Comunicaciones Avanzadas, Universidad Politecnica de Valencia, Camino de Vera s/n, 46022 Valencia (Spain)], E-mail: nesferjo@upvnet.upv.es; Herrero, V.; Cerda, J.; Lerche, C.W.; Colom, R.J.; Gadea, R.; Martinez, J.D.; Monzo, J.M.; Mateo, F.; Sebastia, A.; Benlloch, J.M. [Grupo de Diseno de Sistemas Digitales, Instituto de Aplicaciones de las Tecnologias de la Informacion y de las Comunicaciones Avanzadas, Universidad Politecnica de Valencia, Camino de Vera s/n, 46022 Valencia (Spain)
2009-06-01
Indirect position detectors based on scintillator crystals lack of spacial uniformity in their response. This happens due to crystal inhomogeneities and gain differences among the photomultiplier anodes. In order to solve this, PESIC, an integrated front-end for multianode photomultiplier based nuclear imaging devices was created. One of its main features is the digitally programmable gain adjustment for every photomultiplier output. On another front, cellular automata have been proved to be a useful method for dynamic system modeling. In this paper, a cellular automaton which emulates the behavior of the scintillator crystal, the photomultiplier and the front-end is introduced. Thanks to this model, an automatic energy-based calibration of the detector can be done by configuring the cellular automaton with experimental data and making it evolve up to an stable state. This can be useful as a precalibration method of the detector.
Investigating CTL mediated killing with a 3D cellular automaton.
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Frederik Graw
2009-08-01
Full Text Available Cytotoxic T lymphocytes (CTLs are important immune effectors against intra-cellular pathogens. These cells search for infected cells and kill them. Recently developed experimental methods in combination with mathematical models allow for the quantification of the efficacy of CTL killing in vivo and, hence, for the estimation of parameters that characterize the effect of CTL killing on the target cell populations. It is not known how these population-level parameters relate to single-cell properties. To address this question, we developed a three-dimensional cellular automaton model of the region of the spleen where CTL killing takes place. The cellular automaton model describes the movement of different cell populations and their interactions. Cell movement patterns in our cellular automaton model agree with observations from two-photon microscopy. We find that, despite the strong spatial nature of the kinetics in our cellular automaton model, the killing of target cells by CTLs can be described by a term which is linear in the target cell frequency and saturates with respect to the CTL levels. Further, we find that the parameters describing CTL killing on the population level are most strongly impacted by the time a CTL needs to kill a target cell. This suggests that the killing of target cells, rather than their localization, is the limiting step in CTL killing dynamics given reasonable frequencies of CTL. Our analysis identifies additional experimental directions which are of particular importance to interpret estimates of killing rates and could advance our quantitative understanding of CTL killing.
Bialecki, Mariusz
2010-01-01
Inspired by extremely simplified view of the earthquakes we propose the stochastic domino cellular automaton model exhibiting avalanches. From elementary combinatorial arguments we derive a set of nonlinear equations describing the automaton. Exact relations between the average parameters of the model are presented. Depending on imposed triggering, the model reproduces both exponential and inverse power statistics of clusters.
Tucker, G. E.; Hobley, D. E. J.; Hutton, E.; Gasparini, N. M.; Istanbulluoglu, E.; Adams, J. M.; Nudurupati, S. S.
2015-11-01
CellLab-CTS 2015 is a Python-language software library for creating two-dimensional, continuous-time stochastic (CTS) cellular automaton models. The model domain consists of a set of grid nodes, with each node assigned an integer state-code that represents its condition or composition. Adjacent pairs of nodes may undergo transitions to different states, according to a user-defined average transition rate. A model is created by writing a Python code that defines the possible states, the transitions, and the rates of those transitions. The code instantiates, initializes, and runs one of four object classes that represent different types of CTS model. CellLab-CTS provides the option of using either square or hexagonal grid cells. The software provides the ability to treat particular grid-node states as moving particles, and to track their position over time. Grid nodes may also be assigned user-defined properties, which the user can update after each transition through the use of a callback function. As a component of the Landlab modeling framework, CellLab-CTS models take advantage of a suite of Landlab's tools and capabilities, such as support for standardized input and output.
Tian, Junfang; Ma, Shoufeng; Zhu, Chenqiang; Jiang, Rui; Ding, YaoXian
2015-01-01
This paper proposes an improved cellular automaton traffic flow model based on the brake light model, which takes into account that the desired time gap of vehicles is remarkably larger than one second. Although the hypothetical steady state of vehicles in the deterministic limit corresponds to a unique relationship between speeds and gaps in the proposed model, the traffic states of vehicles dynamically span a two-dimensional region in the plane of speed versus gap, due to the various randomizations. It is shown that the model is able to well reproduce (i) the free flow, synchronized flow, jam as well as the transitions among the three phases; (ii) the evolution features of disturbances and the spatiotemporal patterns in a car-following platoon; (iii) the empirical time series of traffic speed obtained from NGSIM data. Therefore, we argue that a model can potentially reproduce the empirical and experimental features of traffic flow, provided that the traffic states are able to dynamically span a 2D speed-gap...
An Option Pricing Model Based on Cellular Automaton%基于元胞自动机的期权定价模型
Institute of Scientific and Technical Information of China (English)
李捷
2011-01-01
Option pricing is one of the most difficult problems in financial research. The key to the problem is how to simulate the randomness of the underlying asset price. This paper designs and implements an option pricing model based on the cellular automaton, which treats market participants as the cells in the cellular automaton. The model uses cellular automaton rules to simulate the interactions between traders and the changes of underlying asset prices. The paper compares the output data of the model with the calculation results of the Black-Scholes model, tests the normality of the model＇s output data, and finds that the option pricing model based on the cellular automaton is not only feasible, but also more effective than the Black-Scholes model.%针对期权定价难于模拟基础资产价格波动随机性的问题，设计了基于元胞自动机的期权定价模型．该模型将市场参与者看作一个个的元胞，使用元胞规则来模拟金融市场中交易者之间的交互行为。从而在总体上模拟出基础资产价格的变化．比较了模型产出的数据和Black-Scholes模型的计算结果，检验了模型产出数据的正态性，发现基于元胞自动机的期权定价模型不仅具有可行性，而且比Black-Scholes模型更有效．
A cellular automaton model adapted to sandboxes to simulate the transport of solutes
Lora, Boris; Donado, Leonardo; Castro, Eduardo; Bayuelo, Alfredo
2016-04-01
The increasingly use of groundwater sources for human consumption and the growth of the levels of these hydric sources contamination make imperative to reach a deeper understanding how the contaminants are transported by the water, in particular through a heterogeneous porous medium. Accordingly, the present research aims to design a model, which simulates the transport of solutes through a heterogeneous porous medium, using cellular automata. Cellular automata (CA) are a class of spatially (pixels) and temporally discrete mathematical systems characterized by local interaction (neighborhoods). The pixel size and the CA neighborhood were determined in order to reproduce accurately the solute behavior (Ilachinski, 2001). For the design and corresponding validation of the CA model were developed different conservative tracer tests using a sandbox packed heterogeneously with a coarse sand (size # 20 grain diameter 0,85 to 0,6 mm) and clay. We use Uranine and a saline solution with NaCl as a tracer which were measured taking snapshots each 20 seconds. A calibration curve (pixel intensity Vs Concentration) was used to obtain concentration maps. The sandbox was constructed of acrylic (caliber 0,8 cms) with 70 x 45 x 4 cms of dimensions. The "sandbox" had a grid of 35 transversal holes with a diameter of 4 mm each and an uniform separation from one to another of 10 cms. To validate the CA-model it was used a metric consisting in rating the number of correctly predicted pixels over the total per image throughout the entire test run. The CA-model shows that calibrations of pixels and neighborhoods allow reaching results over the 60 % of correctly predictions usually. This makes possible to think that the application of the CA- model could be useful in further researches regarding the transport of contaminants in hydrogeology.
Energy Technology Data Exchange (ETDEWEB)
Merdan, Ziya [Dept. of Physics, Kirikkale Univ. (Turkey); Bayirli, Mehmet [Dept. of Physics, Balikesir Univ. (Turkey); Ozturk, Mustafa Kemal [Dept. of Mineral Analysis and Technology, MTA, Ankara (Turkey)
2010-08-15
The fractals are obtained by using the model of diffusion-limited aggregation (DLA) for the lattice with L = 80, 120, and 160. The values of the fractal dimensions are compared with the results of former studies. As increasing the linear dimensions they are in good agreement with those. The fractals obtained by using the model of DLA are simulated on the Creutz cellular automaton by using a two-bit demon. The values computed for the critical temperature and the static critical exponents within the framework of the finite-size scaling theory are in agreement with the results of other simulations and theoretical values. (orig.)
Effect of Driver Scope Awareness in the Lane Changing Maneuvers Using Cellular Automaton Model
Directory of Open Access Journals (Sweden)
Kohei Arai
2013-07-01
Full Text Available This paper investigated the effect of drivers’ visibility and their perception (e.g., to estimate the speed and arrival time of another vehicle on the lane changing maneuver. The term of scope awareness was used to describe the visibility required by the driver to make a perception about road condition and the speed of vehicle that exist in that road. A computer simulation model was conducted to show this driver awareness behavior. This studying attempt to precisely catching the lane changing behavior and illustrate the scope awareness parameter that reflects driver behavior. This paper proposes a simple cellular automata model for studying driver visibility effects of lane changing maneuver and driver perception of estimated speed. Different values of scope awareness were examined to capture its effect on the traffic flow. Simulation results show the ability of this model to capture the important features of lane changing maneuver and revealed the appearance of the short-thin solid line jam and the wide solid line jam in the traffic flow as the consequences of lane changing maneuver.
Lateral Drift Behavior Analysis in Mixed Bicycle Traffic: A Cellular Automaton Model Approach
Directory of Open Access Journals (Sweden)
Xue Feng
2016-01-01
Full Text Available Bicycle movements are always associated with lateral drifts. However, the impacts of lateral drift behavior, as well as variable lateral clearance maintaining behavior due to the variation of drift intensity, on mixed bicycle flow are not clear. This paper establishes a new cellular automata model to study typical characteristics of mixed bicycle traffic induced by lateral drift and its accompanying behavior. Based on derived positive correlation between passing speed and drift speed through survey, the occurrence probability of lateral drift and the degree of maintained lateral clearance are both introduced in accordance with the variance of passing speed. Then, in whole density region, firm conformity between simulation results and actual survey data is reached, which has seldom been achieved in previous studies. It is further verified that speed distortions in intermediate and high density region induced by assumption of constant lateral clearance requirements can be revised by introducing its variability characteristics. In addition, two contrastive impacts of lateral drift behavior are observed. That is, it causes speed fluctuation in low density while alleviating the speed fluctuation in relatively high density. These results are expected to be helpful to improve the simulation performance of mixed bicycle flow as well as depict more realistic vehicle-bicycle conflicts and so on.
A Programmable Hardware Cellular Automaton: Example of Data Flow Transformation
Samuel Charbouillot; Annie Pérez; Daniele Fronte
2008-01-01
We present an IP-core called PHCA which stands for programmable hardware cellular automaton. PHCA is a hardware implementation of a general purpose cellular automaton (CA) entirely programmable. The heart of this structure is a PE array with reconfigurable side links allowing the implementation of a 2D CA or a 1D CA. As an illustration of a PHCA program, we present the implementation of a symmetric cryptography algorithm called ISEA for Ising spin encryption algorithm. Indeed ISEA is based on...
Simulation of Dynamic Recrystallization Using Cellular Automaton Method
Institute of Scientific and Technical Information of China (English)
XIAO Hong; XIE Hong-biao; YAN Yan-hong; Jun YANAGIMOTO
2004-01-01
A new modeling approach that couples fundamental metallurgical principles of dynamical recrystallization with the cellular automaton method was developed to simulate the microstructural evolution linking with the plastic flow behavior during thermomechanical processing. The driving force for the nucleation and growth of dynamically recrystallized grain is the volume free energy due to the stored dislocation density of a deformation matrix. The growth terminates the impingement. The model is capable of simulating kinetics, microstructure and texture evolution during recrystallization. The predictions of microstructural evolution agree with the experimental results.
Effect of Driver Scope Awareness in the Lane Changing Maneuvers Using Cellular Automaton Model
Kohei Arai; Steven Ray Sentinuwo
2013-01-01
This paper investigated the effect of drivers’ visibility and their perception (e.g., to estimate the speed and arrival time of another vehicle) on the lane changing maneuver. The term of scope awareness was used to describe the visibility required by the driver to make a perception about road condition and the speed of vehicle that exist in that road. A computer simulation model was conducted to show this driver awareness behavior. This studying attempt to precisely catching the lane changin...
Energy Technology Data Exchange (ETDEWEB)
Saiz, A. [Department of Applied Mathematics, Polytechnic University of Valencia, ETSGE School, Camino de Vera s/n, 46022 Valencia (Spain); Urchueguia, J.F. [Department of Applied Physics, Polytechnic University of Valencia, ETSII School, Camino de Vera s/n, 46022 Valencia (Spain); Martos, J. [Superior Technical School of Engineering, Department of Electronic Engineering, University of Valencia, Vicente Andres Estelles s/n, Burjassot 46100, Valencia (Spain)
2010-09-15
A discrete model characterizing heat and fluid flow in connection with thermal fluxes in a building is described and tested against experiment in this contribution. The model, based on a cellular automaton approach, relies on a set of a few quite simple rules and parameters in order to simulate the dynamic evolution of temperatures and energy flows in any water or brine based thermal energy distribution network in a building or system. Using an easy-to-record input, such as the instantaneous electrical power demand of the heating or cooling system, our model predicts time varying temperatures in characteristic spots and the related enthalpy flows whose simulation usually requires heavy computational tools and detailed knowledge of the network elements. As a particular example, we have applied our model to simulate an existing fan coil based hydronic heating system driven by a geothermal heat pump. When compared to the experimental temperature and thermal energy records, the outcome of the model coincides. (author)
Quantum field as a quantum cellular automaton: The Dirac free evolution in one dimension
Energy Technology Data Exchange (ETDEWEB)
Bisio, Alessandro; D’Ariano, Giacomo Mauro; Tosini, Alessandro, E-mail: alessandro.tosini@unipv.it
2015-03-15
We present a quantum cellular automaton model in one space-dimension which has the Dirac equation as emergent. This model, a discrete-time and causal unitary evolution of a lattice of quantum systems, is derived from the assumptions of homogeneity, parity and time-reversal invariance. The comparison between the automaton and the Dirac evolutions is rigorously set as a discrimination problem between unitary channels. We derive an exact lower bound for the probability of error in the discrimination as an explicit function of the mass, the number and the momentum of the particles, and the duration of the evolution. Computing this bound with experimentally achievable values, we see that in that regime the QCA model cannot be discriminated from the usual Dirac evolution. Finally, we show that the evolution of one-particle states with narrow-band in momentum can be efficiently simulated by a dispersive differential equation for any regime. This analysis allows for a comparison with the dynamics of wave-packets as it is described by the usual Dirac equation. This paper is a first step in exploring the idea that quantum field theory could be grounded on a more fundamental quantum cellular automaton model and that physical dynamics could emerge from quantum information processing. In this framework, the discretization is a central ingredient and not only a tool for performing non-perturbative calculation as in lattice gauge theory. The automaton model, endowed with a precise notion of local observables and a full probabilistic interpretation, could lead to a coherent unification of a hypothetical discrete Planck scale with the usual Fermi scale of high-energy physics. - Highlights: • The free Dirac field in one space dimension as a quantum cellular automaton. • Large scale limit of the automaton and the emergence of the Dirac equation. • Dispersive differential equation for the evolution of smooth states on the automaton. • Optimal discrimination between the
考虑驾驶愤怒的元胞自动机交通流模型%Cellular Automaton Model for Urban Traffic Flow Considering Driving Anger
Institute of Scientific and Technical Information of China (English)
郑华荣; 吴超仲; 马晓凤
2013-01-01
Driving behaviors of the angry drivers are quite different from those of the normal drivers.Because of these behavioral differences,driving speed,driving track etc.can be influenced,resulting in a different state of the road traffic flow.This paper re-defined the typical cellular automaton updating rules in mainly three aspects,i.e.,speed,lane change conditions as well as the safe distance and established the periodic boundary two-lane cellular automata traffic flow model considering the characteristics of angry driving behaviors based on NaSch cellular automaton traffic flow model.Both the model constructed and the classical NaSch traffic flow model were simulated in MATLAB and the comparison show that the variance in speed caused by driving anger had the most significant impact on traffic flow.The research can provide as the guidance on establishing models for cellular automaton traffic flow with consideration of driving anger and studying the influence of it to the urban traffic flow; the influence on traffic flow of other driver concerned factors,e.g.,driving fatigue,driving distraction need further research following this method.%驾驶员在愤怒时的驾驶行为表现与正常驾驶时存在较大的差异,这些行为差异会影响车辆的运行速度、运行轨迹等,进而对道路交通流产生影响.文中在NaSch元胞自动机交通流模型的基础上,考虑愤怒驾驶行为的特点,从运行速度、换道条件和安全距离3个方面重新确定元胞更新规则,构建考虑驾驶愤怒情绪的周期边界条件下双车道元胞自动机交通流模型.在MATLAB环境下,对所建模型与普通NaSch交通流模型进行对比仿真分析.结果表明,驾驶愤怒所引起的行驶速度变化对交通流影响明显.
Institute of Scientific and Technical Information of China (English)
N. Sefero(g)lu; B. Kutlu
2007-01-01
The critical behaviour of the three-dimensional Blume-Emery-Grifiiths (BEG) model is investigated at D / J = 0, -0.25 and -1 in the range of-1 ≤ K/J ≤ 0 for J = 100. The simulations are carried out on a simple cubic lattice using the heating algorithm improved from the Creutz cellular automaton (CCA) under periodic boundary conditions. The universality of the model are obtained for re-entrant and double re-entrant phase transitions which occur at certain D/J and K/J parameters, with J and K representing the nearest-neighbour bilinear and biquadratic interactions, and D being the single-ion anisotropy parameter. The values of static critical exponents β, γand v are estimated within the framework of the finite-size scaling theory. The results are compatible with the universal Ising critical behaviour for all continuous phase transitions in these ranges.
Modeling Hydraulic Failure Process Using Elasto-Plastic Cellular Automaton%水压致裂过程的弹塑性细胞自动机模拟
Institute of Scientific and Technical Information of China (English)
潘鹏志; 冯夏庭; 吴红晓; 孙峰; 周辉
2011-01-01
A self-developed numerical tool, i.e.an elasto-plastic cellular automaton (EPCA) was used to simulate the hydraulic fracturing process of rocks.The modeling method of hydraulic fracturing process of heterogeneous rocks with cellular automaton was developed.With the increase of fluid load, fluid will go into the new cracks.The new fluid seepage boundaries will be formed and the tensile stress induced by fluid will be applied on the crack boundaries.In this process, the mechanical properties and boundary conditions will be updated dynamically.The cellular automaton, which is based on the localization theory,makes this operation more conveniently.With this method, the failure process of wellbore rock specimen under hydraulic pressure was simulated, by considering different heterogeneity and different inner radius of the wellbore.It is concluded that, in hydraulic fracturing process, the critical fluid pressure, crack propagation and final failure patterns etc.are greatly influenced by the heterogeneity of the rock, the boundary geometry etc.%利用自行研发的弹塑性细胞自动机模型和模拟系统,建立了非均质岩石水压致裂过程的细胞自动机模拟方法.该方法能够反映流体在水力梯度作用下进入新生微裂隙、形成新的流体渗流边界而对该边界产生张拉效应,并引起微裂隙的进一步扩展、贯通,最终形成宏观裂纹的过程,可以方便地进行水压致裂过程中边界条件和水力参数的动态更新.同时,研究了不同均质度和井筒内径对水压致裂行为的影响.结果表明,随着井筒内径增加,极限水压力降低,而破裂模式基本相似,模拟结果与典型实验现象吻合较好.
EVOLUTION COMPLEXITY OF THEELEMENTARY CELLULAR AUTOMATON OF RULE 22
Institute of Scientific and Technical Information of China (English)
WangYi; JiangZhisong
2002-01-01
Cellular automata are the discrete dynamical systems of simple construction but with complex and varied behaviors. In this paper, the elementary cellular automaton of rule 22 is studied by the tools of formal language theory and symbolic dynamics. Its temporal evolution orbits are coarse-grained into evolution sequences and the evolution languages are defined. It is proved that for every n≥2 its width n evolution language is not regular.
Dirac Quantum Cellular Automaton from Split-step Quantum Walk
Mallick, Arindam
2015-01-01
Simulations of one quantum system by an other has an implications in realization of quantum machine that can imitate any quantum systems and solve problems that are not accessible to classical computers. One of the approach to engineer quantum simulations is to discretize the space-time degree of freedom in quantum dynamics and define the quantum cellular automata (QCA), a local unitary update rule on a lattice. Different models of QCA are constructed using different set of conditions which are not uniquely defined. The form of the operators in these model are not always in implementable configuration on an other system. Here, starting from a split-step discrete-time quantum walk (DTQW) which are uniquely defined for experimental implementation, we recover the Dirac quantum cellular automaton (DQCA). This will bridge the connection between Dirac equation(DE)-DQCA-DTQW and eliminate the explicit use of invariance, symmetries and limiting range of parameter to establish the connections. For a combination of par...
Three-level description of the domino cellular automaton
Czechowski, Zbigniew
2010-01-01
Inspired by the approach of kinetic theory of gases, a three-level description (microscopic, mesoscopic and macroscopic) of cellular automaton is presented. To provide an analytical treatment a simple domino cellular automaton with avalanches was constructed. Formulas concerning exact relations for density, clusters, avalanches and other parameters in an equilibrium state were derived. It appears that some relations are approximately valid for deviations from the equilibrium, so the adequate Ito equation could be constructed. The equation provides the time evolution description of some variable on the macroscopic level. The results also suggest a motive for applying of the procedure of construction of the Ito equation (from time series data) to natural time series.
A Programmable Hardware Cellular Automaton: Example of Data Flow Transformation
Directory of Open Access Journals (Sweden)
Samuel Charbouillot
2008-01-01
Full Text Available We present an IP-core called PHCA which stands for programmable hardware cellular automaton. PHCA is a hardware implementation of a general purpose cellular automaton (CA entirely programmable. The heart of this structure is a PE array with reconfigurable side links allowing the implementation of a 2D CA or a 1D CA. As an illustration of a PHCA program, we present the implementation of a symmetric cryptography algorithm called ISEA for Ising spin encryption algorithm. Indeed ISEA is based on a 2D Ising spin lattice presenting random series of disordered spin configurations. The main idea of ISEA is to use this disorder to encrypt data. Efficiency of ISEA and PHCA implementation results are given.
International Nuclear Information System (INIS)
A virtual front tracking modified cellular automaton (CA) method is applied to simulate solid phase transformation with a specific crystallographic preferred orientation in a TA15 alloy, to eliminate the dependence of the traditional CA method on space meshing. Simulation results demonstrate the capabilities of the new model in growth anisotropy modeling at large space and time scales, as well as quantitative analysis and description of the precipitated new phase morphology relates to the solute diffusion space by comparison with the diagonal modeling method and rotation of cell sites technique. The isothermal phase transformation kinetics is analysed, which exhibits the desired agreement with the prediction result of the Johnson–Mehl–Avrami analytical equation, thereby a time–temperature-transformation curve is predicted. The crystallography characteristics are consistent with electron backscattered diffraction analysis data. Using the established model, microstructure evolution during the isothermal heat treatment of the TA15 alloy is simulated so that the microstructure heredity with thermal cycling is vividly reflected. (paper)
International Nuclear Information System (INIS)
The cellular automaton (CA) method coupling fundamental metallurgical principles was used to simulate the initial microstructure and dynamic recrystallization (DRX) of 30Cr2Ni4MoV rotor steel. For the initial microstructure generation, reasonable transformation rules were established based on the thermodynamic mechanism, the activation energy and the curvature-driven mechanism. For the purposes of obtaining the material constants which were used in the CA model for DRX, including initial grain size, nucleation rate, softening parameter and activation energy, the hot deformation characteristics of 30Cr2Ni4MoV rotor steel were investigated by uniaxial hot compression tests on Gleeble-3500 machine. The effect of a wide range of thermomechanical processing parameters (temperature and strain rate) on the nucleation rate, the percentage of DRX and the final grain size were investigated. By comparison of the flow stress–strain curves and the metallographs, it was shown that the CA model coupling fundamental metallurgical principles can accurately simulate the microstructural evolution and the plastic flow behavior for 30Cr2Ni4MoV rotor steel at various deformation parameters
Institute of Scientific and Technical Information of China (English)
WANG Kuang-fei; LI Bang-sheng; MI Guo-fa; GUO Jing-jie; FU Heng-zhi
2008-01-01
Solute diffusion controlled solidification model was used to simulate the initial stage cellular to dendrite transition of Ti44AI alloys during directional solidification at different velocities. The simulation results show that during this process, a mixed structure composed of cells and dendrites was observed, where secondary dendrites are absent at facing surface with parallel closely spaced dendrites, which agrees with the previous experimental observa-tion. The dendrite spacings are larger than cellular spacings at a given rate, and the columnar grain spacing sharply increases to a maximum as solidification advance to coexistence zone. In addition, simulation also revealed that decreasing the numbers of the seed causes the trend of unstable dendrite transition to increase. Finally, the main influence factors affecting cell/dendrite transition were analyzed, which could be the change of growth rates resulting in slight fluctuations of liquid composition occurred at growth front. The simulation results are in reasonable agreement with the results of previous theoretical models and experimental observation at low cooling rates.
Cellular Automaton Simulation of Evacuation Process in Story
Institute of Scientific and Technical Information of China (English)
MA Chang-Qun; ZHENG Rong-Sen; GAO Chun-Yuan; QIU Bing; DENG Min-Yi; KONC Ling-Jiang; LIU Mu-Ren
2008-01-01
Computer simulations on the evacuation process in a story are launched with cellular automaton in this article. The story is composed of five rooms and one corridor. Influence of various parameters on the evacuation process is investigated. It shows that the width of the door of rooms has little influence but the width of the corridor and themaximum velocity of the pedestrian have great influence on the time for evacuation. The relation between evacuation time and the width of corridor is found as tc ∝ W-.0.84. It is also found that appropriate shape of the room is helpful to evacuation.
The cellular automaton interpretation of quantum mechanics
't Hooft, Gerard
2016-01-01
This book presents the deterministic view of quantum mechanics developed by Nobel Laureate Gerard 't Hooft. Dissatisfied with the uncomfortable gaps in the way conventional quantum mechanics meshes with the classical world, 't Hooft has revived the old hidden variable ideas, but now in a much more systematic way than usual. In this, quantum mechanics is viewed as a tool rather than a theory. The book presents examples of models that are classical in essence, but can be analysed by the use of quantum techniques, and argues that even the Standard Model, together with gravitational interactions, might be viewed as a quantum mechanical approach to analysing a system that could be classical at its core. He shows how this approach, even though it is based on hidden variables, can be plausibly reconciled with Bell's theorem, and how the usual objections voiced against the idea of ‘superdeterminism' can be overcome, at least in principle. This framework elegantly explains - and automatically cures - the problems of...
Mendonça, J. Ricardo G.
2016-07-01
We investigate the inactive-active phase transition in an array of additive (exclusive-or) cellular automata (CA) under noise. The model is closely related with the Domany-Kinzel (DK) probabilistic cellular automaton (PCA), for which there are rigorous as well as numerical estimates on the transition probabilities. Here, we characterize the critical behavior of the noisy additive cellular automaton by mean field analysis and finite-size scaling and show that its phase transition belongs to the directed percolation universality class of critical behavior. As a by-product of our analysis, we argue that the critical behavior of the noisy elementary CA 90 and 102 (in Wolfram’s enumeration scheme) must be the same. We also perform an empirical investigation of the mean field equations to assess their quality and find that away from the critical point (but not necessarily very far away) the mean field approximations provide a reasonably good description of the dynamics of the PCA.
Directory of Open Access Journals (Sweden)
Matthew W Johnston
Full Text Available The Indo-pacific panther grouper (Chromileptes altiveli is a predatory fish species and popular imported aquarium fish in the United States which has been recently documented residing in western Atlantic waters. To date, the most successful marine invasive species in the Atlantic is the lionfish (Pterois volitans/miles, which, as for the panther grouper, is assumed to have been introduced to the wild through aquarium releases. However, unlike lionfish, the panther grouper is not yet thought to have an established breeding population in the Atlantic. Using a proven modeling technique developed to track the lionfish invasion, presented is the first known estimation of the potential spread of panther grouper in the Atlantic. The employed cellular automaton-based computer model examines the life history of the subject species including fecundity, mortality, and reproductive potential and combines this with habitat preferences and physical oceanic parameters to forecast the distribution and periodicity of spread of this potential new invasive species. Simulations were examined for origination points within one degree of capture locations of panther grouper from the United States Geological Survey Nonindigenous Aquatic Species Database to eliminate introduction location bias, and two detailed case studies were scrutinized. The model indicates three primary locations where settlement is likely given the inputs and limits of the model; Jupiter Florida/Vero Beach, the Cape Hatteras Tropical Limit/Myrtle Beach South Carolina, and Florida Keys/Ten Thousand Islands locations. Of these locations, Jupiter Florida/Vero Beach has the highest settlement rate in the model and is indicated as the area in which the panther grouper is most likely to become established. This insight is valuable if attempts are to be made to halt this potential marine invasive species.
Johnston, Matthew W; Purkis, Sam J
2013-01-01
The Indo-pacific panther grouper (Chromileptes altiveli) is a predatory fish species and popular imported aquarium fish in the United States which has been recently documented residing in western Atlantic waters. To date, the most successful marine invasive species in the Atlantic is the lionfish (Pterois volitans/miles), which, as for the panther grouper, is assumed to have been introduced to the wild through aquarium releases. However, unlike lionfish, the panther grouper is not yet thought to have an established breeding population in the Atlantic. Using a proven modeling technique developed to track the lionfish invasion, presented is the first known estimation of the potential spread of panther grouper in the Atlantic. The employed cellular automaton-based computer model examines the life history of the subject species including fecundity, mortality, and reproductive potential and combines this with habitat preferences and physical oceanic parameters to forecast the distribution and periodicity of spread of this potential new invasive species. Simulations were examined for origination points within one degree of capture locations of panther grouper from the United States Geological Survey Nonindigenous Aquatic Species Database to eliminate introduction location bias, and two detailed case studies were scrutinized. The model indicates three primary locations where settlement is likely given the inputs and limits of the model; Jupiter Florida/Vero Beach, the Cape Hatteras Tropical Limit/Myrtle Beach South Carolina, and Florida Keys/Ten Thousand Islands locations. Of these locations, Jupiter Florida/Vero Beach has the highest settlement rate in the model and is indicated as the area in which the panther grouper is most likely to become established. This insight is valuable if attempts are to be made to halt this potential marine invasive species. PMID:24009726
A two-lane cellular automaton traffic flow model with the influence of driver, vehicle and road
Zhao, Han-Tao; Nie, Cen; Li, Jing-Ru; Wei, Yu-Ao
2016-07-01
On the basis of one-lane comfortable driving model, this paper established a two-lane traffic cellular automata model, which improves the slow randomization effected by brake light. Considering the driver psychological characteristics and mixed traffic, we studied the lateral influence between vehicles on adjacent lanes. Through computer simulation, the space-time diagram and the fundamental figure under different conditions are obtained. The study found that aggressive driver makes a slight congestion in low-density traffic and improves the capacity of high-density traffic, when the density exceeds 20pcu/km the more aggressive drivers the greater the flow, when the density below 40pcu/km driver character makes an effect, the more cautious driver, the lower the flow. The ratio of big cars has the same effect as the ratio of aggressive drivers. Brake lights have the greatest impact on traffic flow and when the density exceeds 10pcu/km the traffic flow fluctuates. Under periodic boundary conditions, the disturbance of road length on traffic is minimal. The lateral influence only play a limited role in the medium-density conditions, and only affect the average speed of traffic at low density.
Al-Husari, Maymona; Murdoch, Craig; Webb, Steven D
2014-10-01
Some tumours are known to exhibit an extracellular pH that is more acidic than the intracellular, creating a 'reversed pH gradient' across the cell membrane and this has been shown to affect their invasive and metastatic potential. Tumour hypoxia also plays an important role in tumour development and has been directly linked to both tumour morphology and aggressiveness. In this paper, we present a hybrid mathematical model of intracellular pH regulation that examines the effect of oxygen and pH on tumour growth and morphology. In particular, we investigate the impact of pH regulatory mechanisms on the cellular pH gradient and tumour morphology. Analysis of the model shows that: low activity of the Na+/H+ exchanger or a high rate of anaerobic glycolysis can give rise to a "fingering" tumour morphology; and a high activity of the lactate/H+ symporter can result in a reversed transmembrane pH gradient across a large portion of the tumour mass. Also, the reversed pH gradient is spatially heterogeneous within the tumour, with a normal pH gradient observed within an intermediate growth layer within the spheroid. We also include a fractal dimension analysis of the simulated tumour contours, in which we compare the fractal dimensions of the simulated tumour surfaces with those found experimentally via photomicrographs.
The Algorithm of Continuous Optimization Based on the Modified Cellular Automaton
Directory of Open Access Journals (Sweden)
Oleg Evsutin
2016-08-01
Full Text Available This article is devoted to the application of the cellular automata mathematical apparatus to the problem of continuous optimization. The cellular automaton with an objective function is introduced as a new modification of the classic cellular automaton. The algorithm of continuous optimization, which is based on dynamics of the cellular automaton having the property of geometric symmetry, is obtained. The results of the simulation experiments with the obtained algorithm on standard test functions are provided, and a comparison between the analogs is shown.
Coarse-grained cellular automaton for traffic systems
Krawczyk, Malgorzata J
2012-01-01
A coarse-grained cellular automaton is proposed to simulate traffic systems. There, cells represent road sections. A cell can be in two states: jammed or passable. Numerical calculations are performed for a piece of square lattice with open boundary conditions, for the same piece with some cells removed and for a map of a small city. The results indicate the presence of a phase transition in the parameter space, between two macroscopic phases: passable and jammed. The results are supplemented by exact calculations of the stationary probabilities of states for the related Kripke structure constructed for the traffic system. There, the symmetry-based reduction of the state space allows to partially reduce the computational limitations of the numerical method.
Lu, Lili; Ren, Gang; Wang, Wei; Chan, Ching-Yao; Wang, Jian
2016-10-01
At unsignalized crosswalks, interactions between pedestrians and vehicles often lead to traffic safety hazards due to absence of traffic control and unclear right-of-ways. To address this safety problem, there is a need to understand the interaction behaviors of pedestrians and vehicles that are complicated by a variety of traffic and roadway attributes. The prime objective of this study is to establish a reliable simulation model to represent the vehicle yielding and pedestrian crossing behaviors at unsignalized crosswalks in a realistic way. The model is calibrated with detailed behavioral data collected and extracted from field observations. The capability of the calibrated model in predicting the pedestrian-interaction events as well as estimating the driver yielding rate and pedestrian delay are also tested and demonstrated. Meanwhile, the traffic dynamics in the vicinity of the crosswalk can be meaningfully represented with simulation results based on the model. Moreover, with the definitions of the vehicle-pedestrian conflicts, the proposed model is capable to evaluate the pedestrian safety. Thereby, the simulation model has the potential to serve as a useful tool for assessing safety performance and traffic operations at existing facilities. Furthermore, the model can enable the evaluation of policy effectiveness and the selection of engineering treatments at unsignalized crosswalks to improve safety and efficiency of pedestrian crossing.
Harun, R.
2013-05-01
This research provides an opportunity of collaboration between urban planners and modellers by providing a clear theoretical foundations on the two most widely used urban land use models, and assessing the effectiveness of applying the models in urban planning context. Understanding urban land cover change is an essential element for sustainable urban development as it affects ecological functioning in urban ecosystem. Rapid urbanization due to growing inclination of people to settle in urban areas has increased the complexities in predicting that at what shape and size cities will grow. The dynamic changes in the spatial pattern of urban landscapes has exposed the policy makers and environmental scientists to great challenge. But geographic science has grown in symmetry to the advancements in computer science. Models and tools are developed to support urban planning by analyzing the causes and consequences of land use changes and project the future. Of all the different types of land use models available in recent days, it has been found by researchers that the most frequently used models are Cellular Automaton (CA) and Artificial Neural Networks (ANN) models. But studies have demonstrated that the existing land use models have not been able to meet the needs of planners and policy makers. There are two primary causes identified behind this prologue. First, there is inadequate understanding of the fundamental theories and application of the models in urban planning context i.e., there is a gap in communication between modellers and urban planners. Second, the existing models exclude many key drivers in the process of simplification of the complex urban system that guide urban spatial pattern. Thus the models end up being effective in assessing the impacts of certain land use policies, but cannot contribute in new policy formulation. This paper is an attempt to increase the knowledge base of planners on the most frequently used land use model and also assess the
CATALAN NUMBERS, DYCK LANGUAGE AND TIME SERIES OF ELEMENTARY CELLULAR AUTOMATON OF RULE 56
Institute of Scientific and Technical Information of China (English)
QIN Dakang; XIE Huimin
2005-01-01
A new approach to study the evolution complexity of cellular automata is proposed and explained thoroughly by an example of elementary cellular automaton of rule 56. Using the tools of distinct excluded blocks, computational search and symbolic dynamics, the mathematical structure underlying the time series generated from the elementary cellular automaton of rule 56 is analyzed and its complexity is determined, in which the Dyck language and Catalan numbers emerge naturally.
Simulation of Magnesium Alloy AZ91D Microstructure Using Modified Cellular Automaton Method
Institute of Scientific and Technical Information of China (English)
HUO Liang; LI Bin; SHI Yufeng; XU Qingyan; HAN Zhiqiang; LIU Baicheng
2009-01-01
A two-dimensional modified cellular automaton model was developed to simulate the solidification process of magnesium alloy, The stochastic nucleation, solute redistribution, and growth anisotropy effects were taken into account in the present model. The model was used to simulate the grain size of magnesium alloy AZ91D for various cooling rates during the solidification process. To quantitatively validate the current model, metallographic expedments were carded out on specimens obtained from sand mold AZ91D step castings. The metallographic results agree well with the prediction results. The current model can be used to accurately predict the grain sizes of cast AZ91D magnesium alloy.
Cellular Automaton Simulation For Volume Changes Of Solidifying Nodular Cast Iron
Directory of Open Access Journals (Sweden)
Burbelko A.
2015-09-01
Full Text Available Volume changes of the binary Fe-C alloy with nodular graphite were forecast by means of the Cellular Automaton Finite Differences (CA-FD model of solidification. Simulations were performed in 2D space for differing carbon content. Dependences of phase density on temperature were considered in the computations; additionally density of the liquid phase and austenite were deemed as a function of carbon concentration. Changes of the specific volume were forecast on the base of the phase volume fractions and changes of phase density. Density of modeled material was calculated as weighted average of densities of each phase.
The cellular automaton track finder at high track multiplicities
Energy Technology Data Exchange (ETDEWEB)
Akishina, Valentina; Zyzak, Maksym [Goethe Univ. Frankfurt am Main (Germany); GSI Helmholtzzentrum fuer Schwerionenforschung GmbH, Darmstadt (Germany); JINR Joint Institute for Nuclear Research, Dubna (Russian Federation); Kisel, Ivan; Kulakov, Igor [Goethe Univ. Frankfurt am Main (Germany); Frankfurt Institute for Advanced Studies, Frankfurt am Main (Germany); GSI Helmholtzzentrum fuer Schwerionenforschung GmbH, Darmstadt (Germany)
2013-07-01
The CBM experiment at FAIR is being designed to study heavy-ion collisions at extremely high interaction rates. The event selection has to be done online, therefore fast and efficient reconstruction algorithms are required. The Cellular Automaton (CA) track finder is fast and robust and thereby is used both for the online and offline track reconstruction in CBM. Since the CBM beam will have no bunch structure, but continuous, the reconstruction of time slices rather than events is needed. Measurements in this case will be 4D (x,y,z,t). In order to study the worst case scenario with no time measurment taken into account a number of minimum bias events (up to 100) was grouped into one, which was treated by the track finder as one event. The study has showed that CA track finder is stable with respect to track multiplicity: the efficiency of the algorithm decreases only by 4% for 100 minimum bias events in one group. The speed of the algorithm behaves as a second order polynomial with the number of track.
Indian Academy of Sciences (India)
M R Varma; R Sasikumar; S G K Pillai; P K Nair
2001-06-01
A two-dimensional diffusion based model is developed to describe transformation of austenite into ferrite and pearlite under continuous cooling conditions. The nucleation of ferrite is assumed to occur over grain boundaries and the nucleation of pearlite is assumed to be taking place all over the grain and at growing ferrite–austenite interfaces, when the composition and temperature conditions are favourable. A cellular automaton algorithm, with transformation rules based on this model is used for the growth of ferrite and pearlite. Model predicted results for continuous cooling transformations are verified by comparing the model predicted microstructure features with the experimental measurements for two sets of plain carbon steels of different composition and austenite grain size. Using the model, it is possible to generate results like undercooling to start ferrite and pearlite transformations, which are difficult to obtain experimentally.
Mesoscale simulation of discontinuous dynamic recrystallization using the cellular automaton method
Institute of Scientific and Technical Information of China (English)
Baojun YU; Xiaojun GUAN; Lijun WANG; Qingkai ZENG; Qianqian LIU; Yu CAO
2011-01-01
A dynamic recrystallization (DRX) cellular automaton (CA) model that can mark the microstructure with DRX circle was developed.The effects of initial grain size on the stress-strain curve,mean grain size and DRX fraction were mainly investigated,and the simulated results were compared with those obtained from previous researches.The results show that the shape of the stress-strain curve is sensitive,while the stress and mean grain size at the steady state are insensitive to the initial grain size.The transition from a multiple-peak stress-strain curve to a single-peak one can be explained by variations in DRX circle fraction,and the initial grain size to make this transition is between 70 and 80 μm.
基于元胞自动机理论的协同设计任务调度模型%Collaboration Design Tasks Scheduling Model Based on Cellular Automaton
Institute of Scientific and Technical Information of China (English)
徐鸿翔; 吴晶华; 张向华
2011-01-01
分析了设计任务调度的特点,提出了基于元胞自动机理论的调度模型。对元胞自动机任务调度模型进行了数学描述,对设计任务调度的策略进行了分析,建立了元胞自动机目标调度模型,通过具体算例对所提出的模型进行了验证,表明元胞自动机模型可以有效地进行任务调度的优化。%The characteristic of design tasks scheduling was analyzed,and a collaborative tasks scheduling model based on Cellular Automaton（CA） was put forward.Firstly,mathematics description was done for design tasks scheduling model based on Cellular Automaton.Secondly,the strategy for design tasks scheduling was analyzed.And so,the scheduling target model was established.Finally,a simulation experiment was carried out by using the proposed algorithm.The convergent velocity would be fast and the ability to optimize would be better.
Simulation of plant communities with a cellular automaton
Energy Technology Data Exchange (ETDEWEB)
Gassmann, F. [Paul Scherrer Inst. (PSI), Villigen (Switzerland)
1999-08-01
With a modelling approach based on cellular automata, five observed types of plant development can be simulated. In addition, the proposed model shows a strong tendency towards the formation of patches and a high degree of dynamical and structural instability leading to limits of predictability for the asymptotic solution chosen by the system among several possible metastable patterns (multistability). Further, external fluctuations can be shown to have advantages for certain plant types. The presented model unifies the fundamental dichotomy in vegetation dynamics between determinism (understood as predictability) and disorder (chance effects) by showing the outcome of both classical theories as special cases. (author) 2 figs., 4 refs.
Theory of multicolor lattice gas - A cellular automaton Poisson solver
Chen, H.; Matthaeus, W. H.; Klein, L. W.
1990-01-01
The present class of models for cellular automata involving a quiescent hydrodynamic lattice gas with multiple-valued passive labels termed 'colors', the lattice collisions change individual particle colors while preserving net color. The rigorous proofs of the multicolor lattice gases' essential features are rendered more tractable by an equivalent subparticle representation in which the color is represented by underlying two-state 'spins'. Schemes for the introduction of Dirichlet and Neumann boundary conditions are described, and two illustrative numerical test cases are used to verify the theory. The lattice gas model is equivalent to a Poisson equation solution.
Institute of Scientific and Technical Information of China (English)
何红弟; 董力耘; 戴世强
2006-01-01
Traffic flows controlled by traffic light strategies were investigated via a cellular automaton model with anticipation, which is suitable for describing urban traffic. Three kinds of strategies, i.e., synchronized, green-wave and random switching lights, were designed, simulated and compared with each other. It is shown that the green-wave strategy is only valid at lower density and there is not an effective way with the three strategies to improve the efficiency of traffic flow at high density.
Stable oscillations of a predator-prey probabilistic cellular automaton: a mean-field approach
Energy Technology Data Exchange (ETDEWEB)
Tome, Tania; Carvalho, Kelly C de [Instituto de FIsica, Universidade de Sao Paulo, Caixa Postal 66318, 05315-970 Sao Paulo (Brazil)
2007-10-26
We analyze a probabilistic cellular automaton describing the dynamics of coexistence of a predator-prey system. The individuals of each species are localized over the sites of a lattice and the local stochastic updating rules are inspired by the processes of the Lotka-Volterra model. Two levels of mean-field approximations are set up. The simple approximation is equivalent to an extended patch model, a simple metapopulation model with patches colonized by prey, patches colonized by predators and empty patches. This approximation is capable of describing the limited available space for species occupancy. The pair approximation is moreover able to describe two types of coexistence of prey and predators: one where population densities are constant in time and another displaying self-sustained time oscillations of the population densities. The oscillations are associated with limit cycles and arise through a Hopf bifurcation. They are stable against changes in the initial conditions and, in this sense, they differ from the Lotka-Volterra cycles which depend on initial conditions. In this respect, the present model is biologically more realistic than the Lotka-Volterra model.
Accountability Analysis of Electronic Commerce Protocols by Finite Automaton Model
Institute of Scientific and Technical Information of China (English)
Xie Xiao-yao; Zhang Huan-guo
2004-01-01
The accountability of electronic commerce protocols is an important aspect to insures security of electronic transaction. This paper proposes to use Finite Automaton (FA) model as a new kind of framework to analyze the trans action protocols in the application of electronic commerce.
基于元胞自动机带有干预机制的传染病模型%A cellular automaton model with medical intervention for epidemic propagation
Institute of Scientific and Technical Information of China (English)
关超; 彭云; 袁文燕
2011-01-01
Based on the classical SEIR ( susceptible, exposed, infections, and recovered) model, a cellular automaton (CA) model with medical intervention is proposed to simulate epidemic propagation. The model describes the outbreak of infectious diseases dynamically at different time steps. The newly constructed rules of neighborhood can not only reflect the regional characteristics of epidemic propagation, but also indicate flow characteristics. The CA model can reflect the characteristics of spread, such as periodic and fade-type transmission and the peak value of outbreak. The effects of medical intervention and vaccination strategy have been studied. The proposed model can serve as a quantitative basis for future medical intervention.%在经典SEIR模型的基础上,提出了基于元胞自动机带有干预机制的传染病模型,模拟了在医疗干预下传染病的传播过程,动态刻画了不同时间段疾病的爆发情况,体现了传染病区域性传播的特性以及流动性传染的特点.不同传染病各自传播的特征如周期性传播、消退型传播、爆发等,均能在模拟中体现出来,符合传染病传播的规律.仿真结果表明医疗干预和疫苗等医疗措施对传染病传播起到一定的抑制作用,量化了医疗干预的效果,为采取合理的预防及干预手段提供了量化依据.
Malarz, Krzysztof; Kułakowski, Krzysztof
2014-01-01
The problem `human and work' in a model working group is investigated by means of cellular automata technique. Attitude of members of a group towards work is measured by indicator of loyalty to the group (the number of underloaded agents who carry out their tasks), and lack of loyalty (the number of overloaded agents, who give their tasks to other agents). Initially, all agents realize scheduled tasks one-by-one. Agents with the number of scheduled tasks larger than a given threshold change their strategy to `overloaded' one and start avoiding completing tasks by passing them to their colleagues. Optionally, in some conditions, we allow agents to return to `underloaded' state; hence the rule is hysteretic. Results are presented on an influence of i) the density of tasks, ii) the threshold number of tasks assigned to the agents' forcing him/her for strategy change on the system efficiency. We show that a `black' scenario of the system stacking in a jammed phase (with all agents being in overloaded state and ha...
Simulation of Microstructure during Laser Rapid Forming Solidification Based on Cellular Automaton
Directory of Open Access Journals (Sweden)
Zhi-jian Wang
2014-01-01
Full Text Available The grain microstructure of molten pool during the solidification of TC4 titanium alloy in the single point laser cladding was investigated based on the CAFE model which is the cellular automaton (CA coupled with the finite element (FE method. The correct temperature field is the prerequisite for simulating the grain microstructure during the solidification of the molten pool. The model solves the energy equation by the FE method to simulate the temperature distribution in the molten pool of the single point laser cladding. Based on the temperature field, the solidification microstructure of the molten pool is also simulated with the CAFE method. The results show that the maximum temperature in the molten pool increases with the laser power and the scanning rate. The laser power has a larger influence on the temperature distribution of the molten pool than the scanning rate. During the solidification of the molten pool, the heat at the bottom of the molten pool transfers faster than that at the top of the molten pool. The grains rapidly grow into the molten pool, and then the columnar crystals are formed. This study has a very important significance for improving the quality of the structure parts manufactured through the laser cladding forming.
Swallowing a cellular automaton pill: predicting drug release from a matrix tablet
Buchla, Ezra; Najera, Aisha; Radunskaya, Ami
2012-01-01
Matrix tablets are drug delivery devices designed to release a drug in a controlled manner over an extended period of time. We develop a cellular automaton (CA) model for the dissolution and release of a water-soluble drug and excipient from a matrix tablet of water-insoluble polymer. Cells of the CA are occupied by drug, excipient, water or polymer and the CA updating rules simulate the dissolution of drug and excipient and the subsequent diffusion of the dissolved substances. In addition we simulate the possible fracture of brittle drug and excipient powders during the tablet compression and the melting of the polymer during a possible thermal curing process. Different stirring mechanisms that facilitate the transport of dissolved drug in the fluid in which the tablet is immersed are modeled in the water cells adjacent to the boundary of the tablet. We find that our simulations can reproduce experimental drug release profiles. Our simulation tool can be used to streamline the formulation and production of s...
Knowledge Discovery in Database: Induction Graph and Cellular Automaton
Baghdad Atmani; Bouziane Beldjilali
2012-01-01
In this article we present the general architecture of a cellular machine, which makes it possible to reduce the size of induction graphs, and to optimize automatically the generation of symbolic rules. Our objective is to propose a tool for detecting and eliminating non relevant variables from the database. The goal, after acquisition by machine learning from a set of data, is to reduce the complexity of storage, thus to decrease the computing time. The objective of this work is to experimen...
