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Sample records for chemotaxis diffusion equations

  1. Fractional Chemotaxis Diffusion Equations

    CERN Document Server

    Langlands, T A M

    2010-01-01

    We introduce mesoscopic and macroscopic model equations of chemotaxis with anomalous subdiffusion for modelling chemically directed transport of biological organisms in changing chemical environments with diffusion hindered by traps or macro-molecular crowding. The mesoscopic models are formulated using Continuous Time Random Walk master equations and the macroscopic models are formulated with fractional order differential equations. Different models are proposed depending on the timing of the chemotactic forcing. Generalizations of the models to include linear reaction dynamics are also derived. Finally a Monte Carlo method for simulating anomalous subdiffusion with chemotaxis is introduced and simulation results are compared with numerical solutions of the model equations. The model equations developed here could be used to replace Keller-Segel type equations in biological systems with transport hindered by traps, macro-molecular crowding or other obstacles.

  2. Exact solutions of certain nonlinear chemotaxis diffusion reaction equations

    Indian Academy of Sciences (India)

    MISHRA AJAY; KAUSHAL R S; PRASAD AWADHESH

    2016-05-01

    Using the auxiliary equation method, we obtain exact solutions of certain nonlinear chemotaxis diffusion reaction equations in the presence of a stimulant. In particular, we account for the nonlinearities arising not only from the density-dependent source terms contributed by the particles and the stimulant but also from the coupling term of the stimulant. In addition to this, the diffusion of the stimulant and the effect of long-range interactions are also accounted for in theconstructed coupled differential equations. The results obtained here could be useful in the studies of several biological systems and processes, e.g., in bacterial infection, chemotherapy, etc.

  3. Chemotaxis when bacteria remember: drift versus diffusion.

    Directory of Open Access Journals (Sweden)

    Sakuntala Chatterjee

    2011-12-01

    Full Text Available Escherichia coli (E. coli bacteria govern their trajectories by switching between running and tumbling modes as a function of the nutrient concentration they experienced in the past. At short time one observes a drift of the bacterial population, while at long time one observes accumulation in high-nutrient regions. Recent work has viewed chemotaxis as a compromise between drift toward favorable regions and accumulation in favorable regions. A number of earlier studies assume that a bacterium resets its memory at tumbles - a fact not borne out by experiment - and make use of approximate coarse-grained descriptions. Here, we revisit the problem of chemotaxis without resorting to any memory resets. We find that when bacteria respond to the environment in a non-adaptive manner, chemotaxis is generally dominated by diffusion, whereas when bacteria respond in an adaptive manner, chemotaxis is dominated by a bias in the motion. In the adaptive case, favorable drift occurs together with favorable accumulation. We derive our results from detailed simulations and a variety of analytical arguments. In particular, we introduce a new coarse-grained description of chemotaxis as biased diffusion, and we discuss the way it departs from older coarse-grained descriptions.

  4. Generalized Keller-Segel models of chemotaxis. Analogy with nonlinear mean field Fokker-Planck equations

    CERN Document Server

    Chavanis, Pierre-Henri

    2008-01-01

    We consider a generalized class of Keller-Segel models describing the chemotaxis of biological populations (bacteria, amoebae, endothelial cells, social insects,...). We show the analogy with nonlinear mean field Fokker-Planck equations and generalized thermodynamics. As an illustration, we introduce a new model of chemotaxis incorporating both effects of anomalous diffusion and exclusion principle (volume filling). We also discuss the analogy between biological populations described by the Keller-Segel model and self-gravitating Brownian particles described by the Smoluchowski-Poisson system.

  5. Global Solutions to the Coupled Chemotaxis-Fluid Equations

    KAUST Repository

    Duan, Renjun

    2010-08-10

    In this paper, we are concerned with a model arising from biology, which is a coupled system of the chemotaxis equations and the viscous incompressible fluid equations through transport and external forcing. The global existence of solutions to the Cauchy problem is investigated under certain conditions. Precisely, for the Chemotaxis-Navier-Stokes system over three space dimensions, we obtain global existence and rates of convergence on classical solutions near constant states. When the fluid motion is described by the simpler Stokes equations, we prove global existence of weak solutions in two space dimensions for cell density with finite mass, first-order spatial moment and entropy provided that the external forcing is weak or the substrate concentration is small. © Taylor & Francis Group, LLC.

  6. Travelling Waves in Hyperbolic Chemotaxis Equations

    KAUST Repository

    Xue, Chuan

    2010-10-16

    Mathematical models of bacterial populations are often written as systems of partial differential equations for the densities of bacteria and concentrations of extracellular (signal) chemicals. This approach has been employed since the seminal work of Keller and Segel in the 1970s (Keller and Segel, J. Theor. Biol. 30:235-248, 1971). The system has been shown to permit travelling wave solutions which correspond to travelling band formation in bacterial colonies, yet only under specific criteria, such as a singularity in the chemotactic sensitivity function as the signal approaches zero. Such a singularity generates infinite macroscopic velocities which are biologically unrealistic. In this paper, we formulate a model that takes into consideration relevant details of the intracellular processes while avoiding the singularity in the chemotactic sensitivity. We prove the global existence of solutions and then show the existence of travelling wave solutions both numerically and analytically. © 2010 Society for Mathematical Biology.

  7. Speed ot travelling waves in reaction-diffusion equations

    Energy Technology Data Exchange (ETDEWEB)

    Benguria, R.D.; Depassier, M.C. [Facultad de Fisica, Pontificia Universidad Catolica de Chile, Avda. Vicuna Mackenna 4860, Santiago (Chile); Mendez, V. [Facultat de Ciencies de la Salut, Universidad Internacional de Catalunya, Gomera s/n 08190 Sant Cugat del Valles, Barcelona (Spain)

    2002-07-01

    Reaction diffusion equations arise in several problems of population dynamics, flame propagation and others. In one dimensional cases the systems may evolve into travelling fronts. Here we concentrate on a reaction diffusion equation which arises as a simple model for chemotaxis and present results for the speed of the travelling fronts. (Author)

  8. Drift-Diffusion Equation

    Directory of Open Access Journals (Sweden)

    K. Banoo

    1998-01-01

    equation in the discrete momentum space. This is shown to be similar to the conventional drift-diffusion equation except that it is a more rigorous solution to the Boltzmann equation because the current and carrier densities are resolved into M×1 vectors, where M is the number of modes in the discrete momentum space. The mobility and diffusion coefficient become M×M matrices which connect the M momentum space modes. This approach is demonstrated by simulating electron transport in bulk silicon.

  9. Nonlinear diffusion equations

    CERN Document Server

    Wu Zhuo Qun; Li Hui Lai; Zhao Jun Ning

    2001-01-01

    Nonlinear diffusion equations, an important class of parabolic equations, come from a variety of diffusion phenomena which appear widely in nature. They are suggested as mathematical models of physical problems in many fields, such as filtration, phase transition, biochemistry and dynamics of biological groups. In many cases, the equations possess degeneracy or singularity. The appearance of degeneracy or singularity makes the study more involved and challenging. Many new ideas and methods have been developed to overcome the special difficulties caused by the degeneracy and singularity, which

  10. An optimal adaptive time-stepping scheme for solving reaction-diffusion-chemotaxis systems.

    Science.gov (United States)

    Chiu, Chichia; Yu, Jui-Ling

    2007-04-01

    Reaction-diffusion-chemotaxis systems have proven to be fairly accurate mathematical models for many pattern formation problems in chemistry and biology. These systems are important for computer simulations of patterns, parameter estimations as well as analysis of the biological systems. To solve reaction-diffusion-chemotaxis systems, efficient and reliable numerical algorithms are essential for pattern generations. In this paper, a general reaction-diffusion-chemotaxis system is considered for specific numerical issues of pattern simulations. We propose a fully explicit discretization combined with a variable optimal time step strategy for solving the reaction-diffusion-chemotaxis system. Theorems about stability and convergence of the algorithm are given to show that the algorithm is highly stable and efficient. Numerical experiment results on a model problem are given for comparison with other numerical methods. Simulations on two real biological experiments will also be shown.

  11. Nonlocal electrical diffusion equation

    Science.gov (United States)

    Gómez-Aguilar, J. F.; Escobar-Jiménez, R. F.; Olivares-Peregrino, V. H.; Benavides-Cruz, M.; Calderón-Ramón, C.

    2016-07-01

    In this paper, we present an analysis and modeling of the electrical diffusion equation using the fractional calculus approach. This alternative representation for the current density is expressed in terms of the Caputo derivatives, the order for the space domain is 0type phenomena, while the time fractional equation is related to sub- or super diffusion. We show that the mathematical concept of fractional derivatives can be useful to understand the behavior of semiconductors, the design of solar panels, electrochemical phenomena and the description of anomalous complex processes.

  12. Numerical study of plume patterns in the chemotaxis-diffusion-convection coupling system

    CERN Document Server

    Deleuze, Yannick; Thiriet, Marc; Sheu, Tony W H

    2015-01-01

    A chemotaxis-diffusion-convection coupling system for describing a form of buoyant convection in which the fluid develops convection cells and plume patterns will be investigated numerically in this study. Based on the two-dimensional convective chemotaxis-fluid model proposed in the literature, we developed an upwind finite element method to investigate the pattern formation and the hydrodynamical stability of the system. The numerical simulations illustrate different predicted physical regimes in the system. In the convective regime, the predicted plumes resemble B\\'enard instabilities. Our numerical results show how structured layers of bacteria are formed before bacterium rich plumes fall in the fluid. The plumes have a well defined spectrum of wavelengths and have an exponential growth rate, yet their position can only be predicted in very simple examples. In the chemotactic and diffusive regimes, the effects of chemotaxis are investigated. Our results indicate that the chemotaxis can stabilize the overa...

  13. Anomalous Fractional Diffusion Equation for Transport Phenomena

    Institute of Scientific and Technical Information of China (English)

    QiuhuaZENG; HouqiangLI; 等

    1999-01-01

    We derive the standard diffusion equation from the continuity equation and by discussing the defectiveness of earlier proposed equations,we get the generalized fractional diffusion equation for anomalous diffusion.

  14. Different Behaviour for the Solutions of Some Chemotaxis Equations

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    @@  In biology, it is very important to investigate the movement of some cells ororganisms in some given biological system (cf. [1, 2]). In order to understand howthe movement rules are affected by the effect of the chemo-attractant, Othmer and Stevens introduced in [1] several general classes of partial differential equations. In one of their models, they considered a master equation, i.e. barrier and nearestneighbor lattice model. Following a limiting process the model is described by the following system of partial differential equations:

  15. A diffusive virus infection dynamic model with nonlinear functional response, absorption effect and chemotaxis

    Science.gov (United States)

    Wang, Wei; Ma, Wanbiao; Lai, Xiulan

    2017-01-01

    From a biological perspective, a diffusive virus infection dynamic model with nonlinear functional response, absorption effect and chemotaxis is proposed. In the model, the diffusion of virus consists of two parts, the random diffusion and the chemotactic movement. The chemotaxis flux of virus depends not only on their own density, but also on the density of infected cells, and the density gradient of infected cells. The well posedness of the proposed model is deeply investigated. For the proposed model, the linear stabilities of the infection-free steady state E0 and the infection steady state E* are extensively performed. We show that the threshold dynamics can be expressed by the basic reproduction number R0 of the model without chemotaxis. That is, the infection-free steady state E0 is globally asymptotically stable if R0 virus is uniformly persistent if R0 > 1. In addition, we use the cross iteration method and the Schauder's fixed point theorem to prove the existence of travelling wave solutions connecting the infection-free steady state E0 and the infection steady state E* by constructing a pair of upper-lower solutions. At last, numerical simulations are presented to confirm theoretical findings.

  16. Reaction Diffusion and Chemotaxis for Decentralized Gathering on FPGAs

    Directory of Open Access Journals (Sweden)

    Bernard Girau

    2009-01-01

    and rapid simulations of the complex dynamics of this reaction-diffusion model. Then we describe the FPGA implementation of the environment together with the agents, to study the major challenges that must be solved when designing a fast embedded implementation of the decentralized gathering model. We analyze the results according to the different goals of these hardware implementations.

  17. The generalized Airy diffusion equation

    Directory of Open Access Journals (Sweden)

    Frank M. Cholewinski

    2003-08-01

    Full Text Available Solutions of a generalized Airy diffusion equation and an associated nonlinear partial differential equation are obtained. Trigonometric type functions are derived for a third order generalized radial Euler type operator. An associated complex variable theory and generalized Cauchy-Euler equations are obtained. Further, it is shown that the Airy expansions can be mapped onto the Bessel Calculus of Bochner, Cholewinski and Haimo.

  18. Fractional-calculus diffusion equation

    OpenAIRE

    Ajlouni, Abdul-Wali MS; Al-Rabai'ah, Hussam A

    2010-01-01

    Background Sequel to the work on the quantization of nonconservative systems using fractional calculus and quantization of a system with Brownian motion, which aims to consider the dissipation effects in quantum-mechanical description of microscale systems. Results The canonical quantization of a system represented classically by one-dimensional Fick's law, and the diffusion equation is carried out according to the Dirac method. A suitable Lagrangian, and Hamiltonian, describing the diffusive...

  19. A diffusion based long-range and steady chemical gradient generator on a microfluidic device for studying bacterial chemotaxis

    Science.gov (United States)

    Murugesan, Nithya; Singha, Siddhartha; Panda, Tapobrata; Das, Sarit K.

    2016-03-01

    Studies on chemotaxis in microfluidics device have become a major area of research to generate physiologically similar environment in vitro. In this work, a novel micro-fluidic device has been developed to study chemo-taxis of cells in near physiological condition which can create controllable, steady and long-range chemical gradients using various chemo-effectors in a micro-channel. Hydrogels like agarose, collagen, etc, can be used in the device to maintain exclusive diffusive flux of various chemical species into the micro-channel under study. Variations of concentrations and flow rates of Texas Red dextran in the device revealed that an increase in the concentration of the dye in the feed from 6 to 18 μg ml-1, causes a steeper chemical gradient in the device, whereas the flow rate of the dye has practically no effect on the chemical gradient in the device. This observation confirms that a diffusion controlled chemical gradient is generated in the micro-channel. Chemo-taxis of E. coli cells were studied under the steady gradient of a chemo-attractant and a chemo-repellent separately in the same chemical gradient generator. For sorbitol and NiSO4·6H2O, the bacterial cells exhibit a steady distribution in the micro channel after 1 h and 30 min, respectively. From the distribution of bacterial population chemo-tactic strength of the chemo-effectors was estimated for E. coli. In a long microfluidic channel, migration behavior of bacterial cells under diffusion controlled chemical gradient showed chemotaxis, random movement, aggregation, and concentration dependent reverse chemotaxis.

  20. Parabolic equations in biology growth, reaction, movement and diffusion

    CERN Document Server

    Perthame, Benoît

    2015-01-01

    This book presents several fundamental questions in mathematical biology such as Turing instability, pattern formation, reaction-diffusion systems, invasion waves and Fokker-Planck equations. These are classical modeling tools for mathematical biology with applications to ecology and population dynamics, the neurosciences, enzymatic reactions, chemotaxis, invasion waves etc. The book presents these aspects from a mathematical perspective, with the aim of identifying those qualitative properties of the models that are relevant for biological applications. To do so, it uncovers the mechanisms at work behind Turing instability, pattern formation and invasion waves. This involves several mathematical tools, such as stability and instability analysis, blow-up in finite time, asymptotic methods and relative entropy properties. Given the content presented, the book is well suited as a textbook for master-level coursework.

  1. The Nonlinear Convection—Reaction—Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    ShiminTANG; MaochangCUI; 等

    1996-01-01

    A nonlinear convection-reaction-diffusion equation is used as a model equation of the El Nino events.In this model,the effects of convection,turbulent diffusion,linear feed-back and nolinear radiation on the anomaly of Sea Surface Temperature(SST) are considered.In the case of constant convection,this equation has exact kink-like travelling wave solutions,which can be used to explain the history of an El Nino event.

  2. Effects of flow and diffusion on chemotaxis studies in a microfabricated gradient generator.

    Science.gov (United States)

    Walker, Glenn M; Sai, Jiqing; Richmond, Ann; Stremler, Mark; Chung, Chang Y; Wikswo, John P

    2005-06-01

    An understanding of chemotaxis at the level of cell-molecule interactions is important because of its relevance in cancer, immunology, and microbiology, just to name a few. This study quantifies the effects of flow on cell migration during chemotaxis in a microfluidic device. The chemotaxis gradient within the device was modeled and compared to experimental results. Chemotaxis experiments were performed using the chemokine CXCL8 under different flow rates with human HL60 promyelocytic leukemia cells expressing a transfected CXCR2 chemokine receptor. Cell trajectories were separated into x and y axis components. When the microchannel flow rates were increased, cell trajectories along the x axis were found to be significantly affected (p < 0.05). Total migration distances were not affected. These results should be considered when using similar microfluidic devices for chemotaxis studies so that flow bias can be minimized. It may be possible to use this effect to estimate the total tractile force exerted by a cell during chemotaxis, which would be particularly valuable for cells whose tractile forces are below the level of detection with standard techniques of traction-force microscopy.

  3. A coupled chemotaxis-fluid model: Global existence

    KAUST Repository

    Liu, Jian-Guo

    2011-09-01

    We consider a model arising from biology, consisting of chemotaxis equations coupled to viscous incompressible fluid equations through transport and external forcing. Global existence of solutions to the Cauchy problem is investigated under certain conditions. Precisely, for the chemotaxis-Navier- Stokes system in two space dimensions, we obtain global existence for large data. In three space dimensions, we prove global existence of weak solutions for the chemotaxis-Stokes system with nonlinear diffusion for the cell density.© 2011 Elsevier Masson SAS. All rights reserved.

  4. Fractional Diffusion Limit for Collisional Kinetic Equations

    KAUST Repository

    Mellet, Antoine

    2010-08-20

    This paper is devoted to diffusion limits of linear Boltzmann equations. When the equilibrium distribution function is a Maxwellian distribution, it is well known that for an appropriate time scale, the small mean free path limit gives rise to a diffusion equation. In this paper, we consider situations in which the equilibrium distribution function is a heavy-tailed distribution with infinite variance. We then show that for an appropriate time scale, the small mean free path limit gives rise to a fractional diffusion equation. © 2010 Springer-Verlag.

  5. The Riccati Differential Equation and a Diffusion-Type Equation

    CERN Document Server

    Suazo, Erwin; Vega-Guzman, Jose M

    2008-01-01

    We construct an explicit solution of the Cauchy initial value problem for certain diffusion-type equation with variable coefficients on the entire real line. The corresponding Green function (heat kernel) is given in terms of elementary functions and certain integrals involving a characteristic function, which should be found as an analytic or numerical solution of the second order linear differential equation with time-dependent coefficients. Some special and limiting cases are outlined. Solution of the corresponding nonhomogeneous equation is also found.

  6. Linearization of Systems of Nonlinear Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    KANG Jing; QU Chang-Zheng

    2007-01-01

    We investigate the linearization of systems of n-component nonlinear diffusion equations; such systems have physical applications in soil science, mathematical biology and invariant curve flows. Equivalence transformations of their auxiliary systems are used to identify the systems that can be linearized. We also provide several examples of systems with two-component equations, and show how to linearize them by nonlocal mappings.

  7. Diffusion phenomenon for linear dissipative wave equations

    KAUST Repository

    Said-Houari, Belkacem

    2012-01-01

    In this paper we prove the diffusion phenomenon for the linear wave equation. To derive the diffusion phenomenon, a new method is used. In fact, for initial data in some weighted spaces, we prove that for {equation presented} decays with the rate {equation presented} [0,1] faster than that of either u or v, where u is the solution of the linear wave equation with initial data {equation presented} [0,1], and v is the solution of the related heat equation with initial data v 0 = u 0 + u 1. This result improves the result in H. Yang and A. Milani [Bull. Sci. Math. 124 (2000), 415-433] in the sense that, under the above restriction on the initial data, the decay rate given in that paper can be improved by t -γ/2. © European Mathematical Society.

  8. Reaction diffusion equations with boundary degeneracy

    Directory of Open Access Journals (Sweden)

    Huashui Zhan

    2016-03-01

    Full Text Available In this article, we consider the reaction diffusion equation $$ \\frac{\\partial u}{\\partial t} = \\Delta A(u,\\quad (x,t\\in \\Omega \\times (0,T, $$ with the homogeneous boundary condition. Inspired by the Fichera-Oleinik theory, if the equation is not only strongly degenerate in the interior of $\\Omega$, but also degenerate on the boundary, we show that the solution of the equation is free from any limitation of the boundary condition.

  9. Discrete kinetic and lattice Boltzmann formulations for reaction cross-diffusion systems and their hyperbolic extensions in chemotaxis

    Science.gov (United States)

    Dellar, Paul

    2016-11-01

    We present discrete kinetic and lattice Boltzmann formulations for reaction cross-diffusion systems, as commonly used to model microbiological chemotaxis and macroscopic predator-prey interactions, and their hyperbolic extensions with fluid-like persistence terms. For example, the canonical Patlak-Keller-Segal model for chemotaxis involves a flux of cells up the gradient of a chemical secreted by the cells, in addition to the usual down-gradient diffusive fluxes. Existing lattice Boltzmann approaches for such systems use finite difference approximations to compute the flux of cells due to the chemical gradient. The resulting coupling between, and necessary synchronisation of the evolution of, adjacent grid points greatly complicates boundary conditions, and efficient implementation on graphical processing units (GPUs). We present a kinetic formulation using cross-collisions between bases of moments for the two sets of distribution functions to couple the fluxes of the two species, from which we construct lattice Boltzmann algorithms using second-order Strang splitting. We demonstrate an efficient GPU implementation, and verify second-order spatial convergence towards spectral solutions for benchmark problems such as the finite-time blow-up in the Patlak-Keller-Segal model.

  10. Fractional diffusion equation for heterogeneous medium

    Energy Technology Data Exchange (ETDEWEB)

    Polo L, M. A.; Espinosa M, E. G.; Espinosa P, G. [Universidad Autonoma Metropolitana, Unidad Iztapalapa, Area de Ingenieria en Recursos Energeticos, Av, San Rafael Atlixco 186, Col. Vicentina, 09340 Mexico D. F. (Mexico); Del Valle G, E., E-mail: plabarrios@hotmail.com [Instituto Politecnico Nacional, Escuela Superior de Fisica y Matematicas, Av. IPN s/n, Col. San Pedro Zacatenco, 07738 Mexico D. F. (Mexico)

    2011-11-15

    The asymptotic diffusion approximation for the Boltzmann (transport) equation was developed in 1950 decade in order to describe the diffusion of a particle in an isotropic medium, considers that the particles have a diffusion infinite velocity. In this work is developed a new approximation where is considered that the particles have a finite velocity, with this model is possible to describe the behavior in an anomalous medium. According with these ideas the model was obtained from the Fick law, where is considered that the temporal term of the current vector is not negligible. As a result the diffusion equation of fractional order which describes the dispersion of particles in a highly heterogeneous or disturbed medium is obtained, i.e., in a general medium. (Author)

  11. Langevin Equations for Reaction-Diffusion Processes

    Science.gov (United States)

    Benitez, Federico; Duclut, Charlie; Chaté, Hugues; Delamotte, Bertrand; Dornic, Ivan; Muñoz, Miguel A.

    2016-09-01

    For reaction-diffusion processes with at most bimolecular reactants, we derive well-behaved, numerically tractable, exact Langevin equations that govern a stochastic variable related to the response field in field theory. Using duality relations, we show how the particle number and other quantities of interest can be computed. Our work clarifies long-standing conceptual issues encountered in field-theoretical approaches and paves the way for systematic numerical and theoretical analyses of reaction-diffusion problems.

  12. Chemotaxis-fluid coupled model for swimming bacteria with nonlinear diffusion: Global existence and asymptotic behavior

    KAUST Repository

    Markowich, Peter

    2010-06-01

    We study the system ct + u · ∇c = ∇c -nf(c) nt + u · ∇n = ∇n m - ∇ · (n×(c) ∇c) ut + u·∇u + ∇P - η∇u + n∇φ/ = 0 ∇·u = 0. arising in the modelling of the motion of swimming bacteria under the effect of diffusion, oxygen-taxis and transport through an incompressible fluid. The novelty with respect to previous papers in the literature lies in the presence of nonlinear porous-medium-like diffusion in the equation for the density n of the bacteria, motivated by a finite size effect. We prove that, under the constraint m ε (3/2, 2] for the adiabatic exponent, such system features global in time solutions in two space dimensions for large data. Moreover, in the case m = 2 we prove that solutions converge to constant states in the large-time limit. The proofs rely on standard energy methods and on a basic entropy estimate which cannot be achieved in the case m = 1. The case m = 2 is very special as we can provide a Lyapounov functional. We generalize our results to the three-dimensional case and obtain a smaller range of exponents m ε (m*, 2] with m* > 3/2, due to the use of classical Sobolev inequalities.

  13. Relativistic diffusion equation from stochastic quantization

    CERN Document Server

    Kazinski, P O

    2007-01-01

    The new scheme of stochastic quantization is proposed. This quantization procedure is equivalent to the deformation of an algebra of observables in the manner of deformation quantization with an imaginary deformation parameter (the Planck constant). We apply this method to the models of nonrelativistic and relativistic particles interacting with an electromagnetic field. In the first case we establish the equivalence of such a quantization to the Fokker-Planck equation with a special force. The application of the proposed quantization procedure to the model of a relativistic particle results in a relativistic generalization of the Fokker-Planck equation in the coordinate space, which in the absence of the electromagnetic field reduces to the relativistic diffusion (heat) equation. The stationary probability distribution functions for a stochastically quantized particle diffusing under a barrier and a particle in the potential of a harmonic oscillator are derived.

  14. Analysis of discrete reaction-diffusion equations for autocatalysis and continuum diffusion equations for transport

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Chi-Jen [Iowa State Univ., Ames, IA (United States)

    2013-01-01

    In this thesis, we analyze both the spatiotemporal behavior of: (A) non-linear “reaction” models utilizing (discrete) reaction-diffusion equations; and (B) spatial transport problems on surfaces and in nanopores utilizing the relevant (continuum) diffusion or Fokker-Planck equations. Thus, there are some common themes in these studies, as they all involve partial differential equations or their discrete analogues which incorporate a description of diffusion-type processes. However, there are also some qualitative differences, as shall be discussed below.

  15. Lotka-Volterra equations with chemotaxis: walls, barriers and travelling waves.

    Science.gov (United States)

    Pettet, G J; McElwain, D L; Norbury, J

    2000-12-01

    In this paper we consider a simple two species model for the growth of new blood vessels. The model is based upon the Lotka-Volterra system of predator and prey interaction, where we identify newly developed capillary tips as the predator species and a chemoattractant which directs their motion as the prey. We extend the Lotka-Volterra system to include a one-dimensional spatial dependence, by allowing the predators to migrate in a manner modelled on the phenomenon of chemotaxis. A feature of this model is its potential to support travelling wave solutions. We emphasize that in order to determine the existence of such travelling waves it is essential that the global relationships of a number of phase plane features other than the equilibria be investigated.

  16. Logarithmic diffusion and porous media equations: a unified description.

    Science.gov (United States)

    Pedron, I T; Mendes, R S; Buratta, T J; Malacarne, L C; Lenzi, E K

    2005-09-01

    In this work we present the logarithmic diffusion equation as a limit case when the index that characterizes a nonlinear Fokker-Planck equation, in its diffusive term, goes to zero. A linear drift and a source term are considered in this equation. Its solution has a Lorentzian form, consequently this equation characterizes a superdiffusion like a Lévy kind. In addition an equation that unifies the porous media and the logarithmic diffusion equations, including a generalized diffusion equation in fractal dimension, is obtained. This unification is performed in the nonextensive thermostatistics context and increases the possibilities about the description of anomalous diffusive processes.

  17. Amplitude equations for isothermal double diffusive convection

    Energy Technology Data Exchange (ETDEWEB)

    Becerril, R.; Swift, J.B. [Center for Nonlinear Dynamics and Department of Physics, University of Texas, Austin, Texas 78712 (United States)

    1997-05-01

    Amplitude equations are derived for isothermal double diffusive convection near threshold for both the stationary and oscillatory instabilities as well as in the vicinity of the codimension-2 point. The convecting fluid is contained in a thin Hele-Shaw cell that renders the system two dimensional, and convection is sustained by vertical concentration gradients of two species with different diffusion rates. The locations of the tricritical point for the stationary instability and the codimension-2 point are found. It is shown that these points can be made well separated (in the Rayleigh number R{sub s} of the slow diffusing species) as the Lewis number varies. Hence the behavior near these points should be experimentally accessible. {copyright} {ital 1997} {ital The American Physical Society}

  18. Entropy methods for diffusive partial differential equations

    CERN Document Server

    Jüngel, Ansgar

    2016-01-01

    This book presents a range of entropy methods for diffusive PDEs devised by many researchers in the course of the past few decades, which allow us to understand the qualitative behavior of solutions to diffusive equations (and Markov diffusion processes). Applications include the large-time asymptotics of solutions, the derivation of convex Sobolev inequalities, the existence and uniqueness of weak solutions, and the analysis of discrete and geometric structures of the PDEs. The purpose of the book is to provide readers an introduction to selected entropy methods that can be found in the research literature. In order to highlight the core concepts, the results are not stated in the widest generality and most of the arguments are only formal (in the sense that the functional setting is not specified or sufficient regularity is supposed). The text is also suitable for advanced master and PhD students and could serve as a textbook for special courses and seminars.

  19. The Lie algebra of infinitesimal symmetries of nonlinear diffusion equations

    NARCIS (Netherlands)

    Kersten, Paul H.M.; Gragert, Peter K.H.

    1983-01-01

    By using developed software for solving overdetermined systems of partial differential equations, the authors establish the complete Lie algebra of infinitesimal symmetries of nonlinear diffusion equations.

  20. A multiple-relaxation-time lattice-boltzmann model for bacterial chemotaxis: effects of initial concentration, diffusion, and hydrodynamic dispersion on traveling bacterial bands.

    Science.gov (United States)

    Yan, Zhifeng; Hilpert, Markus

    2014-10-01

    Bacterial chemotaxis can enhance the bioremediation of contaminants in aqueous and subsurface environments if the contaminant is a chemoattractant that the bacteria degrade. The process can be promoted by traveling bands of chemotactic bacteria that form due to metabolism-generated gradients in chemoattractant concentration. We developed a multiple-relaxation-time (MRT) lattice-Boltzmann method (LBM) to model chemotaxis, because LBMs are well suited to model reactive transport in the complex geometries that are typical for subsurface porous media. This MRT-LBM can attain a better numerical stability than its corresponding single-relaxation-time LBM. We performed simulations to investigate the effects of substrate diffusion, initial bacterial concentration, and hydrodynamic dispersion on the formation, shape, and propagation of bacterial bands. Band formation requires a sufficiently high initial number of bacteria and a small substrate diffusion coefficient. Uniform flow does not affect the bands while shear flow does. Bacterial bands can move both upstream and downstream when the flow velocity is small. However, the bands disappear once the velocity becomes too large due to hydrodynamic dispersion. Generally bands can only be observed if the dimensionless ratio between the chemotactic sensitivity coefficient and the effective diffusion coefficient of the bacteria exceeds a critical value, that is, when the biased movement due to chemotaxis overcomes the diffusion-like movement due to the random motility and hydrodynamic dispersion.

  1. Turbulence and diffusion scaling versus equations

    CERN Document Server

    Bakunin, Oleg G

    2008-01-01

    This book is an introduction to the multidisciplinary field of anomalous diffusion in complex systems, with emphasis on the scaling approach as opposed to techniques based on the quantitative analysis of underlying transport equations. Typical examples of such systems are turbulent plasmas, convective rolls, zonal flow systems and stochastic magnetic fields. From the more methodological point of view, the approach relies on the general use of correlations estimates, quasilinear equations and continuous time random walk techniques. Yet, the mathematical descriptions are not meant to become a fixed set of recipes but rather develop and strengthen the reader's physical intuition and understanding on the underlying mechanisms involved. Most of the material stems from class-tested lectures, where graduate students where assumed to have a working knowledge of classical physics, fluid dynamics and plasma physics but otherwise no prior knowledge of the subject matter is assumed from the side of the reader.

  2. Biomixing by chemotaxis and efficiency of biological reactions: The critical reaction case

    Science.gov (United States)

    Kiselev, Alexander; Ryzhik, Lenya

    2012-11-01

    Many phenomena in biology involve both reactions and chemotaxis. These processes can clearly influence each other, and chemotaxis can play an important role in sustaining and speeding up the reaction. In continuation of our work [A. Kiselev and L. Ryzhik, "Biomixing by chemotaxis and enhancement of biological reactions," Comm. Partial Differential Equations 37, 298-318 (2012)], 10.1080/03605302.2011.589879, we consider a model with a single density function involving diffusion, advection, chemotaxis, and absorbing reaction. The model is motivated, in particular, by the studies of coral broadcast spawning, where experimental observations of the efficiency of fertilization rates significantly exceed the data obtained from numerical models that do not take chemotaxis (attraction of sperm gametes by a chemical secreted by egg gametes) into account. We consider the case of the weakly coupled quadratic reaction term, which is the most natural from the biological point of view and was left open in Kiselev and Ryzhik ["Biomixing by chemotaxis and enhancement of biological reactions," Comm. Partial Differential Equations 37, 298-318 (2012)], 10.1080/03605302.2011.589879. The result is that similarly to Kiselev and Ryzhik ["Biomixing by chemotaxis and enhancement of biological reactions," Comm. Partial Differential Equations 37, 298-318 (2012)], 10.1080/03605302.2011.589879, the chemotaxis plays a crucial role in ensuring efficiency of reaction. However, mathematically, the picture is quite different in the quadratic reaction case and is more subtle. The reaction is now complete even in the absence of chemotaxis, but the timescales are very different. Without chemotaxis, the reaction is very slow, especially for the weak reaction coupling. With chemotaxis, the timescale and efficiency of reaction are independent of the coupling parameter.

  3. FRACTIONAL DIFFUSION EQUATIONS WITH INTERNAL DEGREES OF FREEDOM

    Institute of Scientific and Technical Information of China (English)

    Luis Vázquez

    2003-01-01

    We present a generalization of the linear one-dimensional diffusion equation by combining the fractional derivatives and the internal degrees of freedom. The solutions are constructed from those of the scalar fractional diffusion equation. We analyze the interpolation between the standard diffusion and wave equations defined by the fractional derivatives. Our main result is that we can define a diffusion process depending on the internal degrees of freedom associated to the system.

  4. Nonlocal diffusion second order partial differential equations

    Science.gov (United States)

    Benedetti, I.; Loi, N. V.; Malaguti, L.; Taddei, V.

    2017-02-01

    The paper deals with a second order integro-partial differential equation in Rn with a nonlocal, degenerate diffusion term. Nonlocal conditions, such as the Cauchy multipoint and the weighted mean value problem, are investigated. The existence of periodic solutions is also studied. The dynamic is transformed into an abstract setting and the results come from an approximation solvability method. It combines a Schauder degree argument with an Hartman-type inequality and it involves a Scorza-Dragoni type result. The compact embedding of a suitable Sobolev space in the corresponding Lebesgue space is the unique amount of compactness which is needed in this discussion. The solutions are located in bounded sets and they are limits of functions with values in finitely dimensional spaces.

  5. Distributed-order diffusion equations and multifractality: Models and solutions

    Science.gov (United States)

    Sandev, Trifce; Chechkin, Aleksei V.; Korabel, Nickolay; Kantz, Holger; Sokolov, Igor M.; Metzler, Ralf

    2015-10-01

    We study distributed-order time fractional diffusion equations characterized by multifractal memory kernels, in contrast to the simple power-law kernel of common time fractional diffusion equations. Based on the physical approach to anomalous diffusion provided by the seminal Scher-Montroll-Weiss continuous time random walk, we analyze both natural and modified-form distributed-order time fractional diffusion equations and compare the two approaches. The mean squared displacement is obtained and its limiting behavior analyzed. We derive the connection between the Wiener process, described by the conventional Langevin equation and the dynamics encoded by the distributed-order time fractional diffusion equation in terms of a generalized subordination of time. A detailed analysis of the multifractal properties of distributed-order diffusion equations is provided.

  6. Entropy Solution Theory for Fractional Degenerate Convection-Diffusion Equations

    CERN Document Server

    Jakobsen, Simone Cifani And Espen R

    2010-01-01

    We study a class of degenerate convection diffusion equations with a fractional nonlinear diffusion term. These equations are natural generalizations of anomalous diffusion equations, fractional conservations laws, local convection diffusion equations, and some fractional Porous medium equations. In this paper we define weak entropy solutions for this class of equations and prove well-posedness under weak regularity assumptions on the solutions, e.g. uniqueness is obtained in the class of bounded integrable functions. Then we introduce a monotone conservative numerical scheme and prove convergence toward an Entropy solution in the class of bounded integrable functions of bounded variation. We then extend the well-posedness results to non-local terms based on general L\\'evy type operators, and establish some connections to fully non-linear HJB equations. Finally, we present some numerical experiments to give the reader an idea about the qualitative behavior of solutions of these equations.

  7. Voter Model Perturbations and Reaction Diffusion Equations

    CERN Document Server

    Cox, J Theodore; Perkins, Edwin

    2011-01-01

    We consider particle systems that are perturbations of the voter model and show that when space and time are rescaled the system converges to a solution of a reaction diffusion equation in dimensions $d \\ge 3$. Combining this result with properties of the PDE, some methods arising from a low density super-Brownian limit theorem, and a block construction, we give general, and often asymptotically sharp, conditions for the existence of non-trivial stationary distributions, and for extinction of one type. As applications, we describe the phase diagrams of three systems when the parameters are close to the voter model: (i) a stochastic spatial Lotka-Volterra model of Neuhauser and Pacala, (ii) a model of the evolution of cooperation of Ohtsuki, Hauert, Lieberman, and Nowak, and (iii) a continuous time version of the non-linear voter model of Molofsky, Durrett, Dushoff, Griffeath, and Levin. The first application confirms a conjecture of Cox and Perkins and the second confirms a conjecture of Ohtsuki et al in the ...

  8. QUENCHING PROBLEMS OF DEGENERATE FUNCTIONAL REACTION-DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    This paper is concerned with the quenching problem of a degenerate functional reaction-diffusion equation. The quenching problem and global existence of solution for the reaction-diffusion equation are derived and, some results of the positive steady state solutions for functional elliptic boundary value are also presented.

  9. The Non-Classical Boltzmann Equation, and Diffusion-Based Approximations to the Boltzmann Equation

    CERN Document Server

    Frank, Martin; Larsen, Edward W; Vasques, Richard

    2014-01-01

    We show that several diffusion-based approximations (classical diffusion or SP1, SP2, SP3) to the linear Boltzmann equation can (for an infinite, homogeneous medium) be represented exactly by a non-classical transport equation. As a consequence, we indicate a method to solve diffusion-based approximations to the Boltzmann equation via Monte Carlo, with only statistical errors - no truncation errors.

  10. The finite element method solution of variable diffusion coefficient convection-diffusion equations

    Science.gov (United States)

    Aydin, Selçuk Han; ćiftçi, Canan

    2012-08-01

    Mathematical modeling of many physical and engineering problems is defined with convection-diffusion equation. Therefore, there are many analytic and numeric studies about convection-diffusion equation in literature. The finite element method is the most preferred numerical method in these studies since it can be applied to many problems easily. But, most of the studies in literature are about constant coefficient case of the convection-diffusion equation. In this study, the finite element formulation of the variable coefficient case of the convection-diffusion equation is given in both one and two dimensional cases. Accuracy of the obtained formulations are tested on some problems in one and two dimensions.

  11. Symmetry classification of time-fractional diffusion equation

    Science.gov (United States)

    Naeem, I.; Khan, M. D.

    2017-01-01

    In this article, a new approach is proposed to construct the symmetry groups for a class of fractional differential equations which are expressed in the modified Riemann-Liouville fractional derivative. We perform a complete group classification of a nonlinear fractional diffusion equation which arises in fractals, acoustics, control theory, signal processing and many other applications. Introducing the suitable transformations, the fractional derivatives are converted to integer order derivatives and in consequence the nonlinear fractional diffusion equation transforms to a partial differential equation (PDE). Then the Lie symmetries are computed for resulting PDE and using inverse transformations, we derive the symmetries for fractional diffusion equation. All cases are discussed in detail and results for symmetry properties are compared for different values of α. This study provides a new way of computing symmetries for a class of fractional differential equations.

  12. The Riccati System and a Diffusion-Type Equation

    Directory of Open Access Journals (Sweden)

    Erwin Suazo

    2014-05-01

    Full Text Available We discuss a method of constructing solutions of the initial value problem for diffusion-type equations in terms of solutions of certain Riccati and Ermakov-type systems. A nonautonomous Burgers-type equation is also considered. Examples include, but are not limited to the Fokker-Planck equation in physics, the Black-Scholes equation and the Hull-White model in finance.

  13. Monotone method for initial value problem for fractional diffusion equation

    Institute of Scientific and Technical Information of China (English)

    ZHANG Shuqin

    2006-01-01

    Using the method of upper and lower solutions and its associated monotone iterative, consider the existence and uniqueness of solution of an initial value problem for the nonlinear fractional diffusion equation.

  14. LAGRANGE STABILITY IN MEAN SQUARE OF STOCHASTIC REACTION DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    This work is devoted to the discussion of stochastic reaction diffusion equations and some new theorems on Lagrange stability in mean square of the solution are established via Lyapunov method which is nothing to be done in the past.

  15. Solutions of fractional diffusion equations by variation of parameters method

    Directory of Open Access Journals (Sweden)

    Mohyud-Din Syed Tauseef

    2015-01-01

    Full Text Available This article is devoted to establish a novel analytical solution scheme for the fractional diffusion equations. Caputo’s formulation followed by the variation of parameters method has been employed to obtain the analytical solutions. Following the derived analytical scheme, solution of the fractional diffusion equation for several initial functions has been obtained. Graphs are plotted to see the physical behavior of obtained solutions.

  16. Notes on Stefan-Maxwell Equation versus Grahan's Diffusion Law

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    Certain prerequisite information on the component fluxes is necessary for solution of the Stefan-Maxwell equation in multicomponent diffusion systems and the Graham's law of diffusion and effusion is often resorted for this purpose. This article addresses solution of the Stefan-Maxwell equation in binary gas systems and explores the necessary conditions for definite solution of concentration profiles and pertinent component fluxes. It is found that there are multiple solutions for component fluxes in contradiction to what specified by the Graham's law of diffusion. The theorem of minimum entropy production in the non-equilibrium thermodynamics is believed instructive in determining the stable steady state solution out of infinite multiple solutions possible under the specified conditions. It is suggested that only when the boundary condition of component concentration is symmetrical in an isothermal binary system, the counter-diffusion becomes equimolar. The Graham's law of diffusion seems not generally valid for the case of isothermal ordinary diffusion.

  17. A Fluctuating Lattice Boltzmann Method for the Diffusion Equation

    CERN Document Server

    Wagner, Alexander J

    2016-01-01

    We derive a fluctuating lattice Boltzmann method for the diffusion equation. The derivation removes several shortcomings of previous derivations for fluctuating lattice Boltzmann methods for hydrodynamic systems. The comparative simplicity of this diffusive system highlights the basic features of this first exact derivation of a fluctuating lattice Boltzmann method.

  18. BOUNDARY LAYER AND VANISHING DIFFUSION LIMIT FOR NONLINEAR EVOLUTION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    彭艳

    2014-01-01

    In this paper, we consider an initial-boundary value problem for some nonlinear evolution equations with damping and diffusion. The main purpose is to investigate the boundary layer effect and the convergence rates as the diffusion parameterαgoes to zero.

  19. TRAJECTORY ATTRACTORS FOR NONCLASSICAL DIFFUSION EQUATIONS WITH FADING MEMORY

    Institute of Scientific and Technical Information of China (English)

    Yonghai WANG; Lingzhi WANG

    2013-01-01

    In this article,we consider the existence of trajectory and global attractors for nonclassical diffusion equations with linear fading memory.For this purpose,we will apply the method presented by Chepyzhov and Miranville [7,8],in which the authors provide some new ideas in describing the trajectory attractors for evolution equations with memory.

  20. The numerical simulation of convection delayed dominated diffusion equation

    Directory of Open Access Journals (Sweden)

    Mohan Kumar P. Murali

    2016-01-01

    Full Text Available In this paper, we propose a fitted numerical method for solving convection delayed dominated diffusion equation. A fitting factor is introduced and the model equation is discretized by cubic spline method. The error analysis is analyzed for the consider problem. The numerical examples are solved using the present method and compared the result with the exact solution.

  1. Langevin equation approach to diffusion magnetic resonance imaging.

    Science.gov (United States)

    Cooke, Jennie M; Kalmykov, Yuri P; Coffey, William T; Kerskens, Christian M

    2009-12-01

    The normal phase diffusion problem in magnetic resonance imaging (MRI) is treated by means of the Langevin equation for the phase variable using only the properties of the characteristic function of Gaussian random variables. The calculation may be simply extended to anomalous diffusion using a fractional generalization of the Langevin equation proposed by Lutz [E. Lutz, Phys. Rev. E 64, 051106 (2001)] pertaining to the fractional Brownian motion of a free particle coupled to a fractal heat bath. The results compare favorably with diffusion-weighted experiments acquired in human neuronal tissue using a 3 T MRI scanner.

  2. Non-Markovian diffusion equations and processes: analysis and simulations

    CERN Document Server

    Mura, Antonio; Mainardi, Francesco

    2007-01-01

    In this paper we introduce and analyze a class of diffusion type equations related to certain non-Markovian stochastic processes. We start from the forward drift equation which is made non-local in time by the introduction of a suitable chosen memory kernel K(t). The resulting non-Markovian equation can be interpreted in a natural way as the evolution equation of the marginal density function of a random time process l(t). We then consider the subordinated process Y(t)=X(l(t)) where X(t) is a Markovian diffusion. The corresponding time-evolution of the marginal density function of Y(t) is governed by a non-Markovian Fokker-Planck equation which involves the memory kernel K(t). We develop several applications and derive the exact solutions. We consider different stochastic models for the given equations providing path simulations.

  3. Higher Order and Fractional Diffusive Equations

    Directory of Open Access Journals (Sweden)

    D. Assante

    2015-07-01

    Full Text Available We discuss the solution of various generalized forms of the Heat Equation, by means of different tools ranging from the use of Hermite-Kampé de Fériet polynomials of higher and fractional order to operational techniques. We show that these methods are useful to obtain either numerical or analytical solutions.

  4. Exact solutions of some coupled nonlinear diffusion-reaction equations using auxiliary equation method

    Indian Academy of Sciences (India)

    Ranjit Kumar

    2012-09-01

    Travelling and solitary wave solutions of certain coupled nonlinear diffusion-reaction equations have been constructed using the auxiliary equation method. These equations arise in a variety of contexts not only in biological, chemical and physical sciences but also in ecological and social sciences.

  5. Semianalytic Solution of Space-Time Fractional Diffusion Equation

    Directory of Open Access Journals (Sweden)

    A. Elsaid

    2016-01-01

    Full Text Available We study the space-time fractional diffusion equation with spatial Riesz-Feller fractional derivative and Caputo fractional time derivative. The continuation of the solution of this fractional equation to the solution of the corresponding integer order equation is proved. The series solution of this problem is obtained via the optimal homotopy analysis method (OHAM. Numerical simulations are presented to validate the method and to show the effect of changing the fractional derivative parameters on the solution behavior.

  6. Exact solutions for logistic reaction-diffusion equations in biology

    Science.gov (United States)

    Broadbridge, P.; Bradshaw-Hajek, B. H.

    2016-08-01

    Reaction-diffusion equations with a nonlinear source have been widely used to model various systems, with particular application to biology. Here, we provide a solution technique for these types of equations in N-dimensions. The nonclassical symmetry method leads to a single relationship between the nonlinear diffusion coefficient and the nonlinear reaction term; the subsequent solutions for the Kirchhoff variable are exponential in time (either growth or decay) and satisfy the linear Helmholtz equation in space. Example solutions are given in two dimensions for particular parameter sets for both quadratic and cubic reaction terms.

  7. Singular solutions of the diffusion equation of population genetics.

    Science.gov (United States)

    McKane, A J; Waxman, D

    2007-08-21

    The forward diffusion equation for gene frequency dynamics is solved subject to the condition that the total probability is conserved at all times. This can lead to solutions developing singular spikes (Dirac delta functions) at the gene frequencies 0 and 1. When such spikes appear in solutions they signal gene loss or gene fixation, with the "weight" associated with the spikes corresponding to the probability of loss or fixation. The forward diffusion equation is thus solved for all gene frequencies, namely the absorbing frequencies of 0 and 1 along with the continuous range of gene frequencies on the interval (0,1) that excludes the frequencies of 0 and 1. Previously, the probabilities of the absorbing frequencies of 0 and 1 were found by appeal to the backward diffusion equation, while those in the continuous range (0,1) were found from the forward diffusion equation. Our unified approach does not require two separate equations for a complete dynamical treatment of all gene frequencies within a diffusion approximation framework. For cases involving mutation, migration and selection, it is shown that a property of the deterministic part of gene frequency dynamics determines when fixation and loss can occur. It is also shown how solution of the forward equation, at long times, leads to the standard result for the fixation probability.

  8. Linear fractional diffusion-wave equation for scientists and engineers

    CERN Document Server

    Povstenko, Yuriy

    2015-01-01

    This book systematically presents solutions to the linear time-fractional diffusion-wave equation. It introduces the integral transform technique and discusses the properties of the Mittag-Leffler, Wright, and Mainardi functions that appear in the solutions. The time-nonlocal dependence between the flux and the gradient of the transported quantity with the “long-tail” power kernel results in the time-fractional diffusion-wave equation with the Caputo fractional derivative. Time-nonlocal generalizations of classical Fourier’s, Fick’s and Darcy’s laws are considered and different kinds of boundary conditions for this equation are discussed (Dirichlet, Neumann, Robin, perfect contact). The book provides solutions to the fractional diffusion-wave equation with one, two and three space variables in Cartesian, cylindrical and spherical coordinates. The respective sections of the book can be used for university courses on fractional calculus, heat and mass transfer, transport processes in porous media and ...

  9. From Newton's Equation to Fractional Diffusion and Wave Equations

    Directory of Open Access Journals (Sweden)

    Vázquez Luis

    2011-01-01

    Full Text Available Fractional calculus represents a natural instrument to model nonlocal (or long-range dependence phenomena either in space or time. The processes that involve different space and time scales appear in a wide range of contexts, from physics and chemistry to biology and engineering. In many of these problems, the dynamics of the system can be formulated in terms of fractional differential equations which include the nonlocal effects either in space or time. We give a brief, nonexhaustive, panoramic view of the mathematical tools associated with fractional calculus as well as a description of some fields where either it is applied or could be potentially applied.

  10. Lattice Boltzmann method for the fractional advection-diffusion equation

    Science.gov (United States)

    Zhou, J. G.; Haygarth, P. M.; Withers, P. J. A.; Macleod, C. J. A.; Falloon, P. D.; Beven, K. J.; Ockenden, M. C.; Forber, K. J.; Hollaway, M. J.; Evans, R.; Collins, A. L.; Hiscock, K. M.; Wearing, C.; Kahana, R.; Villamizar Velez, M. L.

    2016-04-01

    Mass transport, such as movement of phosphorus in soils and solutes in rivers, is a natural phenomenon and its study plays an important role in science and engineering. It is found that there are numerous practical diffusion phenomena that do not obey the classical advection-diffusion equation (ADE). Such diffusion is called abnormal or superdiffusion, and it is well described using a fractional advection-diffusion equation (FADE). The FADE finds a wide range of applications in various areas with great potential for studying complex mass transport in real hydrological systems. However, solution to the FADE is difficult, and the existing numerical methods are complicated and inefficient. In this study, a fresh lattice Boltzmann method is developed for solving the fractional advection-diffusion equation (LabFADE). The FADE is transformed into an equation similar to an advection-diffusion equation and solved using the lattice Boltzmann method. The LabFADE has all the advantages of the conventional lattice Boltzmann method and avoids a complex solution procedure, unlike other existing numerical methods. The method has been validated through simulations of several benchmark tests: a point-source diffusion, a boundary-value problem of steady diffusion, and an initial-boundary-value problem of unsteady diffusion with the coexistence of source and sink terms. In addition, by including the effects of the skewness β , the fractional order α , and the single relaxation time τ , the accuracy and convergence of the method have been assessed. The numerical predictions are compared with the analytical solutions, and they indicate that the method is second-order accurate. The method presented will allow the FADE to be more widely applied to complex mass transport problems in science and engineering.

  11. Lattice Boltzmann method for the fractional advection-diffusion equation.

    Science.gov (United States)

    Zhou, J G; Haygarth, P M; Withers, P J A; Macleod, C J A; Falloon, P D; Beven, K J; Ockenden, M C; Forber, K J; Hollaway, M J; Evans, R; Collins, A L; Hiscock, K M; Wearing, C; Kahana, R; Villamizar Velez, M L

    2016-04-01

    Mass transport, such as movement of phosphorus in soils and solutes in rivers, is a natural phenomenon and its study plays an important role in science and engineering. It is found that there are numerous practical diffusion phenomena that do not obey the classical advection-diffusion equation (ADE). Such diffusion is called abnormal or superdiffusion, and it is well described using a fractional advection-diffusion equation (FADE). The FADE finds a wide range of applications in various areas with great potential for studying complex mass transport in real hydrological systems. However, solution to the FADE is difficult, and the existing numerical methods are complicated and inefficient. In this study, a fresh lattice Boltzmann method is developed for solving the fractional advection-diffusion equation (LabFADE). The FADE is transformed into an equation similar to an advection-diffusion equation and solved using the lattice Boltzmann method. The LabFADE has all the advantages of the conventional lattice Boltzmann method and avoids a complex solution procedure, unlike other existing numerical methods. The method has been validated through simulations of several benchmark tests: a point-source diffusion, a boundary-value problem of steady diffusion, and an initial-boundary-value problem of unsteady diffusion with the coexistence of source and sink terms. In addition, by including the effects of the skewness β, the fractional order α, and the single relaxation time τ, the accuracy and convergence of the method have been assessed. The numerical predictions are compared with the analytical solutions, and they indicate that the method is second-order accurate. The method presented will allow the FADE to be more widely applied to complex mass transport problems in science and engineering.