Energy Technology Data Exchange (ETDEWEB)
Marx, V.; Gottstein, G. [RWTH Aachen (Germany). Inst. fuer Metallkunde und Metallphysik
1998-12-31
A 3D model has been developed to simulate both primary static recrystallization and recovery of cold worked aluminum alloys. The model is based on a modified cellular automaton approach and incorporates the influence of crystallographic texture and microstructure in respect to both mechanisms mentioned above. The model takes into account oriented nucleation using an approach developed by Nes for aluminum alloys. The subsequent growth of the nuclei depends on the local stored energy of the deformed matrix (i.e. the driving pressure) and the misorientation between a growing nucleus and its surrounding matrix (i.e. the grain boundary mobility). This approach allows to model preferred growth of grains that exhibit maximum growth rate orientation relationship, e.g. for aluminum alloys a 40{degree}<111> relationship with the surrounding matrix. The model simulates kinetics, microstructure and texture development during heat treatment, discrete in time and space.
Institute of Scientific and Technical Information of China (English)
丁建勋; 黄海军; 唐铁桥
2009-01-01
Few cellular automaton models of traffic have taken the relationship between the randomization probability of velocity and the specific value of current velocity into account. On the basis of Nagel-Schreckenberg model, this paper presents a modified cellular automaton model in which the randomization probability evolves with the driver' s remembering to historic experience and with the traffic condition around. Numerical simulation results show that the proposed model can reveal the influence of driver's remembering on the traffic and generate higher average velocity and flux.%在NS模型的基础上,利用司机的记忆效应和当前交通环境动态地调整随机慢化概率,从而得到一个改进的交通流元胞自动机模型,数值实验表明,该模型可以很好地刻画司机记忆效应对交通流的影响,记忆效应的引入可以提高平均速度和流量.
CATS: a cellular automaton for tracking in silicon for the HERA-B vertex detector
International Nuclear Information System (INIS)
The new track reconstruction program CATS developed for the Vertex Detector System of the HERA-B experiment at DESY is presented. It employs a cellular automaton for track searching and the Kalman filter for track fitting. This results in a very fast algorithm that combines highly efficient track recognition with accurate and reliable track parameter estimation. To reduce the computational cost of the fit an optimized numerical implementation of the Kalman filter is used. Alternative approaches to the track reconstruction in the VDS are also discussed. Since 1999, after extensive tests on simulated data, CATS has been employed to reconstruct experimental data collected in HERA-B. Results regarding tracking performance, the accuracy of track parameter estimates and CPU time consumption are presented
CATS a cellular automaton for tracking in silicon for the HERA-B vertex detector
Abt, I; Kisel, I; Masciocchi, S
2002-01-01
The new track reconstruction program CATS developed for the Vertex Detector System of the HERA-B experiment at DESY is presented. It employs a cellular automaton for track searching and the Kalman filter for track fitting. This results in a very fast algorithm that combines highly efficient track recognition with accurate and reliable track parameter estimation. To reduce the computational cost of the fit an optimized numerical implementation of the Kalman filter is used. Alternative approaches to the track reconstruction in the VDS are also discussed. Since 1999, after extensive tests on simulated data, CATS has been employed to reconstruct experimental data collected in HERA-B. Results regarding tracking performance, the accuracy of track parameter estimates and CPU time consumption are presented.
Cellular Automaton Model for Simulating Station-front Turning-back%基于元胞自动机的列车站前折返仿真模型
Institute of Scientific and Technical Information of China (English)
徐瑞华; 石俊刚
2011-01-01
With an accurate description of urban rail transit station-front turning-back process, this paper establishes two cellular automaton models for two typical station-front turning-back modes,there are station-front single-line turning-back mode and station-front double-line turning-back mode. In order to simulate train turning-back accurately, the models set cell updated rules for different rail parts, besides that line identification .direction identification and signal identification are formulated to solve several problems,such as lane changing,steering and paths confliction preventing. Using computer programming to simulate the trainoperation process with the models proposed, analyzing speed-location and time-location diagrams of train operating,we find that the simulation results are exactly the same as the actual train turn-back processes,at the same time comparing the results of turning-back capacity worked out by simulating methods with the traditional graphic method,the error is only 2.4% ,it shows that the simulating models proposed can accurately simulate train turning-back operating process,it can be applied to train turning-back simulation.%在对城市轨道交通中列车站前折返过程准确描述的基础上,建立了2种典型站前折返模式的元胞自动机模型,即站前单渡线折返仿真模型和站前双渡线折返仿真模型.为准确模拟列车的折返过程,模型设定了列车在不同轨道部分的元胞更新规则,在此基础上还添加了线路标识、方向标识和信号标识等来实现列车的换道、转向和防止进路冲突等问题.采用计算机编程,运用已建立的模型来模拟列车的运行过程,对列车运行过程的速度-位置图和时间-位置图的分析发现,模型的模拟结果与实际列车的折返过程完全相同,同时采用仿真方法计算的折返站折返能力与传统图解法计算的结果误差仅为2.4％,由此说明所建立的模型能够准确模拟实际列
Matsubara, Takashi; Torikai, Hiroyuki
2016-04-01
Modeling and implementation approaches for the reproduction of input-output relationships in biological nervous tissues contribute to the development of engineering and clinical applications. However, because of high nonlinearity, the traditional modeling and implementation approaches encounter difficulties in terms of generalization ability (i.e., performance when reproducing an unknown data set) and computational resources (i.e., computation time and circuit elements). To overcome these difficulties, asynchronous cellular automaton-based neuron (ACAN) models, which are described as special kinds of cellular automata that can be implemented as small asynchronous sequential logic circuits have been proposed. This paper presents a novel type of such ACAN and a theoretical analysis of its excitability. This paper also presents a novel network of such neurons, which can mimic input-output relationships of biological and nonlinear ordinary differential equation model neural networks. Numerical analyses confirm that the presented network has a higher generalization ability than other major modeling and implementation approaches. In addition, Field-Programmable Gate Array-implementations confirm that the presented network requires lower computational resources.
2D photonic crystal complete band gap search using a cyclic cellular automaton refination
González-García, R.; Castañón, G.; Hernández-Figueroa, H. E.
2014-11-01
We present a refination method based on a cyclic cellular automaton (CCA) that simulates a crystallization-like process, aided with a heuristic evolutionary method called differential evolution (DE) used to perform an ordered search of full photonic band gaps (FPBGs) in a 2D photonic crystal (PC). The solution is proposed as a combinatorial optimization of the elements in a binary array. These elements represent the existence or absence of a dielectric material surrounded by air, thus representing a general geometry whose search space is defined by the number of elements in such array. A block-iterative frequency-domain method was used to compute the FPBGs on a PC, when present. DE has proved to be useful in combinatorial problems and we also present an implementation feature that takes advantage of the periodic nature of PCs to enhance the convergence of this algorithm. Finally, we used this methodology to find a PC structure with a 19% bandgap-to-midgap ratio without requiring previous information of suboptimal configurations and we made a statistical study of how it is affected by disorder in the borders of the structure compared with a previous work that uses a genetic algorithm.
Berkovich, Simon
2015-04-01
The undamental advantage of a Cellular automaton construction foris that it can be viewed as an undetectable absolute frame o reference, in accordance with Lorentz-Poincare's interpretation.. The cellular automaton model for physical poblems comes upon two basic hurdles: (1) How to find the Elemental Rule that, and how to get non-locality from local transformations. Both problems are resolved considering the transfomation rule of mutual distributed synchronization Actually any information proessing device starts with a clocking system. and it turns out that ``All physical phenomena are different aspects of the high-level description of distributed mutual synchronization in a network of digital clocks''. Non-locality comes from two hugely different time-scales of signaling.. The universe is acombinines information and matter processes, These fast spreading diffusion wave solutions create the mechanism of the Holographic Universe. And thirdly Disengaged from synchronization, circular counters can perform memory functions by retaining phases of their oscillations, an idea of Von Neumann'. Thus, the suggested model generates the necessary constructs for the physical world as an Internet of Things. Life emerges due to the specifics of macromolecules that serve as communication means, with the holographic memory...
Directory of Open Access Journals (Sweden)
S. G. Psakhie
2013-04-01
Full Text Available An approach to multiscale description of deformation and fracture of brittle porous materials on the basis of movable cellular automaton method was proposed. The material characterized by pore size distribution function having two maxima was considered. The core of the proposed approach consists in finding the automaton effective response function by means of direct numerical simulation of representative volume of the porous material. A hierarchical two-scale model of mechanical behavior of ceramics under compression and shear loading was developed. Zirconia based ceramics with pore size greater than the average grain size was considered. At the first scale of the model only small pores (corresponding to the first maximum of the pore size distribution function were taking into account explicitly (by removing automata from the initial structure. The representative volume and effective elastic properties of the porous material at this scale were evaluated. At the second scale of the model, big pores were taking into account explicitly, the parameters of the matrix corresponded to the ones determined at the first scale. Simulation results showed that the proposed multiscale model allows qualitatively and quantitatively correct describing of deformation and fracture of brittle material with hierarchical porous structure.
Directory of Open Access Journals (Sweden)
Chen Shijia
2013-11-01
Full Text Available Dans le domaine du soudage, les propriétés finales du cordon sont fortement liées à la structure de grains développée au cours des procédés de fusion / resolidification. La maîtrise des propriétés de l'assemblage final passe ainsi par une amélioration de la connaissance de sa structure de ce domaine. Dans cet objectif, un modèle couplé Automates Cellulaires – Eléments Finis est proposé pour simuler le développement, en volume, de cette structure, dans le cadre du soudage TIG. Ce modèle est appliqué au soudage d'acier Duplex 2202 et l'évolution de la structure de grains selon les paramètres procédés est discutée. In the welding area, the final properties of the weld bead are mainly induced by the grain structure developed during the melting and solidification steps. The mastery of the properties of the joining will be achieved with a better knowledge of the developed grain structure. A 3D coupled Cellular Automaton – Finite Element model is proposed in order to simulate the grains development in TIG process. This model is applied to the welding of a duplex stainless steel grade. The grain structure evolution is discussed for the various process parameters.
Institute of Scientific and Technical Information of China (English)
魏雷; 林鑫; 王猛; 黄卫东
2012-01-01
本文基于MeshTV界面重构算法,发展了二元合金凝固自由枝晶生长的元胞自动机（cellular automaton,CA）模型.通过采用MeshTV界面重构算法,在细化的界面元胞内重构出了固液界面的位置.在此基础上,发展了一种同时适合描述纯物质与合金凝固界面生长的动力学模型.与非界面重构的CA模型相比,本文所发展的模型可以在较大的网格尺寸下实现模型的收敛,同时网格各向异性不明显,且能够反映界面能各向异性参数ε对自由枝晶生长的影响.在ε=0.02时,通过与描述自由枝晶生长的LGK理论模型相比较,发现计算的枝晶尖端速度与LGK理论模型的预测符合较好,而计算的枝晶尖端半径比LGK理论预测值大于约20%.%In this paper, cellular automata （CA） model for free dendritic growth of alloy is presented, in which the interface cell is refined by MeshTV interface reconstruction algorithm. In the present CA model, the growth kinetic for both pure material and alloy is used. The effect of interfacial energy anisotropy parameter e is validated in the CA model. The dendrite tip growth velocity and tip radius are compared with those of the LGK theoretical model, when e = 0.02.
Traffic paradox on a road segment based on a cellular automaton: Impact of lane-changing behavior
Feng, Shumin; Li, Jinyang; Ding, Ning; Nie, Cen
2015-06-01
The traffic paradox "faster is slower" does not always apply. To study when and where it is valid, a simulation for a real road segment is performed using a novel cellular automaton. This simulation is used to analyze the change in global traffic flow status during free lane-changing behavior under general urban traffic conditions. The impact of lane-changing behavior is quantified into two aspects, time and space, and are described by average delay and transitable flow, respectively. Then surfaces are obtained, which adopt the arriving probability of vehicles and the green ratio as dual independent variables. Thus by the comparison of two surfaces, free lane-changing and straight proceeding, the horizontal projection of the intersecting lines is solved. Finally, the range of occurrence and reasons for the paradox are analyzed.
Institute of Scientific and Technical Information of China (English)
杨奕; 施帮利; 徐鹏
2011-01-01
在一维元胞自动机交通流SDNS模型的基础上,建立了基于选择性随机减速的元胞自动机模型（Select-CA模型）.驾驶员可根据与前车的间距变化选择不同的随机减速方式,并定义了不同随机减速方式的选择条件.通过计算机数值模拟发现,当减速方式可变时,模型模拟得到的交通流流量较大,且流量、速度和车辆比例与随机减速概率密切相关.与SDNS模型相比,Select-CA模型减少了车流的阻塞现象,提高了道路的通行能力.%Based on the SDNS cellular automata（CA） traffic model,an improved single-lane traffic CA model with consideration of selectivity random deceleration is proposed.The model considers the vehicles adopting different random deceleration rules under the mutative traffic condition and introduces the rules of deceleration probability change.Numerical simulations show a complicated evolution process of traffic flow.Different values of deceleration probability have different effects on the mixed traffic flow.In the evolution process,the traffic flow is higher in the new model than in the SDNS model,indicating that the stop status of the whole traffic flow has been improved.
22号初等元胞自动机的演化复杂性%EVOLUTION COMPLEXITY OF THE ELEMENTARY CELLULAR AUTOMATON OF RULE 22
Institute of Scientific and Technical Information of China (English)
王益; 江志松
2002-01-01
Cellular automata are the discrete dynamical systems of simple construction but with complex and varied behaviors.In this paper,the elementary cellular automaton of rule 22 is studied by the tools of formal language theory and symbolic dynamics.Its temporal evolution orbits are coarse-grained into evolution sequences and the evolution languages are defined.It is proved that for every n≥2 its width n-evolution language is not regular.
International Nuclear Information System (INIS)
This paper reports on work in developing a cellular automaton (CA) model coupling with a topology deformation technique to simulate the microstructural evolution of 30Cr2Ni4MoV rotor steel during the high-temperature austenitizing and dynamic recrystallization (DRX). The state transition rules for simulating the normal grain growth was established based on the curvature-driven mechanism, thermodynamic driving mechanism and established based on the curvature-driven mechanism, thermodynamic driving mechanism and the lowest energy principle. To describe the compression effect on the topology of grain deformation more accurately, the update topology deformation model was proposed in which a cellular coordinate system and a material coordinate system were established separately. The cellular coordinate system remains unchangeable, but the material coordinate system and the corresponding grain boundary shape will change with deformation in the update topology deformation model. The effects of a wide range of thermomechanical parameters (e.g., temperature and strain rate) on the DRX kinetics and mean grain size were investigated. It was found that increasing the temperature and/or decreasing the strain rate can reduce the incubation period, and decreasing the temperature and/or increasing the strain rate can refine the DRX grain size. The simulation results are validated by comparing the experimental results.
Institute of Scientific and Technical Information of China (English)
张剑; 董力耘
2011-01-01
提出描述交通灯控制下城市道路交通流动力学演化过程的元胞自动机模型,其中交通灯对于路段上车辆的影响是全局的,驾驶员可根据交通灯的状态及时调整驾驶行为,同时还考虑前方车辆的预期运动.该模型中车辆的运动更加平滑,符合实际交通现象.应用模型中的驾驶策略,可以有效地减少怠速和速度骤减的状态,从而减少机动车的尾气排放.%A cellular automaton model is proposed to depict dynamical evolution of urban traffic flow under control of traffic lights on a single-lane road. It is assumed that traffic lights have global influence on vehicles, and drivers adjust their behaviors timely according to the states of traffic light. Furthermore, anticipation effect is taken into account to predict the movement of vehicles in the presence of traffic lights. Therefore vehicles can move forward more smoothly. This is in agreement with the actual situation. It is expected that using the proposed strategy in driving can help reduce vehicle idling and abrupt deceleration and lead to less emission of exhausted gas.
Martín Del Rey, A.; Rodríguez Sánchez, G.
2015-03-01
The study of the reversibility of elementary cellular automata with rule number 150 over the finite state set 𝔽p and endowed with periodic boundary conditions is done. The dynamic of such discrete dynamical systems is characterized by means of characteristic circulant matrices, and their analysis allows us to state that the reversibility depends on the number of cells of the cellular space and to explicitly compute the corresponding inverse cellular automata.
A THREE-DIMENSIONAL CELLULAR AUTOMATON SIMULATION FOR DENDRITIC GROWTH%枝晶生长的三维元胞自动机模拟
Institute of Scientific and Technical Information of China (English)
江鸿翔; 赵九洲
2011-01-01
Perhaps dendrite is the most observed solidification microstructure of many metallic materials. The dendritic morphologies show a dominating effect on the performance of casting products. A lot of work has been carried out to investigate the formation mechanism of dendritic microstructure. It is found that the development of dendritic microstructures is a complicated process controlled by the interplay of many factors such as thermal and solute transfer, capillary etc. Cellular automaton (CA) can simulate the solidification process with a high computational efficiency, thus, attracts great attentions. In recent years, progress has been made on the two dimensional CA models for the solidification microstructure formation. But up to date researches on three dimensional CA model are very limited. A combined cellular automaton-finite difference (CA-FD) model for the three dimensional simulation of dendritic growth was developed in this paper. Simulations were performed to investigate the dendritic growth in an undercooled Al-Cu alloy as well as in a directionally solidified Al-Cu alloy. The numerical results showed clearly the development of the free dendrite in the under-cooled melt and the microstructure evolution in the directionally solidified alloy and agreed well with the theoretical predictions and the experimental results.%通过将元胞自动机和有限差分方法相耦合,建立了立方体系金属和合金枝晶生长的三维模型.应用该模型,模拟了Al-Cu合金过冷熔体中自由枝晶的生长和定向凝固条件下Al-Cu合金凝固组织演变过程.模拟结果清楚展现了过冷熔体中自由枝晶的生长过程和定向凝固过程中枝晶的形成与淹没,与理论预测和实验结果相吻合,表明所发展的模型能够较准确地描述立方体系金属和合金的凝固组织演变过程.
Jin, Cheng-Jie; Wang, Wei; Jiang, Rui
2016-08-01
The proper setting of traffic signals at signalized intersections is one of the most important tasks in traffic control and management. This paper has evaluated the four-phase traffic signal plans at a four-leg intersection via cellular automaton simulations. Each leg consists of three lanes, an exclusive left-turn lane, a through lane, and a through/right-turn lane. For a comparison, we also evaluate the two-phase signal plan. The diagram of the intersection states in the space of inflow rate versus turning ratio has been presented, which exhibits four regions: In region I/II/III, congestion will propagate upstream and laterally and result in queue spillover with both signal plans/two-phase signal plan/four-phase signal plan, respectively. Therefore, neither signal plan works in region I, and only the four-phase signal plan/two-phase signal plan works in region II/III. In region IV, both signal plans work, but two-phase signal plan performs better in terms of average delays of vehicles. Finally, we study the diagram of the intersection states and average delays in the asymmetrical configurations.
Motzkin numbers out of Random Domino Automaton
Białecki, Mariusz
2011-01-01
Motzkin numbers are derived from a special case of Random Domino Automaton - recently proposed toy model of earthquakes. An exact solution of the set of equations describing stationary state of Random Domino Automaton in "inverse-power" case is presented. A link with Motzkin numbers allows to present explicit form of asymptotic behaviour of the automaton.
Institute of Scientific and Technical Information of China (English)
王益; Morita Kenichi
2006-01-01
Symbolic dynamics of cellular automata is introduced by coarse-graining the temporal evolution orbits. Evolution languages are defined. By using the theory of formal languages and automata, the complexity of evolution languages of the elementary cellular automaton of rule 146 is studied and it is proved that its width 1-evolution language is regular, but for every n ≥ 2 its width n-evolution language is not context-free but context-sensitive. Also, the same results hold for the equivalent (under conjugation) elementary cellular automaton of rule 182.
Genetic Algorithm Calibration of Probabilistic Cellular Automata for Modeling Mining Permit Activity
Louis, S.J.; Raines, G.L.
2003-01-01
We use a genetic algorithm to calibrate a spatially and temporally resolved cellular automata to model mining activity on public land in Idaho and western Montana. The genetic algorithm searches through a space of transition rule parameters of a two dimensional cellular automata model to find rule parameters that fit observed mining activity data. Previous work by one of the authors in calibrating the cellular automaton took weeks - the genetic algorithm takes a day and produces rules leading to about the same (or better) fit to observed data. These preliminary results indicate that genetic algorithms are a viable tool in calibrating cellular automata for this application. Experience gained during the calibration of this cellular automata suggests that mineral resource information is a critical factor in the quality of the results. With automated calibration, further refinements of how the mineral-resource information is provided to the cellular automaton will probably improve our model.
Finite Random Domino Automaton
Bialecki, Mariusz
2012-01-01
Finite version of Random Domino Automaton (FRDA) - recently proposed a toy model of earthquakes - is investigated. Respective set of equations describing stationary state of the FRDA is derived and compared with infinite case. It is shown that for the system of big size, these equations are coincident with RDA equations. We demonstrate a non-existence of exact equations for size N bigger then 4 and propose appropriate approximations, the quality of which is studied in examples obtained within Markov chains framework. We derive several exact formulas describing properties of the automaton, including time aspects. In particular, a way to achieve a quasi-periodic like behaviour of RDA is presented. Thus, based on the same microscopic rule - which produces exponential and inverse-power like distributions - we extend applicability of the model to quasi-periodic phenomena.
A cellular automata model of Ebola virus dynamics
Burkhead, Emily; Hawkins, Jane
2015-11-01
We construct a stochastic cellular automaton (SCA) model for the spread of the Ebola virus (EBOV). We make substantial modifications to an existing SCA model used for HIV, introduced by others and studied by the authors. We give a rigorous analysis of the similarities between models due to the spread of virus and the typical immune response to it, and the differences which reflect the drastically different timing of the course of EBOV. We demonstrate output from the model and compare it with clinical data.
Car Deceleration Considering Its Own Velocity in Cellular Automata Model
Institute of Scientific and Technical Information of China (English)
LI Ke-Ping
2006-01-01
In this paper, we propose a new cellular automaton model, which is based on NaSch traffic model. In our method, when a car has a larger velocity, if the gap between the car and its leading car is not enough large, it will decrease. The aim is that the following car has a buffer space to decrease its velocity at the next time, and then avoid to decelerate too high. The simulation results show that using our model, the car deceleration is realistic, and is closer to thefield measure than that of NaSch model.
Cellular automata modelling of phase-change memories
Institute of Scientific and Technical Information of China (English)
Wanhua Yu; David Wright
2008-01-01
A novel approach to modelling phase-transition processes in phase change materials used for optical and electrical data storage applications is presented. The model is based on a cellular automaton (CA) approach to predict crystallization behaviour that is linked to thermal and electrical simulations to enable the study of the data writing and erasing processes. The CA approach is shown to be able to predict the evolution of the microstructure during the rapid heating and cooling cycles pertinent to data storage technology, and maps crystallization behaviour on the nanoscale. A simple example based on possible future nonvolatile phase-change random access solid-state memory is presented.
Gosálvez, M. A.; Ferrando, N.; Fedoryshyn, Y.; Leuthold, J.; McPeak, K. M.
2016-04-01
We combine experiments and simulations to study the acceleration of anisotropic etching of crystalline silicon at the mask-substrate interface, as a function of the coordination number of the substrate atoms located at the junction between obtuse-angled {1 1 1} facets and the mask layer. Atomistic simulations based on the use of the continuous cellular automaton (CCA) conclude that the interface atoms react faster with the etchant, thus initiating a step flow process that results in increased etch rates for the obtuse facets. By generating a wide range of complex cavities on high-index silicon wafers with a single-side, single-step etching, the comparison of the experimental and simulated results strongly indicates that the CCA method is suitable for accurately describing not only the development of micron-scaled structures but also, for the first time, the formation of submicron shapes. The study also describes the acceleration of obtuse facets formed through double-side etching, obtaining results in good agreement with previous experiments.
Cellular Automata Model for Elastic Solid Material
Institute of Scientific and Technical Information of China (English)
DONG Yin-Feng; ZHANG Guang-Cai; XU Ai-Guo; GAN Yan-Biao
2013-01-01
The Cellular Automaton (CA) modeling and simulation of solid dynamics is a long-standing difficult problem.In this paper we present a new two-dimensional CA model for solid dynamics.In this model the solid body is represented by a set of white and black particles alternatively positioned in the x-and y-directions.The force acting on each particle is represented by the linear summation of relative displacements of the nearest-neighboring particles.The key technique in this new model is the construction of eight coefficient matrices.Theoretical and numerical analyses show that the present model can be mathematically described by a conservative system.So,it works for elastic material.In the continuum limit the CA model recovers the well-known Navier equation.The coefficient matrices are related to the shear module and Poisson ratio of the material body.Compared with previous CA model for solid body,this model realizes the natural coupling of deformations in the x-and y-directions.Consequently,the wave phenomena related to the Poisson ratio effects are successfully recovered.This work advances significantly the CA modeling and simulation in the field of computational solid dynamics.
Directory of Open Access Journals (Sweden)
M. Ignatieva
1994-06-01
Full Text Available Over the last thirty years the long range goal of the research project of the Speech Statistics (Sp.St. international group is to develop and implement in computer simulation psycholinguistically realistic model of language behavior. This model, named the linguistic automaton /LA/, is a complex of hardware, software lingware /linguistic means of support/ and CALL-ware. The Sp.St. group was developing many programs to model different aspects of natural language /NL/ processing by man. The multilevel and multilingual LA-architecture integrates in a flexible way these programs and provides a control strategy capable of adapting itself to the requirements of a particular task. It permits a modular implementation of LA, making the modification of existing processes and the integration of new capacities in the LA-system easier.
Directory of Open Access Journals (Sweden)
Wang Kuangfei
2010-02-01
Full Text Available The microstructural evolution of Ti-45 at.%Al alloy during directional solidification was simulated by applying a solute diffusion controlled solidification model. The obtained results have shown that under high thermal gradients the stable primary spacing can be adjusted via branching or competitive growth. For dendritic structures formed under a high thermal gradient, the secondary dendrite arms are developed not very well in many cases due to the branching mechanism under a constrained dendritic growth condition. Furthermore, it has been observed that, with increasing pulling velocity, there exists a cell/dendrite transition region consisting of cells and dendrites, which varies with the thermal gradient in a contradicting way, i.e. increase of the thermal gradient leading to the decrease of the range of the transition region. The simulations agree reasonably well with experiment results.
Process Expression of Security Automaton
Institute of Scientific and Technical Information of China (English)
无
2007-01-01
Security is an essential aspect for mobile systems. Usually, mobile system modeling and its security policies specification are realized in different techniques. So when constructed a mobile system using formal methods it is difficult to verify if the system comply with any given security policies. A method was introduced to express security automata which specifying enforceable security policies as processes in an extended π-calculus. In this extended π-calculus, an exception termination process was introduced, called bad. Any input which violating a security automaton will correspond to a step of transformation of the process that specifying the security automaton to exception termination process. Our method shows that any security automata which specifying enforceable security policies would decide a process in the extended π-calculus.
Modeling evolution and immune system by cellular automata
Energy Technology Data Exchange (ETDEWEB)
Bezzi, M. [Scuola Internazionale Superiore di Studi Avanzati, Trieste (Italy); Istituto Nazionale di Fisica della Materia, Florence (Italy)
2001-07-01
In this review the behavior of two different biological systems is investigated using cellular automata. Starting from this spatially extended approach it is also tried, in some cases, to reduce the complexity of the system introducing mean-field approximation, and solving (or trying to solve) these simplified systems. It is discussed the biological meaning of the results, the comparison with experimental data (if available) and the different features between spatially extended and mean-field versions. The biological systems considered in this review are the following: Darwinian evolution in simple ecosystems and immune system response. In the first section the main features of molecular evolution are introduced, giving a short survey of genetics for physicists and discussing some models for prebiotic systems and simple ecosystems. It is also introduced a cellular automaton model for studying a set of evolving individuals in a general fitness landscape, considering also the effects of co-evolution. In particular the process of species formation (speciation) is described in sect. 5. The second part deals with immune system modeling. The biological features of immune response are discussed, as well as it is introduced the concept of shape space and of idiotypic network. More detailed reviews which deal with immune system models (mainly focused on idiotypic network models) can be found. Other themes here discussed: the applications of CA to immune system modeling, two complex cellular automata for humoral and cellular immune response. Finally, it is discussed the biological data and the general conclusions are drawn in the last section.
Modeling evolution and immune system by cellular automata
International Nuclear Information System (INIS)
In this review the behavior of two different biological systems is investigated using cellular automata. Starting from this spatially extended approach it is also tried, in some cases, to reduce the complexity of the system introducing mean-field approximation, and solving (or trying to solve) these simplified systems. It is discussed the biological meaning of the results, the comparison with experimental data (if available) and the different features between spatially extended and mean-field versions. The biological systems considered in this review are the following: Darwinian evolution in simple ecosystems and immune system response. In the first section the main features of molecular evolution are introduced, giving a short survey of genetics for physicists and discussing some models for prebiotic systems and simple ecosystems. It is also introduced a cellular automaton model for studying a set of evolving individuals in a general fitness landscape, considering also the effects of co-evolution. In particular the process of species formation (speciation) is described in sect. 5. The second part deals with immune system modeling. The biological features of immune response are discussed, as well as it is introduced the concept of shape space and of idiotypic network. More detailed reviews which deal with immune system models (mainly focused on idiotypic network models) can be found. Other themes here discussed: the applications of CA to immune system modeling, two complex cellular automata for humoral and cellular immune response. Finally, it is discussed the biological data and the general conclusions are drawn in the last section
The Research of Image Encryption Algorithm Based on Chaos Cellular Automata
Shuiping Zhang; Huijune Luo
2012-01-01
The Research presents an image encryption algorithm which bases on chaotic cellular automata. This algorithm makes use of features that extreme sensitivity of chaotic system to initial conditions, the cellular automaton with a high degree of parallel processing. The encryption algorithm uses two-dimensional chaotic system to Encrypt image, Then establish a cellular automaton model on the initial encrypted image. Encryption key of this algorithm is made up of the initial value by the two-dimen...
Endy, Drew; Brent, Roger
2001-01-01
Representations of cellular processes that can be used to compute their future behaviour would be of general scientific and practical value. But past attempts to construct such representations have been disappointing. This is now changing. Increases in biological understanding combined with advances in computational methods and in computer power make it possible to foresee construction of useful and predictive simulations of cellular processes.
DEFF Research Database (Denmark)
Weyland, Mathias; Fellermann, Harold; Hadorn, Maik;
2013-01-01
In this paper, we propose the MATCHIT Automaton (MA), a theoretical framework that shows how to improve the yield of the synthesis of chemical polymer reactions. This is achieved by separating sub-steps of the path of syn- thesis into compartments. We use chemical containers (chemtainers) to carry...... the substances through a sequence of compartments. We describe the MA in mathematical terms and show how it can be configured automatically in order to synthesize a branched target polymer given as input. We discuss how the MA models compartmentalized structures found in cells, such as the endoplasmatic...
Using synchronization to improve the forecasting of large relaxations in a cellular-automaton model
DEFF Research Database (Denmark)
González, Á.; Gómez, J.B.; Vázquez-Prada, M.;
2004-01-01
phenomena. In the new strategy, copies (clones) of the original system (the master) are defined, and they are driven using rules that tend to synchronize them with the master dynamics. The observation of definite patterns in the state of the clones is the signal for connecting an alarm in the original...
Fluctuation in option pricing using cellular automata based market models
Gao, Yuying; Beni, Gerardo
2005-05-01
A new agent-based Cellular Automaton (CA) computational algorithm for option pricing is proposed. CAs have been extensively used in modeling complex dynamical systems but not in modeling option prices. Compared with traditional tools, which rely on guessing volatilities to calculate option prices, the CA model is directly addressing market mechanisms and simulates price fluctuation from aggregation of actions made by interacting individual market makers in a large population. This paper explores whether CA models can provide reasonable good answers to pricing European options. The Black-Scholes model and the Binomial Tree model are used for comparison. Comparison reveals that CA models perform reasonably well in pricing options, reproducing overall characteristics of random walk based model, while at the same time providing plausible results for the 'fat-tail' phenomenon observed in many markets. We also show that the binomial tree model can be obtained from a CA rule. Thus, CA models are suitable tools to generalize the standard theories of option pricing.
On reversibility of cellular automata with periodic boundary conditions
Energy Technology Data Exchange (ETDEWEB)
Nobe, Atsushi [Graduate School of Engineering Science, Osaka University, Machikaneyama-cho 1-3, Toyonaka, Osaka 560-8531 (Japan); Yura, Fumitaka [Imai Quantum Computing and Information Project, ERATO, JST, Daini Hongo White Bldg 201, 5-28-3 Hongo, Bunkyo, Tokyo 113-0033 (Japan)
2004-06-04
Reversibility of one-dimensional cellular automata with periodic boundary conditions is discussed. It is shown that there exist exactly 16 reversible elementary cellular automaton rules for infinitely many cell sizes by means of a correspondence between elementary cellular automaton and the de Bruijn graph. In addition, a sufficient condition for reversibility of three-valued and two-neighbour cellular automaton is given.
Mathematical Modeling of Cellular Metabolism.
Berndt, Nikolaus; Holzhütter, Hermann-Georg
2016-01-01
Cellular metabolism basically consists of the conversion of chemical compounds taken up from the extracellular environment into energy (conserved in energy-rich bonds of organic phosphates) and a wide array of organic molecules serving as catalysts (enzymes), information carriers (nucleic acids), and building blocks for cellular structures such as membranes or ribosomes. Metabolic modeling aims at the construction of mathematical representations of the cellular metabolism that can be used to calculate the concentration of cellular molecules and the rates of their mutual chemical interconversion in response to varying external conditions as, for example, hormonal stimuli or supply of essential nutrients. Based on such calculations, it is possible to quantify complex cellular functions as cellular growth, detoxification of drugs and xenobiotic compounds or synthesis of exported molecules. Depending on the specific questions to metabolism addressed, the methodological expertise of the researcher, and available experimental information, different conceptual frameworks have been established, allowing the usage of computational methods to condense experimental information from various layers of organization into (self-) consistent models. Here, we briefly outline the main conceptual frameworks that are currently exploited in metabolism research.
Directory of Open Access Journals (Sweden)
Mondry Adrian
2004-08-01
Full Text Available Abstract Background Many arrhythmias are triggered by abnormal electrical activity at the ionic channel and cell level, and then evolve spatio-temporally within the heart. To understand arrhythmias better and to diagnose them more precisely by their ECG waveforms, a whole-heart model is required to explore the association between the massively parallel activities at the channel/cell level and the integrative electrophysiological phenomena at organ level. Methods We have developed a method to build large-scale electrophysiological models by using extended cellular automata, and to run such models on a cluster of shared memory machines. We describe here the method, including the extension of a language-based cellular automaton to implement quantitative computing, the building of a whole-heart model with Visible Human Project data, the parallelization of the model on a cluster of shared memory computers with OpenMP and MPI hybrid programming, and a simulation algorithm that links cellular activity with the ECG. Results We demonstrate that electrical activities at channel, cell, and organ levels can be traced and captured conveniently in our extended cellular automaton system. Examples of some ECG waveforms simulated with a 2-D slice are given to support the ECG simulation algorithm. A performance evaluation of the 3-D model on a four-node cluster is also given. Conclusions Quantitative multicellular modeling with extended cellular automata is a highly efficient and widely applicable method to weave experimental data at different levels into computational models. This process can be used to investigate complex and collective biological activities that can be described neither by their governing differentiation equations nor by discrete parallel computation. Transparent cluster computing is a convenient and effective method to make time-consuming simulation feasible. Arrhythmias, as a typical case, can be effectively simulated with the methods
Cellular automata a parallel model
Mazoyer, J
1999-01-01
Cellular automata can be viewed both as computational models and modelling systems of real processes. This volume emphasises the first aspect. In articles written by leading researchers, sophisticated massive parallel algorithms (firing squad, life, Fischer's primes recognition) are treated. Their computational power and the specific complexity classes they determine are surveyed, while some recent results in relation to chaos from a new dynamic systems point of view are also presented. Audience: This book will be of interest to specialists of theoretical computer science and the parallelism challenge.
Institute of Scientific and Technical Information of China (English)
梁龙; 焦阳
2015-01-01
肿瘤的侵袭和转移行为，常常是导致病人的死亡的原因。而人们对这些由复杂的肿瘤-宿主以及肿瘤细胞与细胞之间相互作用而产生的群体性行为知之甚少。对这一过程了解的加深，需要多学科间的合作。在本篇文章中，作者将简要回顾肿瘤物理领域的一种新手段，即近年来由作者参与的通过元胞自动机(CA)模型来研究微环境促进的实体瘤侵袭性生长的研究，该模型整合了一系列微观的肿瘤宿主相互作用，包含了肿瘤细胞对细胞外基质的降解，肿瘤细胞趋向养分的迁移，肿瘤生长导致的局部组织压力累积以及该压力对局部的肿瘤-宿主界面稳定性的影响，并且，肿瘤生长时细胞间的粘连也被明确地考虑进来。该元胞自动机模型能成功地重现出一系列的标志性的肿瘤侵袭行为，这有力地表明出该模型的有效性和预测能力。这一模型，如果能与临床数据结合，理论上能够拓展从医学数据中得到的现有结论，帮助设计新的实验，检验假说，并且在实验难以检测到的情形下，预测肿瘤的行为，协助癌症的早期诊断和预后，并针对不同病人，提出最优的个体化医疗方案。%Emergence of invasive and metastatic behavior in malignant tumors can often lead to fatal outcomes for patients. The collective malignant tumor behavior resulting from the complex tumor-host interactions and the interactions between the tumor cells are currently poorly understood. Progress towards such an understanding necessarily requires an interdis-ciplinary and collaborative effort. In this paper, we review a state-of-art simulation technique, i.e., a cellular automaton (CA) model which has been developed by the authors over the past few years to investigate microenvironment-enhanced invasive growth of avascular solid tumors. This CA model incorporates a variety of microscopic-scale tumor-host in
Directory of Open Access Journals (Sweden)
M. Górny
2012-12-01
Full Text Available The mathematical model of the globular eutectic solidification in 2D was designed. Proposed model is based on the Cellular AutomatonFinite Differences (CA-FD calculation method. Model has been used for studies of the primary austenite and of globular eutectic grainsgrowth during the ductile iron solidification in the thin wall casting. Model takes into account, among other things, non-uniformtemperature distribution in the casting wall cross-section, kinetics of the austenite and graphite grains nucleation, and non-equilibriumnature of the interphase boundary migration. Calculation of eutectic saturation influence (Sc = 0.9 - 1.1 on microstructure (austenite and graphite fraction, density of austenite and graphite grains and temperature curves in 2 mm wall ductile iron casting has been done.
Cellular automata modelling of SEIRS
Institute of Scientific and Technical Information of China (English)
Liu Quan-Xing; Jin Zhen
2005-01-01
In this paper the SEIRS epidemic spread is analysed, and a two-dimensional probability cellular automata model for SEIRS is presented. Each cellular automation cell represents a part of the population that may be found in one of five states of individuals: susceptible, exposed (or latency), infected, immunized (or recovered) and death. Here studied are the effects of two cases on the epidemic spread. i.e. the effects of non-segregation and segregation on the latency and the infected of population. The conclusion is reached that the epidemic will persist in the case of non-segregation but it will decrease in the case of segregation. The proposed model can serve as a basis for the development of algorithms to simulate real epidemics based on real data. Last we find the density series of the exposed and the infected will fluctuate near a positive equilibrium point, when the constant for the immunized is less than its corresponding constant τ0. Our theoretical results are verified by numerical simulations.
Cellular systems biology profiling applied to cellular models of disease.
Giuliano, Kenneth A; Premkumar, Daniel R; Strock, Christopher J; Johnston, Patricia; Taylor, Lansing
2009-11-01
Building cellular models of disease based on the approach of Cellular Systems Biology (CSB) has the potential to improve the process of creating drugs as part of the continuum from early drug discovery through drug development and clinical trials and diagnostics. This paper focuses on the application of CSB to early drug discovery. We discuss the integration of protein-protein interaction biosensors with other multiplexed, functional biomarkers as an example in using CSB to optimize the identification of quality lead series compounds.
Kuentz, M
2003-01-01
A two-dimensional lattice gas automaton (LGA) is used for simulating concentration-dependent diffusion in a microscopically random heterogeneous structure. The heterogeneous medium is initialized at a low density rho sub 0 and then submitted to a steep concentration gradient by continuous injection of particles at a concentration rho sub 1 >rho sub 0 from a one-dimensional source to model spreading of a density front. Whereas the nonlinear diffusion equation generally used to describe concentration-dependent diffusion processes predicts a scaling law of the type phi = xt sup - sup 1 sup / sup 2 in one dimension, the spreading process is shown to deviate from the expected t sup 1 sup / sup 2 scaling. The time exponent is found to be larger than 1/2, i.e. diffusion of the density front is enhanced with respect to standard Fickian diffusion. It is also established that the anomalous time exponent decreases as time elapses: anomalous spreading is thus not a timescaling process. We demonstrate that occurrence of a...
Khan, Muhammad Sadiq Ali; Yousuf, Sidrah
2016-03-01
Cardiac Electrical Activity is commonly distributed into three dimensions of Cardiac Tissue (Myocardium) and evolves with duration of time. The indicator of heart diseases can occur randomly at any time of a day. Heart rate, conduction and each electrical activity during cardiac cycle should be monitor non-invasively for the assessment of "Action Potential" (regular) and "Arrhythmia" (irregular) rhythms. Many heart diseases can easily be examined through Automata model like Cellular Automata concepts. This paper deals with the different states of cardiac rhythms using cellular automata with the comparison of neural network also provides fast and highly effective stimulation for the contraction of cardiac muscles on the Atria in the result of genesis of electrical spark or wave. The specific formulated model named as "States of automaton Proposed Model for CEA (Cardiac Electrical Activity)" by using Cellular Automata Methodology is commonly shows the three states of cardiac tissues conduction phenomena (i) Resting (Relax and Excitable state), (ii) ARP (Excited but Absolutely refractory Phase i.e. Excited but not able to excite neighboring cells) (iii) RRP (Excited but Relatively Refractory Phase i.e. Excited and able to excite neighboring cells). The result indicates most efficient modeling with few burden of computation and it is Action Potential during the pumping of blood in cardiac cycle. PMID:27087101
Understanding cisplatin resistance using cellular models.
STORDAL, BRITTA KRISTINA
2007-01-01
PUBLISHED Many mechanisms of cisplatin resistance have been proposed from studies of cellular models of resistance including changes in cellular drug accumulation, detoxification of the drug, inhibition of apoptosis and repair of the DNA adducts. A series of resistant models were developed from CCRF-CEM leukaemia cells with increasing doses of cisplatin from 100 ng/ml. This produced increasing resistance up to 7-fold with a treatment dose of 1.6 ?g/ml. Cisplatin resistance i...
Understanding cisplatin resistance using cellular models
Stordal, Britta; Davey, Mary
2007-01-01
Many mechanisms of cisplatin resistance have been proposed from studies of cellular models of resistance including changes in cellular drug accumulation, detoxification of the drug, inhibition of apoptosis and repair of the DNA adducts. A series of resistant models were developed from CCRF-CEM leukaemia cells with increasing doses of cisplatin from 100 ng/ml. This produced increasing resistance up to 7-fold with a treatment dose of 1.6 microg/ml. Cisplatin resistance in these cells correlated...
Institute of Scientific and Technical Information of China (English)
Jia Ning; Ma Shou-Feng; Zhong Shi-Quan
2012-01-01
Previous studies suggest that there are three different jam phases in the cellular automata automaton model with a slow-to-start rule under open boundaries.In the present paper,the dynamics of each free-flow-jam phase transition is studied.By analysing the microscopic behaviour of the traffic flow,we obtain analytical results on the phase transition dynamics.Our results can describe the detailed time evolution of the system during phase transition,while they provide good approximation for the numerical simulation data.These findings can perfectly explain the microscopic mechanism and details of the boundary-triggered phase transition dynamics.
Incorporating scale invariance into the cellular associative neural network
Burles, Nathan; O'Keefe, Simon; Austin, James
2014-01-01
This paper describes an improvement to the Cellular Associative Neural Network, an architecture based on the distributed model of a cellular automaton, allowing it to perform scale invariant pattern matching. The use of tensor products and superposition of patterns allows the system to recall patterns at multiple resolutions simultaneously. Our experimental results show that the architecture is capable of scale invariant pattern matching, but that further investigation is needed to reduce the...
Automaton based detection of affected cells in three dimensional biological system
Dundas, Jitesh
2011-01-01
The aim of this research review is to propose the logic and search mechanism for the development of an artificially intelligent automaton (AIA) that can find affected cells in a 3-dimensional biological system. Research on the possible application of such automatons to detect and control cancer cells in the human body are greatly focused MRI and PET scans finds the affected regions at the tissue level even as we can find the affected regions at the cellular level using the framework. The AIA may be designed to ensure optimum utilization as they record and might control the presence of affected cells in a human body. The proposed models and techniques can be generalized and used in any application where cells are injured or affected by some disease or accident. The best method to import AIA into the body without surgery or injection is to insert small pill like automata, carrying material viz drugs or leukocytes that is needed to correct the infection. In this process, the AIA can be compared to nano pills to ...
Directory of Open Access Journals (Sweden)
Ángel Monteagudo
Full Text Available Cancer can be viewed as an emergent behavior in terms of complex system theory and artificial life, Cellular Automata (CA being the tool most used for studying and characterizing the emergent behavior. Different approaches with CA models were used to model cancer growth. The use of the abstract model of acquired cancer hallmarks permits the direct modeling at cellular level, where a cellular automaton defines the mitotic and apoptotic behavior of cells, and allows for an analysis of different dynamics of the cellular system depending on the presence of the different hallmarks. A CA model based on the presence of hallmarks in the cells, which includes a simulation of the behavior of Cancer Stem Cells (CSC and their implications for the resultant growth behavior of the multicellular system, was employed. This modeling of cancer growth, in the avascular phase, was employed to analyze the effect of cancer treatments in a cancer stem cell context. The model clearly explains why, after treatment against non-stem cancer cells, the regrowth capability of CSCs generates a faster regrowth of tumor behavior, and also shows that a continuous low-intensity treatment does not favor CSC proliferation and differentiation, thereby allowing an unproblematic control of future tumor regrowth. The analysis performed indicates that, contrary to the current attempts at CSC control, trying to make CSC proliferation more difficult is an important point to consider, especially in the immediate period after a standard treatment for controlling non-stem cancer cell proliferation.
Boyer, D.; López-Corona, O.
2009-01-01
We introduce a model of traveling agents ({\\it e.g.} frugivorous animals) who feed on randomly located vegetation patches and disperse their seeds, thus modifying the spatial distribution of resources in the long term. It is assumed that the survival probability of a seed increases with the distance to the parent patch and decreases with the size of the colonized patch. In turn, the foraging agents use a deterministic strategy with memory, that makes them visit the largest possible patches ac...
Animal and cellular models of human disease
Arends, Mark; White, Eric; Whitelaw, Christopher
2016-01-01
In this eighteenth (2016) Annual Review Issue of The Journal of Pathology, we present a collection of 19 invited review articles that cover different aspects of cellular and animal models of disease. These include genetically-engineered models, chemically-induced models, naturally-occurring models, and combinations thereof, with the focus on recent methodological and conceptual developments across a wide range of human diseases.
Reversible quantum cellular automata
Schumacher, B
2004-01-01
We define quantum cellular automata as infinite quantum lattice systems with discrete time dynamics, such that the time step commutes with lattice translations and has strictly finite propagation speed. In contrast to earlier definitions this allows us to give an explicit characterization of all local rules generating such automata. The same local rules also generate the global time step for automata with periodic boundary conditions. Our main structure theorem asserts that any quantum cellular automaton is structurally reversible, i.e., that it can be obtained by applying two blockwise unitary operations in a generalized Margolus partitioning scheme. This implies that, in contrast to the classical case, the inverse of a nearest neighbor quantum cellular automaton is again a nearest neighbor automaton. We present several construction methods for quantum cellular automata, based on unitaries commuting with their translates, on the quantization of (arbitrary) reversible classical cellular automata, on quantum c...
Institute of Scientific and Technical Information of China (English)
张俊娜; 范海菊
2012-01-01
In this paper, a new approach is proposed to solve urgent evacuation in fire disaster by combining artificial potential field with cellular automata model. First, aiming at the evacuated individual in fire, a micro-model is established using potential field in which factors influencing human behavior are quantified. Second, several cellular-mobile rules are constructed based on ihe above model to describe the next step of walking path. Finally, the evacuation system is simulated by VC+ + developing environment to represent the entire dynamic process, and then collects the data about two cases: whether to open e-mergency exits and whether lo conduct personnel persuasion. Simulation results show this system can describe the evacuation process accurately, which can provide us with detailed guidance.%基于元胞自动机模型对公众场合火灾中人员疏散进行研究,通过对火灾中疏散个体微观建模,结合人工势场将影响人行为的火、门和障碍物等各种因素量化,构建出元胞的移动规则,从而确定元胞下一时间步长的移动路径.仿真结果显示,该系统能够较真实地模拟人员疏散过程.
Cellular automata modeling of pedestrian's crossing dynamics
Institute of Scientific and Technical Information of China (English)
张晋; 王慧; 李平
2004-01-01
Cellular automata modeling techniques and the characteristics of mixed traffic flow were used to derive the 2-dimensional model presented here for simulation of pedestrian's crossing dynamics.A conception of "stop point" is introduced to deal with traffic obstacles and resolve conflicts among pedestrians or between pedestrians and the other vehicles on the crosswalk.The model can be easily extended,is very efficient for simulation of pedestrian's crossing dynamics,can be integrated into traffic simulation software,and has been proved feasible by simulation experiments.
Dauphin, C.; Vilmer, N.; Anastasiadis, A.
2007-06-01
Context: We study the acceleration and radiation of electrons and ions interacting with multiple small-scale dissipation regions resulting from the magnetic energy release process. Aims: We aim to calculate the distribution functions of the kinetic energy of the particles and the X-ray spectra and γ-ray fluxes produced by the accelerated particles. Methods: The evolution of the magnetic energy released in an active region is mimicked by a cellular automaton model based on the concept of self-organized criticality. Each burst of magnetic energy release is associated with a reconnecting current sheet (RCS) in which the particles are accelerated by a direct electric field. Results: We calculate the energy gain of the particles (ions and electrons) for three different magnetic configurations of the RCS after their interactions with a given number of RCS. We finally compare our results with existing observations. Conclusions: The results of our simulation can reproduce several properties of the observations such as variable electron and ion energy contents and γ-ray line ratio. Even if very flat X-ray spectra have been reported in a few events, the X-ray spectra produced in this model are too flat when compared to most X-ray observations.
A Mathematical Model for Cisplatin Cellular Pharmacodynamics
Directory of Open Access Journals (Sweden)
Ardith W. El-Kareh
2003-03-01
Full Text Available A simple theoretical model for the cellular pharmacodynamics of cisplatin is presented. The model, which takes into account the kinetics of cisplatin uptake by cells and the intracellular binding of the drug, can be used to predict the dependence of survival (relative to controls on the time course of extracellular exposure. Cellular pharmacokinetic parameters are derived from uptake data for human ovarian and head and neck cancer cell lines. Survival relative to controls is assumed to depend on the peak concentration of DNA-bound intracellular platinum. Model predictions agree well with published data on cisplatin cytotoxicity for three different cancer cell lines, over a wide range of exposure times. In comparison with previously published mathematical models for anticancer drug pharmacodynamics, the present model provides a better fit to experimental data sets including long exposure times (∼100 hours. The model provides a possible explanation for the fact that cell kill correlates well with area under the extracellular concentration-time curve in some data sets, but not in others. The model may be useful for optimizing delivery schedules and for the dosing of cisplatin for cancer therapy.
Cellular automata modelling of hantarvirus infection
Energy Technology Data Exchange (ETDEWEB)
Abdul Karim, Mohamad Faisal [School of Distance Education, Universiti Sains Malaysia, Minden 11800, Penang (Malaysia)], E-mail: faisal@usm.my; Md Ismail, Ahmad Izani [School of Mathematical Sciences, Universiti Sains Malaysia, Minden 11800, Penang (Malaysia)], E-mail: izani@cs.usm.my; Ching, Hoe Bee [School of Mathematical Sciences, Universiti Sains Malaysia, Minden 11800, Penang (Malaysia)], E-mail: Bee_Ching_Janice_Hoe@dell.com
2009-09-15
Hantaviruses are a group of viruses which have been identified as being responsible for the outbreak of diseases such as the hantavirus pulmonary syndrome. In an effort to understand the characteristics and dynamics of hantavirus infection, mathematical models based on differential equations have been developed and widely studied. However, such models neglect the local characteristics of the spreading process and do not include variable susceptibility of individuals. In this paper, we develop an alternative approach based on cellular automata to analyze and study the spatiotemporal patterns of hantavirus infection.
The Research of Image Encryption Algorithm Based on Chaos Cellular Automata
Directory of Open Access Journals (Sweden)
Shuiping Zhang
2012-02-01
Full Text Available The Research presents an image encryption algorithm which bases on chaotic cellular automata. This algorithm makes use of features that extreme sensitivity of chaotic system to initial conditions, the cellular automaton with a high degree of parallel processing. The encryption algorithm uses two-dimensional chaotic system to Encrypt image, Then establish a cellular automaton model on the initial encrypted image. Encryption key of this algorithm is made up of the initial value by the two-dimensional chaotic systems, parameters, two-dimensional cellular automata local evolution rules f and iterations n. Experimental results shows that the algorithm has features that high efficiency, better security, sensitivity to the key and so on.
Institute of Scientific and Technical Information of China (English)
张琴; 张友静; 张滔
2012-01-01
This paper presents an improved Case-Based Reasoning based Cellular Automata model (CBR-CA) in modeling multiple land covers changes. Currently, various research communities have tried to build and apply mathematic models with CBR or CA as systemic method to study concerning specific geo-scientific problems. However.original CBR-CA model has problems in modeling numerous class changes,especially in modeling land cover changes with large region and long time. In this paper,an improved CBR-CA is designed to calculate conversion probabilities for computing multiple land cover. Firstly, the macro transition probability of each class is added to the objective function, which can express the characteristic of multiple class changes. Then, considering the time weight, which can reflect the space-time changes of land cover, the final probability function is derived by both. In addition, due to variation of land cover types and their spatial relationships in complex geography changes, Monte Carlo is made use of deciding the final transition classes. This model has been applied to simulate the land cover changes of the source of the Yellow River in 1995,2000 and 2006,and has been applied to predict this region in 2012 and 2018 by building the historical case-based database with the land cover data in 1977 and 1985. The simulated and actual patterns are basic consistent in amounts,accounting for 0.002% ,0.012% and 0.005% of the total error,respectively, the space accuracies totally beyond 70%. The result indicates that this model can simulate and predict the land cover changes which are with multiple classes and with long time.%对基于案例推理的元胞自动机模型(CBR-CA)进行改进,将各类别的宏观转移概率添加到目标函数中,体现各类别的转变特征,并增加时间权重来确定转移概率,实现时间尺度上的模拟；由于土地覆盖变化的多样性和空间结构的复杂性,利用Monte Carlo(M-C)法确定土地覆盖的最终转换
Cellular Automata Models for Diffusion of Innovations
Fuks, H; Fuks, Henryk; Boccara, Nino
1997-01-01
We propose a probabilistic cellular automata model for the spread of innovations, rumors, news, etc. in a social system. The local rule used in the model is outertotalistic, and the range of interaction can vary. When the range R of the rule increases, the takeover time for innovation increases and converges toward its mean-field value, which is almost inversely proportional to R when R is large. Exact solutions for R=1 and $R=\\infty$ (mean-field) are presented, as well as simulation results for other values of R. The average local density is found to converge to a certain stationary value, which allows us to obtain a semi-phenomenological solution valid in the vicinity of the fixed point n=1 (for large t).
A cellular automata model for ant trails
Indian Academy of Sciences (India)
Sibel Gokce; Ozhan Kayacan
2013-05-01
In this study, the unidirectional ant traffic flow with U-turn in an ant trail was investigated using one-dimensional cellular automata model. It is known that ants communicate with each other by dropping a chemical, called pheromone, on the substrate. Apart from the studies in the literature, it was considered in the model that (i) ant colony consists of two kinds of ants, goodand poor-smelling ants, (ii) ants might make U-turn for some special reasons. For some values of densities of good- and poor-smelling ants, the flux and mean velocity of the colony were studied as a function of density and evaporation rate of pheromone.
Modeling the topological organization of cellular processes.
Giavitto, Jean-Louis; Michel, Olivier
2003-07-01
The cell as a dynamical system presents the characteristics of having a dynamical structure. That is, the exact phase space of the system cannot be fixed before the evolution and integrative cell models must state the evolution of the structure jointly with the evolution of the cell state. This kind of dynamical systems is very challenging to model and simulate. New programming concepts must be developed to ease their modeling and simulation. In this context, the goal of the MGS project is to develop an experimental programming language dedicated to the simulation of this kind of systems. MGS proposes a unified view on several computational mechanisms (CHAM, Lindenmayer systems, Paun systems, cellular automata) enabling the specification of spatially localized computations on heterogeneous entities. The evolution of a dynamical structure is handled through the concept of transformation which relies on the topological organization of the system components. An example based on the modeling of spatially distributed biochemical networks is used to illustrate how these notions can be used to model the spatial and temporal organization of intracellular processes. PMID:12915272
Cellular automata modelling of biomolecular networks dynamics.
Bonchev, D; Thomas, S; Apte, A; Kier, L B
2010-01-01
The modelling of biological systems dynamics is traditionally performed by ordinary differential equations (ODEs). When dealing with intracellular networks of genes, proteins and metabolites, however, this approach is hindered by network complexity and the lack of experimental kinetic parameters. This opened the field for other modelling techniques, such as cellular automata (CA) and agent-based modelling (ABM). This article reviews this emerging field of studies on network dynamics in molecular biology. The basics of the CA technique are discussed along with an extensive list of related software and websites. The application of CA to networks of biochemical reactions is exemplified in detail by the case studies of the mitogen-activated protein kinase (MAPK) signalling pathway, the FAS-ligand (FASL)-induced and Bcl-2-related apoptosis. The potential of the CA method to model basic pathways patterns, to identify ways to control pathway dynamics and to help in generating strategies to fight with cancer is demonstrated. The different line of CA applications presented includes the search for the best-performing network motifs, an analysis of importance for effective intracellular signalling and pathway cross-talk. PMID:20373215
Liu, L.; Liu, Y.; Wang, X.; Yu, D.; Liu, K.; Huang, H.; Hu, G.
2015-03-01
Flash floods have occurred frequently in the urban areas of southern China. An effective process-oriented urban flood inundation model is urgently needed for urban storm-water and emergency management. This study develops an efficient and flexible cellular automaton (CA) model to simulate storm-water runoff and the flood inundation process during extreme storm events. The process of infiltration, inlets discharge and flow dynamics can be simulated with little preprocessing on commonly available basic urban geographic data. In this model, a set of gravitational diverging rules are implemented to govern the water flow in a rectangular template of three cells by three cells of a raster layer. The model is calibrated by one storm event and validated by another in a small urban catchment in Guangzhou of southern China. The depth of accumulated water at the catchment outlet is interpreted from street-monitoring closed-circuit television (CCTV) videos and verified by on-site survey. A good level of agreement between the simulated process and the reality is reached for both storm events. The model reproduces the changing extent and depth of flooded areas at the catchment outlet with an accuracy of 4 cm in water depth. Comparisons with a physically based 2-D model (FloodMap) show that the model is capable of effectively simulating flow dynamics. The high computational efficiency of the CA model can meet the needs of city emergency management.
Evolving Transport Networks With Cellular Automata Models Inspired by Slime Mould.
Tsompanas, Michail-Antisthenis I; Sirakoulis, Georgios Ch; Adamatzky, Andrew I
2015-09-01
Man-made transport networks and their design are closely related to the shortest path problem and considered amongst the most debated problems of computational intelligence. Apart from using conventional or bio-inspired computer algorithms, many researchers tried to solve this kind of problem using biological computing substrates, gas-discharge solvers, prototypes of a mobile droplet, and hot ice computers. In this aspect, another example of biological computer is the plasmodium of acellular slime mould Physarum polycephalum (P. polycephalum), which is a large single cell visible by an unaided eye and has been proven as a reliable living substrate for implementing biological computing devices for computational geometry, graph-theoretical problems, and optimization and imitation of transport networks. Although P. polycephalum is easy to experiment with, computing devices built with the living slime mould are extremely slow; it takes slime mould days to execute a computation. Consequently, mapping key computing mechanisms of the slime mould onto silicon would allow us to produce efficient bio-inspired computing devices to tackle with hard to solve computational intelligence problems like the aforementioned. Toward this direction, a cellular automaton (CA)-based, Physarum-inspired, network designing model is proposed. This novel CA-based model is inspired by the propagating strategy, the formation of tubular networks, and the computing abilities of the plasmodium of P. polycephalum. The results delivered by the CA model demonstrate a good match with several previously published results of experimental laboratory studies on imitation of man-made transport networks with P. polycephalum. Consequently, the proposed CA model can be used as a virtual, easy-to-access, and biomimicking laboratory emulator that will economize large time periods needed for biological experiments while producing networks almost identical to the tubular networks of the real-slime mould. PMID
Cellular automata modeling of cooperative eutectic growth
Directory of Open Access Journals (Sweden)
E. Olejnik
2010-01-01
Full Text Available The model and results of the 2D simulation of the cooperative growth of two phases in the lamellar eutectic are presented. The pro-posed model takes into account heat transfer, components diffusion and nonstationary concentration distribution in the liquid and solid phases, non-equlibrium nature of the phase transformation and kinetics of the growth, influence of the surface energy and interface curva-ture on the conditions of the thermodynamic equilibrium. For the determination of the phase interface shape the Cellular Automata tech-nique (CA was used. For the calculation of temperature and concentration distribution the numerical solution of the Fourier equation was used. The partial differential equations were solved by Finite Differences Method (FDM. The spatial position and cell sizes of CA lattice and FDM mesh are equal.Proposed model can predict the steady state growth with a constant interlamellar spacing in the regular plate eutectic, as well as some transient processes that bring to the changes of that parameters. Obtained simulation data show the solid-liquid interface changes result in the termination of lamella and enlargement of interlamellar spacing. Another simulation results illustrate a pocket formation in the center of one phase that forestalls nucleation (or intergrowth of the new lamellae of another phase. The data of the solidification study of the transparent material (CBr4 – 8,4% C2Cl6 obtained in the thin layer demonstrate the qualita-tive agreement of the simulation.
Jankovic, D.
2005-01-01
Numerical modeling of moisture flow, drying shrinkage and crack phenomena in cement microstructure, by coupling a Lattice Gas Automaton and a Lattice Fracture Model, highlighted the importance of a shrinkage coefficient (sh) as the most significant parameter for achieving realistic numerical result
Modeling cellular effects of coal pollutants
International Nuclear Information System (INIS)
The goal of this project is to develop and test models for the dose and dose-rate dependence of biological effects of coal pollutants on mammalian cells in tissue culture. Particular attention is given to the interaction of pollutants with the genetic material (deoxyribonucleic acid, or NDA) in the cell. Unlike radiation, which can interact directly with chromatin, chemical pollutants undergo numerous changes before the ultimate carcinogen becomes covalently bound to the DNA. Synthetic vesicles formed from a phospholipid bilayer are being used to investigate chemical transformations that may occur during the transport of pollutants across cellular membranes. The initial damage to DNA is rapidly modified by enzymatic repair systems in most living organisms. A model has been developed for predicting the effects of excision repair on the survival of human cells exposed to chemical carcinogens. In addition to the excision system, normal human cells also have tolerance mechanisms that permit continued growth and division of cells without removal of the damage. We are investigating the biological effect of damage passed to daughter cells by these tolerance mechanisms
Analytical Modeling of Uplink Cellular Networks
Novlan, Thomas D; Andrews, Jeffrey G
2012-01-01
Cellular uplink analysis has typically been undertaken by either a simple approach that lumps all interference into a single deterministic or random parameter in a Wyner-type model, or via complex system level simulations that often do not provide insight into why various trends are observed. This paper proposes a novel middle way that is both accurate and also results in easy-to-evaluate integral expressions based on the Laplace transform of the interference. We assume mobiles and base stations are randomly placed in the network with each mobile pairing up to its closest base station. The model requires two important changes compared to related recent work on the downlink. First, dependence is introduced between the user and base station point processes to make sure each base station serves a single mobile in the given resource block. Second, per-mobile power control is included, which further couples the locations of the mobiles and their receiving base stations. Nevertheless, we succeed in deriving the cov...
About Strongly Universal Cellular Automata
Directory of Open Access Journals (Sweden)
Maurice Margenstern
2013-09-01
Full Text Available In this paper, we construct a strongly universal cellular automaton on the line with 11 states and the standard neighbourhood. We embed this construction into several tilings of the hyperbolic plane and of the hyperbolic 3D space giving rise to strongly universal cellular automata with 10 states.
Speech intelligibility measure for vocal control of an automaton
Naranjo, Michel; Tsirigotis, Georgios
1998-07-01
The acceleration of investigations in Speech Recognition allows to augur, in the next future, a wide establishment of Vocal Control Systems in the production units. The communication between a human and a machine necessitates technical devices that emit, or are submitted to important noise perturbations. The vocal interface introduces a new control problem of a deterministic automaton using uncertain information. The purpose is to place exactly the automaton in a final state, ordered by voice, from an unknown initial state. The whole Speech Processing procedure, presented in this paper, has for input the temporal speech signal of a word and for output a recognised word labelled with an intelligibility index given by the recognition quality. In the first part, we present the essential psychoacoustic concepts for the automatic calculation of the loudness of a speech signal. The architecture of a Time Delay Neural Network is presented in second part where we also give the results of the recognition. The theory of the fuzzy subset, in third part, allows to extract at the same time a recognised word and its intelligibility index. In the fourth part, an Anticipatory System models the control of a Sequential Machine. A prediction phase and an updating one appear which involve data coming from the information system. A Bayesian decision strategy is used and the criterion is a weighted sum of criteria defined from information, minimum path functions and speech intelligibility measure.
Institute of Scientific and Technical Information of China (English)
江欣国; 夏亮
2016-01-01
为研究强制换道及冲突点分布对高速公路临时瓶颈交通流的影响,在NS(NaSch)模型和STCA (symmetric two-lane cellular automata)模型的基础上,引入强制换道规则,根据瓶颈口上游驾驶员心理状态的变化,建立高速公路瓶颈交通流模型.在开口边界条件下,针对不同的安全换道概率、强制换道概率、冲突点距离和冲突区间长度参数,模拟得到瓶颈交通流量和换道频率与车辆到达率的关系.仿真结果表明,安全换道行为对系统流量影响小;强制换道行为是降低瓶颈系统最大流量的主要因素,当安全换道概率为0.5时,强制换道概率从0.0增加至0.1,最大流量下降了17％;冲突点距离的增加缓解了交通拥堵程度,当冲突点距离从1 cell增加至4 cell时,临界车辆到达率上升了4％;冲突区间长度对交通事故风险的影响较大,最大强制换道频率随冲突区间长度的增加而增加.
Toward an automaton Constraint for Local Search
Directory of Open Access Journals (Sweden)
Jun He
2009-10-01
Full Text Available We explore the idea of using finite automata to implement new constraints for local search (this is already a successful technique in constraint-based global search. We show how it is possible to maintain incrementally the violations of a constraint and its decision variables from an automaton that describes a ground checker for that constraint. We establish the practicality of our approach idea on real-life personnel rostering problems, and show that it is competitive with the approach of [Pralong, 2007].
Asymptotic Behavior of Excitable Cellular Automata
Durrett, R; Durrett, Richard; Griffeath, David
1993-01-01
Abstract: We study two families of excitable cellular automata known as the Greenberg-Hastings Model (GHM) and the Cyclic Cellular Automaton (CCA). Each family consists of local deterministic oscillating lattice dynamics, with parallel discrete-time updating, parametrized by the range of interaction, the "shape" of its neighbor set, threshold value for contact updating, and number of possible states per site. GHM and CCA are mathematically tractable prototypes for the spatially distributed periodic wave activity of so-called excitable media observed in diverse disciplines of experimental science. Earlier work by Fisch, Gravner, and Griffeath studied the ergodic behavior of these excitable cellular automata on Z^2, and identified two distinct (but closely-related) elaborate phase portraits as the parameters vary. In particular, they noted the emergence of asymptotic phase diagrams (and Euclidean dynamics) in a well-defined threshold-range scaling limit. In this study we present several rigorous results and som...
Cellular modelling using P systems and process algebra
Institute of Scientific and Technical Information of China (English)
Francisco J.Romero-Campero; Marian Gheorghe; Gabriel Ciobanu; John M. Auld; Mario J. Pérez-Jiménez
2007-01-01
In this paper various molecular chemical interactions are modelled under different computational paradigms. P systems and π-calculus are used to describe intra-cellular reactions like protein-protein interactions and gene regulation control.
Modeling In Vitro Cellular Responses to Silver Nanoparticles
Directory of Open Access Journals (Sweden)
Dwaipayan Mukherjee
2014-01-01
Full Text Available Engineered nanoparticles (NPs have been widely demonstrated to induce toxic effects to various cell types. In vitro cell exposure systems have high potential for reliable, high throughput screening of nanoparticle toxicity, allowing focusing on particular pathways while excluding unwanted effects due to other cells or tissue dosimetry. The work presented here involves a detailed biologically based computational model of cellular interactions with NPs; it utilizes measurements performed in human cell culture systems in vitro, to develop a mechanistic mathematical model that can support analysis and prediction of in vivo effects of NPs. The model considers basic cellular mechanisms including proliferation, apoptosis, and production of cytokines in response to NPs. This new model is implemented for macrophages and parameterized using in vitro measurements of changes in cellular viability and mRNA levels of cytokines: TNF, IL-1b, IL-6, IL-8, and IL-10. The model includes in vitro cellular dosimetry due to nanoparticle transport and transformation. Furthermore, the model developed here optimizes the essential cellular parameters based on in vitro measurements, and provides a “stepping stone” for the development of more advanced in vivo models that will incorporate additional cellular and NP interactions.
TRAFFIC FLOW MODEL BASED ON CELLULAR AUTOMATION WITH ADAPTIVE DECELERATION
Shinkarev, A. A.
2016-01-01
This paper describes continuation of the authors’ work in the field of traffic flow mathematical models based on the cellular automata theory. The refactored representation of the multifactorial traffic flow model based on the cellular automata theory is used for a representation of an adaptive deceleration step implementation. The adaptive deceleration step in the case of a leader deceleration allows slowing down smoothly but not instantly. Concepts of the number of time steps without confli...
Oh, Eung Seok; Heo, Chaejeong; Kim, Ji Seon; Lee, Young Hee; Kim, Jong Min
2013-05-01
Parkinson's disease (PD) is characterized by progressive dopaminergic cell loss in the substantianigra (SN) and elevated iron levels demonstrated by autopsy and with 7-Tesla magnetic resonance imaging. Direct visualization of iron with live imaging techniques has not yet been successful. The aim of this study is to visualize and quantify the distribution of cellular iron using an intrinsic iron hyperspectral fluorescence signal. The 1-methyl-4-phenylpyridinium (MPP+)-induced cellular model of PD was established in SHSY5Y cells. The cells were exposed to iron by treatment with ferric ammonium citrate (FAC, 100 μM) for up to 6 hours. The hyperspectral fluorescence imaging signal of iron was examined usinga high- resolution dark-field optical microscope system with signal absorption for the visible/ near infrared (VNIR) spectral range. The 6-hour group showed heavy cellular iron deposition compared with the small amount of iron accumulation in the 1-hour group. The cellular iron was dispersed in a small, particulate form, whereas extracellular iron was detected in an aggregated form. In addition, iron particles were found to be concentrated on the cell membrane/edge of shrunken cells. The cellular iron accumulation readily occurred in MPP+-induced cells, which is consistent with previous studies demonstrating elevated iron levels in the SN in PD. This direct iron imaging methodology could be applied to analyze the physiological role of iron in PD, and its application might be expanded to various neurological disorders involving other metals, such as copper, manganese or zinc.
Obade, P.; Koedam, N.; Soetaert, K.E.R.; Neukermans, G.; Bogaert, J.; Nyssen, E.; van Nedervelde, F.; Berger, U.; Dahdouh-Guebas, F.
2009-01-01
Mangrove forests are ecologically and economically important and frequently dominating protected coastal areas in the tropics and subtropics at suitable intertidal zones and are often subjected to disturbances that disrupt the structure of an ecosystem, that change resource availability and that cre
Matthew W. Johnston; Sam J Purkis
2013-01-01
The Indo-pacific panther grouper (Chromileptes altiveli) is a predatory fish species and popular imported aquarium fish in the United States which has been recently documented residing in western Atlantic waters. To date, the most successful marine invasive species in the Atlantic is the lionfish (Pterois volitans/miles), which, as for the panther grouper, is assumed to have been introduced to the wild through aquarium releases. However, unlike lionfish, the panther grouper is not yet thought...
Body composition analysis: Cellular level modeling of body component ratios
Z. Wang; Heymsfield, S. B.; PI-SUNYER, F.X.; Gallagher, D.; PIERSON, R.N.
2008-01-01
During the past two decades, a major outgrowth of efforts by our research group at St. Luke’s-Roosevelt Hospital is the development of body composition models that include cellular level models, models based on body component ratios, total body potassium models, multi-component models, and resting energy expenditure-body composition models. This review summarizes these models with emphasis on component ratios that we believe are fundamental to understanding human body composition during growt...
Stylized Facts Generated Through Cellular Automata Models. Case of Study: The Game of Life
Coronel-Brizio, H F; Rodriguez-Achach, M E; Stevens-Ramirez, G A
2007-01-01
In the present work, a geometrical method to generate a two dimensional random walk by means of a bidimensional Cellular Automaton is presented. We illustrate it by means of Conway's Game of Life with periodical borders, with a large lattice of 3000 x 3000 cells. The obtained random walk is of character anomalous, and its projection to a one dimensional random walk is analyzed, showing that it presents some statistical properties similar to the so-called stylized facts observed in financial time series. We consider that the procedure presented here is important not only because of its simplicity, but also because it could help us to understand and shed light on the stylized facts formation mechanism.
Institute of Scientific and Technical Information of China (English)
H. Demirel; A. (O)zkan; B. Kutlu
2008-01-01
The Blume-Capel model in the presence of external magnetic field H has been simulated using a cellular automaton algorithm improved from the Creutz cellular automaton in three-dimension lattice. The field critical exponent δ is estimated using the power law relations and the finite size scaling functions for the magnetization and the susceptibility in the range -0.1≤h=H/J≤0. The estimated value of the field critical exponent δ is in good agreement with the universal value (δ=5) in three dimensions. The simulations are carried out on a simple cubic lattice under periodic boundary conditions.
Jankovic, D.
2005-01-01
Numerical modeling of moisture flow, drying shrinkage and crack phenomena in cement microstructure, by coupling a Lattice Gas Automaton and a Lattice Fracture Model, highlighted the importance of a shrinkage coefficient (sh) as the most significant parameter for achieving realistic numerical results. Therefore, experiments on drying of cement paste samples were conducted in an Environmental Scanning Electron Microscope to find shrinkage coefficient relating shrinkage deformations and moistur...
Computational model of cellular metabolic dynamics
DEFF Research Database (Denmark)
Li, Yanjun; Solomon, Thomas; Haus, Jacob M;
2010-01-01
Identifying the mechanisms by which insulin regulates glucose metabolism in skeletal muscle is critical to understanding the etiology of insulin resistance and type 2 diabetes. Our knowledge of these mechanisms is limited by the difficulty of obtaining in vivo intracellular data. To quantitatively...... cytosol and mitochondria. The model simulated skeletal muscle metabolic responses to insulin corresponding to human hyperinsulinemic-euglycemic clamp studies. Insulin-mediated rate of glucose disposal was the primary model input. For model validation, simulations were compared with experimental data...... type 2 diabetes....
Cellular automata modeling of cooperative eutectic growth
E. Olejnik; E. Fraś; D. Gurgul; A. Burbelko
2010-01-01
The model and results of the 2D simulation of the cooperative growth of two phases in the lamellar eutectic are presented. The pro-posed model takes into account heat transfer, components diffusion and nonstationary concentration distribution in the liquid and solid phases, non-equlibrium nature of the phase transformation and kinetics of the growth, influence of the surface energy and interface curva-ture on the conditions of the thermodynamic equilibrium. For the determination of the phase ...
Modeling cellular deformations using the level set formalism
Directory of Open Access Journals (Sweden)
Yang Liu
2008-07-01
Full Text Available Abstract Background Many cellular processes involve substantial shape changes. Traditional simulations of these cell shape changes require that grids and boundaries be moved as the cell's shape evolves. Here we demonstrate that accurate cell shape changes can be recreated using level set methods (LSM, in which the cellular shape is defined implicitly, thereby eschewing the need for updating boundaries. Results We obtain a viscoelastic model of Dictyostelium cells using micropipette aspiration and show how this viscoelastic model can be incorporated into LSM simulations to recreate the observed protrusion of cells into the micropipette faithfully. We also demonstrate the use of our techniques by simulating the cell shape changes elicited by the chemotactic response to an external chemoattractant gradient. Conclusion Our results provide a simple but effective means of incorporating cellular deformations into mathematical simulations of cell signaling. Such methods will be useful for simulating important cellular events such as chemotaxis and cytokinesis.
Modeling cellular deformations using the level set formalism
Yang Liu; Effler Janet C; Kutscher Brett L; Sullivan Sarah E; Robinson Douglas N; Iglesias Pablo A
2008-01-01
Abstract Background Many cellular processes involve substantial shape changes. Traditional simulations of these cell shape changes require that grids and boundaries be moved as the cell's shape evolves. Here we demonstrate that accurate cell shape changes can be recreated using level set methods (LSM), in which the cellular shape is defined implicitly, thereby eschewing the need for updating boundaries. Results We obtain a viscoelastic model of Dictyostelium cells using micropipette aspiratio...
Minimal model for complex dynamics in cellular processes.
Suguna, C; Chowdhury, K K; Sinha, S
1999-11-01
Cellular functions are controlled and coordinated by the complex circuitry of biochemical pathways regulated by genetic and metabolic feedback processes. This paper aims to show, with the help of a minimal model of a regulated biochemical pathway, that the common nonlinearities and control structures present in biomolecular interactions are capable of eliciting a variety of functional dynamics, such as homeostasis, periodic, complex, and chaotic oscillations, including transients, that are observed in various cellular processes.
SELF-ORGANIZED CRITICALITY AND CELLULAR AUTOMATA
Energy Technology Data Exchange (ETDEWEB)
CREUTZ,M.
2007-01-01
Cellular automata provide a fascinating class of dynamical systems based on very simple rules of evolution yet capable of displaying highly complex behavior. These include simplified models for many phenomena seen in nature. Among other things, they provide insight into self-organized criticality, wherein dissipative systems naturally drive themselves to a critical state with important phenomena occurring over a wide range of length and the scales. This article begins with an overview of self-organized criticality. This is followed by a discussion of a few examples of simple cellular automaton systems, some of which may exhibit critical behavior. Finally, some of the fascinating exact mathematical properties of the Bak-Tang-Wiesenfeld sand-pile model [1] are discussed.
A cellular automata evacuation model considering friction and repulsion
Institute of Scientific and Technical Information of China (English)
SONG Weiguo; YU Yanfei; FAN Weicheng; Zhang Heping
2005-01-01
There exist interactions among pedestrians and between pedestrian and environment in evacuation. These interactions include attraction, repulsion and friction that play key roles in human evacuation behaviors, speed and efficiency. Most former evacuation models focus on the attraction force, while repulsion and friction are not well modeled. As a kind of multi-particle self-driven model, the social force model introduced in recent years can represent those three forces but with low simulation efficiency because it is a continuous model with complex rules. Discrete models such as the cellular automata model and the lattice gas model have simple rules and high simulation efficiency, but are not quite suitable for interactions' simulation. In this paper, a new cellular automata model based on traditional models is introduced in which repulsion and friction are modeled quantitatively. It is indicated that the model can simulate some basic behaviors, e.g.arching and the "faster-is-slower" phenomenon, in evacuation as multi-particle self-driven models, but with high efficiency as the normal cellular automata model and the lattice gas model.
On the combined gradient-stochastic plasticity model: Application to Mo-micropillar compression
Energy Technology Data Exchange (ETDEWEB)
Konstantinidis, A. A., E-mail: akonsta@civil.auth.gr [Aristotle University of Thessaloniki, Thessaloniki 54124 (Greece); Zhang, X., E-mail: zhangxu26@126.com [Southwest Jiaotong University, Chengdu 610031 (Greece); Aifantis, E. C., E-mail: mom@mom.gen.auth.gr [Aristotle University of Thessaloniki, Thessaloniki 54124 (Greece); Michigan Technological University, Houghton, MI 49931 (United States); ITMO University, St. Petersburg 197101 (Russian Federation)
2015-02-17
A formulation for addressing heterogeneous material deformation is proposed. It is based on the use of a stochasticity-enhanced gradient plasticity model implemented through a cellular automaton. The specific application is on Mo-micropillar compression, for which the irregularities of the strain bursts observed have been experimentally measured and theoretically interpreted through Tsallis' q-statistics.
Modeling diffusion of innovations with probabilistic cellular automata
Boccara, N; Boccara, Nino; Fuks, Henryk
1997-01-01
We present a family of one-dimensional cellular automata modeling the diffusion of an innovation in a population. Starting from simple deterministic rules, we construct models parameterized by the interaction range and exhibiting a second-order phase transition. We show that the number of individuals who eventually keep adopting the innovation strongly depends on connectivity between individuals.
A Versatile Dependent Model for Heterogeneous Cellular Networks
Haenggi, Martin
2013-01-01
We propose a new model for heterogeneous cellular networks that incorporates dependencies between the layers. In particular, it places lower-tier base stations at locations that are poorly covered by the macrocells, and it includes a small-cell model for the case where the goal is to enhance network capacity.
Modeling integrated cellular machinery using hybrid Petri-Boolean networks.
Directory of Open Access Journals (Sweden)
Natalie Berestovsky
Full Text Available The behavior and phenotypic changes of cells are governed by a cellular circuitry that represents a set of biochemical reactions. Based on biological functions, this circuitry is divided into three types of networks, each encoding for a major biological process: signal transduction, transcription regulation, and metabolism. This division has generally enabled taming computational complexity dealing with the entire system, allowed for using modeling techniques that are specific to each of the components, and achieved separation of the different time scales at which reactions in each of the three networks occur. Nonetheless, with this division comes loss of information and power needed to elucidate certain cellular phenomena. Within the cell, these three types of networks work in tandem, and each produces signals and/or substances that are used by the others to process information and operate normally. Therefore, computational techniques for modeling integrated cellular machinery are needed. In this work, we propose an integrated hybrid model (IHM that combines Petri nets and Boolean networks to model integrated cellular networks. Coupled with a stochastic simulation mechanism, the model simulates the dynamics of the integrated network, and can be perturbed to generate testable hypotheses. Our model is qualitative and is mostly built upon knowledge from the literature and requires fine-tuning of very few parameters. We validated our model on two systems: the transcriptional regulation of glucose metabolism in human cells, and cellular osmoregulation in S. cerevisiae. The model produced results that are in very good agreement with experimental data, and produces valid hypotheses. The abstract nature of our model and the ease of its construction makes it a very good candidate for modeling integrated networks from qualitative data. The results it produces can guide the practitioner to zoom into components and interconnections and investigate them
Lattice gas cellular automata and lattice Boltzmann models an introduction
Wolf-Gladrow, Dieter A
2000-01-01
Lattice-gas cellular automata (LGCA) and lattice Boltzmann models (LBM) are relatively new and promising methods for the numerical solution of nonlinear partial differential equations. The book provides an introduction for graduate students and researchers. Working knowledge of calculus is required and experience in PDEs and fluid dynamics is recommended. Some peculiarities of cellular automata are outlined in Chapter 2. The properties of various LGCA and special coding techniques are discussed in Chapter 3. Concepts from statistical mechanics (Chapter 4) provide the necessary theoretical background for LGCA and LBM. The properties of lattice Boltzmann models and a method for their construction are presented in Chapter 5.
WWW Business Applications Based on the Cellular Model
Institute of Scientific and Technical Information of China (English)
Toshio Kodama; Tosiyasu L. Kunii; Yoichi Seki
2008-01-01
A cellular model based on the Incrementally Modular Abstraction Hierarchy (IMAH) is a novel model that can represent the architecture of and changes in cyberworlds, preserving invariants from a general level to a specific one. We have developed a data processing system called the Cellular Data System (CDS). In the development of business applications, you can prevent combinatorial explosion in the process of business design and testing by using CDS. In this paper, we have first designed and implemented wide-use algebra on the presentation level. Next, we have developed and verified the effectiveness of two general business applications using CDS: 1) a customer information management system, and 2) an estimate system.
Recursive definition of global cellular-automata mappings
DEFF Research Database (Denmark)
Feldberg, Rasmus; Knudsen, Carsten; Rasmussen, Steen
1994-01-01
A method for a recursive definition of global cellular-automata mappings is presented. The method is based on a graphical representation of global cellular-automata mappings. For a given cellular-automaton rule the recursive algorithm defines the change of the global cellular-automaton mapping...... as the number of lattice sites is incremented. A proof of lattice size invariance of global cellular-automata mappings is derived from an approximation to the exact recursive definition. The recursive definitions are applied to calculate the fractal dimension of the set of reachable states and of the set...
A sub-cellular viscoelastic model for cell population mechanics.
Directory of Open Access Journals (Sweden)
Yousef Jamali
Full Text Available Understanding the biomechanical properties and the effect of biomechanical force on epithelial cells is key to understanding how epithelial cells form uniquely shaped structures in two or three-dimensional space. Nevertheless, with the limitations and challenges posed by biological experiments at this scale, it becomes advantageous to use mathematical and 'in silico' (computational models as an alternate solution. This paper introduces a single-cell-based model representing the cross section of a typical tissue. Each cell in this model is an individual unit containing several sub-cellular elements, such as the elastic plasma membrane, enclosed viscoelastic elements that play the role of cytoskeleton, and the viscoelastic elements of the cell nucleus. The cell membrane is divided into segments where each segment (or point incorporates the cell's interaction and communication with other cells and its environment. The model is capable of simulating how cells cooperate and contribute to the overall structure and function of a particular tissue; it mimics many aspects of cellular behavior such as cell growth, division, apoptosis and polarization. The model allows for investigation of the biomechanical properties of cells, cell-cell interactions, effect of environment on cellular clusters, and how individual cells work together and contribute to the structure and function of a particular tissue. To evaluate the current approach in modeling different topologies of growing tissues in distinct biochemical conditions of the surrounding media, we model several key cellular phenomena, namely monolayer cell culture, effects of adhesion intensity, growth of epithelial cell through interaction with extra-cellular matrix (ECM, effects of a gap in the ECM, tensegrity and tissue morphogenesis and formation of hollow epithelial acini. The proposed computational model enables one to isolate the effects of biomechanical properties of individual cells and the
Empirical study on entropy models of cellular manufacturing systems
Institute of Scientific and Technical Information of China (English)
Zhifeng Zhang; Renbin Xiao
2009-01-01
From the theoretical point of view,the states of manufacturing resources can be monitored and assessed through the amount of information needed to describe their technological structure and operational state.The amount of information needed to describe cellular manufacturing systems is investigated by two measures:the structural entropy and the operational entropy.Based on the Shannon entropy,the models of the structural entropy and the operational entropy of cellular manufacturing systems are developed,and the cognizance of the states of manufacturing resources is also illustrated.Scheduling is introduced to measure the entropy models of cellular manufacturing systems,and the feasible concepts of maximum schedule horizon and schedule adherence are advanced to quantitatively evaluate the effectiveness of schedules.Finally,an example is used to demonstrate the validity of the proposed methodology.
Station Model for Rail Transit System Using Cellular Automata
Institute of Scientific and Technical Information of China (English)
XUN Jing; NING Bin; LI Ke-Ping
2009-01-01
In this paper, we propose a new cellular automata model to simulate the railway traffic at station.Based on NaSch model, the proposed station model is composed of the main track and the siding track.Two different schemes for trains passing through station are considered.One is the scheme of "pass by the main track, start and stop by the siding track".The other is the scheme of "two tracks play the same role".We simulate the train movement using the proposed model and analyze the traffic flow at station.The simulation results demonstrate that the proposed cellular automata model can be successfully used for the simulations of railway traffic.Some characteristic behaviors of railway traffic flow can be reproduced.Moreover, the simulation values of the minimum headway are close to the theoretical values.This result demonstrates the dependability and availability of the proposed model.
Cellular worlds: a framework for modeling micro - macro dynamics
H Couclelis
1985-01-01
Cellular spaces have recently received a lot of attention in computer science and elsewhere as models capable of bridging the gap between disaggregate and aggregate description. Despite their obvious spatial interpretation, standard cell-space models are too constrained by their background conventions to be useful in realistic geographic applications. In this paper, a generalization of the cell-space principle is presented, based on discrete model theory, and then applied to a hypothetical bu...
The brittleness model of complex system based on cellular automata
Institute of Scientific and Technical Information of China (English)
LIN De-ming; JIN Hong-zhang; LI Qi; WU Hong-mei
2004-01-01
Now the research on the complex system is a hot spot. Brittleness is one of the basic characteristics of a complex system. In a complex system, after one of subsystems is struck to be collapsed, the whole system will collapse. Meanwhile, cellular automata is a discrete dynamic system. When the rule is given, the cellular automata could be defined. Then it can imitate the complex action. Cellular automata is used to simulate the brittleness action in this study. Entropy was used to analyze the action and get the rule. Then,three normal brittleness models were given. The result shows that the brittleness of complex system is existent and in addition some important behavior mode of complex system brittleness has been achieved.
Krbalek, M
2003-01-01
We present a cellular automaton simulating the behaviour of public bus transport in several Mexican cities. The headway statistics obtained from the model is compared to the measured time intervals between subsequent bus arrivals to a given bus stop and to a spacing distribution resulting from a random matrix theory. (letter to the editor)
An efficient Cellular Potts Model algorithm that forbids cell fragmentation
Durand, Marc; Guesnet, Etienne
2016-11-01
The Cellular Potts Model (CPM) is a lattice based modeling technique which is widely used for simulating cellular patterns such as foams or biological tissues. Despite its realism and generality, the standard Monte Carlo algorithm used in the scientific literature to evolve this model preserves connectivity of cells on a limited range of simulation temperature only. We present a new algorithm in which cell fragmentation is forbidden for all simulation temperatures. This allows to significantly enhance realism of the simulated patterns. It also increases the computational efficiency compared with the standard CPM algorithm even at same simulation temperature, thanks to the time spared in not doing unrealistic moves. Moreover, our algorithm restores the detailed balance equation, ensuring that the long-term stage is independent of the chosen acceptance rate and chosen path in the temperature space.
Modelling Nonlinear Sequence Generators in terms of Linear Cellular Automata
Fúster-Sabater, Amparo; 10.1016/j.apm.2005.08.013
2010-01-01
In this work, a wide family of LFSR-based sequence generators, the so-called Clock-Controlled Shrinking Generators (CCSGs), has been analyzed and identified with a subset of linear Cellular Automata (CA). In fact, a pair of linear models describing the behavior of the CCSGs can be derived. The algorithm that converts a given CCSG into a CA-based linear model is very simple and can be applied to CCSGs in a range of practical interest. The linearity of these cellular models can be advantageously used in two different ways: (a) for the analysis and/or cryptanalysis of the CCSGs and (b) for the reconstruction of the output sequence obtained from this kind of generators.
Parallelizing the Cellular Potts Model on graphics processing units
Tapia, José Juan; D'Souza, Roshan M.
2011-04-01
The Cellular Potts Model (CPM) is a lattice based modeling technique used for simulating cellular structures in computational biology. The computational complexity of the model means that current serial implementations restrict the size of simulation to a level well below biological relevance. Parallelization on computing clusters enables scaling the size of the simulation but marginally addresses computational speed due to the limited memory bandwidth between nodes. In this paper we present new data-parallel algorithms and data structures for simulating the Cellular Potts Model on graphics processing units. Our implementations handle most terms in the Hamiltonian, including cell-cell adhesion constraint, cell volume constraint, cell surface area constraint, and cell haptotaxis. We use fine level checkerboards with lock mechanisms using atomic operations to enable consistent updates while maintaining a high level of parallelism. A new data-parallel memory allocation algorithm has been developed to handle cell division. Tests show that our implementation enables simulations of >10 cells with lattice sizes of up to 256 3 on a single graphics card. Benchmarks show that our implementation runs ˜80× faster than serial implementations, and ˜5× faster than previous parallel implementations on computing clusters consisting of 25 nodes. The wide availability and economy of graphics cards mean that our techniques will enable simulation of realistically sized models at a fraction of the time and cost of previous implementations and are expected to greatly broaden the scope of CPM applications.
Public Evacuation Process Modeling and Simulatiaon Based on Cellular Automata
Directory of Open Access Journals (Sweden)
Zhikun Wang
2013-11-01
Full Text Available Considering attraction of the nearest exit, repulsive force of the fire, barrier and its display style, effect of fire exit location on escape time in fire hazard, a mathematical model of evacuation process model was build based on cellular automatic theory. The program was developed by JavaScript. The influencing factors of evacuation were obtained through the simulation model by inputting crew size, creating initial positions of crew and fire seat stochastically. The experimental results show that the evacuation simulation model with authenticity and validity, which has guiding significance for people evacuation and public escape system design.
A cellular automata model with probability infection and spatial dispersion
Institute of Scientific and Technical Information of China (English)
Jin Zhen; Liu Quan-Xing; Mainul Haque
2007-01-01
In this article, we have proposed an epidemic model based on the probability cellular automata theory. The essential mathematical features are analysed with the help of stability theory. We have given an alternative modelling approach for the spatiotemporal system which is more realistic from the practical point of view. A discrete and spatiotemporal approach is shown by using cellular automata theory. It is interesting to note that both the size of the endemic equilibrium and the density of the individuals increase with the increase of the neighbourhood size and infection rate, but the infections decrease with the increase of the recovery rate. The stability of the system around the positive interior equilibrium has been shown by using a suitable Lyapunov function. Finally, experimental data simulation for SARS disease in China in 2003 and a brief discussion are given.
A Cellular Model for Screening Neuronal Nitric Oxide Synthase Inhibitors
Fang, Jianguo; Silverman, Richard B.
2009-01-01
Nitric oxide synthase (NOS) inhibitors are potential drug candidates because it has been well demonstrated that excessive production of NO critically contributes to a range of diseases. Most inhibitors have been screened in vitro using recombinant enzymes, leading to the discovery of a variety of potent compounds. To make inhibition studies more physiologically relevant and bridge the gap between the in vitro assay and in vivo studies, we report here a cellular model for screening NOS inhibit...
Cellular-Based Statistical Model for Mobile Dispersion
Abdulla, Mouhamed; Shayan, Yousef R.
2013-01-01
While analyzing mobile systems we often approximate the actual coverage surface and assume an ideal cell shape. In a multi-cellular network, because of its tessellating nature, a hexagon is more preferred than a circular geometry. Despite this reality, perhaps due to the inherent simplicity, only a model for circular based random spreading is available. However, if used, this results an unfair terminal distribution for non-circular contours. Therefore, in this paper we specifically derived an...
Unified Stochastic Geometry Model for MIMO Cellular Networks with Retransmissions
Afify, Laila H.
2016-10-11
This paper presents a unified mathematical paradigm, based on stochastic geometry, for downlink cellular networks with multiple-input-multiple-output (MIMO) base stations (BSs). The developed paradigm accounts for signal retransmission upon decoding errors, in which the temporal correlation among the signal-to-interference-plus-noise-ratio (SINR) of the original and retransmitted signals is captured. In addition to modeling the effect of retransmission on the network performance, the developed mathematical model presents twofold analysis unification for MIMO cellular networks literature. First, it integrates the tangible decoding error probability and the abstracted (i.e., modulation scheme and receiver type agnostic) outage probability analysis, which are largely disjoint in the literature. Second, it unifies the analysis for different MIMO configurations. The unified MIMO analysis is achieved by abstracting unnecessary information conveyed within the interfering signals by Gaussian signaling approximation along with an equivalent SISO representation for the per-data stream SINR in MIMO cellular networks. We show that the proposed unification simplifies the analysis without sacrificing the model accuracy. To this end, we discuss the diversity-multiplexing tradeoff imposed by different MIMO schemes and shed light on the diversity loss due to the temporal correlation among the SINRs of the original and retransmitted signals. Finally, several design insights are highlighted.
Occupant evacuation model based on cellular automata in fire
Institute of Scientific and Technical Information of China (English)
无
2002-01-01
By applying the rules set in traffic flow and pedestrian flow models, a basic cellular automata model is presented to simulate occupant evacuation in fire. Some extended models are introduced to study the special phenomena of evacuation from the fire room. The key of the models is the introduction of the danger grade which makes the route choice convenient and reasonable. Fire not only influences the emotional and behavioral characteristics of an individual but also affects his physical constitution, which reduces his maximal possible velocity. The models consider these influence factors by applying a set of simple but effective rules. It is needed to emphasize that all rules are established according to the essential phenomenon in fire evacuation, that is, all the occupants would try to move to the safest place as fast as possible. Some simulation examples are also presented to validate the applicability of the models.
Modelling of detonation cellular structure in aluminium suspensions
Briand, A.; Veyssiere, B.; Khasainov, B. A.
2010-12-01
Heterogeneous detonations involving aluminium suspensions have been studied for many years for industrial safety policies, and for military and propulsion applications. Owing to their weak detonability and to the lack of available experimental results on the detonation cellular structure, numerical simulations provide a convenient way to improve the knowledge of such detonations. One major difficulty arising in numerical study of heterogeneous detonations involving suspensions of aluminium particles in oxidizing atmospheres is the modelling of aluminium combustion. Our previous two-step model provided results on the effect on the detonation cellular structure of particle diameter and characteristic chemical lengths. In this study, a hybrid model is incorporated in the numerical code EFAE, combining both kinetic and diffusion regimes in parallel. This more realistic model provides good agreement with the previous two-step model and confirms the correlations found between the detonation cell width, and particle diameter and characteristic lengths. Moreover, the linear dependence found between the detonation cell width and the induction length remains valid with the hybrid model.
Cellular automata model of magnetospheric-ionospheric coupling
Kozelov, B. V.; Kozelova, T. V.
2003-01-01
We propose a cellular automata model (CAM) to describe the substorm activity of the magnetospheric-ionospheric system. The state of each cell in the model is described by two numbers that correspond to the energy content in a region of the current sheet in the magnetospheric tail and to the conductivity of the ionospheric domain that is magnetically connected with this region. The driving force of the system is supposed to be provided by the solar wind that is convected along the two b...
Modeling and simulation for train control system using cellular automata
Institute of Scientific and Technical Information of China (English)
LI; KePing; GAO; ZiYou; YANG; LiXing
2007-01-01
Train control system plays a key role in railway traffic. Its function is to manage and control the train movement on railway networks. In our previous works, based on the cellular automata (CA) model, we proposed several models and algorithms for simulating the train movement under different control system conditions. However, these models are only suitable for some simple traffic conditions. Some basic factors, which are important for train movement, are not considered. In this paper, we extend these models and algorithms and give a unified formula. Using the proposed method, we analyze and discuss the space-time diagram of railway traffic flow and the trajectories of the train movement. The numerical simulation and analytical results demonstrate that the unified CA model is an effective tool for simulating the train control system.
Cancer models, genomic instability and somatic cellular Darwinian evolution
Directory of Open Access Journals (Sweden)
Little Mark P
2010-04-01
Full Text Available Abstract The biology of cancer is critically reviewed and evidence adduced that its development can be modelled as a somatic cellular Darwinian evolutionary process. The evidence for involvement of genomic instability (GI is also reviewed. A variety of quasi-mechanistic models of carcinogenesis are reviewed, all based on this somatic Darwinian evolutionary hypothesis; in particular, the multi-stage model of Armitage and Doll (Br. J. Cancer 1954:8;1-12, the two-mutation model of Moolgavkar, Venzon, and Knudson (MVK (Math. Biosci. 1979:47;55-77, the generalized MVK model of Little (Biometrics 1995:51;1278-1291 and various generalizations of these incorporating effects of GI (Little and Wright Math. Biosci. 2003:183;111-134; Little et al. J. Theoret. Biol. 2008:254;229-238. Reviewers This article was reviewed by RA Gatenby and M Kimmel.
Makovetskiy, S D
2008-01-01
We report some qualitatively new features of emergence, competition and dynamical stabilization of dissipative rotating spiral waves (RSWs) in the cellular-automaton model of laser-like excitable media proposed in arXiv:cond-mat/0410460v2 ; arXiv:cond-mat/0602345 . Part of the observed features are caused by unusual mechanism of excitation vorticity when the RSW's core get into the surface layer of an active medium. Instead of the well known scenario of RSW collapse, which takes place after collision of RSW's core with absorbing boundary, we observed complicated transformations of the core leading to regeneration (nonlinear "reflection" from the boundary) of the RSW or even to birth of several new RSWs in the surface layer. Computer experiments on bottlenecked evolution of such the RSW-ensembles (vortex matter) are reported and a possible explanation of real experiments on spin-lattice relaxation in dilute paramagnets is proposed on the basis of an analysis of the RSWs dynamics. Chimera states in RSW-ensemble...
Robust tracking by cellular automata and neural networks with nonlocal weights
Ososkov, Gennadii A.
1995-04-01
A modified rotor model of the Hopfield neural networks (HNN) is proposed for finding tracks in multiwire proportional chambers. That requires us to apply both raw data prefiltering by cellular automaton and HNN weights furnishing by a special robust multiplier. Then this model is developed to be applicable for a more general type of data and detectors. As an example, data processing of ionospheric measurements are considered. For handling tracks detected by high pressure drift chambers with their up-down ambiguity a modification of deformable templates method is proposed. A new concept of controlled HNN is proposed for solving the so-called track-match problem.
Structural modeling of sandwich structures with lightweight cellular cores
Liu, T.; Deng, Z. C.; Lu, T. J.
2007-10-01
An effective single layered finite element (FE) computational model is proposed to predict the structural behavior of lightweight sandwich panels having two dimensional (2D) prismatic or three dimensional (3D) truss cores. Three different types of cellular core topology are considered: pyramidal truss core (3D), Kagome truss core (3D) and corrugated core (2D), representing three kinds of material anisotropy: orthotropic, monoclinic and general anisotropic. A homogenization technique is developed to obtain the homogenized macroscopic stiffness properties of the cellular core. In comparison with the results obtained by using detailed FE model, the single layered computational model can give acceptable predictions for both the static and dynamic behaviors of orthotropic truss core sandwich panels. However, for non-orthotropic 3D truss cores, the predictions are not so well. For both static and dynamic behaviors of a 2D corrugated core sandwich panel, the predictions derived by the single layered computational model is generally acceptable when the size of the unit cell varies within a certain range, with the predictions for moderately strong or strong corrugated cores more accurate than those for weak cores.