  12. From State Dependent Diffusion to Constant Diffusion in Stochastic Differential Equations by the Lamperti Transform

    DEFF Research Database (Denmark)

    Møller, Jan Kloppenborg; Madsen, Henrik

    This report describes methods to eliminate state dependent diffusion terms in Stochastic Differential Equations (SDEs). Transformations that leave the diffusion term of SDEs constant is important for simulation, and estimation. It is important for simulation because the Euler approximation...... convergence rate is faster, and for estimation because the Extended Kalman Filter equations are easier to implement than higher order filters needed in the case of state dependent diffusion terms. The general class of transformations which leaves the diffusion term independent of the state is called...

  13. Image segmentation and edge enhancement with stabilized inverse diffusion equations.

    Science.gov (United States)

    Pollak, I; Willsky, A S; Krim, H

    2000-01-01

    We introduce a family of first-order multidimensional ordinary differential equations (ODEs) with discontinuous right-hand sides and demonstrate their applicability in image processing. An equation belonging to this family is an inverse diffusion everywhere except at local extrema, where some stabilization is introduced. For this reason, we call these equations "stabilized inverse diffusion equations" (SIDEs). Existence and uniqueness of solutions, as well as stability, are proven for SIDEs. A SIDE in one spatial dimension may be interpreted as a limiting case of a semi-discretized Perona-Malik equation. In an experiment, SIDE's are shown to suppress noise while sharpening edges present in the input signal. Their application to image segmentation is also demonstrated.

  14. Multi-diffusive nonlinear Fokker-Planck equation

    Science.gov (United States)

    Ribeiro, Mauricio S.; Casas, Gabriela A.; Nobre, Fernando D.

    2017-02-01

    Nonlinear Fokker-Planck equations, characterized by more than one diffusion term, have appeared recently in literature. Here, it is shown that these equations may be derived either from approximations in a master equation, or from a Langevin-type approach. An H-theorem is proven, relating these Fokker-Planck equations to an entropy composed by a sum of contributions, each of them associated with a given diffusion term. Moreover, the stationary state of the Fokker-Planck equation is shown to coincide with the equilibrium state, obtained by extremization of the entropy, in the sense that both procedures yield precisely the same equation. Due to the nonlinear character of this equation, the equilibrium probability may be obtained, in most cases, only by means of numerical approaches. Some examples are worked out, where the equilibrium probability distribution is computed for nonlinear Fokker-Planck equations presenting two diffusion terms, corresponding to an entropy characterized by a sum of two contributions. It is shown that the resulting equilibrium distribution, in general, presents a form that differs from a sum of the equilibrium distributions that maximizes each entropic contribution separately, although in some cases one may construct such a linear combination as a good approximation for the equilibrium distribution.

  15. Diffusion-equation method for crystallographic figure of merits.

    Science.gov (United States)

    Markvardsen, Anders J; David, William I F

    2010-09-01

    Global optimization methods play a significant role in crystallography, particularly in structure solution from powder diffraction data. This paper presents the mathematical foundations for a diffusion-equation-based optimization method. The diffusion equation is best known for describing how heat propagates in matter. However, it has also attracted considerable attention as the basis for global optimization of a multimodal function [Piela et al. (1989). J. Phys. Chem. 93, 3339-3346]. The method relies heavily on available analytical solutions for the diffusion equation. Here it is shown that such solutions can be obtained for two important crystallographic figure-of-merit (FOM) functions that fully account for space-group symmetry and allow the diffusion-equation solution to vary depending on whether atomic coordinates are fixed or not. The resulting expression is computationally efficient, taking the same order of floating-point operations to evaluate as the starting FOM function measured in terms of the number of atoms in the asymmetric unit. This opens the possibility of implementing diffusion-equation methods for crystallographic global optimization algorithms such as structure determination from powder diffraction data.

  16. Smoothing and Decay Estimates for Nonlinear Diffusion Equations Equations of Porous Medium Type

    CERN Document Server

    Vázquez, Juan Luis

    2006-01-01

    This text is concerned with the quantitative aspects of the theory of nonlinear diffusion equations; equations which can be seen as nonlinear variations of the classical heat equation. They appear as mathematical models in different branches of Physics, Chemistry, Biology, and Engineering, and are also relevant in differential geometry and relativistic physics. Much of the modern theory of such equations is based on estimates and functional analysis.Concentrating on a class of equations with nonlinearities of power type that lead to degenerate or singular parabolicity ("equations of porou

  17. Collapsing behaviour of a singular diffusion equation

    CERN Document Server

    Hui, Kin Ming

    2009-01-01

    Let $0\\le u_0(x)\\in L^1(\\R^2)\\cap L^{\\infty}(\\R^2)$ be such that $u_0(x) =u_0(|x|)$ for all $|x|\\ge r_1$ and is monotone decreasing for all $|x|\\ge r_1$ for some constant $r_1>0$ and ${ess}\\inf_{\\2{B}_{r_1}(0)}u_0\\ge{ess} \\sup_{\\R^2\\setminus B_{r_2}(0)}u_0$ for some constant $r_2>r_1$. Then under some mild decay conditions at infinity on the initial value $u_0$ we will extend the result of P. Daskalopoulos, M.A. del Pino and N. Sesum \\cite{DP2}, \\cite{DS}, and prove the collapsing behaviour of the maximal solution of the equation $u_t=\\Delta\\log u$ in $\\R^2\\times (0,T)$, $u(x,0)=u_0(x)$ in $\\R^2$, near its extinction time $T=\\int_{R^2}u_0dx/4\\pi$.

  18. Continuity, the Bloch-Torrey equation, and Diffusion MRI

    CERN Document Server

    Hall, Matt G

    2016-01-01

    The Bloch equation describes the evolution of classical particles tagged with a magnetisation vector in a strong magnetic field and is fundamental to many NMR and MRI contrast methods. The equation can be generalised to include the effects of spin motion by including a spin flux, which typically contains a Fickian diffusive term and/or a coherent velocity term. This form is known as the Bloch-Torrey equation, and is fundamental to MR modalities which are sensitive to spin dynamics such as diffusion MRI. Such modalities have received a great deal of interest in the research literature over the last few years, resulting in a huge range of models and methods. In this work we make make use of a more general Bloch-Torrey equation with a generalised flux term. We show that many commonly employed approaches in Diffusion MRI may be viewed as different choices for the flux terms in this equation. This viewpoint, although obvious theoretically, is not usually emphasised in the diffusion MR literature and points to inte...

  19. The Nonclassical Diffusion Approximation to the Nonclassical Linear Boltzmann Equation

    CERN Document Server

    Vasques, Richard

    2015-01-01

    We show that, by correctly selecting the probability distribution function $p(s)$ for a particle's distance-to-collision, the nonclassical diffusion equation can be represented exactly by the nonclassical linear Boltzmann equation for an infinite homogeneous medium. This choice of $p(s)$ preserves the $true$ mean-squared free path of the system, which sheds new light on the results obtained in previous work.

  20. A numerical solution for the diffusion equation in hydrogeologic systems

    Science.gov (United States)

    Ishii, A.L.; Healy, R.W.; Striegl, R.G.

    1989-01-01

    The documentation of a computer code for the numerical solution of the linear diffusion equation in one or two dimensions in Cartesian or cylindrical coordinates is presented. Applications of the program include molecular diffusion, heat conduction, and fluid flow in confined systems. The flow media may be anisotropic and heterogeneous. The model is formulated by replacing the continuous linear diffusion equation by discrete finite-difference approximations at each node in a block-centered grid. The resulting matrix equation is solved by the method of preconditioned conjugate gradients. The conjugate gradient method does not require the estimation of iteration parameters and is guaranteed convergent in the absence of rounding error. The matrixes are preconditioned to decrease the steps to convergence. The model allows the specification of any number of boundary conditions for any number of stress periods, and the output of a summary table for selected nodes showing flux and the concentration of the flux quantity for each time step. The model is written in a modular format for ease of modification. The model was verified by comparison of numerical and analytical solutions for cases of molecular diffusion, two-dimensional heat transfer, and axisymmetric radial saturated fluid flow. Application of the model to a hypothetical two-dimensional field situation of gas diffusion in the unsaturated zone is demonstrated. The input and output files are included as a check on program installation. The definition of variables, input requirements, flow chart, and program listing are included in the attachments. (USGS)

  1. Explicit solutions of fractional diffusion equations via Generalized Gamma Convolution

    CERN Document Server

    D'Ovidio, Mirko

    2010-01-01

    In this paper we deal with Mellin convolution of generalized Gamma densities which brings to integrals of modified Bessel functions of the second kind. Such convolutions allow us to write explicitly the solutions of the time-fractional diffusion equations involving the adjoint operators of a square Bessel process and a Bessel process.

  2. Fundamental solution of the tempered fractional diffusion equation

    Science.gov (United States)

    Liemert, André; Kienle, Alwin

    2015-11-01

    In this paper, we consider the space-time fractional diffusion equation Dt β u ( x , t ) + K ( - ∞ Dx α , λ ) u ( x , t ) = 0 , x ∈ R , t > 0 , with the tempered Riemann-Liouville derivative of order 0 Mainardi function Mα(x) of order 0 < α < 1 and arguments x ∈ R0 + .

  3. Local exact controllability of the diffusion equation in one dimension

    Directory of Open Access Journals (Sweden)

    Marius Beceanu

    2003-01-01

    Full Text Available This paper establishes the local exact null controllability of the diffusion equation in one dimension using distributed controls in the case of the Dirichlet boundary value problem. Most of the techniques used in the course of the proof are borrowed from Barbu (2002.

  4. DISCONTINUOUS FINITE ELEMENT METHOD FOR CONVECTION-DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    Abdellatif Agouzal

    2000-01-01

    A discontinuous finite element method for convection-diffusion equations is proposed and analyzed. This scheme is designed to produce an approximate solution which is completely discontinuous. Optimal order of convergence is obtained for model problem. This is the same convergence rate known for the classical methods.

  5. Fractional diffusion equation and impedance spectroscopy of electrolytic cells.

    Science.gov (United States)

    Lenzi, E K; Evangelista, L R; Barbero, G

    2009-08-20

    The influence of the ions on the electrochemical impedance of a cell is calculated in the framework of a complete model in which the fractional drift-diffusion problem is analytically solved. The resulting distribution of the electric field inside the sample is determined by solving Poisson's equation. The theoretical model to determine the electrical impedance we are proposing here is based on the fractional derivative of distributed order on the diffusion equation. We argue that this is the more convenient and physically significant approach to account for the enormous variety of the diffusive regimes in a real cell. The frequency dependence of the real and imaginary parts of the impedance are shown to be very similar to the ones experimentally obtained in a large variety of electrolytic samples.

  6. Diffusive Limits of the Master Equation in Inhomogeneous Media

    CERN Document Server

    Sattin, F; Salasnich, L

    2015-01-01

    In inhomogeneous environments several expressions for the flux of a diffusing quantity may apply--from Fick-Fourier's to Fokker-Planck's--depending upon the system studied. The integro-differential Master Equation (ME) provides a fairly generic framework for describing the dynamics of arbitrary systems driven by stochastic rules. Diffusive dynamics does arise as long-wavelength limit of the ME. However, while it is straightforward to obtain a diffusion equation with Fokker-Planck flux, its Fick-Fourier counterpart has never been worked out from the ME. In this work we show under which hypothesis the Fick's flux can actually be recovered from the ME. Analytical considerations are supported by explicit computer models.

  7. Langevin and diffusion equation of turbulent fluid flow

    Science.gov (United States)

    Brouwers, J. J. H.

    2010-08-01

    A derivation of the Langevin and diffusion equations describing the statistics of fluid particle displacement and passive admixture in turbulent flow is presented. Use is made of perturbation expansions. The small parameter is the inverse of the Kolmogorov constant C 0 , which arises from Lagrangian similarity theory. The value of C 0 in high Reynolds number turbulence is 5-6. To achieve sufficient accuracy, formulations are not limited to terms of leading order in C0 - 1 including terms next to leading order in C0 - 1 as well. Results of turbulence theory and statistical mechanics are invoked to arrive at the descriptions of the Langevin and diffusion equations, which are unique up to truncated terms of O ( C0 - 2 ) in displacement statistics. Errors due to truncation are indicated to amount to a few percent. The coefficients of the presented Langevin and diffusion equations are specified by fixed-point averages of the Eulerian velocity field. The equations apply to general turbulent flow in which fixed-point Eulerian velocity statistics are non-Gaussian to a degree of O ( C0 - 1 ) . The equations provide the means to calculate and analyze turbulent dispersion of passive or almost passive admixture such as fumes, smoke, and aerosols in areas ranging from atmospheric fluid motion to flows in engineering devices.

  8. Innovation diffusion equations on correlated scale-free networks

    Energy Technology Data Exchange (ETDEWEB)

    Bertotti, M.L., E-mail: marialetizia.bertotti@unibz.it [Free University of Bozen–Bolzano, Faculty of Science and Technology, Bolzano (Italy); Brunner, J., E-mail: johannes.brunner@tis.bz.it [TIS Innovation Park, Bolzano (Italy); Modanese, G., E-mail: giovanni.modanese@unibz.it [Free University of Bozen–Bolzano, Faculty of Science and Technology, Bolzano (Italy)

    2016-07-29

    Highlights: • The Bass diffusion model can be formulated on scale-free networks. • In the trickle-down version, the hubs adopt earlier and act as monitors. • We improve the equations in order to describe trickle-up diffusion. • Innovation is generated at the network periphery, and hubs can act as stiflers. • We compare diffusion times, in dependence on the scale-free exponent. - Abstract: We introduce a heterogeneous network structure into the Bass diffusion model, in order to study the diffusion times of innovation or information in networks with a scale-free structure, typical of regions where diffusion is sensitive to geographic and logistic influences (like for instance Alpine regions). We consider both the diffusion peak times of the total population and of the link classes. In the familiar trickle-down processes the adoption curve of the hubs is found to anticipate the total adoption in a predictable way. In a major departure from the standard model, we model a trickle-up process by introducing heterogeneous publicity coefficients (which can also be negative for the hubs, thus turning them into stiflers) and a stochastic term which represents the erratic generation of innovation at the periphery of the network. The results confirm the robustness of the Bass model and expand considerably its range of applicability.

  9. Biomixing by chemotaxis and enhancement of biological reactions

    CERN Document Server

    Kiselev, Alexander

    2011-01-01

    Many processes in biology involve both reactions and chemotaxis. However, to the best of our knowledge, the question of interaction between chemotaxis and reactions has not yet been addressed either analytically or numerically. We consider a model with a single density function involving diffusion, advection, chemotaxis, and absorbing reaction. The model is motivated, in particular, by studies of coral broadcast spawning, where experimental observations of the efficiency of fertilization rates significantly exceed the data obtained from numerical models that do not take chemotaxis (attraction of sperm gametes by a chemical secreted by egg gametes) into account. We prove that in the framework of our model, chemotaxis plays a crucial role. There is a rigid limit to how much the fertilization efficiency can be enhanced if there is no chemotaxis but only advection and diffusion. On the other hand, when chemotaxis is present, the fertilization rate can be arbitrarily close to being complete provided that the chemo...

  10. Optimal prediction for moment models: crescendo diffusion and reordered equations

    Science.gov (United States)

    Seibold, Benjamin; Frank, Martin

    2009-12-01

    A direct numerical solution of the radiative transfer equation or any kinetic equation is typically expensive, since the radiative intensity depends on time, space and direction. An expansion in the direction variables yields an equivalent system of infinitely many moments. A fundamental problem is how to truncate the system. Various closures have been presented in the literature. We want to generally study the moment closure within the framework of optimal prediction, a strategy to approximate the mean solution of a large system by a smaller system, for radiation moment systems. We apply this strategy to radiative transfer and show that several closures can be re-derived within this framework, such as P N , diffusion, and diffusion correction closures. In addition, the formalism gives rise to new parabolic systems, the reordered P N equations, that are similar to the simplified P N equations. Furthermore, we propose a modification to existing closures. Although simple and with no extra cost, this newly derived crescendo diffusion yields better approximations in numerical tests.

  11. Unstructured Grids and the Multigroup Neutron Diffusion Equation

    Directory of Open Access Journals (Sweden)

    German Theler

    2013-01-01

    Full Text Available The neutron diffusion equation is often used to perform core-level neutronic calculations. It consists of a set of second-order partial differential equations over the spatial coordinates that are, both in the academia and in the industry, usually solved by discretizing the neutron leakage term using a structured grid. This work introduces the alternatives that unstructured grids can provide to aid the engineers to solve the neutron diffusion problem and gives a brief overview of the variety of possibilities they offer. It is by understanding the basic mathematics that lie beneath the equations that model real physical systems; better technical decisions can be made. It is in this spirit that this paper is written, giving a first introduction to the basic concepts which can be incorporated into core-level neutron flux computations. A simple two-dimensional homogeneous circular reactor is solved using a coarse unstructured grid in order to illustrate some basic differences between the finite volumes and the finite elements method. Also, the classic 2D IAEA PWR benchmark problem is solved for eighty combinations of symmetries, meshing algorithms, basic geometric entities, discretization schemes, and characteristic grid lengths, giving even more insight into the peculiarities that arise when solving the neutron diffusion equation using unstructured grids.

  12. On the entropy conditions for some flux limited diffusion equations

    Science.gov (United States)

    Caselles, V.

    2011-04-01

    In this paper we give a characterization of the notion of entropy solutions of some flux limited diffusion equations for which we can prove that the solution is a function of bounded variation in space and time. This includes the case of the so-called relativistic heat equation and some generalizations. For them we prove that the jump set consists of fronts that propagate at the speed given by Rankine-Hugoniot condition and we give on it a geometric characterization of the entropy conditions. Since entropy solutions are functions of bounded variation in space once the initial condition is, to complete the program we study the time regularity of solutions of the relativistic heat equation under some conditions on the initial datum. An analogous result holds for some other related equations without additional assumptions on the initial condition.

  13. Langevin equation with fluctuating diffusivity: A two-state model.

    Science.gov (United States)

    Miyaguchi, Tomoshige; Akimoto, Takuma; Yamamoto, Eiji

    2016-07-01

    Recently, anomalous subdiffusion, aging, and scatter of the diffusion coefficient have been reported in many single-particle-tracking experiments, though the origins of these behaviors are still elusive. Here, as a model to describe such phenomena, we investigate a Langevin equation with diffusivity fluctuating between a fast and a slow state. Namely, the diffusivity follows a dichotomous stochastic process. We assume that the sojourn time distributions of these two states are given by power laws. It is shown that, for a nonequilibrium ensemble, the ensemble-averaged mean-square displacement (MSD) shows transient subdiffusion. In contrast, the time-averaged MSD shows normal diffusion, but an effective diffusion coefficient transiently shows aging behavior. The propagator is non-Gaussian for short time and converges to a Gaussian distribution in a long-time limit; this convergence to Gaussian is extremely slow for some parameter values. For equilibrium ensembles, both ensemble-averaged and time-averaged MSDs show only normal diffusion and thus we cannot detect any traces of the fluctuating diffusivity with these MSDs. Therefore, as an alternative approach to characterizing the fluctuating diffusivity, the relative standard deviation (RSD) of the time-averaged MSD is utilized and it is shown that the RSD exhibits slow relaxation as a signature of the long-time correlation in the fluctuating diffusivity. Furthermore, it is shown that the RSD is related to a non-Gaussian parameter of the propagator. To obtain these theoretical results, we develop a two-state renewal theory as an analytical tool.

  14. Diffusive and dynamical radiating stars with realistic equations of state

    Science.gov (United States)

    Brassel, Byron P.; Maharaj, Sunil D.; Goswami, Rituparno

    2017-03-01

    We model the dynamics of a spherically symmetric radiating dynamical star with three spacetime regions. The local internal atmosphere is a two-component system consisting of standard pressure-free, null radiation and an additional string fluid with energy density and nonzero pressure obeying all physically realistic energy conditions. The middle region is purely radiative which matches to a third region which is the Schwarzschild exterior. A large family of solutions to the field equations are presented for various realistic equations of state. We demonstrate that it is possible to obtain solutions via a direct integration of the second order equations resulting from the assumption of an equation of state. A comparison of our solutions with earlier well known results is undertaken and we show that all these solutions, including those of Husain, are contained in our family. We then generalise our class of solutions to higher dimensions. Finally we consider the effects of diffusive transport and transparently derive the specific equations of state for which this diffusive behaviour is possible.

  15. Critical Exponents for Fast Diffusion Equations with Nonlinear Boundary Sources

    Institute of Scientific and Technical Information of China (English)

    WANG LU-SHENG; WANG ZE-JIA

    2011-01-01

    In this paper, we study the large time behavior of solutions to a class of fast diffusion equations with nonlinear boundary sources on the exterior domain of the unit ball. We are interested in the critical global exponent q0 and the critical Fujita exponent qc for the problem considered, and show that q0 = qc for the multidimensional Non-Newtonian polytropic filtration equation with nonlinear boundary sources, which is quite different from the known results that q0 < qc for the onedimensional case; moreover, the value is different from the slow case.

  16. Support Operators Method for the Diffusion Equation in Multiple Materials

    Energy Technology Data Exchange (ETDEWEB)

    Winters, Andrew R. [Los Alamos National Laboratory; Shashkov, Mikhail J. [Los Alamos National Laboratory

    2012-08-14

    A second-order finite difference scheme for the solution of the diffusion equation on non-uniform meshes is implemented. The method allows the heat conductivity to be discontinuous. The algorithm is formulated on a one dimensional mesh and is derived using the support operators method. A key component of the derivation is that the discrete analog of the flux operator is constructed to be the negative adjoint of the discrete divergence, in an inner product that is a discrete analog of the continuum inner product. The resultant discrete operators in the fully discretized diffusion equation are symmetric and positive definite. The algorithm is generalized to operate on meshes with cells which have mixed material properties. A mechanism to recover intermediate temperature values in mixed cells using a limited linear reconstruction is introduced. The implementation of the algorithm is verified and the linear reconstruction mechanism is compared to previous results for obtaining new material temperatures.

  17. Reaction diffusion equation with spatio-temporal delay

    Science.gov (United States)

    Zhao, Zhihong; Rong, Erhua

    2014-07-01

    We investigate reaction-diffusion equation with spatio-temporal delays, the global existence, uniqueness and asymptotic behavior of solutions for which in relation to constant steady-state solution, included in the region of attraction of a stable steady solution. It is shown that if the delay reaction function satisfies some conditions and the system possesses a pair of upper and lower solutions then there exists a unique global solution. In terms of the maximal and minimal constant solutions of the corresponding steady-state problem, we get the asymptotic stability of reaction-diffusion equation with spatio-temporal delay. Applying this theory to Lotka-Volterra model with spatio-temporal delay, we get the global solution asymptotically tend to the steady-state problem's steady-state solution.

  18. Maximum Principles for Discrete and Semidiscrete Reaction-Diffusion Equation

    Directory of Open Access Journals (Sweden)

    Petr Stehlík

    2015-01-01

    Full Text Available We study reaction-diffusion equations with a general reaction function f on one-dimensional lattices with continuous or discrete time ux′  (or  Δtux=k(ux-1-2ux+ux+1+f(ux, x∈Z. We prove weak and strong maximum and minimum principles for corresponding initial-boundary value problems. Whereas the maximum principles in the semidiscrete case (continuous time exhibit similar features to those of fully continuous reaction-diffusion model, in the discrete case the weak maximum principle holds for a smaller class of functions and the strong maximum principle is valid in a weaker sense. We describe in detail how the validity of maximum principles depends on the nonlinearity and the time step. We illustrate our results on the Nagumo equation with the bistable nonlinearity.

  19. Algorithm Refinement for Stochastic Partial Differential Equations. I. Linear Diffusion

    Science.gov (United States)

    Alexander, Francis J.; Garcia, Alejandro L.; Tartakovsky, Daniel M.

    2002-10-01

    A hybrid particle/continuum algorithm is formulated for Fickian diffusion in the fluctuating hydrodynamic limit. The particles are taken as independent random walkers; the fluctuating diffusion equation is solved by finite differences with deterministic and white-noise fluxes. At the interface between the particle and continuum computations the coupling is by flux matching, giving exact mass conservation. This methodology is an extension of Adaptive Mesh and Algorithm Refinement to stochastic partial differential equations. Results from a variety of numerical experiments are presented for both steady and time-dependent scenarios. In all cases the mean and variance of density are captured correctly by the stochastic hybrid algorithm. For a nonstochastic version (i.e., using only deterministic continuum fluxes) the mean density is correct, but the variance is reduced except in particle regions away from the interface. Extensions of the methodology to fluid mechanics applications are discussed.

  20. Algorithm refinement for stochastic partial differential equations I. linear diffusion

    CERN Document Server

    Alexander, F J; Tartakovsky, D M

    2002-01-01

    A hybrid particle/continuum algorithm is formulated for Fickian diffusion in the fluctuating hydrodynamic limit. The particles are taken as independent random walkers; the fluctuating diffusion equation is solved by finite differences with deterministic and white-noise fluxes. At the interface between the particle and continuum computations the coupling is by flux matching, giving exact mass conservation. This methodology is an extension of Adaptive Mesh and Algorithm Refinement to stochastic partial differential equations. Results from a variety of numerical experiments are presented for both steady and time-dependent scenarios. In all cases the mean and variance of density are captured correctly by the stochastic hybrid algorithm. For a nonstochastic version (i.e., using only deterministic continuum fluxes) the mean density is correct, but the variance is reduced except in particle regions away from the interface. Extensions of the methodology to fluid mechanics applications are discussed.

  1. Stabilized Numerical Methods for Stochastic Differential Equations driven by Diffusion and Jump-Diffusion Processes

    OpenAIRE

    Blumenthal, Adrian

    2015-01-01

    Stochastic models that account for sudden, unforeseeable events play a crucial role in many different fields such as finance, economics, biology, chemistry, physics and so on. That kind of stochastic problems can be modeled by stochastic differential equations driven by jump-diffusion processes. In addition, there are situations, where a stochastic model is based on stochastic differential equations with multiple scales. Such stochastic problems are called stiff and lead for classical ex...

  2. Symmetries and Similarity Reductions of Nonlinear Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    LI Hui-Jun; RUAN Hang-Yu

    2004-01-01

    The inverse recursion operator, three new sets of symmetries, and infinite-dimensional Lie algebras for the nonlinear diffusion equation are given. Some nonlocal symmetries related to eigenvectors of the recursion operator Ф with the eigenvalue λi are also obtained with the help of the recursion operator Фi = Ф - λi. Using a part of these symmetries we get twelve types of nontrivial new similarity reduction.

  3. Symmetries and Similarity Reductions of Nonlinear Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    LIHui-Jun; RUANHang-Yu

    2004-01-01

    The inverse recursion operator, three new sets of symmetries, and infinite-dimensional Lie algebras for the nonlinear diffusion equation are given. Some nonlocal symmetries related to eigenvectors of the recursion operator with the eigenvalue λi are also obtained with the help of the recursion operator φi=φ-λi. Using a part of these symmetries we get twelve types of nontrivial new similarity reduction.

  4. Stability of planar diffusion wave for nonlinear evolution equation

    Institute of Scientific and Technical Information of China (English)

    2012-01-01

    It is known that the one-dimensional nonlinear heat equation ut = f(u)x1x1,f'(u) 0,u(±∞,t) = u±,u+ = u_ has a unique self-similar solution u(x1/1+t).In multi-dimensional space,u(x1/1+t) is called a planar diffusion wave.In the first part of the present paper,it is shown that under some smallness conditions,such a planar diffusion wave is nonlinearly stable for the nonlinear heat equation:ut-△f(u) = 0,x ∈ Rn.The optimal time decay rate is obtained.In the second part of this paper,it is further shown that this planar diffusion wave is still nonlinearly stable for the quasilinear wave equation with damping:utt + utt+ △f(u) = 0,x ∈ Rn.The time decay rate is also obtained.The proofs are given by an elementary energy method.

  5. Reaction rates for a generalized reaction-diffusion master equation

    Science.gov (United States)

    Hellander, Stefan; Petzold, Linda

    2016-01-01

    It has been established that there is an inherent limit to the accuracy of the reaction-diffusion master equation. Specifically, there exists a fundamental lower bound on the mesh size, below which the accuracy deteriorates as the mesh is refined further. In this paper we extend the standard reaction-diffusion master equation to allow molecules occupying neighboring voxels to react, in contrast to the traditional approach, in which molecules react only when occupying the same voxel. We derive reaction rates, in two dimensions as well as three dimensions, to obtain an optimal match to the more fine-grained Smoluchowski model and show in two numerical examples that the extended algorithm is accurate for a wide range of mesh sizes, allowing us to simulate systems that are intractable with the standard reaction-diffusion master equation. In addition, we show that for mesh sizes above the fundamental lower limit of the standard algorithm, the generalized algorithm reduces to the standard algorithm. We derive a lower limit for the generalized algorithm which, in both two dimensions and three dimensions, is of the order of the reaction radius of a reacting pair of molecules.

  6. Reaction rates for a generalized reaction-diffusion master equation.

    Science.gov (United States)

    Hellander, Stefan; Petzold, Linda

    2016-01-01

    It has been established that there is an inherent limit to the accuracy of the reaction-diffusion master equation. Specifically, there exists a fundamental lower bound on the mesh size, below which the accuracy deteriorates as the mesh is refined further. In this paper we extend the standard reaction-diffusion master equation to allow molecules occupying neighboring voxels to react, in contrast to the traditional approach, in which molecules react only when occupying the same voxel. We derive reaction rates, in two dimensions as well as three dimensions, to obtain an optimal match to the more fine-grained Smoluchowski model and show in two numerical examples that the extended algorithm is accurate for a wide range of mesh sizes, allowing us to simulate systems that are intractable with the standard reaction-diffusion master equation. In addition, we show that for mesh sizes above the fundamental lower limit of the standard algorithm, the generalized algorithm reduces to the standard algorithm. We derive a lower limit for the generalized algorithm which, in both two dimensions and three dimensions, is of the order of the reaction radius of a reacting pair of molecules.

  7. Optimal prediction for moment models: Crescendo diffusion and reordered equations

    CERN Document Server

    Seibold, Benjamin

    2009-01-01

    A direct numerical solution of the radiative transfer equation or any kinetic equation is typically expensive, since the radiative intensity depends on time, space and direction. An expansion in the direction variables yields an equivalent system of infinitely many moments. A fundamental problem is how to truncate the system. Various closures have been presented in the literature. We want to study moment closure generally within the framework of optimal prediction, a strategy to approximate the mean solution of a large system by a smaller system, for radiation moment systems. We apply this strategy to radiative transfer and show that several closures can be re-derived within this framework, e.g. $P_N$, diffusion, and diffusion correction closures. In addition, the formalism gives rise to new parabolic systems, the reordered $P_N$ equations, that are similar to the simplified $P_N$ equations. Furthermore, we propose a modification to existing closures. Although simple and with no extra cost, this newly derived...

  8. Characterization of Cocycle Attractors for Nonautonomous Reaction-Diffusion Equations

    Science.gov (United States)

    Cardoso, C. A.; Langa, J. A.; Obaya, R.

    In this paper, we describe in detail the global and cocycle attractors related to nonautonomous scalar differential equations with diffusion. In particular, we investigate reaction-diffusion equations with almost-periodic coefficients. The associated semiflows are strongly monotone which allow us to give a full characterization of the cocycle attractor. We prove that, when the upper Lyapunov exponent associated to the linear part of the equations is positive, the flow is persistent in the positive cone, and we study the stability and the set of continuity points of the section of each minimal set in the global attractor for the skew product semiflow. We illustrate our result with some nontrivial examples showing the richness of the dynamics on this attractor, which in some situations shows internal chaotic dynamics in the Li-Yorke sense. We also include the sublinear and concave cases in order to go further in the characterization of the attractors, including, for instance, a nonautonomous version of the Chafee-Infante equation. In this last case we can show exponentially forward attraction to the cocycle (pullback) attractors in the positive cone of solutions.

  9. A mixed finite element method for nonlinear diffusion equations

    KAUST Repository

    Burger, Martin

    2010-01-01

    We propose a mixed finite element method for a class of nonlinear diffusion equations, which is based on their interpretation as gradient flows in optimal transportation metrics. We introduce an appropriate linearization of the optimal transport problem, which leads to a mixed symmetric formulation. This formulation preserves the maximum principle in case of the semi-discrete scheme as well as the fully discrete scheme for a certain class of problems. In addition solutions of the mixed formulation maintain exponential convergence in the relative entropy towards the steady state in case of a nonlinear Fokker-Planck equation with uniformly convex potential. We demonstrate the behavior of the proposed scheme with 2D simulations of the porous medium equations and blow-up questions in the Patlak-Keller-Segel model. © American Institute of Mathematical Sciences.

  10. Modeling Transverse Chemotaxis in Porous Media

    Science.gov (United States)

    Porter, M. L.; Valdés-Parada, F. J.; Wood, B. D.

    2009-12-01

    The movement of microorganisms toward a chemical attractant (chemotaxis) has been shown to aid in subsurface contaminant degradation and enhanced oil recovery. However, chemotaxis is inherently a pore scale process that must be upscaled to arrive at continuum scale models for field applications. In this work, the method of volume averaging is used to upscale the microscale chemotactic microbial transport equations in order to obtain the corresponding macroscale models for the mass balance of bacteria and the chemical attractant to which they respond. As a first approach, cellular growth/death and consumption of the attractant by chemical reaction are assumed to be negligible with respect to convective and diffusive transport mechanisms. Two effective medium coefficients are introduced in the model, namely a total motility tensor and a total velocity vector. Under certain conditions, it is shown that the coefficients can differ considerably from the values corresponding to non-chemotactic transport. The model is validated by comparing the predicted transverse motility coefficients and concentration profiles to those measured within an engineered porous medium. For the concentration profiles, we introduced a lag that accounts for the difference between the arrival time of the microorganisms and the their chemotactic response to the attractant.

  11. Cellular Automata for Spatiotemporal Pattern Formation from Reaction-Diffusion Partial Differential Equations

    Science.gov (United States)

    Ohmori, Shousuke; Yamazaki, Yoshihiro

    2016-01-01

    Ultradiscrete equations are derived from a set of reaction-diffusion partial differential equations, and cellular automaton rules are obtained on the basis of the ultradiscrete equations. Some rules reproduce the dynamical properties of the original reaction-diffusion equations, namely, bistability and pulse annihilation. Furthermore, other rules bring about soliton-like preservation and periodic pulse generation with a pacemaker, which are not obtained from the original reaction-diffusion equations.

  12. On the Reaction Diffusion Master Equation in the Microscopic Limit

    CERN Document Server

    Hellander, Stefan; Petzold, Linda

    2011-01-01

    Stochastic modeling of reaction-diffusion kinetics has emerged as a powerful theoretical tool in the study of biochemical reaction networks. Two frequently employed models are the particle-tracking Smoluchowski framework and the on-lattice Reaction-Diffusion Master Equation (RDME) framework. As the mesh size goes from coarse to fine, the RDME initially becomes more accurate. However, recent developments have shown that it will become increasingly inaccurate compared to the Smoluchowski model as the lattice spacing becomes very fine. In this paper we give a new, general and simple argument for why the RDME breaks down. Our analysis reveals a hard limit on the voxel size for which no local RDME can agree with the Smoluchowski model.

  13. Reaction-diffusion master equation in the microscopic limit

    Science.gov (United States)

    Hellander, Stefan; Hellander, Andreas; Petzold, Linda

    2012-04-01

    Stochastic modeling of reaction-diffusion kinetics has emerged as a powerful theoretical tool in the study of biochemical reaction networks. Two frequently employed models are the particle-tracking Smoluchowski framework and the on-lattice reaction-diffusion master equation (RDME) framework. As the mesh size goes from coarse to fine, the RDME initially becomes more accurate. However, recent developments have shown that it will become increasingly inaccurate compared to the Smoluchowski model as the lattice spacing becomes very fine. Here we give a general and simple argument for why the RDME breaks down. Our analysis reveals a hard limit on the voxel size for which no local RDME can agree with the Smoluchowski model and lets us quantify this limit in two and three dimensions. In this light we review and discuss recent work in which the RDME has been modified in different ways in order to better agree with the microscale model for very small voxel sizes.

  14. Partial Differential Equations of an Epidemic Model with Spatial Diffusion

    Directory of Open Access Journals (Sweden)

    El Mehdi Lotfi

    2014-01-01

    Full Text Available The aim of this paper is to study the dynamics of a reaction-diffusion SIR epidemic model with specific nonlinear incidence rate. The global existence, positivity, and boundedness of solutions for a reaction-diffusion system with homogeneous Neumann boundary conditions are proved. The local stability of the disease-free equilibrium and endemic equilibrium is obtained via characteristic equations. By means of Lyapunov functional, the global stability of both equilibria is investigated. More precisely, our results show that the disease-free equilibrium is globally asymptotically stable if the basic reproduction number is less than or equal to unity, which leads to the eradication of disease from population. When the basic reproduction number is greater than unity, then disease-free equilibrium becomes unstable and the endemic equilibrium is globally asymptotically stable; in this case the disease persists in the population. Numerical simulations are presented to illustrate our theoretical results.

  15. Anticipative Stochastic Differential Equations with Non-smooth Diffusion Coefficient

    Institute of Scientific and Technical Information of China (English)

    Zong Xia LIANG

    2006-01-01

    In this paper we prove the existence and uniqueness of the solutions to the one-dimensional linear stochastic differential equation with Skorohod integralXt(ω) = η(ω) + ∫t0 asXs(ω)dWs + bsXs(ω)ds, t ∈ [0, 1],where (Ws) is the canonical Wiener process defined on the standard Wiener space ((W), (H),μ), a is non-smooth and adapted, but η and b may be anticipating to the filtration generated by (Ws). The intention of the paper is to eliminate the regularity of the diffusion coefficient a in the Malliavin sense, in the existing literature. The idea is to approach the non-smooth diffusion coefficient a by smooth ones.

  16. The influence of fractional diffusion in Fisher-KPP equations

    CERN Document Server

    Cabre, Xavier

    2012-01-01

    We study the Fisher-KPP equation where the Laplacian is replaced by the generator of a Feller semigroup with power decaying kernel, an important example being the fractional Laplacian. In contrast with the case of the stan- dard Laplacian where the stable state invades the unstable one at constant speed, we prove that with fractional diffusion, generated for instance by a stable L\\'evy process, the front position is exponential in time. Our results provide a mathe- matically rigorous justification of numerous heuristics about this model.

  17. On the solutions of fractional reaction-diffusion equations

    Directory of Open Access Journals (Sweden)

    Jagdev Singh

    2013-05-01

    Full Text Available In this paper, we obtain the solution of a fractional reaction-diffusion equation associated with the generalized Riemann-Liouville fractional derivative as the time derivative and Riesz-Feller fractional derivative as the space-derivative. The results are derived by the application of the Laplace and Fourier transforms in compact and elegant form in terms of Mittag-Leffler function and H-function. The results obtained here are of general nature and include the results investigated earlier by many authors.

  18. ENERGY ESTIMATES FOR DELAY DIFFUSION-REACTION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    J.A.Ferreira; P.M.da Silva

    2008-01-01

    In this paper we consider nonlinear delay diffusion-reaction equations with initial and Dirichlet boundary conditions.The behaviour and the stability of the solution of such initial boundary value problems(IBVPs)are studied using the energy method.Simple numerical methods are considered for the computation of numerical approximations to the solution of the nonlinear IBVPs.Using the discrete energy method we study the stability and convergence of the numerical approximations.Numerical experiments are carried out to illustrate our theoretical results.

  19. IDENTIFYING AN UNKNOWN SOURCE IN SPACE-FRACTIONAL DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    杨帆; 傅初黎; 李晓晓

    2014-01-01

    In this paper, we identify a space-dependent source for a fractional diffusion equation. This problem is ill-posed, i.e., the solution (if it exists) does not depend continu-ously on the data. The generalized Tikhonov regularization method is proposed to solve this problem. An a priori error estimate between the exact solution and its regularized approxi-mation is obtained. Moreover, an a posteriori parameter choice rule is proposed and a stable error estimate is also obtained. Numerical examples are presented to illustrate the validity and effectiveness of this method.

  20. Dynamic hysteresis modeling including skin effect using diffusion equation model

    Science.gov (United States)

    Hamada, Souad; Louai, Fatima Zohra; Nait-Said, Nasreddine; Benabou, Abdelkader

    2016-07-01

    An improved dynamic hysteresis model is proposed for the prediction of hysteresis loop of electrical steel up to mean frequencies, taking into account the skin effect. In previous works, the analytical solution of the diffusion equation for low frequency (DELF) was coupled with the inverse static Jiles-Atherton (JA) model in order to represent the hysteresis behavior for a lamination. In the present paper, this approach is improved to ensure the reproducibility of measured hysteresis loops at mean frequency. The results of simulation are compared with the experimental ones. The selected results for frequencies 50 Hz, 100 Hz, 200 Hz and 400 Hz are presented and discussed.

  1. Diffusive Wave Approximation to the Shallow Water Equations: Computational Approach

    KAUST Repository

    Collier, Nathan

    2011-05-14

    We discuss the use of time adaptivity applied to the one dimensional diffusive wave approximation to the shallow water equations. A simple and computationally economical error estimator is discussed which enables time-step size adaptivity. This robust adaptive time discretization corrects the initial time step size to achieve a user specified bound on the discretization error and allows time step size variations of several orders of magnitude. In particular, in the one dimensional results presented in this work feature a change of four orders of magnitudes for the time step over the entire simulation.

  2. New variable separation solutions for the generalized nonlinear diffusion equations

    Science.gov (United States)

    Fei-Yu, Ji; Shun-Li, Zhang

    2016-03-01

    The functionally generalized variable separation of the generalized nonlinear diffusion equations ut = A(u,ux)uxx + B(u,ux) is studied by using the conditional Lie-Bäcklund symmetry method. The variant forms of the considered equations, which admit the corresponding conditional Lie-Bäcklund symmetries, are characterized. To construct functionally generalized separable solutions, several concrete examples defined on the exponential and trigonometric invariant subspaces are provided. Project supported by the National Natural Science Foundation of China (Grant Nos. 11371293, 11401458, and 11501438), the National Natural Science Foundation of China, Tian Yuan Special Foundation (Grant No. 11426169), and the Natural Science Basic Research Plan in Shaanxi Province of China (Grant No. 2015JQ1014).

  3. Mimetic discretizations for Maxwell equations and the equations of magnetic diffusion

    Energy Technology Data Exchange (ETDEWEB)

    Hyman, J.M.; Shashkov, M.

    1998-03-01

    The authors construct reliable finite difference methods for approximating the solutions Maxwell`s equations and equations of magnetic field diffusion using discrete analogs of differential operators that satisfy the identities and theorems of vector and tensor calculus in discrete form. These methods mimic many fundamental properties of the underlying physical problem including the conservation laws, the symmetries in the solution, the nondivergence of particular vector fields and they do not have spurious modes. The constructed method can be applied in case of strongly discontinuous properties of the media for nonorthogonal and nonsmooth computational grids.

  4. Chaotic dynamics and diffusion in a piecewise linear equation

    Energy Technology Data Exchange (ETDEWEB)

    Shahrear, Pabel, E-mail: pabelshahrear@yahoo.com [Department of Mathematics, Shah Jalal University of Science and Technology, Sylhet–3114 (Bangladesh); Glass, Leon, E-mail: glass@cnd.mcgill.ca [Department of Physiology, 3655 Promenade Sir William Osler, McGill University, Montreal, Quebec H3G 1Y6 (Canada); Edwards, Rod, E-mail: edwards@uvic.ca [Department of Mathematics and Statistics, University of Victoria, P.O. Box 1700 STN CSC, Victoria, British Columbia V8W 2Y2 (Canada)

    2015-03-15

    Genetic interactions are often modeled by logical networks in which time is discrete and all gene activity states update simultaneously. However, there is no synchronizing clock in organisms. An alternative model assumes that the logical network is preserved and plays a key role in driving the dynamics in piecewise nonlinear differential equations. We examine dynamics in a particular 4-dimensional equation of this class. In the equation, two of the variables form a negative feedback loop that drives a second negative feedback loop. By modifying the original equations by eliminating exponential decay, we generate a modified system that is amenable to detailed analysis. In the modified system, we can determine in detail the Poincaré (return) map on a cross section to the flow. By analyzing the eigenvalues of the map for the different trajectories, we are able to show that except for a set of measure 0, the flow must necessarily have an eigenvalue greater than 1 and hence there is sensitive dependence on initial conditions. Further, there is an irregular oscillation whose amplitude is described by a diffusive process that is well-modeled by the Irwin-Hall distribution. There is a large class of other piecewise-linear networks that might be analyzed using similar methods. The analysis gives insight into possible origins of chaotic dynamics in periodically forced dynamical systems.

  5. PERTURBATIONAL FINITE DIFFERENCE SCHEME OF CONVECTION-DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The Perturbational Finite Difference (PFD) method is a kind of high-order-accurate compact difference method, But its idea is different from the normal compact method and the multi-nodes method. This method can get a Perturbational Exact Numerical Solution (PENS) scheme for locally linearlized Convection-Diffusion (CD) equation. The PENS scheme is similar to the Finite Analytical (FA) scheme and Exact Difference Solution (EDS) scheme, which are all exponential schemes, but PENS scheme is simpler and uses only 3, 5 and 7 nodes for 1-, 2- and 3-dimensional problems, respectively. The various approximate schemes of PENS scheme are also called Perturbational-High-order-accurate Difference (PHD) scheme. The PHD schemes can be got by expanding the exponential terms in the PENS scheme into power series of grid Renold number, and they are all upwind schemes and remain the concise structure form of first-order upwind scheme. For 1-dimensional (1-D) CD equation and 2-D incompressible Navier-Stokes equation, their PENS and PHD schemes were constituted in this paper, they all gave highly accurate results for the numerical examples of three 1-D CD equations and an incompressible 2-D flow in a square cavity.

  6. Quantitative analysis of experiments on bacterial chemotaxis to naphthalene.

    Science.gov (United States)

    Pedit, Joseph A; Marx, Randall B; Miller, Cass T; Aitken, Michael D

    2002-06-20

    A mathematical model was developed to quantify chemotaxis to naphthalene by Pseudomonas putida G7 (PpG7) and its influence on naphthalene degradation. The model was first used to estimate the three transport parameters (coefficients for naphthalene diffusion, random motility, and chemotactic sensitivity) by fitting it to experimental data on naphthalene removal from a discrete source in an aqueous system. The best-fit value of naphthalene diffusivity was close to the value estimated from molecular properties with the Wilke-Chang equation. Simulations applied to a non-chemotactic mutant strain only fit the experimental data well if random motility was negligible, suggesting that motility may be lost rapidly in the absence of substrate or that gravity may influence net random motion in a vertically oriented experimental system. For the chemotactic wild-type strain, random motility and gravity were predicted to have a negligible impact on naphthalene removal relative to the impact of chemotaxis. Based on simulations using the best-fit value of the chemotactic sensitivity coefficient, initial cell concentrations for a non-chemotactic strain would have to be several orders of magnitude higher than for a chemotactic strain to achieve similar rates of naphthalene removal under the experimental conditions we evaluated. The model was also applied to an experimental system representing an adaptation of the conventional capillary assay to evaluate chemotaxis in porous media. Our analysis suggests that it may be possible to quantify chemotaxis in porous media systems by simply adjusting the model's transport parameters to account for tortuosity, as has been suggested by others.

  7. The Singular Limit of a Chemotaxis-Growth System with General Initial Data

    CERN Document Server

    Alfaro, Matthieu

    2009-01-01

    We study the singular limit of a system of partial differential equations which is a model for an aggregation of amoebae subjected to three effects: diffusion, growth and chemotaxis. The limit problem involves motion by mean curvature together with a nonlocal drift term. We consider rather general initial data. We prove a generation of interface property and study the motion of interfaces. We also obtain an optimal estimate of the thickness and the location of the transition layer that develops.

  8. COUPLED CHEMOTAXIS FLUID MODEL

    KAUST Repository

    LORZ, ALEXANDER

    2010-06-01

    We consider a model system for the collective behavior of oxygen-driven swimming bacteria in an aquatic fluid. In certain parameter regimes, such suspensions of bacteria feature large-scale convection patterns as a result of the hydrodynamic interaction between bacteria. The presented model consist of a parabolicparabolic chemotaxis system for the oxygen concentration and the bacteria density coupled to an incompressible Stokes equation for the fluid driven by a gravitational force of the heavier bacteria. We show local existence of weak solutions in a bounded domain in d, d = 2, 3 with no-flux boundary condition and in 2 in the case of inhomogeneous Dirichlet conditions for the oxygen. © 2010 World Scientific Publishing Company.

  9. PERTURBATION FINITE VOLUME METHOD FOR CONVECTIVE-DIFFUSION INTEGRAL EQUATION

    Institute of Scientific and Technical Information of China (English)

    GAO Zhi; YANG Guowei

    2004-01-01

    A perturbation finite volume (PFV) method for the convective-diffusion integral equation is developed in this paper. The PFV scheme is an upwind and mixed scheme using any higher-order interpolation and second-order integration approximations, with the least nodes similar to the standard three-point schemes, that is, the number of the nodes needed is equal to unity plus the face-number of the control volume. For instance, in the two-dimensional (2-D) case, only four nodes for the triangle grids and five nodes for the Cartesian grids are utilized, respectively. The PFV scheme is applied on a number of 1-D linear and nonlinear problems, 2-D and 3-D flow model equations. Comparing with other standard three-point schemes, the PFV scheme has much smaller numerical diffusion than the first-order upwind scheme (UDS). Its numerical accuracies are also higher than the second-order central scheme (CDS), the power-law scheme (PLS) and QUICK scheme.

  10. Localization of chemical sources using e. coli chemotaxis

    Science.gov (United States)

    Davison, Timothy; Nguyen, Hoa; Nickels, Kevin; Frasch, Duncan; Basagaoglu, Hakan

    2016-04-01

    This paper furthers the application of chemotaxis to small-scale robots by simulating a system that localizes a chemical source in a dynamic fluid environment. This type of system responds to a chemical stimulus by mimicking, for example, the way that E. Coli bacteria move toward attractants (nutrients) and away from repellents. E. Coli use the intracellular signaling pathway to process the temporal change in the chemical concentration to determine if the cells should run or tumble. Previous work has shown that this process can be simulated with robots and used to localize chemical sources based upon a fixed nutrient gradient. Our work furthers this study by simulating the injection of an effluent of chemical at a specified location in an environment and uses computational fluid dynamics to model the interactions of the robot with the fluid while performing chemotaxis. The interactions between the chemical and fluid are also modelled with the advection diffusion equation to determine the concentration gradient. This method allows us to compute, over a lattice, the chemical concentration at all points and feed these results into an existing E. Coli controller for the robot, which results in the robot executing a tumble or a run according to a probabilistic formula. By simulating the robot in this complex environment, our work facilitates refinement of the chemotaxis controller while proving the ability of chemotactic robots to localize specific chemicals in environments that more closely resemble those encountered in the wide-ranging types of locations in which this robotic system might be deployed.

  11. Ionic diffusion through confined geometries: from Langevin equations to partial differential equations

    Energy Technology Data Exchange (ETDEWEB)

    Nadler, Boaz [Department of Mathematics, Yale University, New-Haven, CT 06520 (United States); Schuss, Zeev [Department of Applied Mathematics, Tel-Aviv University, Ramat-Aviv 69978, Tel-Aviv (Israel); Singer, Amit [Department of Applied Mathematics, Tel-Aviv University, Ramat-Aviv 69978, Tel-Aviv (Israel); Eisenberg, R S [Department of Molecular Biophysics and Physiology, Rush Medical Center, 1750 Harrison Street, Chicago, IL 60612 (United States)

    2004-06-09

    Ionic diffusion through and near small domains is of considerable importance in molecular biophysics in applications such as permeation through protein channels and diffusion near the charged active sites of macromolecules. The motion of the ions in these settings depends on the specific nanoscale geometry and charge distribution in and near the domain, so standard continuum type approaches have obvious limitations. The standard machinery of equilibrium statistical mechanics includes microscopic details, but is also not applicable, because these systems are usually not in equilibrium due to concentration gradients and to the presence of an external applied potential, which drive a non-vanishing stationary current through the system. We present a stochastic molecular model for the diffusive motion of interacting particles in an external field of force and a derivation of effective partial differential equations and their boundary conditions that describe the stationary non-equilibrium system. The interactions can include electrostatic, Lennard-Jones and other pairwise forces. The analysis yields a new type of Poisson-Nernst-Planck equations, that involves conditional and unconditional charge densities and potentials. The conditional charge densities are the non-equilibrium analogues of the well studied pair correlation functions of equilibrium statistical physics. Our proposed theory is an extension of equilibrium statistical mechanics of simple fluids to stationary non-equilibrium problems. The proposed system of equations differs from the standard Poisson-Nernst-Planck system in two important aspects. First, the force term depends on conditional densities and thus on the finite size of ions, and second, it contains the dielectric boundary force on a discrete ion near dielectric interfaces. Recently, various authors have shown that both of these terms are important for diffusion through confined geometries in the context of ion channels.

  12. Precipitation of Phase Using General Diffusion Equation with Comparison to Vitek Diffusion Model in Dissimilar Stainless Steels

    Directory of Open Access Journals (Sweden)

    Chih-Chun Hsieh

    2012-01-01

    Full Text Available This study performs a precipitation examination of the phase using the general diffusion equation with comparison to the Vitek model in dissimilar stainless steels during multipass welding. Experimental results demonstrate that the diffusivities (, , and of Cr, Ni, and Si are higher in -ferrite than (, , and in the phase, and that they facilitate the precipitation of the σ phase in the third pass fusion zone. The Vitek diffusion equation can be modified as follows: .