Integrating cellular metabolism into a multiscale whole-body model.
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Markus Krauss
Full Text Available Cellular metabolism continuously processes an enormous range of external compounds into endogenous metabolites and is as such a key element in human physiology. The multifaceted physiological role of the metabolic network fulfilling the catalytic conversions can only be fully understood from a whole-body perspective where the causal interplay of the metabolic states of individual cells, the surrounding tissue and the whole organism are simultaneously considered. We here present an approach relying on dynamic flux balance analysis that allows the integration of metabolic networks at the cellular scale into standardized physiologically-based pharmacokinetic models at the whole-body level. To evaluate our approach we integrated a genome-scale network reconstruction of a human hepatocyte into the liver tissue of a physiologically-based pharmacokinetic model of a human adult. The resulting multiscale model was used to investigate hyperuricemia therapy, ammonia detoxification and paracetamol-induced toxication at a systems level. The specific models simultaneously integrate multiple layers of biological organization and offer mechanistic insights into pathology and medication. The approach presented may in future support a mechanistic understanding in diagnostics and drug development.
Structural modeling of sandwich structures with lightweight cellular cores
Institute of Scientific and Technical Information of China (English)
T. Liu; Z. C. Deng; T. J. Lu
2007-01-01
An effective single layered finite element (FE) computational model is proposed to predict the structural behavior of lightweight sandwich panels having two dimensional (2D) prismatic or three dimensional (3D) truss cores.Three different types of cellular core topology are considered: pyramidal truss core (3D), Kagome truss core (3D) and corrugated core (2D), representing three kinds of material anisotropy: orthotropic, monoclinic and general anisotropic. A homogenization technique is developed to obtain the homogenized macroscopic stiffness properties of the cellular core. In comparison with the results obtained by using detailed FE model, the single layered computational model cangive acceptable predictions for both the static and dynamic behaviors of orthotropic truss core sandwich panels. However, for non-orthotropic 3D truss cores, the predictions are not so well. For both static and dynamic behaviors of a 2D corrugated core sandwich panel, the predictions derived by the single layered computational model is generally acceptable when the size of the unit cell varies within a certain range, with the predictions for moderately strong or strong corrugated cores more accurate than those for weak cores.
A Fluid Model for Performance Analysis in Cellular Networks
Directory of Open Access Journals (Sweden)
Coupechoux Marceau
2010-01-01
Full Text Available We propose a new framework to study the performance of cellular networks using a fluid model and we derive from this model analytical formulas for interference, outage probability, and spatial outage probability. The key idea of the fluid model is to consider the discrete base station (BS entities as a continuum of transmitters that are spatially distributed in the network. This model allows us to obtain simple analytical expressions to reveal main characteristics of the network. In this paper, we focus on the downlink other-cell interference factor (OCIF, which is defined for a given user as the ratio of its outer cell received power to its inner cell received power. A closed-form formula of the OCIF is provided in this paper. From this formula, we are able to obtain the global outage probability as well as the spatial outage probability, which depends on the location of a mobile station (MS initiating a new call. Our analytical results are compared to Monte Carlo simulations performed in a traditional hexagonal network. Furthermore, we demonstrate an application of the outage probability related to cell breathing and densification of cellular networks.
Robustness of a Cellular Automata Model for the HIV Infection
Figueirêdo, P H; Santos, R M Zorzenon dos
2008-01-01
An investigation was conducted to study the robustness of the results obtained from the cellular automata model which describes the spread of the HIV infection within lymphoid tissues [R. M. Zorzenon dos Santos and S. Coutinho, Phys. Rev. Lett. 87, 168102 (2001)]. The analysis focussed on the dynamic behavior of the model when defined in lattices with different symmetries and dimensionalities. The results illustrated that the three-phase dynamics of the planar models suffered minor changes in relation to lattice symmetry variations and, while differences were observed regarding dimensionality changes, qualitative behavior was preserved. A further investigation was conducted into primary infection and sensitiveness of the latency period to variations of the model's stochastic parameters over wide ranging values. The variables characterizing primary infection and the latency period exhibited power-law behavior when the stochastic parameters varied over a few orders of magnitude. The power-law exponents were app...
Cryptanalysis on a finite automaton public key cryptosystem
Institute of Scientific and Technical Information of China (English)
戴大为; 吴逵; 张焕国
1996-01-01
An attack algorithm is proposed on a finite automaton public key cryptosystem.It is proved that this attack can break FAPKCO in polynomial time.The basic idea can be used in principle to attack other FAPKCs.Therefore,while designing an FAPKC,it must be taken into account whether it is secure or not under this kind of attack.
Simulation of root forms using cellular automata model
Energy Technology Data Exchange (ETDEWEB)
Winarno, Nanang, E-mail: nanang-winarno@upi.edu; Prima, Eka Cahya [International Program on Science Education, Universitas Pendidikan Indonesia, Jl. Dr. Setiabudi no 229, Bandung40154 (Indonesia); Afifah, Ratih Mega Ayu [Department of Physics Education, Post Graduate School, Universitas Pendidikan Indonesia, Jl. Dr. Setiabudi no 229, Bandung40154 (Indonesia)
2016-02-08
This research aims to produce a simulation program for root forms using cellular automata model. Stephen Wolfram in his book entitled “A New Kind of Science” discusses the formation rules based on the statistical analysis. In accordance with Stephen Wolfram’s investigation, the research will develop a basic idea of computer program using Delphi 7 programming language. To best of our knowledge, there is no previous research developing a simulation describing root forms using the cellular automata model compared to the natural root form with the presence of stone addition as the disturbance. The result shows that (1) the simulation used four rules comparing results of the program towards the natural photographs and each rule had shown different root forms; (2) the stone disturbances prevent the root growth and the multiplication of root forms had been successfully modeled. Therefore, this research had added some stones, which have size of 120 cells placed randomly in the soil. Like in nature, stones cannot be penetrated by plant roots. The result showed that it is very likely to further develop the program of simulating root forms by 50 variations.
A hybrid parallel framework for the cellular Potts model simulations
Energy Technology Data Exchange (ETDEWEB)
Jiang, Yi [Los Alamos National Laboratory; He, Kejing [SOUTH CHINA UNIV; Dong, Shoubin [SOUTH CHINA UNIV
2009-01-01
The Cellular Potts Model (CPM) has been widely used for biological simulations. However, most current implementations are either sequential or approximated, which can't be used for large scale complex 3D simulation. In this paper we present a hybrid parallel framework for CPM simulations. The time-consuming POE solving, cell division, and cell reaction operation are distributed to clusters using the Message Passing Interface (MPI). The Monte Carlo lattice update is parallelized on shared-memory SMP system using OpenMP. Because the Monte Carlo lattice update is much faster than the POE solving and SMP systems are more and more common, this hybrid approach achieves good performance and high accuracy at the same time. Based on the parallel Cellular Potts Model, we studied the avascular tumor growth using a multiscale model. The application and performance analysis show that the hybrid parallel framework is quite efficient. The hybrid parallel CPM can be used for the large scale simulation ({approx}10{sup 8} sites) of complex collective behavior of numerous cells ({approx}10{sup 6}).
Simulation of root forms using cellular automata model
International Nuclear Information System (INIS)
This research aims to produce a simulation program for root forms using cellular automata model. Stephen Wolfram in his book entitled “A New Kind of Science” discusses the formation rules based on the statistical analysis. In accordance with Stephen Wolfram’s investigation, the research will develop a basic idea of computer program using Delphi 7 programming language. To best of our knowledge, there is no previous research developing a simulation describing root forms using the cellular automata model compared to the natural root form with the presence of stone addition as the disturbance. The result shows that (1) the simulation used four rules comparing results of the program towards the natural photographs and each rule had shown different root forms; (2) the stone disturbances prevent the root growth and the multiplication of root forms had been successfully modeled. Therefore, this research had added some stones, which have size of 120 cells placed randomly in the soil. Like in nature, stones cannot be penetrated by plant roots. The result showed that it is very likely to further develop the program of simulating root forms by 50 variations
Network modeling of membrane-based artificial cellular systems
Freeman, Eric C.; Philen, Michael K.; Leo, Donald J.
2013-04-01
Computational models are derived for predicting the behavior of artificial cellular networks for engineering applications. The systems simulated involve the use of a biomolecular unit cell, a multiphase material that incorporates a lipid bilayer between two hydrophilic compartments. These unit cells may be considered building blocks that enable the fabrication of complex electrochemical networks. These networks can incorporate a variety of stimuli-responsive biomolecules to enable a diverse range of multifunctional behavior. Through the collective properties of these biomolecules, the system demonstrates abilities that recreate natural cellular phenomena such as mechanotransduction, optoelectronic response, and response to chemical gradients. A crucial step to increase the utility of these biomolecular networks is to develop mathematical models of their stimuli-responsive behavior. While models have been constructed deriving from the classical Hodgkin-Huxley model focusing on describing the system as a combination of traditional electrical components (capacitors and resistors), these electrical elements do not sufficiently describe the phenomena seen in experiment as they are not linked to the molecular scale processes. From this realization an advanced model is proposed that links the traditional unit cell parameters such as conductance and capacitance to the molecular structure of the system. Rather than approaching the membrane as an isolated parallel plate capacitor, the model seeks to link the electrical properties to the underlying chemical characteristics. This model is then applied towards experimental cases in order that a more complete picture of the underlying phenomena responsible for the desired sensing mechanisms may be constructed. In this way the stimuli-responsive characteristics may be understood and optimized.
Modeling of dendritic growth in the presence of convection
Institute of Scientific and Technical Information of China (English)
ZHU; Mingfang; DAI; Ting; LEE; Sungyoon; HONG; Chunpyo
2005-01-01
A two-dimensional coupling modified cellular automaton (MCA)-transport model has been employed to investigate the asymmetrical dendritic growth behavior in a flowing melt. In the present model, the cellular automaton method for crystal growth is incorporated with a transport model, for numerical calculating of the fluid flow and mass transport by both convection and diffusion. The MCA takes into account the effects of the thermal, the constitutional and the curvature undercoolings on dendritic growth. It also considers the preferred growth orientation of crystal and solute redistribution during solidification. In the transport model, the SIMPLE scheme and a fully implicit finite volume method are employed to solve the governing equations of momentum and species transfers. The present model was applied to simulating the evolution of a single dendrite and multi-dendrites of an Al-3mass%Cu alloy in a forced flow. The simulated results show that dendritic growth morphology is strongly influenced by melt convection.
Self-organized Critical Model Of Biological Evolution
Chau, H. F.; Mak, L; Kwok, P. K.
1994-01-01
A punctuated equilibrium model of biological evolution with relative fitness between different species being the fundamental driving force of evolution is introduced. Mutation is modeled as a fitness updating cellular automaton process where the change in fitness after mutation follows a Gaussian distribution with mean $x>0$ and standard deviation $\\sigma$. Scaling behaviors are observed in our numerical simulation, indicating that the model is self-organized critical. Besides, the numerical ...
Global Network Model based on Earth Grid and Cellular
Directory of Open Access Journals (Sweden)
Dongqi Lu
2014-06-01
Full Text Available We aim to understand the current health state of the Earth and find how human activities influence it. Based on the theory of Earth’s Grid and Cellular Automata, we define and test a global network model, analyze the mutual interactions and feedbacks of ecosystem, hydrologic circle and atmosphere. In addition, we consult a lot of data to find a benchmark for the “Earth Health Map”, with the ecosystem distribution on it, which can be helpful for making a strategic decision for policy makers and prediction. Our model can be extended to other similar fields. In the end, we discuss the sensitivity of parameters selection, and the superiorities and weaknesses of our model.
A cellular automata-based mathematical model for thymocyte development.
Directory of Open Access Journals (Sweden)
Hallan Souza-e-Silva
Full Text Available Intrathymic T cell development is an important process necessary for the normal formation of cell-mediated immune responses. Importantly, such a process depends on interactions of developing thymocytes with cellular and extracellular elements of the thymic microenvironment. Additionally, it includes a series of oriented and tunely regulated migration events, ultimately allowing mature cells to cross endothelial barriers and leave the organ. Herein we built a cellular automata-based mathematical model for thymocyte migration and development. The rules comprised in this model take into account the main stages of thymocyte development, two-dimensional sections of the normal thymic microenvironmental network, as well as the chemokines involved in intrathymic cell migration. Parameters of our computer simulations with further adjusted to results derived from previous experimental data using sub-lethally irradiated mice, in which thymus recovery can be evaluated. The model fitted with the increasing numbers of each CD4/CD8-defined thymocyte subset. It was further validated since it fitted with the times of permanence experimentally ascertained in each CD4/CD8-defined differentiation stage. Importantly, correlations using the whole mean volume of young normal adult mice revealed that the numbers of cells generated in silico with the mathematical model fall within the range of total thymocyte numbers seen in these animals. Furthermore, simulations made with a human thymic epithelial network using the same mathematical model generated similar profiles for temporal evolution of thymocyte developmental stages. Lastly, we provided in silico evidence that the thymus architecture is important in the thymocyte development, since changes in the epithelial network result in different theoretical profiles for T cell development/migration. This model likely can be used to predict thymocyte evolution following therapeutic strategies designed for recovery of the
Czechowski, Zbigniew
2015-07-01
On the basis of simple cellular automaton, the microscopic mechanisms, which can be responsible for elongation of tails of cluster size distributions, were analyzed. It was shown that only the appropriate forms of rebound function can lead to inverse power tails if densities of the grid are small or moderate. For big densities, correlations between clusters become significant and lead to elongation of tails and flattening of the distribution to a straight line in log-log scale. The microscopic mechanism, given by the rebound function, included in simple 1D RDA can be projected on the geometric mechanism, which favours larger clusters in 2D RDA.
Critical Behavior in a Cellular Automata Animal Disease Transmission Model
Morley, P D; Chang, Julius
2003-01-01
Using a cellular automata model, we simulate the British Government Policy (BGP) in the 2001 foot and mouth epidemic in Great Britain. When clinical symptoms of the disease appeared on a farm, there is mandatory slaughter (culling) of all livestock on an infected premise (IP). Those farms that neighbor an IP (contiguous premise, CP), are also culled, aka nearest neighbor interaction. Farms where the disease may be prevalent from animal, human, vehicle or airborne transmission (dangerous contact, DC), are additionally culled, aka next-to-nearest neighbor iteractions and lightning factor. The resulting mathematical model possesses a phase transition, whereupon if the physical disease transmission kernel exceeds a critical value, catastrophic loss of animals ensues. The non-local disease transport probability can be as low as .01% per day and the disease can still be in the high mortality phase. We show that the fundamental equation for sustainable disease transport is the criticality equation for neutron fissio...
Computer Modeling of the Earliest Cellular Structures and Functions
Pohorille, Andrew
2000-03-01
In the absence of extinct or extant record of protocells (the earliest ancestors of contemporary cells), the most direct way to test ourunderstanding of the origin of cellular life is to construct laboratory models of protocells. Such efforts are currently underway in the NASA Astrobiology Program. They are accompanied by computational studies aimed at explaining self-organization of simple molecules into ordered structures and developing designs for molecules that perform protocellular functions. Many of these functions, such as import of nutrients, capture and storage of energy, and response to changes in the environment are carried out by proteins bound to membranes. We will discuss a series of large-scale, molecular-level computer simulations which demonstrate (a) how small proteins (peptides)organize themselves into ordered structures at water-membrane interfaces and insert into membranes, (b) how these peptides aggregate to form membrane-spanning structures (e.g. channels), and (c) by what mechanisms such aggregates perform essential protocellular functions, such as proton transport of protons across cell walls, a key step in cellular bioenergetics. The simulations were performed using the molecular dynamics method, in which Newton's equations of motion for each atom in the system are solved iteratively. The problems of interest required simulations on multi-nanosecond time scales, which corresponded to 10^6-10^8 time steps.
A Computational Model of Cellular Response to Modulated Radiation Fields
International Nuclear Information System (INIS)
Purpose: To develop a model to describe the response of cell populations to spatially modulated radiation exposures of relevance to advanced radiotherapies. Materials and Methods: A Monte Carlo model of cellular radiation response was developed. This model incorporated damage from both direct radiation and intercellular communication including bystander signaling. The predictions of this model were compared to previously measured survival curves for a normal human fibroblast line (AGO1522) and prostate tumor cells (DU145) exposed to spatially modulated fields. Results: The model was found to be able to accurately reproduce cell survival both in populations which were directly exposed to radiation and those which were outside the primary treatment field. The model predicts that the bystander effect makes a significant contribution to cell killing even in uniformly irradiated cells. The bystander effect contribution varies strongly with dose, falling from a high of 80% at low doses to 25% and 50% at 4 Gy for AGO1522 and DU145 cells, respectively. This was verified using the inducible nitric oxide synthase inhibitor aminoguanidine to inhibit the bystander effect in cells exposed to different doses, which showed significantly larger reductions in cell killing at lower doses. Conclusions: The model presented in this work accurately reproduces cell survival following modulated radiation exposures, both in and out of the primary treatment field, by incorporating a bystander component. In addition, the model suggests that the bystander effect is responsible for a significant portion of cell killing in uniformly irradiated cells, 50% and 70% at doses of 2 Gy in AGO1522 and DU145 cells, respectively. This description is a significant departure from accepted radiobiological models and may have a significant impact on optimization of treatment planning approaches if proven to be applicable in vivo.
The importance of volume exclusion in modelling cellular migration.
Dyson, Louise; Baker, Ruth E
2015-09-01
The modelling of collective migration has traditionally been undertaken in a continuous framework, with little reference to the individual-level mechanisms that give rise to such a concerted movement. One factor whose importance is now coming to light is that the individuals themselves occupy space in the domain, thus obstructing others from moving past them (volume exclusion). In this work, we systematically derive continuous descriptions of cellular migration with volume exclusion for a wide range of individual-based mechanisms and in one, two and three dimensions. We also consider subpopulations of migrating individuals, which may have different characteristics, such as differing sizes and speeds of migration. We demonstrate that volume exclusion is of particular importance when biased movement is included, and thus conclude that volume exclusion may have its greatest effect when considering directed migratory mechanisms such as chemotaxis.
COMPARATIVE ANALYSIS OF CONGESTION CONTROL MODELS FOR CELLULAR WIRELESS NETWORK
Directory of Open Access Journals (Sweden)
Falade A. J
2015-08-01
Full Text Available Cellular wireless systems like GSM suffer from congestion resulting in overall system degradation and poor service delivery. When the traffic demand in a geographical area is high, the input traffic rate will exceed thecapacity of the output lines. This work focused on homogenous wireless network (the network traffic and resource dimensioning that are statistically identical such that the network performance evaluation can be reduced to a system with single cell and a single traffic type. Such system can employa queuing model to evaluate the performance metric of a cell in terms of blocking probability. Five congestion control models were compared in the work to ascertain their peculiarities, they are Erlang B, Erlang C, Engset (cleared, Engset (buffered, and Bernoulli. To analyze the system, an aggregate onedimensional Markov chain wasderived, such that it describes a call arrival process under the assumption that it is Poisson distributed. The models were simulated and their results show varying performances, however the Bernoulli model (Pb5 tends to show a situation that allows more users access to the system and the congestion level remain unaffected despite increase in the number of users and the offered traffic into the system.
A node-based version of the cellular Potts model.
Scianna, Marco; Preziosi, Luigi
2016-09-01
The cellular Potts model (CPM) is a lattice-based Monte Carlo method that uses an energetic formalism to describe the phenomenological mechanisms underlying the biophysical problem of interest. We here propose a CPM-derived framework that relies on a node-based representation of cell-scale elements. This feature has relevant consequences on the overall simulation environment. First, our model can be implemented on any given domain, provided a proper discretization (which can be regular or irregular, fixed or time evolving). Then, it allowed an explicit representation of cell membranes, whose displacements realistically result in cell movement. Finally, our node-based approach can be easily interfaced with continuous mechanics or fluid dynamics models. The proposed computational environment is here applied to some simple biological phenomena, such as cell sorting and chemotactic migration, also in order to achieve an analysis of the performance of the underlying algorithm. This work is finally equipped with a critical comparison between the advantages and disadvantages of our model with respect to the traditional CPM and to some similar vertex-based approaches. PMID:27416549
Oku, Makito; Aihara, Kazuyuki
2010-11-01
A modularly-structured neural network model is considered. Each module, which we call a ‘cell’, consists of two parts: a Hopfield neural network model and a multilayered perceptron. An array of such cells is used to simulate the Rule 110 cellular automaton with high accuracy even when all the units of neural networks are replaced by stochastic binary ones. We also find that noise not only degrades but also facilitates computation if the outputs of multilayered perceptrons are below the threshold required to update the states of the cells, which is a stochastic resonance in computation.
A cellular automata model of epidemics of a heterogeneous susceptibility
Institute of Scientific and Technical Information of China (English)
Jin Zhen; Liu Quan-Xing
2006-01-01
In this paper we present a model with spatial heterogeneity based on cellular automata (CA). In the model we consider the relevant heterogeneity of host (susceptible) mixing and the natural birth rate. We divide the susceptible population into three groups according to the immunity of each individual based on the classical susceptible-infectedremoved (SIR) epidemic models, and consider the spread of an infectious disease transmitted by direct contact among humans and vectors that have not an incubation period to become infectious. We test the local stability and instability of the disease-free equilibrium by the spectrum radii of Jacobian. The simulation shows that the structure of the nearest neighbour size of the cell (or the degree of the scale-free networks) plays a very important role in the spread properties of infectious disease. The positive equilibrium of the infections versus the neighbour size follows the third power law if an endemic equilibrium point exists. Finally, we analyse the feature of the infection waves for the homogeneity and heterogeneous cases respectively.
A Computational model for compressed sensing RNAi cellular screening
Directory of Open Access Journals (Sweden)
Tan Hua
2012-12-01
Full Text Available Abstract Background RNA interference (RNAi becomes an increasingly important and effective genetic tool to study the function of target genes by suppressing specific genes of interest. This system approach helps identify signaling pathways and cellular phase types by tracking intensity and/or morphological changes of cells. The traditional RNAi screening scheme, in which one siRNA is designed to knockdown one specific mRNA target, needs a large library of siRNAs and turns out to be time-consuming and expensive. Results In this paper, we propose a conceptual model, called compressed sensing RNAi (csRNAi, which employs a unique combination of group of small interfering RNAs (siRNAs to knockdown a much larger size of genes. This strategy is based on the fact that one gene can be partially bound with several small interfering RNAs (siRNAs and conversely, one siRNA can bind to a few genes with distinct binding affinity. This model constructs a multi-to-multi correspondence between siRNAs and their targets, with siRNAs much fewer than mRNA targets, compared with the conventional scheme. Mathematically this problem involves an underdetermined system of equations (linear or nonlinear, which is ill-posed in general. However, the recently developed compressed sensing (CS theory can solve this problem. We present a mathematical model to describe the csRNAi system based on both CS theory and biological concerns. To build this model, we first search nucleotide motifs in a target gene set. Then we propose a machine learning based method to find the effective siRNAs with novel features, such as image features and speech features to describe an siRNA sequence. Numerical simulations show that we can reduce the siRNA library to one third of that in the conventional scheme. In addition, the features to describe siRNAs outperform the existing ones substantially. Conclusions This csRNAi system is very promising in saving both time and cost for large-scale RNAi
A Computational model for compressed sensing RNAi cellular screening
2012-01-01
Background RNA interference (RNAi) becomes an increasingly important and effective genetic tool to study the function of target genes by suppressing specific genes of interest. This system approach helps identify signaling pathways and cellular phase types by tracking intensity and/or morphological changes of cells. The traditional RNAi screening scheme, in which one siRNA is designed to knockdown one specific mRNA target, needs a large library of siRNAs and turns out to be time-consuming and expensive. Results In this paper, we propose a conceptual model, called compressed sensing RNAi (csRNAi), which employs a unique combination of group of small interfering RNAs (siRNAs) to knockdown a much larger size of genes. This strategy is based on the fact that one gene can be partially bound with several small interfering RNAs (siRNAs) and conversely, one siRNA can bind to a few genes with distinct binding affinity. This model constructs a multi-to-multi correspondence between siRNAs and their targets, with siRNAs much fewer than mRNA targets, compared with the conventional scheme. Mathematically this problem involves an underdetermined system of equations (linear or nonlinear), which is ill-posed in general. However, the recently developed compressed sensing (CS) theory can solve this problem. We present a mathematical model to describe the csRNAi system based on both CS theory and biological concerns. To build this model, we first search nucleotide motifs in a target gene set. Then we propose a machine learning based method to find the effective siRNAs with novel features, such as image features and speech features to describe an siRNA sequence. Numerical simulations show that we can reduce the siRNA library to one third of that in the conventional scheme. In addition, the features to describe siRNAs outperform the existing ones substantially. Conclusions This csRNAi system is very promising in saving both time and cost for large-scale RNAi screening experiments which
Multi Car Elevator Control by using Learning Automaton
Shiraishi, Kazuaki; Hamagami, Tomoki; Hirata, Hironori
We study an adaptive control technique for multi car elevators (MCEs) by adopting learning automatons (LAs.) The MCE is a high performance and a near-future elevator system with multi shafts and multi cars. A strong point of the system is that realizing a large carrying capacity in small shaft area. However, since the operation is too complicated, realizing an efficient MCE control is difficult for top-down approaches. For example, “bunching up together" is one of the typical phenomenon in a simple traffic environment like the MCE. Furthermore, an adapting to varying environment in configuration requirement is a serious issue in a real elevator service. In order to resolve these issues, having an autonomous behavior is required to the control system of each car in MCE system, so that the learning automaton, as the solutions for this requirement, is supposed to be appropriate for the simple traffic control. First, we assign a stochastic automaton (SA) to each car control system. Then, each SA varies its stochastic behavior distributions for adapting to environment in which its policy is evaluated with each passenger waiting times. That is LA which learns the environment autonomously. Using the LA based control technique, the MCE operation efficiency is evaluated through simulation experiments. Results show the technique enables reducing waiting times efficiently, and we confirm the system can adapt to the dynamic environment.
Critical Behavior in Cellular Automata Animal Disease Transmission Model
Morley, P. D.; Chang, Julius
Using cellular automata model, we simulate the British Government Policy (BGP) in the 2001 foot and mouth epidemic in Great Britain. When clinical symptoms of the disease appeared in a farm, there is mandatory slaughter (culling) of all livestock in an infected premise (IP). Those farms in the neighboring of an IP (contiguous premise, CP), are also culled, aka nearest neighbor interaction. Farms where the disease may be prevalent from animal, human, vehicle or airborne transmission (dangerous contact, DC), are additionally culled, aka next-to-nearest neighbor interactions and lightning factor. The resulting mathematical model possesses a phase transition, whereupon if the physical disease transmission kernel exceeds a critical value, catastrophic loss of animals ensues. The nonlocal disease transport probability can be as low as 0.01% per day and the disease can still be in the high mortality phase. We show that the fundamental equation for sustainable disease transport is the criticality equation for neutron fission cascade. Finally, we calculate that the percentage of culled animals that are actually healthy is ≈30%.
Modeling chemical systems using cellular automata a textbook and laboratory manual
Kier, Lemont B; Cheng, Chao-Kun
2006-01-01
Provides a practical introduction to an exciting modeling paradigm for complex systems. This book discusses the nature of scientific inquiry using models and simulations, and describes the nature of cellular automata models. It gives descriptions of how cellular automata models can be used in the study of a variety of phenomena.
The Universe as Automaton From Simplicity and Symmetry to Complexity
Mainzer, Klaus
2012-01-01
This booklet is an essay at the interface of philosophy and complexity research, trying to inspire the reader with new ideas and new conceptual developments of cellular automata. Going beyond the numerical experiments of Steven Wolfram, it is argued that cellular automata must be considered complex dynamical systems in their own right, requiring appropriate analytical models in order to find precise answers and predictions in the universe of cellular automata. Indeed, eventually we have to ask whether cellular automata can be considered models of the real world and, conversely, whether there are limits to our modern approach of attributing the world, and the universe for that matter, essentially a digital reality.
Progresses in the Analysis of Stochastic 2D Cellular Automata: a Study of Asynchronous 2D Minority
Regnault, Damien; Thierry, Éric
2007-01-01
Cellular automata are often used to model systems in physics, social sciences, biology that are inherently asynchronous. Over the past 20 years, studies have demonstrated that the behavior of cellular automata drastically changed under asynchronous updates. Still, the few mathematical analyses of asynchronism focus on one-dimensional probabilistic cellular automata, either on single examples or on specific classes. As for other classic dynamical systems in physics, extending known methods from one- to two-dimensional systems is a long lasting challenging problem. In this paper, we address the problem of analysing an apparently simple 2D asynchronous cellular automaton: 2D Minority where each cell, when fired, updates to the minority state of its neighborhood. Our experiments reveal that in spite of its simplicity, the minority rule exhibits a quite complex response to asynchronism. By focusing on the fully asynchronous regime, we are however able to describe completely the asymptotic behavior of this dynamics...
Relationship between cellular response models and biochemical mechanisms
International Nuclear Information System (INIS)
In most cellular response experiments, survival reflects the kinetics of a variety of damage and repair processes. Unfortunately, biochemical studies of molecular repair deal with mechanisms which cannot be readily correlated with these kinetic observations. The difference in these approaches sometimes leads to confusion over terms such as potentially-lethal and sublethal damage. These terms were introduced with operation definitions, derived from kinetic studies of cell survival, but some researchers have since attempted to associate them with specific biochemical mechanisms. Consequently, the terms are often used in totally different ways be different investigators. The use of carefully constructed models originating either out of assumptions based on mechanisms, or on kinetics, can be used to design experiments to eliminate some alternative kinetic schemes. In turn, some mechanisms may also be eliminated, resulting in a reduction in the number of mechanisms which must be investigated biochemically. One must take advantage of a wide range of specialized radiation procedures in order to accomplish this. Examples of the use of such specialized experimental designs, which have led to a more detailed understanding of the kinetics of both algal and mammalian cell responses, are discussed
Cellular automata model of magnetospheric-ionospheric coupling
Directory of Open Access Journals (Sweden)
B. V. Kozelov
Full Text Available We propose a cellular automata model (CAM to describe the substorm activity of the magnetospheric-ionospheric system. The state of each cell in the model is described by two numbers that correspond to the energy content in a region of the current sheet in the magnetospheric tail and to the conductivity of the ionospheric domain that is magnetically connected with this region. The driving force of the system is supposed to be provided by the solar wind that is convected along the two boundaries of the system. The energy flux inside is ensured by the penetration of the energy from the solar wind into the array of cells (magnetospheric tail with a finite velocity. The third boundary (near to the Earth is closed and the fourth boundary is opened, thereby modeling the flux far away from the tail. The energy dissipation in the system is quite similar to other CAM models, when the energy in a particular cell exceeds some pre-defined threshold, and the part of the energy excess is redistributed between the neighbouring cells. The second number attributed to each cell mimics ionospheric conductivity that can allow for a part of the energy to be shed on field-aligned currents. The feedback between "ionosphere" and "magnetospheric tail" is provided by the change in a part of the energy, which is redistributed in the tail when the threshold is surpassed. The control parameter of the model is the z-component of the interplanetary magnetic field (Bz IMF, "frozen" into the solar wind. To study the internal dynamics of the system at the beginning, this control parameter is taken to be constant. The dynamics of the system undergoes several bifurcations, when the constant varies from - 0.6 to - 6.0. The Bz IMF input results in the periodic transients (activation regions and the inter-transient period decreases with the decrease of Bz. At the same time the onset of activations in the array shifts towards the "Earth". When the modulus of the Bz IMF exceeds some
Directory of Open Access Journals (Sweden)
Chang-Hua Zou
2009-01-01
Full Text Available Problem statement: Cardiovascular Diseases (CVD continued to be the leading cause of death. Failure or abnormal cardiac cellular or sub-cellular vibrations (oscillations could lead failure or abnormal heart beats that could cause CVD. Understanding the mechanisms of the vibrations (oscillations could help to prevent or to treat the diseases. Scientists have studied the mechanisms for more than 100 years. To our knowledge, the mechanisms are still unclear today. In this investigation, based on published data or results, conservation laws of the momentum as well as the energy, in views of biology, biochemistry, informatics and physics (BioChemInfoPhysics, we proposed our models of cardiac cellular and sub-cellular vibrations (oscillations of biological components, such as free ions in Biological Fluids (BF, Biological Membranes (BM, Ca++H+ (Ca++ and Na+K+ ATPases, Na+Ca++ exchangers (NCX, Ca++ carriers and myosin heads. Approach: Our models were described with 4-D (x, y, z, t or r, ?, z, t momentum transfer equations in mathematical physics. Results: The momentum transfer equations were solved with free and forced, damped, un-damped and over-damped, vibrations (oscillations. The biological components could be modeled as resonators or vibrators (oscillators, such as liquid plasmas, membranes, active springs, passive springs and active swings. Conclusion: We systematically provided new insights of automation (ignition and maintain, transportation, propagation and orientation of the cardiac cellular and sub-cellular vibrations (oscillations and resonances, with our BioChemInfoPhysics models of 4-D momentum transfer equations. Our modeling results implied: Auto-rhythmic cells (Sinoatrial Node Cells (SANC, Atrioventricular Node Cells (AVNC, Purkinje fibers, non-Auto-rhythmic ventricular myocytes and their Sarcoplasmic Reticulums (SR work as Biological Liquid Plasma Resonators (BLPR. The resonators were
A Cellular Automata Model for the Study of Landslides
Liucci, Luisa; Suteanu, Cristian; Melelli, Laura
2016-04-01
Power-law scaling has been observed in the frequency distribution of landslide sizes in many regions of the world, for landslides triggered by different factors, and in both multi-temporal and post-event datasets, thus indicating the universal character of this property of landslides and suggesting that the same mechanisms drive the dynamics of mass wasting processes. The reasons for the scaling behavior of landslide sizes are widely debated, since their understanding would improve our knowledge of the spatial and temporal evolution of this phenomenon. Self-Organized Critical (SOC) dynamics and the key role of topography have been suggested as possible explanations. The scaling exponent of the landslide size-frequency distribution defines the probability of landslide magnitudes and it thus represents an important parameter for hazard assessment. Therefore, another - still unanswered - important question concerns the factors on which its value depends. This paper investigates these issues using a Cellular Automata (CA) model. The CA uses a real topographic surface acquired from a Digital Elevation Model to represent the initial state of the system, where the states of cells are defined in terms of altitude. The stability criterion is based on the slope gradient. The system is driven to instability through a temporal decrease of the stability condition of cells, which may be thought of as representing the temporal weakening of soil caused by factors like rainfall. A transition rule defines the way in which instabilities lead to discharge from unstable cells to the neighboring cells, deciding upon the landslide direction and the quantity of mass involved. Both the direction and the transferred mass depend on the local topographic features. The scaling properties of the area-frequency distributions of the resulting landslide series are investigated for several rates of weakening and for different time windows, in order to explore the response of the system to model
A new small-world network created by Cellular Automata
Ruan, Yuhong; Li, Anwei
2016-08-01
In this paper, we generate small-world networks by the Cellular Automaton based on starting with one-dimensional regular networks. Besides the common properties of small-world networks with small average shortest path length and large clustering coefficient, the small-world networks generated in this way have other properties: (i) The edges which are cut in the regular network can be controlled that whether the edges are reconnected or not, and (ii) the number of the edges of the small-world network model equals the number of the edges of the original regular network. In other words, the average degree of the small-world network model equals to the average degree of the original regular network.
Cellular Automata Models Applied to the Study of Landslide Dynamics
Liucci, Luisa; Melelli, Laura; Suteanu, Cristian
2015-04-01
Landslides are caused by complex processes controlled by the interaction of numerous factors. Increasing efforts are being made to understand the spatial and temporal evolution of this phenomenon, and the use of remote sensing data is making significant contributions in improving forecast. This paper studies landslides seen as complex dynamic systems, in order to investigate their potential Self Organized Critical (SOC) behavior, and in particular, scale-invariant aspects of processes governing the spatial development of landslides and their temporal evolution, as well as the mechanisms involved in driving the system and keeping it in a critical state. For this purpose, we build Cellular Automata Models, which have been shown to be capable of reproducing the complexity of real world features using a small number of variables and simple rules, thus allowing for the reduction of the number of input parameters commonly used in the study of processes governing landslide evolution, such as those linked to the geomechanical properties of soils. This type of models has already been successfully applied in studying the dynamics of other natural hazards, such as earthquakes and forest fires. The basic structure of the model is composed of three modules: (i) An initialization module, which defines the topographic surface at time zero as a grid of square cells, each described by an altitude value; the surface is acquired from real Digital Elevation Models (DEMs). (ii) A transition function, which defines the rules used by the model to update the state of the system at each iteration. The rules use a stability criterion based on the slope angle and introduce a variable describing the weakening of the material over time, caused for example by rainfall. The weakening brings some sites of the system out of equilibrium thus causing the triggering of landslides, which propagate within the system through local interactions between neighboring cells. By using different rates of
Modelling intercellular communication and its effects on tumour invasion
International Nuclear Information System (INIS)
We present a model aiming at the description of intercellular communication on the invasive character of gliomas. We start from a previous model of ours based on a cellular automaton and develop a new version of it in a three-dimensional geometry. Introducing the hydrodynamic limit of the automaton we obtain a macroscopic model involving a nonlinear diffusion equation. We show that this macroscopic model is quite adequate for the description of realistic situations. Comparison of the simulations with experimental results shows agreement with the finding that the inhibition of intercellular communication (through gap junctions) tends to decrease migration. As an application of our model we estimated the possible increase in life expectancy, due to reduced cell migration mediated by the inhibition of intercellular communication, on patients suffering from gliomas. We find that the obtained increase may amount to a 20% gain in the case of unresectable tumours
Modeling grain orientation of DP600 steel by Nd:YAG laser
Directory of Open Access Journals (Sweden)
LiuShibo
2016-01-01
Full Text Available A FE-CA (Finite Element-Cellular Automaton model is built to simulate the microstructure evaluation during laser welding of DP600 high strength steel. A moving conical heat source is performed in ABAQUS to achieve temperature field during welding. A linear interpolation method is used to transfer node temperature of ABAQUS to cell temperature of Cellular Automaton. With the consideration of temperature and solute concentration, the solidification of DP600 after weld is simulated. The established FE-CA model can simulate 2D equiaxed and column dendrite grain growth. The competitive growth between different dendrite arms is presented. The weld microstructure simulation result shows good agreement with experiment results.
Stability of Cellular Automata Trajectories Revisited: Branching Walks and Lyapunov Profiles
Baetens, Jan M.; Gravner, Janko
2016-10-01
We study non-equilibrium defect accumulation dynamics on a cellular automaton trajectory: a branching walk process in which a defect creates a successor on any neighborhood site whose update it affects. On an infinite lattice, defects accumulate at different exponential rates in different directions, giving rise to the Lyapunov profile. This profile quantifies instability of a cellular automaton evolution and is connected to the theory of large deviations. We rigorously and empirically study Lyapunov profiles generated from random initial states. We also introduce explicit and computationally feasible variational methods to compute the Lyapunov profiles for periodic configurations, thus developing an analog of Floquet theory for cellular automata.
Threshold-Range Scaling of Excitable Cellular Automata
Fisch, R; Griffeath, D; Fisch, Robert; Gravner, Janko; Griffeath, David
1993-01-01
Each cell of a two-dimensional lattice is painted one of k colors, arranged in a "color wheel." The colors advance (0 to k-1 mod k) either automatically or by contact with at least a threshold number of successor colors in a prescribed local neighborhood. Discrete-time parallel systems of this sort in which color 0 updates by contact and the rest update automatically are called Greenberg-Hastings (GH) rules. A system in which all colors update by contact is called a cyclic cellular automaton (CCA). Started from appropriate initial conditions these models generate periodic traveling waves. Started from random configurations the same rules exhibit complex self-organization, typically characterized by nucleation of locally periodic "ram's horns" or spirals. Corresponding random processes give rise to a variety of "forest fire" equilibria that display large-scale stochastic wave fronts. This article describes a framework, theoretically based, but relying on extensive interactive computer graphics experimentation,...
Simple Cellular Automata-Based Linear Models for the Shrinking Generator
Fúster-Sabater, Amparo
2010-01-01
Structural properties of two well-known families of keystream generators, Shrinking Generators and Cellular Automata, have been analyzed. Emphasis is on the equivalence of the binary sequences obtained from both kinds of generators. In fact, Shrinking Generators (SG) can be identified with a subset of linear Cellular Automata (mainly rule 90, rule 150 or a hybrid combination of both rules). The linearity of these cellular models can be advantageously used in the cryptanalysis of those keystream generators.
Stochastic Models of Vesicular Sorting in Cellular Organelles
Vagne, Quentin
2016-01-01
The proper sorting of membrane components by regulated exchange between cellular organelles is crucial to intra-cellular organization. This process relies on the budding and fusion of transport vesicles, and should be strongly influenced by stochastic fluctuations considering the relatively small size of many organelles. We identify the perfect sorting of two membrane components initially mixed in a single compartment as a first passage process, and we show that the mean sorting time exhibits two distinct regimes as a function of the ratio of vesicle fusion to budding rates. Low ratio values leads to fast sorting, but results in a broad size distribution of sorted compartments dominated by small entities. High ratio values result in two well defined sorted compartments but is exponentially slow. Our results suggests an optimal balance between vesicle budding and fusion for the rapid and efficient sorting of membrane components, and highlight the importance of stochastic effects for the steady-state organizati...
Cellular-automata model of the dwarf shrubs populations and communities dynamics
A. S. Komarov; E. V. Zubkova; P. V. Frolov
2015-01-01
The probabilistic cellular-automata model of development and long-time dynamics of dwarf shrub populations and communities is developed. It is based on the concept of discrete description of the plant ontogenesis and joint model approaches in terms of probabilistic cellular automata and L-systems by Lindenmayer. Short representation of the basic model allows evaluation of the approach and software implementation. The main variables of the model are a number of partial bushes in clones or area...
Particle acceleration in a complex solar active region modelled by a Cellular automata model
Dauphin, C.; Vilmer, N.; Anastasiadis, A.
2004-12-01
The models of cellular automat allowed to reproduce successfully several statistical properties of the solar flares. We use a cellular automat model based on the concept of self-organised critical system to model the evolution of the magnetic energy released in an eruptive active area. Each burst of magnetic energy released is assimilated to a process of magnetic reconnection. We will thus generate several current layers (RCS) where the particles are accelerated by a direct electric field. We calculate the energy gain of the particles (ions and electrons) for various types of magnetic configuration. We calculate the distribution function of the kinetic energy of the particles after their interactions with a given number of RCS for each type of configurations. We show that the relative efficiency of the acceleration of the electrons and the ions depends on the selected configuration.
A Large Deformation Model for the Elastic Moduli of Two-dimensional Cellular Materials
Institute of Scientific and Technical Information of China (English)
HU Guoming; WAN Hui; ZHANG Youlin; BAO Wujun
2006-01-01
We developed a large deformation model for predicting the elastic moduli of two-dimensional cellular materials. This large deformation model was based on the large deflection of the inclined members of the cells of cellular materials. The deflection of the inclined member, the strain of the representative structure and the elastic moduli of two-dimensional cellular materials were expressed using incomplete elliptic integrals. The experimental results show that these elastic moduli are no longer constant at large deformation, but vary significantly with the strain. A comparison was made between this large deformation model and the small deformation model proposed by Gibson and Ashby.
Symbolic Computation Using Cellular Automata-Based Hyperdimensional Computing.
Yilmaz, Ozgur
2015-12-01
This letter introduces a novel framework of reservoir computing that is capable of both connectionist machine intelligence and symbolic computation. A cellular automaton is used as the reservoir of dynamical systems. Input is randomly projected onto the initial conditions of automaton cells, and nonlinear computation is performed on the input via application of a rule in the automaton for a period of time. The evolution of the automaton creates a space-time volume of the automaton state space, and it is used as the reservoir. The proposed framework is shown to be capable of long-term memory, and it requires orders of magnitude less computation compared to echo state networks. As the focus of the letter, we suggest that binary reservoir feature vectors can be combined using Boolean operations as in hyperdimensional computing, paving a direct way for concept building and symbolic processing. To demonstrate the capability of the proposed system, we make analogies directly on image data by asking, What is the automobile of air?
Excellent approach to modeling urban expansion by fuzzy cellular automata: agent base model
Khajavigodellou, Yousef; Alesheikh, Ali A.; Mohammed, Abdulrazak A. S.; Chapi, Kamran
2014-09-01
Recently, the interaction between humans and their environment is the one of important challenges in the world. Landuse/ cover change (LUCC) is a complex process that includes actors and factors at different social and spatial levels. The complexity and dynamics of urban systems make the applicable practice of urban modeling very difficult. With the increased computational power and the greater availability of spatial data, micro-simulation such as the agent based and cellular automata simulation methods, has been developed by geographers, planners, and scholars, and it has shown great potential for representing and simulating the complexity of the dynamic processes involved in urban growth and land use change. This paper presents Fuzzy Cellular Automata in Geospatial Information System and remote Sensing to simulated and predicted urban expansion pattern. These FCA-based dynamic spatial urban models provide an improved ability to forecast and assess future urban growth and to create planning scenarios, allowing us to explore the potential impacts of simulations that correspond to urban planning and management policies. A fuzzy inference guided cellular automata approach. Semantic or linguistic knowledge on Land use change is expressed as fuzzy rules, based on which fuzzy inference is applied to determine the urban development potential for each pixel. The model integrates an ABM (agent-based model) and FCA (Fuzzy Cellular Automata) to investigate a complex decision-making process and future urban dynamic processes. Based on this model rapid development and green land protection under the influences of the behaviors and decision modes of regional authority agents, real estate developer agents, resident agents and non- resident agents and their interactions have been applied to predict the future development patterns of the Erbil metropolitan region.
Predictive model to describe water migration in cellular solid foods during storage
Voogt, J.A.; Hirte, A.; Meinders, M.B.J.
2011-01-01
Background: Water migration in cellular solid foods during storage causes loss of crispness. To improve crispness retention, physical understanding of this process is needed. Mathematical models are suitable tools to gain this physical knowledge. Results: Water migration in cellular solid foods invo
A mathematical model of amphibian skin epithelium with two types of transporting cellular units
DEFF Research Database (Denmark)
Larsen, Erik Hviid; Rasmussen, B E
1985-01-01
A computer model of ion transport across amphibian skin epithelium containing two types of cellular units, their relative number and sizes, and a paracellular pathway has been developed. The two cellular units are, a large Na+ transporting compartment representing the major epithelium from stratum...
Effect of morphology on water sorption in cellular solid foods. Part I: Pore scale network model
Esveld, D.C.; Sman, van der R.G.M.; Dalen, van G.; Duynhoven, van J.P.M.; Meinders, M.B.J.
2012-01-01
A pore scale network model is developed to predict the dynamics of moisture diffusion into complex cellular solid foods like bread, crackers, and cereals. The morphological characteristics of the sample, including the characteristics of each cellular void and the open pore connections between them a
Predictive model to describe water migration in cellular solid foods during storage
Voogt, J.A.; Hirte, A.; Meinders, M.B.J.
2011-01-01
BACKGROUND: Water migration in cellular solid foods during storage causes loss of crispness. To improve crispness retention, physical understanding of this process is needed. Mathematical models are suitable tools to gain this physical knowledge. RESULTS: Water migration in cellular solid foods invo
Dynamic modeling of cellular response to DNA damage based on p53 stress response networks
Institute of Scientific and Technical Information of China (English)
Jinpeng Qi; Yongsheng Ding; Shihuang Shao
2009-01-01
Under acute perturbations from the outside, cells can trigger self-defensive mechanisms to fight against genome stress. To investigate the cellular response to continuous ion radiation (IR), a dynamic model for p53 stress response networks at the cellular level is proposed. The model can successfully be used to simulate the dynamic processes of double-strand breaks (DSBs) generation and their repair, switch-like ataxia telangiectasia mutated (ATM) activation, oscillations occurring in the p53-MDM2 feedback loop, as well as toxins elimination triggered by p53 stress response networks. Especially, the model can predict the plausible outcomes of cellular response under different IR dose regimes.
Modeling and Analysis of Cellular Networks using Stochastic Geometry: A Tutorial
ElSawy, Hesham
2016-03-22
This paper presents a tutorial on stochastic geometry (SG) based analysis for cellular networks. This tutorial is distinguished by its depth with respect to wireless communication details and its focus on cellular networks. The paper starts by modeling and analyzing the baseband interference in a basic cellular network model. Then, it characterizes signal-tointerference- plus-noise-ratio (SINR) and its related performance metrics. In particular, a unified approach to conduct error probability, outage probability, and rate analysis is presented. Although the main focus of the paper is on cellular networks, the presented unified approach applies for other types of wireless networks that impose interference protection around receivers. The paper then extends the baseline unified approach to capture cellular network characteristics (e.g., frequency reuse, multiple antenna, power control, etc.). It also presents numerical examples associated with demonstrations and discussions. Finally, we point out future research directions.
Game of Life Cellular Automata
Adamatzky, Andrew
2010-01-01
In the late 1960s, British mathematician John Conway invented a virtual mathematical machine that operates on a two-dimensional array of square cell. Each cell takes two states, live and dead. The cells' states are updated simultaneously and in discrete time. A dead cell comes to life if it has exactly three live neighbours. A live cell remains alive if two or three of its neighbours are alive, otherwise the cell dies. Conway's Game of Life became the most programmed solitary game and the most known cellular automaton. The book brings together results of forty years of study into computational
Modeling collective & intelligent decision making of multi-cellular populations.
Shin, Yong-Jun; Mahrou, Bahareh
2014-01-01
In the presence of unpredictable disturbances and uncertainties, cells intelligently achieve their goals by sharing information via cell-cell communication and making collective decisions, which are more reliable compared to individual decisions. Inspired by adaptive sensor network algorithms studied in communication engineering, we propose that a multi-cellular adaptive network can convert unreliable decisions by individual cells into a more reliable cell-population decision. It is demonstrated using the effector T helper (a type of immune cell) population, which plays a critical role in initiating immune reactions in response to invading foreign agents (e.g., viruses, bacteria, etc.). While each individual cell follows a simple adaptation rule, it is the combined coordination among multiple cells that leads to the manifestation of "self-organizing" decision making via cell-cell communication.
Cellular Automation Model of Traffic Flow Based on the Car-Following Model
Institute of Scientific and Technical Information of China (English)
LI Ke-Ping; GAO Zi-You
2004-01-01
@@ We propose a new cellular automation (CA) traffic model that is based on the car-following model. A class of driving strategies is used in the car-following model instead of the acceleration in the NaSch traffic model. In our model, some realistic driver behaviour and detailed vehicle characteristics have been taken into account, such as distance-headway and safe distance, etc. The simulation results show that our model can exhibit some traffic flow states that have been observed in the real traffic, and both of the maximum flux and the critical density are very close to the real measurement. Moreover, it is easy to extend our method to multi-lane traffic.
Toward micro-scale spatial modeling of gentrification
O'Sullivan, David
A simple preliminary model of gentrification is presented. The model is based on an irregular cellular automaton architecture drawing on the concept of proximal space, which is well suited to the spatial externalities present in housing markets at the local scale. The rent gap hypothesis on which the model's cell transition rules are based is discussed. The model's transition rules are described in detail. Practical difficulties in configuring and initializing the model are described and its typical behavior reported. Prospects for further development of the model are discussed. The current model structure, while inadequate, is well suited to further elaboration and the incorporation of other interesting and relevant effects.
Hair, Thomas W.; Hedman, Andrew D.
2013-01-01
A model of the spatial emergence of an interstellar civilization into a uniform distribution of habitable systems is presented. The process of emigration is modelled as a three-dimensional probabilistic cellular automaton. An algorithm is presented which defines both the daughter colonies of the original seed vertex and all subsequent connected vertices, and the probability of a connection between any two vertices. The automaton is analysed over a wide set of parameters for iterations that represent up to 250 000 years within the model's assumptions. Emigration patterns are characterized and used to evaluate two hypotheses that aim to explain the Fermi Paradox. The first hypothesis states that interstellar emigration takes too long for any civilization to have yet come within a detectable distance, and the second states that large volumes of habitable space may be left uninhabited by an interstellar civilization and Earth is located in one of these voids.
Renormalization group and continuum limit of quantum cellular automata
Energy Technology Data Exchange (ETDEWEB)
Zimboras, Zoltan [Quantum Information Theory Group, ISI, Torino (Italy)
2012-07-01
We develop a renormalization group formalism for quantum cellular automata (reminiscent of the algebraic renormalization group of Buchholz and Verch). Using this formalism, we can define the continuum limit for certain automata. As a particular example, we show that the continuum limit of the so-called ''Glider Clifford cellular automaton'' is the 1+1 dimensional relativistic QFT of free Majorana fermions.
Simulation Modeling by Classification of Problems: A Case of Cellular Manufacturing
Afiqah, K. N.; Mahayuddin, Z. R.
2016-02-01
Cellular manufacturing provides good solution approach to manufacturing area by applying Group Technology concept. The evolution of cellular manufacturing can enhance performance of the cell and to increase the quality of the product manufactured but it triggers other problem. Generally, this paper highlights factors and problems which emerge commonly in cellular manufacturing. The aim of the research is to develop a thorough understanding of common problems in cellular manufacturing. A part from that, in order to find a solution to the problems exist using simulation technique, this classification framework is very useful to be adapted during model building. Biology evolution tool was used in the research in order to classify the problems emerge. The result reveals 22 problems and 25 factors using cladistic technique. In this research, the expected result is the cladogram established based on the problems in cellular manufacturing gathered.
A minimalist model of characteristic earthquakes
DEFF Research Database (Denmark)
Vázquez-Prada, M.; González, Á.; Gómez, J.B.;
2002-01-01
In a spirit akin to the sandpile model of self- organized criticality, we present a simple statistical model of the cellular-automaton type which simulates the role of an asperity in the dynamics of a one-dimensional fault. This model produces an earthquake spectrum similar to the characteristic-earthquake...... behaviour of some seismic faults. This model, that has no parameter, is amenable to an algebraic description as a Markov Chain. This possibility illuminates some important results, obtained by Monte Carlo simulations, such as the earthquake size-frequency relation and the recurrence time...... of the characteristic earthquake....
Logical Modeling and Dynamical Analysis of Cellular Networks.
Abou-Jaoudé, Wassim; Traynard, Pauline; Monteiro, Pedro T; Saez-Rodriguez, Julio; Helikar, Tomáš; Thieffry, Denis; Chaouiya, Claudine
2016-01-01
The logical (or logic) formalism is increasingly used to model regulatory and signaling networks. Complementing these applications, several groups contributed various methods and tools to support the definition and analysis of logical models. After an introduction to the logical modeling framework and to several of its variants, we review here a number of recent methodological advances to ease the analysis of large and intricate networks. In particular, we survey approaches to determine model attractors and their reachability properties, to assess the dynamical impact of variations of external signals, and to consistently reduce large models. To illustrate these developments, we further consider several published logical models for two important biological processes, namely the differentiation of T helper cells and the control of mammalian cell cycle.
Jeans type instability for a chemotactic model of cellular aggregation
Chavanis, Pierre-Henri
2008-01-01
We consider an inertial model of chemotactic aggregation generalizing the Keller-Segel model and we study the linear dynamical stability of an infinite and homogeneous distribution of cells (bacteria, amoebae, endothelial cells,...) when inertial effects are accounted for. These inertial terms model cells directional persistance. We determine the condition of instability and the growth rate of the perturbation as a function of the cell density and the wavelength of the perturbation. We discuss the differences between overdamped (Keller-Segel) and inertial models. Finally, we show the analogy between the instability criterion for biological populations and the Jeans instability criterion in astrophysics.
Cellular cardiac electrophysiology modelling with Chaste and CellML
Directory of Open Access Journals (Sweden)
Jonathan eCooper
2015-01-01
Full Text Available Chaste is an open-source C++ library for computational biology that has well-developed cardiac electrophysiology tissue simulation support. In this paper, we introduce the features available for performing cardiac electrophysiology action potential simulations using a wide range of models from the Physiome repository.The mathematics of the models are described in CellML, with units for all quantities. The primary idea is that the model is defined in one place (the CellML file, and all model code is auto-generated at compile or run time; it never has to be manually edited.We use ontological annotation to identify model variables describing certain biological quantities (membrane voltage, capacitance, etc. to allow us to import any relevant CellML models into the Chaste framework in consistent units, and to interact with them via consistent interfaces. This approach provides a great deal of flexibility for analysing different models of the same system. Chaste provides a wide choice of numerical methods for solving the ordinary differential equations that describe the models. Fixed-timestep explicit and implicit solvers are provided, as discussed in previous work. Here we introduce the Rush--Larsen and Generalised Rush--Larsen integration techniques, made available via symbolic manipulation of the model equations, which are automatically rearranged into the forms required by these approaches. We have also integrated the CVODE solvers, a `gold standard' for stiff systems, and we have developed support for symbolic computation of the Jacobian matrix, yielding further increases in the performance and accuracy of CVODE. We discuss some of the technical details of this work and compare the performance of the available numerical methods.Finally, we discuss how this is generalised in our functional curation framework, which uses a domain-specific language for defining complex experiments as a basis for comparison of model behaviour.
基于一维人工细胞自动机的肿瘤生长模型研究%A TUMOR GROWTH MODEL DESIGNED WITH A ONE DIMENSIONAL CELLULAR AUTOMATON
Institute of Scientific and Technical Information of China (English)
阮晓刚; 胡日查
2003-01-01
通过对Gompertz肿瘤生长理论模型的研究和分析,设计了一种基于一维人工细胞自动机的肿瘤生长模型(TGM1dCA).在连续Gompertz模型基础上,论文导出了Gompertz模型的离散差分形式.运用离散Gompertz模型,论文设计出了体现肿瘤生长动态的人工细胞自动机状态随机演化规则.论文对TGM1dCA细胞自动机进行了理论分析和仿真实验,理论分析和仿真实验结果表明,TGM1dCA细胞自动机与Gompertz模型和临床实验数据具有良好的一致性.
From cellular to tissue scales by asymptotic limits of thermostatted kinetic models
Bianca, Carlo; Dogbe, Christian; Lemarchand, Annie
2016-02-01
Tumor growth strictly depends on the interactions occurring at the cellular scale. In order to obtain the linking between the dynamics described at tissue and cellular scales, asymptotic methods have been employed, consisting in deriving tissue equations by suitable limits of mesoscopic models. In this paper, the evolution at the cellular scale is described by thermostatted kinetic theory that include conservative, nonconservative (proliferation, destruction and mutations), stochastic terms, and the role of external agents. The dynamics at the tissue scale (cell-density evolution) is obtained by performing a low-field scaling and considering the related convergence of the rescaled framework when the scaling parameter goes to zero.
Jokar Arsanjani, J.; Helbich, M.; Kainz, W.; Boloorani, A.
2013-01-01
This research analyses the suburban expansion in the metropolitan area of Tehran, Iran. A hybrid model consisting of logistic regression model, Markov chain (MC), and cellular automata (CA) was designed to improve the performance of the standard logistic regression model. Environmental and socio-eco
A study of a main-road cellular automata traffic flow model
Institute of Scientific and Technical Information of China (English)
黄乒花; 孔令江; 刘慕仁
2002-01-01
A main-road cellular automata traffic flow model on two dimensions is presented based on the Biham-Middleton-Levine traffic model. Its evolution equations are given and the self-organization and organization cooperation phenomenain this model are also studied by using computer simulation.
Propagation Path Loss Models for 5G Urban Micro- and Macro-Cellular Scenarios
DEFF Research Database (Denmark)
Sun, Shu; Rappaport, Theodore S.; Rangan, Sundeep;
2016-01-01
This paper presents and compares two candidate large-scale propagation path loss models, the alpha-beta-gamma (ABG) model and the close-in (CI) free space reference distance model, for the design of fifth generation (5G) wireless communication systems in urban micro- and macro-cellular scenarios...
Macromolecular Chain at a Cellular Surface: a Computer Simulation Model
Xie, Jun; Pandey, Ras
2001-06-01
Computer simulations are performed to study conformation and dynamics of relatively large chain macromolecule at the surface of a model cell membrane - a preliminary attempt to ultimately realistic model for protein on a cell membrane. We use a discrete lattice of size Lx × L × L. The chain molecule of length Lc is modelled by consecutive nodes connected by bonds on the trail of a random walk with appropriate constraints such as excluded volume, energy dependent configurational bias, etc. Monte Carlo method is used to move chains via segmental dynamics, i.e., end-move, kink-jump, crank-shaft, reptation, etc. Membrane substrate is designed by an ensemble of short chains on a flat surface. Large chain molecule is then driven toward the membrane by a field. We plan to examine the dynamics of chain macromolecule, spread of its density, and its conformation.
Markov Model Based CAC algorithms for Cellular Networks
Directory of Open Access Journals (Sweden)
PATLEVIČ Peter
2010-05-01
Full Text Available In this paper, we investigate using ofthe Hidden Markov Model philosophy for solvingconnection admission control (CAC problem incellular networks. For more effective bandwidthutilization and Quality of Service (QoS support itis necessary to solve the connection admissioncontrol with respect to minimizing blockingprobability of handoff and newly arrivedconnections. This paper looks into an thresholdoriented CAC scheme for operation with twoclasses of connections with a Markov model usedfor computation of the threshold value based oncurrent conditions in the network and so makesthe operation of the mobile network cell moreeffectively. In article we extrapolate Markov chainmodel based CAC for three classes of connectionsand sketch how to generalize problem for n classesof connections.
Cellular automata cell structure for modeling heterogeneous traffic
Pal, Dibyendu; C.Mallikarjuna
2010-01-01
Gap maintaining behavior significantly affects the traffic flow modeling under heterogeneous traffic conditions. The clearance between two adjacent moving vehicles varies depending on several traffic conditions. From the data collected on the gap maintaining behavior it has been observed that vehicles maintain different gaps when travelling under different traffic conditions and this is also influenced by lateral position of the vehicle. Mallikarjuna (2007) has found that this variable gap ma...
Cellular models and therapies for age-related macular degeneration
Directory of Open Access Journals (Sweden)
David L. Forest
2015-05-01
Full Text Available Age-related macular degeneration (AMD is a complex neurodegenerative visual disorder that causes profound physical and psychosocial effects. Visual impairment in AMD is caused by the loss of retinal pigmented epithelium (RPE cells and the light-sensitive photoreceptor cells that they support. There is currently no effective treatment for the most common form of this disease (dry AMD. A new approach to treating AMD involves the transplantation of RPE cells derived from either human embryonic or induced pluripotent stem cells. Multiple clinical trials are being initiated using a variety of cell therapies. Although many animal models are available for AMD research, most do not recapitulate all aspects of the disease, hampering progress. However, the use of cultured RPE cells in AMD research is well established and, indeed, some of the more recently described RPE-based models show promise for investigating the molecular mechanisms of AMD and for screening drug candidates. Here, we discuss innovative cell-culture models of AMD and emerging stem-cell-based therapies for the treatment of this vision-robbing disease.
A cellular automata model for simulating fed-batch penicillin fermentation process
Institute of Scientific and Technical Information of China (English)
Yu Naigong; Ruan Xiaogang
2006-01-01
A cellular automata model to simulate penicillin fed-batch fermentation process(CAPFM)was established in this study,based on a morphologically structured dynamic penicillin production model,that is in turn based on the growth mechanism of penicillin producing microorganisms and the characteristics of penicillin fed-batch fermentation.CAPFM uses the three-dimensional cellular automata as a growth space,and a Moore-type neighborhood as the cellular neighborhood.The transition roles of CAPFM are designed based on mechanical and structural kinetic models of penicillin batch-fed fermentation processes.Every cell of CAPFM represents a single or specific number of penicillin producing microorganisms,and has various state.The simulation experimental results show that CAPFM replicates the evolutionary behavior of penicillin batch-fed fermentation processes described by the structured penicillin production kinetic model accordingly.
Stochastic Model of Maturation and Vesicular Exchange in Cellular Organelles
Vagne, Quentin
2016-01-01
The dynamical organization of membrane-bound organelles along intracellular transport pathways relies on vesicular exchange between organelles and on biochemical maturation of the organelle content by specific enzymes. The relative importance of each mechanism in controlling organelle dynamics remains controversial, in particular for transport through the Golgi apparatus. Using a stochastic model, we show that full maturation of membrane-bound compartments can be seen as the stochastic escape from a steady-state in which export is dominated by vesicular exchange. We show that full maturation can contribute a significant fraction of the total out-flux for small organelles such as endosomes and Golgi cisternae.
Equal Distribution Model of Epidemic Drugs Based on a Cellular Automata Model
Directory of Open Access Journals (Sweden)
Huang Xinyi
2015-01-01
Full Text Available The epidemic spreading of infectious disease is a process of evolution over time. Based on the cellular automata model[1], this paper analyzes the epidemic spreading rules, and establishes an efficient equal distribution model of drugs in a broad sense. For multiple regions, in case of demand of drugs exceeding supply, the drugs shall be distributed according to the proportion of a total number of people in each region, the number of patients, the number of the isolated, and the number of deaths. It is necessary to simulate based on these four schemes to obtain simulation results. The results show that, when the drugs are distributed by the proportion of the number of deaths, it is optimal for controlling over epidemic situations.
A cellular automata intraurban model with prices and income-differentiated actors
Furtado, B.A.; Ettema, D.F.; Ruiz, R.M.; Hurkens, J.; Delden, H. van
2012-01-01
This paper presents an intraurban cellular automata model that is an extension to White and Engelen’s pioneering model. The paper’s main contribution is to distinguish between agglomerative eff ects, determined by the attraction of the neighbourhood, and disagglomerative eff ects, driven by land pri
McCoy, Sophie J; Allesina, Stefano; Pfister, Catherine A
2016-03-16
Historical ecological datasets from a coastal marine community of crustose coralline algae (CCA) enabled the documentation of ecological changes in this community over 30 years in the Northeast Pacific. Data on competitive interactions obtained from field surveys showed concordance between the 1980s and 2013, yet also revealed a reduction in how strongly species interact. Here, we extend these empirical findings with a cellular automaton model to forecast ecological dynamics. Our model suggests the emergence of a new dominant competitor in a global change scenario, with a reduced role of herbivory pressure, or trophic control, in regulating competition among CCA. Ocean acidification, due to its energetic demands, may now instead play this role in mediating competitive interactions and thereby promote species diversity within this guild. PMID:26936244
The natural alternative: protozoa as cellular models for Legionella infection.
Hoffmann, Christine; Harrison, Christopher F; Hilbi, Hubert
2014-01-01
The severe pneumonia known as Legionnaires' disease occurs following infection by the Gram-negative bacterium Legionella pneumophila. Normally resident in fresh-water sources, Legionella are subject to predation by eukaryotic phagocytes such as amoeba and ciliates. To counter this, L. pneumophila has evolved a complex system of effector proteins which allow the bacteria to hijack the phagocytic vacuole, hiding and replicating within their erstwhile killers. These same mechanisms allow L. pneumophila to hijack another phagocyte, lung-based macrophages, which thus avoids a vital part of the immune system and leads to infection. The course of infection can be divided into five main categories: pathogen uptake, formation of the replication-permissive vacuole, intracellular replication, host cell response, and bacterial exit. L. pneumophila effector proteins target every stage of this process, interacting with secretory, endosomal, lysosomal, retrograde and autophagy pathways, as well as with mitochondria. Each of these steps can be studied in protozoa or mammalian cells, and the knowledge gained can be readily applied to human pathogenicity. Here we describe the manner whereby L. pneumophila infects host protozoa, the various techniques which are available to analyse these processes and the implications of this model for Legionella virulence and the pathogenesis of Legionnaires' disease.
Evaluation of BACE1 Silencing in Cellular Models
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Malgorzata Sierant
2009-01-01
Full Text Available Beta-secretase (BACE1 is the major enzyme participating in generation of toxic amyloid-beta (Aβ peptides, identified in amyloid plaques of Alzheimer's disease (AD brains. Its downregulation results in decreasing secretion of Aβ. Thus, BACE1 silencing by RNAi represents possible strategy for antiamyloid therapy in the treatment of AD. In this study, a series of newly designed sequences of synthetic and vector-encoded siRNAs (pSilencer, pcPURhU6, and lentivirus were tested against overexpressed and endogenous BACE1 in several cell lines and in adult neural progenitor cells, derived from rat hippocampus. SiRNAs active in human, mouse, and rat cell models were shown to diminish the level of BACE1. In HCN A94 cells, two BACE1-specific siRNAs did not alter the expression of genes of BACE2 and several selected genes involved in neurogenesis (Synapsin I, βIII-Tubulin, Calbidin, NeuroD1, GluR2, CREB, MeCP2, PKR, however, remarkable lowering of SCG10 mRNA, coding protein of stathmin family, important in the development of nervous system, was observed.
Tools and Models for Integrating Multiple Cellular Networks
Energy Technology Data Exchange (ETDEWEB)
Gerstein, Mark [Yale Univ., New Haven, CT (United States). Gerstein Lab.
2015-11-06
CRIT for correlation analysis in systems biology [5]. For Aim 3, we have further investigated the scaling relationship that the number of Transcription Factors (TFs) in a genome is proportional to the square of the total number of genes. We have extended the analysis from transcription factors to various classes of functional categories, and from individual categories to joint distribution [6]. By introducing a new analytical framework, we have generalized the original toolbox model to take into account of metabolic network with arbitrary network topology [7].
Solving the Advection-Diffusion Equations in Biological Contexts using the Cellular Potts Model
Dan, D; Chen, K; Glazier, J A; Dan, Debasis; Mueller, Chris; Chen, Kun; Glazier, James A.
2005-01-01
The Cellular Potts Model (CPM) is a robust, cell-level methodology for simulation of biological tissues and morphogenesis. Both tissue physiology and morphogenesis depend on diffusion of chemical morphogens in the extra-cellular fluid or matrix (ECM). Standard diffusion solvers applied to the cellular potts model use finite difference methods on the underlying CPM lattice. However, these methods produce a diffusing field tied to the underlying lattice, which is inaccurate in many biological situations in which cell or ECM movement causes advection rapid compared to diffusion. Finite difference schemes suffer numerical instabilities solving the resulting advection-diffusion equations. To circumvent these problems we simulate advection-diffusion within the framework of the CPM using off-lattice finite-difference methods. We define a set of generalized fluid particles which detach advection and diffusion from the lattice. Diffusion occurs between neighboring fluid particles by local averaging rules which approxi...
Platinum nanozymes recover cellular ROS homeostasis in an oxidative stress-mediated disease model
Moglianetti, Mauro; de Luca, Elisa; Pedone, Deborah; Marotta, Roberto; Catelani, Tiziano; Sartori, Barbara; Amenitsch, Heinz; Retta, Saverio Francesco; Pompa, Pier Paolo
2016-02-01
In recent years, the use of nanomaterials as biomimetic enzymes has attracted great interest. In this work, we show the potential of biocompatible platinum nanoparticles (Pt NPs) as antioxidant nanozymes, which combine abundant cellular internalization and efficient scavenging activity of cellular reactive oxygen species (ROS), thus simultaneously integrating the functions of nanocarriers and antioxidant drugs. Careful toxicity assessment and intracellular tracking of Pt NPs proved their cytocompatibility and high cellular uptake, with compartmentalization within the endo/lysosomal vesicles. We have demonstrated that Pt NPs possess strong and broad antioxidant properties, acting as superoxide dismutase, catalase, and peroxidase enzymes, with similar or even superior performance than natural enzymes, along with higher adaptability to the changes in environmental conditions. We then exploited their potent activity as radical scavenging materials in a cellular model of an oxidative stress-related disorder, namely human Cerebral Cavernous Malformation (CCM) disease, which is associated with a significant increase in intracellular ROS levels. Noteworthily, we found that Pt nanozymes can efficiently reduce ROS levels, completely restoring the cellular physiological homeostasis.In recent years, the use of nanomaterials as biomimetic enzymes has attracted great interest. In this work, we show the potential of biocompatible platinum nanoparticles (Pt NPs) as antioxidant nanozymes, which combine abundant cellular internalization and efficient scavenging activity of cellular reactive oxygen species (ROS), thus simultaneously integrating the functions of nanocarriers and antioxidant drugs. Careful toxicity assessment and intracellular tracking of Pt NPs proved their cytocompatibility and high cellular uptake, with compartmentalization within the endo/lysosomal vesicles. We have demonstrated that Pt NPs possess strong and broad antioxidant properties, acting as superoxide
A coarse-grained model for the simulations of biomolecular interactions in cellular environments
Energy Technology Data Exchange (ETDEWEB)
Xie, Zhong-Ru; Chen, Jiawen; Wu, Yinghao, E-mail: yinghao.wu@einstein.yu.edu [Department of Systems and Computational Biology, Albert Einstein College of Medicine of Yeshiva University, 1300 Morris Park Avenue, Bronx, New York 10461 (United States)
2014-02-07
The interactions of bio-molecules constitute the key steps of cellular functions. However, in vivo binding properties differ significantly from their in vitro measurements due to the heterogeneity of cellular environments. Here we introduce a coarse-grained model based on rigid-body representation to study how factors such as cellular crowding and membrane confinement affect molecular binding. The macroscopic parameters such as the equilibrium constant and the kinetic rate constant are calibrated by adjusting the microscopic coefficients used in the numerical simulations. By changing these model parameters that are experimentally approachable, we are able to study the kinetic and thermodynamic properties of molecular binding, as well as the effects caused by specific cellular environments. We investigate the volumetric effects of crowded intracellular space on bio-molecular diffusion and diffusion-limited reactions. Furthermore, the binding constants of membrane proteins are currently difficult to measure. We provide quantitative estimations about how the binding of membrane proteins deviates from soluble proteins under different degrees of membrane confinements. The simulation results provide biological insights to the functions of membrane receptors on cell surfaces. Overall, our studies establish a connection between the details of molecular interactions and the heterogeneity of cellular environments.
Gopalakrishnan, Manoj; Forsten-Williams, Kimberly; Tauber, Uwe C.
2003-01-01
The binding of basic fibroblast growth factor (FGF-2) to its cell surface receptor (CSR) and subsequent signal transduction is known to be enhanced by Heparan Sulfate Proteoglycans (HSPGs). HSPGs bind FGF-2 with low affinity and likely impact CSR-mediated signaling via stabilization of FGF-2-CSR complexes via association with both the ligand and the receptor. What is unknown is whether HSPG associates with CSR in the absence of FGF-2. In this paper, we determine conditions by which pre-associ...
Traffic Modelling for Moving-Block Train Control System
Institute of Scientific and Technical Information of China (English)
TANG Tao; LI Ke-Ping
2007-01-01
This paper presents a new cellular automaton (CA) model for train control system simulation.In the proposed CA model,the driver reactions to train movements are captured by some updated rules.The space-time diagram of traffic flow and the trajectory of train movement is used to obtain insight into the characteristic behavior of railway traffic flow.A number of simulation results demonstrate that the proposed CA model can be successfully used for the simulations of railway traffic.Not only the characteristic behavior of railway traffic flow can be reproduced,but also the simulation values of the minimum time headway are close to the theoretical values.
Traffic Modelling for Moving-Block Train Control System
International Nuclear Information System (INIS)
This paper presents a new cellular automaton (CA) model for train control system simulation. In the proposed CA model, the driver reactions to train movements are captured by some updated rules. The space-time diagram of traffic flow and the trajectory of train movement is used to obtain insight into the characteristic behavior of railway traffic flow. A number of simulation results demonstrate that the proposed CA model can be successfully used for the simulations of railway traffic. Not only the characteristic behavior of railway traffic flow can be reproduced, but also the simulation values of the minimum time headway are close to the theoretical values.
An agent-based model of cellular dynamics and circadian variability in human endotoxemia.
Directory of Open Access Journals (Sweden)
Tung T Nguyen
Full Text Available As cellular variability and circadian rhythmicity play critical roles in immune and inflammatory responses, we present in this study an agent-based model of human endotoxemia to examine the interplay between circadian controls, cellular variability and stochastic dynamics of inflammatory cytokines. The model is qualitatively validated by its ability to reproduce circadian dynamics of inflammatory mediators and critical inflammatory responses after endotoxin administration in vivo. Novel computational concepts are proposed to characterize the cellular variability and synchronization of inflammatory cytokines in a population of heterogeneous leukocytes. Our results suggest that there is a decrease in cell-to-cell variability of inflammatory cytokines while their synchronization is increased after endotoxin challenge. Model parameters that are responsible for IκB production stimulated by NFκB activation and for the production of anti-inflammatory cytokines have large impacts on system behaviors. Additionally, examining time-dependent systemic responses revealed that the system is least vulnerable to endotoxin in the early morning and most vulnerable around midnight. Although much remains to be explored, proposed computational concepts and the model we have pioneered will provide important insights for future investigations and extensions, especially for single-cell studies to discover how cellular variability contributes to clinical implications.
Embryonic stem cells as an ectodermal cellular model of human p63-related dysplasia syndromes.
Rostagno, P.; Wolchinsky, Z.; Vigano, A.M.; Shivtiel, S.; Zhou, H.; Bokhoven, J.H.L.M. van; Ferone, G.; Missero, C.; Mantovani, R.; Aberdam, D.; Virolle, T.
2010-01-01
Heterozygous mutations in the TP63 transcription factor underlie the molecular basis of several similar autosomal dominant ectodermal dysplasia (ED) syndromes. Here we provide a novel cellular model derived from embryonic stem (ES) cells that recapitulates in vitro the main steps of embryonic skin d
Performance Evaluation of Road Traffic Control Using a Fuzzy Cellular Model
Płaczek, Bartłomiej
2011-01-01
In this paper a method is proposed for performance evaluation of road traffic control systems. The method is designed to be implemented in an on-line simulation environment, which enables optimisation of adaptive traffic control strategies. Performance measures are computed using a fuzzy cellular traffic model, formulated as a hybrid system combining cellular automata and fuzzy calculus. Experimental results show that the introduced method allows the performance to be evaluated using imprecise traffic measurements. Moreover, the fuzzy definitions of performance measures are convenient for uncertainty determination in traffic control decisions.
Lorentz symmetry for 3d Quantum Cellular Automata
Bisio, Alessandro; Perinotti, Paolo
2015-01-01
We introduce a definition of Lorentz transformations in the framework of quantum cellular automata. Our definition does not require space-time, and retains the usual interpretation in the emergent one. The definition is group theoretical, with flatness of space-time corresponding to Abelianity of the cellular automaton group. We consider the covariance in the case of the Weyl automaton. The notion of particle as Poincar\\'e irreducible representation survives at all scales. The interpolation of the Lorentz symmetry from the discrete to the continuum scale occurs through a nonlinear representation. We also discuss the connection of the nonlinear Lorentz transformations with the Poincar\\'e and k-Poincar\\'e Hopf algebra, the emerging non-commutative space-time, and the deformed Heisenberg commutation relations.
Hannan, Shabab B; Dräger, Nina M; Rasse, Tobias M; Voigt, Aaron; Jahn, Thomas R
2016-04-01
Abnormal tau accumulations were observed and documented in post-mortem brains of patients affected by Alzheimer's disease (AD) long before the identification of mutations in the Microtubule-associated protein tau (MAPT) gene, encoding the tau protein, in a different neurodegenerative disease called Frontotemporal dementia and Parkinsonism linked to chromosome 17 (FTDP-17). The discovery of mutations in the MAPT gene associated with FTDP-17 highlighted that dysfunctions in tau alone are sufficient to cause neurodegeneration. Invertebrate models have been diligently utilized in investigating tauopathies, contributing to the understanding of cellular and molecular pathways involved in disease etiology. An important discovery came with the demonstration that over-expression of human tau in Drosophila leads to premature mortality and neuronal dysfunction including neurodegeneration, recapitulating some key neuropathological features of the human disease. The simplicity of handling invertebrate models combined with the availability of a diverse range of experimental resources make these models, in particular Drosophila a powerful invertebrate screening tool. Consequently, several large-scale screens have been performed using Drosophila, to identify modifiers of tau toxicity. The screens have revealed not only common cellular and molecular pathways, but in some instances the same modifier has been independently identified in two or more screens suggesting a possible role for these modifiers in regulating tau toxicity. The purpose of this review is to discuss the genetic modifier screens on tauopathies performed in Drosophila and C. elegans models, and to highlight the common cellular and molecular pathways that have emerged from these studies. Here, we summarize results of tau toxicity screens providing mechanistic insights into pathological alterations in tauopathies. Key pathways or modifiers that have been identified are associated with a broad range of processes
Signal Waveform Detection with Statistical Automaton for Internet and Web Service Streaming
Directory of Open Access Journals (Sweden)
Kuo-Kun Tseng
2014-01-01
Full Text Available In recent years, many approaches have been suggested for Internet and web streaming detection. In this paper, we propose an approach to signal waveform detection for Internet and web streaming, with novel statistical automatons. The system records network connections over a period of time to form a signal waveform and compute suspicious characteristics of the waveform. Network streaming according to these selected waveform features by our newly designed Aho-Corasick (AC automatons can be classified. We developed two versions, that is, basic AC and advanced AC-histogram waveform automata, and conducted comprehensive experimentation. The results confirm that our approach is feasible and suitable for deployment.
Signal waveform detection with statistical automaton for internet and web service streaming.
Tseng, Kuo-Kun; Ji, Yuzhu; Liu, Yiming; Huang, Nai-Lun; Zeng, Fufu; Lin, Fang-Ying
2014-01-01
In recent years, many approaches have been suggested for Internet and web streaming detection. In this paper, we propose an approach to signal waveform detection for Internet and web streaming, with novel statistical automatons. The system records network connections over a period of time to form a signal waveform and compute suspicious characteristics of the waveform. Network streaming according to these selected waveform features by our newly designed Aho-Corasick (AC) automatons can be classified. We developed two versions, that is, basic AC and advanced AC-histogram waveform automata, and conducted comprehensive experimentation. The results confirm that our approach is feasible and suitable for deployment.
Directory of Open Access Journals (Sweden)
J. P. M. Whitty
2014-01-01
Full Text Available A novel computational technique is presented for embedding mass-loss due to burning into the ANSYS finite element modelling code. The approaches employ a range of computational modelling methods in order to provide more complete theoretical treatment of thermoelasticity absent from the literature for over six decades. Techniques are employed to evaluate structural integrity (namely, elastic moduli, Poisson’s ratios, and compressive brittle strength of honeycomb systems known to approximate three-dimensional cellular chars. That is, reducing the mass of diagonal ribs and both diagonal-plus-vertical ribs simultaneously show rapid decreases in the structural integrity of both conventional and reentrant (auxetic, i.e., possessing a negative Poisson’s ratio honeycombs. On the other hand, reducing only the vertical ribs shows initially modest reductions in such properties, followed by catastrophic failure of the material system. Calculations of thermal stress distributions indicate that in all cases the total stress is reduced in reentrant (auxetic cellular solids. This indicates that conventional cellular solids are expected to fail before their auxetic counterparts. Furthermore, both analytical and FE modelling predictions of the brittle crush strength of both auxteic and conventional cellular solids show a relationship with structural stiffness.
Tamaddon AM.; Hosseini-Shirazi F.; Moghimi HR
2007-01-01
Cationic liposomes are used for cellular delivery of antisense oligodeoxynucleotide (AsODN), where release of encapsulated AsODN is mainly controlled by endocytosis and fusion mechanisms. In this investigation, it was tried to model such a release process that is difficult to evaluate in cell culture. For this purpose, an AsODN model (against protein kinase C-α) was encapsulated in a DODAP-containing cationic liposome and evaluated for size, zeta-potential, encapsulation and ODN stab...
A derives grid-based model for simulation of pedestrian flow
Institute of Scientific and Technical Information of China (English)
Min-jie CHEN; Günter B(A)RWOLFF; Hartmut SCHWANDT
2009-01-01
We present a derived grid-based model for the simulation of pedestrian flow. Interactions among pedestrians are considered as the result of forces within a certain neighbourhood. Unlike the social force model, the forces here, as in Newtonian physics, are proportional to the inverse of the square of the distance. Despite the notion of neighbourhood and the underlying grid, this model differs from the existing cellular automaton (CA) models in that the pedestrians are treated as individuals. Bresenham's algorithm for line rastering is applied in the step calculation.
Multi-layer composite mechanical modeling for the inhomogeneous biofilm mechanical behavior.
Wang, Xiaoling; Han, Jingshi; Li, Kui; Wang, Guoqing; Hao, Mudong
2016-08-01
Experiments showed that bacterial biofilms are heterogeneous, for example, the density, the diffusion coefficient, and mechanical properties of the biofilm are different along the biofilm thickness. In this paper, we establish a multi-layer composite model to describe the biofilm mechanical inhomogeneity based on unified multiple-component cellular automaton (UMCCA) model. By using our model, we develop finite element simulation procedure for biofilm tension experiment. The failure limit and biofilm extension displacement obtained from our model agree well with experimental measurements. This method provides an alternative theory to study the mechanical inhomogeneity in biological materials. PMID:27122202
Spatial Models and Networks of Living Systems
DEFF Research Database (Denmark)
Juul, Jeppe Søgaard
variables of the system. However, this approach disregards any spatial structure of the system, which may potentially change the behaviour drastically. An alternative approach is to construct a cellular automaton with nearest neighbour interactions, or even to model the system as a complex network....... Such systems are known to be stabilized by spatial structure. Finally, I analyse data from a large mobile phone network and show that people who are topologically close in the network have similar communication patterns. This main part of the thesis is based on six different articles, which I have co...
Energy Technology Data Exchange (ETDEWEB)
Schmidt, Brian; Ebrahim, Ali; Metz, Thomas O.; Adkins, Joshua N.; Palsson, Bernard O.; Hyduke, Daniel R.
2013-11-15
Motivation: Genome-scale metabolic models have been used extensively to investigate alterations in cellular metabolism. The accuracy of these models to represent cellular metabolism in specific conditions has been improved by constraining the model with omics data sources. However, few practical methods for integrating metabolomics data with other omics data sources into genome-scale models of metabolism have been reported. Results: GIMMME (Gene Inactivation Moderated by Metabolism, Metabolomics, and Expression) is an algorithm that enables the development of condition-specific models based on an objective function, transcriptomics, and intracellular metabolomics data. GIMMME establishes metabolite utilization requirements with metabolomics data, uses model-paired transcriptomics data to find experimentally supported solutions, and also provides calculations of the turnover (production / consumption) flux of metabolites. GIMMME was employed to investigate the effects of integrating additional omics datasets to create increasingly constrained solution spaces of Salmonella Typhimurium metabolism during growth in both rich and virulence media. This integration proved to be informative and resulted in a requirement of additional active reactions (12 in each case) or metabolites (26 or 29, respectively). The addition of constraints from transcriptomics also impacted the allowed solution space, and the cellular metabolites with turnover fluxes that were necessarily altered by the change in conditions increased from 118 to 271 of 1397. Availability: GIMMME has been implemented in Python and requires a COBRApy 0.2.x. The algorithm and sample data described here are freely available at: http://opencobra.sourceforge.net/
Modeling of time-dose-LET effects in the cellular response to radiation
Energy Technology Data Exchange (ETDEWEB)
Herr, Lisa Antje
2015-07-20
This work is dedicated to the elucidation of time-dose- and if applicable linear energy transfer (LET) effects in the cellular response to ion or photon radiation. In particular, the common concept of the Local Effect Model (LEM) and the Giant Loop Binary Lesion (GLOBLE) model, which explains cell survival probabilities on the hand of clustering of double-strand breaks (DSB) in micrometer-sized sub-structural units of the DNA, was investigated with regard to temporal aspects. In previous studies with the LEM and GLOBLE model, it has been demonstrated that the definition of two lesion classes, characterized by single or multiple DSB in a DNA giant loop, with two repair fidelities is adequate to comprehensively describe the dose dependence of the cellular response to instantaneous photon irradiation or ion irradiation with varying LET. Furthermore, with the GLOBLE model for photon radiation, it has been shown that the assignment of two repair time scales to the two lesion classes allows to adequately reproduce time-dose effects after photon irradiation with an arbitrary constant dose-rate. In this work, the results of four projects that strengthen the mechanistic consistency and the practical applicability of the LEM and GLOBLE model will be presented. First, it was found that the GLOBLE model is applicable to describe time-dose effects in the cellular response to two split photon doses and in the occurrence of deterministic radiation effects. Second, in a comparison of ten models for the temporal course of DSB rejoining, it was revealed that a bi-exponential approach, as suggested by the LEM and GLOBLE model, finds a relatively large support by 61 experimental data sets. Third, in a comparison of four kinetic photon cell survival models that was based on fits to 13 dose-rate experiments, it was shown that the GLOBLE model performs well with respect to e.g. accuracy, parsimony, reliability and other factors that characterize a good approach. Last but not least, the
Magneto-optical cellular chip model for intracellular orientational-dynamic-activity detection
Miyashita, Y.; Iwasaka, M.; Kurita, S.; Owada, N.
2012-04-01
In the present study, a magneto-optical cellular chip model (MoCCM) was developed to detect intracellular dynamics in macromolecules by using magneto-optical effects. For the purpose of cell-measurement under strong static magnetic fields of up to 10 T, we constructed a cellular chip model, which was a thin glass plate with a well for a cell culture. A cell line of osteoblast MC3T3-E1 was incubated in the glass well, and the well, 0.3 mm in depth, was sealed by a cover glass when the MoCCM was set in a fiber optic system. An initial intensity change of the polarized light transmission, which dispersed perpendicular to the cell's attaching surface, was collected for 10 to 60 min, and then magnetic fields were applied parallel and perpendicular to the surface and light direction, respectively. The magnetic birefringence signals that originated from the magnetic orientation of intracellular molecules such as cytoskeletons apparently appeared when the magnetic fields were constant at 10 T. A statistical analysis with 15 experiments confirmed that the cellular components under 10 T magnetic fields caused a stronger alignment, which was transferred into polarizing light intensity that increased more than the case before exposure. Cellular conditions such as generation and cell density affected the magnetic birefringence signals.
Institute of Scientific and Technical Information of China (English)
吴义虎; 李意芬; 喻伟; 喻丹
2014-01-01
The behavior of the driver was considered as the rule of the driver change of lanes,and the new rule of the changes of lanes with the combination between the driver behavior and the coincidental traffic was put forward,then a improved cellular automa-ton model was put forward,the model was proposed to describe the characteristics of co-incidental traffic j ams.By the proposed model,the velocity of traffic flow and the length of vehicle lines by coincidental traffic j ams was simulated,and the results of the simula-tion was proposed.%以元胞自动机模型为基础，在传统的车辆换道规则上，引入驾驶人行为因素，根据不同区域交通流特点和驾驶行为特点，给出了不同的车辆换道规则，建立了一种适用于城市道路偶发性拥堵交通流行为分析的元胞自动机改进模型。并利用该模型，模拟分析了偶发性拥堵发生时不同车流密度的车辆排队和平均车速情况。
Li, Qi-Lang; Wong, S. C.; Min, Jie; Tian, Shuo; Wang, Bing-Hong
2016-08-01
This study examines the cellular automata traffic flow model, which considers the heterogeneity of vehicle acceleration and the delay probability of vehicles. Computer simulations are used to identify three typical phases in the model: free-flow, synchronized flow, and wide moving traffic jam. In the synchronized flow region of the fundamental diagram, the low and high velocity vehicles compete with each other and play an important role in the evolution of the system. The analysis shows that there are two types of bistable phases. However, in the original Nagel and Schreckenberg cellular automata traffic model, there are only two kinds of traffic conditions, namely, free-flow and traffic jams. The synchronized flow phase and bistable phase have not been found.
A generalized cellular automata approach to modeling first order enzyme kinetics
Indian Academy of Sciences (India)
Abhishek Dutta; Saurajyoti Kar; Advait Apte; Ingmar Nopens; Denis Constales
2015-04-01
Biochemical processes occur through intermediate steps which are associated with the formation of reaction complexes. These enzyme-catalyzed biochemical reactions are inhibited in a number of ways such as inhibitors competing for the binding site directly, inhibitors deforming the allosteric site or inhibitors changing the structure of active substrate. Using an in silico approach, the concentration of various reaction agents can be monitored at every single time step, which are otherwise difficult to analyze experimentally. Cell-based models with discrete state variables, such as Cellular Automata (CA) provide an understanding of the organizational principles of interacting cellular systems to link the individual cell (microscopic) dynamics wit a particular collective (macroscopic) phenomenon. In this study, a CA model representing a first order enzyme kinetics with inhibitor activity is formulated. The framework of enzyme reaction rules described in this study is probabilistic. An extended von Neumann neighborhood with periodic boundary condition is implemented on a two-dimensional (2D) lattice framework. The effect of lattice-size variation is studied followed by a sensitivity analysis of the model output to the probabilistic parameters which represent various kinetic reaction constants in the enzyme kinetic model. This provides a deeper insight into the sensitivity of the CA model to these parameters. It is observed that cellular automata can capture the essential features of a discrete real system, consisting of space, time and state, structured with simple local rules without making complex implementations but resulting in complex but explainable patterns.
In Silico Modeling of the Immune System: Cellular and Molecular Scale Approaches
Directory of Open Access Journals (Sweden)
Mariagrazia Belfiore
2014-01-01
Full Text Available The revolutions in biotechnology and information technology have produced clinical data, which complement biological data. These data enable detailed descriptions of various healthy and diseased states and responses to therapies. For the investigation of the physiology and pathology of the immune responses, computer and mathematical models have been used in the last decades, enabling the representation of biological processes. In this modeling effort, a major issue is represented by the communication between models that work at cellular and molecular level, that is, multiscale representation. Here we sketch some attempts to model immune system dynamics at both levels.
Efficient Analysis of Systems Biology Markup Language Models of Cellular Populations Using Arrays.
Watanabe, Leandro; Myers, Chris J
2016-08-19
The Systems Biology Markup Language (SBML) has been widely used for modeling biological systems. Although SBML has been successful in representing a wide variety of biochemical models, the core standard lacks the structure for representing large complex regular systems in a standard way, such as whole-cell and cellular population models. These models require a large number of variables to represent certain aspects of these types of models, such as the chromosome in the whole-cell model and the many identical cell models in a cellular population. While SBML core is not designed to handle these types of models efficiently, the proposed SBML arrays package can represent such regular structures more easily. However, in order to take full advantage of the package, analysis needs to be aware of the arrays structure. When expanding the array constructs within a model, some of the advantages of using arrays are lost. This paper describes a more efficient way to simulate arrayed models. To illustrate the proposed method, this paper uses a population of repressilator and genetic toggle switch circuits as examples. Results show that there are memory benefits using this approach with a modest cost in runtime. PMID:26912276
Directory of Open Access Journals (Sweden)
Baltzis KonstantinosB
2008-01-01
Full Text Available Abstract A common assumption in cellular communications is the circular-cell approximation. In this paper, an alternative analysis based on the hexagonal shape of the cells is presented. A geometrical-based stochastic model is proposed to describe the angle of arrival of the interfering signals in the reverse link of a cellular system. Explicit closed form expressions are derived, and simulations performed exhibit the characteristics and validate the accuracy of the proposed model. Applications in the capacity estimation of WCDMA cellular networks are presented. Dependence of system capacity of the sectorization of the cells and the base station antenna radiation pattern is explored. Comparisons with data in literature validate the accuracy of the proposed model. The degree of error of the hexagonal and the circular-cell approaches has been investigated indicating the validity of the proposed model. Results have also shown that, in many cases, the two approaches give similar results when the radius of the circle equals to the hexagon inradius. A brief discussion on how the proposed technique may be applied to broadband access networks is finally made.
Directory of Open Access Journals (Sweden)
Konstantinos B. Baltzis
2008-10-01
Full Text Available A common assumption in cellular communications is the circular-cell approximation. In this paper, an alternative analysis based on the hexagonal shape of the cells is presented. A geometrical-based stochastic model is proposed to describe the angle of arrival of the interfering signals in the reverse link of a cellular system. Explicit closed form expressions are derived, and simulations performed exhibit the characteristics and validate the accuracy of the proposed model. Applications in the capacity estimation of WCDMA cellular networks are presented. Dependence of system capacity of the sectorization of the cells and the base station antenna radiation pattern is explored. Comparisons with data in literature validate the accuracy of the proposed model. The degree of error of the hexagonal and the circular-cell approaches has been investigated indicating the validity of the proposed model. Results have also shown that, in many cases, the two approaches give similar results when the radius of the circle equals to the hexagon inradius. A brief discussion on how the proposed technique may be applied to broadband access networks is finally made.
Realistic multi-cellular dosimetry for 177Lu-labelled antibodies: model and application
Marcatili, S.; Pichard, A.; Courteau, A.; Ladjohounlou, R.; Navarro-Teulon, I.; Repetto-Llamazares, A.; Heyerdahl, H.; Dahle, J.; Pouget, J. P.; Bardiès, M.
2016-10-01
Current preclinical dosimetric models often fail to take account of the complex nature of absorbed dose distribution typical of in vitro clonogenic experiments in targeted radionuclide therapy. For this reason, clonogenic survival is often expressed as a function of added activity rather than the absorbed dose delivered to cells/cell nuclei. We designed a multi-cellular dosimetry model that takes into account the realistic distributions of cells in the Petri dish, for the establishment of survival curves as a function of the absorbed dose. General-purpose software tools were used for the generation of realistic, randomised 3D cell culture geometries based on experimentally determined parameters (cell size, cell density, cluster density, average cluster size, cell cumulated activity). A mixture of Monte Carlo and analytical approaches was implemented in order to achieve as accurate as possible results while reducing calculation time. The model was here applied to clonogenic survival experiments carried out to compare the efficacy of Betalutin®, a novel 177Lu-labelled antibody radionuclide conjugate for the treatment of non-Hodgkin lymphoma, to that of 177Lu-labelled CD20-specific (rituximab) and non-specific antibodies (Erbitux) on lymphocyte B cells. The 3D cellular model developed allowed a better understanding of the radiative and non-radiative processes associated with cellular death. Our approach is generic and can also be applied to other radiopharmaceuticals and cell distributions.
Directory of Open Access Journals (Sweden)
Hui Guo
2016-07-01
Full Text Available Evodiamine (EVO and rutaecarpine (RUT are promising anti-tumor drug candidates. The evaluation of the anti-proliferative activity and cellular uptake of EVO and RUT in 3D multicellular spheroids of cancer cells would better recapitulate the native situation and thus better reflect an in vivo response to the treatment. Herein, we employed the 3D culture of MCF-7 and SMMC-7721 cells based on hanging drop method and evaluated the anti-proliferative activity and cellular uptake of EVO and RUT in 3D multicellular spheroids, and compared the results with those obtained from 2D monolayers. The drugs’ IC50 values were significantly increased from the range of 6.4–44.1 μM in 2D monolayers to 21.8–138.0 μM in 3D multicellular spheroids, which may be due to enhanced mass barrier and reduced drug penetration in 3D models. The fluorescence of EVO and RUT was measured via fluorescence spectroscopy and the cellular uptake of both drugs was characterized in 2D tumor models. The results showed that the cellular uptake concentrations of RUT increased with increasing drug concentrations. However, the EVO concentrations uptaken by the cells showed only a small change with increasing drug concentrations, which may be due to the different solubility of EVO and Rut in solvents. Overall, this study provided a new vision of the anti-tumor activity of EVO and RUT via 3D multicellular spheroids and cellular uptake through the fluorescence of compounds.
Self-Organized Criticality with Complex Scaling Exponents in the Train Model
Elmer, F J
1997-01-01
The train model which is a variant of the Burridge-Knopoff earthquake model is investigated for a velocity-strengthening friction law. It shows self-organized criticality with complex scaling exponents. That is, the probability density function of the avalanche strength is a power law times a log-periodic function. Exact results (scaling exponent: $3/2+2\\pi i/\\ln 4$) are found for a nonlocal cellular automaton which approximates the overdamped train model. Further the influence of random static friction is discussed.
Analysis on Traffic Conflicts of Two-lane Highway Based on Improved Cellular Automation Model
Directory of Open Access Journals (Sweden)
Xiru Tang
2013-06-01
Full Text Available Based on microscopic traffic characteristics of two-lane highway and different driving characteristics for drivers, the characteristics of drivers and vehicle structure are introduced into Cellular Automation model for establishing new Cellular Automation model of two-lane highway. Through computer simulation, the paper analyzes the effect of the promotion of different vehicles, drivers and arrival rates on traffic conflicts of two-lane highway, which gets the relationship between the parameters such as road traffic and velocity variance and collision. The results indicate that the frequency of traffic conflicts has close relationship with the product of traffic flow and velocity variation. When the traffic flow and velocity variation are great, the frequency of the conflict is the greatest, and when the traffic flow and velocity variation are little, the frequency of the conflict is the least.
From Cells to Islands: An unified Model of Cellular Parallel Genetic Algorithms
Simoncini, David; Verel, Sébastien; Clergue, Manuel
2008-01-01
This paper presents the Anisotropic selection scheme for cellular Genetic Algorithms (cGA). This new scheme allows to enhance diversity and to control the selective pressure which are two important issues in Genetic Algorithms, especially when trying to solve difficult optimization problems. Varying the anisotropic degree of selection allows swapping from a cellular to an island model of parallel genetic algorithm. Measures of performances and diversity have been performed on one well-known problem: the Quadratic Assignment Problem which is known to be difficult to optimize. Experiences show that, tuning the anisotropic degree, we can find the accurate trade-off between cGA and island models to optimize performances of parallel evolutionary algorithms. This trade-off can be interpreted as the suitable degree of migration among subpopulations in a parallel Genetic Algorithm.
Institute of Scientific and Technical Information of China (English)
HE; Chunyang; SHI; Peijun; CHEN; Jin; Li; Xiaobing; PAN; Ya
2005-01-01
Modeling land use scenario changes and its potential impacts on the structure and function of the ecosystem in the typical regions are helpful to understanding the interactive mechanism between land use system and ecological system. A Land Use Scenario Dynamics (LUSD) model by the integration of System Dynamics (SD) model and Cellular Automata (CA) model is developed with land use scenario changes in northern China in the next 20 years simulated in this paper. The basic idea of LUSD model is to simulate the land use scenario demands by using SD model at first, then allocate the land use scenario patterns at the local scale with the considerations of land use suitability, inheritance ability and neighborhood effect by using CA model to satisfy the balance between land use scenario demands and supply. The application of LUSD model in northern China suggests that the model has the ability to reflect the complex behavior of land use system at different scales to some extent and is a useful tool for assessing the potential impacts of land use system on ecological system. In addition, the simulated results also indicate that obvious land use changes will take place in the farming-pastoral zone of northern China in the next 20 years with cultivated land and urban land being the most active land use types.