  13. Derivation of a volume-averaged neutron diffusion equation; Atomos para el desarrollo de Mexico

    Energy Technology Data Exchange (ETDEWEB)

    Vazquez R, R.; Espinosa P, G. [UAM-Iztapalapa, Av. San Rafael Atlixco 186, Col. Vicentina, Mexico D.F. 09340 (Mexico); Morales S, Jaime B. [UNAM, Laboratorio de Analisis en Ingenieria de Reactores Nucleares, Paseo Cuauhnahuac 8532, Jiutepec, Morelos 62550 (Mexico)]. e-mail: rvr@xanum.uam.mx

    2008-07-01

    This paper presents a general theoretical analysis of the problem of neutron motion in a nuclear reactor, where large variations on neutron cross sections normally preclude the use of the classical neutron diffusion equation. A volume-averaged neutron diffusion equation is derived which includes correction terms to diffusion and nuclear reaction effects. A method is presented to determine closure-relationships for the volume-averaged neutron diffusion equation (e.g., effective neutron diffusivity). In order to describe the distribution of neutrons in a highly heterogeneous configuration, it was necessary to extend the classical neutron diffusion equation. Thus, the volume averaged diffusion equation include two corrections factor: the first correction is related with the absorption process of the neutron and the second correction is a contribution to the neutron diffusion, both parameters are related to neutron effects on the interface of a heterogeneous configuration. (Author)

  14. Traveling wave solutions of density-dependent nonlinear reaction-diffusion equation via the extended generalized Riccati equation mapping method

    Science.gov (United States)

    Kengne, Emmanuel; Saydé, Michel; Ben Hamouda, Fathi; Lakhssassi, Ahmed

    2013-11-01

    Analytical entire traveling wave solutions to the 1+1 density-dependent nonlinear reaction-diffusion equation via the extended generalized Riccati equation mapping method are presented in this paper. This equation can be regarded as an extension case of the Fisher-Kolmogoroff equation, which is used for studying insect and animal dispersal with growth dynamics. The analytical solutions are then used to investigate the effect of equation parameters on the population distribution.

  15. Diffusive Boltzmann equation, its fluid dynamics, Couette flow and Knudsen layers

    CERN Document Server

    Abramov, Rafail V

    2016-01-01

    In the current work we propose a diffusive modification of the Boltzmann equation. This naturally leads to the corresponding diffusive fluid dynamics equations, which we numerically investigate in a simple Couette flow setting. This diffusive modification is based on the assumption of the "imperfect" model collision term, which is unable to track all collisions in the corresponding real gas particle system. The effect of missed collisions is then modeled by an appropriately scaled long-term homogenization process of the particle dynamics. The corresponding diffusive fluid dynamics equations are produced in a standard way by closing the hierarchy of the moment equations using either the Euler or the Grad closure. In the numerical experiments with the Couette flow, we discover that the diffusive Euler equations behave similarly to the conventional Navier-Stokes equations, while the diffusive Grad equations additionally exhibit Knudsen-like velocity boundary layers. We compare the simulations with the correspond...

  16. Dynamics of stochastic nonclassical diffusion equations on unbounded domains

    Directory of Open Access Journals (Sweden)

    Wenqiang Zhao

    2015-11-01

    Full Text Available This article concerns the dynamics of stochastic nonclassical diffusion equation on $\\mathbb{R}^N$ perturbed by a $\\epsilon$-random term, where $\\epsilon\\in(0,1]$ is the intension of noise. By using an energy approach, we prove the asymptotic compactness of the associated random dynamical system, and then the existence of random attractors in $H^1(\\mathbb{R}^N$. Finally, we show the upper semi-continuity of random attractors at $\\epsilon=0$ in the sense of Hausdorff semi-metric in $H^1(\\mathbb{R}^N$, which implies that the obtained family of random attractors indexed by $\\epsilon$ converge to a deterministic attractor as $\\epsilon$ vanishes.

  17. Guiding brine shrimp through mazes by solving reaction diffusion equations

    Science.gov (United States)

    Singal, Krishma; Fenton, Flavio

    Excitable systems driven by reaction diffusion equations have been shown to not only find solutions to mazes but to also to find the shortest path between the beginning and the end of the maze. In this talk we describe how we can use the Fitzhugh-Nagumo model, a generic model for excitable media, to solve a maze by varying the basin of attraction of its two fixed points. We demonstrate how two dimensional mazes are solved numerically using a Java Applet and then accelerated to run in real time by using graphic processors (GPUs). An application of this work is shown by guiding phototactic brine shrimp through a maze solved by the algorithm. Once the path is obtained, an Arduino directs the shrimp through the maze using lights from LEDs placed at the floor of the Maze. This method running in real time could be eventually used for guiding robots and cars through traffic.

  18. A granular computing method for nonlinear convection-diffusion equation

    Directory of Open Access Journals (Sweden)

    Tian Ya Lan

    2016-01-01

    Full Text Available This paper introduces a method of solving nonlinear convection-diffusion equation (NCDE, based on the combination of granular computing (GrC and characteristics finite element method (CFEM. The key idea of the proposed method (denoted as GrC-CFEM is to reconstruct the solution from coarse-grained layer to fine-grained layer. It first gets the nonlinear solution on the coarse-grained layer, and then the function (Taylor expansion is applied to linearize the NCDE on the fine-grained layer. Switch to the fine-grained layer, the linear solution is directly derived from the nonlinear solution. The full nonlinear problem is solved only on the coarse-grained layer. Numerical experiments show that the GrC-CFEM can accelerate the convergence and improve the computational efficiency without sacrificing the accuracy.

  19. Diffusion-equation representations of landform evolution in the simplest circumstances: Appendix C

    Science.gov (United States)

    Hanks, Thomas C.

    2009-01-01

    The diffusion equation is one of the three great partial differential equations of classical physics. It describes the flow or diffusion of heat in the presence of temperature gradients, fluid flow in porous media in the presence of pressure gradients, and the diffusion of molecules in the presence of chemical gradients. [The other two equations are the wave equation, which describes the propagation of electromagnetic waves (including light), acoustic (sound) waves, and elastic (seismic) waves radiated from earthquakes; and LaPlace’s equation, which describes the behavior of electric, gravitational, and fluid potentials, all part of potential field theory. The diffusion equation reduces to LaPlace’s equation at steady state, when the field of interest does not depend on t. Poisson’s equation is LaPlace’s equation with a source term.

  20. Propagation Speed of the Maximum of the Fundamental Solution to the Fractional Diffusion-Wave Equation

    CERN Document Server

    Luchko, Yuri; Povstenko, Yuriy

    2012-01-01

    In this paper, the one-dimensional time-fractional diffusion-wave equation with the fractional derivative of order $1 \\le \\alpha \\le 2$ is revisited. This equation interpolates between the diffusion and the wave equations that behave quite differently regarding their response to a localized disturbance: whereas the diffusion equation describes a process, where a disturbance spreads infinitely fast, the propagation speed of the disturbance is a constant for the wave equation. For the time fractional diffusion-wave equation, the propagation speed of a disturbance is infinite, but its fundamental solution possesses a maximum that disperses with a finite speed. In this paper, the fundamental solution of the Cauchy problem for the time-fractional diffusion-wave equation, its maximum location, maximum value, and other important characteristics are investigated in detail. To illustrate analytical formulas, results of numerical calculations and plots are presented. Numerical algorithms and programs used to produce pl...

  1. The First Integral Method to Study a Class of Reaction-Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    KE Yun-Quan; YU Jun

    2005-01-01

    In this letter, a class of reaction-diffusion equations, which arise in chemical reaction or ecology and other fields of physics, are investigated. A more general analytical solution of the equation is obtained by using the first integral method.

  2. The constructive technique and its application in solving a nonlinear reaction diffusion equation

    Institute of Scientific and Technical Information of China (English)

    Lai Shao-Yong; Guo Yun-Xi; Qing Yin; Wu Yong-Hong

    2009-01-01

    A mathematical technique based on the consideration of a nonlinear partial differential equation together with an additional condition in the form of an ordinary differential equation is employed to study a nonlinear reaction diffusion equation which describes a real process in physics and in chemistry. Several exact solutions for the equation are acquired under certain circumstances.

  3. The Semiclassical Limit in the Quantum Drift-Diffusion Equations with Isentropic Pressure

    Institute of Scientific and Technical Information of China (English)

    Li CHEN; Qiangchang JU

    2008-01-01

    The semiclassical limit in the transient quantum drift-diffusion equations with isentropic pressure in one space dimension is rigorously proved. The equations are supple- mented with homogeneous Neumann boundary conditions. It is shown that the semiclas- sical limit of this solution solves the classical drift-diffusion model. In the meanwhile, the global existence of weak solutions is proved.

  4. Diffusion phenomenon for linear dissipative wave equations in an exterior domain

    Science.gov (United States)

    Ikehata, Ryo

    Under the general condition of the initial data, we will derive the crucial estimates which imply the diffusion phenomenon for the dissipative linear wave equations in an exterior domain. In order to derive the diffusion phenomenon for dissipative wave equations, the time integral method which was developed by Ikehata and Matsuyama (Sci. Math. Japon. 55 (2002) 33) plays an effective role.

  5. The 1D parabolic-parabolic Patlak-Keller-Segel model of chemotaxis: The particular integrable case and soliton solution

    Science.gov (United States)

    Shubina, Maria

    2016-09-01

    In this paper, we investigate the one-dimensional parabolic-parabolic Patlak-Keller-Segel model of chemotaxis. For the case when the diffusion coefficient of chemical substance is equal to two, in terms of travelling wave variables the reduced system appears integrable and allows the analytical solution. We obtain the exact soliton solutions, one of which is exactly the one-soliton solution of the Korteweg-de Vries equation.

  6. A Fractional Diffusion Equation for an n-Dimensional Correlated Levy Walk

    CERN Document Server

    Taylor-King, J P; Fedotov, S; Van Gorder, R A

    2016-01-01

    Levy walks define a fundamental concept in random walk theory which allows one to model diffusive spreading that is faster than Brownian motion. They have many applications across different disciplines. However, so far the derivation of a diffusion equation for an n-dimensional correlated Levy walk remained elusive. Starting from a fractional Klein-Kramers equation here we use a moment method combined with a Cattaneo approximation to derive a fractional diffusion equation for superdiffusive short range auto-correlated Levy walks in the large time limit, and solve it. Our derivation discloses different dynamical mechanisms leading to correlated Levy walk diffusion in terms of quantities that can be measured experimentally.

  7. Numerical approximation of Levy-Feller diffusion equation and its probability interpretation

    Science.gov (United States)

    Zhang, H.; Liu, F.; Anh, V.

    2007-09-01

    In this paper, we consider the Levy-Feller fractional diffusion equation, which is obtained from the standard diffusion equation by replacing the second-order space derivative with a Riesz-Feller derivative of order and skewness [theta] ([theta][less-than-or-equals, slant]min{[alpha],2-[alpha]}). We construct two new discrete schemes of the Cauchy problem for the above equation with 0Feller fractional diffusion equation with 1<[alpha]<2 in a bounded spatial domain. Finally, we present a numerical example to evaluate our theoretical analysis.

  8. Distributional behaviors of time-averaged observables in the Langevin equation with fluctuating diffusivity: Normal diffusion but anomalous fluctuations.

    Science.gov (United States)

    Akimoto, Takuma; Yamamoto, Eiji

    2016-06-01

    We consider the Langevin equation with dichotomously fluctuating diffusivity, where the diffusion coefficient changes dichotomously over time, in order to study fluctuations of time-averaged observables in temporally heterogeneous diffusion processes. We find that the time-averaged mean-square displacement (TMSD) can be represented by the occupation time of a state in the asymptotic limit of the measurement time and hence occupation time statistics is a powerful tool for calculating the TMSD in the model. We show that the TMSD increases linearly with time (normal diffusion) but the time-averaged diffusion coefficients are intrinsically random when the mean sojourn time for one of the states diverges, i.e., intrinsic nonequilibrium processes. Thus, we find that temporally heterogeneous environments provide anomalous fluctuations of time-averaged diffusivity, which have relevance to large fluctuations of the diffusion coefficients obtained by single-particle-tracking trajectories in experiments.

  9. Numerical approximation of Lévy-Feller fractional diffusion equation via Chebyshev-Legendre collocation method

    Science.gov (United States)

    Sweilam, N. H.; Abou Hasan, M. M.

    2016-08-01

    This paper reports a new spectral algorithm for obtaining an approximate solution for the Lévy-Feller diffusion equation depending on Legendre polynomials and Chebyshev collocation points. The Lévy-Feller diffusion equation is obtained from the standard diffusion equation by replacing the second-order space derivative with a Riesz-Feller derivative. A new formula expressing explicitly any fractional-order derivatives, in the sense of Riesz-Feller operator, of Legendre polynomials of any degree in terms of Jacobi polynomials is proved. Moreover, the Chebyshev-Legendre collocation method together with the implicit Euler method are used to reduce these types of differential equations to a system of algebraic equations which can be solved numerically. Numerical results with comparisons are given to confirm the reliability of the proposed method for the Lévy-Feller diffusion equation.

  10. Green functions and Langevin equations for nonlinear diffusion equations: A comment on ‘Markov processes, Hurst exponents, and nonlinear diffusion equations’ by Bassler et al.

    Science.gov (United States)

    Frank, T. D.

    2008-02-01

    We discuss two central claims made in the study by Bassler et al. [K.E. Bassler, G.H. Gunaratne, J.L. McCauley, Physica A 369 (2006) 343]. Bassler et al. claimed that Green functions and Langevin equations cannot be defined for nonlinear diffusion equations. In addition, they claimed that nonlinear diffusion equations are linear partial differential equations disguised as nonlinear ones. We review bottom-up and top-down approaches that have been used in the literature to derive Green functions for nonlinear diffusion equations and, in doing so, show that the first claim needs to be revised. We show that the second claim as well needs to be revised. To this end, we point out similarities and differences between non-autonomous linear Fokker-Planck equations and autonomous nonlinear Fokker-Planck equations. In this context, we raise the question whether Bassler et al.’s approach to financial markets is physically plausible because it necessitates the introduction of external traders and causes. Such external entities can easily be eliminated when taking self-organization principles and concepts of nonextensive thermostatistics into account and modeling financial processes by means of nonlinear Fokker-Planck equations.

  11. Asymptotic Speed of Wave Propagation for A Discrete Reaction-Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    Xiu-xiang Liu; Pei-xuan Weng

    2006-01-01

    We deal with asymptotic speed of wave propagation for a discrete reaction-diffusion equation. We find the minimal wave speed c* from the characteristic equation and show that c* is just the asymptotic speed of wave propagation. The isotropic property and the existence of solution of the initial value problem for the given equation are also discussed.

  12. Classification and Approximate Functional Separable Solutions to the Generalized Diffusion Equations with Perturbation

    Science.gov (United States)

    Ji, Fei-Yu; Zhang, Shun-Li

    2013-11-01

    In this paper, the generalized diffusion equation with perturbation ut = A(u;ux)uII+eB(u;ux) is studied in terms of the approximate functional variable separation approach. A complete classification of these perturbed equations which admit approximate functional separable solutions is presented. Some approximate solutions to the resulting perturbed equations are obtained by examples.

  13. Transformed Fourier and Fick equations for the control of heat and mass diffusion

    Science.gov (United States)

    Guenneau, S.; Petiteau, D.; Zerrad, M.; Amra, C.; Puvirajesinghe, T.

    2015-05-01

    We review recent advances in the control of diffusion processes in thermodynamics and life sciences through geometric transforms in the Fourier and Fick equations, which govern heat and mass diffusion, respectively. We propose to further encompass transport properties in the transformed equations, whereby the temperature is governed by a three-dimensional, time-dependent, anisotropic heterogeneous convection-diffusion equation, which is a parabolic partial differential equation combining the diffusion equation and the advection equation. We perform two dimensional finite element computations for cloaks, concentrators and rotators of a complex shape in the transient regime. We precise that in contrast to invisibility cloaks for waves, the temperature (or mass concentration) inside a diffusion cloak crucially depends upon time, its distance from the source, and the diffusivity of the invisibility region. However, heat (or mass) diffusion outside cloaks, concentrators and rotators is unaffected by their presence, whatever their shape or position. Finally, we propose simplified designs of layered cylindrical and spherical diffusion cloaks that might foster experimental efforts in thermal and biochemical metamaterials.

  14. Travelling Waves in Hybrid Chemotaxis Models

    KAUST Repository

    Franz, Benjamin

    2013-12-18

    Hybrid models of chemotaxis combine agent-based models of cells with partial differential equation models of extracellular chemical signals. In this paper, travelling wave properties of hybrid models of bacterial chemotaxis are investigated. Bacteria are modelled using an agent-based (individual-based) approach with internal dynamics describing signal transduction. In addition to the chemotactic behaviour of the bacteria, the individual-based model also includes cell proliferation and death. Cells consume the extracellular nutrient field (chemoattractant), which is modelled using a partial differential equation. Mesoscopic and macroscopic equations representing the behaviour of the hybrid model are derived and the existence of travelling wave solutions for these models is established. It is shown that cell proliferation is necessary for the existence of non-transient (stationary) travelling waves in hybrid models. Additionally, a numerical comparison between the wave speeds of the continuum models and the hybrid models shows good agreement in the case of weak chemotaxis and qualitative agreement for the strong chemotaxis case. In the case of slow cell adaptation, we detect oscillating behaviour of the wave, which cannot be explained by mean-field approximations. © 2013 Society for Mathematical Biology.

  15. A high-order splitting scheme for the advection-diffusion equation of pollutants

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    A high-order splitting scheme for the advection-diffusion equation of pollutants is proposed in this paper. The multidimensional advection-diffusion equation is splitted into several one-dimensional equations that are solved by the scheme. Only three spatial grid points are needed in each direction and the scheme has fourth-order spatial accuracy. Several typically pure advection and advection-diffusion problems are simulated. Numerical results show that the accuracy of the scheme is much higher than that of the classical schemes and the scheme can be efficiently solved with little programming effort.

  16. Numerical Solution of Fractional Diffusion Equation Model for Freezing in Finite Media

    Directory of Open Access Journals (Sweden)

    R. S. Damor

    2013-01-01

    Full Text Available Phase change problems play very important role in engineering sciences including casting of nuclear waste materials, vivo freezing of biological tissues, solar collectors and so forth. In present paper, we propose fractional diffusion equation model for alloy solidification. A transient heat transfer analysis is carried out to study the anomalous diffusion. Finite difference method is used to solve the fractional differential equation model. The temperature profiles, the motion of interface, and interface velocity have been evaluated for space fractional diffusion equation.

  17. Variable order differential equations with piecewise constant order-function and diffusion with changing modes

    CERN Document Server

    Umarov, Sabir

    2009-01-01

    In this paper diffusion processes with changing modes are studied involving the variable order partial differential equations. We prove the existence and uniqueness theorem of a solution of the Cauchy problem for fractional variable order (with respect to the time derivative) pseudo-differential equations. Depending on the parameters of variable order derivatives short or long range memories may appear when diffusion modes change. These memory effects are classified and studied in detail. Processes that have distinctive regimes of different types of diffusion depending on time are ubiquitous in the nature. Examples include diffusion in a heterogeneous media and protein movement in cell biology.

  18. A semi-analytical finite element method for a class of time-fractional diffusion equations

    CERN Document Server

    Sun, HongGuang; Sze, K Y

    2011-01-01

    As fractional diffusion equations can describe the early breakthrough and the heavy-tail decay features observed in anomalous transport of contaminants in groundwater and porous soil, they have been commonly employed in the related mathematical descriptions. These models usually involve long-time range computation, which is a critical obstacle for its application, improvement of the computational efficiency is of great significance. In this paper, a semi-analytical method is presented for solving a class of time-fractional diffusion equations which overcomes the critical long-time range computation problem of time fractional differential equations. In the procedure, the spatial domain is discretized by the finite element method which reduces the fractional diffusion equations into approximate fractional relaxation equations. As analytical solutions exist for the latter equations, the burden arising from long-time range computation can effectively be minimized. To illustrate its efficiency and simplicity, four...

  19. Innovation diffusion equations on correlated scale-free networks

    CERN Document Server

    Bertotti, M L; Modanese, G

    2016-01-01

    We introduce a heterogeneous network structure into the Bass diffusion model, in order to study the diffusion times of innovation or information in networks with a scale-free structure, typical of regions where diffusion is sensitive to geographic and logistic influences (like for instance Alpine regions). We consider both the diffusion peak times of the total population and of the link classes. In the familiar trickle-down processes the adoption curve of the hubs is found to anticipate the total adoption in a predictable way. In a major departure from the standard model, we model a trickle-up process by introducing heterogeneous publicity coefficients (which can also be negative for the hubs, thus turning them into stiflers) and a stochastic term which represents the erratic generation of innovation at the periphery of the network. The results confirm the robustness of the Bass model and expand considerably its range of applicability.

  20. Solutions of fractional reaction-diffusion equations in terms of the H-function

    Science.gov (United States)

    Haubold, H. J.; Mathai, A. M.; Saxena, R. K.

    2007-12-01

    This paper deals with the investigation of the solution of an unified fractional reaction-diffusion equation associated with the Caputo derivative as the time-derivative and Riesz-Feller fractional derivative as the space-derivative. The solution is derived by the application of the Laplace and Fourier transforms in closed form in terms of the H-function. The results derived are of general nature and include the results investigated earlier by many authors, notably by Mainardi et al. (2001, 2005) for the fundamental solution of the space-time fractional diffusion equation, and Saxena et al. (2006a, b) for fractional reaction-diffusion equations. The advantage of using Riesz-Feller derivative lies in the fact that the solution of the fractional reaction-diffusion equation containing this derivative includes the fundamental solution for space-time fractional diffusion, which itself is a generalization of neutral fractional diffusion, space-fractional diffusion, and time-fractional diffusion. These specialized types of diffusion can be interpreted as spatial probability density functions evolving in time and are expressible in terms of the H-functions in compact form.

  1. Harnack inequality and strong Feller property for stochastic fast-diffusion equations

    Science.gov (United States)

    Liu, Wei; Wang, Feng-Yu

    2008-06-01

    As a continuation to [F.-Y. Wang, Harnack inequality and applications for stochastic generalized porous media equations, Ann. Probab. 35 (2007) 1333-1350], where the Harnack inequality and the strong Feller property are studied for a class of stochastic generalized porous media equations, this paper presents analogous results for stochastic fast-diffusion equations. Since the fast-diffusion equation possesses weaker dissipativity than the porous medium one does, some technical difficulties appear in the study. As a compensation to the weaker dissipativity condition, a Sobolev-Nash inequality is assumed for the underlying self-adjoint operator in applications. Some concrete examples are constructed to illustrate the main results.

  2. Exact solutions of multi-term fractional diffusion-wave equations with Robin type boundary conditions

    Institute of Scientific and Technical Information of China (English)

    Xiao-jing LIU; Ji-zeng WANG; Xiao-min WANG; You-he ZHOU

    2014-01-01

    General exact solutions in terms of wavelet expansion are obtained for multi-term time-fractional diffusion-wave equations with Robin type boundary conditions. By proposing a new method of integral transform for solving boundary value problems, such fractional partial differential equations are converted into time-fractional ordinary differ-ential equations, which are further reduced to algebraic equations by using the Laplace transform. Then, with a wavelet-based exact formula of Laplace inversion, the resulting exact solutions in the Laplace transform domain are reversed to the time-space domain. Three examples of wave-diffusion problems are given to validate the proposed analytical method.

  3. Non-probabilistic solutions of imprecisely defined fractional-order diffusion equations

    Science.gov (United States)

    Chakraverty, S.; Smita, Tapaswini

    2014-12-01

    The fractional diffusion equation is one of the most important partial differential equations (PDEs) to model problems in mathematical physics. These PDEs are more practical when those are combined with uncertainties. Accordingly, this paper investigates the numerical solution of a non-probabilistic viz. fuzzy fractional-order diffusion equation subjected to various external forces. A fuzzy diffusion equation having fractional order 0 fuzzy initial condition is taken into consideration. Fuzziness appearing in the initial conditions is modelled through convex normalized triangular and Gaussian fuzzy numbers. A new computational technique is proposed based on double parametric form of fuzzy numbers to handle the fuzzy fractional diffusion equation. Using the single parametric form of fuzzy numbers, the original fuzzy diffusion equation is converted first into an interval-based fuzzy differential equation. Next, this equation is transformed into crisp form by using the proposed double parametric form of fuzzy numbers. Finally, the same is solved by Adomian decomposition method (ADM) symbolically to obtain the uncertain bounds of the solution. Computed results are depicted in terms of plots. Results obtained by the proposed method are compared with the existing results in special cases.

  4. Application of linear-extended neutron diffusion equation in a semi-infinite homogeneous medium

    Energy Technology Data Exchange (ETDEWEB)

    Espinosa-Paredes, Gilberto, E-mail: gepe@xanum.uam.mx [Area de Ingenieria en Recursos Energeticos, Universidad Autonoma Metropolitana-Iztapalapa, Av. San Rafael Atlixco 186 Col. Vicentina, Mexico 09340, D.F. (Mexico); Vazquez-Rodriguez, Rodolfo [Area de Ingenieria en Recursos Energeticos, Universidad Autonoma Metropolitana-Iztapalapa, Av. San Rafael Atlixco 186 Col. Vicentina, Mexico 09340, D.F. (Mexico)

    2011-02-15

    The linear-extended neutron diffusion equation (LENDE) is the volume-averaged neutron diffusion equation (VANDE) which includes two correction terms: the first correction is related with the absorption process of the neutron and the second is a contribution to the neutron diffusion, both parameters are related to neutron effects on the interface of a heterogeneous configuration. In this work an analysis of a plane source in a semi-infinite homogeneous medium was considered to study the effects of the correction terms and the results obtained with the linear-extended neutron diffusion equation were compared against a semi-analytical benchmark for the same case. The comparison of the results demonstrate the excellent approach between the linear-extended diffusion theory and the selected benchmark, which means that the correction terms of the VANDE are physically acceptable.

  5. A CLASS OF REACTION-DIFFUSION EQUATIONS WITH HYSTERESIS DIFFERENTIAL OPERATOR

    Institute of Scientific and Technical Information of China (English)

    XuLongfeng

    2002-01-01

    In this paper, the classical and weak derivatives with respect to spatial variable of a class of hysteresis functional are discussed. Some conclusions about solutions of a class of reaction-diffusion equations with hysteresis differential operator are given.

  6. THE CORNER LAYER SOLUTION TO ROBIN PROBLEM FOR REACTION DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    2012-01-01

    A class of Robin boundary value problem for reaction diffusion equation is considered. Under suitable conditions, using the theory of differential inequalities the existence and asymptotic behavior of the corner layer solution to the initial boundary value problem are studied.

  7. A CLASS OF SINGULARLY PERTURBED INITIAL BOUNDARY PROBLEM FOR REACTION DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    Xie Feng

    2003-01-01

    The singularly perturbed initial boundary value problem for a class of reaction diffusion equation isconsidered. Under appropriate conditions, the existence-uniqueness and the asymptotic behavior of the solu-tion are showed by using the fixed-point theorem.

  8. Mixed, Nonsplit, Extended Stability, Stiff Integration of Reaction Diffusion Equations

    KAUST Repository

    Alzahrani, Hasnaa H.

    2016-07-26

    A tailored integration scheme is developed to treat stiff reaction-diffusion prob- lems. The construction adapts a stiff solver, namely VODE, to treat reaction im- plicitly together with explicit treatment of diffusion. The second-order Runge-Kutta- Chebyshev (RKC) scheme is adjusted to integrate diffusion. Spatial operator is de- scretised by second-order finite differences on a uniform grid. The overall solution is advanced over S fractional stiff integrations, where S corresponds to the number of RKC stages. The behavior of the scheme is analyzed by applying it to three simple problems. The results show that it achieves second-order accuracy, thus, preserving the formal accuracy of the original RKC. The presented development sets the stage for future extensions, particularly, to multidimensional reacting flows with detailed chemistry.

  9. A modified diffusion equation for room-acoustic predication.

    Science.gov (United States)

    Jing, Yun; Xiang, Ning

    2007-06-01

    This letter presents a modified diffusion model using an Eyring absorption coefficient to predict the reverberation time and sound pressure distributions in enclosures. While the original diffusion model [Ollendorff, Acustica 21, 236-245 (1969); J. Picaut et al., Acustica 83, 614-621 (1997); Valeau et al., J. Acoust. Soc. Am. 119, 1504-1513 (2006)] usually has good performance for low absorption, the modified diffusion model yields more satisfactory results for both low and high absorption. Comparisons among the modified model, the original model, a geometrical-acoustics model, and several well-established theories in terms of reverberation times and sound pressure level distributions, indicate significantly improved prediction accuracy by the modification.

  10. Numerical Solutions for Convection-Diffusion Equation through Non-Polynomial Spline

    Directory of Open Access Journals (Sweden)

    Ravi Kanth A.S.V.

    2016-01-01

    Full Text Available In this paper, numerical solutions for convection-diffusion equation via non-polynomial splines are studied. We purpose an implicit method based on non-polynomial spline functions for solving the convection-diffusion equation. The method is proven to be unconditionally stable by using Von Neumann technique. Numerical results are illustrated to demonstrate the efficiency and stability of the purposed method.

  11. Travelling waves in hybrid chemotaxis models

    CERN Document Server

    Franz, Benjamin; Painter, Kevin J; Erban, Radek

    2013-01-01

    Hybrid models of chemotaxis combine agent-based models of cells with partial differential equation models of extracellular chemical signals. In this paper, travelling wave properties of hybrid models of bacterial chemotaxis are investigated. Bacteria are modelled using an agent-based (individual-based) approach with internal dynamics describing signal transduction. In addition to the chemotactic behaviour of the bacteria, the individual-based model also includes cell proliferation and death. Cells consume the extracellular nutrient field (chemoattractant) which is modelled using a partial differential equation. Mesoscopic and macroscopic equations representing the behaviour of the hybrid model are derived and the existence of travelling wave solutions for these models is established. It is shown that cell proliferation is necessary for the existence of non-transient (stationary) travelling waves in hybrid models. Additionally, a numerical comparison between the wave speeds of the continuum models and the hybr...

  12. Solving the Advection-Diffusion Equations in Biological Contexts using the Cellular Potts Model

    CERN Document Server

    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...

  13. Diffusion approximations to the chemical master equation only have a consistent stochastic thermodynamics at chemical equilibrium

    Energy Technology Data Exchange (ETDEWEB)

    Horowitz, Jordan M., E-mail: jordan.horowitz@umb.edu [Department of Physics, University of Massachusetts at Boston, Boston, Massachusetts 02125 (United States)

    2015-07-28

    The stochastic thermodynamics of a dilute, well-stirred mixture of chemically reacting species is built on the stochastic trajectories of reaction events obtained from the chemical master equation. However, when the molecular populations are large, the discrete chemical master equation can be approximated with a continuous diffusion process, like the chemical Langevin equation or low noise approximation. In this paper, we investigate to what extent these diffusion approximations inherit the stochastic thermodynamics of the chemical master equation. We find that a stochastic-thermodynamic description is only valid at a detailed-balanced, equilibrium steady state. Away from equilibrium, where there is no consistent stochastic thermodynamics, we show that one can still use the diffusive solutions to approximate the underlying thermodynamics of the chemical master equation.

  14. Application of the fractional conservation of mass to Gas Flow diffusivity equation in heterogeneous porous media

    CERN Document Server

    Caserta, A; Salusti, E

    2016-01-01

    In this paper we reconsider the classical nonlinear diffusivity equation of real gas in an heterogenous porous medium in light of the recent studies about the generalized fractional equation of conservation of mass. We first recall the physical meaning of the fractional conservation of mass recently studied by Wheatcraft and Meerschaert (2008) and then consider the implications in the classical model of diffusion of a real gas in a porous medium. Then we show that the obtained equation can be simply linearized into a classical space-fractional diffusion equation, widely studied in the literature. We also consider the case of a power-law pressure-dependence of the permeability coefficient. In this case we provide some useful exact analytical results. In particular, we are able to find a Barenblatt-type solution for a space-fractional Boussinesq equation, arising in this context.

  15. THE ANALYTICAL SOLUTION FOR SEDIMENT REACTION AND DIFFUSION EQUATION WITH GENERALIZED INITIAL-BOUNDARY CONDITIONS

    Institute of Scientific and Technical Information of China (English)

    熊岳山; 韦永康

    2001-01-01

    The sediment reaction and diffusion equation with generalized initial and boundary condition is studied. By using Laplace transform and Jordan lemma , an analytical solution is got, which is an extension of analytical solution provided by Cheng Kwokming James ( only diffusion was considered in analytical solution of Cheng ). Some problems arisen in the computation of analytical solution formula are also analysed.

  16. Global Null Controllability of the 1-Dimensional Nonlinear Slow Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    Jean-Michel CORON; Jesús Ildefonso D(I)AZ; Abdelmalek DRICI; Tommaso MINGAZZINI

    2013-01-01

    The authors prove the global null controllability for the 1-dimensional nonlinear slow diffusion equation by using both a boundary and an internal control.They assume that the internal control is only time dependent.The proof relies on the return method in combination with some local controllability results for nondegenerate equations and rescaling techniques.

  17. Strang-type preconditioners for solving fractional diffusion equations by boundary value methods

    NARCIS (Netherlands)

    Gu, Xian-Ming; Huang, Ting-Zhu; Zhao, Xi-Le; Li, Hou-Biao; Li, Liang

    2015-01-01

    The finite difference scheme with the shifted Grünwarld formula is employed to semi-discrete the fractional diffusion equations. This spatial discretization can reduce to the large system of ordinary differential equations (ODEs) with initial values. Recently, boundary value method (BVM) was develop

  18. Solitary wave solutions of selective nonlinear diffusion-reaction equations using homogeneous balance method

    Indian Academy of Sciences (India)

    Ranjit Kumar; R S Kaushal; Awadhesh Prasad

    2010-10-01

    An auto-Bäcklund transformation derived in the homogeneous balance method is employed to obtain several new exact solutions of certain kinds of nonlinear diffusion-reaction (D-R) equations. These equations arise in a variety of problems in physical, chemical, biological, social and ecological sciences.

  19. Variational iteration method for solving the time-fractional diffusion equations in porous medium

    Institute of Scientific and Technical Information of China (English)

    Wu Guo-Cheng

    2012-01-01

    The variational iteration method is successfully extended to the case of solving fractional differential equations,and the Lagrange multiplier of the method is identified in a more accurate way.Some diffusion models with fractional derivatives are investigated analytically,and the results show the efficiency of the new Lagrange multiplier for fractional differential equations of arbitrary order.

  20. An Application of Equivalence Transformations to Reaction Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Mariano Torrisi

    2015-10-01

    Full Text Available In this paper, we consider a quite general class of advection reaction diffusion systems. By using an equivalence generator, derived in a previous paper, the authors apply a projection theorem to determine some special forms of the constitutive functions that allow the extension by one of the two-dimensional principal Lie algebra. As an example, a special case is discussed at the end of the paper.

  1. On the Fractional Nagumo Equation with Nonlinear Diffusion and Convection

    Directory of Open Access Journals (Sweden)

    Abdon Atangana

    2014-01-01

    Full Text Available We presented the Nagumo equation using the concept of fractional calculus. With the help of two analytical techniques including the homotopy decomposition method (HDM and the new development of variational iteration method (NDVIM, we derived an approximate solution. Both methods use a basic idea of integral transform and are very simple to be used.

  2. Spherically Symmetric Waves of a Reaction-Diffusion Equation.

    Science.gov (United States)

    1980-02-01

    The space A c M x [0,1] of chapter 4, section II inherited it.- semiflow from M x [0.11 which comes from the equation in cuestion . In this chapter we...have the property that an open neighbourhood of the solution whose stability is in cuestion with the inherited topology should be effectively the same

  3. Traveling Wave Solutions of Reaction-Diffusion Equations Arising in Atherosclerosis Models

    Directory of Open Access Journals (Sweden)

    Narcisa Apreutesei

    2014-05-01

    Full Text Available In this short review article, two atherosclerosis models are presented, one as a scalar equation and the other one as a system of two equations. They are given in terms of reaction-diffusion equations in an infinite strip with nonlinear boundary conditions. The existence of traveling wave solutions is studied for these models. The monostable and bistable cases are introduced and analyzed.

  4. A two-phase free boundary problem for a nonlinear diffusion-convection equation

    Energy Technology Data Exchange (ETDEWEB)

    De Lillo, S; Lupo, G [Dipartimento di Matematica e Informatica, Universita degli Studi di Perugia, Via Vanvitelli 1, 06123 Perugia (Italy)], E-mail: silvana.delillo@pg.infn.it

    2008-04-11

    A two-phase free boundary problem associated with a diffusion-convection equation is considered. The problem is reduced to a system of nonlinear integral equations, which admits a unique solution for small times. The system admits an explicit two-component solution corresponding to a two-component shock wave of the Burgers equation. The stability of such a solution is also discussed.

  5. Nonlinear equation for anomalous diffusion: Unified power-law and stretched exponential exact solution.

    Science.gov (United States)

    Malacarne, L C; Mendes, R S; Pedron, I T; Lenzi, E K

    2001-03-01

    The nonlinear diffusion equation partial delta rho/delta t=D Delta rho(nu) is analyzed here, where Delta[triple bond](1/r(d-1))(delta/delta r)r(d-1-theta) delta/delta r, and d, theta, and nu are real parameters. This equation unifies the anomalous diffusion equation on fractals (nu=1) and the spherical anomalous diffusion for porous media (theta=0). An exact point-source solution is obtained, enabling us to describe a large class of subdiffusion [ theta>(1-nu)d], "normal" diffusion [theta=(1-nu)d] and superdiffusion [theta<(1-nu)d]. Furthermore, a thermostatistical basis for this solution is given from the maximum entropic principle applied to the Tsallis entropy.

  6. Lie group invariant finite difference schemes for the neutron diffusion equation

    Energy Technology Data Exchange (ETDEWEB)

    Jaegers, P.J.

    1994-06-01

    Finite difference techniques are used to solve a variety of differential equations. For the neutron diffusion equation, the typical local truncation error for standard finite difference approximation is on the order of the mesh spacing squared. To improve the accuracy of the finite difference approximation of the diffusion equation, the invariance properties of the original differential equation have been incorporated into the finite difference equations. Using the concept of an invariant difference operator, the invariant difference approximations of the multi-group neutron diffusion equation were determined in one-dimensional slab and two-dimensional Cartesian coordinates, for multiple region problems. These invariant difference equations were defined to lie upon a cell edged mesh as opposed to the standard difference equations, which lie upon a cell centered mesh. Results for a variety of source approximations showed that the invariant difference equations were able to determine the eigenvalue with greater accuracy, for a given mesh spacing, than the standard difference approximation. The local truncation errors for these invariant difference schemes were found to be highly dependent upon the source approximation used, and the type of source distribution played a greater role in determining the accuracy of the invariant difference scheme than the local truncation error.

  7. Space-time fractional diffusion equation using a derivative with nonsingular and regular kernel

    Science.gov (United States)

    Gómez-Aguilar, J. F.

    2017-01-01

    In this paper, using the fractional operators with Mittag-Leffler kernel in Caputo and Riemann-Liouville sense the space-time fractional diffusion equation is modified, the fractional equation will be examined separately; with fractional spatial derivative and fractional temporal derivative. For the study cases, the order considered is 0 < β , γ ≤ 1 respectively. In this alternative representation we introduce the appropriate fractional dimensional parameters which characterize consistently the existence of the fractional space-time derivatives into the fractional diffusion equation, these parameters related to equation results in a fractal space-time geometry provide a new family of solutions for the diffusive processes. The proposed mathematical representation can be useful to understand electrochemical phenomena, propagation of energy in dissipative systems, viscoelastic materials, material heterogeneities and media with different scales.

  8. The structure of hypersonic shock waves using Navier-Stokes equations modified to include mass diffusion

    CERN Document Server

    Greenshields, Christopher J

    2007-01-01

    Howard Brenner has recently proposed modifications to the Navier-Stokes equations that relate to a diffusion of fluid volume that would be significant for flows with high density gradients. In a previous paper (Greenshields & Reese, 2007), we found these modifications gave good predictions of the viscous structure of shock waves in argon in the range Mach 1.0-12.0 (while conventional Navier-Stokes equations are known to fail above about Mach 2). However, some areas of concern with this model were a somewhat arbitrary choice of modelling coefficient, and potentially unphysical and unstable solutions. In this paper, we therefore present slightly different modifications to include molecule mass diffusion fully in the Navier-Stokes equations. These modifications are shown to be stable and produce physical solutions to the shock problem of a quality broadly similar to those from the family of extended hydrodynamic models that includes the Burnett equations. The modifications primarily add a diffusion term to t...

  9. Diffusion equation and spin drag in spin-polarized transport

    DEFF Research Database (Denmark)

    Flensberg, Karsten; Jensen, Thomas Stibius; Mortensen, Asger

    2001-01-01

    We study the role of electron-electron interactions for spin-polarized transport using the Boltzmann equation, and derive a set of coupled transport equations. For spin-polarized transport the electron-electron interactions are important, because they tend to equilibrate the momentum of the two-spin...... species. This "spin drag" effect enhances the resistivity of the system. The enhancement is stronger the lower the dimension is, and should be measurable in, for example, a two-dimensional electron gas with ferromagnetic contacts. We also include spin-flip scattering, which has two effects......: it equilibrates the spin density imbalance and, provided it has a non-s-wave component, also a current imbalance....

  10. Asymptotic behaviour for a diffusion equation governed by nonlocal interactions

    CERN Document Server

    Ovono, Armel Andami

    2010-01-01

    In this paper we study the asymptotic behaviour of a nonlocal nonlinear parabolic equation governed by a parameter. After giving the existence of unique branch of solutions composed by stable solutions in stationary case, we gives for the parabolic problem $L^\\infty $ estimates of solution based on using the Moser iterations and existence of global attractor. We finish our study by the issue of asymptotic behaviour in some cases when $t\\to \\infty$.

  11. Simultaneous contrast improvement and denoising via diffusion-related equations

    Science.gov (United States)

    Sapiro, Guillermo; Caselles, Vicent

    1995-08-01

    The explicit use of partial differential equations (PDE's) in image processing became a major topic of study in the last years. In this work we present an algorithm for histogram modification via PDE's. We show that the histogram can be modified to achieve any given distribution. The modification can be performed while simultaneously reducing noise. This avoids the noise sharpening effect in classical algorithms. The approach is extended to local contrast enhancement as well. A variational interpretation of the flow is presented and theoretical results on the existence of solutions are given.

  12. Implicit Solution of Non-Equilibrium Radiation Diffusion Including Reactive Heating Source in Material Energy Equation

    Energy Technology Data Exchange (ETDEWEB)

    Shumaker, D E; Woodward, C S

    2005-05-03

    In this paper, the authors investigate performance of a fully implicit formulation and solution method of a diffusion-reaction system modeling radiation diffusion with material energy transfer and a fusion fuel source. In certain parameter regimes this system can lead to a rapid conversion of potential energy into material energy. Accuracy in time integration is essential for a good solution since a major fraction of the fuel can be depleted in a very short time. Such systems arise in a number of application areas including evolution of a star and inertial confinement fusion. Previous work has addressed implicit solution of radiation diffusion problems. Recently Shadid and coauthors have looked at implicit and semi-implicit solution of reaction-diffusion systems. In general they have found that fully implicit is the most accurate method for difficult coupled nonlinear equations. In previous work, they have demonstrated that a method of lines approach coupled with a BDF time integrator and a Newton-Krylov nonlinear solver could efficiently and accurately solve a large-scale, implicit radiation diffusion problem. In this paper, they extend that work to include an additional heating term in the material energy equation and an equation to model the evolution of the reactive fuel density. This system now consists of three coupled equations for radiation energy, material energy, and fuel density. The radiation energy equation includes diffusion and energy exchange with material energy. The material energy equation includes reaction heating and exchange with radiation energy, and the fuel density equation includes its depletion due to the fuel consumption.

  13. A nonlinear equation for ionic diffusion in a strong binary electrolyte

    CERN Document Server

    Ghosal, Sandip; 10.1098/rspa.2010.0028

    2012-01-01

    The problem of the one dimensional electro-diffusion of ions in a strong binary electrolyte is considered. In such a system the solute dissociates completely into two species of ions with unlike charges. The mathematical description consists of a diffusion equation for each species augmented by transport due to a self consistent electrostatic field determined by the Poisson equation. This mathematical framework also describes other important problems in physics such as electron and hole diffusion across semi-conductor junctions and the diffusion of ions in plasmas. If concentrations do not vary appreciably over distances of the order of the Debye length, the Poisson equation can be replaced by the condition of local charge neutrality first introduced by Planck. It can then be shown that both species diffuse at the same rate with a common diffusivity that is intermediate between that of the slow and fast species (ambipolar diffusion). Here we derive a more general theory by exploiting the ratio of Debye length...

  14. On the sharp front-type solution of the Nagumo equation with nonlinear diffusion and convection

    Indian Academy of Sciences (India)

    M B A Mansour

    2013-03-01

    This paper is concerned with the Nagumo equation with nonlinear degenerate diffusion and convection which arises in several problems of population dynamics, chemical reactions and others. A sharp front-type solution with a minimum speed to this model equation is analysed using different methods. One of the methods is to solve the travelling wave equations and compute an exact solution which describes the sharp travelling wavefront. The second method is to solve numerically an initial-moving boundary-value problem for the partial differential equation and obtain an approximation for this sharp front-type solution.

  15. An Efficient Implicit FEM Scheme for Fractional-in-Space Reaction-Diffusion Equations

    KAUST Repository

    Burrage, Kevin

    2012-01-01

    Fractional differential equations are becoming increasingly used as a modelling tool for processes associated with anomalous diffusion or spatial heterogeneity. However, the presence of a fractional differential operator causes memory (time fractional) or nonlocality (space fractional) issues that impose a number of computational constraints. In this paper we develop efficient, scalable techniques for solving fractional-in-space reaction diffusion equations using the finite element method on both structured and unstructured grids via robust techniques for computing the fractional power of a matrix times a vector. Our approach is show-cased by solving the fractional Fisher and fractional Allen-Cahn reaction-diffusion equations in two and three spatial dimensions, and analyzing the speed of the traveling wave and size of the interface in terms of the fractional power of the underlying Laplacian operator. © 2012 Society for Industrial and Applied Mathematics.

  16. Diffusive approximation of a time-fractional Burgers equation in nonlinear acoustics

    CERN Document Server

    Lombard, Bruno

    2016-01-01

    A fractional time derivative is introduced into the Burgers equation to model losses of nonlinear waves. This term amounts to a time convolution product, which greatly penalizes the numerical modeling. A diffusive representation of the fractional derivative is adopted here, replacing this nonlocal operator by a continuum of memory variables that satisfy local-in-time ordinary differential equations. Then a quadrature formula yields a system of local partial differential equations, well-suited to numerical integration. The determination of the quadrature coefficients is crucial to ensure both the well-posedness of the system and the computational efficiency of the diffusive approximation. For this purpose, optimization with constraint is shown to be a very efficient strategy. Strang splitting is used to solve successively the hyperbolic part by a shock-capturing scheme, and the diffusive part exactly. Numerical experiments are proposed to assess the efficiency of the numerical modeling, and to illustrate the e...

  17. The fundamental solution of Cauchy problem for a single equation of the diffusion equation with inertia

    Directory of Open Access Journals (Sweden)

    H. P. Malytska

    2014-12-01

    Full Text Available The paper found the explicit form of the fundamental solution of  Cauchy problem for the equation of Kolmogorov type that has a finite number  groups of spatial variables which are degenerate parabolic.

  18. Generalized Fractional Master Equation for Self-Similar Stochastic Processes Modelling Anomalous Diffusion

    Directory of Open Access Journals (Sweden)

    Gianni Pagnini

    2012-01-01

    inhomogeneity and nonstationarity properties of the medium. For instance, when this superposition is applied to the time-fractional diffusion process, the resulting Master Equation emerges to be the governing equation of the Erdélyi-Kober fractional diffusion, that describes the evolution of the marginal distribution of the so-called generalized grey Brownian motion. This motion is a parametric class of stochastic processes that provides models for both fast and slow anomalous diffusion: it is made up of self-similar processes with stationary increments and depends on two real parameters. The class includes the fractional Brownian motion, the time-fractional diffusion stochastic processes, and the standard Brownian motion. In this framework, the M-Wright function (known also as Mainardi function emerges as a natural generalization of the Gaussian distribution, recovering the same key role of the Gaussian density for the standard and the fractional Brownian motion.

  19. Operator Splitting Methods for Degenerate Convection-Diffusion Equations I: Convergence and Entropy Estimates

    Energy Technology Data Exchange (ETDEWEB)

    Holden, Helge; Karlsen, Kenneth H.; Lie, Knut-Andreas

    1999-10-01

    We present and analyze a numerical method for the solution of a class of scalar, multi-dimensional, nonlinear degenerate convection-diffusion equations. The method is based on operator splitting to separate the convective and the diffusive terms in the governing equation. The nonlinear, convective part is solved using front tracking and dimensional splitting, while the nonlinear diffusion equation is solved by a suitable difference scheme. We verify L{sup 1} compactness of the corresponding set of approximate solutions and derive precise entropy estimates. In particular, these results allow us to pass to the limit in our approximations and recover an entropy solution of the problem in question. The theory presented covers a large class of equations. Important subclasses are hyperbolic conservation laws, porous medium type equations, two-phase reservoir flow equations, and strongly degenerate equations coming from the recent theory of sedimentation-consolidation processes. A thorough numerical investigation of the method analyzed in this paper (and similar methods) is presented in a companion paper. (author)

  20. Asymptotic Properties of Solutions of Parabolic Equations Arising from Transient Diffusions

    Institute of Scientific and Technical Information of China (English)

    A.M. Il'in; R.Z. Khasminskii; G. Yin

    2002-01-01

    This work is concerned with asymptotic properties of a class of parabolic systems arising from singularly perturbed diffusions. The underlying system has a fast varying component and a slowly changing component. One of the distinct features is that the fast varying diffusion is transient. Under such a setup, this paper presents an asymptotic analysis of the solutions of such parabolic equations. Asymptotic expansions of functional satisfying the parabolic system are obtained. Error bounds are derived.

  1. Anomalous diffusion in nonhomogeneous media: time-subordinated Langevin equation approach.

    Science.gov (United States)

    Srokowski, Tomasz

    2014-03-01

    Diffusion in nonhomogeneous media is described by a dynamical process driven by a general Lévy noise and subordinated to a random time; the subordinator depends on the position. This problem is approximated by a multiplicative process subordinated to a random time: it separately takes into account effects related to the medium structure and the memory. Density distributions and moments are derived from the solutions of the corresponding Langevin equation and compared with the numerical calculations for the exact problem. Both subdiffusion and enhanced diffusion are predicted. Distribution of the process satisfies the fractional Fokker-Planck equation.

  2. A Fully Discrete Galerkin Method for a Nonlinear Space-Fractional Diffusion Equation

    Directory of Open Access Journals (Sweden)

    Yunying Zheng

    2011-01-01

    Full Text Available The spatial transport process in fractal media is generally anomalous. The space-fractional advection-diffusion equation can be used to characterize such a process. In this paper, a fully discrete scheme is given for a type of nonlinear space-fractional anomalous advection-diffusion equation. In the spatial direction, we use the finite element method, and in the temporal direction, we use the modified Crank-Nicolson approximation. Here the fractional derivative indicates the Caputo derivative. The error estimate for the fully discrete scheme is derived. And the numerical examples are also included which are in line with the theoretical analysis.

  3. Incremental Unknowns Method for Solving Three-Dimensional Convection-Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    Lunji Song; Yujiang Wu

    2007-01-01

    We use the incremental unknowns method in conjunction with the iterative methods to approximate the solution of the nonsymmetric and positive-definite linear systems generated from a multilevel discretization of three-dimensional convection-diffusion equations. The condition numbers of incremental unknowns matrices associated with the convection-diffusion equations and the number of iterations needed to attain an acceptable accuracy are estimated. Numerical results are presented with two-level approximations,which demonstrate that the incremental unknowns method when combined with some iterative methods is very efficient.

  4. Finite element method for nonlinear Riesz space fractional diffusion equations on irregular domains

    Science.gov (United States)

    Yang, Z.; Yuan, Z.; Nie, Y.; Wang, J.; Zhu, X.; Liu, F.

    2017-02-01

    In this paper, we consider two-dimensional Riesz space fractional diffusion equations with nonlinear source term on convex domains. Applying Galerkin finite element method in space and backward difference method in time, we present a fully discrete scheme to solve Riesz space fractional diffusion equations. Our breakthrough is developing an algorithm to form stiffness matrix on unstructured triangular meshes, which can help us to deal with space fractional terms on any convex domain. The stability and convergence of the scheme are also discussed. Numerical examples are given to verify accuracy and stability of our scheme.

  5. A moving mesh finite difference method for equilibrium radiation diffusion equations

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Xiaobo, E-mail: xwindyb@126.com [Department of Mathematics, College of Science, China University of Mining and Technology, Xuzhou, Jiangsu 221116 (China); Huang, Weizhang, E-mail: whuang@ku.edu [Department of Mathematics, University of Kansas, Lawrence, KS 66045 (United States); Qiu, Jianxian, E-mail: jxqiu@xmu.edu.cn [School of Mathematical Sciences and Fujian Provincial Key Laboratory of Mathematical Modeling and High-Performance Scientific Computing, Xiamen University, Xiamen, Fujian 361005 (China)

    2015-10-01

    An efficient moving mesh finite difference method is developed for the numerical solution of equilibrium radiation diffusion equations in two dimensions. The method is based on the moving mesh partial differential equation approach and moves the mesh continuously in time using a system of meshing partial differential equations. The mesh adaptation is controlled through a Hessian-based monitor function and the so-called equidistribution and alignment principles. Several challenging issues in the numerical solution are addressed. Particularly, the radiation diffusion coefficient depends on the energy density highly nonlinearly. This nonlinearity is treated using a predictor–corrector and lagged diffusion strategy. Moreover, the nonnegativity of the energy density is maintained using a cutoff method which has been known in literature to retain the accuracy and convergence order of finite difference approximation for parabolic equations. Numerical examples with multi-material, multiple spot concentration situations are presented. Numerical results show that the method works well for radiation diffusion equations and can produce numerical solutions of good accuracy. It is also shown that a two-level mesh movement strategy can significantly improve the efficiency of the computation.

  6. Mixed time discontinuous space-time finite element method for convection diffusion equations

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    A mixed time discontinuous space-time finite element scheme for second-order convection diffusion problems is constructed and analyzed. Order of the equation is lowered by the mixed finite element method. The low order equation is discretized with a space-time finite element method, continuous in space but discontinuous in time. Stability, existence, uniqueness and convergence of the approximate solutions are proved. Numerical results are presented to illustrate efficiency of the proposed method.

  7. Wright functions governed by fractional directional derivatives and fractional advection diffusion equations

    CERN Document Server

    D'Ovidio, Mirko

    2012-01-01

    We consider fractional directional derivatives and establish some connection with stable densities. Solutions to advection equations involving fractional directional derivatives are presented and some properties investigated. In particular we obtain solutions written in terms of Wright functions by exploiting operational rules involving the shift operator. We also consider fractional advection diffusion equations involving fractional powers of the negative Laplace operator and directional derivatives of fractional order and discuss the probabilistic interpretations of solutions.

  8. Incompressible limit of the compressible non-isentropic magnetohydrodynamic equations with zero magnetic diffusivity

    CERN Document Server

    Jiang, Song; Li, Fucai

    2011-01-01

    We study the incompressible limit of the compressible non-isentropic magnetohydrodynamic equations with zero magnetic diffusivity and general initial data in the whole space $\\mathbb{R}^d$ $(d=2,3)$. We first establish the existence of classic solutions on a time interval independent of the Mach number. Then, by deriving uniform a priori estimates, we obtain the convergence of the solution to that of the incompressible magnetohydrodynamic equations as the Mach number tends to zero.

  9. VARIATIONAL DISCRETIZATION FOR OPTIMAL CONTROL GOVERNED BY CONVECTION DOMINATED DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    Michael Hinze; Ningning Yan; Zhaojie Zhou

    2009-01-01

    In this paper, we study variational discretization for the constrained optimal control problem governed by convection dominated diffusion equations, where the state equation is approximated by the edge stabilization Galerkin method. A priori error estimates are derived for the state, the adjoint state and the control. Moreover, residual type a posteriori error estimates in the L2-norm are obtained. Finally, two numerical experiments are presented to illustrate the theoretical results.

  10. Limiting behavior of non-autonomous stochastic reaction-diffusion equations on thin domains

    Science.gov (United States)

    Li, Dingshi; Wang, Bixiang; Wang, Xiaohu

    2017-02-01

    This paper deals with the limiting behavior of stochastic reaction-diffusion equations driven by multiplicative noise and deterministic non-autonomous terms defined on thin domains. We first prove the existence, uniqueness and periodicity of pullback tempered random attractors for the equations in an (n + 1)-dimensional narrow domain, and then establish the upper semicontinuity of these attractors when a family of (n + 1)-dimensional thin domains collapses onto an n-dimensional domain.

  11. Heavy (or large) ions in a fluid in an electric field: The diffusion equation exactly following from the Fokker-Planck equation.

    Science.gov (United States)

    Ferrari, Leonardo

    2008-07-28

    The problem of the derivation of the diffusion equation exactly following from the Fokker-Planck (or Klein-Kramers) equation for heavy (or large) particles in a fluid in an external force field is solved in the case in which the particles are ions subject to a uniform (but in general time-varying) electric field. It is found that such a diffusion equation maintains memory of the initial ion velocity distribution, unless sufficiently large values of time are considered. In such temporal asymptotic limit, the diffusion equation exactly becomes (i) the Smoluchowski equation when the electric field is constant in time, and (ii) a new equation generalizing the Smoluchowski equation, when the electric field is arbitrarily time varying. Finally, it is shown that the obtained exact (or asymptotic) results make questionable the procedures and the results of approximate theories developed in the past to get a "corrected" Smoluchowski equation when the external force can also be, in general, position dependent.

  12. Applicability of the Fokker-Planck equation to the description of diffusion effects on nucleation

    Science.gov (United States)

    Sorokin, M. V.; Dubinko, V. I.; Borodin, V. A.

    2017-01-01

    The nucleation of islands in a supersaturated solution of surface adatoms is considered taking into account the possibility of diffusion profile formation in the island vicinity. It is shown that the treatment of diffusion-controlled cluster growth in terms of the Fokker-Planck equation is justified only provided certain restrictions are satisfied. First of all, the standard requirement that diffusion profiles of adatoms quickly adjust themselves to the actual island sizes (adiabatic principle) can be realized only for sufficiently high island concentration. The adiabatic principle is essential for the probabilities of adatom attachment to and detachment from island edges to be independent of the adatom diffusion profile establishment kinetics, justifying the island nucleation treatment as the Markovian stochastic process. Second, it is shown that the commonly used definition of the "diffusion" coefficient in the Fokker-Planck equation in terms of adatom attachment and detachment rates is justified only provided the attachment and detachment are statistically independent, which is generally not the case for the diffusion-limited growth of islands. We suggest a particular way to define the attachment and detachment rates that allows us to satisfy this requirement as well. When applied to the problem of surface island nucleation, our treatment predicts the steady-state nucleation barrier, which coincides with the conventional thermodynamic expression, even though no thermodynamic equilibrium is assumed and the adatom diffusion is treated explicitly. The effect of adatom diffusional profiles on the nucleation rate preexponential factor is also discussed. Monte Carlo simulation is employed to analyze the applicability domain of the Fokker-Planck equation and the diffusion effect beyond it. It is demonstrated that a diffusional cloud is slowing down the nucleation process for a given monomer interaction with the nucleus edge.

  13. On Positive Solutions of Some System of Reaction-Diffusion Equations with Nonlocal Initial Conditions

    CERN Document Server

    Walker, Christoph

    2010-01-01

    The paper focuses on positive solutions to a coupled system of parabolic equations with nonlocal initial conditions. Such equations arise as steady-state equations in an age-structured predator-prey model with diffusion. By using global bifurcation techniques, we describe the structure of the set of positive solutions with respect to two parameters measuring the intensities of the fertility of the species. In particular, we establish co-existence steady-states, i.e. solutions which are nonnegative and nontrivial in both components.

  14. Identifying space-dependent coefficients and the order of fractionality in fractional advection diffusion equation

    CERN Document Server

    Maryshev, Boris; Latrille, Christelle; Néel, Marie-Christine

    2016-01-01

    Tracer tests in natural porous media sometimes show abnormalities that suggest considering a fractional variant of the Advection Diffusion Equation supplemented by a time derivative of non-integer order. We are describing an inverse method for this equation: it finds the order of the fractional derivative and the coefficients that achieve minimum discrepancy between solution and tracer data. Using an adjoint equation divides the computational effort by an amount proportional to the number of freedom degrees, which becomes large when some coefficients depend on space. Method accuracy is checked on synthetical data, and applicability to actual tracer test is demonstrated.

  15. The Analysis of the Two-dimensional Diffusion Equation With a Source

    Directory of Open Access Journals (Sweden)

    Sunday Augustus REJU

    2006-07-01

    Full Text Available This study presents a new variant analysis and simulations of the two-dimensional energized wave equation remarkably different from the diffusion equations studied earlier studied. The objective functional and the dynamical energized wave are penalized to form a function called the Hamiltonian function. From this function, we obtained the necessary conditions for the optimal solutions using the maximum principle. By applying the Fourier solution to the first order differential equation, the analytical solutions for the state and control are obtained. The solutions are simulated to give visual physical interpretation of the waves and the numerical values.

  16. A Four Group Reference Code for Solving Neutron Diffusion Equation in a VVER-440 Core

    Energy Technology Data Exchange (ETDEWEB)

    Saarinen, Simo [Fortum Nuclear Services Ltd., P.O. Box 100, 00048 Fortum (Finland)

    2008-07-01

    Nuclear reactor core power calculation is essential in the analysis of the nuclear power plant and especially the core. Currently, the core power distribution in Loviisa VVER-440 core is calculated using nodal code HEXBU-3D and pin-power reconstruction code ELSI-1440 that solve the two group neutron diffusion equation. The computer power available has increased significantly during the last decades allowing us to develop a fine mesh code HEXRE for solving the four group diffusion equation. The diffusion equations are discretized using piecewise linear polynomials. The core is discretized using one node per fuel pin cell. The axial discretization can be chosen freely. The boundary conditions are described using diffusion theory and albedos. Burnup dependence is modelled by tabulating diffusion parameters at certain burnup values and using interpolation for the intermediate values. A two degree polynomial is used for the modelling of the feedback effects. Eigenvalue calculation for both boron concentration and multiplication factor control has been formulated. A possibility to perform fuel loading and shuffling operations is implemented. HEXRE has been thoroughly compared with HEXBU-3D and ELSI-1440. The effect of the different energy and space discretizations used is investigated. Some safety criteria for the core calculated with the HEXRE and HEXBU-3D/ELSI-1440 have been compared. From the calculations (e.g. the safety criteria) we can estimate whether there exists systematic deviations in HEXBU- 3D/ELSI-1440 calculations or not. (author)

  17. The precise time-dependent solution of the Fokker–Planck equation with anomalous diffusion

    Energy Technology Data Exchange (ETDEWEB)

    Guo, Ran; Du, Jiulin, E-mail: jiulindu@aliyun.com

    2015-08-15

    We study the time behavior of the Fokker–Planck equation in Zwanzig’s rule (the backward-Ito’s rule) based on the Langevin equation of Brownian motion with an anomalous diffusion in a complex medium. The diffusion coefficient is a function in momentum space and follows a generalized fluctuation–dissipation relation. We obtain the precise time-dependent analytical solution of the Fokker–Planck equation and at long time the solution approaches to a stationary power-law distribution in nonextensive statistics. As a test, numerically we have demonstrated the accuracy and validity of the time-dependent solution. - Highlights: • The precise time-dependent solution of the Fokker–Planck equation with anomalous diffusion is found. • The anomalous diffusion satisfies a generalized fluctuation–dissipation relation. • At long time the time-dependent solution approaches to a power-law distribution in nonextensive statistics. • Numerically we have demonstrated the accuracy and validity of the time-dependent solution.

  18. Bifurcation Analysis of Gene Propagation Model Governed by Reaction-Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Guichen Lu

    2016-01-01

    Full Text Available We present a theoretical analysis of the attractor bifurcation for gene propagation model governed by reaction-diffusion equations. We investigate the dynamical transition problems of the model under the homogeneous boundary conditions. By using the dynamical transition theory, we give a complete characterization of the bifurcated objects in terms of the biological parameters of the problem.

  19. Regularity criteria for 3D Boussinesq equations with zero thermal diffusion

    Directory of Open Access Journals (Sweden)

    Zhuan Ye

    2015-04-01

    Full Text Available In this article, we consider the three-dimensional (3D incompressible Boussinesq equations with zero thermal diffusion. We establish a regularity criterion for the local smooth solution in the framework of Besov spaces in terms of the velocity only.

  20. Blow-up criterion for the zero-diffusive Boussinesq equations via the velocity components

    Directory of Open Access Journals (Sweden)

    Weihua Wang

    2015-03-01

    Full Text Available This article concerns the blow up for the smooth solutions of the three-dimensional Boussinesq equations with zero diffusivity. It is shown that if any two components of the velocity field $u$ satisfy $$ \\int_0^T \\frac{ \\||u_1|+|u_2|\\|^q_{L^{p,\\infty}} } {1+\\ln ( e+\\|\

  1. On the exact solutions of nonlinear diffusion-reaction equations with quadratic and cubic nonlinearities

    Indian Academy of Sciences (India)

    R S Kaushal; Ranjit Kumar; Awadhesh Prasad

    2006-08-01

    Attempts have been made to look for the soliton content in the solutions of the recently studied nonlinear diffusion-reaction equations [R S Kaushal, J. Phys. 38, 3897 (2005)] involving quadratic or cubic nonlinearities in addition to the convective flux term which renders the system nonconservative and the corresponding Hamiltonian non-Hermitian.

  2. LONG-TIME BEHAVIOR OF A CLASS OF REACTION DIFFUSION EQUATIONS WITH TIME DELAYS

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    The present paper devotes to the long-time behavior of a class of reaction diffusion equations with delays under Dirichlet boundary conditions. The stability and global attractability for the zero solution are provided, and the existence, stability and attractability for the positive stationary solution are also obtained.

  3. Boundedness of a Derived Function of a Solution About a Class of Diffusion Variational Equations

    Institute of Scientific and Technical Information of China (English)

    Kun Hui LIU

    2004-01-01

    In this paper the boundedness of a derived function of a solution about a class of diffusion variational equations is discussed. The application of it to related stochastic analysis problems is also illustrated. What should be emphasized is that the problem discussed and the ways proved in this paper are fundamentally new and the conclusion of this paper is fairly profound.

  4. Multigrid solution of the convection-diffusion equation with high-Reynolds number

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Jun [George Washington Univ., Washington, DC (United States)

    1996-12-31

    A fourth-order compact finite difference scheme is employed with the multigrid technique to solve the variable coefficient convection-diffusion equation with high-Reynolds number. Scaled inter-grid transfer operators and potential on vectorization and parallelization are discussed. The high-order multigrid method is unconditionally stable and produces solution of 4th-order accuracy. Numerical experiments are included.

  5. On Asymptotic Behavior for Reaction Diffusion Equation with Small Time Delay

    Directory of Open Access Journals (Sweden)

    Xunwu Yin

    2011-01-01

    Full Text Available We investigate the asymptotic behavior of scalar diffusion equation with small time delay ut-Δu=f(ut,u(t-τ. Roughly speaking, any bounded solution will enter and stay in the neighborhood of one equilibrium when the equilibria are discrete.

  6. Fokker-Planck Type Equations with Sobolev Diffusion Coefficients and BV Drift Coefficients

    Institute of Scientific and Technical Information of China (English)

    De Jun LUO

    2013-01-01

    Combining Le Bris and Lions' arguments with Ambrosio's commutator estimate for BV vector fields,we prove in this paper the existence and uniqueness of solutions to the Fokker-Planck type equations with Sobolev diffusion coefficients and BV drift coefficients.

  7. Rate of Convergence to Barenblatt Profiles for the Fast Diffusion Equation

    CERN Document Server

    Fila, Marek; Winkler, Michael; Yanagida, Eiji

    2011-01-01

    We study the asymptotic behaviour of positive solutions of the Cauchy problem for the fast diffusion equation near the extinction time. We find a continuum of rates of convergence to a self-similar profile. These rates depend explicitly on the spatial decay rates of initial data.

  8. Convective-diffusive Cahn-Hilliard Equation with Concentration Dependent Mobility

    Institute of Scientific and Technical Information of China (English)

    刘长春; 尹景学

    2003-01-01

    In this paer,we study the global existence of classical solutions for the convective-diffusive Cahn-Hilliard Equation with concentration dependent mobility.Based on the Schauder type estimates,we establish the global existence of classical solutions.

  9. Some aspects of fractional diffusion equations of single and distributed order

    CERN Document Server

    Mainardi, Francesco; Gorenflo, Rudolf

    2007-01-01

    The time fractional diffusion equation is obtained from the standard diffusion equation by replacing the first-order time derivative with a fractional derivative of order $\\beta \\in (0,1)$. The fundamental solution for the Cauchy problem is interpreted as a probability density of a self-similar non-Markovian stochastic process related to a phenomenon of sub-diffusion (the variance grows in time sub-linearly). A further generalization is obtained by considering a continuous or discrete distribution of fractional time derivatives of order less than one. Then the fundamental solution is still a probability density of a non-Markovian process that, however, is no longer self-similar but exhibits a corresponding distribution of time-scales.

  10. An asymptotic-preserving scheme for linear kinetic equation with fractional diffusion limit

    Science.gov (United States)

    Wang, Li; Yan, Bokai

    2016-05-01

    We present a new asymptotic-preserving scheme for the linear Boltzmann equation which, under appropriate scaling, leads to a fractional diffusion limit. Our scheme rests on novel micro-macro decomposition to the distribution function, which splits the original kinetic equation following a reshuffled Hilbert expansion. As opposed to classical diffusion limit, a major difficulty comes from the fat tail in the equilibrium which makes the truncation in velocity space depending on the small parameter. Our idea is, while solving the macro-micro part in a truncated velocity domain (truncation only depends on numerical accuracy), to incorporate an integrated tail over the velocity space that is beyond the truncation, and its major component can be precomputed once with any accuracy. Such an addition is essential to drive the solution to the correct asymptotic limit. Numerical experiments validate its efficiency in both kinetic and fractional diffusive regimes.

  11. Efficient numerical solution of the time fractional diffusion equation by mapping from its Brownian counterpart

    CERN Document Server

    Stokes, Peter W; Read, Wayne; White, Ronald D

    2014-01-01

    The solution of a Caputo time fractional diffusion equation of order $0<\\alpha<1$ is found in terms of the solution of a corresponding integer order diffusion equation. We demonstrate a linear time mapping between these solutions that allows for accelerated computation of the solution of the fractional order problem. In the context of an $N$-point finite difference time discretisation, the mapping allows for an improvement in time computational complexity from $O\\left(N^{2}\\right)$ to $O\\left(N^{\\alpha}\\right)$, given a precomputation of $O\\left(N^{1+\\alpha}\\ln N\\right)$. The mapping is applied successfully to the least-squares fitting of a fractional advection diffusion model for the current in a time-of-flight experiment, resulting in a computational speed up in the range of one to three orders of magnitude for realistic problem sizes.

  12. The Conforming Virtual Element Method for the convection-diffusion-reaction equation with variable coeffcients.

    Energy Technology Data Exchange (ETDEWEB)

    Manzini, Gianmarco [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Cangiani, Andrea [University of Leicester, Leicester (United Kingdom); Sutton, Oliver [University of Leicester, Leicester (United Kingdom)

    2014-10-02

    This document describes the conforming formulations for virtual element approximation of the convection-reaction-diffusion equation with variable coefficients. Emphasis is given to construction of the projection operators onto polynomial spaces of appropriate order. These projections make it possible the virtual formulation to achieve any order of accuracy. We present the construction of the internal and the external formulation. The difference between the two is in the way the projection operators act on the derivatives (laplacian, gradient) of the partial differential equation. For the diffusive regime we prove the well-posedness of the external formulation and we derive an estimate of the approximation error in the H1-norm. For the convection-dominated case, the streamline diffusion stabilization (aka SUPG) is also discussed.

  13. Derivation and Solution of Multifrequency Radiation Diffusion Equations for Homogeneous Refractive Lossy Media

    Energy Technology Data Exchange (ETDEWEB)

    Shestakov, A I; Vignes, R M; Stolken, J S

    2010-01-05

    Starting from the radiation transport equation for homogeneous, refractive lossy media, we derive the corresponding time-dependent multifrequency diffusion equations. Zeroth and first moments of the transport equation couple the energy density, flux and pressure tensor. The system is closed by neglecting the temporal derivative of the flux and replacing the pressure tensor by its diagonal analogue. The system is coupled to a diffusion equation for the matter temperature. We are interested in modeling annealing of silica (SiO{sub 2}). We derive boundary conditions at a planar air-silica interface taking account of reflectivities. The spectral dimension is discretized into a finite number of intervals leading to a system of multigroup diffusion equations. Three simulations are presented. One models cooling of a silica slab, initially at 2500 K, for 10 s. The other two are 1D and 2D simulations of irradiating silica with a CO{sub 2} laser, {lambda} = 10.59 {micro}m. In 2D, we anneal a disk (radius = 0.4, thickness = 0.4 cm) with a laser, Gaussian profile (r{sub 0} = 0.5 mm for 1/e decay).

  14. An Exact Formal Solution to Reaction-Diffusion Equations from Biomathematics

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    We study the exact formal solution to the simplified Keller-Segel system modelling chemotaxis. The method we use is series expanding. The main result is to attain the formal solution to the simplified Keller-Segel system.

  15. Generalized quantum Fokker-Planck, diffusion and Smoluchowski equations with true probability distribution functions

    CERN Document Server

    Banik, S K; Ray, D S; Banik, Suman Kumar; Bag, Bidhan Chandra; Ray, Deb Shankar

    2002-01-01

    Traditionally, the quantum Brownian motion is described by Fokker-Planck or diffusion equations in terms of quasi-probability distribution functions, e.g., Wigner functions. These often become singular or negative in the full quantum regime. In this paper a simple approach to non-Markovian theory of quantum Brownian motion using {\\it true probability distribution functions} is presented. Based on an initial coherent state representation of the bath oscillators and an equilibrium canonical distribution of the quantum mechanical mean values of their co-ordinates and momenta we derive a generalized quantum Langevin equation in $c$-numbers and show that the latter is amenable to a theoretical analysis in terms of the classical theory of non-Markovian dynamics. The corresponding Fokker-Planck, diffusion and the Smoluchowski equations are the {\\it exact} quantum analogues of their classical counterparts. The present work is {\\it independent} of path integral techniques. The theory as developed here is a natural ext...

  16. Finite Element Solutions for the Space Fractional Diffusion Equation with a Nonlinear Source Term

    Directory of Open Access Journals (Sweden)

    Y. J. Choi

    2012-01-01

    Full Text Available We consider finite element Galerkin solutions for the space fractional diffusion equation with a nonlinear source term. Existence, stability, and order of convergence of approximate solutions for the backward Euler fully discrete scheme have been discussed as well as for the semidiscrete scheme. The analytical convergent orders are obtained as O(k+hγ˜, where γ˜ is a constant depending on the order of fractional derivative. Numerical computations are presented, which confirm the theoretical results when the equation has a linear source term. When the equation has a nonlinear source term, numerical results show that the diffusivity depends on the order of fractional derivative as we expect.

  17. Prediction equations for diffusing capacity (transfer factor of lung for North Indians

    Directory of Open Access Journals (Sweden)

    Sunil Kumar Chhabra

    2016-01-01

    Full Text Available Background: Prediction equations for diffusing capacity of lung for carbon monoxide (DLCO, alveolar volume (VA, and DLCO/VA using the current standardization guidelines are not available for Indian population. The present study was carried out to develop equations for these parameters for North Indian adults and examine the ethnic diversity in predictions. Materials and Methods: DLCO was measured by single-breath technique and VA by single-breath helium dilution using standardized methodology in 357 (258 males, 99 females normal nonsmoker adult North Indians and DLCO/VA was computed. The subjects were randomized into training and test datasets for development of prediction equations by multiple linear regressions and for validation, respectively. Results: For males, the following equations were developed: DLCO, −7.813 + 0.318 × ht −0.624 × age + 0.00552 × age 2 ; VA, −8.152 + 0.087 × ht −0.019 × wt; DLCO/VA, 7.315 − 0.037 × age. For females, the equations were: DLCO, −44.15 + 0.449 × ht −0.099 × age; VA, −6.893 + 0.068 × ht. A statistically acceptable prediction equation was not obtained for DLCO/VA in females. It was therefore computed from predicted DLCO and predicted VA. All equations were internally valid. Predictions of DLCO by Indian equations were lower than most Caucasian predictions in both males and females and greater than the Chinese predictions for males. Conclusion: This study has developed validated prediction equations for DLCO, VA, and DLCO/VA in North Indians. Substantial ethnic diversity exists in predictions for DLCO and VA with Caucasian equations generally yielding higher values than the Indian or Chinese equations. However, DLCO/VA predicted by the Indian equations is slightly higher than that by other equations.

  18. Singular solution of the Feller diffusion equation via a spectral decomposition

    Science.gov (United States)

    Gan, Xinjun; Waxman, David

    2015-01-01

    Feller studied a branching process and found that the distribution for this process approximately obeys a diffusion equation [W. Feller, in Proceedings of the Second Berkeley Symposium on Mathematical Statistics and Probability (University of California Press, Berkeley and Los Angeles, 1951), pp. 227-246]. This diffusion equation and its generalizations play an important role in many scientific problems, including, physics, biology, finance, and probability theory. We work under the assumption that the fundamental solution represents a probability density and should account for all of the probability in the problem. Thus, under the circumstances where the random process can be irreversibly absorbed at the boundary, this should lead to the presence of a Dirac delta function in the fundamental solution at the boundary. However, such a feature is not present in the standard approach (Laplace transformation). Here we require that the total integrated probability is conserved. This yields a fundamental solution which, when appropriate, contains a term proportional to a Dirac delta function at the boundary. We determine the fundamental solution directly from the diffusion equation via spectral decomposition. We obtain exact expressions for the eigenfunctions, and when the fundamental solution contains a Dirac delta function at the boundary, every eigenfunction of the forward diffusion operator contains a delta function. We show how these combine to produce a weight of the delta function at the boundary which ensures the total integrated probability is conserved. The solution we present covers cases where parameters are time dependent, thereby greatly extending its applicability.

  19. Connecting complexity with spectral entropy using the Laplace transformed solution to the fractional diffusion equation

    Science.gov (United States)

    Liang, Yingjie; Chen, Wen; Magin, Richard L.

    2016-07-01

    Analytical solutions to the fractional diffusion equation are often obtained by using Laplace and Fourier transforms, which conveniently encode the order of the time and the space derivatives (α and β) as non-integer powers of the conjugate transform variables (s, and k) for the spectral and the spatial frequencies, respectively. This study presents a new solution to the fractional diffusion equation obtained using the Laplace transform and expressed as a Fox's H-function. This result clearly illustrates the kinetics of the underlying stochastic process in terms of the Laplace spectral frequency and entropy. The spectral entropy is numerically calculated by using the direct integration method and the adaptive Gauss-Kronrod quadrature algorithm. Here, the properties of spectral entropy are investigated for the cases of sub-diffusion and super-diffusion. We find that the overall spectral entropy decreases with the increasing α and β, and that the normal or Gaussian case with α = 1 and β = 2, has the lowest spectral entropy (i.e., less information is needed to describe the state of a Gaussian process). In addition, as the neighborhood over which the entropy is calculated increases, the spectral entropy decreases, which implies a spatial averaging or coarse graining of the material properties. Consequently, the spectral entropy is shown to provide a new way to characterize the temporal correlation of anomalous diffusion. Future studies should be designed to examine changes of spectral entropy in physical, chemical and biological systems undergoing phase changes, chemical reactions and tissue regeneration.

  20. Asymptotic Limit of a Singularly Perturbed Stationary Diffusion Equation: The Case of a Limit Cycle

    CERN Document Server

    Ge, Hao

    2010-01-01

    A limit cycle for a nonlinear ordinary differential equation has a sustained, stationary oscillation in time; Any non-trivial stationary stochastic process also exhibits stationary oscillations in time, though with randomness and a stationary probability density. A reconciliation of these two views of oscillatory dynamics has been elusive, although it becomes increasingly important in the biochemical modeling of cellular dynamics, where stochatic models based on the chemical master equation and the deterministic model based on the Law of Mass Action are routinely compared. Using a singularly perturbed stationary diffusion equation as a model for the chemical master equation with sufficiently large volume, $\\epsilon \\leftrightarrow 1/V$, we show that its stationary solution $u(\\vx)$ exhibits a clear separation of the exponentially and algebraic small contributions: $u(\\vx)=C_{\\epsilon}(\\vx) e^{-\\phi(\\vx)/\\epsilon}$, in which $\\phi(x)\\ge 0$ and $=0$ on the entire stable limit cycle. On the limit cycle, $C_0(\\vx...

  1. Numerical solution of uncertain neutron diffusion equation for imprecisely defined homogeneous triangular bare reactor

    Indian Academy of Sciences (India)

    S Nayak; S Chakraverty

    2015-10-01

    In this paper, neutron diffusion equation of a triangular homogeneous bare reactor with uncertain parameters has been investigated. Here the involved parameters viz. geometry of the reactor, diffusion coefficient and absorption coefficient, etc. are uncertain and these are considered as fuzzy. Fuzzy values are handled through limit method which was defined for interval computations. The concept of fuzziness is hybridised with traditional finite element method to propose fuzzy finite element method. The proposed fuzzy finite element method has been used to obtain the uncertain eigenvalues of the said problem. Further these uncertain eigenvalues are compared with the traditional finite element method in special cases.

  2. MAXIMAL ATTRACTORS OF CLASSICAL SOLUTIONS FOR REACTION DIFFUSION EQUATIONS WITH DISPERSION

    Institute of Scientific and Technical Information of China (English)

    Li Yanling; Ma Yicheng

    2005-01-01

    The paper first deals with the existence of the maximal attractor of classical solution for reaction diffusion equation with dispersion, and gives the sup-norm estimate for the attractor. This estimate is optimal for the attractor under Neumann boundary condition. Next, the same problem is discussed for reaction diffusion system with uniformly contracting rectangle, and it reveals that the maximal attractor of classical solution for such system in the whole space is only necessary to be established in some invariant region.Finally, a few examples of application are given.

  3. Propagation of fronts in the Fisher-Kolmogorov equation with spatially varying diffusion.

    Science.gov (United States)

    Curtis, Christopher W; Bortz, David M

    2012-12-01

    The propagation of fronts in the Fisher-Kolmogorov equation with spatially varying diffusion coefficients is studied. Using coordinate changes, WKB approximations, and multiple scales analysis, we provide an analytic framework that describes propagation of the front up to the minimum of the diffusion coefficient. We also present results showing the behavior of the front after it passes the minimum. In each case, we show that standard traveling coordinate frames do not properly describe front propagation. Last, we provide numerical simulations to support our analysis and to show, that around the minimum, the motion of the front is arrested on asymptotically significant time scales.

  4. Estimation of vertical diffusion coefficient based on a one-dimensional temperature diffusion equation with an inverse method

    Institute of Scientific and Technical Information of China (English)

    LIANG Hui; ZHAO Wei; DAI Dejun; ZHANG Jun

    2014-01-01

    Diapycnal mixing is important in oceanic circulation. An inverse method in which a semi-explicit scheme is applied to discretize the one-dimensional temperature diffusion equation is established to estimate the vertical temperature diffusion coefficient based on the observed temperature profiles. The sensitivity of the inverse model in the idealized and actual conditions is tested in detail. It can be found that this inverse model has high feasibility under multiple situations ensuring the stability of the inverse model, and can be considered as an efficient way to estimate the temperature diffusion coefficient in the weak current regions of the ocean. Here, the hydrographic profiles from Argo floats are used to estimate the temporal and spatial distribution of the vertical mixing in the north central Pacific based on this inverse method. It is further found that the vertical mixing in the upper ocean displays a distinct seasonal variation with the amplitude decreasing with depth, and the vertical mixing over rough topography is stronger than that over smooth topography. It is suggested that the high-resolution profiles from Argo floats and a more reasonable design of the inverse scheme will serve to understand mixing processes.

  5. Analysis and numerical simulation of the diffusive wave approximation of the shallow water equations

    Science.gov (United States)

    Santillana, Mauricio

    In this dissertation, the quantitative and qualitative aspects of modeling shallow water flow driven mainly by gravitational forces and dominated by shear stress, using an effective equation often referred to in the literature as the diffusive wave approximation of the shallow water equations (DSW) are presented. These flow conditions arise for example in overland flow and water flow in vegetated areas such as wetlands. The DSW equation arises in shallow water flow models when special assumptions are used to simplify the shallow water equations and contains as particular cases: the Porous Medium equation and the time evolution of the p-Laplacian. It has been successfully applied as a suitable model to simulate overland flow and water flow in vegetated areas such as wetlands; yet, no formal mathematical analysis has been carried out addressing, for example, conditions for which weak solutions may exist, and conditions for which a numerical scheme can be successful in approximating them. This thesis represents a first step in that direction. The outline of the thesis is as follows. First, a survey of relevant results coming from the studies of doubly nonlinear diffusion equations that can be applied to the DSW equation when topographic effects are ignored, is presented. Furthermore, an original proof of existence of weak solutions using constructive techniques that directly lead to the implementation of numerical algorithms to obtain approximate solutions is shown. Some regularity results about weak solutions are presented as well. Second, a numerical approach is proposed as a means to understand some properties of solutions to the DSW equation, when topographic effects are considered, and conditions for which the continuous and discontinuous Galerkin methods will succeed in approximating these weak solutions are established.

  6. A Bloch-Torrey Equation for Diffusion in a Deforming Media

    Energy Technology Data Exchange (ETDEWEB)

    Rohmer, Damien; Gullberg, Grant T.

    2006-12-29

    Diffusion Tensor Magnetic Resonance Imaging (DTMRI)technique enables the measurement of diffusion parameters and therefore,informs on the structure of the biological tissue. This technique isapplied with success to the static organs such as brain. However, thediffusion measurement on the dynamically deformable organs such as thein-vivo heart is a complex problem that has however a great potential inthe measurement of cardiac health. In order to understand the behavior ofthe Magnetic Resonance (MR)signal in a deforming media, the Bloch-Torreyequation that leads the MR behavior is expressed in general curvilinearcoordinates. These coordinates enable to follow the heart geometry anddeformations through time. The equation is finally discretized andpresented in a numerical formulation using implicit methods, in order toget a stable scheme that can be applied to any smooth deformations.Diffusion process enables the link between the macroscopic behavior ofmolecules and themicroscopic structure in which they evolve. Themeasurement of diffusion in biological tissues is therefore of majorimportance in understanding the complex underlying structure that cannotbe studied directly. The Diffusion Tensor Magnetic ResonanceImaging(DTMRI) technique enables the measurement of diffusion parametersand therefore provides information on the structure of the biologicaltissue. This technique has been applied with success to static organssuch as the brain. However, diffusion measurement of dynamicallydeformable organs such as the in-vivo heart remains a complex problem,which holds great potential in determining cardiac health. In order tounderstand the behavior of the magnetic resonance (MR) signal in adeforming media, the Bloch-Torrey equation that defines the MR behavioris expressed in general curvilinear coordinates. These coordinates enableus to follow the heart geometry and deformations through time. Theequation is finally discretized and presented in a numerical formulationusing

  7. Modeling ballistic effects in frequency-dependent transient thermal transport using diffusion equations

    Science.gov (United States)

    Maassen, Jesse; Lundstrom, Mark

    2016-03-01

    Understanding ballistic phonon transport effects in transient thermoreflectance experiments and explaining the observed deviations from classical theory remains a challenge. Diffusion equations are simple and computationally efficient but are widely believed to break down when the characteristic length scale is similar or less than the phonon mean-free-path. Building on our prior work, we demonstrate how well-known diffusion equations, namely, the hyperbolic heat equation and the Cattaneo equation, can be used to model ballistic phonon effects in frequency-dependent periodic steady-state thermal transport. Our analytical solutions are found to compare excellently to rigorous numerical results of the phonon Boltzmann transport equation. The correct physical boundary conditions can be different from those traditionally used and are paramount for accurately capturing ballistic effects. To illustrate the technique, we consider a simple model problem using two different, commonly used heating conditions. We demonstrate how this framework can easily handle detailed material properties, by considering the case of bulk silicon using a full phonon dispersion and mean-free-path distribution. This physically transparent approach provides clear insights into the nonequilibrium physics of quasi-ballistic phonon transport and its impact on thermal transport properties.

  8. The Transport Equation in Optically Thick Media: Discussion of IMC and its Diffusion Limit

    Energy Technology Data Exchange (ETDEWEB)

    Szoke, A. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Brooks, E. D. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2016-07-12

    We discuss the limits of validity of the Implicit Monte Carlo (IMC) method for the transport of thermally emitted radiation. The weakened coupling between the radiation and material energy of the IMC method causes defects in handling problems with strong transients. We introduce an approach to asymptotic analysis for the transport equation that emphasizes the fact that the radiation and material temperatures are always different in time-dependent problems, and we use it to show that IMC does not produce the correct diffusion limit. As this is a defect of IMC in the continuous equations, no improvement to its discretization can remedy it.

  9. Introductory Applications of Partial Differential Equations With Emphasis on Wave Propagation and Diffusion

    CERN Document Server

    Lamb, George L

    1995-01-01

    INTRODUCTORY APPLICATIONS OF PARTIAL DIFFERENTIAL EQUATIONS. With Emphasis on Wave Propagation and Diffusion. This is the ideal text for students and professionals who have some familiarity with partial differential equations, and who now wish to consolidate and expand their knowledge. Unlike most other texts on this topic, it interweaves prior knowledge of mathematics and physics, especially heat conduction and wave motion, into a presentation that demonstrates their interdependence. The result is a superb teaching text that reinforces the reader's understanding of both mathematics and physic

  10. Existence of Young measure solutions of a class of singular diffusion equations

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The first initial-boundary value problem of a class of singular diffusion equations with the flux sublinear growth and the potential without convexity is investigated. Such equations may be strongly degenerate, singular and forward-backward. Inspired by the idea in a recent work of Demoulini, we first discuss the regular case by introducing the Young measure solutions and prove the existence of such solutions. Consequently, we approximate the extreme case by the method of regularization. By means of some uniform estimates and some techniques, the existence of Young measure solutions with bounded variation is established.

  11. The determination of an unknown boundary condition in a fractional diffusion equation

    KAUST Repository

    Rundell, William

    2013-07-01

    In this article we consider an inverse boundary problem, in which the unknown boundary function ∂u/∂v = f(u) is to be determined from overposed data in a time-fractional diffusion equation. Based upon the free space fundamental solution, we derive a representation for the solution f as a nonlinear Volterra integral equation of second kind with a weakly singular kernel. Uniqueness and reconstructibility by iteration is an immediate result of a priori assumption on f and applying the fixed point theorem. Numerical examples are presented to illustrate the validity and effectiveness of the proposed method. © 2013 Copyright Taylor and Francis Group, LLC.

  12. A piecewise linear finite element discretization of the diffusion equation for arbitrary polyhedral grids

    Energy Technology Data Exchange (ETDEWEB)

    Bailey, T.S.; Adams, M.L. [Texas A M Univ., Dept. of Nuclear Engineering, College Station, TX (United States); Yang, B.; Zika, M.R. [Lawrence Livermore National Lab., Livermore, CA (United States)

    2005-07-01

    We develop a piecewise linear (PWL) Galerkin finite element spatial discretization for the multi-dimensional radiation diffusion equation. It uses piecewise linear weight and basis functions in the finite element approximation, and it can be applied on arbitrary polygonal (2-dimensional) or polyhedral (3-dimensional) grids. We show that this new PWL method gives solutions comparable to those from Palmer's finite-volume method. However, since the PWL method produces a symmetric positive definite coefficient matrix, it should be substantially more computationally efficient than Palmer's method, which produces an asymmetric matrix. We conclude that the Galerkin PWL method is an attractive option for solving diffusion equations on unstructured grids. (authors)

  13. A Piecewise Linear Finite Element Discretization of the Diffusion Equation for Arbitrary Polyhedral Grids

    Energy Technology Data Exchange (ETDEWEB)

    Bailey, T S; Adams, M L; Yang, B; Zika, M R

    2005-07-15

    We develop a piecewise linear (PWL) Galerkin finite element spatial discretization for the multi-dimensional radiation diffusion equation. It uses piecewise linear weight and basis functions in the finite element approximation, and it can be applied on arbitrary polygonal (2D) or polyhedral (3D) grids. We show that this new PWL method gives solutions comparable to those from Palmer's finite-volume method. However, since the PWL method produces a symmetric positive definite coefficient matrix, it should be substantially more computationally efficient than Palmer's method, which produces an asymmetric matrix. We conclude that the Galerkin PWL method is an attractive option for solving diffusion equations on unstructured grids.

  14. Entropy methods for reaction-diffusion equations: slowly growing a-priori bounds

    KAUST Repository

    Desvillettes, Laurent

    2008-01-01

    In the continuation of [Desvillettes, L., Fellner, K.: Exponential Decay toward Equilibrium via Entropy Methods for Reaction-Diffusion Equations. J. Math. Anal. Appl. 319 (2006), no. 1, 157-176], we study reversible reaction-diffusion equations via entropy methods (based on the free energy functional) for a 1D system of four species. We improve the existing theory by getting 1) almost exponential convergence in L1 to the steady state via a precise entropy-entropy dissipation estimate, 2) an explicit global L∞ bound via interpolation of a polynomially growing H1 bound with the almost exponential L1 convergence, and 3), finally, explicit exponential convergence to the steady state in all Sobolev norms.

  15. Using anisotropic diffusion equations in pixon domain for image de-noising

    DEFF Research Database (Denmark)

    Nadernejad, Ehsan; Forchhammer, Søren; Sharifzadeh, Sara

    2013-01-01

    Image enhancement is an essential phase in many image processing algorithms. In any image de-noising algorithm, it is a major concern to keep the interesting structures of the image. Such interesting structures in an image often correspond to the discontinuities in the image (edges). In this paper......, we propose a new algorithm for image de-noising using anisotropic diffusion equations in pixon domain. In this approach, diffusion equations are applied on the pixonal model of the image. The algorithm has been examined on a variety of standard images and the performance has been compared...... with algorithms known from the literature. The experimental results show that in comparison with the other existing methods, the proposed algorithm has a better performance in de-noising and preserving image edges....

  16. ASYMPTOTIC SOLUTION OF ACTIVATOR INHIBITOR SYSTEMS FOR NONLINEAR REACTION DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    Jiaqi MO; Wantao LIN

    2008-01-01

    A nonlinear reaction diffusion equations for activator inhibitor systems is considered. Under suitable conditions, firstly, the outer solution of the original problem is obtained, secondly, using the variables of multiple scales and the expanding theory of power series the formal asymptotic expansions of the solution are constructed, and finally, using the theory of differential inequalities the uniform validity and asymptotic behavior of the solution are studied.

  17. Blowup Analysis for a Nonlocal Diffusion Equation with Reaction and Absorption

    Directory of Open Access Journals (Sweden)

    Yulan Wang

    2012-01-01

    Full Text Available We investigate a nonlocal reaction diffusion equation with absorption under Neumann boundary. We obtain optimal conditions on the exponents of the reaction and absorption terms for the existence of solutions blowing up in finite time, or for the global existence and boundedness of all solutions. For the blowup solutions, we also study the blowup rate estimates and the localization of blowup set. Moreover, we show some numerical experiments which illustrate our results.

  18. An analytic algorithm for the space-time fractional reaction-diffusion equation

    Directory of Open Access Journals (Sweden)

    M. G. Brikaa

    2015-11-01

    Full Text Available In this paper, we solve the space-time fractional reaction-diffusion equation by the fractional homotopy analysis method. Solutions of different examples of the reaction term will be computed and investigated. The approximation solutions of the studied models will be put in the form of convergent series to be easily computed and simulated. Comparison with the approximation solution of the classical case of the studied modeled with their approximation errors will also be studied.

  19. THE ALTERNATING SEGMENT CRANK-NICOLSON METHOD FOR SOLVING CONVECTION-DIFFUSION EQUATION WITH VARIABLE COEFFICIENT

    Institute of Scientific and Technical Information of China (English)

    王文洽

    2003-01-01

    A new discrete approximation to the convection term of the covection-diffusionequation was constructed in Saul' yev type difference scheme, then the alternating segmentCrank-Nicolson( ASC-N) method for solving the convection-diffusion equation with variablecoefficient was developed. The ASC-N method is unconditionally stable. Numericalexperiment shows that this method has the obvious property of parallelism and accuracy. Themethod can be used directly on parallel computers.

  20. Travelling-Wave Solutions and Interfaces for Non-Newtonian Diffusion Equations with Strong Absorption

    Institute of Scientific and Technical Information of China (English)

    Zhongping LI; Wanjuan DU; Chunlai MU

    2013-01-01

    In this paper,we first find finite travelling-wave solutions,and then investigate the short time development of interfaces for non-Newtonian diffusion equations with strong absorption.We show that the initial behavior of the interface depends on the concentration of the mass of u(x,0) near x =0.More precisely,we find a critical value of the concentration,which separates the heating front of interfaces from the cooling front of them.

  1. Cubic B-Spline Collocation Method for One-Dimensional Heat and Advection-Diffusion Equations

    OpenAIRE

    Joan Goh; Ahmad Abd. Majid; Ahmad Izani Md. Ismail

    2012-01-01

    Numerical solutions of one-dimensional heat and advection-diffusion equations are obtained by collocation method based on cubic B-spline. Usual finite difference scheme is used for time and space integrations. Cubic B-spline is applied as interpolation function. The stability analysis of the scheme is examined by the Von Neumann approach. The efficiency of the method is illustrated by some test problems. The numerical results are found to be in good agreement with the exact solution.

  2. A posteriori error estimates of constrained optimal control problem governed by convection diffusion equations

    Institute of Scientific and Technical Information of China (English)

    Ningning YAN; Zhaojie ZHOU

    2008-01-01

    In this paper,we study a posteriori error estimates of the edge stabilization Galerkin method for the constrained optimal control problem governed by convection-dominated diffusion equations.The residual-type a posteriori error estimators yield both upper and lower bounds for control u measured in L2-norm and for state y and costate p measured in energy norm.Two numerical examples are presented to illustrate the effectiveness of the error estimators provided in this paper.

  3. Equation of Diffusion of a Composite Mixture into a Composite Medium

    Science.gov (United States)

    Kravchuk, A. S.; Kravchuk, A. I.; Popova, T. S.

    2016-07-01

    The equation of diffusion of a composite mixture into a composite medium has been obtained for the first time. The assumption used is that the macropoint of the medium, i.e., an elementary macrovolume, in which the statistical parameters of distribution of inhomogeneities coincide with the corresponding values assigned for the medium as a whole, is small compared to the geometric dimensions of the volume considered. The ″Reuss-Voigt fork″ has been obtained for determining the limits of the change in the diffusion coefficient. Thereafter the fork is narrowed to the ″Kravchuk-Tarasyuk fork.″ Effective diffusion coefficients are obtained as an arithmetic mean value of the Kravchuk-Tarasyuk fork. The found averaged physical parameters can be used in solving specific physical problems for inhomogeneous media.

  4. Accelerated molecular dynamics and equation-free methods for simulating diffusion in solids.

    Energy Technology Data Exchange (ETDEWEB)

    Deng, Jie; Zimmerman, Jonathan A.; Thompson, Aidan Patrick; Brown, William Michael (Oak Ridge National Laboratories, Oak Ridge, TN); Plimpton, Steven James; Zhou, Xiao Wang; Wagner, Gregory John; Erickson, Lindsay Crowl

    2011-09-01

    Many of the most important and hardest-to-solve problems related to the synthesis, performance, and aging of materials involve diffusion through the material or along surfaces and interfaces. These diffusion processes are driven by motions at the atomic scale, but traditional atomistic simulation methods such as molecular dynamics are limited to very short timescales on the order of the atomic vibration period (less than a picosecond), while macroscale diffusion takes place over timescales many orders of magnitude larger. We have completed an LDRD project with the goal of developing and implementing new simulation tools to overcome this timescale problem. In particular, we have focused on two main classes of methods: accelerated molecular dynamics methods that seek to extend the timescale attainable in atomistic simulations, and so-called 'equation-free' methods that combine a fine scale atomistic description of a system with a slower, coarse scale description in order to project the system forward over long times.

  5. Computational solutions of unified fractional reaction-diffusion equations with composite fractional time derivative

    Science.gov (United States)

    Saxena, R. K.; Mathai, A. M.; Haubold, H. J.

    2015-10-01

    This paper deals with the investigation of the computational solutions of an unified fractional reaction-diffusion equation, which is obtained from the standard diffusion equation by replacing the time derivative of first order by the generalized fractional time-derivative defined by Hilfer (2000), the space derivative of second order by the Riesz-Feller fractional derivative and adding the function ϕ (x, t) which is a nonlinear function governing reaction. The solution is derived by the application of the Laplace and Fourier transforms in a compact and closed form in terms of the H-function. The main result obtained in this paper provides an elegant extension of the fundamental solution for the space-time fractional diffusion equation obtained earlier by Mainardi et al. (2001, 2005) and a result very recently given by Tomovski et al. (2011). Computational representation of the fundamental solution is also obtained explicitly. Fractional order moments of the distribution are deduced. At the end, mild extensions of the derived results associated with a finite number of Riesz-Feller space fractional derivatives are also discussed.

  6. Travelling Waves for a Density Dependent Diffusion Nagumo Equation over the Real Line

    Institute of Scientific and Technical Information of China (English)

    Robert A. Van Gorder

    2012-01-01

    We consider the density dependent diffusion Nagumo equation, where the diffusion coefficient is a simple power function. This equation is used in modelling electrical pulse propagation in nerve axons and in population genetics (amongst other areas). In the present paper, the δ-expansion method is applied to a travelling wave reduction of the problem, so that we may obtain globally valid perturbation solutions (in the sense that the perturbation solutions are valid over the entire infinite domain, not just locally; hence the results are a generalization of the local solutions considered recently in the literature). The resulting boundary value problem is solved on the real line subject to conditions at z →±∞. Whenever a perturbative method is applied, it is important to discuss the accuracy and convergence properties of the resulting perturbation expansions. We compare our results with those of two different numerical methods (designed for initial and boundary value problems, respectively) and deduce that the perturbation expansions agree with the numerical results after a reasonable number of iterations. Finally, we are able to discuss the influence of the wave speed c and the asymptotic concentration value α on the obtained solutions. Upon recasting the density dependent diffusion Nagumo equation as a two-dimensional dynamical system, we are also able to discuss the influence of the nonlinear density dependence (which is governed by a power-law parameter m) on oscillations of the travelling wave solutions.

  7. Closing the reduced position-space Fokker-Planck equation for shear-induced diffusion using the Physalis method

    Science.gov (United States)

    Sierakowski, Adam J.; Lukassen, Laura J.

    2016-11-01

    In the shear flow of non-Brownian particles, we describe the long-time diffusive processes stochastically using a Fokker-Planck equation. Previous work has indicated that a Fokker-Planck equation coupling the probability densities of position and velocity spaces may be appropriate for describing this phenomenon. The stochastic description, integrated over velocity space to obtain a reduced position-space Fokker-Planck equation, contains unknown space diffusion coefficients. In this work, we use the Physalis method for simulating disperse particle flows to verify the colored-noise velocity space model (an Ornstein-Uhlenbeck process) by comparing the simulated long-time diffusion rate with the diffusion rate proposed by the theory. We then use the simulated data to calculate the unknown space diffusion coefficients that appear in the reduced position-space Fokker-Planck equation and summarize the results. This study was partially supported by US NSF Grant CBET1335965.

  8. Some properties of the fundamental solution to the signalling problem for the fractional diffusion-wave equation

    Science.gov (United States)

    Luchko, Yuri; Mainardi, Francesco

    2013-06-01

    In this paper, the one-dimensional time-fractional diffusion-wave equation with the Caputo fractional derivative of order α, 1 ≤ α ≤ 2 and with constant coefficients is revisited. It is known that the diffusion and the wave equations behave quite differently regarding their response to a localized disturbance. Whereas the diffusion equation describes a process where a disturbance spreads infinitely fast, the propagation speed of the disturbance is a constant for the wave equation. We show that the time-fractional diffusion-wave equation interpolates between these two different responses and investigate the behavior of its fundamental solution for the signalling problem in detail. In particular, the maximum location, the maximum value, and the propagation velocity of the maximum point of the fundamental solution for the signalling problem are described analytically and calculated numerically.

  9. A Local Integral Equation Formulation Based on Moving Kriging Interpolation for Solving Coupled Nonlinear Reaction-Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Kanittha Yimnak

    2014-01-01

    Full Text Available The meshless local Pretrov-Galerkin method (MLPG with the test function in view of the Heaviside step function is introduced to solve the system of coupled nonlinear reaction-diffusion equations in two-dimensional spaces subjected to Dirichlet and Neumann boundary conditions on a square domain. Two-field velocities are approximated by moving Kriging (MK interpolation method for constructing nodal shape function which holds the Kronecker delta property, thereby enhancing the arrangement nodal shape construction accuracy, while the Crank-Nicolson method is chosen for temporal discretization. The nonlinear terms are treated iteratively within each time step. The developed formulation is verified in two numerical examples with investigating the convergence and the accuracy of numerical results. The numerical experiments revealing the solutions by the developed formulation are stable and more precise.

  10. Computable solutions of fractional partial differential equations related to reaction-diffusion systems

    CERN Document Server

    Saxena, R K; Haubold, H J

    2011-01-01

    The object of this paper is to present a computable solution of a fractional partial differential equation associated with a Riemann-Liouville derivative of fractional order as the time-derivative and Riesz-Feller fractional derivative as the space derivative. The method followed in deriving the solution is that of joint Laplace and Fourier transforms. The solution is derived in a closed and computable form in terms of the H-function. It provides an elegant extension of the results given earlier by Debnath, Chen et al., Haubold et al., Mainardi et al., Saxena et al., and Pagnini et al. The results obtained are presented in the form of four theorems. Some results associated with fractional Schroeodinger equation and fractional diffusion-wave equation are also derived as special cases of the findings.

  11. A Priori Estimates for Fractional Nonlinear Degenerate Diffusion Equations on Bounded Domains

    Science.gov (United States)

    Bonforte, Matteo; Vázquez, Juan Luis

    2015-10-01

    We investigate quantitative properties of the nonnegative solutions to the nonlinear fractional diffusion equation, , posed in a bounded domain, , with m > 1 for t > 0. As we use one of the most common definitions of the fractional Laplacian , 0 zero Dirichlet boundary conditions. We consider a general class of very weak solutions of the equation, and obtain a priori estimates in the form of smoothing effects, absolute upper bounds, lower bounds, and Harnack inequalities. We also investigate the boundary behaviour and we obtain sharp estimates from above and below. In addition, we obtain similar estimates for fractional semilinear elliptic equations. Either the standard Laplacian case s = 1 or the linear case m = 1 are recovered as limits. The method is quite general, suitable to be applied to a number of similar problems.

  12. A Two-grid Method with Expanded Mixed Element for Nonlinear Reaction-diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    Wei Liu; Hong-xing Rui; Hui Guo

    2011-01-01

    Expanded mixed finite element approximation of nonlinear reaction-diffusion equations is discussed. The equations considered here are used to model the hydrologic and bio-geochemical phenomena. To linearize the mixed-method equations, we use a two-grid method involving a small nonlinear system on a coarse gird of size H and a linear system on a fine grid of size h. Error estimates are derived which demonstrate that the error is O(△t + hk+1 + H2k+2-d/2) (k ≥ 1), where k is the degree of the approximating space for the primary variable and d is the spatial dimension. The above estimates are useful for determining an appropriate H for the coarse grid problems.

  13. On the master equation approach to diffusive grain-surface chemistry: the H, O, CO system

    CERN Document Server

    Stantcheva, T; Herbst, E

    2002-01-01

    We have used the master equation approach to study a moderately complex network of diffusive reactions occurring on the surfaces of interstellar dust particles. This network is meant to apply to dense clouds in which a large portion of the gas-phase carbon has already been converted to carbon monoxide. Hydrogen atoms, oxygen atoms, and CO molecules are allowed to accrete onto dust particles and their chemistry is followed. The stable molecules produced are oxygen, hydrogen, water, carbon dioxide (CO2), formaldehyde (H2CO), and methanol (CH3OH). The surface abundances calculated via the master equation approach are in good agreement with those obtained via a Monte Carlo method but can differ considerably from those obtained with standard rate equations.