A Model of Redox Kinetics Implicates the Thiol Proteome in Cellular Hydrogen Peroxide Responses
Adimora, Nnenna J.; Jones, Dean P; Melissa L Kemp
2010-01-01
Hydrogen peroxide is appreciated as a cellular signaling molecule with second-messenger properties, yet the mechanisms by which the cell protects against intracellular H2O2 accumulation are not fully understood. We introduce a network model of H2O2 clearance that includes the pseudo-enzymatic oxidative turnover of protein thiols, the enzymatic actions of catalase, glutathione peroxidase, peroxiredoxin, and glutaredoxin, and the redox reactions of thioredoxin and glutathione. Simulations repro...
An Exact Path-Loss Density Model for Mobiles in a Cellular System
Abdulla, Mouhamed; Shayan, Yousef R.
2013-01-01
In trying to emulate the spatial position of wireless nodes for purpose of analysis, we rely on stochastic simulation. And, it is customary, for mobile systems, to consider a base-station radiation coverage by an ideal cell shape. For cellular analysis, a hexagon contour is always preferred mainly because of its tessellating nature. Despite this fact, largely due to its intrinsic simplicity, in literature only random dispersion model for a circular shape is known. However, if considered, this...
A model of redox kinetics implicates the thiol proteome in cellular hydrogen peroxide responses.
Adimora, Nnenna J; Jones, Dean P; Kemp, Melissa L
2010-09-15
Hydrogen peroxide is appreciated as a cellular signaling molecule with second-messenger properties, yet the mechanisms by which the cell protects against intracellular H(2)O(2) accumulation are not fully understood. We introduce a network model of H(2)O(2) clearance that includes the pseudo-enzymatic oxidative turnover of protein thiols, the enzymatic actions of catalase, glutathione peroxidase, peroxiredoxin, and glutaredoxin, and the redox reactions of thioredoxin and glutathione. Simulations reproduced experimental observations of the rapid and transient oxidation of glutathione and the rapid, sustained oxidation of thioredoxin on exposure to extracellular H(2)O(2). The model correctly predicted early oxidation profiles for the glutathione and thioredoxin redox couples across a range of initial extracellular [H(2)O(2)] and highlights the importance of cytoplasmic membrane permeability to the cellular defense against exogenous sources of H(2)O(2). The protein oxidation profile predicted by the model suggests that approximately 10% of intracellular protein thiols react with hydrogen peroxide at substantial rates, with a majority of these proteins forming protein disulfides as opposed to protein S-glutathionylated adducts. A steady-state flux analysis predicted an unequal distribution of the intracellular anti-oxidative burden between thioredoxin-dependent and glutathione-dependent antioxidant pathways, with the former contributing the majority of the cellular antioxidant defense due to peroxiredoxins and protein disulfides.
Institute of Scientific and Technical Information of China (English)
H. Kurtulus OZCAN; Erdem BILGILI; Ulku SAHIN; O. Nuri UCAN; Cuma BAYAT
2007-01-01
Tropospheric ozone concentrations, which are an important air pollutant, are modeled by the use of an artificial intelligence structure. Data obtained from air pollution measurement stations in the city of Istanbul are utilized in constituting the model. A supervised algorithm for the evaluation of ozone concentration using a genetically trained multi-level cellular neural network (ML-CNN) is introduced, developed, and applied to real data. A genetic algorithm is used in the optimization of CNN templates. The model results and the actual measurement results are compared and statistically evaluated. It is observed that seasonal changes in ozone concentrations are reflected effectively by the concentrations estimated by the multilevel-CNN model structure, with a correlation value of 0.57 ascertained between actual and model results. It is shown that the multilevel-CNN modeling technique is as satisfactory as other modeling techniques in associating the data in a complex medium in air pollution applications.
Ozcan, H. Kurtulus; Bilgili, Erdem; Sahin, Ulku; Ucan, O. Nuri; Bayat, Cuma
2007-09-01
Tropospheric ozone concentrations, which are an important air pollutant, are modeled by the use of an artificial intelligence structure. Data obtained from air pollution measurement stations in the city of Istanbul are utilized in constituting the model. A supervised algorithm for the evaluation of ozone concentration using a genetically trained multi-level cellular neural network (ML-CNN) is introduced, developed, and applied to real data. A genetic algorithm is used in the optimization of CNN templates. The model results and the actual measurement results are compared and statistically evaluated. It is observed that seasonal changes in ozone concentrations are reflected effectively by the concentrations estimated by the multilevel-CNN model structure, with a correlation value of 0.57 ascertained between actual and model results. It is shown that the multilevel-CNN modeling technique is as satisfactory as other modeling techniques in associating the data in a complex medium in air pollution applications.
Silver Nanoparticle-Mediated Cellular Responses in Various Cell Lines: An in Vitro Model
Directory of Open Access Journals (Sweden)
Xi-Feng Zhang
2016-09-01
Full Text Available Silver nanoparticles (AgNPs have attracted increased interest and are currently used in various industries including medicine, cosmetics, textiles, electronics, and pharmaceuticals, owing to their unique physical and chemical properties, particularly as antimicrobial and anticancer agents. Recently, several studies have reported both beneficial and toxic effects of AgNPs on various prokaryotic and eukaryotic systems. To develop nanoparticles for mediated therapy, several laboratories have used a variety of cell lines under in vitro conditions to evaluate the properties, mode of action, differential responses, and mechanisms of action of AgNPs. In vitro models are simple, cost-effective, rapid, and can be used to easily assess efficacy and performance. The cytotoxicity, genotoxicity, and biocompatibility of AgNPs depend on many factors such as size, shape, surface charge, surface coating, solubility, concentration, surface functionalization, distribution of particles, mode of entry, mode of action, growth media, exposure time, and cell type. Cellular responses to AgNPs are different in each cell type and depend on the physical and chemical nature of AgNPs. This review evaluates significant contributions to the literature on biological applications of AgNPs. It begins with an introduction to AgNPs, with particular attention to their overall impact on cellular effects. The main objective of this review is to elucidate the reasons for different cell types exhibiting differential responses to nanoparticles even when they possess similar size, shape, and other parameters. Firstly, we discuss the cellular effects of AgNPs on a variety of cell lines; Secondly, we discuss the mechanisms of action of AgNPs in various cellular systems, and try to elucidate how AgNPs interact with different mammalian cell lines and produce significant effects; Finally, we discuss the cellular activation of various signaling molecules in response to AgNPs, and conclude with
Silver Nanoparticle-Mediated Cellular Responses in Various Cell Lines: An in Vitro Model
Zhang, Xi-Feng; Shen, Wei; Gurunathan, Sangiliyandi
2016-01-01
Silver nanoparticles (AgNPs) have attracted increased interest and are currently used in various industries including medicine, cosmetics, textiles, electronics, and pharmaceuticals, owing to their unique physical and chemical properties, particularly as antimicrobial and anticancer agents. Recently, several studies have reported both beneficial and toxic effects of AgNPs on various prokaryotic and eukaryotic systems. To develop nanoparticles for mediated therapy, several laboratories have used a variety of cell lines under in vitro conditions to evaluate the properties, mode of action, differential responses, and mechanisms of action of AgNPs. In vitro models are simple, cost-effective, rapid, and can be used to easily assess efficacy and performance. The cytotoxicity, genotoxicity, and biocompatibility of AgNPs depend on many factors such as size, shape, surface charge, surface coating, solubility, concentration, surface functionalization, distribution of particles, mode of entry, mode of action, growth media, exposure time, and cell type. Cellular responses to AgNPs are different in each cell type and depend on the physical and chemical nature of AgNPs. This review evaluates significant contributions to the literature on biological applications of AgNPs. It begins with an introduction to AgNPs, with particular attention to their overall impact on cellular effects. The main objective of this review is to elucidate the reasons for different cell types exhibiting differential responses to nanoparticles even when they possess similar size, shape, and other parameters. Firstly, we discuss the cellular effects of AgNPs on a variety of cell lines; Secondly, we discuss the mechanisms of action of AgNPs in various cellular systems, and try to elucidate how AgNPs interact with different mammalian cell lines and produce significant effects; Finally, we discuss the cellular activation of various signaling molecules in response to AgNPs, and conclude with future perspectives
Silver Nanoparticle-Mediated Cellular Responses in Various Cell Lines: An in Vitro Model.
Zhang, Xi-Feng; Shen, Wei; Gurunathan, Sangiliyandi
2016-01-01
Silver nanoparticles (AgNPs) have attracted increased interest and are currently used in various industries including medicine, cosmetics, textiles, electronics, and pharmaceuticals, owing to their unique physical and chemical properties, particularly as antimicrobial and anticancer agents. Recently, several studies have reported both beneficial and toxic effects of AgNPs on various prokaryotic and eukaryotic systems. To develop nanoparticles for mediated therapy, several laboratories have used a variety of cell lines under in vitro conditions to evaluate the properties, mode of action, differential responses, and mechanisms of action of AgNPs. In vitro models are simple, cost-effective, rapid, and can be used to easily assess efficacy and performance. The cytotoxicity, genotoxicity, and biocompatibility of AgNPs depend on many factors such as size, shape, surface charge, surface coating, solubility, concentration, surface functionalization, distribution of particles, mode of entry, mode of action, growth media, exposure time, and cell type. Cellular responses to AgNPs are different in each cell type and depend on the physical and chemical nature of AgNPs. This review evaluates significant contributions to the literature on biological applications of AgNPs. It begins with an introduction to AgNPs, with particular attention to their overall impact on cellular effects. The main objective of this review is to elucidate the reasons for different cell types exhibiting differential responses to nanoparticles even when they possess similar size, shape, and other parameters. Firstly, we discuss the cellular effects of AgNPs on a variety of cell lines; Secondly, we discuss the mechanisms of action of AgNPs in various cellular systems, and try to elucidate how AgNPs interact with different mammalian cell lines and produce significant effects; Finally, we discuss the cellular activation of various signaling molecules in response to AgNPs, and conclude with future perspectives
Chronobiology at the cellular and molecular levels: models and mechanisms for circadian timekeeping.
Edmunds, L N
1983-12-01
This review considers cellular chronobiology and examines, at least in a superficial way, several classes of models and mechanisms that have been proposed for circadian rhythmicity and some of the experimental approaches that have appeared to be most productive. After a brief discussion of temporal organization and the metabolic, epigenetic, and circadian time domains, the general properties of circadian rhythms are enumerated. A survey of independent oscillations in isolated organs, tissues, and cells is followed by a review of selected circadian rhythms in eukaryotic microorganisms, with particular emphasis placed on the rhythm of cell division in the algal flagellate Euglena as a model system illustrating temporal differentiation. In the ensuing section, experimental approaches to circadian clock mechanisms are considered. The dissection of the clock by the use of chemical inhibitors is illustrated for the rhythm of bioluminescence in the marine dinoflagellate Gonyaulax and for the rhythm of photosynthetic capacity in the unicellular green alga Acetabularia. Alternatively, genetic analysis of circadian oscillators is considered in the green alga Chlamydomonas and in the bread mold Neurospora, both of which have yielded clock mutants and mutants having biochemical lesions that exhibit altered clock properties. On the basis of the evidence generated by these experimental approaches, several classes of biochemical and molecular models for circadian clocks have been proposed. These include strictly molecular models, feedback loop (network) models, transcriptional (tape-reading) models, and membrane models; some of their key elements and predictions are discussed. Finally, a number of general unsolved problems at the cellular level are briefly mentioned: cell cycle interfaces, the evolution of circadian rhythmicity, the possibility of multiple cellular oscillators, chronopharmacology and chronotherapy, and cell-cycle clocks in development and aging. PMID:6229999
An improved multi-value cellular automata model for heterogeneous bicycle traffic flow
International Nuclear Information System (INIS)
This letter develops an improved multi-value cellular automata model for heterogeneous bicycle traffic flow taking the higher maximum speed of electric bicycles into consideration. The update rules of both regular and electric bicycles are improved, with maximum speeds of two and three cells per second respectively. Numerical simulation results for deterministic and stochastic cases are obtained. The fundamental diagrams and multiple states effects under different model parameters are analyzed and discussed. Field observations were made to calibrate the slowdown probabilities. The results imply that the improved extended Burgers cellular automata (IEBCA) model is more consistent with the field observations than previous models and greatly enhances the realism of the bicycle traffic model. - Highlights: • We proposed an improved multi-value CA model with higher maximum speed. • Update rules are introduced for heterogeneous bicycle traffic with maximum speed 2 and 3 cells/s. • Simulation results of the proposed model are consistent with field bicycle data. • Slowdown probabilities of both regular and electric bicycles are calibrated
Unified tractable model for downlink MIMO cellular networks using stochastic geometry
Afify, Laila H.
2016-07-26
Several research efforts are invested to develop stochastic geometry models for cellular networks with multiple antenna transmission and reception (MIMO). On one hand, there are models that target abstract outage probability and ergodic rate for simplicity. On the other hand, there are models that sacrifice simplicity to target more tangible performance metrics such as the error probability. Both types of models are completely disjoint in terms of the analytic steps to obtain the performance measures, which makes it challenging to conduct studies that account for different performance metrics. This paper unifies both techniques and proposes a unified stochastic-geometry based mathematical paradigm to account for error probability, outage probability, and ergodic rates in MIMO cellular networks. The proposed model is also unified in terms of the antenna configurations and leads to simpler error probability analysis compared to existing state-of-the-art models. The core part of the analysis is based on abstracting unnecessary information conveyed within the interfering signals by assuming Gaussian signaling. To this end, the accuracy of the proposed framework is verified against state-of-the-art models as well as system level simulations. We provide via this unified study insights on network design by reflecting system parameters effect on different performance metrics. © 2016 IEEE.
An improved multi-value cellular automata model for heterogeneous bicycle traffic flow
Energy Technology Data Exchange (ETDEWEB)
Jin, Sheng [College of Civil Engineering and Architecture, Zhejiang University, Hangzhou, 310058 China (China); Qu, Xiaobo [Griffith School of Engineering, Griffith University, Gold Coast, 4222 Australia (Australia); Xu, Cheng [Department of Transportation Management Engineering, Zhejiang Police College, Hangzhou, 310053 China (China); College of Transportation, Jilin University, Changchun, 130022 China (China); Ma, Dongfang, E-mail: mdf2004@zju.edu.cn [Ocean College, Zhejiang University, Hangzhou, 310058 China (China); Wang, Dianhai [College of Civil Engineering and Architecture, Zhejiang University, Hangzhou, 310058 China (China)
2015-10-16
This letter develops an improved multi-value cellular automata model for heterogeneous bicycle traffic flow taking the higher maximum speed of electric bicycles into consideration. The update rules of both regular and electric bicycles are improved, with maximum speeds of two and three cells per second respectively. Numerical simulation results for deterministic and stochastic cases are obtained. The fundamental diagrams and multiple states effects under different model parameters are analyzed and discussed. Field observations were made to calibrate the slowdown probabilities. The results imply that the improved extended Burgers cellular automata (IEBCA) model is more consistent with the field observations than previous models and greatly enhances the realism of the bicycle traffic model. - Highlights: • We proposed an improved multi-value CA model with higher maximum speed. • Update rules are introduced for heterogeneous bicycle traffic with maximum speed 2 and 3 cells/s. • Simulation results of the proposed model are consistent with field bicycle data. • Slowdown probabilities of both regular and electric bicycles are calibrated.
Guided Inquiry and Consensus-Building Used to Construct Cellular Models
Directory of Open Access Journals (Sweden)
Joel I. Cohen
2015-02-01
Full Text Available Using models helps students learn from a “whole systems” perspective when studying the cell. This paper describes a model that employs guided inquiry and requires consensus building among students for its completion. The model is interactive, meaning that it expands upon a static model which, once completed, cannot be altered and additionally relates various levels of biological organization (molecular, organelle, and cellular to define cell and organelle function and interaction. Learning goals are assessed using data summed from final grades and from images of the student’s final cell model (plant, bacteria, and yeast taken from diverse seventh grade classes. Instructional figures showing consensus-building pathways and seating arrangements are discussed. Results suggest that the model leads to a high rate of participation, facilitates guided inquiry, and fosters group and individual exploration by challenging student understanding of the living cell.
Institute of Scientific and Technical Information of China (English)
W.H. Yu; E.J. Palmiere; S.P. Banks; J.T. Han
2005-01-01
A novel 2D cellular automata (CA) model has been developed for description of normal grain coarsening and abnormal grain coarsening process. The program reflects the grain coarsening quite well even through the average grain size becomes very large. Follow results have been obtained: (a) The model reflect the normal grain growth kinetics gradually increase with probability and grain growth speed can be controlled. Based on this result, temperature can be coupled in the model. (b) Abnormal grain growth is modelled successfully. (c) Methodology has been put forward to find the relationship between the experiment results and modelling results. The experimental work on the grain coarsening has been carried out. Graphical output matched the realistic microstructure in every detail. Because many physical parameters can be taken into account in the CA programme, this CA model could not only qualitatively demonstrate the grain growth process, but also quantitatively predict and analyse the grain coarsening process.
Drosophila as a genetic and cellular model for studies on axonal growth
Directory of Open Access Journals (Sweden)
Whitington Paul
2007-05-01
Full Text Available Abstract One of the most fascinating processes during nervous system development is the establishment of stereotypic neuronal networks. An essential step in this process is the outgrowth and precise navigation (pathfinding of axons and dendrites towards their synaptic partner cells. This phenomenon was first described more than a century ago and, over the past decades, increasing insights have been gained into the cellular and molecular mechanisms regulating neuronal growth and navigation. Progress in this area has been greatly assisted by the use of simple and genetically tractable invertebrate model systems, such as the fruit fly Drosophila melanogaster. This review is dedicated to Drosophila as a genetic and cellular model to study axonal growth and demonstrates how it can and has been used for this research. We describe the various cellular systems of Drosophila used for such studies, insights into axonal growth cones and their cytoskeletal dynamics, and summarise identified molecular signalling pathways required for growth cone navigation, with particular focus on pathfinding decisions in the ventral nerve cord of Drosophila embryos. These Drosophila-specific aspects are viewed in the general context of our current knowledge about neuronal growth.
Mechanistic Modelling of DNA Repair and Cellular Survival Following Radiation-Induced DNA Damage.
McMahon, Stephen J; Schuemann, Jan; Paganetti, Harald; Prise, Kevin M
2016-01-01
Characterising and predicting the effects of ionising radiation on cells remains challenging, with the lack of robust models of the underlying mechanism of radiation responses providing a significant limitation to the development of personalised radiotherapy. In this paper we present a mechanistic model of cellular response to radiation that incorporates the kinetics of different DNA repair processes, the spatial distribution of double strand breaks and the resulting probability and severity of misrepair. This model enables predictions to be made of a range of key biological endpoints (DNA repair kinetics, chromosome aberration and mutation formation, survival) across a range of cell types based on a set of 11 mechanistic fitting parameters that are common across all cells. Applying this model to cellular survival showed its capacity to stratify the radiosensitivity of cells based on aspects of their phenotype and experimental conditions such as cell cycle phase and plating delay (correlation between modelled and observed Mean Inactivation Doses R(2) > 0.9). By explicitly incorporating underlying mechanistic factors, this model can integrate knowledge from a wide range of biological studies to provide robust predictions and may act as a foundation for future calculations of individualised radiosensitivity. PMID:27624453
Idealized Mesoscale Model Simulations of Open Cellular Convection Over the Sea
DEFF Research Database (Denmark)
Vincent, Claire Louise; Hahmann, Andrea N.; Kelly, Mark C.
2012-01-01
The atmospheric conditions during an observed case of open cellular convection over the North Sea were simulated using the Weather Research and Forecasting (WRF) numerical model. Wind, temperature and water vapour mixing ratio profiles from the WRF simulation were used to initialize an idealized...... version of the model, which excluded the effects of topography, surface inhomogeneities and large-scale weather forcing. Cells with an average diameter of 17.4 km developed. Simulations both with and without a capping inversion were made, and the cell-scale kinetic energy budget was calculated for each...
Modeling Mixed Bicycle Traffic Flow: A Comparative Study on the Cellular Automata Approach
Directory of Open Access Journals (Sweden)
Dan Zhou
2015-01-01
Full Text Available Simulation, as a powerful tool for evaluating transportation systems, has been widely used in transportation planning, management, and operations. Most of the simulation models are focused on motorized vehicles, and the modeling of nonmotorized vehicles is ignored. The cellular automata (CA model is a very important simulation approach and is widely used for motorized vehicle traffic. The Nagel-Schreckenberg (NS CA model and the multivalue CA (M-CA model are two categories of CA model that have been used in previous studies on bicycle traffic flow. This paper improves on these two CA models and also compares their characteristics. It introduces a two-lane NS CA model and M-CA model for both regular bicycles (RBs and electric bicycles (EBs. In the research for this paper, many cases, featuring different values for the slowing down probability, lane-changing probability, and proportion of EBs, were simulated, while the fundamental diagrams and capacities of the proposed models were analyzed and compared between the two models. Field data were collected for the evaluation of the two models. The results show that the M-CA model exhibits more stable performance than the two-lane NS model and provides results that are closer to real bicycle traffic.
Numerical study on photoresist etching processes based on a cellular automata model
Institute of Scientific and Technical Information of China (English)
ZHOU ZaiFa; HUANG QingAn; LI WeiHua; LU Wei
2007-01-01
For the three-dimensional (3-D) numerical study of photoresist etching processes, the 2-D dynamic cellular automata (CA) model has been successfully extended to a 3-D dynamic CA model. Only the boundary cells will be processed in the 3-D dynamic CA model and the structure of "if-else" description in the simulation program is avoided to speed up the simulation. The 3-D dynamic CA model has found to be stable, fast and accurate for the numerical study of photoresist etching processes. The exposure simulation, post-exposure bake (PEB) simulation and etching simulation are integrated together to further investigate the performances of the CA model. Simulation results have been compared with the available experimental results and the simulations show good agreement with the available experiments.
Comparative Analysis of Empirical Path Loss Model for Cellular Transmission in Rivers State
Directory of Open Access Journals (Sweden)
B.O.H Akinwole, Biebuma J.J
2013-08-01
Full Text Available This paper presents a comparative analysis of three empirical path loss models with measured data for urban, suburban, and rural areas in Rivers State. The three models investigated were COST 231 Hata, SUI,ECC-33models. A downlink data was collected at operating frequency of 2100MHz using drive test procedure consisting of test mobile phones to determine the received signal power (RSCP at specified receiver distanceson a Globacom Node Bs located in some locations in the State. This test was carried out for investigating the effectiveness of the commonly used existing models for Cellular transmission. The results analysed were based on Mean Square Error (MSE and Standard Deviation (SD and were simulated on MATLAB (7.5.0. The results show that COST 231 Hata model gives better predictions and therefore recommended for path loss predictions in River State.
Numerical study on photoresist etching processes based on a cellular automata model
Institute of Scientific and Technical Information of China (English)
2007-01-01
For the three-dimensional (3-D) numerical study of photoresist etching processes, the 2-D dynamic cellular automata (CA) model has been successfully extended to a 3-D dynamic CA model. Only the boundary cells will be processed in the 3-D dy-namic CA model and the structure of “if-else” description in the simulation pro-gram is avoided to speed up the simulation. The 3-D dynamic CA model has found to be stable, fast and accurate for the numerical study of photoresist etching processes. The exposure simulation, post-exposure bake (PEB) simulation and etching simulation are integrated together to further investigate the performances of the CA model. Simulation results have been compared with the available ex-perimental results and the simulations show good agreement with the available experiments.
The CA model for traffic-flow at the grade roundabout crossing
Institute of Scientific and Technical Information of China (English)
Chen Rui-Xiong; Bai Ke-Zhao; Liu Mu-Ren
2006-01-01
The cellular automaton model is suggested to describe the traffic-flow at the grade roundabout crossing. After the simulation with computer, the fundamental properties of this model have been revealed. Analysing this kind of road structure, this paper transforms the grade roundabout crossing with inner-roundabout-lane and outer-roundabout-lane into a configuration with many bottlenecks. Because of the self-organization, the traffic flow remains unblocked under a certain vehicle density. Some results of the simulation are close to the actual design parameter.
The CA model for traffic-flow at the grade roundabout crossing
Chen, Rui-Xiong; Bai, Ke-Zhao; Liu, Mu-Ren
2006-07-01
The cellular automaton model is suggested to describe the traffic-flow at the grade roundabout crossing. After the simulation with computer, the fundamental properties of this model have been revealed. Analysing this kind of road structure, this paper transforms the grade roundabout crossing with inner-roundabout-lane and outer-roundabout-lane into a configuration with many bottlenecks. Because of the self-organization, the traffic flow remains unblocked under a certain vehicle density. Some results of the simulation are close to the actual design parameter.
Ma, Xiao; Zheng, Wei-Fan; Jiang, Bao-Shan; Zhang, Ji-Ye
2016-10-01
With the development of traffic systems, some issues such as traffic jams become more and more serious. Efficient traffic flow theory is needed to guide the overall controlling, organizing and management of traffic systems. On the basis of the cellular automata model and the traffic flow model with look-ahead potential, a new cellular automata traffic flow model with negative exponential weighted look-ahead potential is presented in this paper. By introducing the negative exponential weighting coefficient into the look-ahead potential and endowing the potential of vehicles closer to the driver with a greater coefficient, the modeling process is more suitable for the driver’s random decision-making process which is based on the traffic environment that the driver is facing. The fundamental diagrams for different weighting parameters are obtained by using numerical simulations which show that the negative exponential weighting coefficient has an obvious effect on high density traffic flux. The complex high density non-linear traffic behavior is also reproduced by numerical simulations. Project supported by the National Natural Science Foundation of China (Grant Nos. 11572264, 11172247, 11402214, and 61373009).
Empirical results for pedestrian dynamics and their implications for cellular automata models
Schadschneider, Andreas
2010-01-01
A large number of models for pedestrian dynamics have been developed over the years. However, so far not much attention has been paid to their quantitative validation. Usually the focus is on the reproduction of empirically observed collective phenomena, as lane formation in counterflow. This can give an indication for the realism of the model, but practical applications, e.g. in safety analysis, require quantitative predictions. We discuss the current experimental situation, especially for the fundamental diagram which is the most important quantity needed for calibration. In addition we consider the implications for the modelling based on cellular automata. As specific example the floor field model is introduced. Apart from the properties of its fundamental diagram we discuss the implications of an egress experiment for the relevance of conflicts and friction effects.
Cellular-automata model of the dwarf shrubs populations and communities dynamics
Directory of Open Access Journals (Sweden)
A. S. Komarov
2015-06-01
Full Text Available The probabilistic cellular-automata model of development and long-time dynamics of dwarf shrub populations and communities is developed. It is based on the concept of discrete description of the plant ontogenesis and joint model approaches in terms of probabilistic cellular automata and L-systems by Lindenmayer. Short representation of the basic model allows evaluation of the approach and software implementation. The main variables of the model are a number of partial bushes in clones or area projective cover. The model allows us to investigate the conditions of self-maintenance and sustainability population under different environmental conditions (inaccessibility of the territory for settlement, mosaic moisture conditions of soil and wealth. The model provides a forecast of the total biomass dynamics shrubs and their fractions (stems, leaves, roots, fine roots, fruits on the basis of the data obtained in the discrete description of ontogenesis and further information on the productivity of the plant fractions. The inclusion of the joint dynamics of biomass of shrubs and soil in EFIMOD models cycle of carbon and nitrogen to evaluate the role of shrubs in these circulations, especially at high impact, such as forest fires and clear cutting, allow forecasting of the dynamics of populations and ecosystem functions of shrubs (regulation of biogeochemical cycles maintaining biodiversity, participation in the creation of non-wood products with changing climatic conditions and strong damaging effects (logging, fires; and application of the models developed to investigate the stability and productivity of shrubs and their participation in the cycle of carbon and nitrogen in different climatic and edaphic conditions.
Cellular automata model based on GIS and urban sprawl dynamics simulation
Mu, Fengyun; Zhang, Zengxiang
2005-10-01
The simulation of land use change process needs the support of Geographical Information System (GIS) and other relative technologies. While the present commercial GIS lack capabilities of distribution, prediction, and simulation of spatial-temporal data. Cellular automata (CA) provide dynamically modeling "from bottom-to-top" framework and posses the capability of modeling spatial-temporal evolvement process of a complicated geographical system, which is composed of a fourfold: cells, states, neighbors and rules. The simplicity and flexibility make CA have the ability to simulate a variety of behaviors of complex systems. One of the most potentially useful applications of cellular automata from the point of view of spatial planning is their use in simulations of urban sprawl at local and regional level. The paper firstly introduces the principles and characters of the cellular automata, and then discusses three methods of the integration of CA and GIS. The paper analyses from a practical point of view the factors that effect urban activities in the science of spatial decision-making. The status of using CA to dynamic simulates of urban expansion at home and abroad is analyzed. Finally, the problems and tendencies that exist in the application of CA model are detailed discussed, such as the quality of the data that the CA needs, the self-organization of the CA roots in the mutual function among the elements of the system, the partition of the space scale, the time calibration of the CA and the integration of the CA with other modular such as artificial nerve net modular and population modular etc.
Modeling Mixed Traffic Flow at Crosswalks in Micro-Simulations Using Cellular Automata
Institute of Scientific and Technical Information of China (English)
DUAN Houli; ZHANG Yi
2007-01-01
The cellular automata (CA) micro-simulation model was used to describe the behavior of the mixed traffic flows at crosswalks where the pedestrians compete with the vehicles to cross the roadway. The focus of this paper is the behavior of pedestrians and the influence of pedestrians' behavior on the vehicle flow, pedestrian flows, and the vehicle waiting time. The proportion of pedestrians who do not obey traffic laws, the group effect, and expected waiting time of pedestrians, regarded as the most important pedestrian characteristics, are taken into consideration in the analysis. Simulation results show the ability of the microsimulation to capture the most important features of mixed traffic flow.
Metabolically active portion of fat-free mass: a cellular body composition level modeling analysis
Wang, ZiMian; Heshka, Stanley; Wang, Jack; Gallagher, Dympna; Deurenberg, Paul; Chen, Zhao; Heymsfield, Steven B
2006-01-01
The proportion of fat-free mass (FFM) as body cell mass (BCM) is highly related to whole body resting energy expenditure. However, the magnitude of BCM/FFM may have been underestimated in previous studies. This is because Moore’s equation [BCM (kg) =0.00833 × total body potassium (in mmol)], which was used to predict BCM, underestimates BCM by ~ %. The aims of the present study were to develop a theoretical BCM/FFM model at the cellular level and to explore the influences of sex, age, and adi...
DEFF Research Database (Denmark)
Guedes, J.M.; Rodrigues, H.C.; Bendsøe, Martin P.
2003-01-01
This paper describes a computational model, based on inverse homogenization and topology design, for approximating energy bounds for two-phase composites under multiple load cases. The approach allows for the identification of possible single-scale cellular materials that give rise to the optimal...... bounds within this class of composites. A comparison of the computational results with the globally optimal bounds given via rank-N layered composites illustrates the behaviour for tension and shear load situations, as well as the importance of considering the shape of the basic unit cell as part...
Coordination and Emergence in the Cellular Automated Fashion Game
Cao, Zhigang; Qu, Xinglong; Yang, Mingmin; Yang, Xiaoguang
2012-01-01
We investigate a heterogeneous cellular automaton, where there are two types of agents, conformists and rebels. Each agent has to choose between two actions, 0 and 1. A conformist likes to choose an action that most of her neighbors choose, while in contrast a rebel wants to be different with most of her neighbors. Theoretically, this model is equivalent to the matching pennies game on regular networks. We study the dynamical process by assuming that each agent takes a myopic updating rule. An uniform updating probability is also introduced for each agent to study the whole spectrum from synchronous updating to asynchronous updating. Our model characterizes the phenomenon of fashion very well and has a great potential in the study of the finance and stock markets. A large number of simulations show that in most case agents can reach extraordinarily high degree of coordination. This process is also quite fast and steady. Considering that these dynamics are really simple, agents are selfish, myopic, and have ve...
Doutres, Olivier; Atalla, Noureddine; Osman, Haisam
2015-06-01
Porous materials are widely used for improving sound absorption and sound transmission loss of vibrating structures. However, their efficiency is limited to medium and high frequencies of sound. A solution for improving their low frequency behavior while keeping an acceptable thickness is to embed resonant structures such as Helmholtz resonators (HRs). This work investigates the absorption and transmission acoustic performances of a cellular porous material with a two-dimensional periodic arrangement of HR inclusions. A low frequency model of a resonant periodic unit cell based on the parallel transfer matrix method is presented. The model is validated by comparison with impedance tube measurements and simulations based on both the finite element method and a homogenization based model. At the HR resonance frequency (i) the transmission loss is greatly improved and (ii) the sound absorption of the foam can be either decreased or improved depending on the HR tuning frequency and on the thickness and properties of the host foam. Finally, the diffuse field sound absorption and diffuse field sound transmission loss performance of a 2.6 m(2) resonant cellular material are measured. It is shown that the improvements observed at the Helmholtz resonant frequency on a single cell are confirmed at a larger scale.
Heijman, Jordi; Erfanian Abdoust, Pegah; Voigt, Niels; Nattel, Stanley; Dobrev, Dobromir
2016-02-01
The complexity of the heart makes an intuitive understanding of the relative contribution of ion channels, transporters and signalling pathways to cardiac electrophysiology challenging. Computational modelling of cardiac cellular electrophysiology has proven useful to integrate experimental findings, extrapolate results obtained in expression systems or animal models to other systems, test quantitatively ideas based on experimental data and provide novel hypotheses that are experimentally testable. While the bulk of computational modelling has traditionally been directed towards ventricular bioelectricity, increasing recognition of the clinical importance of atrial arrhythmias, particularly atrial fibrillation, has led to widespread efforts to apply computational approaches to understanding atrial electrical function. The increasing availability of detailed, atrial-specific experimental data has stimulated the development of novel computational models of atrial-cellular electrophysiology and Ca(2+) handling. To date, more than 300 studies have employed mathematical simulations to enhance our understanding of atrial electrophysiology, arrhythmogenesis and therapeutic responses. Future modelling studies are likely to move beyond current whole-cell models by incorporating new data on subcellular architecture, macromolecular protein complexes, and localized ion-channel regulation by signalling pathways. At the same time, more integrative multicellular models that take into account regional electrophysiological and Ca(2+) handling properties, mechano-electrical feedback and/or autonomic regulation will be needed to investigate the mechanisms governing atrial arrhythmias. A combined experimental and computational approach is expected to provide the more comprehensive understanding of atrial arrhythmogenesis that is required to develop improved diagnostic and therapeutic options. Here, we review this rapidly expanding area, with a particular focus on Ca(2+) handling, and
Modeling of the competition life cycle using the software complex of cellular automata PyCAlab
Berg, D. B.; Beklemishev, K. A.; Medvedev, A. N.; Medvedeva, M. A.
2015-11-01
The aim of the work is to develop a numerical model of the life cycle of competition on the basis of software complex cellular automata PyCAlab. The model is based on the general patterns of growth of various systems in resource-limited settings. At examples it is shown that the period of transition from an unlimited growth of the market agents to the stage of competitive growth takes quite a long time and may be characterized as monotonic. During this period two main strategies of competitive selection coexist: 1) capture of maximum market space with any reasonable costs; 2) saving by reducing costs. The obtained results allow concluding that the competitive strategies of companies must combine two mentioned types of behavior, and this issue needs to be given adequate attention in the academic literature on management. The created numerical model may be used for market research when developing of the strategies for promotion of new goods and services.
Directory of Open Access Journals (Sweden)
Kamran Forghani
2012-10-01
Full Text Available In this paper, a new mathematical model in cellular manufacturing systems (CMSs has been presented. In order to increase the performance of manufacturing system, the production quantity of parts has been considered as a decision variable, i.e. each part can be produced and outsourced, simultaneously. This extension would be minimized the unused capacity of machines. The exceptional elements (EEs are taken into account and would be totally outsourced to the external supplier in order to remove intercellular material handling cost. The problem has been formulated as a mixed-integer programming to minimize the sum of manufacturing variable costs under budget, machines capacity and demand constraints. Also, to evaluate advantages of the model, several illustrative numerical examples have been provided to compare the performance of the proposed model with the available classical approaches in the literature.
A Two-Lane Cellular Automata Model with Influence of Next-Nearest Neighbor Vehicle
Institute of Scientific and Technical Information of China (English)
无
2006-01-01
In this paper, we propose a new two-lane cellular automata model in which the influence of the next-nearest neighbor vehicle is considered. The attributes of the traffic system composed of fast-lane and slow-lane are investigated by the new traffic model. The simulation results show that the proposed two-lane traffic model can reproduce some traffic phenomena observed in real traffic, and that maximum flux and critical density are close to the field measurements.Moreover, the initial density distribution of the fast-lane and slow-lane has much influence on the traffic flow states.With the ratio between the densities of slow lane and fast lane increasing the lane changing frequency increases, but maximum flux decreases. Finally, the influence of the sensitivity coefficients is discussed.
Aalaei, Amin; Davoudpour, Hamid
2012-11-01
This article presents designing a new mathematical model for integrating dynamic cellular manufacturing into supply chain system with an extensive coverage of important manufacturing features consideration of multiple plants location, multi-markets allocation, multi-period planning horizons with demand and part mix variation, machine capacity, and the main constraints are demand of markets satisfaction in each period, machine availability, machine time-capacity, worker assignment, available time of worker, production volume for each plant and the amounts allocated to each market. The aim of the proposed model is to minimize holding and outsourcing costs, inter-cell material handling cost, external transportation cost, procurement & maintenance and overhead cost of machines, setup cost, reconfiguration cost of machines installation and removal, hiring, firing and salary worker costs. Aimed to prove the potential benefits of such a design, presented an example is shown using a proposed model.
An Integrated Framework to Model Cellular Phenotype as a Component of Biochemical Networks
Directory of Open Access Journals (Sweden)
Michael Gormley
2011-01-01
Full Text Available Identification of regulatory molecules in signaling pathways is critical for understanding cellular behavior. Given the complexity of the transcriptional gene network, the relationship between molecular expression and phenotype is difficult to determine using reductionist experimental methods. Computational models provide the means to characterize regulatory mechanisms and predict phenotype in the context of gene networks. Integrating gene expression data with phenotypic data in transcriptional network models enables systematic identification of critical molecules in a biological network. We developed an approach based on fuzzy logic to model cell budding in Saccharomyces cerevisiae using time series expression microarray data of the cell cycle. Cell budding is a phenotype of viable cells undergoing division. Predicted interactions between gene expression and phenotype reflected known biological relationships. Dynamic simulation analysis reproduced the behavior of the yeast cell cycle and accurately identified genes and interactions which are essential for cell viability.
Dynamical critical behavior in a cellular model of superconducting vortex avalanches
Vadakkan, Tegy John
Bak, Tang, and Wiesenfeld showed that certain driven dissipative systems with many degrees of freedom organize into a critical state characterized by avalanche dynamics and power law distribution of avalanche sizes and durations. They called this phenomenon self-organized criticality and sandpile became the prototype of such dynamical systems. Universality in these systems is not yet well established. Forty years ago, de Gennes noted that the Bean state in a type-II superconductor is similar to a sandpile. Motivated by strong experimental evidences, Bassler and Paczuski (BP) proposed a 2D sandpile model to study self-organization in the dynamics of vortices in superconductors. In this dissertation, the effect of anisotropy in the vortex-vortex interaction, stochasticity in the vortex toppling rule, and the configuration of the pinning centers on the scaling properties of the avalanches in the BP model is studied. Also, universality in the cellular model of vortex dynamics is investigated.
Sezgin, Erdinc; Levental, Ilya; Grzybek, Michal; Schwarzmann, Günter; Mueller, Veronika; Honigmann, Alf; Belov, Vladimir N; Eggeling, Christian; Coskun, Unal; Simons, Kai; Schwille, Petra
2012-07-01
Several simplified membrane models featuring coexisting liquid disordered (Ld) and ordered (Lo) lipid phases have been developed to mimic the heterogeneous organization of cellular membranes, and thus, aid our understanding of the nature and functional role of ordered lipid-protein nanodomains, termed "rafts". In spite of their greatly reduced complexity, quantitative characterization of local lipid environments using model membranes is not trivial, and the parallels that can be drawn to cellular membranes are not always evident. Similarly, various fluorescently labeled lipid analogs have been used to study membrane organization and function in vitro, although the biological activity of these probes in relation to their native counterparts often remains uncharacterized. This is particularly true for raft-preferring lipids ("raft lipids", e.g. sphingolipids and sterols), whose domain preference is a strict function of their molecular architecture, and is thus susceptible to disruption by fluorescence labeling. Here, we analyze the phase partitioning of a multitude of fluorescent raft lipid analogs in synthetic Giant Unilamellar Vesicles (GUVs) and cell-derived Giant Plasma Membrane Vesicles (GPMVs). We observe complex partitioning behavior dependent on label size, polarity, charge and position, lipid headgroup, and membrane composition. Several of the raft lipid analogs partitioned into the ordered phase in GPMVs, in contrast to fully synthetic GUVs, in which most raft lipid analogs mis-partitioned to the disordered phase. This behavior correlates with the greatly enhanced order difference between coexisting phases in the synthetic system. In addition, not only partitioning, but also ligand binding of the lipids is perturbed upon labeling: while cholera toxin B binds unlabeled GM1 in the Lo phase, it binds fluorescently labeled GMI exclusively in the Ld phase. Fluorescence correlation spectroscopy (FCS) by stimulated emission depletion (STED) nanoscopy on intact
Mathematical modeling of ultrasound in tissue engineering: From bioreactors to the cellular scale
Louw, Tobias M.
Tissue engineering seeks to provide a means to treat injuries that are beyond the body's natural ability to repair without the issues associated with allografts. Autologous cells are cultured in a bioreactor which controls the cellular environment (including mechanical stimulation) for optimal tissue growth. We investigate ultrasound as an effective means of mechanical stimulation by predicting the ultrasonic field in a bioreactor, as well as ultrasonic bioeffects at the cellular level. The Transfer Matrix Angular Spectrum Approach was found to be the most accurate and computationally efficient bioreactor model. Three critical factors influence experimental results: (1) the diameter of the tissue engineering scaffold greatly affects the ultrasonic field; (2) the position of the ultrasonic transducer and liquid level in the tissue culture well determines the maximum pressure amplitude in the bioreactor, but the pressure can be controlled by measuring the transducer input electrical impedance and manipulating the applied voltage; and (3) the position of pressure nodes are influenced by ultrasonic frequency and liquid level; this will affect the response of cells to applied ultrasound. On the cellular level, it was shown that chondrocytes respond to ultrasound with frequency dependence. A predicted resonance frequency near 5MHz matched experimental results showing maximum expression of load inducible genes at 5MHz. Mechanical stresses are concentrated near the nucleus at resonance, alluding to the possibility that the nucleus may directly sense ultrasonic stimulation. We postulate that ultrasound influences the transport of p-ERK to the nucleus or causes minor chromatin reorganization, leading to the observed frequency dependent gene expression. We linked in vitro ultrasonic stimulation to in vivo mechanical stimulation generated by natural movement. The chondrocyte's response to impact is under-damped, and the cell oscillates with a frequency close to the model
A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue
Directory of Open Access Journals (Sweden)
Drubin David
2011-10-01
Full Text Available Abstract Background Humans and other organisms are equipped with a set of responses that can prevent damage from exposure to a multitude of endogenous and environmental stressors. If these stress responses are overwhelmed, this can result in pathogenesis of diseases, which is reflected by an increased development of, e.g., pulmonary and cardiac diseases in humans exposed to chronic levels of environmental stress, including inhaled cigarette smoke (CS. Systems biology data sets (e.g., transcriptomics, phosphoproteomics, metabolomics could enable comprehensive investigation of the biological impact of these stressors. However, detailed mechanistic networks are needed to determine which specific pathways are activated in response to different stressors and to drive the qualitative and eventually quantitative assessment of these data. A current limiting step in this process is the availability of detailed mechanistic networks that can be used as an analytical substrate. Results We have built a detailed network model that captures the biology underlying the physiological cellular response to endogenous and exogenous stressors in non-diseased mammalian pulmonary and cardiovascular cells. The contents of the network model reflect several diverse areas of signaling, including oxidative stress, hypoxia, shear stress, endoplasmic reticulum stress, and xenobiotic stress, that are elicited in response to common pulmonary and cardiovascular stressors. We then tested the ability of the network model to identify the mechanisms that are activated in response to CS, a broad inducer of cellular stress. Using transcriptomic data from the lungs of mice exposed to CS, the network model identified a robust increase in the oxidative stress response, largely mediated by the anti-oxidant NRF2 pathways, consistent with previous reports on the impact of CS exposure in the mammalian lung. Conclusions The results presented here describe the construction of a cellular stress
A Vector-based Cellular Automata Model for Simulating Urban Land Use Change
Institute of Scientific and Technical Information of China (English)
LU Yi; CAO Min; ZHANG Lei
2015-01-01
Cellular Automata (CA) is widely used for the simulation of land use changes.This study applied a vector-based CA model to simulate land use change in order to minimize or eliminate the scale sensitivity in traditional raster-based CA model.The cells of vector-based CA model are presented according to the shapes and attributes of geographic entities,and the transition rules of vector-based CA model are improved by taking spatial variables of the study area into consideration.The vector-based CA model is applied to simulate land use changes in downtown of Qidong City,Jiangsu Province,China and its validation is confirmed by the methods of visual assessment and spatial accuracy.The simulation result of vector-based CA model reveals that nearly 75％ of newly increased urban cells are located in the northwest and southwest parts of the study area from 2002 to 2007,which is in consistent with real land use map.In addition,the simulation results of the vector-based and raster-based CA models are compared to real land use data and their spatial accuracies are found to be 84.0％ and 81.9％,respectively.In conclusion,results from this study indicate that the vector-based CA model is a practical and applicable method for the simulation of urbanization processes.
Energy Technology Data Exchange (ETDEWEB)
Zhao, Yuchao; Conolly, Rory B; Andersen, Melvin E.
2006-11-21
This report describes the development of a computational systems biology approach to evaluate the hypotheses of molecular and cellular mechanisms of adaptive response to low dose ionizing radiation. Our concept is that computational models of signaling pathways can be developed and linked to biologically based dose response models to evaluate the underlying molecular mechanisms which lead to adaptive response. For development of quantitatively accurate, predictive models, it will be necessary to describe tissues consisting of multiple cell types where the different types each contribute in their own way to the overall function of the tissue. Such a model will probably need to incorporate not only cell type-specific data but also spatial information on the architecture of the tissue and on intercellular signaling. The scope of the current model was more limited. Data obtained in a number of different biological systems were synthesized to describe a chimeric, “average” population cell. Biochemical signaling pathways involved in sensing of DNA damage and in the activation of cell cycle checkpoint controls and the apoptotic path were also included. As with any computational modeling effort, it was necessary to develop these simplified initial descriptions (models) that can be iteratively refined. This preliminary model is a starting point which, with time, can evolve to a level of refinement where large amounts of detailed biological information are synthesized and a capability for robust predictions of dose- and time-response behaviors is obtained.
Geographic Spatiotemporal Dynamic Model using Cellular Automata and Data Mining Techniques
Directory of Open Access Journals (Sweden)
Ahmad Zuhdi
2011-05-01
Full Text Available Geospatial data and information availability has been increasing rapidly and has provided users with knowledge on entities change and movement in a system. Cellular Geography model applies Cellular Automata on Geographic data by defining transition rules to the data grid. This paper presents the techniques for extracting transition rule(s from time series data grids, using multiple linear regression analysis. Clustering technique is applied to minimize the number of transition rules, which can be offered and chosen to change a new unknown grid. Each centroid of a cluster is associated with a transition rule and a grid of data. The chosen transition rule is associated with grid that has a minimum distance to the new data grid to be simulated. Validation of the model can be provided either quantitatively through an error measurement or qualitatively by visualizing the result of the simulation process. The visualization can also be more informative by adding the error information. Increasing number of cluster may give possibility to improve the simulation accuracy.
Achour, Imène; Arel-Dubeau, Anne-Marie; Renaud, Justine; Legrand, Manon; Attard, Everaldo; Germain, Marc; Martinoli, Maria-Grazia
2016-01-01
Parkinson's disease (PD) is a progressive neurodegenerative disorder, primarily affecting dopaminergic neurons in the substantia nigra. There is currently no cure for PD and present medications aim to alleviate clinical symptoms, thus prevention remains the ideal strategy to reduce the prevalence of this disease. The goal of this study was to investigate whether oleuropein (OLE), the major phenolic compound in olive derivatives, may prevent neuronal degeneration in a cellular dopaminergic model of PD, differentiated PC12 cells exposed to the potent parkinsonian toxin 6-hydroxydopamine (6-OHDA). We also investigated OLE's ability to mitigate mitochondrial oxidative stress and modulate the autophagic flux. Our results obtained by measuring cytotoxicity and apoptotic events demonstrate that OLE significantly decreases neuronal death. OLE could also reduce mitochondrial production of reactive oxygen species resulting from blocking superoxide dismutase activity. Moreover, quantification of autophagic and acidic vesicles in the cytoplasm alongside expression of specific autophagic markers uncovered a regulatory role for OLE against autophagic flux impairment induced by bafilomycin A1. Altogether, our results define OLE as a neuroprotective, anti-oxidative and autophagy-regulating molecule, in a neuronal dopaminergic cellular model. PMID:27517912
The mechanics of cellular compartmentalization as a model for tumor spreading
Fritsch, Anatol; Pawlizak, Steve; Zink, Mareike; Kaes, Josef A.
2012-02-01
Based on a recently developed surgical method of Michael H"ockel, which makes use of cellular confinement to compartments in the human body, we study the mechanics of the process of cell segregation. Compartmentalization is a fundamental process of cellular organization and occurs during embryonic development. A simple model system can demonstrate the process of compartmentalization: When two populations of suspended cells are mixed, this mixture will eventually segregate into two phases, whereas mixtures of the same cell type will not. In the 1960s, Malcolm S. Steinberg formulated the so-called differential adhesion hypothesis which explains the segregation in the model system and the process of compartmentalization by differences in surface tension and adhesiveness of the interacting cells. We are interested in to which extend the same physical principles affect tumor growth and spreading between compartments. For our studies, we use healthy and cancerous breast cell lines of different malignancy as well as primary cells from human cervix carcinoma. We apply a set of techniques to study their mechanical properties and interactions. The Optical Stretcher is used for whole cell rheology, while Cell-cell-adhesion forces are directly measured with a modified AFM. In combination with 3D segregation experiments in droplet cultures we try to clarify the role of surface tension in tumor spreading.
Directory of Open Access Journals (Sweden)
Imène Achour
2016-08-01
Full Text Available Parkinson’s disease (PD is a progressive neurodegenerative disorder, primarily affecting dopaminergic neurons in the substantia nigra. There is currently no cure for PD and present medications aim to alleviate clinical symptoms, thus prevention remains the ideal strategy to reduce the prevalence of this disease. The goal of this study was to investigate whether oleuropein (OLE, the major phenolic compound in olive derivatives, may prevent neuronal degeneration in a cellular dopaminergic model of PD, differentiated PC12 cells exposed to the potent parkinsonian toxin 6-hydroxydopamine (6-OHDA. We also investigated OLE’s ability to mitigate mitochondrial oxidative stress and modulate the autophagic flux. Our results obtained by measuring cytotoxicity and apoptotic events demonstrate that OLE significantly decreases neuronal death. OLE could also reduce mitochondrial production of reactive oxygen species resulting from blocking superoxide dismutase activity. Moreover, quantification of autophagic and acidic vesicles in the cytoplasm alongside expression of specific autophagic markers uncovered a regulatory role for OLE against autophagic flux impairment induced by bafilomycin A1. Altogether, our results define OLE as a neuroprotective, anti-oxidative and autophagy-regulating molecule, in a neuronal dopaminergic cellular model.
Achour, Imène; Arel-Dubeau, Anne-Marie; Renaud, Justine; Legrand, Manon; Attard, Everaldo; Germain, Marc; Martinoli, Maria-Grazia
2016-01-01
Parkinson’s disease (PD) is a progressive neurodegenerative disorder, primarily affecting dopaminergic neurons in the substantia nigra. There is currently no cure for PD and present medications aim to alleviate clinical symptoms, thus prevention remains the ideal strategy to reduce the prevalence of this disease. The goal of this study was to investigate whether oleuropein (OLE), the major phenolic compound in olive derivatives, may prevent neuronal degeneration in a cellular dopaminergic model of PD, differentiated PC12 cells exposed to the potent parkinsonian toxin 6-hydroxydopamine (6-OHDA). We also investigated OLE’s ability to mitigate mitochondrial oxidative stress and modulate the autophagic flux. Our results obtained by measuring cytotoxicity and apoptotic events demonstrate that OLE significantly decreases neuronal death. OLE could also reduce mitochondrial production of reactive oxygen species resulting from blocking superoxide dismutase activity. Moreover, quantification of autophagic and acidic vesicles in the cytoplasm alongside expression of specific autophagic markers uncovered a regulatory role for OLE against autophagic flux impairment induced by bafilomycin A1. Altogether, our results define OLE as a neuroprotective, anti-oxidative and autophagy-regulating molecule, in a neuronal dopaminergic cellular model. PMID:27517912
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Megan Olsen
Full Text Available Computational models in the field of cancer research have focused primarily on estimates of biological events based on laboratory generated data. We introduce a novel in-silico technology that takes us to the next level of prediction models and facilitates innovative solutions through the mathematical system. The model's building blocks are cells defined phenotypically as normal or tumor, with biological processes translated into equations describing the life protocols of the cells in a quantitative and stochastic manner. The essentials of communication in a society composed of normal and tumor cells are explored to reveal "protocols" for selective tumor eradication. Results consistently identify "citizenship properties" among cells that are essential for the induction of healing processes in a healthy system invaded by cancer. These properties act via inter-cellular communication protocols that can be optimized to induce tumor eradication along with system recovery. Within the computational systems, the protocols universally succeed in removing a wide variety of tumors defined by proliferation rates, initial volumes, and apoptosis resistant phenotypes; they show high adaptability for biological details and allow incorporation of population heterogeneity. These protocols work as long as at least 32% of cells obey extra-cellular commands and at least 28% of cancer cells report their deaths. This low percentage implies that the protocols are resilient to the suboptimal situations often seen in biological systems. We conclude that our in-silico model is a powerful tool to investigate, to propose, and to exercise logical anti-cancer solutions. Functional results should be confirmed in a biological system and molecular findings should be loaded into the computational model for the next level of directed experiments.
Pavlou, L.; Georgoudas, I. G.; Sirakoulis, G. Ch.; Scordilis, E. M.; Andreadis, I.
This paper presents an extensive simulation tool based on a Cellular Automata (CA) system that models fundamental seismic characteristics of a region. The CA-based dynamic model consists of cells-charges and it is used for the simulation of the earthquake process. The simulation tool has remarkably accelerated the response of the model by incorporating principles of the High Performance Computing (HPC). Extensive programming features of parallel computing have been applied, thus improving its processing effectiveness. The tool implements an enhanced (or hyper-) 2-dimensional version of the proposed CA model. Regional characteristics that depend on the seismic background of the area under study are assigned to the model with the application of a user-friendly software environment. The model is evaluated with real data that correspond to a circular region around Skyros Island, Greece, for different time periods, as for example one of 45 years (1901-1945). The enhanced 2-dimensional version of the model incorporates all principal characteristics of the 2-dimensional one, also including groups of CA cells that interact with others, located to a considerable distance in an attempt to simulate long-range interaction. The advanced simulation tool has been thoroughly evaluated. Several measurements have been made for different critical states, as well as for various cascade (earthquake) sizes, cell activities and different neighbourhood sizes. Simulation results qualitatively approach the Gutenberg-Richter (GR) scaling law and reveal fundamental characteristics of the system.
Knowledge-guided fuzzy logic modeling to infer cellular signaling networks from proteomic data
Liu, Hui; Zhang, Fan; Mishra, Shital Kumar; Zhou, Shuigeng; Zheng, Jie
2016-01-01
Modeling of signaling pathways is crucial for understanding and predicting cellular responses to drug treatments. However, canonical signaling pathways curated from literature are seldom context-specific and thus can hardly predict cell type-specific response to external perturbations; purely data-driven methods also have drawbacks such as limited biological interpretability. Therefore, hybrid methods that can integrate prior knowledge and real data for network inference are highly desirable. In this paper, we propose a knowledge-guided fuzzy logic network model to infer signaling pathways by exploiting both prior knowledge and time-series data. In particular, the dynamic time warping algorithm is employed to measure the goodness of fit between experimental and predicted data, so that our method can model temporally-ordered experimental observations. We evaluated the proposed method on a synthetic dataset and two real phosphoproteomic datasets. The experimental results demonstrate that our model can uncover drug-induced alterations in signaling pathways in cancer cells. Compared with existing hybrid models, our method can model feedback loops so that the dynamical mechanisms of signaling networks can be uncovered from time-series data. By calibrating generic models of signaling pathways against real data, our method supports precise predictions of context-specific anticancer drug effects, which is an important step towards precision medicine. PMID:27774993
A cellular automation model for the change of public attitude regarding nuclear energy
International Nuclear Information System (INIS)
A cellular automation model was constructed to investigate how public opinion on nuclear energy in Japan depends upon the information environment and personal communication between people. From simulation with this model, the following become clear; (i) society is a highly non-linear system with a self-organizing potential: (ii) in a society composed of one type of constituent member with homogeneous characteristics, the trend of public opinion is substantially changed only when the effort to ameliorate public acceptance over a long period of time, by means such as education, persuasion and advertisement, exceeds a certain threshold, and (iii) in the case when the amount of information on nuclear risk released from the newsmedia is reduced continuously from now on, the acceptability of nuclear energy is significantly improved so far as the extent of the reduction exceeds a certain threshold. (author)
Genome editing of human pluripotent stem cells to generate human cellular disease models
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Kiran Musunuru
2013-07-01
Full Text Available Disease modeling with human pluripotent stem cells has come into the public spotlight with the awarding of the Nobel Prize in Physiology or Medicine for 2012 to Drs John Gurdon and Shinya Yamanaka for the discovery that mature cells can be reprogrammed to become pluripotent. This discovery has opened the door for the generation of pluripotent stem cells from individuals with disease and the differentiation of these cells into somatic cell types for the study of disease pathophysiology. The emergence of genome-editing technology over the past few years has made it feasible to generate and investigate human cellular disease models with even greater speed and efficiency. Here, recent technological advances in genome editing, and its utility in human biology and disease studies, are reviewed.
Potential Field Cellular Automata Model for Pedestrian Evacuation in a Domain with a Ramp
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Xiao-Xia Jian
2014-01-01
Full Text Available We propose a potential field cellular automata model with a pushing force field to simulate the pedestrian evacuation in a domain with a ramp. We construct a cost potential depending on the ramp angle and introduce a function to evaluate the pushing force, which is related to the cost and the desired direction of pedestrian. With increase of crowd density, there is no empty space for pedestrian moving forward; pedestrian will purposefully push another pedestrian on her or his desired location to arrive the destination quickly. We analyse the relationship between the slope of ramp and the pushing force and investigate the changing of injured situations with the changing of the slope of ramp. When the number of pedestrians and the ramp angle arrive at certain critical points, the Domino effect will be simulated by this proposed model.
Modeling and Simulation for Urban Rail Traffic Problem Based on Cellular Automata
Institute of Scientific and Technical Information of China (English)
许琰; 曹成铉; 李明华; 罗金龙
2012-01-01
Based on the Nagel-Schreckenberg model, we propose a new cellular automata model to simulate the urban rail traffic flow under moving block system and present a new minimum instantaneous distance formula under pure moving block. We also analyze the characteristics of the urban rail traffic flow under the influence of train density, station dwell times, the length of train, and the train velocity. Train delays can be decreased effectively through flexible departure intervals according to the preceding train type before its departure. The results demonstrate that a suitable adjustment of the current train velocity based on the following train velocity can greatly shorten the minimum departure intervals and then increase the capacity of rail transit.
Hoganson, David M; Owens, Gwen E; Meppelink, Amanda M; Bassett, Erik K; Bowley, Chris M; Hinkel, Cameron J; Finkelstein, Eric B; Goldman, Scott M; Vacanti, Joseph P
2016-07-01
Extracellular matrix (ECM) materials from animal and human sources have become important materials for soft tissue repair. Microparticles of ECM materials have increased surface area and exposed binding sites compared to sheet materials. Decellularized porcine peritoneum was mechanically dissociated into 200 µm microparticles, seeded with fibroblasts and cultured in a low gravity rotating bioreactor. The cells avidly attached and maintained excellent viability on the microparticles. When the seeded microparticles were placed in a collagen gel, the cells quickly migrated off the microparticles and through the gel. Cells from seeded microparticles migrated to and across an in vitro anastomosis model, increasing the tensile strength of the model. Cell seeded microparticles of ECM material have potential for paracrine and cellular delivery therapies when delivered in a gel carrier. © 2016 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 104A: 1728-1735, 2016. PMID:26946064
Calculation of impulse responses with a cellular automata algorithm
Barjau, Ana
2001-05-01
The air columns in musical instruments usually have a predominant dimension and thus are very often modeled as 1D systems where uniparametric waves propagate. Different algorithms can be found in the literature to simulate this propagation. The more widely used are finite difference schemes and delay lines. A finite difference scheme (FD) is a numerical integration of a differential formulation (the wave equation), while delay lines (DL) use analytical exact solutions of the wave equation over finite lengths. A new and different approach is that of a cellular automaton (CA) scheme. The underlying philosophy is opposite those of FD and DL, as the starting point is not the wave equation. In a CA approach, the phenomenon to be studied is reduced to a few simple physical laws that are applied to a set of cells representing the physical system (in the present case, the propagation medium). In this paper, a CA will be proposed to obtain the impulse response of different bore geometries. The results will be compared to those obtained with other algorithms.
A Multitarget Land Use Change Simulation Model Based on Cellular Automata and Its Application
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Jun Yang
2014-01-01
Full Text Available Based on the analysis of the existing land use change simulation model, combined with macroland use change driving factors and microlocal land use competition, and through the application of Python language integrated technical approaches such as CA, GIS, AHP, and Markov, a multitarget land use change simulation model based on cellular automata(CA is established. This model was applied to conduct scenario simulation of land use/cover change of the Jinzhou New District, based on 1:10000 map scale land use, planning, topography, statistics, and other data collected in the year of 1988, 2003, and 2012. The simulation results indicate the following: (1 this model can simulate the mutual transformation of multiple land use types in a relatively satisfactory way; it takes land use system as a whole and simultaneously takes the land use demand in the macrolevel and the land use suitability in the local scale into account; and (2 the simulation accuracy of the model reaches 72%, presenting higher creditability. The model is capable of providing auxiliary decision-making support for coastal regions with the analysis of the land use change driving mechanism, prediction of land use change tendencies, and establishment of land resource sustainable utilization policies.
Laspidou, Chrysi S; Rittmann, Bruce E
2004-01-01
We present the unified multi-component cellular automaton (UMCCA) model, which predicts quantitatively the development of the biofilm's composite density for three biofilm components: active bacteria, inert or dead biomass, and extracellular polymeric substances. The model also describes the concentrations of three soluble organic components (soluble substrate and two types of soluble microbial products) and oxygen. The UMCCA model is a hybrid discrete-differential mathematical model and introduces the novel feature of biofilm consolidation. Our hypothesis is that the fluid over the biofilm creates pressures and vibrations that cause the biofilm to consolidate, or pack itself to a higher density over time. Each biofilm compartment in the model output consolidates to a different degree that depends on the age of its biomass. The UMCCA model also adds a cellular automaton algorithm that identifies the path of least resistance and directly moves excess biomass along that path, thereby ensuring that the excess biomass is distributed efficiently. A companion paper illustrates the trends that the UMCCA model is able to represent and shows a comparison with experimental results. PMID:15276752
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Marko eUutela
2014-05-01
Full Text Available Fluoxetine is used as a therapeutic agent for autism spectrum disorder (ASD, including Fragile X syndrome (FXS. The treatment often associates with disruptive behaviors such as agitation and disinhibited behaviors in FXS. To identify mechanisms that increase the risk to poor treatment outcome, we investigated the behavioral and cellular effects of fluoxetine on adult Fmr1 knockout (KO mice, a mouse model for FXS. We found that fluoxetine reduced anxiety-like behavior of both wild type and Fmr1 KO mice seen as shortened latency to enter the center area in the open field test. In Fmr1 KO mice, fluoxetine normalized locomotor hyperactivity but abnormally increased exploratory activity. Reduced Brain-derived neurotrophic factor (BDNF and increased TrkB receptor expression levels in the hippocampus of Fmr1 KO mice associated with inappropriate coping responses under stressful condition and abolished antidepressant activity of fluoxetine. Fluoxetine response in the cell proliferation was also missing in the hippocampus of Fmr1 KO mice when compared with wild type controls. The postnatal expression of serotonin transporter was reduced in the thalamic nuclei of Fmr1 KO mice during the time of transient innervation of somatosensory neurons suggesting that developmental changes of serotonin transporter (SERT expression were involved in the differential cellular and behavioral responses to fluoxetine in wild type and Fmr1 mice. The results indicate that changes of BDNF/TrkB signaling contribute to differential behavioral responses to fluoxetine among individuals with ASD.
Developing an Abaqus *HYPERFOAM Model for M9747 (4003047) Cellular Silicone Foam
Energy Technology Data Exchange (ETDEWEB)
Siranosian, Antranik A. [Los Alamos National Laboratory; Stevens, R. Robert [Los Alamos National Laboratory
2012-04-26
This report documents work done to develop an Abaqus *HYPERFOAM hyperelastic model for M9747 (4003047) cellular silicone foam for use in quasi-static analyses at ambient temperature. Experimental data, from acceptance tests for 'Pad A' conducted at the Kansas City Plant (KCP), was used to calibrate the model. The data includes gap (relative displacement) and load measurements from three locations on the pad. Thirteen sets of data, from pads with different serial numbers, were provided. The thirty-nine gap-load curves were extracted from the thirteen supplied Excel spreadsheets and analyzed, and from those thirty-nine one set of data, representing a qualitative mean, was chosen to calibrate the model. The data was converted from gap and load to nominal (engineering) strain and nominal stress in order to implement it in Abaqus. Strain computations required initial pad thickness estimates. An Abaqus model of a right-circular cylinder was used to evaluate and calibrate the *HYPERFOAM model.
A multi-objective model for designing a group layout of a dynamic cellular manufacturing system
Kia, Reza; Shirazi, Hossein; Javadian, Nikbakhsh; Tavakkoli-Moghaddam, Reza
2013-04-01
This paper presents a multi-objective mixed-integer nonlinear programming model to design a group layout of a cellular manufacturing system in a dynamic environment, in which the number of cells to be formed is variable. Cell formation (CF) and group layout (GL) are concurrently made in a dynamic environment by the integrated model, which incorporates with an extensive coverage of important manufacturing features used in the design of CMSs. Additionally, there are some features that make the presented model different from the previous studies. These features include the following: (1) the variable number of cells, (2) the integrated CF and GL decisions in a dynamic environment by a multi-objective mathematical model, and (3) two conflicting objectives that minimize the total costs (i.e., costs of intra and inter-cell material handling, machine relocation, purchasing new machines, machine overhead, machine processing, and forming cells) and minimize the imbalance of workload among cells. Furthermore, the presented model considers some limitations, such as machine capability, machine capacity, part demands satisfaction, cell size, material flow conservation, and location assignment. Four numerical examples are solved by the GAMS software to illustrate the promising results obtained by the incorporated features.
Xu, Xiaoming; Du, Ziqiang; Zhang, Hong
2016-10-01
Land use and land cover change (LULCC) is a widely researched topic in related studies. A number of models have been established to simulate LULCC patterns. However, the integration of the system dynamic (SD) and the cellular automata (CA) model have been rarely employed in LULCC simulations, although it allows for combining the advantages of each approach and therefore improving the simulation accuracy. In this study, we integrated an SD model and a CA model to predict LULCC under three future development scenarios in Northern Shanxi province of China, a typical agro-pastoral transitional zone. The results indicated that our integrated approach represented the impacts of natural and socioeconomic factors on LULCC well, and could accurately simulate the magnitude and spatial pattern of LULCC. The modeling scenarios illustrated that different development pathways would lead to various LULCC patterns. This study demonstrated the advantages of the integration approach for simulating LULCC and suggests that LULCC is affected to a large degree by natural and socioeconomic factors.
Vassiliadis, D.; Anastasiadis, A.; Georgoulis, M.; Vlahos, L.
1998-12-01
Cellular automata (CA) models account for the power-law distributions found for solar flare hard X-ray observations, but their physics has been unclear. We examine four of these models and show that their criteria and magnetic field distribution rules can be derived by discretizing the MHD diffusion equation as obtained from a simplified Ohm's law. Identifying the discrete MHD with the CA models leads to an expression for the resistivity as a function of the current on the flux tube boundary, as may be expected from current-driven instabilities. Anisotropic CA models correspond to a nonlinear resistivity η(J), while isotropic ones are associated with hyperresistivity η(▽2J). The discrete equations satisfy the necessary conditions for self-organized criticality (Lu): there is local conservation of a field (magnetic flux), while the nonlinear resistivity provides a rapid dissipation and relaxation mechanism. The approach justifies many features of the CA models that were originally based on intuition.
An empirical Bayesian approach for model-based inference of cellular signaling networks
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Klinke David J
2009-11-01
Full Text Available Abstract Background A common challenge in systems biology is to infer mechanistic descriptions of biological process given limited observations of a biological system. Mathematical models are frequently used to represent a belief about the causal relationships among proteins within a signaling network. Bayesian methods provide an attractive framework for inferring the validity of those beliefs in the context of the available data. However, efficient sampling of high-dimensional parameter space and appropriate convergence criteria provide barriers for implementing an empirical Bayesian approach. The objective of this study was to apply an Adaptive Markov chain Monte Carlo technique to a typical study of cellular signaling pathways. Results As an illustrative example, a kinetic model for the early signaling events associated with the epidermal growth factor (EGF signaling network was calibrated against dynamic measurements observed in primary rat hepatocytes. A convergence criterion, based upon the Gelman-Rubin potential scale reduction factor, was applied to the model predictions. The posterior distributions of the parameters exhibited complicated structure, including significant covariance between specific parameters and a broad range of variance among the parameters. The model predictions, in contrast, were narrowly distributed and were used to identify areas of agreement among a collection of experimental studies. Conclusion In summary, an empirical Bayesian approach was developed for inferring the confidence that one can place in a particular model that describes signal transduction mechanisms and for inferring inconsistencies in experimental measurements.
Cellular automata in image processing and geometry
Adamatzky, Andrew; Sun, Xianfang
2014-01-01
The book presents findings, views and ideas on what exact problems of image processing, pattern recognition and generation can be efficiently solved by cellular automata architectures. This volume provides a convenient collection in this area, in which publications are otherwise widely scattered throughout the literature. The topics covered include image compression and resizing; skeletonization, erosion and dilation; convex hull computation, edge detection and segmentation; forgery detection and content based retrieval; and pattern generation. The book advances the theory of image processing, pattern recognition and generation as well as the design of efficient algorithms and hardware for parallel image processing and analysis. It is aimed at computer scientists, software programmers, electronic engineers, mathematicians and physicists, and at everyone who studies or develops cellular automaton algorithms and tools for image processing and analysis, or develops novel architectures and implementations of mass...
Fatigue design of a cellular phone folder using regression model-based multi-objective optimization
Kim, Young Gyun; Lee, Jongsoo
2016-08-01
In a folding cellular phone, the folding device is repeatedly opened and closed by the user, which eventually results in fatigue damage, particularly to the front of the folder. Hence, it is important to improve the safety and endurance of the folder while also reducing its weight. This article presents an optimal design for the folder front that maximizes its fatigue endurance while minimizing its thickness. Design data for analysis and optimization were obtained experimentally using a test jig. Multi-objective optimization was carried out using a nonlinear regression model. Three regression methods were employed: back-propagation neural networks, logistic regression and support vector machines. The AdaBoost ensemble technique was also used to improve the approximation. Two-objective Pareto-optimal solutions were identified using the non-dominated sorting genetic algorithm (NSGA-II). Finally, a numerically optimized solution was validated against experimental product data, in terms of both fatigue endurance and thickness index.
Oehlke, J; Birth, P; Klauschenz, E; Wiesner, B; Beyermann, M; Oksche, A; Bienert, M
2002-08-01
The uptake by mammalian cells of phosphorothioate oligonucleotides was compared with that of their respective complexes or conjugates with cationic, cell-penetrating model peptides of varying helix-forming propensity and amphipathicity. An HPLC-based protocol for the synthesis and purification of disulfide bridged conjugates in the 10-100 nmol range was developed. Confocal laser scanning microscopy (CLSM) in combination with gel-capillary electrophoresis and laser induced fluorescence detection (GCE-LIF) revealed cytoplasmic and nuclear accumulationin all cases. The uptake differences between naked oligonucleotides and their respective peptide complexes or conjugates were generally confined to one order of magnitude. No significant influence of the structural properties of the peptide components upon cellular uptake was found. Our results question the common belief that the increased biological activity of oligonucleotides after derivatization with membrane permeable peptides may be primarily due to improved membrane translocation.
Phase transition in the economically modeled growth of a cellular nervous system
Nicosia, Vincenzo; Schafer, William R; Latora, Vito; Bullmore, Edward T; 10.1073/pnas.1300753110
2013-01-01
Spatially-embedded complex networks, such as nervous systems, the Internet and transportation networks, generally have non-trivial topological patterns of connections combined with nearly minimal wiring costs. However the growth rules shaping these economical trade-offs between cost and topology are not well understood. Here we study the cellular nervous system of the nematode worm C. elegans, together with information on the birth times of neurons and on their spatial locations. We find that the growth of this network undergoes a transition from an accelerated to a constant increase in the number of links (synaptic connections) as a function of the number of nodes (neurons). The time of this phase transition coincides closely with the observed moment of hatching, when development switches metamorphically from oval to larval stages. We use graph analysis and generative modelling to show that the transition between different growth regimes, as well as its coincidence with the moment of hatching, can be explain...
Molecular modeling of the conformational dynamics of the cellular prion protein
Nguyen, Charles; Colling, Ian; Bartz, Jason; Soto, Patricia
2014-03-01
Prions are infectious agents responsible for transmissible spongiform encephalopathies (TSEs), a type of fatal neurodegenerative disease in mammals. Prions propagate biological information by conversion of the non-pathological version of the prion protein to the infectious conformation, PrPSc. A wealth of knowledge has shed light on the nature and mechanism of prion protein conversion. In spite of the significance of this problem, we are far from fully understanding the conformational dynamics of the cellular isoform. To remedy this situation we employ multiple biomolecular modeling techniques such as docking and molecular dynamics simulations to map the free energy landscape and determine what specific regions of the prion protein are most conductive to binding. The overall goal is to characterize the conformational dynamics of the cell form of the prion protein, PrPc, to gain insight into inhibition pathways against misfolding. NE EPSCoR FIRST Award to Patricia Soto.
A Discrete/continuous Coupled Approach for Modeling Impacts on Cellular Geostructures
Breugnot, A.; Lambert, S.; Villard, P.; Gotteland, P.
2016-05-01
This article presents a numerical model coupling the finite difference method and discrete element methods (FDM, DEM) for simulating the response of cellular geostructures to impacts. DEM is used in the vicinity of the impacted area while FDM is used far away. The continuity between the DEM and FDM domains is insured using the edge-to-edge method. The numerical parameters are calibrated based on compression and impact experiments conducted on elementary cells. Numerical simulations at the structure scale are compared with real-scale experimental data. The response of the structure is addressed varying the impact conditions. The projectile shape and the position of the impact point appear to be the most influential parameters.
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Tamaddon AM.
2007-05-01
Full Text Available Cationic liposomes are used for cellular delivery of antisense oligodeoxynucleotide (AsODN, where release of encapsulated AsODN is mainly controlled by endocytosis and fusion mechanisms. In this investigation, it was tried to model such a release process that is difficult to evaluate in cell culture. For this purpose, an AsODN model (against protein kinase C-α was encapsulated in a DODAP-containing cationic liposome and evaluated for size, zeta-potential, encapsulation and ODN stability. Vesicular models of outer layer and total plasma membranes and early and late endosomal membranes were developed, based on lipid content and pH, using ether injection method. ODN release was determined by the fluorescence dequenching of encapsulated FITC-ODN. Zeta potential, size and ODN encapsulation efficiency of the prepared liposomes were -2.49 ± 7.15 mV, 108.4 nm and 73% respectively. ODN protection was 3-4 times more than that of conventional liposome/ODN complexation method. There was a correlation between model concentration and percent of ODN release. At 7.5 µM, the percent of released ODN was 76% for the cholesterol-free model of the late endosome and 16% for the early endosomal membrane; while the release was less than 11% for the models of plasma membrane. ODN release increased with temperature in the range of 4-37◦C for the late endosomal model, but not for others, possibly due to their high cholesterol contents or acidic pH. The interaction was fast and completed within 5 minutes and didn’t change in the range of 5-60 minutes. Our data are in agreement with published cell culture studies and reveal that cell-liposomes interaction can be modeled by lamellar membranes.
Barrio-Parra, Fernando; Rodríguez-Santalla, Inmaculada
2016-08-01
Coastal dunes are sedimentary environments characterized by their high dynamism. Their evolution is determined by sedimentary exchanges between the beach-dune subsystems and the dune dynamics itself. Knowledge about these exchanges is important to prioritize management and conservation strategies of these environments. The aim of this work is the inclusion of the aeolian transport rates obtained using a calibrated cellular automaton to estimate the beach-dune sediment exchange rates in a real active dune field at El Fangar Spit (Ebro Delta, Spain). The dune dynamics model is able to estimate average aeolian sediment fluxes. These are used in combination with the observed net sediment budget to obtain a quantitative characterization of the sediment exchange interactions. The methods produce a substantial improvement in the understanding of coastal sedimentary systems that could have major implications in areas where the management and conservation of dune fields are of concern.
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Xin Zhao
Full Text Available Protocatechuic aldehyde (PAL has been reported to bind to DJ-1, a key protein involved in Parkinson's disease (PD, and exerts potential neuroprotective effects via DJ-1 in SH-SY5Y cells. In this study, we investigated the neuroprotective pharmacological effects of PAL against neurotoxin-induced cell and animal models of PD. In cellular models of PD, PAL markedly increased cell viability rates, mitochondrial oxidation-reduction activity and mitochondrial membrane potential, and reduced intracellular ROS levels to prevent neurotoxicity in PC12 cells. In animal models of PD, PAL reduced the apomorphine injection, caused turning in 6-OHDA treated rats, and increased the motor coordination and stride decreases in MPTP treated mice. Meanwhile, in an MPTP mouse model, PAL prevented a decrease of the contents of dopamine (DA and its metabolites in the striatum and TH-positive dopaminergic neuron loss in the substantia nigra (SN. In addition, PAL increased the protein expression of DJ-1 and reduced the level of α-synuclein in the SN of MPTP lesioned mice. PAL also increased the spine density in hippocampal CA1 neurons. The current study demonstrates that PAL can efficiently protect dopaminergic neurons against neurotoxin injury in vitro and in vivo, and that the potential mechanisms may be related to its effects in increasing DJ-1, decreasing α-synuclein and its growth-promoting effect on spine density.
An Integrated Model for Production Planning and Cell Formation in Cellular Manufacturing Systems
Directory of Open Access Journals (Sweden)
Reza Raminfar
2013-01-01
Full Text Available Cellular manufacturing (CM is a production approach directed towards reducing costs, as well as increasing system's flexibility in today's small-to-medium lot production environment. Many structural and operational issues should be considered for a successful CM design and implementation such as cell formation (CF, production planning, and facility layout. Most researchers have addressed these issues sequentially or independently, instead of jointly optimizing a combination of these issues. In order to attain better results to ensure that the system will be capable of remaining efficient in unknown future situations, these issues should be addressed simultaneously. In this paper, a mathematical model is developed using an integrated approach for production planning and cell formation problems in a CM. A set of numerical examples are provided from existing the literature in order to test and illustrate the proposed model. In order to evaluate and verify the performance of the proposed model, it is compared with a well-known cell formation methods (rank order clustering and direct clustering analysis, using group capability index (GCI measure. The results and comparisons indicate that the proposed model has a significantly higher and satisfactory performance and it is reliable for the design and the analysis of CM systems.
Scarella, Gilles; Clatz, Olivier; Lanteri, Stéphane; Beaume, Grégory; Oudot, Steve; Pons, Jean-Philippe; Piperno, Sergo; Joly, Patrick; Wiart, Joe
2006-06-01
The ever-rising diffusion of cellular phones has brought about an increased concern for the possible consequences of electromagnetic radiation on human health. Possible thermal effects have been investigated, via experimentation or simulation, by several research projects in the last decade. Concerning numerical modeling, the power absorption in a user's head is generally computed using discretized models built from clinical MRI data. The vast majority of such numerical studies have been conducted using Finite Differences Time Domain methods, although strong limitations of their accuracy are due to heterogeneity, poor definition of the detailed structures of head tissues (staircasing effects), etc. In order to propose numerical modeling using Finite Element or Discontinuous Galerkin Time Domain methods, reliable automated tools for the unstructured discretization of human heads are also needed. Results presented in this article aim at filling the gap between human head MRI images and the accurate numerical modeling of wave propagation in biological tissues and its thermal effects. To cite this article: G. Scarella et al., C. R. Physique 7 (2006).
Cellular replication limits in the Luria-Delbrück mutation model
Rodriguez-Brenes, Ignacio A.; Wodarz, Dominik; Komarova, Natalia L.
2016-08-01
Originally developed to elucidate the mechanisms of natural selection in bacteria, the Luria-Delbrück model assumed that cells are intrinsically capable of dividing an unlimited number of times. This assumption however, is not true for human somatic cells which undergo replicative senescence. Replicative senescence is thought to act as a mechanism to protect against cancer and the escape from it is a rate-limiting step in cancer progression. Here we introduce a Luria-Delbrück model that explicitly takes into account cellular replication limits in the wild type cell population and models the emergence of mutants that escape replicative senescence. We present results on the mean, variance, distribution, and asymptotic behavior of the mutant population in terms of three classical formulations of the problem. More broadly the paper introduces the concept of incorporating replicative limits as part of the Luria-Delbrück mutational framework. Guidelines to extend the theory to include other types of mutations and possible applications to the modeling of telomere crisis and fluctuation analysis are also discussed.
A mathematical model of cortical bone remodeling at cellular level under mechanical stimulus
Institute of Scientific and Technical Information of China (English)
Qing-Hua Qin; Ya-Nan Wang
2012-01-01
A bone cell population dynamics model for cortical bone remodeling under mechanical stimulus is developed in this paper.The external experiments extracted from the literature which have not been used in the creation of the model are used to test the validity of the model.Not only can the model compare reasonably well with these experimental results such as the increase percentage of final values of bone mineral content (BMC) and bone fracture energy (BFE) among different loading schemes (which proves the validity of the model),but also predict the realtime development pattern of BMC and BFE,as well as the dynamics of osteoblasts (OBA),osteoclasts (OCA),nitric oxide (NO) and prostaglandin E2 (PGE2) for each loading scheme,which can hardly be monitored through experiment.In conclusion,the model is the first of its kind that is able to provide an insight into the quantitative mechanism of bone remodeling at cellular level by which bone cells are activated by mechanical stimulus in order to start resorption/formation of bone mass.More importantly,this model has laid a solid foundation based on which future work such as systemic control theory analysis of bone remodeling under mechanical stimulus can be investigated.The to-be identified control mechanism will help to develop effective drugs and combined nonpharmacological therapies to combat bone loss pathologies.Also this deeper understanding of how mechanical forces quantitatively interact with skeletal tissue is essential for the generation of bone tissue for tissue replacement purposes in tissue engineering.
A reduced-complexity model for sediment transport and step-pool morphology
Saletti, Matteo; Molnar, Peter; Hassan, Marwan A.; Burlando, Paolo
2016-07-01
A new particle-based reduced-complexity model to simulate sediment transport and channel morphology in steep streams in presented. The model CAST (Cellular Automaton Sediment Transport) contains phenomenological parameterizations, deterministic or stochastic, of sediment supply, bed load transport, and particle entrainment and deposition in a cellular-automaton space with uniform grain size. The model reproduces a realistic bed morphology and typical fluctuations in transport rates observed in steep channels. Particle hop distances, from entrainment to deposition, are well fitted by exponential distributions, in agreement with field data. The effect of stochasticity in both the entrainment and the input rate is shown. A stochastic parameterization of the entrainment is essential to create and maintain a realistic channel morphology, while the intermittent transport of grains in CAST shreds the input signal and its stochastic variability. A jamming routine has been added to CAST to simulate the grain-grain and grain-bed interactions that lead to particle jamming and step formation in a step-pool stream. The results show that jamming is effective in generating steps in unsteady conditions. Steps are created during high-flow periods and they survive during low flows only in sediment-starved conditions, in agreement with the jammed-state hypothesis of Church and Zimmermann (2007). Reduced-complexity models like CAST give new insights into the dynamics of complex phenomena such as sediment transport and bedform stability and are a useful complement to fully physically based models to test research hypotheses.
Channel modeling for fifth generation cellular networks and wireless sensor networks
Torabi, Amir
In view of exponential growth in data traffic demand, the wireless communications industry has aimed to increase the capacity of existing networks by 1000 times over the next 20 years. A combination of extreme cell densification, more bandwidth, and higher spectral efficiency is needed to support the data traffic requirements for fifth generation (5G) cellular communications. In this research, the potential improvements achieved by using three major 5G enabling technologies (i.e., small cells, millimeter-wave spectrum, and massive MIMO) in rural and urban environments are investigated. This work develops SPM and KA-based ray models to investigate the impact of geometrical parameters on terrain-based multiuser MIMO channel characteristic. Moreover, a new directional 3D channel model is developed for urban millimeter-wave (mmW) small cells. Path-loss, spatial correlation, coverage distance, and coherence length are studied in urban areas. Exploiting physical optics (PO) and geometric optics (GO) solutions, closed form expressions are derived for spatial correlation. Achievable spatial diversity is evaluated using horizontal and vertical linear arrays as well as planar 2D arrays. In another study, a versatile near-ground field prediction model is proposed to facilitate accurate wireless sensor network (WSN) simulations. Monte Carlo simulations are used to investigate the effects of antenna height, frequency of operation, polarization, and terrain dielectric and roughness properties on WSNs performance.
Quasi-classical modeling of molecular quantum-dot cellular automata multidriver gates
Rahimi, Ehsan; Nejad, Shahram Mohammad
2012-05-01
Molecular quantum-dot cellular automata (mQCA) has received considerable attention in nanoscience. Unlike the current-based molecular switches, where the digital data is represented by the on/off states of the switches, in mQCA devices, binary information is encoded in charge configuration within molecular redox centers. The mQCA paradigm allows high device density and ultra-low power consumption. Digital mQCA gates are the building blocks of circuits in this paradigm. Design and analysis of these gates require quantum chemical calculations, which are demanding in computer time and memory. Therefore, developing simple models to probe mQCA gates is of paramount importance. We derive a semi-classical model to study the steady-state output polarization of mQCA multidriver gates, directly from the two-state approximation in electron transfer theory. The accuracy and validity of this model are analyzed using full quantum chemistry calculations. A complete set of logic gates, including inverters and minority voters, are implemented to provide an appropriate test bench in the two-dot mQCA regime. We also briefly discuss how the QCADesigner tool could find its application in simulation of mQCA devices.
Hung, Shih-Han; Su, Chin-Hui; Tseng, How
2016-08-01
It is important to have a standardized tympanic membrane (TM) perforation platform to evaluate the various myringoplasty materials that have been studied and developed extensively during recent years. However, currently there are no cellular models specifically designed for this purpose, and animal models remain unsatisfactory. The purpose of this study is to propose an inexpensive, readily available, well-controlled, and easy-to-create cellular model as a substitute for use in the evaluation of TM repairing materials. A trans-well model was created using a cell culture insert with a round hole created at the center of the polycarbonate membrane. HaCaT cells were cultured on the fenestrated culture insert, and the desired myringoplasty graft was placed at the center of the window for one week and observed by fluorescent microscopy under vital staining. Under this cellular model, there was notable migration of HaCaT cells onto the positive control graft (rabbit fascia), while only a few cell clusters were observed on the negative control graft (paper). Model validation showed that the cell migration ratio for the PLLA + 1% hyaluronic acid (HA) graft is significantly higher than using myringoplasty paper, poly L-lactide (PLLA), or PLLA + 0.5% HA (p < 0.05). This trans-well-based cellular model might be a useful pre-evaluation platform for the evaluation of TM repairing materials. The model is inexpensive, readily available, easy to create, and standardized for use. PMID:26335291
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Wilson Gómez Manrique
Full Text Available The present study aimed to describe and characterize the cellular components during the evolution of chronic granulomatous inflammation in the teleost fish pacus (P. mesopotamicus induced by Bacillus Calmette-Guerin (BCG, using S-100, iNOS and cytokeratin antibodies. 50 fish (120±5.0 g were anesthetized and 45 inoculated with 20 μL (40 mg/mL (2.0 x 10(6 CFU/mg and five inoculated with saline (0,65% into muscle tissue in the laterodorsal region. To evaluate the inflammatory process, nine fish inoculated with BCG and one control were sampled in five periods: 3rd, 7th, 14th, 21st and 33rd days post-inoculation (DPI. Immunohistochemical examination showed that the marking with anti-S-100 protein and anti-iNOS antibodies was weak, with a diffuse pattern, between the third and seventh DPI. From the 14th to the 33rd day, the marking became stronger and marked the cytoplasm of the macrophages. Positivity for cytokeratin was initially observed in the 14th DPI, and the stronger immunostaining in the 33rd day, period in which the epithelioid cells were more evident and the granuloma was fully formed. Also after the 14th day, a certain degree of cellular organization was observed, due to the arrangement of the macrophages around the inoculated material, with little evidence of edema. The arrangement of the macrophages around the inoculum, the fibroblasts, the lymphocytes and, in most cases, the presence of melanomacrophages formed the granuloma and kept the inoculum isolated in the 33rd DPI. The present study suggested that the granulomatous experimental model using teleost fish P. mesopotamicus presented a similar response to those observed in mammals, confirming its importance for studies of chronic inflammatory reaction.
Chen, Qingcai; Shi, Jianghong; Liu, Xiaowei; Wu, Wei; Liu, Bo; Zhang, Hui
2013-03-01
A cellular automata model (CA model) was used to simulate the soil column leaching process of estrogens during the processes of migration and transformation. The results of the simulated leaching experiment showed that the first-order degradation rates of 17α-ethynylestradiol (EE2), 17β-estradiol (E2) and estrone (E1) were 0.131 h- 1 for E2, 0.099 h- 1 for E1 and 0.064 h- 1 for EE2 in the EE2 and E2 leaching process, and the first-order sorption rates were 5.94 h- 1 for E2, 5.63 h- 1 for EE2, 3.125 h- 1 for E1. Their sorption rates were positively correlated with the n-octanol/water partition coefficients. When the diffusion rate was low, its impact on the simulation results was insignificant. The increase in sorption and degradation rates caused the decrease in the total estrogens that leached. In addition, increasing the sorption rate could delay the emerging time of the maximum concentration of estrogen that leached, whereas increasing the degradation rate could shorten the emerging time of the maximum concentration of estrogen that leached. The comparison made between the experimental data and the simulation results of the CA model and the HYDRUS-1D software showed that the establishment of one-component and multi-component CA models could simulate EE2 and E2 soil column leaching processes, and the CA models achieve an intuitive, dynamic, and visual simulation.
Load-aware modeling for uplink cellular networks in a multi-channel environment
Alammouri, Ahmad Mohammad Abdel-Karim
2014-09-01
We exploit tools from stochastic geometry to develop a tractable analytical approach for modeling uplink cellular networks. The developed model is load aware and accounts for per-user power control as well as the limited transmit power constraint for the users\\' equipment (UEs). The proposed analytical paradigm is based on a simple per-user power control scheme in which each user inverts his path-loss such that the signal is received at his serving base station (BS) with a certain power threshold ρ Due to the limited transmit power of the UEs, users that cannot invert their path-loss to their serving BSs are allowed to transmit with their maximum transmit power. We show that the proposed power control scheme not only provides a balanced cell center and cell edge user performance, it also facilitates the analysis when compared to the state-of-the-art approaches in the literature. To this end, we discuss how to manipulate the design variable ρ in response to the network parameters to optimize one or more of the performance metrics such as the outage probability, the network capacity, and the energy efficiency.
International Nuclear Information System (INIS)
Repeated injury to the stratum corneum of mammalian skin (caused by friction, soaps, or organic solvents) elicits hyperkeratosis and epidermal thickening. Functionally, these changes serve to restore the cutaneous barrier and protect the organism. To better understand the molecular and cellular basis of this response, we have engineered an in vitro model of acetone-induced injury using organotypic epidermal cultures. Rat epidermal keratinocytes (REKs), grown on a collagen raft in the absence of any feeder fibroblasts, developed all the hallmarks of a true epidermis including a well-formed cornified layer. To induce barrier injury, REK cultures were treated with intermittent 30-s exposures to acetone then were fixed and paraffin-sectioned. After two exposures, increased proliferation (Ki67 and BrdU staining) was observed in basal and suprabasal layers. After three exposures, proliferation became confined to localized buds in the basal layer and increased terminal differentiation was observed (compact hyperkeratosis of the stratum corneum, elevated levels of K10 and filaggrin, and heightened transglutaminase activity). Thus, barrier disruption causes epidermal hyperplasia and/or enhances differentiation, depending upon the extent and duration of injury. Given that no fibroblasts are present in the model, the ability to mount a hyperplastic response to barrier injury is an inherent property of keratinocytes
Cellular automata model for urban road traffic flow considering pedestrian crossing street
Zhao, Han-Tao; Yang, Shuo; Chen, Xiao-Xu
2016-11-01
In order to analyze the effect of pedestrians' crossing street on vehicle flows, we investigated traffic characteristics of vehicles and pedestrians. Based on that, rules of lane changing, acceleration, deceleration, randomization and update are modified. Then we established two urban two-lane cellular automata models of traffic flow, one of which is about sections with non-signalized crosswalk and the other is on uncontrolled sections with pedestrians crossing street at random. MATLAB is used for numerical simulation of the different traffic conditions; meanwhile space-time diagram and relational graphs of traffic flow parameters are generated and then comparatively analyzed. Simulation results indicate that when vehicle density is lower than around 25 vehs/(km lane), pedestrians have modest impact on traffic flow, whereas when vehicle density is higher than about 60 vehs/(km lane), traffic speed and volume will decrease significantly especially on sections with non-signal-controlled crosswalk. The results illustrate that the proposed models reconstruct the traffic flow's characteristic with the situation where there are pedestrians crossing and can provide some practical reference for urban traffic management.
A biofidelic 3D culture model to study the development of brain cellular systems
Ren, M.; Du, C.; Herrero Acero, E.; Tang-Schomer, M. D.; Özkucur, N.
2016-01-01
Little is known about how cells assemble as systems during corticogenesis to generate collective functions. We built a neurobiology platform that consists of fetal rat cerebral cortical cells grown within 3D silk scaffolds (SF). Ivermectin (Ivm), a glycine receptor (GLR) agonist, was used to modulate cell resting membrane potential (Vmem) according to methods described in a previous work that implicated Ivm in the arrangement and connectivity of cortical cell assemblies. The cells developed into distinct populations of neuroglial stem/progenitor cells, mature neurons or epithelial-mesenchymal cells. Importantly, the synchronized electrical activity in the newly developed cortical assemblies could be recorded as local field potential (LFP) measurements. This study therefore describes the first example of the development of a biologically relevant cortical plate assembly outside of the body. This model provides i) a preclinical basis for engineering cerebral cortex tissue autografts and ii) a biofidelic 3D culture model for investigating biologically relevant processes during the functional development of cerebral cortical cellular systems. PMID:27112667
Effects of Mechanical Properties on Tumor Invasion: Insights from a Cellular Model
Li, YZ
2014-08-01
Understanding the regulating mechanism of tumor invasion is of crucial importance for both fundamental cancer research and clinical applications. Previous in vivo experiments have shown that invasive cancer cells dissociate from the primary tumor and invade into the stroma, forming an irregular invasive morphology. Although cell movements involved in tumor invasion are ultimately driven by mechanical forces of cell-cell interactions and tumor-host interactions, how these mechanical properties affect tumor invasion is still poorly understood. In this study, we use a recently developed two-dimensional cellular model to study the effects of mechanical properties on tumor invasion. We study the effects of cell-cell adhesions as well as the degree of degradation and stiffness of extracellular matrix (ECM). Our simulation results show that cell-cell adhesion relationship must be satisfied for tumor invasion. Increased adhesion to ECM and decreased adhesion among tumor cells result in invasive tumor behaviors. When this invasive behavior occurs, ECM plays an important role for both tumor morphology and the shape of invasive cancer cells. Increased stiffness and stronger degree of degradation of ECM promote tumor invasion, generating more aggressive tumor invasive morphologies. It can also generate irregular shape of invasive cancer cells, protruding towards ECM. The capability of our model suggests it a useful tool to study tumor invasion and might be used to propose optimal treatment in clinical applications.
Ballarini, F.; Alloni, D.; Facoetti, A.; Mairani, A.; Nano, R.; Ottolenghi, A.
Astronauts in space are continuously exposed to low doses of ionizing radiation from Galactic Cosmic Rays During the last ten years the effects of low radiation doses have been widely re-discussed following a large number of observations on the so-called non targeted effects in particular bystander effects The latter consist of induction of cytogenetic damage in cells not directly traversed by radiation most likely as a response to molecular messengers released by directly irradiated cells Bystander effects which are observed both for lethal endpoints e g clonogenic inactivation and apoptosis and for non-lethal ones e g mutations and neoplastic transformation tend to show non-linear dose responses This might have significant consequences in terms of low-dose risk which is generally calculated on the basis of the Linear No Threshold hypothesis Although the mechanisms underlying bystander effects are still largely unknown it is now clear that two types of cellular communication i e via gap junctions and or release of molecular messengers into the extracellular environment play a fundamental role Theoretical models and simulation codes can be of help in elucidating such mechanisms In the present paper we will review different available modelling approaches including one that is being developed at the University of Pavia The focus will be on the different assumptions adopted by the various authors and on the implications of such assumptions in terms of non-targeted radiobiological damage and more generally low-dose
Simulating debris flows through a hexagonal cellular automata model: SCIDDICA S3–hex
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D. D’Ambrosio
2003-01-01
Full Text Available Cellular Automata (CA represent a formal frame for dynamical systems, which evolve on the base of local interactions. Some types of landslide, such as debris flows, match well this requirement. The latest hexagonal release (S3–hex of the deterministic model SCIDDICA, specifically developed for simulating debris flows, is described. For CA simulation purposes, landslides can be viewed as a dynamical system, subdivided into elementary parts, whose state evolves exclusively as a consequence of local interactions within a spatial and temporal discretum. Space is the world of the CA, here constituted by hexagonal cells. The attributes of each cell ("substates" describe physical characteristics. For computational reasons, the natural phenomenon is "decomposed" into a number of elementary processes, whose proper composition makes up the "transition function" of the CA. By simultaneously applying this function to all the cells, the evolution of the phenomenon can be simulated in terms of modifications of the substates. SCIDDICA S3–hex exhibits a great flexibility in modelling debris flows. With respect to the previous releases of the model, the mechanism of progressive erosion of the soil cover has been added to the transition function. Considered substates are: altitude; thickness and energy of landslide debris; depth of erodable soil cover; debris outflows. Considered elementary processes are: mobilisation triggering and effect (T1, debris outflows (I1, update of landslide debris thickness and energy (I2, and energy loss (T2. Simulations of real debris flows, occurred in Campania (Southern Italy in May 1998 (Sarno and December 1999 (San Martino V.C. and Cervinara, have been performed for model calibration purposes; some examples of analysis are briefly described. Possible applications of the method are: risk mapping, also based on a statistical approach; evaluating the effects of mitigation actions (e.g. stream deviations, topographic
Tree Automaton Based Algorithms for Sub-Typing and inDOM Relations in XQuery
Institute of Scientific and Technical Information of China (English)
XIE Rong-chuan; XIE Xuan-yang
2004-01-01
Proposed by W3C(World Wide Web Consortium),XQuery is a descriptive query language for XML structured data or documents.The specification of XQuery gives functional description of XQuery's typing system, but doestn't provide methods to judge the Sub-typing and inDOM relations in language compiling.In this paper, both of the two important relations:Sub-typing and inDOM, are described and analyzed.After some definitions of Tree Automaton, the judgment algorithms of these two relations are proposed.
Individual-based lattice model for spatial spread of epidemics
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Henryk Fuks
2001-01-01
Full Text Available We present a lattice gas cellular automaton (LGCA to study spatial and temporal dynamics of an epidemic of SIR (susceptible-infected-removed type. The automaton is fully discrete, i.e., space, time and number of individuals are discrete variables. The automaton can be applied to study spread of epidemics in both human and animal populations. We investigate effects of spatial inhomogeneities in initial distribution of infected and vaccinated populations on the dynamics of epidemic of SIR type. We discuss vaccination strategies which differ only in spatial distribution of vaccinated individuals. Also, we derive an approximate, mean-field type description of the automaton, and discuss differences between the mean-field dynamics and the results ofLGCA simulation.
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Sara Anjomani Virmouni
Full Text Available Friedreich ataxia (FRDA is an autosomal recessive neurodegenerative disorder, caused by a GAA repeat expansion mutation within intron 1 of the FXN gene. We have previously established and performed preliminary characterisation of several human FXN yeast artificial chromosome (YAC transgenic FRDA mouse models containing GAA repeat expansions, Y47R (9 GAA repeats, YG8R (90 and 190 GAA repeats and YG22R (190 GAA repeats.We now report extended cellular, molecular and functional characterisation of these FXN YAC transgenic mouse models. FXN transgene copy number analysis of the FRDA mice demonstrated that the YG22R and Y47R lines each have a single copy of the FXN transgene while the YG8R line has two copies. Single integration sites of all transgenes were confirmed by fluorescence in situ hybridisation (FISH analysis of metaphase and interphase chromosomes. We identified significant functional deficits, together with a degree of glucose intolerance and insulin hypersensitivity, in YG8R and YG22R FRDA mice compared to Y47R and wild-type control mice. We also confirmed increased somatic GAA repeat instability in the cerebellum and brain of YG22R and YG8R mice, together with significantly reduced levels of FXN mRNA and protein in the brain and liver of YG8R and YG22R compared to Y47R.Together these studies provide a detailed characterisation of our GAA repeat expansion-based YAC transgenic FRDA mouse models that will help investigations of FRDA disease mechanisms and therapy.