  14. Direct method of solving finite difference nonlinear equations for multicomponent diffusion in a gas centrifuge

    Energy Technology Data Exchange (ETDEWEB)

    Potemki, Valeri G. [Moscow State Engineering Physics Institute (Technical University), Moscow (Russian Federation). Dept. of Automatics and Electronics; Borisevich, Valentine D.; Yupatov, Sergei V. [Moscow State Enineering Physics Institute (Technical University), Moscow (Russian Federation). Dept. of Technical Physics

    1996-12-31

    This paper describes the the next evolution step in development of the direct method for solving systems of Nonlinear Algebraic Equations (SNAE). These equations arise from the finite difference approximation of original nonlinear partial differential equations (PDE). This method has been extended on the SNAE with three variables. The solving SNAE bases on Reiterating General Singular Value Decomposition of rectangular matrix pencils (RGSVD-algorithm). In contrast to the computer algebra algorithm in integer arithmetic based on the reduction to the Groebner`s basis that algorithm is working in floating point arithmetic and realizes the reduction to the Kronecker`s form. The possibilities of the method are illustrated on the example of solving the one-dimensional diffusion equation for 3-component model isotope mixture in a ga centrifuge. The implicit scheme for the finite difference equations without simplifying the nonlinear properties of the original equations is realized. The technique offered provides convergence to the solution for the single run. The Toolbox SNAE is developed in the framework of the high performance numeric computation and visualization software MATLAB. It includes more than 30 modules in MATLAB language for solving SNAE with two and three variables. (author) 7 refs., 10 figs.

  15. Local error estimates for adaptive simulation of the reaction-diffusion master equation via operator splitting

    Science.gov (United States)

    Hellander, Andreas; Lawson, Michael J.; Drawert, Brian; Petzold, Linda

    2014-06-01

    The efficiency of exact simulation methods for the reaction-diffusion master equation (RDME) is severely limited by the large number of diffusion events if the mesh is fine or if diffusion constants are large. Furthermore, inherent properties of exact kinetic-Monte Carlo simulation methods limit the efficiency of parallel implementations. Several approximate and hybrid methods have appeared that enable more efficient simulation of the RDME. A common feature to most of them is that they rely on splitting the system into its reaction and diffusion parts and updating them sequentially over a discrete timestep. This use of operator splitting enables more efficient simulation but it comes at the price of a temporal discretization error that depends on the size of the timestep. So far, existing methods have not attempted to estimate or control this error in a systematic manner. This makes the solvers hard to use for practitioners since they must guess an appropriate timestep. It also makes the solvers potentially less efficient than if the timesteps were adapted to control the error. Here, we derive estimates of the local error and propose a strategy to adaptively select the timestep when the RDME is simulated via a first order operator splitting. While the strategy is general and applicable to a wide range of approximate and hybrid methods, we exemplify it here by extending a previously published approximate method, the diffusive finite-state projection (DFSP) method, to incorporate temporal adaptivity.

  16. Local error estimates for adaptive simulation of the Reaction–Diffusion Master Equation via operator splitting

    Science.gov (United States)

    Hellander, Andreas; Lawson, Michael J; Drawert, Brian; Petzold, Linda

    2015-01-01

    The efficiency of exact simulation methods for the reaction-diffusion master equation (RDME) is severely limited by the large number of diffusion events if the mesh is fine or if diffusion constants are large. Furthermore, inherent properties of exact kinetic-Monte Carlo simulation methods limit the efficiency of parallel implementations. Several approximate and hybrid methods have appeared that enable more efficient simulation of the RDME. A common feature to most of them is that they rely on splitting the system into its reaction and diffusion parts and updating them sequentially over a discrete timestep. This use of operator splitting enables more efficient simulation but it comes at the price of a temporal discretization error that depends on the size of the timestep. So far, existing methods have not attempted to estimate or control this error in a systematic manner. This makes the solvers hard to use for practitioners since they must guess an appropriate timestep. It also makes the solvers potentially less efficient than if the timesteps are adapted to control the error. Here, we derive estimates of the local error and propose a strategy to adaptively select the timestep when the RDME is simulated via a first order operator splitting. While the strategy is general and applicable to a wide range of approximate and hybrid methods, we exemplify it here by extending a previously published approximate method, the Diffusive Finite-State Projection (DFSP) method, to incorporate temporal adaptivity. PMID:26865735

  17. Biomixing by chemotaxis and efficiency of biological reactions: the critical reaction case

    CERN Document Server

    Kiselev, Alexander

    2012-01-01

    Many phenomena in biology involve both reactions and chemotaxis. These processes can clearly influence each other, and chemotaxis can play an important role in sustaining and speeding up the reaction. In continuation of our earlier work, we consider a model with a single density function involving diffusion, advection, chemotaxis, and absorbing reaction. The model is motivated, in particular, by the studies of coral broadcast spawning, where experimental observations of the efficiency of fertilization rates significantly exceed the data obtained from numerical models that do not take chemotaxis (attraction of sperm gametes by a chemical secreted by egg gametes) into account. We consider the case of the weakly coupled quadratic reaction term, which is the most natural from the biological point of view and was left open. The result is that similarly to higher power coupling, the chemotaxis plays a crucial role in ensuring efficiency of reaction. However, mathematically, the picture is quite different in the qua...

  18. Simulation of a fast diffuse optical tomography system based on radiative transfer equation

    Science.gov (United States)

    Motevalli, S. M.; Payani, A.

    2016-12-01

    Studies show that near-infrared (NIR) light (light with wavelength between 700nm and 1300nm) undergoes two interactions, absorption and scattering, when it penetrates a tissue. Since scattering is the predominant interaction, the calculation of light distribution in the tissue and the image reconstruction of absorption and scattering coefficients are very complicated. Some analytical and numerical methods, such as radiative transport equation and Monte Carlo method, have been used for the simulation of light penetration in tissue. Recently, some investigators in the world have tried to develop a diffuse optical tomography system. In these systems, NIR light penetrates the tissue and passes through the tissue. Then, light exiting the tissue is measured by NIR detectors placed around the tissue. These data are collected from all the detectors and transferred to the computational parts (including hardware and software), which make a cross-sectional image of the tissue after performing some computational processes. In this paper, the results of the simulation of an optical diffuse tomography system are presented. This simulation involves two stages: a) Simulation of the forward problem (or light penetration in the tissue), which is performed by solving the diffusion approximation equation in the stationary state using FEM. b) Simulation of the inverse problem (or image reconstruction), which is performed by the optimization algorithm called Broyden quasi-Newton. This method of image reconstruction is faster compared to the other Newton-based optimization algorithms, such as the Levenberg-Marquardt one.

  19. Development of Multigrid Methods for diffusion, Advection, and the incompressible Navier-Stokes Equations

    Energy Technology Data Exchange (ETDEWEB)

    Gjesdal, Thor

    1997-12-31

    This thesis discusses the development and application of efficient numerical methods for the simulation of fluid flows, in particular the flow of incompressible fluids. The emphasis is on practical aspects of algorithm development and on application of the methods either to linear scalar model equations or to the non-linear incompressible Navier-Stokes equations. The first part deals with cell centred multigrid methods and linear correction scheme and presents papers on (1) generalization of the method to arbitrary sized grids for diffusion problems, (2) low order method for advection-diffusion problems, (3) attempt to extend the basic method to advection-diffusion problems, (4) Fourier smoothing analysis of multicolour relaxation schemes, and (5) analysis of high-order discretizations for advection terms. The second part discusses a multigrid based on pressure correction methods, non-linear full approximation scheme, and papers on (1) systematic comparison of the performance of different pressure correction smoothers and some other algorithmic variants, low to moderate Reynolds numbers, and (2) systematic study of implementation strategies for high order advection schemes, high-Re flow. An appendix contains Fortran 90 data structures for multigrid development. 160 refs., 26 figs., 22 tabs.

  20. A stochastic description of Dictyostelium chemotaxis.

    Directory of Open Access Journals (Sweden)

    Gabriel Amselem

    Full Text Available Chemotaxis, the directed motion of a cell toward a chemical source, plays a key role in many essential biological processes. Here, we derive a statistical model that quantitatively describes the chemotactic motion of eukaryotic cells in a chemical gradient. Our model is based on observations of the chemotactic motion of the social ameba Dictyostelium discoideum, a model organism for eukaryotic chemotaxis. A large number of cell trajectories in stationary, linear chemoattractant gradients is measured, using microfluidic tools in combination with automated cell tracking. We describe the directional motion as the interplay between deterministic and stochastic contributions based on a Langevin equation. The functional form of this equation is directly extracted from experimental data by angle-resolved conditional averages. It contains quadratic deterministic damping and multiplicative noise. In the presence of an external gradient, the deterministic part shows a clear angular dependence that takes the form of a force pointing in gradient direction. With increasing gradient steepness, this force passes through a maximum that coincides with maxima in both speed and directionality of the cells. The stochastic part, on the other hand, does not depend on the orientation of the directional cue and remains independent of the gradient magnitude. Numerical simulations of our probabilistic model yield quantitative agreement with the experimental distribution functions. Thus our model captures well the dynamics of chemotactic cells and can serve to quantify differences and similarities of different chemotactic eukaryotes. Finally, on the basis of our model, we can characterize the heterogeneity within a population of chemotactic cells.

  1. Space-Time Fractional Diffusion-Advection Equation with Caputo Derivative

    Directory of Open Access Journals (Sweden)

    José Francisco Gómez Aguilar

    2014-01-01

    Full Text Available An alternative construction for the space-time fractional diffusion-advection equation for the sedimentation phenomena is presented. The order of the derivative is considered as 0<β, γ≤1 for the space and time domain, respectively. The fractional derivative of Caputo type is considered. In the spatial case we obtain the fractional solution for the underdamped, undamped, and overdamped case. In the temporal case we show that the concentration has amplitude which exhibits an algebraic decay at asymptotically large times and also shows numerical simulations where both derivatives are taken in simultaneous form. In order that the equation preserves the physical units of the system two auxiliary parameters σx and σt are introduced characterizing the existence of fractional space and time components, respectively. A physical relation between these parameters is reported and the solutions in space-time are given in terms of the Mittag-Leffler function depending on the parameters β and γ. The generalization of the fractional diffusion-advection equation in space-time exhibits anomalous behavior.

  2. Regularity and mass conservation for discrete coagulation-fragmentation equations with diffusion

    CERN Document Server

    Cañizo, José A; Fellner, Klemens

    2009-01-01

    We present a new a-priori estimate for discrete coagulation-fragmentation systems with size-dependent diffusion within a bounded, regular domain confined by homogeneous Neumann boundary conditions. Following from a duality argument, this a-priori estimate provides a global $L^2$ bound on the mass density and was previously used, for instance, in the context of reaction-diffusion equations. In this paper we demonstrate two lines of applications for such an estimate: On the one hand, it enables to simplify parts of the known existence theory and allows to show existence of solutions for generalised models involving collision-induced, quadratic fragmentation terms for which the previous existence theory seems difficult to apply. On the other hand and most prominently, it proves mass conservation (and thus the absence of gelation) for almost all the coagulation coefficients for which mass conservation is known to hold true in the space homogeneous case.

  3. Regularity and mass conservation for discrete coagulation–fragmentation equations with diffusion

    KAUST Repository

    Cañizo, J.A.

    2010-03-01

    We present a new a priori estimate for discrete coagulation-fragmentation systems with size-dependent diffusion within a bounded, regular domain confined by homogeneous Neumann boundary conditions. Following from a duality argument, this a priori estimate provides a global L2 bound on the mass density and was previously used, for instance, in the context of reaction-diffusion equations. In this paper we demonstrate two lines of applications for such an estimate: On the one hand, it enables to simplify parts of the known existence theory and allows to show existence of solutions for generalised models involving collision-induced, quadratic fragmentation terms for which the previous existence theory seems difficult to apply. On the other hand and most prominently, it proves mass conservation (and thus the absence of gelation) for almost all the coagulation coefficients for which mass conservation is known to hold true in the space homogeneous case. © 2009 Elsevier Masson SAS. All rights reserved.

  4. Analytical solutions of a fractional diffusion-advection equation for solar cosmic-ray transport

    Energy Technology Data Exchange (ETDEWEB)

    Litvinenko, Yuri E.; Effenberger, Frederic, E-mail: yuril@waikato.ac.nz [Department of Mathematics, University of Waikato, P.B. 3105 Hamilton (New Zealand)

    2014-12-01

    Motivated by recent applications of superdiffusive transport models to shock-accelerated particle distributions in the heliosphere, we analytically solve a one-dimensional fractional diffusion-advection equation for the particle density. We derive an exact Fourier transform solution, simplify it in a weak diffusion approximation, and compare the new solution with previously available analytical results and with a semi-numerical solution based on a Fourier series expansion. We apply the results to the problem of describing the transport of energetic particles, accelerated at a traveling heliospheric shock. Our analysis shows that significant errors may result from assuming an infinite initial distance between the shock and the observer. We argue that the shock travel time should be a parameter of a realistic superdiffusive transport model.

  5. Diffusive Mixing of Stable States in the Ginzburg-Landau Equation

    CERN Document Server

    Gallay, T; Gallay, Thierry; Mielke, Alexander

    1998-01-01

    For the time-dependent Ginzburg-Landau equation on the real line, we construct solutions which converge, as $x \\to \\pm\\infty$, to periodic stationary states with different wave-numbers $\\eta_\\pm$. These solutions are stable with respect to small perturbations, and approach as $t \\to +\\infty$ a universal diffusive profile depending only on the values of $\\eta_\\pm$. This extends a previous result of Bricmont and Kupiainen by removing the assumption that $\\eta_\\pm$ should be close to zero. The existence of the diffusive profile is obtained as an application of the theory of monotone operators, and the long-time behavior of our solutions is controlled by rewriting the system in scaling variables and using energy estimates involving an exponentially growing damping term.

  6. Periodic and solitary wave solutions of cubic–quintic nonlinear reaction-diffusion equation with variable convection coefficients

    Indian Academy of Sciences (India)

    BHARDWAJ S B; SINGH RAM MEHAR; SHARMA KUSHAL; MISHRA S C

    2016-06-01

    Attempts have been made to explore the exact periodic and solitary wave solutions of nonlinear reaction diffusion (RD) equation involving cubic–quintic nonlinearity along with timedependent convection coefficients. Effect of varying model coefficients on the physical parameters of solitary wave solutions is demonstrated. Depending upon the parametric condition, the periodic,double-kink, bell and antikink-type solutions for cubic–quintic nonlinear reaction-diffusion equation are extracted. Such solutions can be used to explain various biological and physical phenomena.

  7. Smoothed particle hydrodynamics model for Landau-Lifshitz-Navier-Stokes and advection-diffusion equations.

    Science.gov (United States)

    Kordilla, Jannes; Pan, Wenxiao; Tartakovsky, Alexandre

    2014-12-14

    We propose a novel smoothed particle hydrodynamics (SPH) discretization of the fully coupled Landau-Lifshitz-Navier-Stokes (LLNS) and stochastic advection-diffusion equations. The accuracy of the SPH solution of the LLNS equations is demonstrated by comparing the scaling of velocity variance and the self-diffusion coefficient with kinetic temperature and particle mass obtained from the SPH simulations and analytical solutions. The spatial covariance of pressure and velocity fluctuations is found to be in a good agreement with theoretical models. To validate the accuracy of the SPH method for coupled LLNS and advection-diffusion equations, we simulate the interface between two miscible fluids. We study formation of the so-called "giant fluctuations" of the front between light and heavy fluids with and without gravity, where the light fluid lies on the top of the heavy fluid. We find that the power spectra of the simulated concentration field are in good agreement with the experiments and analytical solutions. In the absence of gravity, the power spectra decay as the power -4 of the wavenumber-except for small wavenumbers that diverge from this power law behavior due to the effect of finite domain size. Gravity suppresses the fluctuations, resulting in much weaker dependence of the power spectra on the wavenumber. Finally, the model is used to study the effect of thermal fluctuation on the Rayleigh-Taylor instability, an unstable dynamics of the front between a heavy fluid overlaying a light fluid. The front dynamics is shown to agree well with the analytical solutions.

  8. Time adaptivity in the diffusive wave approximation to the shallow water equations

    KAUST Repository

    Collier, Nathaniel Oren

    2013-05-01

    We discuss the use of time adaptivity applied to the one dimensional diffusive wave approximation to the shallow water equations. A simple and computationally economical error estimator is discussed which enables time-step size adaptivity. This robust adaptive time discretization corrects the initial time step size to achieve a user specified bound on the discretization error and allows time step size variations of several orders of magnitude. In particular, the one dimensional results presented in this work feature a change of four orders of magnitudes for the time step over the entire simulation. © 2011 Elsevier B.V.

  9. Asymptotic Behavior of the One-Dimensional Fisher-Kolmogorov-Petrovskii-Piskunov Equation with Anomalouos Diffusion

    Science.gov (United States)

    Prozorov, A. A.; Trifonov, A. Yu.; Shapovalov, A. V.

    2015-07-01

    Asymptotic solutions of the nonlocal, one-dimensional Fisher-Kolmogorov-Petrovskii-Piskunov equation with fractional derivatives in the diffusion operator are constructed. The fractional derivative is defined in accordance with the approaches of Weyl, Grünwald-Letnilkov, and Liouville. Asymptotic solutions are constructed in a class of functions that are a perturbation of the found exact quasistationary solution and tend at large times to this quasistationary solution. It is shown that the presence of fractional derivatives leads to drift of the center of mass of the initial distribution and breaks its symmetry.

  10. Boundary Element Method with Non—overlapping Domain Decomposition for Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    ZHUJialin; ZHANGTaiping

    2002-01-01

    A boundary element method based on non-overlapping domain decomposition method to solve the time-dependent diffusion equations is presented.The time-dependent fundamental solution is used in the formulation of boundary integrals and the time integratioin process always restarts from the initial time condition.The process of replacing the interface values,which needs a summation of boundary integrals related to the boundary values at previous time steps can be treated in parallel parallel iterative procedure,Numerical experiments demonstrate that the implementation of the present alogrithm is efficient.

  11. The Approximate Solutions of Three-Dimensional Diffusion and Wave Equations within Local Fractional Derivative Operator

    Directory of Open Access Journals (Sweden)

    Hassan Kamil Jassim

    2016-01-01

    Full Text Available We used the local fractional variational iteration transform method (LFVITM coupled by the local fractional Laplace transform and variational iteration method to solve three-dimensional diffusion and wave equations with local fractional derivative operator. This method has Lagrange multiplier equal to minus one, which makes the calculations more easily. The obtained results show that the presented method is efficient and yields a solution in a closed form. Illustrative examples are included to demonstrate the high accuracy and fast convergence of this new method.

  12. Free boundary value problems for a class of generalized diffusion equation

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The transport behavior of free boundary value problems for a class of generalized diffusion equations was studied. Suitable similarity transformations were used to convert the problems into a class of singular nonlinear two-point boundary value problems and similarity solutions were numerical presented for different representations of heat conduction function, convection function, heat flux function, and power law parameters by utilizing the shooting technique. The results revealed the flux transfer mechanism and the character as well as the effects of parameters on the solutions.

  13. Approximate analytical solution of diffusion equation with fractional time derivative using optimal homotopy analysis method

    Directory of Open Access Journals (Sweden)

    S. Das

    2013-12-01

    Full Text Available In this article, optimal homotopy-analysis method is used to obtain approximate analytic solution of the time-fractional diffusion equation with a given initial condition. The fractional derivatives are considered in the Caputo sense. Unlike usual Homotopy analysis method, this method contains at the most three convergence control parameters which describe the faster convergence of the solution. Effects of parameters on the convergence of the approximate series solution by minimizing the averaged residual error with the proper choices of parameters are calculated numerically and presented through graphs and tables for different particular cases.

  14. Relation between the complex Ginzburg-Landau equation and reaction-diffusion System

    Institute of Scientific and Technical Information of China (English)

    Shao Xin; Ren Yi; Ouyang Qi

    2006-01-01

    The complex Ginzburg-Landau equation(CGLE)has been used to describe the travelling wave behaviour in reaction-diffusion (RD) systems. We argue that this description is valid only when the RD system is close to the Hopf bifurcation,and is not valid when a RD system is away from the onset.To test this,we study spirals and anti-spirals in the chlorite-iodide-malonic acid (CIMA) reaction and the corresponding CGLE.Numerical simulations confirm that the CGLE can only be applied to the CIMA reaction when it is very near the Hopf onset.

  15. Threshold phenomena for symmetric decreasing solutions of reaction-diffusion equations

    CERN Document Server

    Muratov, C B

    2012-01-01

    We study the long time behavior of solutions of the Cauchy problem for nonlinear reaction-diffusion equations in one space dimension with the nonlinearity of bistable, ignition or monostable type. We prove a one-to-one relation between the long time behavior of the solution and the limit value of its energy for symmetric decreasing initial data in $L^2$ under minimal assumptions on the nonlinearities. The obtained relation allows to establish sharp threshold results between propagation and extinction for monotone families of initial data in the considered general setting.

  16. Asymptotic Analysis to a Diffusion Equation with a Weighted Nonlo cal Source

    Institute of Scientific and Technical Information of China (English)

    JIANG Liang-jun

    2015-01-01

    In this paper, we deal with the blow-up property of the solution to the diffusion equation ut=∆u+a(x)f(u) RΩh(u)dx, x∈Ω, t>0 subject to the null Dirichlet boundary condition. We will show that under certain conditions, the solution blows up in finite time and prove that the set of all blow-up points is the whole region. Especially, in case of f(s)=sp, h(s)=sq, 0≤p≤1, p+q>1, we obtain the asymptotic behavior of the blow up solution.

  17. Cubic B-Spline Collocation Method for One-Dimensional Heat and Advection-Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Joan Goh

    2012-01-01

    Full Text Available Numerical solutions of one-dimensional heat and advection-diffusion equations are obtained by collocation method based on cubic B-spline. Usual finite difference scheme is used for time and space integrations. Cubic B-spline is applied as interpolation function. The stability analysis of the scheme is examined by the Von Neumann approach. The efficiency of the method is illustrated by some test problems. The numerical results are found to be in good agreement with the exact solution.

  18. The Galerkin finite element method for a multi-term time-fractional diffusion equation

    KAUST Repository

    Jin, Bangti

    2015-01-01

    © 2014 The Authors. We consider the initial/boundary value problem for a diffusion equation involving multiple time-fractional derivatives on a bounded convex polyhedral domain. We analyze a space semidiscrete scheme based on the standard Galerkin finite element method using continuous piecewise linear functions. Nearly optimal error estimates for both cases of initial data and inhomogeneous term are derived, which cover both smooth and nonsmooth data. Further we develop a fully discrete scheme based on a finite difference discretization of the time-fractional derivatives, and discuss its stability and error estimate. Extensive numerical experiments for one- and two-dimensional problems confirm the theoretical convergence rates.

  19. Hamilton-Jacobi equation, heteroclinic chains and Arnol'd diffusion in three time scales systems

    CERN Document Server

    Gallavotti, G; Mastropietro, V; Gallavotti, Giovanni; Gentile, Guido; Mastropietro, Vieri

    1998-01-01

    Interacting systems consisting of two rotators and a point mass near a hyperbolic fixed point are considered, in a case in which the uncoupled systems have three very different characteristic time scales. The abundance of quasi periodic motions in phase space is studied via the Hamilton-Jacobi equation. The main result, a high density theorem of invariant tori, is derived by the classical canonical transformation method extending previous results. As an application the existence of long heteroclinic chains (and of Arnol'd diffusion) is proved for systems interacting through a trigonometric polynomial in the angle variables.

  20. THE NONLINEAR NONLOCAL SINGULARLY PERTURBED PROBLEMS FOR REACTION DIFFUSION EQUATIONS WITH A BOUNDARY PERTURBATION

    Institute of Scientific and Technical Information of China (English)

    Jingsun Yao; Jiaqi Mo

    2005-01-01

    The nonlinear nonlocal singularly perturbed initial boundary value problems for reaction diffusion equations with a boundary perturbation is considered. Under suitable conditions, the outer solution of the original problem is obtained. Using the stretched variable, the composing expansion method and the expanding theory of power series the initial layer is constructed. And then using the theory of differential inequalities the asymptotic behavior of solution for the initial boundary value problems is studied. Finally the existence and uniqueness of solution for the original problem and the uniformly valid asymptotic estimation are discussed.

  1. Stochastic Lotka-Volterra equations: A model of lagged diffusion of technology in an interconnected world

    Science.gov (United States)

    Chakrabarti, Anindya S.

    2016-01-01

    We present a model of technological evolution due to interaction between multiple countries and the resultant effects on the corresponding macro variables. The world consists of a set of economies where some countries are leaders and some are followers in the technology ladder. All of them potentially gain from technological breakthroughs. Applying Lotka-Volterra (LV) equations to model evolution of the technology frontier, we show that the way technology diffuses creates repercussions in the partner economies. This process captures the spill-over effects on major macro variables seen in the current highly globalized world due to trickle-down effects of technology.

  2. Stability and Bifurcation in a Delayed Reaction-Diffusion Equation with Dirichlet Boundary Condition

    Science.gov (United States)

    Guo, Shangjiang; Ma, Li

    2016-04-01

    In this paper, we study the dynamics of a diffusive equation with time delay subject to Dirichlet boundary condition in a bounded domain. The existence of spatially nonhomogeneous steady-state solution is investigated by applying Lyapunov-Schmidt reduction. The existence of Hopf bifurcation at the spatially nonhomogeneous steady-state solution is derived by analyzing the distribution of the eigenvalues. The direction of Hopf bifurcation and stability of the bifurcating periodic solution are also investigated by means of normal form theory and center manifold reduction. Moreover, we illustrate our general results by applications to the Nicholson's blowflies models with one- dimensional spatial domain.

  3. Spatiotemporal evolution in a (2+1)-dimensional chemotaxis model

    Science.gov (United States)

    Banerjee, Santo; Misra, Amar P.; Rondoni, L.

    2012-01-01

    Simulations are performed to investigate the nonlinear dynamics of a (2+1)-dimensional chemotaxis model of Keller-Segel (KS) type, with a logistic growth term. Because of its ability to display auto-aggregation, the KS model has been widely used to simulate self-organization in many biological systems. We show that the corresponding dynamics may lead to steady-states, to divergencies in a finite time as well as to the formation of spatiotemporal irregular patterns. The latter, in particular, appears to be chaotic in part of the range of bounded solutions, as demonstrated by the analysis of wavelet power spectra. Steady-states are achieved with sufficiently large values of the chemotactic coefficient (χ) and/or with growth rates r below a critical value rc. For r>rc, the solutions of the differential equations of the model diverge in a finite time. We also report on the pattern formation regime, for different values of χ, r and of the diffusion coefficient D.

  4. Spatiotemporal evolution in a (2+1)-dimensional chemotaxis model

    CERN Document Server

    Banerjee, S; Rondoni, L

    2011-01-01

    Simulations are performed to investigate the nonlinear dynamics of a (2+1)-dimensional chemotaxis model of Keller-Segel (KS) type with a logistic growth term. Because of its ability to display auto-aggregation, the KS model has been widely used to simulate self-organization in many biological systems. We show that the corresponding dynamics may lead to a steady-state, divergence in a finite time as well as the formation of spatiotemporal irregular patterns. The latter, in particular, appear to be chaotic in part of the range of bounded solutions, as demonstrated by the analysis of wavelet power spectra. Steady states are achieved with sufficiently large values of the chemotactic coefficient $(\\chi)$ and/or with growth rates $r$ below a critical value $r_c$. For $r > r_c$, the solutions of the differential equations of the model diverge in a finite time. We also report on the pattern formation regime for different values of $\\chi$, $r$ and the diffusion coefficient $D$.

  5. Diffusion in the presence of cylindrical obstacles arranged in a square lattice analyzed with generalized Fick-Jacobs equation

    Science.gov (United States)

    Dagdug, Leonardo; Vazquez, Marco-Vinicio; Berezhkovskii, Alexander M.; Zitserman, Vladimir Yu.; Bezrukov, Sergey M.

    2012-05-01

    The generalized Fick-Jacobs equation is widely used to study diffusion of Brownian particles in three-dimensional tubes and quasi-two-dimensional channels of varying constraint geometry. We show how this equation can be applied to study the slowdown of unconstrained diffusion in the presence of obstacles. Specifically, we study diffusion of a point Brownian particle in the presence of identical cylindrical obstacles arranged in a square lattice. The focus is on the effective diffusion coefficient of the particle in the plane perpendicular to the cylinder axes, as a function of the cylinder radii. As radii vary from zero to one half of the lattice period, the effective diffusion coefficient decreases from its value in the obstacle free space to zero. Using different versions of the generalized Fick-Jacobs equation, we derive simple approximate formulas, which give the effective diffusion coefficient as a function of the cylinder radii, and compare their predictions with the values of the effective diffusion coefficient obtained from Brownian dynamics simulations. We find that both Reguera-Rubi and Kalinay-Percus versions of the generalized Fick-Jacobs equation lead to quite accurate predictions of the effective diffusion coefficient (with maximum relative errors below 4% and 7%, respectively) over the entire range of the cylinder radii from zero to one half of the lattice period.

  6. Talagrand's T2-Transportation Inequality and Log-Sobolev Inequality for Dissipative SPDEs and Applications to Reaction-Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    Liming WU; Zhengliang ZHANG

    2006-01-01

    We establish Talagrand's T2-transportation inequalities for infinite dimensional dissipative diffusions with sharp constants, through Galerkin type's approximations and the known results in the finite dimensional case. Furthermore in the additive noise case we prove also logarithmic Sobolev inequalities with sharp constants. Applications to ReactionDiffusion equations are provided.

  7. Scalable implicit methods for reaction-diffusion equations in two and three space dimensions

    Energy Technology Data Exchange (ETDEWEB)

    Veronese, S.V.; Othmer, H.G. [Univ. of Utah, Salt Lake City, UT (United States)

    1996-12-31

    This paper describes the implementation of a solver for systems of semi-linear parabolic partial differential equations in two and three space dimensions. The solver is based on a parallel implementation of a non-linear Alternating Direction Implicit (ADI) scheme which uses a Cartesian grid in space and an implicit time-stepping algorithm. Various reordering strategies for the linearized equations are used to reduce the stride and improve the overall effectiveness of the parallel implementation. We have successfully used this solver for large-scale reaction-diffusion problems in computational biology and medicine in which the desired solution is a traveling wave that may contain rapid transitions. A number of examples that illustrate the efficiency and accuracy of the method are given here; the theoretical analysis will be presented.

  8. Self-similar singular solution of fast diffusion equation with gradient absorption terms

    Institute of Scientific and Technical Information of China (English)

    SHI Pei-hu; WANG Ming-xin

    2007-01-01

    The self-similar singular solution of the fast diffusion equation with nonlinear gradient absorption terms are studied. By a self-similar transformation, the self-similar solutions satisfy a boundary value problem of nonlinear ordinary differential equation (ODE). Using the shooting arguments, the existence and uniqueness of the solution to the initial data problem of the nonlinear ODE are investigated, and the solutions are classified by the region of the initial data. The necessary and sufficient condition for the existence and uniqueness of self-similar very singular solutions is obtained by investigation of the classification of the solutions. In case of existence, the self-similar singular solution is very singular solution.

  9. THE EXTINCTION BEHAVIOR OF THE SOLUTIONS FOR A CLASS OF REACTION-DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    陈松林

    2001-01-01

    The methods of Lp estimation are used to discuss the extinction phenomena of the solutions to the following reaction-diffusion equations with initial-boudnary values u/ t = Au-λ |u|γ-1u-βu ((x,t) ∈Ω×(0,+∞)),u(x,t) | Ω×(0.+∞) = 0,u(x,0) = uo(x) ∈ H1 0(Ω) ∩ L1+γ(Ω) (x ∈Ω).Sufficient and necessary conditions about the extinction of the solutions is given Here λ>0, γ> 0, β> 0 are constants, Ω∈ RN is bounded with smooth boundary Ω At last,it is simulated with a higher order equation by using the present methods.

  10. Metallothionein mediates leukocyte chemotaxis

    Directory of Open Access Journals (Sweden)

    Lynes Michael A

    2005-09-01

    Full Text Available Abstract Background Metallothionein (MT is a cysteine-rich, metal-binding protein that can be induced by a variety of agents. Modulation of MT levels has also been shown to alter specific immune functions. We have noticed that the MT genes map close to the chemokines Ccl17 and Cx3cl1. Cysteine motifs that characterize these chemokines are also found in the MT sequence suggesting that MT might also act as a chemotactic factor. Results In the experiments reported here, we show that immune cells migrate chemotactically in the presence of a gradient of MT. This response can be specifically blocked by two different monoclonal anti-MT antibodies. Exposure of cells to MT also leads to a rapid increase in F-actin content. Incubation of Jurkat T cells with cholera toxin or pertussis toxin completely abrogates the chemotactic response to MT. Thus MT may act via G-protein coupled receptors and through the cyclic AMP signaling pathway to initiate chemotaxis. Conclusion These results suggest that, under inflammatory conditions, metallothionein in the extracellular environment may support the beneficial movement of leukocytes to the site of inflammation. MT may therefore represent a "danger signal"; modifying the character of the immune response when cells sense cellular stress. Elevated metallothionein produced in the context of exposure to environmental toxicants, or as a result of chronic inflammatory disease, may alter the normal chemotactic responses that regulate leukocyte trafficking. Thus, MT synthesis may represent an important factor in immunomodulation that is associated with autoimmune disease and toxicant exposure.

  11. The Bäcklund Transformations and Abundant Exact Explicit Solutions for a General Nonintegrable Nonlinear Convection-Diffusion Equation

    Directory of Open Access Journals (Sweden)

    Yong Huang

    2012-01-01

    Full Text Available The Bäcklund transformations and abundant exact explicit solutions for a class of nonlinear wave equation are obtained by the extended homogeneous balance method. These solutions include the solitary wave solution of rational function, the solitary wave solutions, singular solutions, and the periodic wave solutions of triangle function type. In addition to rederiving some known solutions, some entirely new exact solutions are also established. Explicit and exact particular solutions of many well-known nonlinear evolution equations which are of important physical significance, such as Kolmogorov-Petrovskii-Piskunov equation, FitzHugh-Nagumo equation, Burgers-Huxley equation, Chaffee-Infante reaction diffusion equation, Newell-Whitehead equation, Fisher equation, Fisher-Burgers equation, and an isothermal autocatalytic system, are obtained as special cases.

  12. On the numerical solution of the diffusion equation with a nonlocal boundary condition

    Directory of Open Access Journals (Sweden)

    Dehghan Mehdi

    2003-01-01

    Full Text Available Parabolic partial differential equations with nonlocal boundary specifications feature in the mathematical modeling of many phenomena. In this paper, numerical schemes are developed for obtaining approximate solutions to the initial boundary value problem for one-dimensional diffusion equation with a nonlocal constraint in place of one of the standard boundary conditions. The method of lines (MOL semidiscretization approach is used to transform the model partial differential equation into a system of first-order linear ordinary differential equations (ODEs. The partial derivative with respect to the space variable is approximated by a second-order finite-difference approximation. The solution of the resulting system of first-order ODEs satisfies a recurrence relation which involves a matrix exponential function. Numerical techniques are developed by approximating the exponential matrix function in this recurrence relation. We use a partial fraction expansion to compute the matrix exponential function via Pade approximations, which is particularly useful in parallel processing. The algorithm is tested on a model problem from the literature.

  13. Parallel computing for homogeneous diffusion and transport equations in neutronics; Calcul parallele pour les equations de diffusion et de transport homogenes en neutronique

    Energy Technology Data Exchange (ETDEWEB)

    Pinchedez, K

    1999-06-01

    Parallel computing meets the ever-increasing requirements for neutronic computer code speed and accuracy. In this work, two different approaches have been considered. We first parallelized the sequential algorithm used by the neutronics code CRONOS developed at the French Atomic Energy Commission. The algorithm computes the dominant eigenvalue associated with PN simplified transport equations by a mixed finite element method. Several parallel algorithms have been developed on distributed memory machines. The performances of the parallel algorithms have been studied experimentally by implementation on a T3D Cray and theoretically by complexity models. A comparison of various parallel algorithms has confirmed the chosen implementations. We next applied a domain sub-division technique to the two-group diffusion Eigen problem. In the modal synthesis-based method, the global spectrum is determined from the partial spectra associated with sub-domains. Then the Eigen problem is expanded on a family composed, on the one hand, from eigenfunctions associated with the sub-domains and, on the other hand, from functions corresponding to the contribution from the interface between the sub-domains. For a 2-D homogeneous core, this modal method has been validated and its accuracy has been measured. (author)

  14. Variational Multiscale Element Free Galerkin Method Coupled with Low-Pass Filter for Burgers’ Equation with Small Diffusion

    Directory of Open Access Journals (Sweden)

    Ping Zhang

    2016-01-01

    Full Text Available Variational multiscale element free Galerkin (VMEFG method is applied to Burgers’ equation. It can be found that, for the very small diffusivity coefficients, VMEFG method still suffers from instability in the presence of boundary or interior layers. In order to overcome this problem, the high order low-pass filter is used to smooth the solution. Three test examples with very small diffusion are presented and the solutions obtained are compared with exact solutions and some other numerical methods. The numerical results are found in which the VMEFG coupled with low-pass filter works very well for Burgers’ equation with very small diffusivity coefficients.

  15. A Fast Stable Discretization of the Constant-Convection-Diffusion-Reaction Equations of Kinetic Capillary Electrophoresis (KCE)

    CERN Document Server

    Vass, József

    2016-01-01

    A discretization scheme is introduced for a set of convection-diffusion equations with a non-linear reaction term, where the convection velocity is constant for each reactant. This constancy allows a transformation to new spatial variables, which ensures the global stability of discretization. Convection-diffusion equations are notorious for their lack of stability, arising from the algebraic interaction of the convection and diffusion terms. Unexpectedly, our implemented numerical algorithm proves to be faster than computing exact solutions derived for a special case, while remaining reasonably accurate, as demonstrated in our runtime and error analysis.

  16. Langevin equation with multiplicative white noise: Transformation of diffusion processes into the Wiener process in different prescriptions

    Energy Technology Data Exchange (ETDEWEB)

    Kwok, Sau Fa, E-mail: kwok@dfi.uem.br

    2012-08-15

    A Langevin equation with multiplicative white noise and its corresponding Fokker-Planck equation are considered in this work. From the Fokker-Planck equation a transformation into the Wiener process is provided for different orders of prescription in discretization rule for the stochastic integrals. A few applications are also discussed. - Highlights: Black-Right-Pointing-Pointer Fokker-Planck equation corresponding to the Langevin equation with mul- tiplicative white noise is presented. Black-Right-Pointing-Pointer Transformation of diffusion processes into the Wiener process in different prescriptions is provided. Black-Right-Pointing-Pointer The prescription parameter is associated with the growth rate for a Gompertz-type model.

  17. Diffusion in an expanding medium: Fokker-Planck equation, Green's function, and first-passage properties

    Science.gov (United States)

    Yuste, S. B.; Abad, E.; Escudero, C.

    2016-09-01

    We present a classical, mesoscopic derivation of the Fokker-Planck equation for diffusion in an expanding medium. To this end, we take a conveniently generalized Chapman-Kolmogorov equation as the starting point. We obtain an analytical expression for the Green's function (propagator) and investigate both analytically and numerically how this function and the associated moments behave. We also study first-passage properties in expanding hyperspherical geometries. We show that in all cases the behavior is determined to a great extent by the so-called Brownian conformal time τ (t ) , which we define via the relation τ ˙=1 /a2 , where a (t ) is the expansion scale factor. If the medium expansion is driven by a power law [a (t ) ∝tγ with γ >0 ] , then we find interesting crossover effects in the mixing effectiveness of the diffusion process when the characteristic exponent γ is varied. Crossover effects are also found at the level of the survival probability and of the moments of the first passage-time distribution with two different regimes separated by the critical value γ =1 /2 . The case of an exponential scale factor is analyzed separately both for expanding and contracting media. In the latter situation, a stationary probability distribution arises in the long-time limit.

  18. Planar diffusions with rank-based characteristics and perturbed Tanaka equations

    CERN Document Server

    Fernholz, E Robert; Karatzas, Ioannis; Prokaj, Vilmos

    2011-01-01

    For given non negative constants $g$, $h$, $\\rho$, $\\sigma$ with $\\rho^2+\\sigma^2 =1$ and $g+h>0$, we construct a diffusion process $(X_1, X_2)$ with values in the plane and infinitesimal generator $L = 1_{x_1>x_2} p(\\partial_{x_1},\\partial_{x_2}) + 1_{x_2>x_1} p(\\partial_{x_2},\\partial_{x_1}), $ where $ p(x,y)= \\frac{\\rho^2}2 x^2 + \\frac{\\sigma^2}2 y^2 - h x + g y. $ We compute the transition probabilities of this process, discuss its realization in terms of appropriate systems of stochastic differential equations, study its dynamics under a time reversal, and note that these involve singularly continuous components governed by local time. Crucial in our analysis are properties of Brownian and semimartingale local time; properties of the generalized perturbed Tanaka equation $dZ(t) = f(Z(t)) dM(t) + dN(t)$, $Z(0)=\\xi $$ driven by suitable continuous, orthogonal semimartingales $M$ and $N$ and with $f$ of bounded variation, which we study here in detail; and those of a one-dimensional diffusion $Y$ with bang-...

  19. A non-scale-invariant form for coarse-grained diffusion-reaction equations

    Science.gov (United States)

    Ostvar, Sassan; Wood, Brian D.

    2016-09-01

    The process of mixing and reaction is a challenging problem to understand mathematically. Although there have been successes in describing the effective properties of mixing and reaction under a number of regimes, process descriptions for early times have been challenging for cases where the structure of the initial conditions is highly segregated. In this paper, we use the method of volume averaging to develop a rigorous theory for diffusive mixing with reactions from initial to asymptotic times under highly segregated initial conditions in a bounded domain. One key feature that arises in this development is that the functional form of the averaged differential mass balance equations is not, in general, scale invariant. Upon upscaling, an additional source term arises that helps to account for the initial configuration of the reacting chemical species. In this development, we derive the macroscopic parameters (a macroscale source term and an effectiveness factor modifying the reaction rate) defined in the macroscale diffusion-reaction equation and provide example applications for several initial configurations.

  20. Dictyostelium Chemotaxis studied with fluorescence fluctuation spectroscopy

    NARCIS (Netherlands)

    Ruchira, A.

    2005-01-01

    The movement of cells in the direction of a chemical gradient, also known as chemotaxis, is a vital biological process. During chemotaxis, minute extracellular signals are translated into complex cellular responses such as change in morphology and motility. To understand the chemotaxis mechanism at

  1. On the Initial-Boundary-Value Problem for the Time-Fractional Diffusion Equation on the Real Positive Semiaxis

    Directory of Open Access Journals (Sweden)

    D. Goos

    2015-01-01

    Full Text Available We consider the time-fractional derivative in the Caputo sense of order α∈(0, 1. Taking into account the asymptotic behavior and the existence of bounds for the Mainardi and the Wright function in R+, two different initial-boundary-value problems for the time-fractional diffusion equation on the real positive semiaxis are solved. Moreover, the limit when α↗1 of the respective solutions is analyzed, recovering the solutions of the classical boundary-value problems when α = 1, and the fractional diffusion equation becomes the heat equation.

  2. Studies of the accuracy of time integration methods for reaction-diffusion equations

    Science.gov (United States)

    Ropp, David L.; Shadid, John N.; Ober, Curtis C.

    2004-03-01

    In this study we present numerical experiments of time integration methods applied to systems of reaction-diffusion equations. Our main interest is in evaluating the relative accuracy and asymptotic order of accuracy of the methods on problems which exhibit an approximate balance between the competing component time scales. Nearly balanced systems can produce a significant coupling of the physical mechanisms and introduce a slow dynamical time scale of interest. These problems provide a challenging test for this evaluation and tend to reveal subtle differences between the various methods. The methods we consider include first- and second-order semi-implicit, fully implicit, and operator-splitting techniques. The test problems include a prototype propagating nonlinear reaction-diffusion wave, a non-equilibrium radiation-diffusion system, a Brusselator chemical dynamics system and a blow-up example. In this evaluation we demonstrate a "split personality" for the operator-splitting methods that we consider. While operator-splitting methods often obtain very good accuracy, they can also manifest a serious degradation in accuracy due to stability problems.

  3. Analyses of the Instabilities in the Discretized Diffusion Equations via Information Theory

    Directory of Open Access Journals (Sweden)

    Maxence Bigerelle

    2016-04-01

    Full Text Available In a previous investigation (Bigerelle and Iost, 2004, the authors have proposed a physical interpretation of the instability λ = Δt/Δx2 > 1/2 of the parabolic partial differential equations when solved by finite differences. However, our results were obtained using integration techniques based on erf functions meaning that no statistical fluctuation was introduced in the mathematical background. In this paper, we showed that the diffusive system can be divided into sub-systems onto which a Brownian motion is applied. Monte Carlo simulations are carried out to reproduce the macroscopic diffusive system. It is shown that the amount of information characterized by the compression ratio of information of the system is pertinent to quantify the entropy of the system according to some concepts introduced by the authors (Bigerelle and Iost, 2007. Thanks to this mesoscopic discretization, it is proved that information on each sub-cell of the diffusion map decreases with time before the unstable equality λ = 1/2 and increases after this threshold involving an increase in negentropy, i.e., a decrease in entropy contrarily to the second principle of thermodynamics.

  4. On a nonlinear degenerate parabolic transport-diffusion equation with a discontinuous coefficient

    Directory of Open Access Journals (Sweden)

    John D. Towers

    2002-10-01

    Full Text Available We study the Cauchy problem for the nonlinear (possibly strongly degenerate parabolic transport-diffusion equation $$ partial_t u + partial_x (gamma(xf(u=partial_x^2 A(u, quad A'(cdotge 0, $$ where the coefficient $gamma(x$ is possibly discontinuous and $f(u$ is genuinely nonlinear, but not necessarily convex or concave. Existence of a weak solution is proved by passing to the limit as $varepsilondownarrow 0$ in a suitable sequence ${u_{varepsilon}}_{varepsilon>0}$ of smooth approximations solving the problem above with the transport flux $gamma(xf(cdot$ replaced by $gamma_{varepsilon}(xf(cdot$ and the diffusion function $A(cdot$ replaced by $A_{varepsilon}(cdot$, where $gamma_{varepsilon}(cdot$ is smooth and $A_{varepsilon}'(cdot>0$. The main technical challenge is to deal with the fact that the total variation $|u_{varepsilon}|_{BV}$ cannot be bounded uniformly in $varepsilon$, and hence one cannot derive directly strong convergence of ${u_{varepsilon}}_{varepsilon>0}$. In the purely hyperbolic case ($A'equiv 0$, where existence has already been established by a number of authors, all existence results to date have used a singular maolinebreak{}pping to overcome the lack of a variation bound. Here we derive instead strong convergence via a series of a priori (energy estimates that allow us to deduce convergence of the diffusion function and use the compensated compactness method to deal with the transport term. Submitted April 29, 2002. Published October 27, 2002. Math Subject Classifications: 35K65, 35D05, 35R05, 35L80 Key Words: Degenerate parabolic equation; nonconvex flux; weak solution; discontinuous coefficient; viscosity method; a priori estimates; compensated compactness

  5. Flow and Diffusion Equations for Fluid Flow in Porous Rocks for the Multiphase Flow Phenomena

    Directory of Open Access Journals (Sweden)

    Mohammad Miyan

    2015-07-01

    Full Text Available The multiphase flow in porous media is a subject of great complexities with a long rich history in the field of fluid mechanics. This is a subject with important technical applications, most notably in oil recovery from petroleum reservoirs and so on. The single-phase fluid flow through a porous medium is well characterized by Darcy’s law. In the petroleum industry and in other technical applications, transport is modeled by postulating a multiphase generalization of the Darcy’s law. In this connection, distinct pressures are defined for each constituent phase with the difference known as capillary pressure, determined by the interfacial tension, micro pore geometry and surface chemistry of the solid medium. For flow rates, relative permeability is defined that relates the volume flow rate of each fluid to its pressure gradient. In the present paper, there is a derivation and analysis about the diffusion equation for the fluid flow in porous rocks and some important results have been founded. The permeability is a function of rock type that varies with stress, temperature etc., and does not depend on the fluid. The effect of the fluid on the flow rate is accounted for by the term of viscosity. The numerical value of permeability for a given rock depends on the size of the pores in the rock as well as on the degree of interconnectivity of the void space. The pressure pulses obey the diffusion equation not the wave equation. Then they travel at a speed which continually decreases with time rather than travelling at a constant speed. The results shown in this paper are much useful in earth sciences and petroleum industry.

  6. Three-dimensional h-adaptivity for the multigroup neutron diffusion equations

    KAUST Repository

    Wang, Yaqi

    2009-04-01

    Adaptive mesh refinement (AMR) has been shown to allow solving partial differential equations to significantly higher accuracy at reduced numerical cost. This paper presents a state-of-the-art AMR algorithm applied to the multigroup neutron diffusion equation for reactor applications. In order to follow the physics closely, energy group-dependent meshes are employed. We present a novel algorithm for assembling the terms coupling shape functions from different meshes and show how it can be made efficient by deriving all meshes from a common coarse mesh by hierarchic refinement. Our methods are formulated using conforming finite elements of any order, for any number of energy groups. The spatial error distribution is assessed with a generalization of an error estimator originally derived for the Poisson equation. Our implementation of this algorithm is based on the widely used Open Source adaptive finite element library deal.II and is made available as part of this library\\'s extensively documented tutorial. We illustrate our methods with results for 2-D and 3-D reactor simulations using 2 and 7 energy groups, and using conforming finite elements of polynomial degree up to 6. © 2008 Elsevier Ltd. All rights reserved.

  7. An analytical method for solving exact solutions of the nonlinear Bogoyavlenskii equation and the nonlinear diffusive predator–prey system

    Directory of Open Access Journals (Sweden)

    Md. Nur Alam

    2016-06-01

    Full Text Available In this article, we apply the exp(-Φ(ξ-expansion method to construct many families of exact solutions of nonlinear evolution equations (NLEEs via the nonlinear diffusive predator–prey system and the Bogoyavlenskii equations. These equations can be transformed to nonlinear ordinary differential equations. As a result, some new exact solutions are obtained through the hyperbolic function, the trigonometric function, the exponential functions and the rational forms. If the parameters take specific values, then the solitary waves are derived from the traveling waves. Also, we draw 2D and 3D graphics of exact solutions for the special diffusive predator–prey system and the Bogoyavlenskii equations by the help of programming language Maple.

  8. Verification of the plasma diffusion-wave propagation in an atmospheric-pressure plasma jet with the solution of a diffusion equation

    Science.gov (United States)

    Cho, Guangsup; Uhm, Han Sup

    2016-10-01

    The time-dependent solution of diffusion equation by the Fourier integration provides the axial diffusion velocity of a plasma packet, which is a key element of the plasma propagation in a plasma jet operated by the several tens of kHz. The plasma diffusion velocity is higher than the order of un ˜ 10 m/s at a high electric-field region of plasma generation and it is about the order of un ˜ 10 m/s at the plasma column of a low field region in a jet-nozzle inside. Meanwhile, the diffusion velocity is slower than the order of un ˜ 10 m/s in the open-air space where the plasma density flattens due to its radial expansion. Using these diffusion velocity data, the group-velocity of plasma diffusion wave-packet is given by ug ˜ cs2/un, a combination of the diffusion velocity un and the acoustic velocity cs. The experimental results of the plasma propagation can be verified with the plasma propagation in a form of the wave-packet whose propagation velocity is 104 m/s in a tube inside and is as fast as 105 m/s in the open-air space, thereby reconfirming that the theory of a plasma diffusion-wave is the origin of the plasma propagation in a plasma jet.

  9. Singular 1-soliton solution of the nonlinear variable-coefficient diffusion reaction and mKdV equations

    Science.gov (United States)

    Guner, Ozkan; Bekir, Ahmet; Unsal, Omer; Cevikel, Adem C.

    2017-01-01

    In this paper, we pay attention to the analytical method named, ansatz method for finding the exact solutions of the variable-coefficient modified KdV equation and variable coefficient diffusion-reaction equation. As a result the singular 1-soliton solution is obtained. These solutions are important for the explanation of some practical physical problems. The obtained results show that these methods provides a powerful mathematical tool for solving nonlinear equations with variable coefficients. This method can be extended to solve other variable coefficient nonlinear partial differential equations.

  10. KPP reaction-diffusion equations with a non-linear loss inside a cylinder

    CERN Document Server

    Giletti, Thomas

    2010-01-01

    We consider in this paper a reaction-diffusion system in presence of a flow and under a KPP hypothesis. While the case of a single-equation has been extensively studied since the pioneering Kolmogorov-Petrovski-Piskunov paper, the study of the corresponding system with a Lewis number not equal to 1 is still quite open. Here, we will prove some results about the existence of travelling fronts and generalized travelling fronts solutions of such a system with the presence of a non-linear spacedependent loss term inside the domain. In particular, we will point out the existence of a minimal speed, above which any real value is an admissible speed. We will also give some spreading results for initial conditions decaying exponentially at infinity.

  11. TRAVELING WAVE SPEED AND SOLUTION IN REACTION-DIFFUSION EQUATION IN ONE DIMENSION

    Institute of Scientific and Technical Information of China (English)

    周天寿; 张锁春

    2001-01-01

    By Painlevé analysis, traveling wave speed and solution of reaction-diffusion equations for the concentration of one species in one spatial dimension are in detail investigated. When the exponent of the creation term is larger than the one of the annihilation term, two typical cases are studied, one with the exact traveling wave solutions, yielding the values of speeds, the other with the series expansion solution, also yielding the value of speed. Conversely, when the exponent of creation term is smaller than the one of the annihilation term, two typical cases are also studied, but only for one of them, there is a series development solution, yielding the value of speed, and for the other, traveling wave solution cannot exist. Besides, the formula of calculating speeds and solutions of planar wave within the thin boundary layer are given for a class of typical excitable media.

  12. Existence and convergence to a propagating terrace in one-dimensional reaction-diffusion equations

    CERN Document Server

    Ducrot, Arnaud; Matano, Hiroshi

    2012-01-01

    We consider one-dimensional reaction-diffusion equations for a large class of spatially periodic nonlinearities (including multistable ones) and study the asymptotic behavior of solutions with Heaviside type initial data. Our analysis reveals some new dynamics where the profile of the propagation is not characterized by a single front, but by a layer of several fronts which we call a terrace. Existence and convergence to such a terrace is proven by using an intersection number argument, without much relying on standard linear analysis. Hence, on top of the peculiar phenomenon of propagation that our work highlights, several corollaries will follow on the existence and convergence to pulsating traveling fronts even for highly degenerate nonlinearities that have not been treated before.

  13. Non-rigid registration of breast surfaces using the laplace and diffusion equations

    Directory of Open Access Journals (Sweden)

    Ou Jao J

    2010-02-01

    Full Text Available Abstract A semi-automated, non-rigid breast surface registration method is presented that involves solving the Laplace or diffusion equations over undeformed and deformed breast surfaces. The resulting potential energy fields and isocontours are used to establish surface correspondence. This novel surface-based method, which does not require intensity images, anatomical landmarks, or fiducials, is compared to a gold standard of thin-plate spline (TPS interpolation. Realistic finite element simulations of breast compression and further testing against a tissue-mimicking phantom demonstrate that this method is capable of registering surfaces experiencing 6 - 36 mm compression to within a mean error of 0.5 - 5.7 mm.

  14. Reverse Smoothing Effects, Fine Asymptotics, and Harnack Inequalities for Fast Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Bonforte Matteo

    2007-01-01

    Full Text Available We investigate local and global properties of positive solutions to the fast diffusion equation in the good exponent range , corresponding to general nonnegative initial data. For the Cauchy problem posed in the whole Euclidean space , we prove sharp local positivity estimates (weak Harnack inequalities and elliptic Harnack inequalities; also a slight improvement of the intrinsic Harnack inequality is given. We use them to derive sharp global positivity estimates and a global Harnack principle. Consequences of these latter estimates in terms of fine asymptotics are shown. For the mixed initial and boundary value problem posed in a bounded domain of with homogeneous Dirichlet condition, we prove weak, intrinsic, and elliptic Harnack inequalities for intermediate times. We also prove elliptic Harnack inequalities near the extinction time, as a consequence of the study of the fine asymptotic behavior near the finite extinction time.

  15. An inverse time-dependent source problem for a time-fractional diffusion equation

    Science.gov (United States)

    Wei, T.; Li, X. L.; Li, Y. S.

    2016-08-01

    This paper is devoted to identifying a time-dependent source term in a multi-dimensional time-fractional diffusion equation from boundary Cauchy data. The existence and uniqueness of a strong solution for the corresponding direct problem with homogeneous Neumann boundary condition are firstly proved. We provide the uniqueness and a stability estimate for the inverse time-dependent source problem. Then we use the Tikhonov regularization method to solve the inverse source problem and propose a conjugate gradient algorithm to find a good approximation to the minimizer of the Tikhonov regularization functional. Numerical examples in one-dimensional and two-dimensional cases are provided to show the effectiveness of the proposed method. This paper was supported by the NSF of China (11371181) and the Fundamental Research Funds for the Central Universities (lzujbky-2013-k02).

  16. Preconditioned time-difference methods for advection-diffusion-reaction equations

    Energy Technology Data Exchange (ETDEWEB)

    Aro, C.; Rodrigue, G. [Lawrence Livermore National Lab., CA (United States); Wolitzer, D. [California State Univ., Hayward, CA (United States)

    1994-12-31

    Explicit time differencing methods for solving differential equations are advantageous in that they are easy to implement on a computer and are intrinsically very parallel. The disadvantage of explicit methods is the severe restrictions placed on stepsize due to stability. Stability bounds for explicit time differencing methods on advection-diffusion-reaction problems are generally quite severe and implicit methods are used instead. The linear systems arising from these implicit methods are large and sparse so that iterative methods must be used to solve them. In this paper the authors develop a methodology for increasing the stability bounds of standard explicit finite differencing methods by combining explicit methods, implicit methods, and iterative methods in a novel way to generate new time-difference schemes, called preconditioned time-difference methods.

  17. Numerical methods for one-dimensional reaction-diffusion equations arising in combustion theory

    Science.gov (United States)

    Ramos, J. I.

    1987-01-01

    A review of numerical methods for one-dimensional reaction-diffusion equations arising in combustion theory is presented. The methods reviewed include explicit, implicit, quasi-linearization, time linearization, operator-splitting, random walk and finite-element techniques and methods of lines. Adaptive and nonadaptive procedures are also reviewed. These techniques are applied first to solve two model problems which have exact traveling wave solutions with which the numerical results can be compared. This comparison is performed in terms of both the wave profile and computed wave speed. It is shown that the computed wave speed is not a good indicator of the accuracy of a particular method. A fourth-order time-linearized, Hermitian compact operator technique is found to be the most accurate method for a variety of time and space sizes.

  18. The dynamics of nonlinear reaction-diffusion equations with small Lévy noise

    CERN Document Server

    Debussche, Arnaud; Imkeller, Peter

    2013-01-01

    This work considers a small random perturbation of alpha-stable jump type nonlinear reaction-diffusion equations with Dirichlet boundary conditions over an interval. It has two stable points whose domains of attraction meet in a separating manifold with several saddle points. Extending a method developed by Imkeller and Pavlyukevich it proves that in contrast to a Gaussian perturbation, the expected exit and transition times between the domains of attraction depend polynomially on the noise intensity in the small intensity limit. Moreover the solution exhibits metastable behavior: there is a polynomial time scale along which the solution dynamics correspond asymptotically to the dynamic behavior of a finite-state Markov chain switching between the stable states.

  19. Compact difference scheme for the fractional sub-diffusion equation with Neumann boundary conditions

    Science.gov (United States)

    Ren, Jincheng; Sun, Zhi-zhong; Zhao, Xuan

    2013-01-01

    An effective finite difference scheme is considered for solving the time fractional sub-diffusion equation with Neumann boundary conditions. A difference scheme combining the compact difference approach the spatial discretization and L1 approximation for the Caputo fractional derivative is proposed and analyzed. Although the spatial approximation order at the Neumann boundary is one order lower than that for interior mesh points, the unconditional stability and the global convergence order O(τ+h4) in discrete L2 norm of the compact difference scheme are proved rigorously, where τ is the temporal grid size and h is the spatial grid size. Numerical experiments are included to support the theoretical results, and comparison with the related works are presented to show the effectiveness of our method.

  20. A Radiation Chemistry Code Based on the Greens Functions of the Diffusion Equation

    Science.gov (United States)

    Plante, Ianik; Wu, Honglu

    2014-01-01

    Ionizing radiation produces several radiolytic species such as.OH, e-aq, and H. when interacting with biological matter. Following their creation, radiolytic species diffuse and chemically react with biological molecules such as DNA. Despite years of research, many questions on the DNA damage by ionizing radiation remains, notably on the indirect effect, i.e. the damage resulting from the reactions of the radiolytic species with DNA. To simulate DNA damage by ionizing radiation, we are developing a step-by-step radiation chemistry code that is based on the Green's functions of the diffusion equation (GFDE), which is able to follow the trajectories of all particles and their reactions with time. In the recent years, simulations based on the GFDE have been used extensively in biochemistry, notably to simulate biochemical networks in time and space and are often used as the "gold standard" to validate diffusion-reaction theories. The exact GFDE for partially diffusion-controlled reactions is difficult to use because of its complex form. Therefore, the radial Green's function, which is much simpler, is often used. Hence, much effort has been devoted to the sampling of the radial Green's functions, for which we have developed a sampling algorithm This algorithm only yields the inter-particle distance vector length after a time step; the sampling of the deviation angle of the inter-particle vector is not taken into consideration. In this work, we show that the radial distribution is predicted by the exact radial Green's function. We also use a technique developed by Clifford et al. to generate the inter-particle vector deviation angles, knowing the inter-particle vector length before and after a time step. The results are compared with those predicted by the exact GFDE and by the analytical angular functions for free diffusion. This first step in the creation of the radiation chemistry code should help the understanding of the contribution of the indirect effect in the

  1. An asymptotic preserving method for strongly anisotropic diffusion equations based on field line integration

    Science.gov (United States)

    Tang, Min; Wang, Yihong

    2017-02-01

    In magnetized plasma, the magnetic field confines the particles around the field lines. The anisotropy intensity in the viscosity and heat conduction may reach the order of 1012. When the boundary conditions are periodic or Neumann, the strong diffusion leads to an ill-posed limiting problem. To remove the ill-conditionedness in the highly anisotropic diffusion equations, we introduce a simple but very efficient asymptotic preserving reformulation in this paper. The key idea is that, instead of discretizing the Neumann boundary conditions locally, we replace one of the Neumann boundary condition by the integration of the original problem along the field line, the singular 1 / ɛ terms can be replaced by O (1) terms after the integration, which yields a well-posed problem. Small modifications to the original code are required and no change of coordinates nor mesh adaptation are needed. Uniform convergence with respect to the anisotropy strength 1 / ɛ can be observed numerically and the condition number does not scale with the anisotropy.

  2. Lattice Boltzmann method for convection-diffusion equations with general interfacial conditions

    Science.gov (United States)

    Hu, Zexi; Huang, Juntao; Yong, Wen-An

    2016-04-01

    In this work, we propose an interfacial scheme accompanying the lattice Boltzmann method for convection-diffusion equations with general interfacial conditions, including conjugate conditions with or without jumps in heat and mass transfer, continuity of macroscopic variables and normal fluxes in ion diffusion in porous media with different porosity, and the Kapitza resistance in heat transfer. The construction of this scheme is based on our boundary schemes [Huang and Yong, J. Comput. Phys. 300, 70 (2015), 10.1016/j.jcp.2015.07.045] for Robin boundary conditions on straight or curved boundaries. It gives second-order accuracy for straight interfaces and first-order accuracy for curved ones. In addition, the new scheme inherits the advantage of the boundary schemes in which only the current lattice nodes are involved. Such an interfacial scheme is highly desirable for problems with complex geometries or in porous media. The interfacial scheme is numerically validated with several examples. The results show the utility of the constructed scheme and very well support our theoretical predications.

  3. Mesh locking effects in the finite volume solution of 2-D anisotropic diffusion equations

    Science.gov (United States)

    Manzini, Gianmarco; Putti, Mario

    2007-01-01

    Strongly anisotropic diffusion equations require special techniques to overcome or reduce the mesh locking phenomenon. We present a finite volume scheme that tries to approximate with the best possible accuracy the quantities that are of importance in discretizing anisotropic fluxes. In particular, we discuss the crucial role of accurate evaluations of the tangential components of the gradient acting tangentially to the control volume boundaries, that are called into play by anisotropic diffusion tensors. To obtain the sought characteristics from the proposed finite volume method, we employ a second-order accurate reconstruction scheme which is used to evaluate both normal and tangential cell-interface gradients. The experimental results on a number of different meshes show that the scheme maintains optimal convergence rates in both L2 and H1 norms except for the benchmark test considering full Neumann boundary conditions on non-uniform grids. In such a case, a severe locking effect is experienced and documented. However, within the range of practical values of the anisotropy ratio, the scheme is robust and efficient. We postulate and verify experimentally the existence of a quadratic relationship between the anisotropy ratio and the mesh size parameter that guarantees optimal and sub-optimal convergence rates.

  4. Space-Time Fractional Reaction-Diffusion Equations Associated with a Generalized Riemann–Liouville Fractional Derivative

    Directory of Open Access Journals (Sweden)

    Ram K. Saxena

    2014-08-01

    Full Text Available This paper deals with the investigation of the computational solutions of a unified fractional reaction-diffusion equation, which is obtained from the standard diffusion equation by replacing the time derivative of first order by the generalized Riemann–Liouville fractional derivative defined by others and the space derivative of second order by the Riesz–Feller fractional derivative and adding a function ɸ(x, t. The solution is derived by the application of the Laplace and Fourier transforms in a compact and closed form in terms of Mittag–Leffler functions. The main result obtained in this paper provides an elegant extension of the fundamental solution for the space-time fractional diffusion equation obtained by others and the result very recently given by others. At the end, extensions of the derived results, associated with a finite number of Riesz–Feller space fractional derivatives, are also investigated.

  5. Predicting the influence of long-range molecular interactions on macroscopic-scale diffusion by homogenization of the Smoluchowski equation

    Energy Technology Data Exchange (ETDEWEB)

    Kekenes-Huskey, P. M., E-mail: pkekeneshuskey@ucsd.edu [Department of Pharmacology, University of California San Diego, La Jolla, California 92093-0636 (United States); Gillette, A. K. [Department of Mathematics, University of Arizona, Tucson, Arizona 85721-0089 (United States); McCammon, J. A. [Department of Pharmacology, University of California San Diego, La Jolla, California 92093-0636 (United States); Department of Chemistry, Howard Hughes Medical Institute, University of California San Diego, La Jolla, California 92093-0636 (United States)

    2014-05-07

    The macroscopic diffusion constant for a charged diffuser is in part dependent on (1) the volume excluded by solute “obstacles” and (2) long-range interactions between those obstacles and the diffuser. Increasing excluded volume reduces transport of the diffuser, while long-range interactions can either increase or decrease diffusivity, depending on the nature of the potential. We previously demonstrated [P. M. Kekenes-Huskey et al., Biophys. J. 105, 2130 (2013)] using homogenization theory that the configuration of molecular-scale obstacles can both hinder diffusion and induce diffusional anisotropy for small ions. As the density of molecular obstacles increases, van der Waals (vdW) and electrostatic interactions between obstacle and a diffuser become significant and can strongly influence the latter's diffusivity, which was neglected in our original model. Here, we extend this methodology to include a fixed (time-independent) potential of mean force, through homogenization of the Smoluchowski equation. We consider the diffusion of ions in crowded, hydrophilic environments at physiological ionic strengths and find that electrostatic and vdW interactions can enhance or depress effective diffusion rates for attractive or repulsive forces, respectively. Additionally, we show that the observed diffusion rate may be reduced independent of non-specific electrostatic and vdW interactions by treating obstacles that exhibit specific binding interactions as “buffers” that absorb free diffusers. Finally, we demonstrate that effective diffusion rates are sensitive to distribution of surface charge on a globular protein, Troponin C, suggesting that the use of molecular structures with atomistic-scale resolution can account for electrostatic influences on substrate transport. This approach offers new insight into the influence of molecular-scale, long-range interactions on transport of charged species, particularly for diffusion-influenced signaling events

  6. Numerical Calculation and Exergy Equations of Spray Heat Exchanger Attached to a Main Fan Diffuser

    Science.gov (United States)

    Cui, H.; Wang, H.; Chen, S.

    2015-04-01

    In the present study, the energy depreciation rule of spray heat exchanger, which is attached to a main fan diffuser, is analyzed based on the second law of thermodynamics. Firstly, the exergy equations of the exchanger are deduced. The equations are numerically calculated by the fourth-order Runge-Kutta method, and the exergy destruction is quantitatively effected by the exchanger structure parameters, working fluid (polluted air, i.e., PA; sprayed water, i.e., SW) initial state parameters and the ambient reference parameters. The results are showed: (1) heat transfer is given priority to latent transfer at the bottom of the exchanger, and heat transfer of convection and is equivalent to that of condensation in the upper. (2) With the decrease of initial temperature of SW droplet, the decrease of PA velocity or the ambient reference temperature, and with the increase of a SW droplet size or initial PA temperature, exergy destruction both increase. (3) The exergy efficiency of the exchanger is 72.1 %. An approach to analyze the energy potential of the exchanger may be provided for engineering designs.

  7. A CNN-based approach to integrate the 3-D turbolent diffusion equation

    Science.gov (United States)

    Nunnari, G.

    2003-04-01

    The paper deals with the integration of the 3-D turbulent diffusion equation. This problem is relevant in several application fields including fluid dynamics, air/water pollution, volcanic ash emissions and industrial hazard assessment. As it is well known numerical solution of such a kind of equation is very time consuming even by using modern digital computers and this represents a short-coming for on-line applications. To overcome this drawback a Cellular Neural Network Approach is proposed in this paper. CNN's proposed by Chua and Yang in 1988 are massive parallel analog non-linear circuits with local interconnections between the computing elements that allow very fast distributed computations. Nowadays several producers of semiconductors such as SGS-Thomson are producing on chip CNN's so that their massive use for heavy computing applications is expected in the near future. In the paper the methodological background of the proposed approach will be outlined. Further some results both in terms of accuracy and computation time will be presented also in comparison with traditional three-dimensional computation schemes. Some results obtained to model 3-D pollution problems in the industrial area of Siracusa (Italy), characterised by a large concentration of petrol-chemical plants, will be presented.

  8. Fourier spectral methods for fractional-in-space reaction-diffusion equations

    KAUST Repository

    Bueno-Orovio, Alfonso

    2014-04-01

    © 2014, Springer Science+Business Media Dordrecht. Fractional differential equations are becoming increasingly used as a powerful modelling approach for understanding the many aspects of nonlocality and spatial heterogeneity. However, the numerical approximation of these models is demanding and imposes a number of computational constraints. In this paper, we introduce Fourier spectral methods as an attractive and easy-to-code alternative for the integration of fractional-in-space reaction-diffusion equations described by the fractional Laplacian in bounded rectangular domains of ℝ. The main advantages of the proposed schemes is that they yield a fully diagonal representation of the fractional operator, with increased accuracy and efficiency when compared to low-order counterparts, and a completely straightforward extension to two and three spatial dimensions. Our approach is illustrated by solving several problems of practical interest, including the fractional Allen–Cahn, FitzHugh–Nagumo and Gray–Scott models, together with an analysis of the properties of these systems in terms of the fractional power of the underlying Laplacian operator.

  9. Two-grid method for characteristisc mixed finite-element solutions of nonlinear convection-diffusion equations

    Institute of Scientific and Technical Information of China (English)

    QIN Xinqiang; MA Yichen; GONG Chunqiong

    2004-01-01

    A two-grid method for solving nonlinear convection-dominated diffusion equations is presented. The method use discretizations based on a characteristic mixed finite-element method and give the linearization for nonlinear systems by two steps. The error analysis shows that the two-grid scheme combined with the characteristic mixed finite-element method can decrease numerical oscillation caused by dominated convections and solve nonlinear advection-dominated diffusion problems efficiently.

  10. Two Dimensional Tensor Product B-Spline Wavelet Scaling Functions for the Solution of Two-Dimensional Unsteady Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    XIONG Lei; LI haijiao; ZHANG Lewen

    2008-01-01

    The fourth-order B spline wavelet scaling functions are used to solve the two-dimensional unsteady diffusion equation. The calculations from a case history indicate that the method provides high accuracy and the computational efficiency is enhanced due to the small matrix derived from this method.The respective features of 3-spline wavelet scaling functions, 4-spline wavelet scaling functions and quasi-wavelet used to solve the two-dimensional unsteady diffusion equation are compared. The proposed method has potential applications in many fields including marine science.

  11. The Exact Solution of Milburn Equation Without Diffusion Approximation for the Two-Model Raman Coupled Model

    Institute of Scientific and Technical Information of China (English)

    XU JingBo; ZOU XuBo; GAO XiaoChun; FU Jian

    2002-01-01

    By making use of the dynamical algebraic approach, we study the two-mode Raman coupled model governed by the Milburn equation and find the exact solution of the Milburn equation without diffusion approximation. The exact solution is then used to discuss the influence of intrinsic decoherence on the revivals of atomic inversion, oscillation of the photon number distribution and squeezing of radiation field in the whole ranges of the decoherence parameter γ.

  12. An Operator Splitting Method with FDM and FEM for the Convection—Diffusion Equation Using Boundary—fitted Coordinate System

    Institute of Scientific and Technical Information of China (English)

    Jie-MinZHAN; Yao-SongCHEN

    1996-01-01

    An operator splitting method combining finite difference method and finite element method is proposed in this paper by using boundary-fitted coordinate system.The governing equation is split into advection and diffusion equations and solved by finit difference method using boundary-fitted coordinate system and finite element method respectively.An example for which analytic solution is available is used to verified the proposed methods and the agreement is very good.Numerical results show that it is very efficient.

  13. Infinite horizon jump-diffusion forward-backward stochastic differential equations and their application to backward linear-quadratic problems

    OpenAIRE

    Yu, Zhiyong

    2016-01-01

    In this paper, we investigate infinite horizon jump-diffusion forward-backward stochastic differential equations under some monotonicity conditions. We establish an existence and uniqueness theorem, two stability results and a comparison theorem for solutions to such kind of equations. Then the theoretical results are applied to study a kind of infinite horizon backward stochastic linear-quadratic optimal control problems, and then differential game problems. The unique optimal controls for t...

  14. Feeding ducks, bacterial chemotaxis, and the Gini index

    CERN Document Server

    Peaudecerf, Francois J

    2015-01-01

    Classic experiments on the distribution of ducks around separated food sources found consistency with the `ideal free' distribution in which the local population is proportional to the local supply rate. Motivated by this experiment and others, we examine the analogous problem in the microbial world: the distribution of chemotactic bacteria around multiple nearby food sources. In contrast to the optimization of uptake rate that may hold at the level of a single cell in a spatially varying nutrient field, nutrient consumption by a population of chemotactic cells will modify the nutrient field, and the uptake rate will generally vary throughout the population. Through a simple model we study the distribution of resource uptake in the presence of chemotaxis, consumption, and diffusion of both bacteria and nutrients. Borrowing from the field of theoretical economics, we explore how the Gini index can be used as a means to quantify the inequalities of uptake. The redistributive effect of chemotaxis can lead to a p...

  15. Numerical solution of fractional sub-diffusion and time-fractional diffusion-wave equations via fractional-order Legendre functions

    Science.gov (United States)

    Hooshmandasl, M. R.; Heydari, M. H.; Cattani, C.

    2016-08-01

    Fractional calculus has been used to model physical and engineering processes that are best described by fractional differential equations. Therefore designing efficient and reliable techniques for the solution of such equations is an important task. In this paper, we propose an efficient and accurate Galerkin method based on the fractional-order Legendre functions (FLFs) for solving the fractional sub-diffusion equation (FSDE) and the time-fractional diffusion-wave equation (FDWE). The time-fractional derivatives for FSDE are described in the Riemann-Liouville sense, while for FDWE are described in the Caputo sense. To this end, we first derive a new operational matrix of fractional integration (OMFI) in the Riemann-Liouville sense for FLFs. Next, we transform the original FSDE into an equivalent problem with fractional derivatives in the Caputo sense. Then the FLFs and their OMFI together with the Galerkin method are used to transform the problems under consideration into the corresponding linear systems of algebraic equations, which can be simply solved to achieve the numerical solutions of the problems. The proposed method is very convenient for solving such kind of problems, since the initial and boundary conditions are taken into account automatically. Furthermore, the efficiency of the proposed method is shown for some concrete examples. The results reveal that the proposed method is very accurate and efficient.

  16. Signaling mechanisms for regulation of chemotaxis

    Institute of Scientific and Technical Information of China (English)

    Dianqing WU

    2005-01-01

    Chemotaxis is a fascinating biological process, through which a cell migrates along a shallow chemoattractant gradient that is less than 5% difference between the anterior and posterior of the cell. Chemotaxis is composed of two independent,but interrelated processes-motility and directionality, both of which are regulated by extracellular stimuli, chemoattractants.In this mini-review, recent progresses in the understanding of the regulation of leukocyte chemotaxis by chemoattractant signaling are reviewed.

  17. A new Differential Equation for Anomalous Diffusion with Potential Applications to Nonlinear Space Plasmas

    Science.gov (United States)

    Watkins, N. W.; Credgington, D.; Sanchez, R.; Chapman, S. C.

    2007-12-01

    Since the 1960s Mandelbrot has advocated the use of fractals for the description of the non-Euclidean geometry of many aspects of nature. In particular he proposed two kinds of model to capture persistence in time (his Joseph effect, common in hydrology and with fractional Brownian motion as the prototpe) and/or prone to heavy tailed jumps (the Noah effect, typical of economic indices, for which he proposed Lévy flights as an exemplar). Both effects are now well demonstrated in space plasmas, notably in indices quantifying Earth's auroral currents and in the turbulent solar wind. Models have, however, typically emphasised one of the Noah and Joseph parameters (the Lévy exponent μ and the temporal exponent β) at the other's expense. I will describe recent work [1] in which we studied a simple self-affine stable model-linear fractional stable motion, LFSM, which unifies both effects. I will discuss how this resolves some contradictions seen in earlier work. Such Noah-Joseph hybrid ("ambivalent" [2]) behaviour is highly topical in physics but is typically studied in the paradigm of the continuous time random walk (CTRW) [2,3] rather than LFSM. I will clarify the physical differences between these two pictures and present a recently-derived diffusion equation for LFSM. This replaces the second order spatial derivative in the equation of fBm [4] with a fractional derivative of order μ, but retains a diffusion coefficient with a power law time dependence rather than a fractional derivative in time (c.f. [2,3]). Intriguingly the self-similarity exponent extracted from the CTRW differs from that seen in LFSM. In the CTRW it is the ratio of μ to a temporal exponent, in LFSM it is an additive function of them. I will also show work in progress using an LFSM model and simple analytic scaling arguments to study the problem of the area between an LFSM curve and a threshold-related to the burst size measure introduced by Takalo and Consolini into solar- terrestrial physics

  18. From the Highly Compressible Navier-Stokes Equations to Fast Diffusion and Porous Media Equations, Existence of Global Weak Solution for the Quasi-Solutions

    Science.gov (United States)

    Haspot, Boris

    2016-06-01

    We consider the compressible Navier-Stokes equations for viscous and barotropic fluids with density dependent viscosity. The aim is to investigate mathematical properties of solutions of the Navier-Stokes equations using solutions of the pressureless Navier-Stokes equations, that we call quasi solutions. This regime corresponds to the limit of highly compressible flows. In this paper we are interested in proving the announced result in Haspot (Proceedings of the 14th international conference on hyperbolic problems held in Padova, pp 667-674, 2014) concerning the existence of global weak solution for the quasi-solutions, we also observe that for some choice of initial data (irrotationnal) the quasi solutions verify the porous media, the heat equation or the fast diffusion equations in function of the structure of the viscosity coefficients. In particular it implies that it exists classical quasi-solutions in the sense that they are {C^{∞}} on {(0,T)× {R}N} for any {T > 0}. Finally we show the convergence of the global weak solution of compressible Navier-Stokes equations to the quasi solutions in the case of a vanishing pressure limit process. In particular for highly compressible equations the speed of propagation of the density is quasi finite when the viscosity corresponds to {μ(ρ)=ρ^{α}} with {α > 1}. Furthermore the density is not far from converging asymptotically in time to the Barrenblatt solution of mass the initial density {ρ0}.

  19. A remark on the Beale-Kato-Majda criterion for the 3D MHD equations with zero magnetic diffusivity

    Science.gov (United States)

    Gala, Sadek; Ragusa, Maria Alessandra

    2016-06-01

    In this work, we show that a smooth solution of the 3D MHD equations with zero magnetic diffusivity in the whole space ℝ3 breaks down if and only if a certain norm of the magnetic field blows up at the same time.

  20. Traveling wave solutions of a biological reaction-convection-diffusion equation model by using $(G'/G$ expansion method

    Directory of Open Access Journals (Sweden)

    Shahnam Javadi

    2013-07-01

    Full Text Available In this paper, the $(G'/G$-expansion method is applied to solve a biological reaction-convection-diffusion model arising in mathematical biology. Exact traveling wave solutions are obtained by this method. This scheme can be applied to a wide class of nonlinear partial differential equations.

  1. GLOBAL EXISTENCE AND EXPONENTIAL STABILITY OF SOLUTIONS TO THE QUASILINEAR THERMO-DIFFUSION EQUATIONS WITH SECOND SOUND

    Institute of Scientific and Technical Information of China (English)

    秦玉明; 李海燕

    2014-01-01

    This article is devoted to the study of global existence and exponential stability of solutions to an initial-boundary value problem of the quasilinear thermo-diffusion equations with second sound by means of multiplicative techniques and energy method provided that the initial data are close to the equilibrium and the relaxation kernel is strongly positive definite and decays exponentially.

  2. 反应扩散方程的奇摄动%SINGULAR PERTURBATION FOR REACTION DIFFUSION EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    莫嘉琪; 王辉; 朱江

    2003-01-01

    The singularly perturbed initial boundary value problems for reaction diffusion equations are considered. Under suitable conditions and by using the theory of differential inequality, the asymptotic behavior of solution for initial boundary value problems are studied, where the reduced problems possess two intersecting solutions.

  3. The intrinsic periodic fluctuation of forest: a theoretical model based on diffusion equation

    Science.gov (United States)

    Zhou, J.; Lin, G., Sr.

    2015-12-01

    Most forest dynamic models predict the stable state of size structure as well as the total basal area and biomass in mature forest, the variation of forest stands are mainly driven by environmental factors after the equilibrium has been reached. However, although the predicted power-law size-frequency distribution does exist in analysis of many forest inventory data sets, the estimated distribution exponents are always shifting between -2 and -4, and has a positive correlation with the mean value of DBH. This regular pattern can not be explained by the effects of stochastic disturbances on forest stands. Here, we adopted the partial differential equation (PDE) approach to deduce the systematic behavior of an ideal forest, by solving the diffusion equation under the restricted condition of invariable resource occupation, a periodic solution was gotten to meet the variable performance of forest size structure while the former models with stable performance were just a special case of the periodic solution when the fluctuation frequency equals zero. In our results, the number of individuals in each size class was the function of individual growth rate(G), mortality(M), size(D) and time(T), by borrowing the conclusion of allometric theory on these parameters, the results perfectly reflected the observed "exponent-mean DBH" relationship and also gave a logically complete description to the time varying form of forest size-frequency distribution. Our model implies that the total biomass of a forest can never reach a stable equilibrium state even in the absence of disturbances and climate regime shift, we propose the idea of intrinsic fluctuation property of forest and hope to provide a new perspective on forest dynamics and carbon cycle research.

  4. Semi-analytical solution of the steady three-dimensional advection-diffusion equation in the planetary boundary layer

    Science.gov (United States)

    Costa, C. P.; Vilhena, M. T.; Moreira, D. M.; Tirabassi, T.

    We present a three-dimensional solution of the steady-state advection-diffusion equation considering a vertically inhomogeneous planetary boundary layer (PBL). We reach this goal applying the generalized integral transform technique (GITT), a hybrid method that had solved a wide class of direct and inverse problems mainly in the area of heat transfer and fluid mechanics. The transformed problem is solved by the advection-diffusion multilayer model (ADMM) method, a semi-analytical solution based on a discretization of the PBL in sub-layers where the advection-diffusion equation is solved by the Laplace transform technique. Numerical simulations are presented and the performances of the solution are compared against field experiments data.

  5. Uniqueness and reconstruction of an unknown semilinear term in a time-fractional reaction–diffusion equation

    KAUST Repository

    Luchko, Yuri

    2013-05-30

    In this paper, we consider a reaction-diffusion problem with an unknown nonlinear source function that has to be determined from overposed data. The underlying model is in the form of a time-fractional reaction-diffusion equation and the work generalizes some known results for the inverse problems posed for PDEs of parabolic type. For the inverse problem under consideration, a uniqueness result is proved and a numerical algorithm with some theoretical qualification is presented in the one-dimensional case. The key both to the uniqueness result and to the numerical algorithm relies on the maximum principle which has recently been shown to hold for the fractional diffusion equation. In order to show the effectiveness of the proposed method, results of numerical simulations are presented. © 2013 IOP Publishing Ltd.

  6. Dual coupled radiative transfer equation and diffusion approximation for the solution of the forward problem in fluorescence molecular imaging

    Science.gov (United States)

    Gorpas, Dimitris; Andersson-Engels, Stefan

    2012-03-01

    The solution of the forward problem in fluorescence molecular imaging is among the most important premises for the successful confrontation of the inverse reconstruction problem. To date, the most typical approach has been the application of the diffusion approximation as the forward model. This model is basically a first order angular approximation for the radiative transfer equation, and thus it presents certain limitations. The scope of this manuscript is to present the dual coupled radiative transfer equation and diffusion approximation model for the solution of the forward problem in fluorescence molecular imaging. The integro-differential equations of its weak formalism were solved via the finite elements method. Algorithmic blocks with cubature rules and analytical solutions of the multiple integrals have been constructed for the solution. Furthermore, specialized mapping matrices have been developed to assembly the finite elements matrix. As a radiative transfer equation based model, the integration over the angular discretization was implemented analytically, while quadrature rules were applied whenever required. Finally, this model was evaluated on numerous virtual phantoms and its relative accuracy, with respect to the radiative transfer equation, was over 95%, when the widely applied diffusion approximation presented almost 85% corresponding relative accuracy for the fluorescence emission.

  7. Rigorous Derivation of a Nonlinear Diffusion Equation as Fast-Reaction Limit of a Continuous Coagulation-Fragmentation Model with Diffusion

    KAUST Repository

    Carrillo, J. A.

    2009-10-30

    Weak solutions of the spatially inhomogeneous (diffusive) Aizenmann-Bak model of coagulation-breakup within a bounded domain with homogeneous Neumann boundary conditions are shown to converge, in the fast reaction limit, towards local equilibria determined by their mass. Moreover, this mass is the solution of a nonlinear diffusion equation whose nonlinearity depends on the (size-dependent) diffusion coefficient. Initial data are assumed to have integrable zero order moment and square integrable first order moment in size, and finite entropy. In contrast to our previous result [5], we are able to show the convergence without assuming uniform bounds from above and below on the number density of clusters. © Taylor & Francis Group, LLC.

  8. A generalized spin diffusion equation with four electrochemical potentials for channels with spin-orbit coupling

    Science.gov (United States)

    Sayed, Shehrin; Hong, Seokmin; Datta, Supriyo

    We will present a general semiclassical theory for an arbitrary channel with spin-orbit coupling (SOC), that uses four electrochemical potential (U + , D + , U - , and D -) depending on the sign of z-component of the spin (up (U) , down (D)) and the sign of the x-component of the group velocity (+ , -) . This can be considered as an extension of the standard spin diffusion equation that uses two electrochemical potentials for up and down spin states, allowing us to take into account the unique coupling between charge and spin degrees of freedom in channels with SOC. We will describe applications of this model to answer a number of interesting questions in this field such as: (1) whether topological insulators can switch magnets, (2) how the charge to spin conversion is influenced by the channel resistivity, and (3) how device structures can be designed to enhance spin injection. This work was supported by FAME, one of six centers of STARnet, a Semiconductor Research Corporation program sponsored by MARCO and DARPA.

  9. Modelling the effect of temperature on the range expansion of species by reaction-diffusion equations.

    Science.gov (United States)

    Richter, Otto; Moenickes, Sylvia; Suhling, Frank

    2012-02-01

    The spatial dynamics of range expansion is studied in dependence of temperature. The main elements population dynamics, competition and dispersal are combined in a coherent approach based on a system of coupled partial differential equations of the reaction-diffusion type. The nonlinear reaction terms comprise population dynamic models with temperature dependent reproduction rates subject to an Allee effect and mutual competition. The effect of temperature on travelling wave solutions is investigated for a one dimensional model version. One main result is the importance of the Allee effect for the crossing of regions with unsuitable habitats. The nonlinearities of the interaction terms give rise to a richness of spatio-temporal dynamic patterns. In two dimensions, the resulting non-linear initial boundary value problems are solved over geometries of heterogeneous landscapes. Geo referenced model parameters such as mean temperature and elevation are imported into the finite element tool COMSOL Multiphysics from a geographical information system. The model is applied to the range expansion of species at the scale of middle Europe.

  10. Reverse Smoothing Effects, Fine Asymptotics, and Harnack Inequalities for Fast Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Juan Luis Vazquez

    2006-11-01

    Full Text Available We investigate local and global properties of positive solutions to the fast diffusion equation ut=Δum in the good exponent range (d−2+/d

  11. Behaviour near extinction for the Fast Diffusion Equation on bounded domains

    CERN Document Server

    Bonforte, Matteo; Vazquez, Juan Luis

    2010-01-01

    We consider the Fast Diffusion Equation $u_t=\\Delta u^m$ posed in a bounded smooth domain $\\Omega\\subset \\RR^d$ with homogeneous Dirichlet conditions; the exponent range is $m_s=(d-2)_+/(d+2)

  12. Difusão anômala e equações fracionárias de difusão = Anomalous diffusion and fractional diffusion equations

    Directory of Open Access Journals (Sweden)

    Giane Gonçalves

    2005-07-01

    Full Text Available Neste trabalho investigaremos as equações de difusão, usualmente aplicadas na descrição da difusão anômala, que empregam derivadas fracionárias tanto na variável temporal quanto na variável espacial. Em particular, para essas equações obteremos soluções exatas levando em conta uma condição inicial genérica e formularemos uma teoria deperturbação para o estudo de situações mais complexas. Também verificaremos que as derivadas fracionárias, quando aplicadas na parte temporal, possibilitam-nos o estudo de um processo de difusão anômala com o segundo momento finito, i.e., x 2 µ t a ( 0 1 , correspondendo aos casos, sub e superdifusivo, respectivamente. Em contraste, com a derivada fracionária aplicada na variável espacial que resulta em uma difusão anômala cujo segundo momento não é finito. Complementando o cenário acima, empregaremos o formalismo de caminhantes aleatórios para explorar as implicações obtidas por usar derivadas fracionárias na equação de difusão.In this work we investigate the anomalous diffusion equations, usually applied to describe the anomalous diffusion, which employ fractional derivatives for the time or the spatial variables. Inparticular, we obtain exact solutions by taking a generic initial condition into account and developing a perturbation theory to investigate complex situations. We also verify that the fractional derivatives, when applied to the time variable, lead us to a anomalous diffusion with second moment finite, i.e., x 2 µ t a ( 0 1 , corresponding to sub and superdifusive behavior, respectively. By way of contrast, the fractional derivative applied to the spatial variable results in a anomalous diffusion where the second moment is not finite. These equations generalize the usual diffusion equation in order to incorporate several situations. We also employ the continuous time random walking formalism to investigate the implications obtained by using fractional

  13. Performance equations for cathodes in polymer electrolyte fuel cells with non-uniform water flooding in gas diffusers

    Science.gov (United States)

    Hsuen, Hsiao-Kuo

    The performance equations for cathodes of polymer electrolyte fuel cells (PEFCs) that describe the dependence of cathode potential on current density are developed. Formulation of the performance equations starts from the reduction of a one-dimensional model that considers, in detail, the potential losses pertinent to the limitations of electron conduction, oxygen diffusion, proton migration, and the oxygen reduction reaction. In particular, non-uniform accumulation of liquid water in the gas diffuser, which partially blocks the gas channels and imposes a greater resistance for oxygen transport, is taken into account. Reduction of the one-dimensional model is implemented by approximating the oxygen concentration profile in the catalyst layer with a parabolic polynomial or a piecewise parabolic one determined by the occurrence of oxygen depletion. The final forms of the equations are obtained by applying the method of weighted residuals over the catalyst layer. The weighting function is selected in such a way that the weighted residuals can be analytically integrated. Potential losses caused by the various limiting processes can be quantitatively estimated by the performance equations. Thus, they provide a convenient diagnostic tool for the cathode performance. Computational results reveal that the performance equations agree well with the original one-dimensional model over an extensive range of parameter values. This indicates that the present performance equations can be used as a substitute for the one-dimensional model to provide quantitatively correct predictions for the cathode performance of PEFCs.

  14. HIGH RESOLUTION SCHEMES FOR CONSERVATION LAWS AND CONVECTION-DIFFUSION EQUATIONS WITH VARYING TIME AND SPACE GRIDS

    Institute of Scientific and Technical Information of China (English)

    Hua-zhong Tang; Gerald Warnecke

    2006-01-01

    This paper presents a class of high resolution local time step schemes for nonlinear hyperbolic conservation laws and the closely related convection-diffusion equations, by projecting the solution increments of the underlying partial differential equations (PDE)at each local time step. The main advantages are that they are of good consistency, and it is convenient to implement them. The schemes are L∞ stable, satisfy a cell entropy inequality, and may be extended to the initial boundary value problem of general unsteady PDEs with higher-order spatial derivatives. The high resolution schemes are given by combining the reconstruction technique with a second order TVD Runge-Kutta scheme or a Lax-Wendroff type method, respectively.The schemes are used to solve a linear convection-diffusion equation, the nonlinear inviscid Burgers' equation, the one- and two-dimensional compressible Euler equations, and the two-dimensional incompressible Navier-Stokes equations. The numerical results show that the schemes are of higher-order accuracy, and efficient in saving computational cost,especially, for the case of combining the present schemes with the adaptive mesh method [15]. The correct locations of the slow moving or stronger discontinuities are also obtained,although the schemes are slightly nonconservative.

  15. Integral form of diffusion equation and its application to the calculation of concentration dependent diffusion coefficient for desorption (isothermal drying); Sekibungata kakusan hoteishiki to son dacchaku (toon kanso) katei ni okeru nodo izon kakusan keisu sanshutsu eno oyo

    Energy Technology Data Exchange (ETDEWEB)

    Sano, Y.; Yamamoto, S. [Yamaguchi University, Yamaguchi (Japan). Faculty of Engineering

    1997-01-10

    The integral form of the diffusion equation for a slab with a constant surface concentration based on the dissolved solid coordinate is derived, which presents the relation between desorption rate and integral average diffusion coefficient by the ratio of the 0 and 1st moments of concentration distribution. The relation between the 0 and 1st moments is quite insensitive to the concentration distribution governed by the diffusion equation with the concentration dependent diffusion coefficients and is satisfactorily estimated by the ratio of average to center concentration at the starting point of the regular regime. From these equations, one desorption curve is quantitatively transformed to the integral average diffusion coefficients as a function of center concentrations. The diffusion coefficient is calculated as a function of concentration by differentiating the integral average diffusion coefficients. As an example, the isothermal drying data of skim-milk aqueous solution are analyzed. 11 refs., 11 figs., 2 tabs.

  16. Operator splitting methods for degenerate convection-diffusion equations II: Numerical examples with emphasis on reservoir simulation and sedimentation

    Energy Technology Data Exchange (ETDEWEB)

    Holden, Helge; Karlsen, Kenneth Hvistendal; Lie, Knut Andreas

    1999-12-01

    We present an accurate numerical method for a large class of scalar, strongly degenerate convection-diffusion equations. Important subclasses are hyperbolic conservation laws, porous medium type equations, two-phase reservoir flow equations, and strongly degenerate equations coming from the recent theory of sedimentation-consolidation processes. The method is based on splitting the convective and the diffusive terms. The nonlinear, convective part is solved using front tracking and dimensional splitting, while the nonlinear diffusion part is solved by an implicit-explicit finite difference scheme. In addition, one version of the implemented operator splitting method has a mechanism built in for detecting and correcting unphysical entropy loss, which may occur when the time step is large. This mechanism helps us gain a large time step ability for practical computations. A detailed convergence analysis of the operator splitting method was given in Part I. Here we present numerical experiments with the method for examples modelling secondary oil recovery and sedimentation-consolidation processes. We demonstrate that the splitting method resolves sharp gradients accurately, may use large time steps, has first order convergence, exhibits small grid orientation effects, has small mass balance errors, and is rather efficient. (author)

  17. Hybrid Multiscale Finite Volume Method for Advection-Diffusion Equations Subject to Heterogeneous Reactive Boundary Conditions

    Energy Technology Data Exchange (ETDEWEB)

    Barajas-Solano, David A.; Tartakovsky, A. M.

    2016-10-13

    We present a hybrid scheme for the coupling of macro and microscale continuum models for reactive contaminant transport in fractured and porous media. The transport model considered is the advection-dispersion equation, subject to linear heterogeneous reactive boundary conditions. The Multiscale Finite Volume method (MsFV) is employed to define an approximation to the microscale concentration field defined in terms of macroscopic or \\emph{global} degrees of freedom, together with local interpolator and corrector functions capturing microscopic spatial variability. The macroscopic mass balance relations for the MsFV global degrees of freedom are coupled with the macroscopic model, resulting in a global problem for the simultaneous time-stepping of all macroscopic degrees of freedom throughout the domain. In order to perform the hybrid coupling, the micro and macroscale models are applied over overlapping subdomains of the simulation domain, with the overlap denoted as the handshake subdomain $\\Omega^{hs}$, over which continuity of concentration and transport fluxes between models is enforced. Continuity of concentration is enforced by posing a restriction relation between models over $\\Omega^{hs}$. Continuity of fluxes is enforced by prolongating the macroscopic model fluxes across the boundary of $\\Omega^{hs}$ to microscopic resolution. The microscopic interpolator and corrector functions are solutions to local microscopic advection-diffusion problems decoupled from the global degrees of freedom and from each other by virtue of the MsFV decoupling ansatz. The error introduced by the decoupling ansatz is reduced iteratively by the preconditioned GMRES algorithm, with the hybrid MsFV operator serving as the preconditioner.

  18. The Construction of Numerical Scheme for Hyperbolic Equation and Exact Consideration of Numerical Diffusion and Dispersion

    Institute of Scientific and Technical Information of China (English)

    QingdongCAI

    1999-01-01

    A new technique in the formulation of numerical scheme for hyperbolic equation is developed.It is different from the classical FD and FE methods.We begin with the algebraic equations with some undefined parameters,and get the difference equation through Taylor-series expansion.When the parameters in the partial difference equation are defined,the equation is what the scheme will simulated.The numerical example of the viscous BUrgers equation shows the validity of the scheme.This method deals with the numerical viscosity and dispersion exactly ,giving a preliminary explanation to some problems that the CFD face now.

  19. Simulation of unsteady flow over floodplain using the diffusive wave equation and the modified finite element method

    Science.gov (United States)

    Szymkiewicz, Romuald; Gasiorowski, Dariusz

    2012-09-01

    SummaryWe consider solution of 2D nonlinear diffusive wave equation in a domain temporarily covered by a layer of water. A modified finite element method with triangular elements and linear shape functions is used for spatial discretization. The proposed modification refers to the procedure of spatial integration and leads to a more general algorithm involving a weighting parameter. The standard finite element method and the finite difference method are its particular cases. Time integration is performed using a two-stage difference scheme with another weighting parameter. The resulting systems of nonlinear algebraic equations are solved using the Picard and Newton iterative methods. It is shown that the two weighting parameters determine the accuracy and stability of the numerical solution as well as the convergence of iterative process. Accuracy analysis using the modified equation approach carried out for linear version of the governing equation allowed to evaluate the numerical diffusion and dispersion generated by the method as well as to explain its properties. As the finite element method accounts for the Neumann type of boundary conditions in a natural way, no special treatment of the boundary is needed. Consequently the problem of moving grid point, which must follow the shoreline, in the proposed approach is overcome automatically. The current position of moving boundary is obtained as a result of solution of the governing equation at fixed grid point.

  20. Some New Traveling Wave Solutions of the Nonlinear Reaction Diffusion Equation by Using the Improved (G′/G-Expansion Method

    Directory of Open Access Journals (Sweden)

    Hasibun Naher

    2012-01-01

    Full Text Available We construct new exact traveling wave solutions involving free parameters of the nonlinear reaction diffusion equation by using the improved (G′/G-expansion method. The second-order linear ordinary differential equation with constant coefficients is used in this method. The obtained solutions are presented by the hyperbolic and the trigonometric functions. The solutions become in special functional form when the parameters take particular values. It is important to reveal that our solutions are in good agreement with the existing results.

  1. equations

    Directory of Open Access Journals (Sweden)

    Xinzhi Liu

    1998-01-01

    Full Text Available This paper studies a class of high order delay partial differential equations. Employing high order delay differential inequalities, several oscillation criteria are established for such equations subject to two different boundary conditions. Two examples are also given.

  2. A Solution of the Convective-Diffusion Equation for Solute Mass Transfer inside a Capillary Membrane Bioreactor

    Directory of Open Access Journals (Sweden)

    B. Godongwana

    2010-01-01

    Full Text Available This paper presents an analytical model of substrate mass transfer through the lumen of a membrane bioreactor. The model is a solution of the convective-diffusion equation in two dimensions using a regular perturbation technique. The analysis accounts for radial-convective flow as well as axial diffusion of the substrate specie. The model is applicable to the different modes of operation of membrane bioreactor (MBR systems (e.g., dead-end, open-shell, or closed-shell mode, as well as the vertical or horizontal orientation. The first-order limit of the Michaelis-Menten equation for substrate consumption was used to test the developed model against available analytical results. The results obtained from the application of this model, along with a biofilm growth kinetic model, will be useful in the derivation of an efficiency expression for enzyme production in an MBR.

  3. Harnack's inequality for a space-time fractional diffusion equation and applications to an inverse source problem

    Science.gov (United States)

    Jia, Junxiong; Peng, Jigen; Yang, Jiaqing

    2017-04-01

    In this paper, we focus on a space-time fractional diffusion equation with the generalized Caputo's fractional derivative operator and a general space nonlocal operator (with the fractional Laplace operator as a special case). A weak Harnack's inequality has been established by using a special test function and some properties of the space nonlocal operator. Based on the weak Harnack's inequality, a strong maximum principle has been obtained which is an important characterization of fractional parabolic equations. With these tools, we establish a uniqueness result of an inverse source problem on the determination of the temporal component of the inhomogeneous term, which seems to be the first theoretical result of the inverse problem for such a general fractional diffusion model.

  4. A variable timestep generalized Runge-Kutta method for the numerical integration of the space-time diffusion equations

    Energy Technology Data Exchange (ETDEWEB)

    Aviles, B.N.; Sutton, T.M.; Kelly, D.J. III.

    1991-09-01

    A generalized Runge-Kutta method has been employed in the numerical integration of the stiff space-time diffusion equations. The method is fourth-order accurate, using an embedded third-order solution to arrive at an estimate of the truncation error for automatic timestep control. The efficiency of the Runge-Kutta method is enhanced by a block-factorization technique that exploits the sparse structure of the matrix system resulting from the space and energy discretized form of the time-dependent neutron diffusion equations. Preliminary numerical evaluation using a one-dimensional finite difference code shows the sparse matrix implementation of the generalized Runge-Kutta method to be highly accurate and efficient when compared to an optimized iterative theta method. 12 refs., 5 figs., 4 tabs.

  5. Application of Linearized Anisotropic Diffusion Equation to Edge-Preserving Image Smoothing

    Institute of Scientific and Technical Information of China (English)

    YUANZejian; ZHENGNanning; ZHANGYuanlin

    2004-01-01

    A stable anisotropic diffusion model for edge-preservlng image smoothing is presented. By comparison with existing diffusion models~ this model has two significant new features. The first is that the diffusion model has the ability to adjust the diffusion coefficient and to regulate diffusion orientation simultaneously. The second is that the diffusion model being nonlinear in essence is linearized along time coordinates which makes the model more stable and thus the complexity of computation is reduced greatly. We use an Additive operator splitting scheme (AOS) that is an efficient and stable numerical method to implement the edge-preservlng image smoothing. The experimental results show that the model proposed in this paper is not only stable and efficient but can preserve image edge.

  6. A New Lattice Bhatnagar-Gross-Krook Model for the Convection-Diffusion Equation with a Source Term

    Institute of Scientific and Technical Information of China (English)

    DENG Bin; SHI Bao-Chang; WANG Guang-Chao

    2005-01-01

    @@ A new lattice Bhatnagar-Gross-Krook (LBGK) model for the convection-diffusion equation with a source term is proposed. Unlike the models proposed previously, the present model does not require any additional assumption on the source term. Numerical results are found to be in excellent agreement with the analytical solutions. It is also found that the numerical accuracy of the model is much better than that of the existing models.

  7. REMARKS ON THE PAPER "THE EXTINCTION BEHAVIOR OF THE SOLUTIONS FOR A CLASS OF REACTION-DIFFUSION EQUATIONS"

    Institute of Scientific and Technical Information of China (English)

    陈松林

    2002-01-01

    @@ The following Lemma stated (in: Applied Mathematics and Mechanics (English Edition),2001,22( 11 ): 1352 - 1356) was applied to describe the asymptotic behaviors of solutions of aclass of reaction-diffusion equation. On account of the special property of the super solution(i.e., a nonzero solution and null solution have C1 smooth connection) constructed in theLemma, we'll give the Lemma a detailed proof as follows.

  8. Reciprocity relation for the vector radiative transport equation and its application to diffuse optical tomography with polarized light

    CERN Document Server

    Tricoli, Ugo; Da Silva, Anabela; Markel, Vadim A

    2016-01-01

    We derive a reciprocity relation for vector radiative transport equation (vRTE) that describes propagation of polarized light in multiple-scattering media. We then show how this result, together with translational invariance of a plane-parallel sample, can be used to compute efficiently the sensitivity kernel of diffuse optical tomography (DOT) by Monte Carlo simulations. Numerical examples of polarization-selective sensitivity kernels thus computed are given.

  9. A combined quasi-continuum/Langevin equation approach to study the self-diffusion dynamics of confined fluids.

    Science.gov (United States)

    Sanghi, T; Aluru, N R

    2013-03-28

    In this work, we combine our earlier proposed empirical potential based quasi-continuum theory, (EQT) [A. V. Raghunathan, J. H. Park, and N. R. Aluru, J. Chem. Phys. 127, 174701 (2007)], which is a coarse-grained multiscale framework to predict the static structure of confined fluids, with a phenomenological Langevin equation to simulate the dynamics of confined fluids in thermal equilibrium. An attractive feature of this approach is that all the input parameters to the Langevin equation (mean force profile of the confined fluid and the static friction coefficient) can be determined using the outputs of the EQT and the self-diffusivity data of the corresponding bulk fluid. The potential of mean force profile, which is a direct output from EQT is used to compute the mean force profile of the confined fluid. The density profile, which is also a direct output from EQT, along with the self-diffusivity data of the bulk fluid is used to determine the static friction coefficient of the confined fluid. We use this approach to compute the mean square displacement and survival probabilities of some important fluids such as carbon-dioxide, water, and Lennard-Jones argon confined inside slit pores. The predictions from the model are compared with those obtained using molecular dynamics simulations. This approach of combining EQT with a phenomenological Langevin equation provides a mathematically simple and computationally efficient means to study the impact of structural inhomogeneity on the self-diffusion dynamics of confined fluids.