Institute of Scientific and Technical Information of China (English)
Zheng Zhi-Zhen; Wang Ai-Ling
2009-01-01
Spatially explicit models have become widely used in today's mathematical ecology and epidemiology to study the persistence of populations. For simplicity, population dynamics is often analysed by using ordinary differential equations (ODEs) or partial differential equations (PDEs) in the one-dimensional (1D) space. An important question is to predict species extinction or persistence rate by mean of computer simulation based on the spatial model. Recently, it has been reported that stable turbulent and regular waves are persistent based on the spatial susceptible-infected-resistant-susceptible (SIRS) model by using the cellular automata (CA) method in the two-dimensional (2D) space [Proc. Natl. Acad. Sci. USA 101, 18246 (2004)]. In this paper, we address other important issues relevant to phase transitions of epidemic persistence. We are interested in assessing the significance of the risk of extinction in 1D space. Our results show that the 2D space can considerably increase the possibility of persistence of spread of epidemics when the degree distribution of the individuals is uniform, I.e. The pattern of 2D spatial persistence corresponding to extinction in a 1D system with the same parameters. The trade-offs of extinction and persistence between the infection period and infection rate are observed in the 1D case. Moreover, near the trade-off (phase transition) line, an independent estimation of the dynamic exponent can be performed, and it is in excellent agreement with the result obtained by using the conjectured relationship of directed percolation. We find that the introduction of a short-range diffusion and a long-range diffusion among the neighbourhoods can enhance the persistence and global disease spread in the space.
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Claude Gérard
2012-05-01
Full Text Available The cell division cycle and the circadian clock represent two major cellular rhythms. These two periodic processes are coupled in multiple ways, given that several molecular components of the cell cycle network are controlled in a circadian manner. For example, in the network of cyclin-dependent kinases (Cdks that governs progression along the successive phases of the cell cycle, the synthesis of the kinase Wee1, which inhibits the G2/M transition, is enhanced by the complex CLOCK-BMAL1 that plays a central role in the circadian clock network. Another component of the latter network, REV-ERBα, inhibits the synthesis of the Cdk inhibitor p21. Moreover, the synthesis of the oncogene c-Myc, which promotes G1 cyclin synthesis, is repressed by CLOCK-BMAL1. Using detailed computational models for the two networks we investigate the conditions in which the mammalian cell cycle can be entrained by the circadian clock. We show that the cell cycle can be brought to oscillate at a period of 24 h or 48 h when its autonomous period prior to coupling is in an appropriate range. The model indicates that the combination of multiple modes of coupling does not necessarily facilitate entrainment of the cell cycle by the circadian clock. Entrainment can also occur as a result of circadian variations in the level of a growth factor controlling entry into G1. Outside the range of entrainment, the coupling to the circadian clock may lead to disconnected oscillations in the cell cycle and the circadian system, or to complex oscillatory dynamics of the cell cycle in the form of endoreplication, complex periodic oscillations or chaos. The model predicts that the transition from entrainment to 24 h or 48 h might occur when the strength of coupling to the circadian clock or the level of growth factor decrease below critical values.
Stochastic discrete model of karstic networks
Jaquet, O.; Siegel, P.; Klubertanz, G.; Benabderrhamane, H.
Karst aquifers are characterised by an extreme spatial heterogeneity that strongly influences their hydraulic behaviour and the transport of pollutants. These aquifers are particularly vulnerable to contamination because of their highly permeable networks of conduits. A stochastic model is proposed for the simulation of the geometry of karstic networks at a regional scale. The model integrates the relevant physical processes governing the formation of karstic networks. The discrete simulation of karstic networks is performed with a modified lattice-gas cellular automaton for a representative description of the karstic aquifer geometry. Consequently, more reliable modelling results can be obtained for the management and the protection of karst aquifers. The stochastic model was applied jointly with groundwater modelling techniques to a regional karst aquifer in France for the purpose of resolving surface pollution issues.
Askland, Kathleen
2006-08-01
Current epidemiologic and genetic evidence strongly supports the heritability of bipolar disease. Inconsistencies across linkage and association analyses have been primarily interpreted as suggesting polygenic, nonMendelian and variably-penetrant inheritance (i.e., in terms of interacting disease models). An equally-likely explanation for this genetic complexity is that trait, locus and allelic heterogeneities (i.e., a heterogeneous disease model) are primarily responsible for observed variability at the population level. The two models of genetic complexity are not mutually-exclusive, and are in fact likely to co-exist both in trait determination and disease expression. However, the current model proposes that, while both types of complex genetics are likely central to observable affective trait spectra, inheritance patterns, gross phenotypic categories and treatment-responsiveness in affective disease (as well as the widespread inconsistencies across such studies) may be primarily explained in terms of a heterogeneous disease model. Gene-gene, gene-protein and protein-protein interactions, then, are most likely to serve as trait determinants and 'phenotypic modifiers' rather than as primary pathogenic determinants. Moreover, while locus heterogeneity indicates the presence of multiple susceptibility genes at the population level, it does not necessitate polygenic inheritance at the individual or pedigree level. Rather, it is compatible with the possibility of mono- or bigenic determination of disease susceptibility within individuals/pedigrees. More specifically, the biaxial model proposes that integration of specific findings from genetic linkage and association studies, ion channels research as well as pharmacologic mechanism, phenotypic specificity and effectiveness studies suggests that each gene of potential etiologic significance in primary affective illness might be categorized into one of two classes, according to their primary role in neuronal
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Alejandro Martínez-Herrera
2015-09-01
Full Text Available Dystrophin Dp40 is the shortest protein encoded by the DMD (Duchenne muscular dystrophy gene. This protein is unique since it lacks the C-terminal end of dystrophins. In this data article, we describe the subcellular localization, nuclear export signals and the three-dimensional structure modeling of putative Dp40 proteins using bioinformatics tools. The Dp40 wild type protein was predicted as a cytoplasmic protein while the Dp40n4 was predicted to be nuclear. Changes L93P and L170P are involved in the nuclear localization of Dp40n4 protein. A close analysis of Dp40 protein scored that amino acids 93LEQEHNNLV101 and 168LLLHDSIQI176 could function as NES sequences and the scores are lost in Dp40n4. In addition, the changes L93/170P modify the tertiary structure of putative Dp40 mutants. The analysis showed that changes of residues 93 and 170 from leucine to proline allow the nuclear localization of Dp40 proteins. The data described here are related to the research article entitled “EF-hand domains are involved in the differential cellular distribution of dystrophin Dp40” (J. Aragón et al. Neurosci. Lett. 600 (2015 115–120 [1].
The Toxic Effects of Pathogenic Ataxin-3 Variants in a Yeast Cellular Model
Bonanomi, Marcella; Visentin, Cristina; Invernizzi, Gaetano; Tortora, Paolo; Regonesi, Maria Elena
2015-01-01
Ataxin-3 (AT3) is a deubiquitinating enzyme that triggers an inherited neurodegenerative disorder, spinocerebellar ataxia type 3, when its polyglutamine (polyQ) stretch close to the C-terminus exceeds a critical length. AT3 variants carrying the expanded polyQ are prone to associate with each other into amyloid toxic aggregates, which are responsible for neuronal death with ensuing neurodegeneration. We employed Saccharomyces cerevisiae as a eukaryotic cellular model to better clarify the mechanism by which AT3 triggers the disease. We expressed three variants: one normal (Q26), one expanded (Q85) and one truncated for a region lying from the beginning of its polyQ stretch to the end of the protein (291Δ). We found that the expression of the expanded form caused reduction in viability, accumulation of reactive oxygen species, imbalance of the antioxidant defense system and loss in cell membrane integrity, leading to necrotic death. The truncated variant also exerted a qualitatively similar, albeit milder, effect on cell growth and cytotoxicity, which points to the involvement of also non-polyQ regions in cytotoxicity. Guanidine hydrochloride, a well-known inhibitor of the chaperone Hsp104, almost completely restored wild-type survival rate of both 291Δ- and Q85-expressing strains. This suggests that AT3 aggregation and toxicity is mediated by prion forms of yeast proteins, as this chaperone plays a key role in their propagation. PMID:26052945
The Toxic Effects of Pathogenic Ataxin-3 Variants in a Yeast Cellular Model.
Directory of Open Access Journals (Sweden)
Marcella Bonanomi
Full Text Available Ataxin-3 (AT3 is a deubiquitinating enzyme that triggers an inherited neurodegenerative disorder, spinocerebellar ataxia type 3, when its polyglutamine (polyQ stretch close to the C-terminus exceeds a critical length. AT3 variants carrying the expanded polyQ are prone to associate with each other into amyloid toxic aggregates, which are responsible for neuronal death with ensuing neurodegeneration. We employed Saccharomyces cerevisiae as a eukaryotic cellular model to better clarify the mechanism by which AT3 triggers the disease. We expressed three variants: one normal (Q26, one expanded (Q85 and one truncated for a region lying from the beginning of its polyQ stretch to the end of the protein (291Δ. We found that the expression of the expanded form caused reduction in viability, accumulation of reactive oxygen species, imbalance of the antioxidant defense system and loss in cell membrane integrity, leading to necrotic death. The truncated variant also exerted a qualitatively similar, albeit milder, effect on cell growth and cytotoxicity, which points to the involvement of also non-polyQ regions in cytotoxicity. Guanidine hydrochloride, a well-known inhibitor of the chaperone Hsp104, almost completely restored wild-type survival rate of both 291Δ- and Q85-expressing strains. This suggests that AT3 aggregation and toxicity is mediated by prion forms of yeast proteins, as this chaperone plays a key role in their propagation.
Directed Ligand Passage Over the Surface of Diffusion-Controlled Enzymes: A Cellular Automata Model
Ghaemi, M; Sarbolouki, M N; Ghaemi, Mehrdad; Rezaei-Ghaleh, Nasrollah; Sarbolouki, Mohammad-Nabi
2004-01-01
The rate-limiting step of some enzymatic reactions is a physical step, i.e. diffusion. The efficiency of such reactions can be improved through an increase in the arrival rate of the substrate molecules, e.g. by a directed passage of substrate (ligand) to active site after its random encounter with the enzyme surface. Herein, we introduce a cellular automata model simulating the ligand passage over the protein surface to its destined active site. The system is simulated using the lattice gas automata with probabilistic transition rules. Different distributions of amino acids over the protein surface are examined. For each distribution, the hydration pattern is achieved and the mean number of iteration steps needed for the ligand to arrive at the active site calculated. Comparison of results indicates that the rate at which ligand arrives at the active site is clearly affected by the distribution of amino acids outside the active side. Such a process can facilitate the ligand diffusion towards the active site ...
Modeling and Simulation of Polarization in Internet Group Opinions Based on Cellular Automata
Directory of Open Access Journals (Sweden)
Yaofeng Zhang
2015-01-01
Full Text Available Hot events on Internet always attract many people who usually form one or several opinion camps through discussion. For the problem of polarization in Internet group opinions, we propose a new model based on Cellular Automata by considering neighbors, opinion leaders, and external influences. Simulation results show the following: (1 It is easy to form the polarization for both continuous opinions and discrete opinions when we only consider neighbors influence, and continuous opinions are more effective in speeding the polarization of group. (2 Coevolution mechanism takes more time to make the system stable, and the global coupling mechanism leads the system to consensus. (3 Opinion leaders play an important role in the development of consensus in Internet group opinions. However, both taking the opinion leaders as zealots and taking some randomly selected individuals as zealots are not conductive to the consensus. (4 Double opinion leaders with consistent opinions will accelerate the formation of group consensus, but the opposite opinions will lead to group polarization. (5 Only small external influences can change the evolutionary direction of Internet group opinions.
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M.A. Al-Griw
2016-09-01
Full Text Available Exposures to a wide variety of environmental substances are negatively associated with many biological cell systems both in humans and rodents. Trichloroethane (TCE, a ubiquitous environmental toxicant, is used in large quantities as a dissolvent, metal degreaser, chemical intermediate, and component of consumer products. This increases the likelihood of human exposure to these compounds through dermal, inhalation and oral routes. The present in vivo study was aimed to investigate the possible cellular and molecular etiology of liver abnormality induced by early exposure to TCE using a murine model. The results showed a significant increase in liver weight. Histopathological examination revealed a TCE-induced hepatotoxicity which appeared as heavily congested central vein and blood sinusoids as well as leukocytic infiltration. Mitotic figures and apoptotic changes such as chromatin condensation and nuclear fragments were also identified. Cell death analysis demonstrates hepatocellular apoptosis was evident in the treated mice compared to control. TCE was also found to induce oxidative stress as indicated by an increase in the levels of lipid peroxidation, an oxidative stress marker. There was also a significant decrease in the DNA content of the hepatocytes of the treated groups compared to control. Agarose gel electrophoresis also provided further biochemical evidence of apoptosis by showing internucleosomal DNA fragmentation in the liver cells, indicating oxidative stress as the cause of DNA damage. These results suggest the need for a complete risk assessment of any new chemical prior to its arrival into the consumer market.
Model of Handover and Traffic Based on Cellular Geometry with Smart Antenna
Directory of Open Access Journals (Sweden)
Zufan Zhang
2014-01-01
Full Text Available Based on the application of smart antennas in cellular mobile communications, this paper introduces the impact of the width of the antenna beams playing on the dwell time probability density function in cellular geometry with smart antenna. The research results indicate that the smart cell structure can improve the dwell time of users within the cell and improve the traffic system performance.
Directory of Open Access Journals (Sweden)
Nathalie Boone
Full Text Available BACKGROUND: Familial dysautonomia (FD is a hereditary neuropathy caused by mutations in the IKBKAP gene, the most common of which results in variable tissue-specific mRNA splicing with skipping of exon 20. Defective splicing is especially severe in nervous tissue, leading to incomplete development and progressive degeneration of sensory and autonomic neurons. The specificity of neuron loss in FD is poorly understood due to the lack of an appropriate model system. To better understand and modelize the molecular mechanisms of IKBKAP mRNA splicing, we collected human olfactory ecto-mesenchymal stem cells (hOE-MSC from FD patients. hOE-MSCs have a pluripotent ability to differentiate into various cell lineages, including neurons and glial cells. METHODOLOGY/PRINCIPAL FINDINGS: We confirmed IKBKAP mRNA alternative splicing in FD hOE-MSCs and identified 2 novel spliced isoforms also present in control cells. We observed a significant lower expression of both IKBKAP transcript and IKAP/hELP1 protein in FD cells resulting from the degradation of the transcript isoform skipping exon 20. We localized IKAP/hELP1 in different cell compartments, including the nucleus, which supports multiple roles for that protein. We also investigated cellular pathways altered in FD, at the genome-wide level, and confirmed that cell migration and cytoskeleton reorganization were among the processes altered in FD. Indeed, FD hOE-MSCs exhibit impaired migration compared to control cells. Moreover, we showed that kinetin improved exon 20 inclusion and restores a normal level of IKAP/hELP1 in FD hOE-MSCs. Furthermore, we were able to modify the IKBKAP splicing ratio in FD hOE-MSCs, increasing or reducing the WT (exon 20 inclusion:MU (exon 20 skipping ratio respectively, either by producing free-floating spheres, or by inducing cells into neural differentiation. CONCLUSIONS/SIGNIFICANCE: hOE-MSCs isolated from FD patients represent a new approach for modeling FD to better
Material modeling of biofilm mechanical properties.
Laspidou, C S; Spyrou, L A; Aravas, N; Rittmann, B E
2014-05-01
A biofilm material model and a procedure for numerical integration are developed in this article. They enable calculation of a composite Young's modulus that varies in the biofilm and evolves with deformation. The biofilm-material model makes it possible to introduce a modeling example, produced by the Unified Multi-Component Cellular Automaton model, into the general-purpose finite-element code ABAQUS. Compressive, tensile, and shear loads are imposed, and the way the biofilm mechanical properties evolve is assessed. Results show that the local values of Young's modulus increase under compressive loading, since compression results in the voids "closing," thus making the material stiffer. For the opposite reason, biofilm stiffness decreases when tensile loads are imposed. Furthermore, the biofilm is more compliant in shear than in compression or tension due to the how the elastic shear modulus relates to Young's modulus. PMID:24560820
Franz, Michael G.; Payne, Wyatt G.; Xing, Liyu; Naidu, D. K; Salas, R. E; Marshall, Vivienne S.; Trumpower, C. J; Smith, Charlotte A; Steed, David L.; Robson, M. C.
2008-01-01
Objective: Growth factors demonstrate mixed results improving wound healing. Amnion-derived multipotent cells release physiologic levels of growth factors and tissue inhibitors of metalloproteinases. This solution was tested in models of acute and chronic wound healing. Methods: Acute model: Sprague-Dawley rats underwent laparotomy incisions. The midline fascia was primed with phosphate-buffered saline, unconditioned media, or amnion-derived cellular cytokine suspension prior to incision. Bre...
McSharry Patrick E
2007-01-01
Abstract "System Modeling in Cellular Biology: From Concepts to Nuts and Bolts" by Szallasi, Stelling and Periwal introduces the relevant concepts, terminology, and techniques of this field of science. It emphasises the modelling and computational challenges of taking a multidisciplinary approach to biology. This book provides a comprehensive introduction to systems biology and will form a valuable resource for students, teachers and researchers from both experimental and theoretical discipli...
Elsawy, Hesham
2014-08-01
Using stochastic geometry, we develop a tractable uplink modeling paradigm for outage probability and spectral efficiency in both single and multi-tier cellular wireless networks. The analysis accounts for per user equipment (UE) power control as well as the maximum power limitations for UEs. More specifically, for interference mitigation and robust uplink communication, each UE is required to control its transmit power such that the average received signal power at its serving base station (BS) is equal to a certain threshold ρo. Due to the limited transmit power, the UEs employ a truncated channel inversion power control policy with a cutoff threshold of ρo. We show that there exists a transfer point in the uplink system performance that depends on the following tuple: BS intensity λ, maximum transmit power of UEs Pu, and ρo. That is, when Pu is a tight operational constraint with respect to (w.r.t.) λ and ρo, the uplink outage probability and spectral efficiency highly depend on the values of λ and ρo. In this case, there exists an optimal cutoff threshold ρ*o, which depends on the system parameters, that minimizes the outage probability. On the other hand, when Pu is not a binding operational constraint w.r.t. λ and ρo, the uplink outage probability and spectral efficiency become independent of λ and ρo. We obtain approximate yet accurate simple expressions for outage probability and spectral efficiency, which reduce to closed forms in some special cases. © 2002-2012 IEEE.
A conceptual mathematical model of the dynamic self-organisation of distinct cellular organelles.
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Bernd Binder
Full Text Available Formation, degradation and renewal of cellular organelles is a dynamic process based on permanent budding, fusion and inter-organelle traffic of vesicles. These processes include many regulatory proteins such as SNAREs, Rabs and coats. Given this complex machinery, a controversially debated issue is the definition of a minimal set of generic mechanisms necessary to enable the self-organization of organelles differing in number, size and chemical composition. We present a conceptual mathematical model of dynamic organelle formation based on interacting vesicles which carry different types of fusogenic proteins (FP playing the role of characteristic marker proteins. Our simulations (ODEs show that a de novo formation of non-identical organelles, each accumulating a different type of FP, requires a certain degree of disproportionation of FPs during budding. More importantly however, the fusion kinetics must indispensably exhibit positive cooperativity among these FPs, particularly for the formation of larger organelles. We compared different types of cooperativity: sequential alignment of corresponding FPs on opposite vesicle/organelles during fusion and pre-formation of FP-aggregates (equivalent, e.g., to SNARE clusters prior to fusion described by Hill kinetics. This showed that the average organelle size in the system is much more sensitive to the disproportionation strength of FPs during budding if the vesicular transport system gets along with a fusion mechanism based on sequential alignments of FPs. Therefore, pre-formation of FP aggregates within the membranes prior to fusion introduce robustness with respect to organelle size. Our findings provide a plausible explanation for the evolution of a relatively large number of molecules to confer specificity on the fusion machinery compared to the relatively small number involved in the budding process. Moreover, we could speculate that a specific cooperativity which may be described by Hill
A computational model of cellular mechanisms of temporal coding in the medial geniculate body (MGB.
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Cal F Rabang
Full Text Available Acoustic stimuli are often represented in the early auditory pathway as patterns of neural activity synchronized to time-varying features. This phase-locking predominates until the level of the medial geniculate body (MGB, where previous studies have identified two main, largely segregated response types: Stimulus-synchronized responses faithfully preserve the temporal coding from its afferent inputs, and Non-synchronized responses, which are not phase locked to the inputs, represent changes in temporal modulation by a rate code. The cellular mechanisms underlying this transformation from phase-locked to rate code are not well understood. We use a computational model of a MGB thalamocortical neuron to test the hypothesis that these response classes arise from inferior colliculus (IC excitatory afferents with divergent properties similar to those observed in brain slice studies. Large-conductance inputs exhibiting synaptic depression preserved input synchrony as short as 12.5 ms interclick intervals, while maintaining low firing rates and low-pass filtering responses. By contrast, small-conductance inputs with Mixed plasticity (depression of AMPA-receptor component and facilitation of NMDA-receptor component desynchronized afferent inputs, generated a click-rate dependent increase in firing rate, and high-pass filtered the inputs. Synaptic inputs with facilitation often permitted band-pass synchrony along with band-pass rate tuning. These responses could be tuned by changes in membrane potential, strength of the NMDA component, and characteristics of synaptic plasticity. These results demonstrate how the same synchronized input spike trains from the inferior colliculus can be transformed into different representations of temporal modulation by divergent synaptic properties.
Effect of preoperative immunonutrition and other nutrition models on cellular immune parameters
Institute of Scientific and Technical Information of China (English)
Yusuf Gunerhan; Neset Koksal; Umit Yasar Sahin; Mehmet Ali Uzun; Emel Ek(s)ioglu-Demiralp
2009-01-01
AIM: To evaluate the effects of preoperative immunonutrition and other nutrition models on the cellular immunity parameters of patients with gastrointestinal tumors before surgical intervention. In addition, effects on postoperative complications were examined.METHODS: Patients with gastrointestinal tumors were randomized into 3 groups. The immunonutrition group received a combination of arginine, fatty acids and nucleotides. The second and third group received normal nutrition and standard enteral nutrition,respectively. Nutrition protocols were administered for 7 d prior to the operation. Nutritional parameters,in particular prealbumin levels and lymphocyte subpopulations (CD4+, CD8+, CD16+/56+, and CD69 cells) were evaluated before and after the nutrition protocols. Groups were compared in terms of postoperative complications and duration of hospital stay.RESULTS: Of the 42 patients who completed the study, 16 received immunonutrition, 13 received normal nutrition and 13 received standard enteral nutrition.prealbumin values were low in every group, but this parameter was improved after the nutritional protocol only in the immunonutrition group (13.64 ± 8.83vs 15.98 ± 8.66, P = 0.037). Groups were similar in terms of CD4+, CD16+/56, and CD69+ prior to the nutritional protocol; whereas CD8+ was higher in the standard nutrition group compared to the immunonutrition group. After nutritional protocols,none of the groups had an increase in their lymphocyte subpopulations. Also, groups did not differ in terms of postoperative complications and postoperative durations of hospital stay.CONCLUSION: Preoperative immunonutrition provided a significant increase in prealbumin levels,while it did not significantly alter T lymphocyte subpopulation counts, the rate of postoperative complications and the duration of hospital stay.
Modelling Cow Behaviour Using Stochastic Automata
Jónsson, Ragnar Ingi
2010-01-01
This report covers an initial study on the modelling of cow behaviour using stochastic automata with the aim of detecting lameness. Lameness in cows is a serious problem that needs to be dealt with because it results in less profitable production units and in reduced quality of life for the affected livestock. By featuring training data consisting of measurements of cow activity, three different models are obtained, namely an autonomous stochastic automaton, a stochastic automaton with coinci...
A vaccination strategy to SEIR-CA model
Almuzakki, Muhammad Zaki; Nuraini, Nuning
2016-04-01
A combination between Susceptible-Exposed-Infected-Removed (SEIR) model and Cellular Automaton (CA) called SEIR-CA model has been proposed to simulate spreading diseases through populations. We make an improvement to the parameter which describe the impact of neighborhood in CA system. We also propose a vaccination strategy to the model. Three examples are given to illustrate the model. The first one shows that the previously established SEIR-CA model does not work properly in a population with randomly distributed individuals. After an improvement to the neighborhood impact parameter has been made, the model works properly in a population with randomly distributed individuals and it is shown in the second example. The last example shows the spreading mechanisms with a chosen vaccination strategy. We also show that the vaccination strategy can reduce the number of infected individuals and can suppress the spread of the diseases.
DEFF Research Database (Denmark)
Qing, Hai; Mishnaevsky, Leon
2009-01-01
is presented as a 3D hexagon-shape-tube with multilayered walls. The layers in the softwood cell are considered as considered as composite reinforced by microfibrils (celluloses). The elastic properties of the layers are determined with Halpin–Tsai equations, and introduced into mesoscale finite element......A 3D hierarchical computational model of deformation and stiffness of wood, which takes into account the structures of wood at several scale levels (cellularity, multilayered nature of cell walls, composite-like structures of the wall layers) is developed. At the mesoscale, the softwood cell...... cellular model. With the use of the developed hierarchical model, the influence of the microstructure, including microfibril angles (MFAs, which characterizes the orientation of the cellulose fibrils with respect to the cell axis), the thickness of the cell wall, the shape of the cell cross...
Visualization of Patterns and Self-organization of Cellular Automata in Urban Traffic Situations
Zhou, Lei; Brian, Schwartz
2001-06-01
The use of cellular automaton (CA) techniques is very good at modeling complex or nonlinear systems. In dynamic system within the context of discrete mathematical steps for CA simulations, simple local rules produce complex global rules. The simplicity of CA rules enables us to model and investigate more realistic models for the behavior traffic in two-dimensional flow systems. Our numerical solution presents self-organization behavior, which is called grid-lock for urban city street traffic and a phase transitions in the fundamental flow rate vs. density diagrams. We present calculations, which demonstrate the effects of micro CA rules and traffic parameters on the macro properties of traffic flow and behavior. We modified the stochastic parameter p, which is constant in the original CA rules, to a variable depending on the state of the vehicles. This structure of path dependence on history for traffic properties is in many cases analogous to solutions obtained for interactive magnetic systems. Using 3D ray tracer software, we are able to render the visualization of patterns of grid-lock into a 3D virtual urban environment.
Hui Guo; Dongmei Liu; Bin Gao; Xiaohui Zhang; Minli You; Hui Ren; Hongbo Zhang; Santos, Hélder A.; Feng Xu
2016-01-01
Evodiamine (EVO) and rutaecarpine (RUT) are promising anti-tumor drug candidates. The evaluation of the anti-proliferative activity and cellular uptake of EVO and RUT in 3D multicellular spheroids of cancer cells would better recapitulate the native situation and thus better reflect an in vivo response to the treatment. Herein, we employed the 3D culture of MCF-7 and SMMC-7721 cells based on hanging drop method and evaluated the anti-proliferative activity and cellular uptake of EVO and RUT i...
DEFF Research Database (Denmark)
Mahshid, Rasoul; Hansen, Hans Nørgaard; Loft Højbjerre, Klaus
2016-01-01
in injection molding tools and lattice structures. This research examines the effect of cellular lattice structures on the strength of workpieces additively manufactured from ultra high-strength steel powder. Two commercial SLM machines are used to fabricate cellular samples based on four architectures— solid......Additive manufacturing is rapidly developing and gaining popularity for direct metal fabrication systems like selective laser melting (SLM). The technology has shown significant improvement for high-quality fabrication of lightweight design-efficient structures such as conformal cooling channels...
Quantum dot spin cellular automata for realizing a quantum processor
International Nuclear Information System (INIS)
We show how single quantum dots, each hosting a singlet–triplet qubit, can be placed in arrays to build a spin quantum cellular automaton. A fast (∼10 ns) deterministic coherent singlet–triplet filtering, as opposed to current incoherent tunneling/slow-adiabatic based quantum gates (operation time ∼300 ns), can be employed to produce a two-qubit gate through capacitive (electrostatic) couplings that can operate over significant distances. This is the coherent version of the widely discussed charge and nano-magnet cellular automata, and would increase speed, reduce dissipation, and perform quantum computation while interfacing smoothly with its classical counterpart. This combines the best of two worlds—the coherence of spin pairs known from quantum technologies, and the strength and range of electrostatic couplings from the charge-based classical cellular automata. Significantly our system has zero electric dipole moment during the whole operation process, thereby increasing its charge dephasing time. (paper)
Directory of Open Access Journals (Sweden)
M. Thirumaran
2016-04-01
Full Text Available Incorporating changes into the logics of composed services dynamically and successfully is a challenge for sustaining a business’ image and profit in the society, especially when the change is expected to be made immediately at low cost. In this paper, we address this challenge by proposing a change impact analysis framework for long term composed services (LCS which: (i enables the business people to implement the changes by themselves through their analysts, (ii reduces cost and time by eliminating the dependence on IT developers once the application services are developed and delivered, (iii ensures effective incorporation of the changes made by using standard methodologies for evaluation – finite state automaton for verifying the runtime compatibilities and change evaluation and probabilistic cellular automaton for impact analysis and prediction. Through the evaluated probability measures and effective incident matching, the knowledge gained by the analyst over his service logics and the efficiency of incorporating changes are increased.
Cheng, Y.; Kekenes-Huskey, P.; Hake, J. E.; Holst, M. J.; McCammon, J. A.; Michailova, A. P.
2012-01-01
This paper presents a brief review of multi-scale modeling at the molecular to cellular scale, with new results for heart muscle cells. A finite element-based simulation package (SMOL) was used to investigate the signaling transduction at molecular and sub-cellular scales (http://mccammon.ucsd.edu/smol/, http://FETK.org) by numerical solution of the time-dependent Smoluchowski equations and a reaction-diffusion system. At the molecular scale, SMOL has yielded experimentally validated estimates of the diffusion-limited association rates for the binding of acetylcholine to mouse acetylcholinesterase using crystallographic structural data. The predicted rate constants exhibit increasingly delayed steady-state times, with increasing ionic strength, and demonstrate the role of an enzyme's electrostatic potential in influencing ligand binding. At the sub-cellular scale, an extension of SMOL solves a nonlinear, reaction-diffusion system describing Ca2+ ligand buffering and diffusion in experimentally derived rodent ventricular myocyte geometries. Results reveal the important role of mobile and stationary Ca2+ buffers, including Ca2+ indicator dye. We found that alterations in Ca2+-binding and dissociation rates of troponin C (TnC) and total TnC concentration modulate sub-cellular Ca2+ signals. The model predicts that reduced off-rate in the whole troponin complex (TnC, TnI, TnT) versus reconstructed thin filaments (Tn, Tm, actin) alters cytosolic Ca2+ dynamics under control conditions or in disease-linked TnC mutations. The ultimate goal of these studies is to develop scalable methods and theories for the integration of molecular-scale information into simulations of cellular-scale systems.
Chen, Ting-Jung; Wu, Chia-Ching; Su, Fong-Chin
2012-12-01
The cytoskeleton, which is the major mechanical component of cells, supports the cell body and regulates the cellular motility to assist the cell in performing its biological functions. Several cytoskeletal network models have been proposed to investigate the mechanical properties of cells. This review paper summarizes these models with a focus on the prestressed cable network, the semi-flexible chain network, the open-cell foam, the tensegrity, and the granular models. The components, material parameters, types of connection joints, tension conditions, and the advantages and disadvantages of each model are evaluated from a structural and biological point of view. The underlying mechanisms that are associated with the morphological changes of spreading cells are expected to be simulated using a cytoskeletal model; however, it is still paid less attention most likely due to the lack of a suitable cytoskeletal model that can accurately model the spreading process. In this review article, the established cytoskeletal models are hoped to provide useful information for the development of future cytoskeletal models with different degrees of cell attachment for the study of the mechanical mechanisms underlying the cellular behaviors in response to external stimulations. PMID:23062682
Effects of Traffic Lights on CA Traffic Model
Institute of Scientific and Technical Information of China (English)
SuweiFENG; GuoqingGU
1997-01-01
Cellular automaton traffic models can include various factors in traffic system with simple regulations and the corresponding computations and simulations are rather convenient and effective.In this paper,the Biham-Middleton-Levine model(briefly saying the BML model)is improved by removing its limitation of synchronized change of traffic lights.In new model,the traffic light at each crossing could arbitrarily change its starting time and tempo of variation and hence the model could more realistically describe the influence of traffic lights on the performance of traffic systems.The cases of traffic light with unsynchronized starting time and different tempo of variation are simulated in this paper.
Synchronization, TIGoRS, and Information Flow in Complex Systems: Dispositional Cellular Automata.
Sulis, William H
2016-04-01
Synchronization has a long history in physics where it refers to the phase matching of two identical oscillators. This notion has been extensively studied in physics as well as in biology, where it has been applied to such widely varying phenomena as the flashing of fireflies and firing of neurons in the brain. Human behavior, however, may be recurrent but it is not oscillatory even though many physiological systems do exhibit oscillatory tendencies. Moreover, much of human behaviour is collaborative and cooperative, where the individual behaviours may be distinct yet contemporaneous (if not simultaneous) and taken collectively express some functionality. In the context of behaviour, the important aspect is the repeated co-occurrence in time of behaviours that facilitate the propagation of information or of functionality, regardless of whether or not these behaviours are similar or identical. An example of this weaker notion of synchronization is transient induced global response synchronization (TIGoRS). Previous work has shown that TIGoRS is a ubiquitous phenomenon among complex systems, enabling them to stably parse environmental transients into salient units to which they stably respond. This leads to the notion of Sulis machines, which emergently generate a primitive linguistic structure through their dynamics. This article reviews the notion of TIGoRS and its expression in several complex systems models including tempered neural networks, driven cellular automata and cocktail party automata. The emergent linguistics of Sulis machines are discussed. A new class of complex systems model, the dispositional cellular automaton is introduced. A new metric for TIGoRS, the excess synchronization, is introduced and applied to the study of TIGoRS in dispositional cellular automata. It is shown that these automata exhibit a nonlinear synchronization response to certain perturbing transients.
Synchronization, TIGoRS, and Information Flow in Complex Systems: Dispositional Cellular Automata.
Sulis, William H
2016-04-01
Synchronization has a long history in physics where it refers to the phase matching of two identical oscillators. This notion has been extensively studied in physics as well as in biology, where it has been applied to such widely varying phenomena as the flashing of fireflies and firing of neurons in the brain. Human behavior, however, may be recurrent but it is not oscillatory even though many physiological systems do exhibit oscillatory tendencies. Moreover, much of human behaviour is collaborative and cooperative, where the individual behaviours may be distinct yet contemporaneous (if not simultaneous) and taken collectively express some functionality. In the context of behaviour, the important aspect is the repeated co-occurrence in time of behaviours that facilitate the propagation of information or of functionality, regardless of whether or not these behaviours are similar or identical. An example of this weaker notion of synchronization is transient induced global response synchronization (TIGoRS). Previous work has shown that TIGoRS is a ubiquitous phenomenon among complex systems, enabling them to stably parse environmental transients into salient units to which they stably respond. This leads to the notion of Sulis machines, which emergently generate a primitive linguistic structure through their dynamics. This article reviews the notion of TIGoRS and its expression in several complex systems models including tempered neural networks, driven cellular automata and cocktail party automata. The emergent linguistics of Sulis machines are discussed. A new class of complex systems model, the dispositional cellular automaton is introduced. A new metric for TIGoRS, the excess synchronization, is introduced and applied to the study of TIGoRS in dispositional cellular automata. It is shown that these automata exhibit a nonlinear synchronization response to certain perturbing transients. PMID:27033136
Path Loss, Shadow Fading, and Line-Of-Sight Probability Models for 5G Urban Macro-Cellular Scenarios
DEFF Research Database (Denmark)
Sun, Shu; Thomas, Timothy; Rappaport, Theodore S.;
2015-01-01
This paper presents key parameters including the line-of-sight (LOS) probability, large-scale path loss, and shadow fading models for the design of future fifth generation (5G) wireless communication systems in urban macro-cellular (UMa) scenarios, using the data obtained from propagation......-in reference distance path loss models are studied in depth to show their value in channel modeling. Furthermore, the shadow fading spread versus distance remains unclear based on the current measurement results, thus more measurements are necessary to gain a better knowledge of the UMa channels at centimeter...
Institute of Scientific and Technical Information of China (English)
MIN LeQuan; YU Na
2002-01-01
Some criteria for the local activity theory in two-port cellular neural network cells with three local state variables are applied to a coupled Lorenz-cell model. The numerical simulation exhibited that emergence may exist if the selected cell parameters are nearby or on the edge of chaos domain. The local activity theory has provided a new tool of studying the complexity of high dimensional coupled nonlinear physical systems.
Javaheri Javid, Mohammad Ali; Blackwell, Tim; Zimmer, Robert; Majid al-Rifaie, Mohammad
2016-04-01
Shannon entropy fails to discriminate structurally different patterns in two-dimensional images. We have adapted information gain measure and Kolmogorov complexity to overcome the shortcomings of entropy as a measure of image structure. The measures are customised to robustly quantify the complexity of images resulting from multi-state cellular automata (CA). Experiments with a two-dimensional multi-state cellular automaton demonstrate that these measures are able to predict some of the structural characteristics, symmetry and orientation of CA generated patterns.
Cali, Corrado
2015-07-14
Advances for application of electron microscopy to serial imaging are opening doors to new ways of analyzing cellular structure. New and improved algorithms and workflows for manual and semiautomated segmentation allow to observe the spatial arrangement of the smallest cellular features with unprecedented detail in full three-dimensions (3D). From larger samples, higher complexity models can be generated; however, they pose new challenges to data management and analysis. Here, we review some currently available solutions and present our approach in detail. We use the fully immersive virtual reality (VR) environment CAVE (cave automatic virtual environment), a room where we are able to project a cellular reconstruction and visualize in 3D, to step into a world created with Blender, a free, fully customizable 3D modeling software with NeuroMorph plug-ins for visualization and analysis of electron microscopy (EM) preparations of brain tissue. Our workflow allows for full and fast reconstructions of volumes of brain neuropil using ilastik, a software tool for semiautomated segmentation of EM stacks. With this visualization environment, we can walk into the model containing neuronal and astrocytic processes to study the spatial distribution of glycogen granules, a major energy source that is selectively stored in astrocytes. The use of CAVE was key to observe a nonrandom distribution of glycogen, and led us to develop tools to quantitatively analyze glycogen clustering and proximity to other subcellular features. This article is protected by copyright. All rights reserved.
Keane, Harriet; Ryan, Brent J.; Jackson, Brendan; Whitmore, Alan; Wade-Martins, Richard
2015-11-01
Neurodegenerative diseases are complex multifactorial disorders characterised by the interplay of many dysregulated physiological processes. As an exemplar, Parkinson’s disease (PD) involves multiple perturbed cellular functions, including mitochondrial dysfunction and autophagic dysregulation in preferentially-sensitive dopamine neurons, a selective pathophysiology recapitulated in vitro using the neurotoxin MPP+. Here we explore a network science approach for the selection of therapeutic protein targets in the cellular MPP+ model. We hypothesised that analysis of protein-protein interaction networks modelling MPP+ toxicity could identify proteins critical for mediating MPP+ toxicity. Analysis of protein-protein interaction networks constructed to model the interplay of mitochondrial dysfunction and autophagic dysregulation (key aspects of MPP+ toxicity) enabled us to identify four proteins predicted to be key for MPP+ toxicity (P62, GABARAP, GBRL1 and GBRL2). Combined, but not individual, knockdown of these proteins increased cellular susceptibility to MPP+ toxicity. Conversely, combined, but not individual, over-expression of the network targets provided rescue of MPP+ toxicity associated with the formation of autophagosome-like structures. We also found that modulation of two distinct proteins in the protein-protein interaction network was necessary and sufficient to mitigate neurotoxicity. Together, these findings validate our network science approach to multi-target identification in complex neurological diseases.
Baghabra, Jumana; Boges, Daniya J.; Holst, Glendon R.; Kreshuk, Anna; Hamprecht, Fred A.; Srinivasan, Madhusudhanan; Lehväslaiho, Heikki
2016-01-01
ABSTRACT Advances in the application of electron microscopy (EM) to serial imaging are opening doors to new ways of analyzing cellular structure. New and improved algorithms and workflows for manual and semiautomated segmentation allow us to observe the spatial arrangement of the smallest cellular features with unprecedented detail in full three‐dimensions. From larger samples, higher complexity models can be generated; however, they pose new challenges to data management and analysis. Here we review some currently available solutions and present our approach in detail. We use the fully immersive virtual reality (VR) environment CAVE (cave automatic virtual environment), a room in which we are able to project a cellular reconstruction and visualize in 3D, to step into a world created with Blender, a free, fully customizable 3D modeling software with NeuroMorph plug‐ins for visualization and analysis of EM preparations of brain tissue. Our workflow allows for full and fast reconstructions of volumes of brain neuropil using ilastik, a software tool for semiautomated segmentation of EM stacks. With this visualization environment, we can walk into the model containing neuronal and astrocytic processes to study the spatial distribution of glycogen granules, a major energy source that is selectively stored in astrocytes. The use of CAVE was key to the observation of a nonrandom distribution of glycogen, and led us to develop tools to quantitatively analyze glycogen clustering and proximity to other subcellular features. J. Comp. Neurol. 524:23–38, 2016. © 2015 Wiley Periodicals, Inc. PMID:26179415
Calì, Corrado; Baghabra, Jumana; Boges, Daniya J; Holst, Glendon R; Kreshuk, Anna; Hamprecht, Fred A; Srinivasan, Madhusudhanan; Lehväslaiho, Heikki; Magistretti, Pierre J
2016-01-01
Advances in the application of electron microscopy (EM) to serial imaging are opening doors to new ways of analyzing cellular structure. New and improved algorithms and workflows for manual and semiautomated segmentation allow us to observe the spatial arrangement of the smallest cellular features with unprecedented detail in full three-dimensions. From larger samples, higher complexity models can be generated; however, they pose new challenges to data management and analysis. Here we review some currently available solutions and present our approach in detail. We use the fully immersive virtual reality (VR) environment CAVE (cave automatic virtual environment), a room in which we are able to project a cellular reconstruction and visualize in 3D, to step into a world created with Blender, a free, fully customizable 3D modeling software with NeuroMorph plug-ins for visualization and analysis of EM preparations of brain tissue. Our workflow allows for full and fast reconstructions of volumes of brain neuropil using ilastik, a software tool for semiautomated segmentation of EM stacks. With this visualization environment, we can walk into the model containing neuronal and astrocytic processes to study the spatial distribution of glycogen granules, a major energy source that is selectively stored in astrocytes. The use of CAVE was key to the observation of a nonrandom distribution of glycogen, and led us to develop tools to quantitatively analyze glycogen clustering and proximity to other subcellular features. PMID:26179415
3D similar pattern generation of snow crystals with cellular automata%基于元胞自动化模型的三维雪花晶体近似模式的产生
Institute of Scientific and Technical Information of China (English)
李芳佳; 高尚策; 唐政; 石井雅博; 山下和也
2009-01-01
Computer simulation of snow crystal growing process has been done for many years. Cellular automaton is a computing model which is made from lattice cells and simple rules. Though it is a very simple model, it gives good results when used to imitate complex processes such as the life phenomenon, crystal growth and the turbulent flow. In this paper, a cellular model for 3Dimensional snow crystallization was proposed by extending the traditional 2-Dimensional cellular model. Simulation results indicated that the proposed model can accurately simulate most 3-Dimensional snow erystaUization processes.%关于雪花生长过程的计算机模拟已经受到了广泛关注.其中,元胞自动化模型是一种基于网格和简单规则的计算方法.尽管这是一种简单的模型,但其在模拟复杂过程(比如:生命现象,晶体生长和湍流)时往往能取得较好的结果.提出了一种由传统的二维模型扩展而来的三维雪花晶体生长方法.计算机模拟结果显示提出的方法能够更精确地模拟出三维雪花的晶体化过程.
An integrated cellular model to evaluate cytotoxic effects in mammalian cell lines.
Fernández Freire, P; Peropadre, A; Pérez Martín, J M; Herrero, O; Hazen, M J
2009-12-01
The ever growing anthropogenic pressure to the environment has lead in 2007 to the revision of the existing legislation and the approval of the new European law regarding the production and importation of chemicals, known as REACH. This new legal framework supports the development of alternative methods to animal experimentation encouraging the improvement and/or design of new methodological strategies for the toxicological evaluation of chemical compounds. Even though cytotoxicity studies are a reductionist approach to acute toxicity in vivo, they offer the best agreement between obtaining relevant information about the mechanism of toxic action and the use of alternative methods. Following this trend, this work presents an integrated cellular strategy in order to know the toxicity and mechanism of action of chemical compounds, using simple and reproducible in vitro systems. The experimental procedures are performed in two steps. The first one involves the systematic analysis of the main cellular targets using proliferation, viability and morphological probes. The second step relies upon the results obtained in the first step, including specific assays that focus on the mechanism of toxic action and the cellular response. The benefits of this strategy are exemplified with two real cases: pentachlorophenol and rotenone. PMID:19540333
Topological bifurcations in a model society of reasonable contrarians
Bagnoli, Franco
2013-01-01
People are often divided into conformists and contrarians, the former tending to align to the majority opinion in their neighborhood and the latter tending to disagree with that majority. In practice, however, the contrarian tendency is rarely followed when there is an overwhelming majority with a given opinion, which denotes a social norm. Such reasonable contrarian behavior is often considered a mark of independent thought, and can be a useful strategy in financial markets. We present the opinion dynamics of a society of reasonable contrarian agents. The model is a cellular automaton of Ising type, with antiferromagnetic pair interactions modeling contrarianism and plaquette terms modeling social norms. We introduce the entropy of the collective variable as a way of comparing deterministic (mean-field) and probabilistic (simulations) bifurcation diagrams. In the mean field approximation the model exhibits bifurcations and a chaotic phase, interpreted as coherent oscillations of the whole society. However, i...
Chaudhari, Pooja; Tian, Lipeng; Deshmukh, Abhijeet; Jang, Yoon-Young
2016-09-01
Due to the limitations of research using human embryos and the lack of a biological model of human liver development, the roles of the various markers associated with liver stem or progenitor cell potential in humans are largely speculative, and based on studies utilizing animal models and certain patient tissues. Human pluripotent stem cell-based in vitro multistage hepatic differentiation systems may serve as good surrogate models for mimicking normal human liver development, pathogenesis and injury/regeneration studies. Here, we describe the implications of various liver stem or progenitor cell markers and their bipotency (i.e. hepatocytic- and biliary-epithelial cell differentiation), based on the pluripotent stem cell-derived model of human liver development. Future studies using the human cellular model(s) of liver and biliary development will provide more human relevant biological and/or pathological roles of distinct markers expressed in heterogeneous liver stem/progenitor cell populations.
Codd, E F
1968-01-01
Cellular Automata presents the fundamental principles of homogeneous cellular systems. This book discusses the possibility of biochemical computers with self-reproducing capability.Organized into eight chapters, this book begins with an overview of some theorems dealing with conditions under which universal computation and construction can be exhibited in cellular spaces. This text then presents a design for a machine embedded in a cellular space or a machine that can compute all computable functions and construct a replica of itself in any accessible and sufficiently large region of t
International Nuclear Information System (INIS)
The initial step of metastasis in carcinomas, often referred to as the epithelial-mesenchymal transition (EMT), occurs via the loss of adherens junctions (e.g. cadherins) by the tumor embolus. This leads to a subsequent loss of cell polarity and cellular differentiation and organization, enabling cells of the embolus to become motile and invasive. However highly malignant inflammatory breast cancer (IBC) over-expresses E-cadherin. The human xenograft model of IBC (MARY-X), like IBC, displays the signature phenotype of an exaggerated degree of lymphovascular invasion (LVI) in situ by tumor emboli. An intact E-cadherin/α, β-catenin axis mediates the tight, compact clump of cells found both in vitro and in vivo as spheroids and tumor emboli, respectively. Using electron microscopy and focused ion beam milling to acquire in situ sections, we performed ultrastructural analysis of both an IBC and non-IBC, E-cadherin positive cell line to determine if retention of this adhesion molecule contributed to cellular organization. Here we report through ultrastructural analysis that IBC exhibits a high degree of cellular organization with polar elements such as apical/lateral positioning of E-cadherin, apical surface microvilli, and tortuous lumen-like (canalis) structures. In contrast, agarose-induced spheroids of MCF-7, a weakly invasive E-cadherin positive breast carcinoma cell line, do not exhibit ultrastructural polar features. This study has determined that the highly metastatic IBC with an exaggerated malignant phenotype challenges conventional wisdom in that instead of displaying a loss of cellular organization, IBC acquires a highly structured architecture. These findings suggest that the metastatic efficiency might be linked to the formation and maintenance of these architectural features. The comparative architectural features of both the spheroid and embolus of MARY-X provide an in vitro model with tractable in vivo applications
Directory of Open Access Journals (Sweden)
Alpaugh Mary L
2009-12-01
Full Text Available Abstract Background The initial step of metastasis in carcinomas, often referred to as the epithelial-mesenchymal transition (EMT, occurs via the loss of adherens junctions (e.g. cadherins by the tumor embolus. This leads to a subsequent loss of cell polarity and cellular differentiation and organization, enabling cells of the embolus to become motile and invasive. However highly malignant inflammatory breast cancer (IBC over-expresses E-cadherin. The human xenograft model of IBC (MARY-X, like IBC, displays the signature phenotype of an exaggerated degree of lymphovascular invasion (LVI in situ by tumor emboli. An intact E-cadherin/α, β-catenin axis mediates the tight, compact clump of cells found both in vitro and in vivo as spheroids and tumor emboli, respectively. Methods Using electron microscopy and focused ion beam milling to acquire in situ sections, we performed ultrastructural analysis of both an IBC and non-IBC, E-cadherin positive cell line to determine if retention of this adhesion molecule contributed to cellular organization. Results Here we report through ultrastructural analysis that IBC exhibits a high degree of cellular organization with polar elements such as apical/lateral positioning of E-cadherin, apical surface microvilli, and tortuous lumen-like (canalis structures. In contrast, agarose-induced spheroids of MCF-7, a weakly invasive E-cadherin positive breast carcinoma cell line, do not exhibit ultrastructural polar features. Conclusions This study has determined that the highly metastatic IBC with an exaggerated malignant phenotype challenges conventional wisdom in that instead of displaying a loss of cellular organization, IBC acquires a highly structured architecture. These findings suggest that the metastatic efficiency might be linked to the formation and maintenance of these architectural features. The comparative architectural features of both the spheroid and embolus of MARY-X provide an in vitro model with
A Reactive Object Model for Concurrent Engineering Design
Nguyen, Toan
1995-01-01
A reactive object model is defined to control the design process of evolving objects in concurrent engineering environments. The goal is to support engineers in controlling the result of their design decisions, using a software automaton as a plug-in addition to computer-aided design platforms that support concurrent engineering. The automaton implements a reactive design specification for composite objects with multiple representations, that includes a model for their design process. The syn...