  10. The nature and role of advection in advection-diffusion equations used for modelling bed load transport

    Science.gov (United States)

    Ancey, Christophe; Bohorquez, Patricio; Heyman, Joris

    2016-04-01

    The advection-diffusion equation arises quite often in the context of sediment transport, e.g., for describing time and space variations in the particle activity (the solid volume of particles in motion per unit streambed area). Stochastic models can also be used to derive this equation, with the significant advantage that they provide information on the statistical properties of particle activity. Stochastic models are quite useful when sediment transport exhibits large fluctuations (typically at low transport rates), making the measurement of mean values difficult. We develop an approach based on birth-death Markov processes, which involves monitoring the evolution of the number of particles moving within an array of cells of finite length. While the topic has been explored in detail for diffusion-reaction systems, the treatment of advection has received little attention. We show that particle advection produces nonlocal effects, which are more or less significant depending on the cell size and particle velocity. Albeit nonlocal, these effects look like (local) diffusion and add to the intrinsic particle diffusion (dispersal due to velocity fluctuations), with the important consequence that local measurements depend on both the intrinsic properties of particle displacement and the dimensions of the measurement system.

  11. Predicting in vivo glioma growth with the reaction diffusion equation constrained by quantitative magnetic resonance imaging data

    Science.gov (United States)

    Hormuth, David A., II; Weis, Jared A.; Barnes, Stephanie L.; Miga, Michael I.; Rericha, Erin C.; Quaranta, Vito; Yankeelov, Thomas E.

    2015-07-01

    Reaction-diffusion models have been widely used to model glioma growth. However, it has not been shown how accurately this model can predict future tumor status using model parameters (i.e., tumor cell diffusion and proliferation) estimated from quantitative in vivo imaging data. To this end, we used in silico studies to develop the methods needed to accurately estimate tumor specific reaction-diffusion model parameters, and then tested the accuracy with which these parameters can predict future growth. The analogous study was then performed in a murine model of glioma growth. The parameter estimation approach was tested using an in silico tumor ‘grown’ for ten days as dictated by the reaction-diffusion equation. Parameters were estimated from early time points and used to predict subsequent growth. Prediction accuracy was assessed at global (total volume and Dice value) and local (concordance correlation coefficient, CCC) levels. Guided by the in silico study, rats (n = 9) with C6 gliomas, imaged with diffusion weighted magnetic resonance imaging, were used to evaluate the model’s accuracy for predicting in vivo tumor growth. The in silico study resulted in low global (tumor volume error 0.92) and local (CCC values >0.80) level errors for predictions up to six days into the future. The in vivo study showed higher global (tumor volume error >11.7%, Dice silico study shows that model parameters can be accurately estimated and used to accurately predict future tumor growth at both the global and local scale. However, the poor predictive accuracy in the experimental study suggests the reaction-diffusion equation is an incomplete description of in vivo C6 glioma biology and may require further modeling of intra-tumor interactions including segmentation of (for example) proliferative and necrotic regions.

  12. Engineering Hybrid Chemotaxis Receptors in Bacteria.

    Science.gov (United States)

    Bi, Shuangyu; Pollard, Abiola M; Yang, Yiling; Jin, Fan; Sourjik, Victor

    2016-09-16

    Most bacteria use transmembrane sensors to detect a wide range of environmental stimuli. A large class of such sensors are the chemotaxis receptors used by motile bacteria to follow environmental chemical gradients. In Escherichia coli, chemotaxis receptors are known to mediate highly sensitive responses to ligands, making them potentially useful for biosensory applications. However, with only four ligand-binding chemotaxis receptors, the natural ligand spectrum of E. coli is limited. The design of novel chemoreceptors to extend the sensing capabilities of E. coli is therefore a critical aspect of chemotaxis-based biosensor development. One path for novel sensor design is to harvest the large natural diversity of chemosensory functions found in bacteria by creating hybrids that have the signaling domain from E. coli chemotaxis receptors and sensory domains from other species. In this work, we demonstrate that the E. coli receptor Tar can be successfully combined with most typical sensory domains found in chemotaxis receptors and in evolutionary-related two-component histidine kinases. We show that such functional hybrids can be generated using several different fusion points. Our work further illustrates how hybrid receptors could be used to quantitatively characterize ligand specificity of chemotaxis receptors and histidine kinases using standardized assays in E. coli.

  13. Strenuous physical exercise adversely affects monocyte chemotaxis

    DEFF Research Database (Denmark)

    Czepluch, Frauke S; Barres, Romain; Caidahl, Kenneth

    2011-01-01

    Physical exercise is important for proper cardiovascular function and disease prevention, but it may influence the immune system. We evaluated the effect of strenuous exercise on monocyte chemotaxis. Monocytes were isolated from blood of 13 young, healthy, sedentary individuals participating...... in a three-week training program which consisted of repeated exercise bouts. Monocyte chemotaxis and serological biomarkers were investigated at baseline, after three weeks training and after four weeks recovery. Chemotaxis towards vascular endothelial growth factor-A (VEGF-A) and transforming growth factor...

  14. Numerical solutions and error estimations for the space fractional diffusion equation with variable coefficients via Fibonacci collocation method.

    Science.gov (United States)

    Bahşı, Ayşe Kurt; Yalçınbaş, Salih

    2016-01-01

    In this study, the Fibonacci collocation method based on the Fibonacci polynomials are presented to solve for the fractional diffusion equations with variable coefficients. The fractional derivatives are described in the Caputo sense. This method is derived by expanding the approximate solution with Fibonacci polynomials. Using this method of the fractional derivative this equation can be reduced to a set of linear algebraic equations. Also, an error estimation algorithm which is based on the residual functions is presented for this method. The approximate solutions are improved by using this error estimation algorithm. If the exact solution of the problem is not known, the absolute error function of the problems can be approximately computed by using the Fibonacci polynomial solution. By using this error estimation function, we can find improved solutions which are more efficient than direct numerical solutions. Numerical examples, figures, tables are comparisons have been presented to show efficiency and usable of proposed method.

  15. Determination of transport wind speed in the gaussian plume diffusion equation for low-lying point sources

    Science.gov (United States)

    Wang, I. T.

    A general method for determining the effective transport wind speed, overlineu, in the Gaussian plume equation is discussed. Physical arguments are given for using the generalized overlineu instead of the often adopted release-level wind speed with the plume diffusion equation. Simple analytical expressions for overlineu applicable to low-level point releases and a wide range of atmospheric conditions are developed. A non-linear plume kinematic equation is derived using these expressions. Crosswind-integrated SF 6 concentration data from the 1983 PNL tracer experiment are used to evaluate the proposed analytical procedures along with the usual approach of using the release-level wind speed. Results of the evaluation are briefly discussed.

  16. Localized numerical impulse solutions in diffuse neural networks modeled by the complex fractional Ginzburg-Landau equation

    Science.gov (United States)

    Mvogo, Alain; Tambue, Antoine; Ben-Bolie, Germain H.; Kofané, Timoléon C.

    2016-10-01

    We investigate localized wave solutions in a network of Hindmarsh-Rose neural model taking into account the long-range diffusive couplings. We show by a specific analytical technique that the model equations in the infrared limit (wave number k → 0) can be governed by the complex fractional Ginzburg-Landau (CFGL) equation. According to the stiffness of the system, we propose both the semi and the linearly implicit Riesz fractional finite-difference schemes to solve efficiently the CFGL equation. The obtained fractional numerical solutions for the nerve impulse reveal localized short impulse properties. We also show the equivalence between the continuous CFGL and the discrete Hindmarsh-Rose models for relatively large network.

  17. DIFFUSIVE-DISPERSIVE TRAVELING WAVES AND KINETIC RELATIONS IV.COMPRESSIBLE EULER EQUATIONS

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    The authors consider the Euler equations for a compressible fluid in one space dimensionwhen the equation of state of the fluid does not fulfill standard convexity assumptions andviscosity and capillarity effects are taken into account. A typical example of nonconvex con-stitutive equation for fluids is Van der Waals' equation. The first order terms of these partialdifferential equations form a nonlinear system of mixed (hyperbolic-elliptic) type. For a class ofnonconvex equations of state, an existence theorem of traveling waves solutions with arbitrarylarge amplitude is established here. The authors distinguish between classical (compressive) andnonclassical (undercompressive) traveling waves. The latter do not fulfill Lax shock inequali-ties, and are characterized by the so-called kinetic relation, whose properties are investigatedin this paper.

  18. On symmetry groups of a 2D nonlinear diffusion equation with source

    Indian Academy of Sciences (India)

    Radica Cimpoiasu

    2015-04-01

    Symmetry analysis of a 2D nonlinear evolutionary equation with mixed spatial derivative and general source term involving the dependent variable and its spatial derivatives is performed. The source terms for which the equation admits nontrivial Lie symmetries are identified for two different forms of the symmetry operator. In one of these cases, the symmetries do not depend on the form of nonlinearities and in the other case, nonlinearities of power, exponential and trigonometric forms are considered. There are no supplementary nonclassical symmetries for the investigated equation. The results reported here generalize the previous results on the 2D heat equation and the 2D Ricci model.

  19. A study of blow-ups in the Keller-Segel model of chemotaxis

    CERN Document Server

    Fatkullin, Ibrahim

    2010-01-01

    We study the Keller-Segel model of chemotaxis and develop a composite particle-grid numerical method with adaptive time stepping which allows us to accurately resolve singular solutions. The numerical findings (in two dimensions) are then compared with analytical predictions regarding formation and interaction of singularities obtained via analysis of the stochastic differential equations associated with the Keller-Segel model.

  20. A Mixed Finite Element Formulation for the Conservative Fractional Diffusion Equations

    Directory of Open Access Journals (Sweden)

    Suxiang Yang

    2016-01-01

    Full Text Available We consider a boundary-value problem of one-side conservative elliptic equation involving Riemann-Liouville fractional integral. The appearance of the singular term in the solution leads to lower regularity of the solution of the equation, so to the lower order convergence rate for the numerical solution. In this paper, by the dividing of equation, we drop the lower regularity term in the solution successfully and get a new fractional elliptic equation which has full regularity. We present a theoretical framework of mixed finite element approximation to the new fractional elliptic equation and derive the error estimates for unknown function, its derivative, and fractional-order flux. Some numerical results are illustrated to confirm the optimal error estimates.

  1. Specification of the process of chloride extraction from reinforced concrete based on the inverse task of the diffusion equation

    Directory of Open Access Journals (Sweden)

    Alsabry A.

    2016-05-01

    Full Text Available When the structure of reinforcement is in danger of chloride corrosion it is possible to prevent this disadvantageous phenomenon through exposing the cover to the influence of an electric field. The forces of an electric field considerably reduce chloride ions in pore liquid in concrete, which helps to rebuild a passive layer on the surface of the reinforcement and stops corrosion. The process of removing chlorides can be described with multi-component diffusion equations. However, an essential parameter of these equations, the diffusion coefficient, can be determined on the basis of an inverse task. Since the solution was achieved for one-dimension flow, the method applied can be confirmed by experimental results and the material parameters of the process can be determined theoretically. Some examples of numerical calculations of the effective electro-diffusion coefficient of chloride ions confirmed the usefulness of the theoretical solution for generalizing experimental results. Moreover, the calculation process of the numerical example provides some practical clues for future experimental research, which could be carried out in close connection with the theoretical solution.

  2. Molecular dynamics and analytical Langevin equation approach for the self-diffusion constant of an anisotropic fluid.

    Science.gov (United States)

    Colmenares, Pedro J; López, Floralba; Olivares-Rivas, Wilmer

    2009-12-01

    We carried out a molecular-dynamics (MD) study of the self-diffusion tensor of a Lennard-Jones-type fluid, confined in a slit pore with attractive walls. We developed Bayesian equations, which modify the virtual layer sampling method proposed by Liu, Harder, and Berne (LHB) [P. Liu, E. Harder, and B. J. Berne, J. Phys. Chem. B 108, 6595 (2004)]. Additionally, we obtained an analytical solution for the corresponding nonhomogeneous Langevin equation. The expressions found for the mean-squared displacement in the layers contain naturally a modification due to the mean force in the transverse component in terms of the anisotropic diffusion constants and mean exit time. Instead of running a time consuming dual MD-Langevin simulation dynamics, as proposed by LHB, our expression was used to fit the MD data in the entire survival time interval not only for the parallel but also for the perpendicular direction. The only fitting parameter was the diffusion constant in each layer.

  3. Strain-specific chemotaxis of Azospirillum spp.

    OpenAIRE

    Reinhold, B; Hurek, T; Fendrik, I

    1985-01-01

    Chemotactic responses of three Azospirillum strains originating from different host plants were compared to examine the possible role of chemotaxis in the adaptation of these bacteria to their respective hosts. The chemotaxis to several sugars, amino acids, and organic acids was determined qualitatively by an agar plate assay and quantitatively by a channeled-chamber technique. High chemotactic ratios, up to 40, were obtained with the latter technique. The chemotactic response did not rely up...

  4. Some problems on super-diffusions and one class of nonlinear differential equations

    Institute of Scientific and Technical Information of China (English)

    王永进; 任艳霞

    1999-01-01

    The historical superprocesses are considered on bounded regular domains with a complete branching form, as a probabilistic argument, the limit property of superprocesses is studied when the domains enlarge to the whole space. As an important application of superprocess, the representation of solutions of involved differential equations is used in term of historical superprocesses. The differential equations including the existence of nonnegative solution, the closeness of solutions and probabilistic representations to the maximal and minimal solutions are discussed, which helps develop the well-known results on nonlinear differential equations.

  5. A finite elements method to solve the Bloch–Torrey equation applied to diffusion magnetic resonance imaging

    Energy Technology Data Exchange (ETDEWEB)

    Nguyen, Dang Van [INRIA Saclay, Equipe DEFI, CMAP, Ecole Polytechnique, Route de Saclay, 91128 Palaiseau Cedex (France); NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France); Li, Jing-Rebecca, E-mail: jingrebecca.li@inria.fr [INRIA Saclay, Equipe DEFI, CMAP, Ecole Polytechnique, Route de Saclay, 91128 Palaiseau Cedex (France); NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France); Grebenkov, Denis [Laboratoire de Physique de la Matiere Condensee, CNRS, Ecole Polytechnique, 91128 Palaiseau Cedex (France); Le Bihan, Denis [NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France)

    2014-04-15

    The complex transverse water proton magnetization subject to diffusion-encoding magnetic field gradient pulses in a heterogeneous medium can be modeled by the multiple compartment Bloch–Torrey partial differential equation (PDE). In addition, steady-state Laplace PDEs can be formulated to produce the homogenized diffusion tensor that describes the diffusion characteristics of the medium in the long time limit. In spatial domains that model biological tissues at the cellular level, these two types of PDEs have to be completed with permeability conditions on the cellular interfaces. To solve these PDEs, we implemented a finite elements method that allows jumps in the solution at the cell interfaces by using double nodes. Using a transformation of the Bloch–Torrey PDE we reduced oscillations in the searched-for solution and simplified the implementation of the boundary conditions. The spatial discretization was then coupled to the adaptive explicit Runge–Kutta–Chebyshev time-stepping method. Our proposed method is second order accurate in space and second order accurate in time. We implemented this method on the FEniCS C++ platform and show time and spatial convergence results. Finally, this method is applied to study some relevant questions in diffusion MRI.

  6. Stochastic processes and applications diffusion processes, the Fokker-Planck and Langevin equations

    CERN Document Server

    Pavliotis, Grigorios A

    2014-01-01

    This book presents various results and techniques from the theory of stochastic processes that are useful in the study of stochastic problems in the natural sciences. The main focus is analytical methods, although numerical methods and statistical inference methodologies for studying diffusion processes are also presented. The goal is the development of techniques that are applicable to a wide variety of stochastic models that appear in physics, chemistry and other natural sciences. Applications such as stochastic resonance, Brownian motion in periodic potentials and Brownian motors are studied and the connection between diffusion processes and time-dependent statistical mechanics is elucidated.                 The book contains a large number of illustrations, examples, and exercises. It will be useful for graduate-level courses on stochastic processes for students in applied mathematics, physics and engineering. Many of the topics covered in this book (reversible diffusions, convergence to eq...

  7. Asymptotic solution of the diffusion equation in slender impermeable tubes of revolution. I. The leading-term approximation.

    Science.gov (United States)

    Traytak, Sergey D

    2014-06-14

    The anisotropic 3D equation describing the pointlike particles diffusion in slender impermeable tubes of revolution with cross section smoothly depending on the longitudinal coordinate is the object of our study. We use singular perturbations approach to find the rigorous asymptotic expression for the local particles concentration as an expansion in the ratio of the characteristic transversal and longitudinal diffusion relaxation times. The corresponding leading-term approximation is a generalization of well-known Fick-Jacobs approximation. This result allowed us to delineate the conditions on temporal and spatial scales under which the Fick-Jacobs approximation is valid. A striking analogy between solution of our problem and the method of inner-outer expansions for low Knudsen numbers gas kinetic theory is established. With the aid of this analogy we clarify the physical and mathematical meaning of the obtained results.

  8. Method for estimating closed-form solutions of the light diffusion equation for turbid media of any boundary shape

    Science.gov (United States)

    Alqasemi, Umar; Salehi, Hassan S.; Zhu, Quing

    2016-01-01

    This paper reports a method of estimating an approximate closed-form solution to the light diffusion equation for any type of geometry involving Dirichlet’s boundary condition with known source location. It is based on estimating the optimum locations of multiple imaginary point sources to cancel the fluence at the extrapolated boundary by constrained optimization using a genetic algorithm. The mathematical derivation of the problem to approach the optimum solution for the direct-current type of diffuse optical systems is described in detail. Our method is first applied to slab geometry and compared with a truncated series solution. After that, it is applied to hemispherical geometry and compared with Monte Carlo simulation results. The method provides a fast and sufficiently accurate fluence distribution for optical reconstruction. PMID:26831771

  9. On progress of the solution of the stationary 2-dimensional neutron diffusion equation: a polynomial approximation method with error analysis

    Energy Technology Data Exchange (ETDEWEB)

    Ceolin, C., E-mail: celina.ceolin@gmail.com [Universidade Federal de Santa Maria (UFSM), Frederico Westphalen, RS (Brazil). Centro de Educacao Superior Norte; Schramm, M.; Bodmann, B.E.J.; Vilhena, M.T., E-mail: celina.ceolin@gmail.com [Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, RS (Brazil). Programa de Pos-Graduacao em Engenharia Mecanica

    2015-07-01

    Recently the stationary neutron diffusion equation in heterogeneous rectangular geometry was solved by the expansion of the scalar fluxes in polynomials in terms of the spatial variables (x; y), considering the two-group energy model. The focus of the present discussion consists in the study of an error analysis of the aforementioned solution. More specifically we show how the spatial subdomain segmentation is related to the degree of the polynomial and the Lipschitz constant. This relation allows to solve the 2-D neutron diffusion problem for second degree polynomials in each subdomain. This solution is exact at the knots where the Lipschitz cone is centered. Moreover, the solution has an analytical representation in each subdomain with supremum and infimum functions that shows the convergence of the solution. We illustrate the analysis with a selection of numerical case studies. (author)

  10. Asymptotic solution of the diffusion equation in slender impermeable tubes of revolution. I. The leading-term approximation

    Energy Technology Data Exchange (ETDEWEB)

    Traytak, Sergey D., E-mail: sergtray@mail.ru [Centre de Biophysique Moléculaire, CNRS-UPR4301, Rue C. Sadron, 45071 Orléans (France); Le STUDIUM (Loire Valley Institute for Advanced Studies), 3D av. de la Recherche Scientifique, 45071 Orléans (France); Semenov Institute of Chemical Physics RAS, 4 Kosygina St., 117977 Moscow (Russian Federation)

    2014-06-14

    The anisotropic 3D equation describing the pointlike particles diffusion in slender impermeable tubes of revolution with cross section smoothly depending on the longitudinal coordinate is the object of our study. We use singular perturbations approach to find the rigorous asymptotic expression for the local particles concentration as an expansion in the ratio of the characteristic transversal and longitudinal diffusion relaxation times. The corresponding leading-term approximation is a generalization of well-known Fick-Jacobs approximation. This result allowed us to delineate the conditions on temporal and spatial scales under which the Fick-Jacobs approximation is valid. A striking analogy between solution of our problem and the method of inner-outer expansions for low Knudsen numbers gas kinetic theory is established. With the aid of this analogy we clarify the physical and mathematical meaning of the obtained results.

  11. A New 2D-Transport, 1D-Diffusion Approximation of the Boltzmann Transport equation

    Energy Technology Data Exchange (ETDEWEB)

    Larsen, Edward

    2013-06-17

    The work performed in this project consisted of the derivation, implementation, and testing of a new, computationally advantageous approximation to the 3D Boltz- mann transport equation. The solution of the Boltzmann equation is the neutron flux in nuclear reactor cores and shields, but solving this equation is difficult and costly. The new “2D/1D” approximation takes advantage of a special geometric feature of typical 3D reactors to approximate the neutron transport physics in a specific (ax- ial) direction, but not in the other two (radial) directions. The resulting equation is much less expensive to solve computationally, and its solutions are expected to be sufficiently accurate for many practical problems. In this project we formulated the new equation, discretized it using standard methods, developed a stable itera- tion scheme for solving the equation, implemented the new numerical scheme in the MPACT code, and tested the method on several realistic problems. All the hoped- for features of this new approximation were seen. For large, difficult problems, the resulting 2D/1D solution is highly accurate, and is calculated about 100 times faster than a 3D discrete ordinates simulation.

  12. Memory effects in the asymptotic diffusive behavior of a classical oscillator described by a generalized Langevin equation.

    Science.gov (United States)

    Despósito, M A; Viñales, A D

    2008-03-01

    We investigate the memory effects present in the asymptotic dynamics of a classical harmonic oscillator governed by a generalized Langevin equation. Using Laplace analysis together with Tauberian theorems we derive asymptotic expressions for the mean values, variances, and velocity autocorrelation function in terms of the long-time behavior of the memory kernel and the correlation function of the random force. The internal and external noise cases are analyzed. A simple criterion to determine if the diffusion process is normal or anomalous is established.

  13. Stability of Exact and Discrete Energy for Non-Fickian Reaction-Diffusion Equations with a Variable Delay

    Directory of Open Access Journals (Sweden)

    Dongfang Li

    2014-01-01

    Full Text Available This paper is concerned with the stability of non-Fickian reaction-diffusion equations with a variable delay. It is shown that the perturbation of the energy function of the continuous problems decays exponentially, which provides a more accurate and convenient way to express the rate of decay of energy. Then, we prove that the proposed numerical methods are sufficient to preserve energy stability of the continuous problems. We end the paper with some numerical experiments on a biological model to confirm the theoretical results.

  14. A new numerical method for solving two-dimensional variable-order anomalous sub-diffusion equation

    Directory of Open Access Journals (Sweden)

    Jiang Wei

    2016-01-01

    Full Text Available The novelty and innovativeness of this paper are the combination of reproducing kernel theory and spline, this leads to a new simple but effective numerical method for solving variable-order anomalous sub-diffusion equation successfully. This combination overcomes the weaknesses of piecewise polynomials that can not be used to solve differential equations directly because of lack of the smoothness. Moreover, new bases of reproducing kernel spaces are constructed. On the other hand, the existence of any ε-approximate solution is proved and an effective method for obtaining the ε-approximate solution is established. A numerical example is given to show the accuracy and effectiveness of theoretical results.

  15. Diffusive KPP equations with free boundaries in time almost periodic environments: II. Spreading speeds and semi-wave solutions

    Science.gov (United States)

    Li, Fang; Liang, Xing; Shen, Wenxian

    2016-08-01

    In this series of papers, we investigate the spreading and vanishing dynamics of time almost periodic diffusive KPP equations with free boundaries. Such equations are used to characterize the spreading of a new species in time almost periodic environments with free boundaries representing the spreading fronts. In the first part of the series, we showed that a spreading-vanishing dichotomy occurs for such free boundary problems (see [16]). In this second part of the series, we investigate the spreading speeds of such free boundary problems in the case that the spreading occurs. We first prove the existence of a unique time almost periodic semi-wave solution associated to such a free boundary problem. Using the semi-wave solution, we then prove that the free boundary problem has a unique spreading speed.

  16. Explicit and implicit ode solvers using Krylov subspace optimization: Application to the diffusion equation and parabolic Maxwell`s system

    Energy Technology Data Exchange (ETDEWEB)

    Druskin, V.; Knizhnerman, L.

    1994-12-31

    The authors solve the Cauchy problem for an ODE system Au + {partial_derivative}u/{partial_derivative}t = 0, u{vert_bar}{sub t=0} = {var_phi}, where A is a square real nonnegative definite symmetric matrix of the order N, {var_phi} is a vector from R{sup N}. The stiffness matrix A is obtained due to semi-discretization of a parabolic equation or system with time-independent coefficients. The authors are particularly interested in large stiff 3-D problems for the scalar diffusion and vectorial Maxwell`s equations. First they consider an explicit method in which the solution on a whole time interval is projected on a Krylov subspace originated by A. Then they suggest another Krylov subspace with better approximating properties using powers of an implicit transition operator. These Krylov subspace methods generate optimal in a spectral sense polynomial approximations for the solution of the ODE, similar to CG for SLE.

  17. A finite difference scheme for fractional sub-diffusion equations on an unbounded domain using artificial boundary conditions

    Science.gov (United States)

    Gao, Guang-hua; Sun, Zhi-zhong; Zhang, Ya-nan

    2012-04-01

    One-dimensional fractional anomalous sub-diffusion equations on an unbounded domain are considered in our work. Beginning with the derivation of the exact artificial boundary conditions, the original problem on an unbounded domain is converted into mainly solving an initial-boundary value problem on a finite computational domain. The main contribution of our work, as compared with the previous work, lies in the reduction of fractional differential equations on an unbounded domain by using artificial boundary conditions and construction of the corresponding finite difference scheme with the help of method of order reduction. The difficulty is the treatment of Neumann condition on the artificial boundary, which involves the time-fractional derivative operator. The stability and convergence of the scheme are proven using the discrete energy method. Two numerical examples clarify the effectiveness and accuracy of the proposed method.

  18. A new family of implicit fourth order compact schemes for unsteady convection-diffusion equation with variable convection coefficient

    CERN Document Server

    Sen, Shuvam

    2012-01-01

    In this paper, a new family of implicit compact finite difference schemes for computation of unsteady convection-diffusion equation with variable convection coefficient is proposed. The schemes are fourth order accurate in space and second or lower order accurate in time depending on the choice of weighted time average parameter. The proposed schemes, where transport variable and its first derivatives are carried as the unknowns, combine virtues of compact discretization and Pad\\'{e} scheme for spatial derivative. These schemes which are based on five point stencil with constant coefficients, named as \\emph{(5,5) Constant Coefficient 4th Order Compact} [(5,5)CC-4OC], give rise to a diagonally dominant system of equations and shows higher accuracy and better phase and amplitude error characteristics than some of the standard methods. These schemes are capable of using a grid aspect ratio other than unity and are unconditionally stable. They efficiently capture both transient and steady solutions of linear and ...

  19. Quantifying equation-of-state and opacity errors using integrated supersonic diffusive radiation flow experiments on the National Ignition Facility

    Energy Technology Data Exchange (ETDEWEB)

    Guymer, T. M., E-mail: Thomas.Guymer@awe.co.uk; Moore, A. S.; Morton, J.; Allan, S.; Bazin, N.; Benstead, J.; Bentley, C.; Comley, A. J.; Garbett, W.; Reed, L.; Stevenson, R. M. [AWE Plc., Aldermaston, Reading RG7 4PR (United Kingdom); Kline, J. L.; Cowan, J.; Flippo, K.; Hamilton, C.; Lanier, N. E.; Mussack, K.; Obrey, K.; Schmidt, D. W.; Taccetti, J. M. [Los Alamos National Laboratory, Los Alamos, New Mexico 87545 (United States); and others

    2015-04-15

    A well diagnosed campaign of supersonic, diffusive radiation flow experiments has been fielded on the National Ignition Facility. These experiments have used the accurate measurements of delivered laser energy and foam density to enable an investigation into SESAME's tabulated equation-of-state values and CASSANDRA's predicted opacity values for the low-density C{sub 8}H{sub 7}Cl foam used throughout the campaign. We report that the results from initial simulations under-predicted the arrival time of the radiation wave through the foam by ≈22%. A simulation study was conducted that artificially scaled the equation-of-state and opacity with the intended aim of quantifying the systematic offsets in both CASSANDRA and SESAME. Two separate hypotheses which describe these errors have been tested using the entire ensemble of data, with one being supported by these data.

  20. Hamilton-Jacobi's equation and Arnold's diffusion near invariant tori in a priori unstable isochronous systems

    CERN Document Server

    Gallavotti, G

    1997-01-01

    Local integrability of hyperbolic oscillators is discussed to provide an introductory example of the Arnold's diffusion phenomenon in a forced pendulum. This is a text prepared for the the ISI summer school of June 1997 and deals with developments of the topics treated in the lectures.

  1. Mixed dual finite element methods for the numerical treatment of the diffusion equation in hexagonal geometry; Elements finis mixtes duaux pour la resolution numerique de l'equation de la diffusion neutronique en geometrie hexagonale

    Energy Technology Data Exchange (ETDEWEB)

    Schneider, D

    2001-07-01

    The nodal method Minos has been developed to offer a powerful method for the calculation of nuclear reactor cores in rectangular geometry. This method solves the mixed dual form of the diffusion equation and, also of the simplified P{sub N} approximation. The discretization is based on Raviart-Thomas' mixed dual finite elements and the iterative algorithm is an alternating direction method, which uses the current as unknown. The subject of this work is to adapt this method to hexagonal geometry. The guiding idea is to construct and test different methods based on the division of a hexagon into trapeze or rhombi with appropriate mapping of these quadrilaterals onto squares in order to take into advantage what is already available in the Minos solver. The document begins with a review of the neutron diffusion equation. Then we discuss its mixed dual variational formulation from a functional as well as from a numerical point of view. We study conformal and bilinear mappings for the two possible meshing of the hexagon. Thus, four different methods are proposed and are completely described in this work. Because of theoretical and numerical difficulties, a particular treatment has been necessary for methods based on the conformal mapping. Finally, numerical results are presented for a hexagonal benchmark to validate and compare the four methods with respect to pre-defined criteria. (authors)

  2. Image guided personalization of reaction-diffusion type tumor growth models using modified anisotropic eikonal equations.

    Science.gov (United States)

    Konukoglu, Ender; Clatz, Olivier; Menze, Bjoern H; Stieltjes, Bram; Weber, Marc-André; Mandonnet, Emmanuel; Delingette, Hervé; Ayache, Nicholas

    2010-01-01

    Reaction-diffusion based tumor growth models have been widely used in the literature for modeling the growth of brain gliomas. Lately, recent models have started integrating medical images in their formulation. Including different tissue types, geometry of the brain and the directions of white matter fiber tracts improved the spatial accuracy of reaction-diffusion models. The adaptation of the general model to the specific patient cases on the other hand has not been studied thoroughly yet. In this paper, we address this adaptation. We propose a parameter estimation method for reaction-diffusion tumor growth models using time series of medical images. This method estimates the patient specific parameters of the model using the images of the patient taken at successive time instances. The proposed method formulates the evolution of the tumor delineation visible in the images based on the reaction-diffusion dynamics; therefore, it remains consistent with the information available. We perform thorough analysis of the method using synthetic tumors and show important couplings between parameters of the reaction-diffusion model. We show that several parameters can be uniquely identified in the case of fixing one parameter, namely the proliferation rate of tumor cells. Moreover, regardless of the value the proliferation rate is fixed to, the speed of growth of the tumor can be estimated in terms of the model parameters with accuracy. We also show that using the model-based speed, we can simulate the evolution of the tumor for the specific patient case. Finally, we apply our method to two real cases and show promising preliminary results.

  3. On blowup dynamics in the Keller-Segel model of chemotaxis

    CERN Document Server

    Dejak, S I; Lushnikov, P M; Sigal, I M

    2013-01-01

    We investigate the (reduced) Keller-Segel equations modeling chemotaxis of bio-organisms. We present a formal derivation and partial rigorous results of the blowup dynamics of solution of these equations describing the chemotactic aggregation of the organisms. Our results are confirmed by numerical simulations and the formula we derive coincides with the formula of Herrero and Vel\\'{a}zquez for specially constructed solutions.

  4. Fokker-Planck equation with memory: the cross over from ballistic to diffusive processes in many particle systems and incompressible media

    Directory of Open Access Journals (Sweden)

    V. Ilyin

    2013-03-01

    Full Text Available The unified description of diffusion processes that cross over from a ballistic behavior at short times to normal or anomalous diffusion (sub- or superdiffusion at longer times is constructed on the basis of a non-Markovian generalization of the Fokker-Planck equation. The necessary non- Markovian kinetic coefficients are determined by the observable quantities (mean- and mean square displacements. Solutions of the non-Markovian equation describing diffusive processes in the physical space are obtained. For long times these solutions agree with the predictions of continuous random walk theory; they are however much superior at shorter times when the effect of the ballistic behavior is crucial.

  5. Coupling of dynamical micromagnetism and a stationary spin drift-diffusion equation: A step towards a fully self-consistent spintronics framework

    Energy Technology Data Exchange (ETDEWEB)

    Ruggeri, Michele, E-mail: michele.ruggeri@tuwien.ac.at [Institute for Analysis and Scientific Computing, TU Wien, Vienna (Austria); Abert, Claas [Christian Doppler Laboratory of Advanced Magnetic Sensing and Materials, Institute of Solid State Physics, TU Wien, Vienna (Austria); Hrkac, Gino [College of Engineering, Mathematics and Physical Sciences, University of Exeter (United Kingdom); Institute for Analysis and Scientific Computing, TU Wien, Vienna (Austria); Suess, Dieter [Christian Doppler Laboratory of Advanced Magnetic Sensing and Materials, Institute of Solid State Physics, TU Wien, Vienna (Austria); Praetorius, Dirk [Institute for Analysis and Scientific Computing, TU Wien, Vienna (Austria)

    2016-04-01

    We consider the coupling of the Landau–Lifshitz–Gilbert equation with a quasilinear diffusion equation to describe the interplay of magnetization and spin accumulation in magnetic-nonmagnetic multilayer structures. For this problem, we propose and analyze a convergent finite element integrator, where, in contrast to prior work, we consider the stationary limit for the spin diffusion. Numerical experiments underline that the new approach is more effective, since it leads to the same experimental results as for the model with time-dependent spin diffusion, but allows for larger time-steps of the numerical integrator.

  6. Asymptotic Analysis of Upwind Discontinuous Galerkin Approximation of the Radiative Transport Equation in the Diffusive Limit

    KAUST Repository

    Guermond, Jean-Luc

    2010-01-01

    We revisit some results from M. L. Adams [Nu cl. Sci. Engrg., 137 (2001), pp. 298- 333]. Using functional analytic tools we prove that a necessary and sufficient condition for the standard upwind discontinuous Galerkin approximation to converge to the correct limit solution in the diffusive regime is that the approximation space contains a linear space of continuous functions, and the restrictions of the functions of this space to each mesh cell contain the linear polynomials. Furthermore, the discrete diffusion limit converges in the Sobolev space H1 to the continuous one if the boundary data is isotropic. With anisotropic boundary data, a boundary layer occurs, and convergence holds in the broken Sobolev space H with s < 1/2 only © 2010 Society for Industrial and Applied Mathematics.

  7. An age-dependent population equation with diffusion and delayed birth process

    Directory of Open Access Journals (Sweden)

    G. Fragnelli

    2005-01-01

    Full Text Available We propose a new age-dependent population equation which takes into account not only a delay in the birth process, but also other events that may take place during the time between conception and birth. Using semigroup theory, we discuss the well posedness and the asymptotic behavior of the solution.

  8. Feynman path integral application on deriving black-scholes diffusion equation for european option pricing

    Science.gov (United States)

    Utama, Briandhika; Purqon, Acep

    2016-08-01

    Path Integral is a method to transform a function from its initial condition to final condition through multiplying its initial condition with the transition probability function, known as propagator. At the early development, several studies focused to apply this method for solving problems only in Quantum Mechanics. Nevertheless, Path Integral could also apply to other subjects with some modifications in the propagator function. In this study, we investigate the application of Path Integral method in financial derivatives, stock options. Black-Scholes Model (Nobel 1997) was a beginning anchor in Option Pricing study. Though this model did not successfully predict option price perfectly, especially because its sensitivity for the major changing on market, Black-Scholes Model still is a legitimate equation in pricing an option. The derivation of Black-Scholes has a high difficulty level because it is a stochastic partial differential equation. Black-Scholes equation has a similar principle with Path Integral, where in Black-Scholes the share's initial price is transformed to its final price. The Black-Scholes propagator function then derived by introducing a modified Lagrange based on Black-Scholes equation. Furthermore, we study the correlation between path integral analytical solution and Monte-Carlo numeric solution to find the similarity between this two methods.

  9. A dynamic DFT approach to generalized diffusion equations in a system with long-ranged and hydrodynamic interactions

    Science.gov (United States)

    Bleibel, Johannes; Domínguez, Alvaro; Oettel, Martin

    2016-06-01

    We build on an existing approximation scheme to the Smoluchowski equation in order to derive a dynamic density functional theory (DDFT) including two-body hydrodynamic interactions. A generalized diffusion equation and a wavenumber-dependent diffusion coefficient D(k) are derived by linearization in the density fluctuations. The result is applied to a colloidal monolayer at a fluid interface, having bulk-like hydrodynamic interactions and/or interacting via long-ranged capillary forces. In these cases, D(k) shows characteristic singularities as k\\to 0 . The consequences of these singularities are studied by means of analytical perturbation theory, numerical solution of DDFT and simulations for an explicit example: the capillary collapse of a finite, disk-like distribution of particles. There is in general a good agreement between DDFT and simulations if the initial density distributions for the theoretical prediction correspond to the actual initial configurations of simulations, rather than to an average over them. Otherwise, discrepancies arise that are discussed in detail.

  10. Numerical study of photon migration in the presence of a void region using the radiative transfer and diffusion equations

    Science.gov (United States)

    Miyakawa, Erina; Fujii, Hiroyuki; Hattori, Kiyohito; Tatekura, Yuki; Kobayashi, Kazumichi; Watanabe, Masao

    2016-12-01

    Diffuse optical tomography (DOT), which is still under development, has a potential to enable non-invasive diagnoses of thyroid cancers in the human neck using the near-infrared light. This modality needs a photon migration model because scattered light is used. There are two types of photon migration models: the radiative transport equation (RTE) and diffusion equation (DE). The RTE can describe photon migration in the human neck with accuracy, while the DE enables an efficient calculation. For developing the accurate and efficient model of photon migration, it is crucial to investigate a condition where the DE holds in a scattering medium including a void region under the refractive-index mismatch at the void boundary because the human neck has a trachea (void region) and the refractive indices are different between the human neck and trachea. Hence, in this paper, we compare photon migration using the RTE with that using the DE in the medium. The numerical results show that the DE is valid under the refractive-index match at the void boundary even though the void region is near the source and detector positions. Under the refractive-index mismatch at the boundary, the numerical results using the DE disagree with those using the RTE when the void region is near the source and detector positions. This is probably because the anisotropy of the light scattering remains around the void boundary.

  11. Generalized Stochastic Fokker-Planck Equations

    Directory of Open Access Journals (Sweden)

    Pierre-Henri Chavanis

    2015-05-01

    Full Text Available We consider a system of Brownian particles with long-range interactions. We go beyond the mean field approximation and take fluctuations into account. We introduce a new class of stochastic Fokker-Planck equations associated with a generalized thermodynamical formalism. Generalized thermodynamics arises in the case of complex systems experiencing small-scale constraints. In the limit of short-range interactions, we obtain a generalized class of stochastic Cahn-Hilliard equations. Our formalism has application for several systems of physical interest including self-gravitating Brownian particles, colloid particles at a fluid interface, superconductors of type II, nucleation, the chemotaxis of bacterial populations, and two-dimensional turbulence. We also introduce a new type of generalized entropy taking into account anomalous diffusion and exclusion or inclusion constraints.

  12. Dependence of bacterial chemotaxis on gradient shape and adaptation rate.

    Directory of Open Access Journals (Sweden)

    Nikita Vladimirov

    2008-12-01

    Full Text Available Simulation of cellular behavior on multiple scales requires models that are sufficiently detailed to capture central intracellular processes but at the same time enable the simulation of entire cell populations in a computationally cheap way. In this paper we present RapidCell, a hybrid model of chemotactic Escherichia coli that combines the Monod-Wyman-Changeux signal processing by mixed chemoreceptor clusters, the adaptation dynamics described by ordinary differential equations, and a detailed model of cell tumbling. Our model dramatically reduces computational costs and allows the highly efficient simulation of E. coli chemotaxis. We use the model to investigate chemotaxis in different gradients, and suggest a new, constant-activity type of gradient to systematically study chemotactic behavior of virtual bacteria. Using the unique properties of this gradient, we show that optimal chemotaxis is observed in a narrow range of CheA kinase activity, where concentration of the response regulator CheY-P falls into the operating range of flagellar motors. Our simulations also confirm that the CheB phosphorylation feedback improves chemotactic efficiency by shifting the average CheY-P concentration to fit the motor operating range. Our results suggest that in liquid media the variability in adaptation times among cells may be evolutionary favorable to ensure coexistence of subpopulations that will be optimally tactic in different gradients. However, in a porous medium (agar such variability appears to be less important, because agar structure poses mainly negative selection against subpopulations with low levels of adaptation enzymes. RapidCell is available from the authors upon request.

  13. Fundamental constraints on the abundances of chemotaxis proteins

    CERN Document Server

    Bitbol, Anne-Florence

    2015-01-01

    Flagellated bacteria, such as Escherichia coli, perform directed motion in gradients of concentration of attractants and repellents in a process called chemotaxis. The E. coli chemotaxis signaling pathway is a model for signal transduction, but it has unique features. We demonstrate that the need for fast signaling necessitates high abundances of the proteins involved in this pathway. We show that further constraints on the abundances of chemotaxis proteins arise from the requirements of self-assembly, both of flagellar motors and of chemoreceptor arrays. All these constraints are specific to chemotaxis, and published data confirm that chemotaxis proteins tend to be more highly expressed than their homologs in other pathways. Employing a chemotaxis pathway model, we show that the gain of the pathway at the level of the response regulator CheY increases with overall chemotaxis protein abundances. This may explain why, at least in one E. coli strain, the abundance of all chemotaxis proteins is higher in media w...

  14. The SMM Model as a Boundary Value Problem Using the Discrete Diffusion Equation

    Science.gov (United States)

    Campbell, Joel

    2007-01-01

    A generalized single step stepwise mutation model (SMM) is developed that takes into account an arbitrary initial state to a certain partial difference equation. This is solved in both the approximate continuum limit and the more exact discrete form. A time evolution model is developed for Y DNA or mtDNA that takes into account the reflective boundary modeling minimum microsatellite length and the original difference equation. A comparison is made between the more widely known continuum Gaussian model and a discrete model, which is based on modified Bessel functions of the first kind. A correction is made to the SMM model for the probability that two individuals are related that takes into account a reflecting boundary modeling minimum microsatellite length. This method is generalized to take into account the general n-step model and exact solutions are found. A new model is proposed for the step distribution.

  15. Finite Difference Method for Reaction-Diffusion Equation with Nonlocal Boundary Conditions

    Institute of Scientific and Technical Information of China (English)

    Jianming Liu; Zhizhong Sun

    2007-01-01

    In this paper, we present a numerical approach to a class of nonlinear reactiondiffusion equations with nonlocal Robin type boundary conditions by finite difference methods. A second-order accurate difference scheme is derived by the method of reduction of order. Moreover, we prove that the scheme is uniquely solvable and convergent with the convergence rate of order two in a discrete L2-norm. A simple numerical example is given to illustrate the efficiency of the proposed method.

  16. FILTERING OF MEDICAL ULTRASONIC IMAGES BASED ON A MODIFIED ANISTROPIC DIFFUSION EQUATION

    Institute of Scientific and Technical Information of China (English)

    Wang Ling; Li Deyu; Wang Tianfu; Lin Jiangli; Peng Yun; Rao Li; Zheng Yi

    2007-01-01

    Speckle noise reduction is a key problem of the image analysis of medical UltraSound images. In this paper, two important improvements have been developed to a fast anisotropic diffusion algorithm for speckle noise reduction. The Gaussian filter is firstly used before gradient calculation, and then the adaptive algorithm of the factor k is proposed. Numerous experimental results show that the proposed model is superior to other methods in noise removal, fidelity and edge preservation. It is suitable for the preprocessing of a great number of medical UltraSound images, such as three dimensional reconstruction.

  17. Chemotaxis toward phytoplankton drives organic matter partitioning among marine bacteria.

    Science.gov (United States)

    Smriga, Steven; Fernandez, Vicente I; Mitchell, James G; Stocker, Roman

    2016-02-09

    The microenvironment surrounding individual phytoplankton cells is often rich in dissolved organic matter (DOM), which can attract bacteria by chemotaxis. These "phycospheres" may be prominent sources of resource heterogeneity in the ocean, affecting the growth of bacterial populations and the fate of DOM. However, these effects remain poorly quantified due to a lack of quantitative ecological frameworks. Here, we used video microscopy to dissect with unprecedented resolution the chemotactic accumulation of marine bacteria around individual Chaetoceros affinis diatoms undergoing lysis. The observed spatiotemporal distribution of bacteria was used in a resource utilization model to map the conditions under which competition between different bacterial groups favors chemotaxis. The model predicts that chemotactic, copiotrophic populations outcompete nonmotile, oligotrophic populations during diatom blooms and bloom collapse conditions, resulting in an increase in the ratio of motile to nonmotile cells and in the succession of populations. Partitioning of DOM between the two populations is strongly dependent on the overall concentration of bacteria and the diffusivity of different DOM substances, and within each population, the growth benefit from phycospheres is experienced by only a small fraction of cells. By informing a DOM utilization model with highly resolved behavioral data, the hybrid approach used here represents a new path toward the elusive goal of predicting the consequences of microscale interactions in the ocean.

  18. Finite difference schemes for the singularly perturbed reaction-diffusion equation in the case of spherical symmetry

    Science.gov (United States)

    Shishkin, G. I.; Shishkina, L. P.

    2009-05-01

    The boundary value problem for the singularly perturbed reaction-diffusion parabolic equation in a ball in the case of spherical symmetry is considered. The derivatives with respect to the radial variable appearing in the equation are written in divergent form. The third kind boundary condition, which admits the Dirichlet and Neumann conditions, is specified on the boundary of the domain. The Laplace operator in the differential equation involves a perturbation parameter ɛ2, where ɛ takes arbitrary values in the half-open interval (0, 1]. When ɛ → 0, the solution of such a problem has a parabolic boundary layer in a neighborhood of the boundary. Using the integro-interpolational method and the condensing grid technique, conservative finite difference schemes on flux grids are constructed that converge ɛ-uniformly at a rate of O( N -2ln2 N + N {0/-1}), where N + 1 and N 0 + 1 are the numbers of the mesh points in the radial and time variables, respectively.

  19. Independent control of locomotion and orientation during Dictyostelium discoideum chemotaxis

    NARCIS (Netherlands)

    Duijn, Bert van; Haastert, Peter J.M. van

    1992-01-01

    Chemotaxis is cell movement in the direction of a chemical and is composed of two components: movement and directionality. The directionality of eukaryotic chemotaxis is probably derived from orientation: the detection of the spacial gradient of chemoattractant over the cell length. Chemotaxis was i

  20. A Componentwise Convex Splitting Scheme for Diffuse Interface Models with Van der Waals and Peng--Robinson Equations of State

    KAUST Repository

    Fan, Xiaolin

    2017-01-19

    This paper presents a componentwise convex splitting scheme for numerical simulation of multicomponent two-phase fluid mixtures in a closed system at constant temperature, which is modeled by a diffuse interface model equipped with the Van der Waals and the Peng-Robinson equations of state (EoS). The Van der Waals EoS has a rigorous foundation in physics, while the Peng-Robinson EoS is more accurate for hydrocarbon mixtures. First, the phase field theory of thermodynamics and variational calculus are applied to a functional minimization problem of the total Helmholtz free energy. Mass conservation constraints are enforced through Lagrange multipliers. A system of chemical equilibrium equations is obtained which is a set of second-order elliptic equations with extremely strong nonlinear source terms. The steady state equations are transformed into a transient system as a numerical strategy on which the scheme is based. The proposed numerical algorithm avoids the indefiniteness of the Hessian matrix arising from the second-order derivative of homogeneous contribution of total Helmholtz free energy; it is also very efficient. This scheme is unconditionally componentwise energy stable and naturally results in unconditional stability for the Van der Waals model. For the Peng-Robinson EoS, it is unconditionally stable through introducing a physics-preserving correction term, which is analogous to the attractive term in the Van der Waals EoS. An efficient numerical algorithm is provided to compute the coefficient in the correction term. Finally, some numerical examples are illustrated to verify the theoretical results and efficiency of the established algorithms. The numerical results match well with laboratory data.

  1. Two-Phase Fluid Simulation Using a Diffuse Interface Model with Peng--Robinson Equation of State

    KAUST Repository

    Qiao, Zhonghua

    2014-01-01

    In this paper, two-phase fluid systems are simulated using a diffusive interface model with the Peng-Robinson equation of state (EOS), a widely used realistic EOS for hydrocarbon fluid in the petroleum industry. We first utilize the gradient theory of thermodynamics and variational calculus to derive a generalized chemical equilibrium equation, which is mathematically a second-order elliptic partial differential equation (PDE) in molar density with a strongly nonlinear source term. To solve this PDE, we convert it to a time-dependent parabolic PDE with the main interest in its final steady state solution. A Lagrange multiplier is used to enforce mass conservation. The parabolic PDE is then solved by mixed finite element methods with a semi-implicit time marching scheme. Convex splitting of the energy functional is proposed to construct this time marching scheme, where the volume exclusion effect of an EOS is treated implicitly while the pairwise attraction effect of EOS is calculated explicitly. This scheme is proved to be unconditionally energy stable. Our proposed algorithm is able to solve successfully the spatially heterogeneous two-phase systems with the Peng-Robinson EOS in multiple spatial dimensions, the first time in the literature. Numerical examples are provided with realistic hydrocarbon components to illustrate the theory. Furthermore, our computational results are compared with laboratory experimental data and verified with the Young-Laplace equation with good agreement. This work sets the stage for a broad extension of efficient convex-splitting semi-implicit schemes for numerical simulation of phase field models with a realistic EOS in complex geometries of multiple spatial dimensions.

  2. Numerical Solutions of Nonlinear Fractional Partial Differential Equations Arising in Spatial Diffusion of Biological Populations

    Directory of Open Access Journals (Sweden)

    Jagdev Singh

    2014-01-01

    Full Text Available The main aim of this work is to present a user friendly numerical algorithm based on homotopy perturbation Sumudu transform method for nonlinear fractional partial differential arising in spatial diffusion of biological populations in animals. The movements are made generally either by mature animals driven out by invaders or by young animals just reaching maturity moving out of their parental territory to establish breeding territory of their own. The homotopy perturbation Sumudu transform method is a combined form of the Sumudu transform method and homotopy perturbation method. The obtained results are compared with Sumudu decomposition method. The numerical solutions obtained by the proposed method indicate that the approach is easy to implement and accurate. These results reveal that the proposed method is computationally very attractive.

  3. Calculating the vertex unknowns of nine point scheme on quadrilateral meshes for diffusion equation

    Institute of Scientific and Technical Information of China (English)

    YUAN GuangWei; SHENG ZhiQiang

    2008-01-01

    In the construction of nine point scheme, both vertex unknowns and cell-centered unknowns are introduced, and the vertex unknowns are usually eliminated by using the interpolation of neighboring cell-centered unknowns, which often leads to lose accuracy. Instead of using interpolation,here we propose a different method of calculating the vertex unknowns of nine point scheme, which are solved independently on a new generated mesh. This new mesh is a Voronoi mesh based on the vertexes of primary mesh and some additional points on the interface. The advantage of this method is that it is particularly suitable for solving diffusion problems with discontinuous coefficients on highly distorted meshes, and it leads to a symmetric positive definite matrix. We prove that the method has first-order convergence on distorted meshes. Numerical experiments show that the method obtains nearly second-order accuracy on distorted meshes.

  4. Calculating the vertex unknowns of nine point scheme on quadrilateral meshes for diffusion equation

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    In the construction of nine point scheme,both vertex unknowns and cell-centered unknowns are introduced,and the vertex unknowns are usually eliminated by using the interpolation of neighboring cell-centered unknowns,which often leads to lose accuracy.Instead of using interpolation,here we propose a different method of calculating the vertex unknowns of nine point scheme,which are solved independently on a new generated mesh.This new mesh is a Vorono¨i mesh based on the vertexes of primary mesh and some additional points on the interface.The advantage of this method is that it is particularly suitable for solving diffusion problems with discontinuous coeffcients on highly distorted meshes,and it leads to a symmetric positive definite matrix.We prove that the method has first-order convergence on distorted meshes.Numerical experiments show that the method obtains nearly second-order accuracy on distorted meshes.

  5. A Parallel Algorithm for the Two-Dimensional Time Fractional Diffusion Equation with Implicit Difference Method

    Directory of Open Access Journals (Sweden)

    Chunye Gong

    2014-01-01

    Full Text Available It is very time consuming to solve fractional differential equations. The computational complexity of two-dimensional fractional differential equation (2D-TFDE with iterative implicit finite difference method is O(MxMyN2. In this paper, we present a parallel algorithm for 2D-TFDE and give an in-depth discussion about this algorithm. A task distribution model and data layout with virtual boundary are designed for this parallel algorithm. The experimental results show that the parallel algorithm compares well with the exact solution. The parallel algorithm on single Intel Xeon X5540 CPU runs 3.16–4.17 times faster than the serial algorithm on single CPU core. The parallel efficiency of 81 processes is up to 88.24% compared with 9 processes on a distributed memory cluster system. We do think that the parallel computing technology will become a very basic method for the computational intensive fractional applications in the near future.

  6. Implementation of two-equation soot flamelet models for laminar diffusion flames

    Energy Technology Data Exchange (ETDEWEB)

    Carbonell, D.; Oliva, A.; Perez-Segarra, C.D. [Centre Tecnologic de Transferencia de Calor (CTTC), Universitat Politecnica de Catalunya (UPC), ETSEIAT, Colom 11, E-08222, Terrassa (Barcelona) (Spain)

    2009-03-15

    The two-equation soot model proposed by Leung et al. [K.M. Leung, R.P. Lindstedt, W.P. Jones, Combust. Flame 87 (1991) 289-305] has been derived in the mixture fraction space. The model has been implemented using both Interactive and Non-Interactive flamelet strategies. An Extended Enthalpy Defect Flamelet Model (E-EDFM) which uses a flamelet library obtained neglecting the soot formation is proposed as a Non-Interactive method. The Lagrangian Flamelet Model (LFM) is used to represent the Interactive models. This model uses direct values of soot mass fraction from flamelet calculations. An Extended version (E-LFM) of this model is also suggested in which soot mass fraction reaction rates are used from flamelet calculations. Results presented in this work show that the E-EDFM predict acceptable results. However, it overpredicts the soot volume fraction due to the inability of this model to couple the soot and gas-phase mechanisms. It has been demonstrated that the LFM is not able to predict accurately the soot volume fraction. On the other hand, the extended version proposed here has been shown to be very accurate. The different flamelet mathematical formulations have been tested and compared using well verified reference calculations obtained solving the set of the Full Transport Equations (FTE) in the physical space. (author)

  7. A Fast O(N log N Finite Difference Method for the One-Dimensional Space-Fractional Diffusion Equation

    Directory of Open Access Journals (Sweden)

    Treena Basu

    2015-10-01

    Full Text Available This paper proposes an approach for the space-fractional diffusion equation in one dimension. Since fractional differential operators are non-local, two main difficulties arise after discretization and solving using Gaussian elimination: how to handle the memory requirement of O(N2 for storing the dense or even full matrices that arise from application of numerical methods and how to manage the significant computational work count of O(N3 per time step, where N is the number of spatial grid points. In this paper, a fast iterative finite difference method is developed, which has a memory requirement of O(N and a computational cost of O(N logN per iteration. Finally, some numerical results are shown to verify the accuracy and efficiency of the new method.

  8. Compactness result for periodic structures and its application to the homogenization of a diffusion-convection equation

    Directory of Open Access Journals (Sweden)

    Anvarbek M. Meirmanov

    2011-09-01

    Full Text Available We prove the strong compactness of the sequence ${c^{varepsilon}(mathbf{x},t}$ in $L_2(Omega_T$, $Omega_T={(mathbf{x},t:mathbf{x}inOmega subset mathbb{R}^3, tin(0,T}$, bounded in $W^{1,0}_2(Omega_T$ with the sequence of time derivative ${partial/partial tig(chi(mathbf{x}/varepsilon c^{varepsilon}ig}$ bounded in the space $L_2ig((0,T; W^{-1}_2(Omegaig$. As an application we consider the homogenization of a diffusion-convection equation with a sequence of divergence-free velocities ${mathbf{v}^{varepsilon}(mathbf{x},t}$ weakly convergent in $L_2(Omega_T$.

  9. Multiscale analysis of collective motion and decision-making in swarms: an advection-diffusion equation with memory approach.

    Science.gov (United States)

    Raghib, M; Levin, S A; Kevrekidis, I G

    2010-06-01

    We propose a (time) multiscale method for the coarse-grained analysis of collective motion and decision-making in self-propelled particle models of swarms comprising a mixture of 'naïve' and 'informed' individuals. The method is based on projecting the particle configuration onto a single 'meta-particle' that consists of the elongation of the flock together with the mean group velocity and position. We find that the collective states can be associated with the transient and asymptotic transport properties of the random walk followed by the meta-particle, which we assume follows a continuous time random walk (CTRW). These properties can be accurately predicted at the macroscopic level by an advection-diffusion equation with memory (ADEM) whose parameters are obtained from a mean group velocity time series obtained from a single simulation run of the individual-based model.

  10. Numerical Treatment of Degenerate Diffusion Equations via Feller's Boundary Classification, and Applications

    Science.gov (United States)

    Cacio, Emanuela; Cohn, Stephen E.; Spigler, Renato

    2011-01-01

    A numerical method is devised to solve a class of linear boundary-value problems for one-dimensional parabolic equations degenerate at the boundaries. Feller theory, which classifies the nature of the boundary points, is used to decide whether boundary conditions are needed to ensure uniqueness, and, if so, which ones they are. The algorithm is based on a suitable preconditioned implicit finite-difference scheme, grid, and treatment of the boundary data. Second-order accuracy, unconditional stability, and unconditional convergence of solutions of the finite-difference scheme to a constant as the time-step index tends to infinity are further properties of the method. Several examples, pertaining to financial mathematics, physics, and genetics, are presented for the purpose of illustration.

  11. Bernstein dual-Petrov-Galerkin method: application to 2D time fractional diffusion equation

    CERN Document Server

    Jani, Mostafa; Babolian, Esmail

    2016-01-01

    In this paper, we develop a dual-Petrov-Galerkin method using Bernstein polynomials. The method is then implemented for the numerical simulation of the two-dimensional subdiffusion equation. The method is based on a finite difference discretization in time and a spectral method in space utilizing a suitable compact combinations of dual Bernstein basis as the test functions and the Bernstein polynomials as the trial ones. We derive the exact sparse operational matrix of differentiation for the dual Bernstein basis which provides a matrix-based approach for spatial discretization of the problem. It is also shown that the proposed method leads to banded linear systems. Finally some numerical examples are provided to show the efficiency and accuracy of the method.

  12. Improving the accuracy of a solid spherical source radius and depth estimation using the diffusion equation in fluorescence reflectance mode

    Directory of Open Access Journals (Sweden)

    Stuker Florian

    2010-06-01

    Full Text Available Abstract Background Non-invasive planar fluorescence reflectance imaging (FRI is used for accessing physiological and molecular processes in biological tissue. This method is efficiently used to detect superficial fluorescent inclusions. FRI is based on recording the spatial radiance distribution (SRD at the surface of a sample. SRD provides information for measuring structural parameters of a fluorescent source (such as radius and depth. The aim of this article is to estimate the depth and radius of the source distribution from SRD, measured at the sample surface. For this reason, a theoretical expression for the SRD at the surface of a turbid sample arising from a spherical light source embedded in the sample, was derived using a steady-state solution of the diffusion equation with an appropriate boundary condition. Methods The SRD was approximated by solving the diffusion equation in an infinite homogeneous medium with solid spherical sources in cylindrical geometry. Theoretical predications were verified by experiments with fluorescent sources of radius 2-6 mm embedded at depths of 2-4 mm in a tissue-like phantom. Results The experimental data were compared with the theoretical values which shows that the root mean square (RMS error in depth measurement for nominal depth values d = 2, 2.5, 3, 3.5, 4 mm amounted to 17%, 5%, 2%, 1% and 5% respectively. Therefore, the average error in depth estimation was ≤ 4% for depths larger than the photon mean free path. Conclusions An algorithm is proposed that allows estimation of the location and radius of a spherical source in a homogeneous tissue-like phantom by accounting for anisotropic light scattering effect using FRI modality. Surface SRD measurement enabled accurate estimates of fluorescent depth and radius in FRI modality, and can be used as an element of a more general tomography reconstruction algorithm.

  13. An arbitrary order diffusion algorithm for solving Schrödinger equations

    Science.gov (United States)

    Chin, S. A.; Janecek, S.; Krotscheck, E.

    2009-09-01

    We describe a simple and rapidly converging code for solving the local Schrödinger equation in one, two, and three dimensions that is particularly suited for parallel computing environments. Our algorithm uses high-order imaginary time propagators to project out the eigenfunctions. A recently developed multi-product, operator splitting method permits, in principle, convergence to any even order of the time step. We review briefly the theory behind the method and discuss strategies for assessing convergence and accuracy. A forward time step, single product fourth-order factorization of the imaginary time evolution operator can also be used. Our code requires one user defined function which specifies the local external potential. We describe the definition of this function as well as input and output functionalities and convergence criteria. Compared to our previously published code [Computer Physics Communications 178 (2008) 835], the new algorithms can converge at a rate that is only limited by machine precision. Program summaryProgram title: ndsch Catalogue identifier: AEDR_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEDR_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 9282 No. of bytes in distributed program, including test data, etc.: 77 824 Distribution format: tar.gz Programming language: Fortran 90 Computer: Tested on x86, amd64, and Itanium2 architectures. Should run on any architecture providing a Fortran 90 compiler Operating system: So far tested under UNIX/Linux, Mac OSX and Windows. Any OS with a Fortran 90 compiler available should suffice RAM: 2 MB to 16 GB, depending on system size Classification: 6.10 External routines: FFTW3 ( http://www.fftw.org/), Lapack ( http://www.netlib.org/lapack/) Nature of problem: Numerical calculation of the

  14. Coupled third-order simplified spherical harmonics and diffusion equation-based fluorescence tomographic imaging of liver cancer

    Science.gov (United States)

    Chen, Xueli; Sun, Fangfang; Yang, Defu; Liang, Jimin

    2015-09-01

    For fluorescence tomographic imaging of small animals, the liver is usually regarded as a low-scattering tissue and is surrounded by adipose, kidneys, and heart, all of which have a high scattering property. This leads to a breakdown of the diffusion equation (DE)-based reconstruction method as well as a heavy computational burden for the simplified spherical harmonics equation (SPN). Coupling the SPN and DE provides a perfect balance between the imaging accuracy and computational burden. The coupled third-order SPN and DE (CSDE)-based reconstruction method is developed for fluorescence tomographic imaging. This is achieved by doubly using the CSDE for the excitation and emission processes of the fluorescence propagation. At the same time, the finite-element method and hybrid multilevel regularization strategy are incorporated in inverse reconstruction. The CSDE-based reconstruction method is first demonstrated with a digital mouse-based liver cancer simulation, which reveals superior performance compared with the SPN and DE-based methods. It is more accurate than the DE-based method and has lesser computational burden than the SPN-based method. The feasibility of the proposed approach in applications of in vivo studies is also illustrated with a liver cancer mouse-based in situ experiment, revealing its potential application in whole-body imaging of small animals.

  15. A finite volume upwind scheme for the solution of the linear advection diffusion equation with sharp gradients in multiple dimensions

    Science.gov (United States)

    Badrot-Nico, Fabiola; Brissaud, François; Guinot, Vincent

    2007-09-01

    A finite volume upwind numerical scheme for the solution of the linear advection equation in multiple dimensions on Cartesian grids is presented. The small-stencil, Modified Discontinuous Profile Method (MDPM) uses a sub-cell piecewise constant reconstruction and additional information at the cell interfaces, rather than a spatial extension of the stencil as in usual methods. This paper presents the MDPM profile reconstruction method in one dimension and its generalization and algorithm to two- and three-dimensional problems. The method is extended to the advection-diffusion equation in multiple dimensions. The MDPM is tested against the MUSCL scheme on two- and three-dimensional test cases. It is shown to give high-quality results for sharp gradients problems, although some scattering appears. For smooth gradients, extreme values are best preserved with the MDPM than with the MUSCL scheme, while the MDPM does not maintain the smoothness of the original shape as well as the MUSCL scheme. However the MDPM is proved to be more efficient on coarse grids in terms of error and CPU time, while on fine grids the MUSCL scheme provides a better accuracy at a lower CPU.

  16. A comparative study of penalization and phase field methods for the solution of the diffusion equation in complex geometries

    Science.gov (United States)

    Tauriello, Gerardo; Koumoutsakos, Petros

    2015-02-01

    We present a comparative study of penalization and phase field methods for the solution of the diffusion equation in complex geometries embedded using simple Cartesian meshes. The two methods have been widely employed to solve partial differential equations in complex and moving geometries for applications ranging from solid and fluid mechanics to biology and geophysics. Their popularity is largely due to their discretization on Cartesian meshes thus avoiding the need to create body-fitted grids. At the same time, there are questions regarding their accuracy and it appears that the use of each one is confined by disciplinary boundaries. Here, we compare penalization and phase field methods to handle problems with Neumann and Robin boundary conditions. We discuss extensions for Dirichlet boundary conditions and in turn compare with methods that have been explicitly designed to handle Dirichlet boundary conditions. The accuracy of all methods is analyzed using one and two dimensional benchmark problems such as the flow induced by an oscillating wall and by a cylinder performing rotary oscillations. This comparative study provides information to decide which methods to consider for a given application and their incorporation in broader computational frameworks. We demonstrate that phase field methods are more accurate than penalization methods on problems with Neumann boundary conditions and we present an error analysis explaining this result.

  17. Evolution of the initial box-signal for time-fractional diffusion-wave equation in a case of different spatial dimensions

    Science.gov (United States)

    Povstenko, Y. Z.

    2010-11-01

    In the case of time-fractional diffusion-wave equation considered in the spatial domain -∞Mainardi [F. Mainardi, Fractional relaxation-oscillation and fractional diffusion-wave phenomena, Chaos Solitons Fractals 7 (1996) 1461-1477]. In the present paper, we supplement Mainardi’s results with additional numerical calculations illustrating the behavior of the solution and solve the corresponding problems for axisymmetric and central symmetric cases. The obtained results show an unusual behavior of solutions.

  18. The Markov branching random walk and systems of reaction-diffusion (Kolmogorov-Petrovskii-Piskunov) equations

    Science.gov (United States)

    Kelbert, M. Ya.; Suhov, Yu. M.

    1995-02-01

    A general model of a branching random walk in R 1 is considered, with several types of particles, where the branching occurs with probabilities determined by the type of a parent particle. Each new particle starts moving from the place where it was born, independently of other particles. The distribution of the displacement of a particle, before it splits, depends on its type. A necessary and sufficient condition is given for the random variable 220_2005_Article_BF02101538_TeX2GIFE1.gif X^0 = mathop {sup max}limits_{ n ≥q 0 1 ≤q k ≤q N_n } X_{n,k} to be finite. Here, X n, k is the position of the k th particle in the n th generation, N n is the number of particles in the n th generation (regardless of their type). It turns out that the distribution of X 0 gives a minimal solution to a natural system of stochastic equations which has a linearly ordered continuum of other solutions. The last fact is used for proving the existence of a monotone travelling-wave solution to systems of coupled non-linear parabolic PDE's.

  19. Spreading speeds for one-dimensional monostable reaction-diffusion equations

    Science.gov (United States)

    Berestycki, Henri; Nadin, Grégoire

    2012-11-01

    We establish in this article spreading properties for the solutions of equations of the type ∂tu - a(x)∂xxu - q(x)∂xu = f(x, u), where a, q, f are only assumed to be uniformly continuous and bounded in x, the nonlinearity f is of monostable Kolmogorov, Petrovsky, and Piskunov type between two steady states 0 and 1 and the initial datum is compactly supported. Using homogenization techniques, we construct two speeds wle overline{w} such that lim _{trArr +infty }sup _{0le xle wt} |u(t,x)-1| = 0 for all win (0,w) and lim _{trArr +infty } sup _{x ge wt} |u(t,x)| =0 for all w>overline{w}. These speeds are characterized in terms of two new notions of generalized principal eigenvalues for linear elliptic operators in unbounded domains. In particular, we derive the exact spreading speed when the coefficients are random stationary ergodic, almost periodic or asymptotically almost periodic (where overline{w}=w).

  20. Large Time Behavior of a Nonlocal Diffusion Equation with Absorption and Bounded Initial Data

    CERN Document Server

    Terra, Joana

    2010-01-01

    We study the large time behavior of nonnegative solutions of the Cauchy problem $u_t=\\int J(x-y)(u(y,t)-u(x,t))\\,dy-u^p$, $u(x,0)=u_0(x)\\in L^\\infty$, where $|x|^{\\alpha}u_0(x)\\to A>0$ as $|x|\\to\\infty$. One of our main goals is the study of the critical case $p=1+2/\\alpha$ for $0<\\alphaequation with absorption with initial datum $U(x,0)=C_{A,N}|x|^{-\\alpha}$. Our proof, involving sequences of rescalings of the solution, allows us to establish also the large time behavior of solutions having more general nonintegrable initial data $u_0$ in the supercritical case and also in the critical case ($p=1+2/N$) for bounded and integrable $u_0$.

  1. Fluctuation analysis of time-averaged mean-square displacement for the Langevin equation with time-dependent and fluctuating diffusivity.

    Science.gov (United States)

    Uneyama, Takashi; Miyaguchi, Tomoshige; Akimoto, Takuma

    2015-09-01

    The mean-square displacement (MSD) is widely utilized to study the dynamical properties of stochastic processes. The time-averaged MSD (TAMSD) provides some information on the dynamics which cannot be extracted from the ensemble-averaged MSD. In particular, the relative standard deviation (RSD) of the TAMSD can be utilized to study the long-time relaxation behavior. In this work, we consider a class of Langevin equations which are multiplicatively coupled to time-dependent and fluctuating diffusivities. Various interesting dynamics models such as entangled polymers and supercooled liquids can be interpreted as the Langevin equations with time-dependent and fluctuating diffusivities. We derive a general formula for the RSD of the TAMSD for the Langevin equation with the time-dependent and fluctuating diffusivity. We show that the RSD can be expressed in terms of the correlation function of the diffusivity. The RSD exhibits the crossover at the long time region. The crossover time is related to a weighted average relaxation time for the diffusivity. Thus the crossover time gives some information on the relaxation time of fluctuating diffusivity which cannot be extracted from the ensemble-averaged MSD. We discuss the universality and possible applications of the formula via some simple examples.

  2. Modeling ant foraging: A chemotaxis approach with pheromones and trail formation.

    Science.gov (United States)

    Amorim, Paulo

    2015-11-21

    We consider a continuous mathematical description of a population of ants and simulate numerically their foraging behavior using a system of partial differential equations of chemotaxis type. We show that this system accurately reproduces observed foraging behavior, especially spontaneous trail formation and efficient removal of food sources. We show through numerical experiments that trail formation is correlated with efficient food removal. Our results illustrate the emergence of trail formation from simple modeling principles.

  3. A unified nonlinear fractional equation of the diffusion-controlled surfactant adsorption: Reappraisal and new solution of the Ward–Tordai problem

    Directory of Open Access Journals (Sweden)

    Jordan Hristov

    2016-01-01

    Full Text Available The article addresses a reappraisal of the famous Ward–Tordai equation describing the equilibrium of surfactants at air/liquid interfaces under diffusion control. The new derivation is entirely developed in the light of fractional calculus. The unified approach demonstrates that this equation can be clearly reformulated as a nonlinear ordinary time-fractional equation of order 1/2. The work formulates versions with different isotherms. A simple solution of the case with the Henry’s isotherm and a discussion of a Cauchy problem involving the Freundlich isotherm are provided.

  4. 一类含Hysteresis微分子算子的反应扩散方程%A CLASS OF REACTION-DIFFUSION EQUATIONS WITH HYSTERESIS DIFFERENTIAL OPERATOR

    Institute of Scientific and Technical Information of China (English)

    徐龙封

    2002-01-01

    In this paper, the classical and weak derivatives with respect to spatial variab le of a class of hysteresis functional are discussed. Some conclusions about sol utions of a class of reaction-diffusion equations with hysteresis differential operator are given.

  5. Chemotaxis: new role for Ras revealed

    Institute of Scientific and Technical Information of China (English)

    Jianshe Yan; Dale Hereld; Tian Jin

    2010-01-01

    @@ A recent study of chemotaxis revealed a new role for the proto-oncogene Ras in the social ameba Dictyostelium discoideum.Chemotaxis,the directional movement of cells toward chemokines and other chemoattractants,plays critical roles in diverse physiological processes,such as mobilization of immune cells to fight invading microorganisms,targeting of metastatic cancer cells to specific tissues,and guidance of sperm cells to ova during fertilization.This work,published in the July 26 issue of The Journal of Cell Biology,was conducted in Dr.Devreotes' lab at John Hopkins University and Dr.Parent's lab at National Cancer Institute.This research team demonstrated that RasC functions as an upstream regulator of TORC2 and thereby governs the effects of TORC2-PKB signaling on the cytoskeleton and cell migration.

  6. Chemotaxis of crawling and swimming Caenorhabditis Elegans

    Science.gov (United States)

    Patel, Amar; Bilbao, Alejandro; Padmanabhan, Venkat; Khan, Zeina; Armstrong, Andrew; Rumbaugh, Kendra; Vanapalli, Siva; Blawzdziewicz, Jerzy

    2012-11-01

    A soil-dwelling nematode Caenorhabditis Elegans efficiently navigates through complex environments, responding to chemical signals to find food or avoid danger. According to previous studies, the nematode uses both gradual-turn and run-and-tumble strategies to move in the direction of the increasing concentration of chemical attractants. We show that both these chemotaxis strategies can be described using our kinematic model [PLoS ONE, 7: e40121 (2012)] in which harmonic-curvature modes represent elementary nematode movements. In our chemotaxis model, the statistics of mode changes is governed by the time history of the chemoattractant concentration at the position of the nematode head. We present results for both nematodes crawling without transverse slip and for swimming nematodes. This work was supported by NSF grant No. CBET 1059745.

  7. A two-zone method with an enhanced accuracy for a numerical solution of the diffusion equation

    Science.gov (United States)

    Cheon, Jin-Sik; Koo, Yang-Hyun; Lee, Byung-Ho; Oh, Je-Yong; Sohn, Dong-Seong

    2006-12-01

    A variational principle is applied to the diffusion equation to numerically obtain the fission gas release from a spherical grain. The two-zone method, originally proposed by Matthews and Wood, is modified to overcome its insufficient accuracy for a low release. The results of the variational approaches are examined by observing the gas concentration along the grain radius. At the early stage, the concentration near the grain boundary is higher than that at the inner points of the grain in the cases of the two-zone method as well as the finite element analysis with the number of the elements at as many as 10. The accuracy of the two-zone method is considerably enhanced by relocating the nodal points of the two zones. The trial functions are derived as a function of the released fraction. During the calculations, the number of degrees of freedom needs to be reduced to guarantee physically admissible concentration profiles. Numerical verifications are performed extensively. By taking a computational time comparable to the algorithm by Forsberg and Massih, the present method provides a solution with reasonable accuracy in the whole range of the released fraction.

  8. Analytical solutions of one-dimensional advection–diffusion equation with variable coefficients in a finite domain

    Indian Academy of Sciences (India)

    Atul Kumar; Dilip Kumar Jaiswal; Naveen Kumar

    2009-10-01

    Analytical solutions are obtained for one-dimensional advection –diffusion equation with variable coefficients in a longitudinal finite initially solute free domain,for two dispersion problems.In the first one,temporally dependent solute dispersion along uniform flow in homogeneous domain is studied.In the second problem the velocity is considered spatially dependent due to the inhomogeneity of the domain and the dispersion is considered proportional to the square of the velocity. The velocity is linearly interpolated to represent small increase in it along the finite domain.This analytical solution is compared with the numerical solution in case the dispersion is proportional to the same linearly interpolated velocity.The input condition is considered continuous of uniform and of increasing nature both.The analytical solutions are obtained by using Laplace transformation technique.In that process new independent space and time variables have been introduced. The effects of the dependency of dispersion with time and the inhomogeneity of the domain on the solute transport are studied separately with the help of graphs.

  9. A Finite Difference Scheme on a Priori Adapted Meshes for a Singularly Perturbed Parabolic Convection-Diffusion Equation

    Institute of Scientific and Technical Information of China (English)

    Grigory I. Shishkin

    2008-01-01

    A boundary value problem is considered for a singularly perturbed parabolic convection-diffusion equation; we construct a finite difference scheme on a priori (se-quentially) adapted meshes and study its convergence. The scheme on a priori adapted meshes is constructed using a majorant function for the singular component of the discrete solution, which allows us to find a priori a subdomain where the computed solution requires a further improvement. This subdomain is defined by the perturbation parameter ε, the step-size of a uniform mesh in x, and also by the required accuracy of the discrete solution and the prescribed number of refinement iterations K for im-proving the solution. To solve the discrete problems aimed at the improvement of the solution, we use uniform meshes on the subdomains. The error of the numerical so-lution depends weakly on the parameter ε. The scheme converges almost ε-uniformly, precisely, under the condition N-1 = o(ev), where N denotes the number of nodes in the spatial mesh, and the value v=v(K) can be chosen arbitrarily small for suitable K.

  10. Analytical solution of advection–diffusion equation in heterogeneous infinite medium using Green’s function method

    Indian Academy of Sciences (India)

    Abhishek Sanskrityayn; Naveen Kumar

    2016-12-01

    Some analytical solutions of one-dimensional advection–diffusion equation (ADE) with variable dispersion coefficient and velocity are obtained using Green’s function method (GFM). The variability attributes to the heterogeneity of hydro-geological media like river bed or aquifer in more general ways than that in the previous works. Dispersion coefficient is considered temporally dependent, while velocity is considered spatially and temporally dependent. The spatial dependence is considered to be linear and temporal dependence is considered to be of linear, exponential and asymptotic. The spatio-temporal dependence of velocity is considered in three ways. Results of previous works are also derived validating the results of the present work. To use GFM, a moving coordinate transformation is developed through which this ADE is reduced into a form, whose analytical solution is already known. Analytical solutions are obtained for the pollutant’s mass dispersion from an instantaneous point source as well as from a continuous point source in a heterogeneous medium. The effect of such dependence on the mass transport is explained through the illustrations of the analytical solutions.

  11. μ-Slide Chemotaxis: A new chamber for long-term chemotaxis studies

    Directory of Open Access Journals (Sweden)

    Zantl Roman

    2011-05-01

    Full Text Available Abstract Background Effective tools for measurement of chemotaxis are desirable since cell migration towards given stimuli plays a crucial role in tumour metastasis, angiogenesis, inflammation, and wound healing. As for now, the Boyden chamber assay is the longstanding "gold-standard" for in vitro chemotaxis measurements. However, support for live cell microscopy is weak, concentration gradients are rather steep and poorly defined, and chemotaxis cannot be distinguished from migration in a single experiment. Results Here, we describe a novel all-in-one chamber system for long-term analysis of chemotaxis in vitro that improves upon many of the shortcomings of the Boyden chamber assay. This chemotaxis chamber was developed to provide high quality microscopy, linear concentration gradients, support for long-term assays, and observation of slowly migrating cells via video microscopy. AlexaFluor 488 dye was used to demonstrate the establishment, shape and time development of linear chemical gradients. Human fibrosarcoma cell line HT1080 and freshly isolated human umbilical vein endothelial cells (HUVEC were used to assess chemotaxis towards 10% fetal calf serum (FCS and FaDu cells' supernatant. Time-lapse video microscopy was conducted for 48 hours, and cell tracking and analysis was performed using ImageJ plugins. The results disclosed a linear steady-state gradient that was reached after approximately 8 hours and remained stable for at least 48 hours. Both cell types were chemotactically active and cell movement as well as cell-to-cell interaction was assessable. Conclusions Compared to the Boyden chamber assay, this innovative system allows for the generation of a stable gradient for a much longer time period as well as for the tracking of cell locomotion along this gradient and over long distances. Finally, random migration can be distinguished from primed and directed migration along chemotactic gradients in the same experiment, a feature, which

  12. A population-level model from the microscopic dynamics in Escherichia coli chemotaxis via Langevin approximation

    Institute of Scientific and Technical Information of China (English)

    He Zhuo-Ran; Wu Tai-Lin; Ouyang Qi; Tu Yu-Hai

    2012-01-01

    Recent extensive studies of Escherichia coli (E.coli) chemotaxis have achieved a deep understanding of its microscopic control dynamics.As a result,various quantitatively predictive models have been developed to describe the chemotactic behavior of E.coli motion.However,a population-level partial differential equation (PDE) that rationally incorporates such microscopic dynamics is still insufficient.Apart from the traditional Keller-Segel (K-S) equation,many existing population-level models developed from the microscopic dynamics are integro-PDEs.The difficulty comes mainly from cell tumbles which yield a velocity jumping process.Here,we propose a Langevin approximation method that avoids such a difficulty without appreciable loss of precision.The resulting model not only quantitatively reproduces the results of pathway-based single-cell simulators,but also provides new inside information on the mechanism of E.coli chemotaxis.Our study demonstrates a possible alternative in establishing a simple population-level model that allows for the complex microscopic mechanisms in bacterial chemotaxis.

  13. Computational modeling reveals that a combination of chemotaxis and differential adhesion leads to robust cell sorting during tissue patterning.

    Directory of Open Access Journals (Sweden)

    Rui Zhen Tan

    Full Text Available Robust tissue patterning is crucial to many processes during development. The "French Flag" model of patterning, whereby naïve cells in a gradient of diffusible morphogen signal adopt different fates due to exposure to different amounts of morphogen concentration, has been the most widely proposed model for tissue patterning. However, recently, using time-lapse experiments, cell sorting has been found to be an alternative model for tissue patterning in the zebrafish neural tube. But it remains unclear what the sorting mechanism is. In this article, we used computational modeling to show that two mechanisms, chemotaxis and differential adhesion, are needed for robust cell sorting. We assessed the performance of each of the two mechanisms by quantifying the fraction of correct sorting, the fraction of stable clusters formed after correct sorting, the time needed to achieve correct sorting, and the size variations of the cells having different fates. We found that chemotaxis and differential adhesion confer different advantages to the sorting process. Chemotaxis leads to high fraction of correct sorting as individual cells will either migrate towards or away from the source depending on its cell type. However after the cells have sorted correctly, there is no interaction among cells of the same type to stabilize the sorted boundaries, leading to cell clusters that are unstable. On the other hand, differential adhesion results in low fraction of correct clusters that are more stable. In the absence of morphogen gradient noise, a combination of both chemotaxis and differential adhesion yields cell sorting that is both accurate and robust. However, in the presence of gradient noise, the simple combination of chemotaxis and differential adhesion is insufficient for cell sorting; instead, chemotaxis coupled with delayed differential adhesion is required to yield optimal sorting.

  14. Highlighting the role of Ras and Rap during Dictyostelium chemotaxis

    NARCIS (Netherlands)

    Kortholt, Arjan; van Haastert, Peter J. M.

    2008-01-01

    Chemotaxis, the directional movement towards a chemical compound, is an essential property of many cells and has been linked to the development and progression of many diseases. Eukaryotic chemotaxis is a complex process involving gradient sensing, cell polarity, remodelling of the cytoskeleton and

  15. Chemotaxis signaling systems in model beneficial plant-bacteria associations.

    Science.gov (United States)

    Scharf, Birgit E; Hynes, Michael F; Alexandre, Gladys M

    2016-04-01

    Beneficial plant-microbe associations play critical roles in plant health. Bacterial chemotaxis provides a competitive advantage to motile flagellated bacteria in colonization of plant root surfaces, which is a prerequisite for the establishment of beneficial associations. Chemotaxis signaling enables motile soil bacteria to sense and respond to gradients of chemical compounds released by plant roots. This process allows bacteria to actively swim towards plant roots and is thus critical for competitive root surface colonization. The complete genome sequences of several plant-associated bacterial species indicate the presence of multiple chemotaxis systems and a large number of chemoreceptors. Further, most soil bacteria are motile and capable of chemotaxis, and chemotaxis-encoding genes are enriched in the bacteria found in the rhizosphere compared to the bulk soil. This review compares the architecture and diversity of chemotaxis signaling systems in model beneficial plant-associated bacteria and discusses their relevance to the rhizosphere lifestyle. While it is unclear how controlling chemotaxis via multiple parallel chemotaxis systems provides a competitive advantage to certain bacterial species, the presence of a larger number of chemoreceptors is likely to contribute to the ability of motile bacteria to survive in the soil and to compete for root surface colonization.

  16. On the Role of Diffusion Behaviors in Stability Criterion for p-Laplace Dynamical Equations with Infinite Delay and Partial Fuzzy Parameters under Dirichlet Boundary Value

    OpenAIRE

    Ruofeng Rao; Zhilin Pu; Shouming Zhong; Jialin Huang

    2013-01-01

    By the way of Lyapunov-Krasovskii functional approach and some variational methods in the Sobolev space ${W}_{0}^{1,p}\\left(Ω\\right)$ , a global asymptotical stability criterion for p-Laplace partial differential equations with partial fuzzy parameters is derived under Dirichlet boundary condition, which gives a positive answer to an open problem proposed in some related literatures. Different from many previous related literatures, the nonlinear p-Laplace diffusion item plays its role in the...

  17. Recent developments in microfluidics-based chemotaxis studies.

    Science.gov (United States)

    Wu, Jiandong; Wu, Xun; Lin, Francis

    2013-07-07

    Microfluidic devices can better control cellular microenvironments compared to conventional cell migration assays. Over the past few years, microfluidics-based chemotaxis studies showed a rapid growth. New strategies were developed to explore cell migration in manipulated chemical gradients. In addition to expanding the use of microfluidic devices for a broader range of cell types, microfluidic devices were used to study cell migration and chemotaxis in complex environments. Furthermore, high-throughput microfluidic chemotaxis devices and integrated microfluidic chemotaxis systems were developed for medical and commercial applications. In this article, we review recent developments in microfluidics-based chemotaxis studies and discuss the new trends in this field observed over the past few years.

  18. Role of chemotaxis in the transport of bacteria through saturated porous media

    Science.gov (United States)

    Ford, R.M.; Harvey, R.W.

    2007-01-01

    Populations of chemotactic bacteria are able to sense and respond to chemical gradients in their surroundings and direct their migration toward increasing concentrations of chemicals that they perceive to be beneficial to their survival. It has been suggested that this phenomenon may facilitate bioremediation processes by bringing bacteria into closer proximity to the chemical contaminants that they degrade. To determine the significance of chemotaxis in these processes it is necessary to quantify the magnitude of the response and compare it to other groundwater processes that affect the fate and transport of bacteria. We present a systematic approach toward quantifying the chemotactic response of bacteria in laboratory scale experiments by starting with simple, well-defined systems and gradually increasing their complexity. Swimming properties of individual cells were assessed from trajectories recorded by a tracking microscope. These properties were used to calculate motility and chemotaxis coefficients of bacterial populations in bulk aqueous media which were compared to experimental results of diffusion studies. Then effective values of motility and chemotaxis coefficients in single pores, pore networks and packed columns were analyzed. These were used to estimate the magnitude of the chemotactic response in porous media and to compare with dispersion coefficients reported in the field. This represents a compilation of many studies over a number of years. While there are certainly limitations with this approach for ultimately quantifying motility and chemotaxis in granular aquifer media, it does provide insight into what order of magnitude responses are possible and which characteristics of the bacteria and media are expected to be important. ?? 2006 Elsevier Ltd. All rights reserved.

  19. A Model of Drosophila Larva Chemotaxis.

    Science.gov (United States)

    Davies, Alex; Louis, Matthieu; Webb, Barbara

    2015-11-01

    Detailed observations of larval Drosophila chemotaxis have characterised the relationship between the odour gradient and the runs, head casts and turns made by the animal. We use a computational model to test whether hypothesised sensorimotor control mechanisms are sufficient to account for larval behaviour. The model combines three mechanisms based on simple transformations of the recent history of odour intensity at the head location. The first is an increased probability of terminating runs in response to gradually decreasing concentration, the second an increased probability of terminating head casts in response to rapidly increasing concentration, and the third a biasing of run directions up concentration gradients through modulation of small head casts. We show that this model can be tuned to produce behavioural statistics comparable to those reported for the larva, and that this tuning results in similar chemotaxis performance to the larva. We demonstrate that each mechanism can enable odour approach but the combination of mechanisms is most effective, and investigate how these low-level control mechanisms relate to behavioural measures such as the preference indices used to investigate larval learning behaviour in group assays.

  20. A Model of Drosophila Larva Chemotaxis.

    Directory of Open Access Journals (Sweden)

    Alex Davies

    2015-11-01

    Full Text Available Detailed observations of larval Drosophila chemotaxis have characterised the relationship between the odour gradient and the runs, head casts and turns made by the animal. We use a computational model to test whether hypothesised sensorimotor control mechanisms are sufficient to account for larval behaviour. The model combines three mechanisms based on simple transformations of the recent history of odour intensity at the head location. The first is an increased probability of terminating runs in response to gradually decreasing concentration, the second an increased probability of terminating head casts in response to rapidly increasing concentration, and the third a biasing of run directions up concentration gradients through modulation of small head casts. We show that this model can be tuned to produce behavioural statistics comparable to those reported for the larva, and that this tuning results in similar chemotaxis performance to the larva. We demonstrate that each mechanism can enable odour approach but the combination of mechanisms is most effective, and investigate how these low-level control mechanisms relate to behavioural measures such as the preference indices used to investigate larval learning behaviour in group assays.

  1. On an evaluation of the continuous flux and dominant Eigenvalue problem for the steady state multi-group multi-layer neutron diffusion equation

    Energy Technology Data Exchange (ETDEWEB)

    Ceolin, C.; Schramm, M.; Vilhena, M.T.; Bodmann, B.E.J., E-mail: celina.ceolin@gmail.com, E-mail: marceloschramm@hotmail.com, E-mail: vilhena@pq.cnpq.br, E-mail: bardo.bodmann@ufrgs.br [Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, RS (Brazil). Programa de Pos-Graduacao em Engenharia Mecanica

    2013-07-01

    In this work the authors solved the steady state neutron diffusion equation for a multi-layer slab assuming the multi-group energy model. The method to solve the equation system is based on a expansion in Taylor Series, which was proven to be useful in [1] [2] [3]. The results obtained can be used as initial condition for neutron space kinetics problems. The neutron scalar flux was expanded in a power series, and the coefficients were found by using the ordinary differential equation and the boundary and interface conditions. The effective multiplication factor k was evaluated using the power method [4]. We divided the domain into several slabs to guarantee the convergence with a low truncation order. We present the formalism together with some numerical simulations. (author)

  2. On an analytical evaluation of the flux and dominant eigenvalue problem for the steady state multi-group multi-layer neutron diffusion equation

    Energy Technology Data Exchange (ETDEWEB)

    Ceolin, Celina; Schramm, Marcelo; Bodmann, Bardo Ernst Josef; Vilhena, Marco Tullio Mena Barreto de [Universidade Federal do Rio Grande do Sul, Porto Alegre (Brazil). Programa de Pos-Graduacao em Engenharia Mecanica; Bogado Leite, Sergio de Queiroz [Comissao Nacional de Energia Nuclear, Rio de Janeiro (Brazil)

    2014-11-15

    In this work the authors solved the steady state neutron diffusion equation for a multi-layer slab assuming the multi-group energy model. The method to solve the equation system is based on an expansion in Taylor Series resulting in an analytical expression. The results obtained can be used as initial condition for neutron space kinetics problems. The neutron scalar flux was expanded in a power series, and the coefficients were found by using the ordinary differential equation and the boundary and interface conditions. The effective multiplication factor k was evaluated using the power method. We divided the domain into several slabs to guarantee the convergence with a low truncation order. We present the formalism together with some numerical simulations.

  3. Dynamic response of shock waves in transonic diffuser and supersonic inlet - An analysis with the Navier-Stokes equations and adaptive grid

    Science.gov (United States)

    Liu, N.-S.; Shamroth, S. J.; Mcdonald, H.

    1984-01-01

    An existing method which solves the multi-dimensional ensemble-averaged compressible time-dependent Navier-Stokes equations in conjunction with mixing length turbulence model and shock capturing technique has been extended to include the shock-tracking adaptive grid systems. The numerical scheme for solving the governing equations is based on a linearized block implicit approach. The effects of grid-motion and grid-distribution on the calculated flow solutions have been studied in relative detail and this is carried out in the context of physically steady, shocked flows computed with non-stationary grids. Subsequently, the unsteady dynamics of the flows occurring in a supercritically operated transonic diffuser and a mixed compression supersonic inlet have been investigated with the adaptive grid systems by solving the Navier-Stokes equations.

  4. Stochastic partial differential equations

    CERN Document Server

    Chow, Pao-Liu

    2014-01-01

    Preliminaries Introduction Some Examples Brownian Motions and Martingales Stochastic Integrals Stochastic Differential Equations of Itô Type Lévy Processes and Stochastic IntegralsStochastic Differential Equations of Lévy Type Comments Scalar Equations of First Order Introduction Generalized Itô's Formula Linear Stochastic Equations Quasilinear Equations General Remarks Stochastic Parabolic Equations Introduction Preliminaries Solution of Stochastic Heat EquationLinear Equations with Additive Noise Some Regularity Properties Stochastic Reaction-Diffusion Equations Parabolic Equations with Grad

  5. A Sensitive Chemotaxis Assay Using a Novel Microfluidic Device

    Directory of Open Access Journals (Sweden)

    Chen Zhang

    2013-01-01

    Full Text Available Existing chemotaxis assays do not generate stable chemotactic gradients and thus—over time—functionally measure only nonspecific random motion (chemokinesis. In comparison, microfluidic technology has the capacity to generate a tightly controlled microenvironment that can be stably maintained for extended periods of time and is, therefore, amenable to adaptation for assaying chemotaxis. We describe here a novel microfluidic device for sensitive assay of cellular migration and show its application for evaluating the chemotaxis of smooth muscle cells in a chemokine gradient.

  6. Chemotaxis to Excitable Waves in Dictyostelium Discoideum

    Science.gov (United States)

    Bhowmik, Arpan; Rappel, Wouter-Jan; Levine, Herbert

    In recent years, there have been significant advances in our understanding of the mechanisms underlying chemically directed motility by eukaryotic cells such as Dictyostelium. In particular, the LEGI model has proven capable of providing a framework for quantitatively explaining many experiments that present Dictyostelium cells with tailored chemical stimuli and monitor their subsequent polarization. Here, we couple the LEGI approach to an excitable medium model of the cAMP wave-field that is self-generated by the cells and investigate the extent to which this class of models enables accurate chemotaxis to the cAMP waveforms expected in vivo. Our results indicate that the ultra-sensitive version of the model does an excellent job in providing natural wave rectification, thereby providing a compelling solution to the ``back-of-the-wave paradox'' during cellular aggregation. This work was supported by National Institutes of Health Grant P01 GM078586.

  7. A new modification to homotopy perturbation method combined with Fourier transform for solving nonlinear Cauchy reaction diffusion equation

    Science.gov (United States)

    Nourazar, S. S.; Nazari-Golshan, A.

    2015-01-01

    A hybrid of Fourier transform and new modified homotopy perturbation method based on the Adomian method is developed to solve linear and nonlinear partial differential equations. The Taylor series expansion is used to expand nonlinear term of partial differential equation and the Adomian polynomial incorporated into homotopy perturbation method combined with Fourier transform, is used to solve partial differential equations. Three case study problems, partial differential equations, are handled using homotopy perturbation method and Fourier transform modified homotopy perturbation method (FTMHPM). Results obtained are compared with exact solution. The comparison reveals that for same components of recursive sequences, errors associated with Fourier transform modified method are much less than the other and are valid for a large range of x-axis coordinates.

  8. 空间离散Fitz-Hugh-Nagumo方程和双稳反应扩散方程组的渐近行为%Asymptotic Behavioui of Spatial Discretized Fitz-Hugh-Nagumo Equations and Bistable Reaction Diffusion Equations

    Institute of Scientific and Technical Information of China (English)

    黄建华; 路钢

    2000-01-01

    In this paper, we discuss the asymptotic behaviour of spatial disretization of Fitz-Hugh-Nagumo equations and bistable reaction diffusion equations with Neumamn boundary conditions, and the invariant regions, absorbing sets and global attractors are obtained and the estimation of Hausdorff dimension is given.%本文利用扰动方法,研究了Fitz-Hugh-Nagumo方程和双稳反应扩散方程在Neuman边值条件下空间离散后的渐近行为,证明了两个格微分方程组的不变区域、吸引集和整体吸引子的存在性,并给出了离散Fitz-Hugh-Nagumo方程的整体吸引子的Hausdorff维数估计.

  9. [Model of ion diffusion in synaptic cleft based on stochastical integration of langevin equation at dielectric friction approximation].

    Science.gov (United States)

    Turchenkov, D A; Boronovskiĭ, S E; Nartsissov, Ia R

    2013-01-01

    Changes in the state of the central nervous system, leading to the development of pathological processes, are directly associated with a state of neurons, particularly with their conductivity in synaptic cleft region. The synaptic flexibility plays a key role in environmental adaptation, which manifests in dynamic changes of synaptic properties. However more attention was paid rather to their functional, than physical-chemical properties. We present the results of simulation of potential determining ions in synaptic contact area using Langevin dynamics. Diffusion and self-diffusion coefficients were calculated. It is shown that the range of variability of the diffusion coefficient of ions in perimembrane space, caused by variable viscosity and dielectric conductivity of electrolyte can reach 20%. These physical-chemical synaptic parameters can be considered as relevant for synaptic flexibility.

  10. Three-dimensional chemotaxis model for a crawling neutrophil.

    Science.gov (United States)

    Song, Jihwan; Kim, Dongchoul

    2010-11-01

    Chemotactic cell migration is a fundamental phenomenon in complex biological processes. A rigorous understanding of the chemotactic mechanism of crawling cells has important implications for various medical and biological applications. In this paper, we propose a three-dimensional model of a single crawling cell to study its chemotaxis. A single-cell study of chemotaxis has an advantage over studies of a population of cells in that it provides a clearer observation of cell migration, which leads to more accurate assessments of chemotaxis. The model incorporates the surface energy of the cell and the interfacial interaction between the cell and substrate. The semi-implicit Fourier spectral method is applied to achieve high efficiency and numerical stability. The simulation results provide the kinetic and morphological traits of a crawling cell during chemotaxis.

  11. Dispatch. Dictyostelium chemotaxis: fascism through the back door?

    Science.gov (United States)

    Insall, Robert

    2003-04-29

    Aggregating Dictyostelium cells secrete cyclic AMP to attract their neighbours by chemotaxis. It has now been shown that adenylyl cyclase is enriched in the rear of cells, and this localisation is required for normal aggregation.

  12. HYPERBOLIC-PARABOLIC CHEMOTAXIS SYSTEM WITH NONLINEAR PRODUCT TERMS

    Institute of Scientific and Technical Information of China (English)

    Chen Hua; Wu Shaohua

    2008-01-01

    We prove the local existence and uniqueness of week solution of the hyperbolic-parabolic Chemotaxis system with some nonlinear product terms. For one dimensional case, we prove also the global existence and uniqueness of the solution for the problem.

  13. On the Role of Diffusion Behaviors in Stability Criterion for p-Laplace Dynamical Equations with Infinite Delay and Partial Fuzzy Parameters under Dirichlet Boundary Value

    Directory of Open Access Journals (Sweden)

    Ruofeng Rao

    2013-01-01

    Full Text Available By the way of Lyapunov-Krasovskii functional approach and some variational methods in the Sobolev space W01,p(Ω, a global asymptotical stability criterion for p-Laplace partial differential equations with partial fuzzy parameters is derived under Dirichlet boundary condition, which gives a positive answer to an open problem proposed in some related literatures. Different from many previous related literatures, the nonlinear p-Laplace diffusion item plays its role in the new criterion though the nonlinear p-Laplace presents great difficulties. Moreover, numerical examples illustrate that our new stability criterion can judge what the previous criteria cannot do.

  14. Efficient approximation of the solution of certain nonlinear reaction--diffusion equation I: the case of small absorption

    CERN Document Server

    Dratman, Ezequiel

    2011-01-01

    We study the positive stationary solutions of a standard finite-difference discretization of the semilinear heat equation with nonlinear Neumann boundary conditions. We prove that, if \\emph{the absorption is small enough}, compared with the flux in the boundary, there exists a unique solution of such a discretization, which approximates the unique positive stationary solution of the "continuous" equation. Furthermore, we exhibit an algorithm computing an $\\epsilon$-approximation of such a solution by means of a homotopy continuation method. The cost of our algorithm is {\\em linear} in the number of nodes involved in the discretization and the logarithm of the number of digits of approximation required.

  15. Efficient approximation of the solution of certain nonlinear reaction--diffusion equation II: the case of large absorption

    CERN Document Server

    Dratman, Ezequiel

    2011-01-01

    We study the positive stationary solutions of a standard finite-difference discretization of the semilinear heat equation with nonlinear Neumann boundary conditions. We prove that, if the absorption is large enough, compared with the flux in the boundary, there exists a unique solution of such a discretization, which approximates the unique positive stationary solution of the "continuous" equation. Furthermore, we exhibit an algorithm computing an $\\epsilon$-approximation of such a solution by means of a homotopy continuation method. The cost of our algorithm is {\\em linear} in the number of nodes involved in the discretization and the logarithm of the number of digits of approximation required.

  16. Coherent-state path integral versus coarse-grained effective stochastic equation of motion: From reaction diffusion to stochastic sandpiles.

    Science.gov (United States)

    Wiese, Kay Jörg

    2016-04-01

    We derive and study two different formalisms used for nonequilibrium processes: the coherent-state path integral, and an effective, coarse-grained stochastic equation of motion. We first study the coherent-state path integral and the corresponding field theory, using the annihilation process A+A→A as an example. The field theory contains counterintuitive quartic vertices. We show how they can be interpreted in terms of a first-passage problem. Reformulating the coherent-state path integral as a stochastic equation of motion, the noise generically becomes imaginary. This renders it not only difficult to interpret, but leads to convergence problems at finite times. We then show how alternatively an effective coarse-grained stochastic equation of motion with real noise can be constructed. The procedure is similar in spirit to the derivation of the mean-field approximation for the Ising model, and the ensuing construction of its effective field theory. We finally apply our findings to stochastic Manna sandpiles. We show that the coherent-state path integral is inappropriate, or at least inconvenient. As an alternative, we derive and solve its mean-field approximation, which we then use to construct a coarse-grained stochastic equation of motion with real noise.

  17. Determination of a source term for a time fractional diffusion equation with an integral type over-determining condition

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    Timurkhan S. Aleroev

    2013-12-01

    Full Text Available We consider a linear heat equation involving a fractional derivative in time, with a nonlocal boundary condition. We determine a source term independent of the space variable, and the temperature distribution for a problem with an over-determining condition of integral type. We prove the existence and uniqueness of the solution, and its continuous dependence on the data.

  18. Protein Connectivity in Chemotaxis Receptor Complexes.

    Directory of Open Access Journals (Sweden)

    Stephan Eismann

    2015-12-01

    Full Text Available The chemotaxis sensory system allows bacteria such as Escherichia coli to swim towards nutrients and away from repellents. The underlying pathway is remarkably sensitive in detecting chemical gradients over a wide range of ambient concentrations. Interactions among receptors, which are predominantly clustered at the cell poles, are crucial to this sensitivity. Although it has been suggested that the kinase CheA and the adapter protein CheW are integral for receptor connectivity, the exact coupling mechanism remains unclear. Here, we present a statistical-mechanics approach to model the receptor linkage mechanism itself, building on nanodisc and electron cryotomography experiments. Specifically, we investigate how the sensing behavior of mixed receptor clusters is affected by variations in the expression levels of CheA and CheW at a constant receptor density in the membrane. Our model compares favorably with dose-response curves from in vivo Förster resonance energy transfer (FRET measurements, demonstrating that the receptor-methylation level has only minor effects on receptor cooperativity. Importantly, our model provides an explanation for the non-intuitive conclusion that the receptor cooperativity decreases with increasing levels of CheA, a core signaling protein associated with the receptors, whereas the receptor cooperativity increases with increasing levels of CheW, a key adapter protein. Finally, we propose an evolutionary advantage as explanation for the recently suggested CheW-only linker structures.

  19. Fluidic control over cell proliferation and chemotaxis

    Science.gov (United States)

    Groisman, Alex

    2006-03-01

    Microscopic flows are almost always stable and laminar that allows precise control of chemical environment in micro-channels. We describe design and operation of several microfluidic devices, in which various types of environments are created for different experimental assays with live cells. In a microfluidic chemostat, colonies of non-adherent bacterial and yeast cells are trapped in micro-chambers with walls permeable for chemicals. Fast chemical exchange between the chambers and nearby flow-through channels creates essentially chemostatic medium conditions in the chambers and leads to exponential growth of the colonies up to very high cell densities. Another microfluidic device allows creation of linear concentration profiles of a pheromone (α-factor) across channels with non-adherent yeast cells, without exposure of the cells to flow or other mechanical perturbation. The concentration profile remains stable for hours enabling studies of chemotropic response of the cells to the pheromone gradient. A third type of the microfluidic devices is used to study chemotaxis of human neutrophils exposed to gradients of a chemoattractant (fMLP). The devices generate concentration profiles of various shapes, with adjustable steepness and mean concentration. The ``gradient'' of the chemoattractant can be imposed and reversed within less than a second, allowing repeated quantitative experiments.

  20. Sphingosylphosphorylcholine stimulates human monocyte-derived dendritic cell chemotaxis

    Institute of Scientific and Technical Information of China (English)

    Ha-young LEE; Eun-ha SHIN; Yoe-sik BAE

    2006-01-01

    Aim: To investigate the effects of Sphingosylphosphorylcholine (SPC) on human monocyte-derived dendritic cell (DC) chemotaxis. Methods: Human DC were generated from peripheral blood monocytes by culturing them with granulocyte macrophage-colony stimulating factor and interleukin-4. The effect of SPC on the DC chemotactic migration was measured by chemotaxis assay. Intracellular signaling event involved in the SPC-induced DC chemotaxis was investigated with several inhibitors for specific kinase. The expression of the SPC receptors was examined by reverse transcription polymerase chain reaction. Results: We found that SPC induced chemotactic migration in immature DC (iDC) and mature DC (mDC). In terms of SPC-induced signaling events, mitogen activated protein kinase activation and Akt activation in iDC and mDC were stimulated. SPC-induced chemotaxis was mediated by extracellular signal-regulated protein kinase and phosphoino-sitide-3-kinase, but not by calcium in both iDC and mDC. Although mDC express ovarian cancer G protein-coupled receptor 1, but not G protein-coupled receptor 4, iDC do not express any of these receptors. To examine the involvement of sphin-gosine-1-phosphate (SIP) receptors, we checked the effect of an SIP receptor antagonist (VPC23019) on SPC-induced DC chemotaxis. VPC23019 did not affect SPC-induced DC chemotaxis. Conclusion: The results suggest that SPC may play a role in regulating DC trafficking during phagocytosis and the T cell-stimulating phase, and the unique SPC receptor, which is different from SIP receptors, is involved in SPC-induced chemotaxis.