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At least 217 records · Page 12Linked to original sources

Fractional diffusion in the multiple-trapping regime and revision of the equivalence with the continuous-time random walk.

We investigate the macroscopic diffusion of carriers in the multiple-trapping (MT) regime, in relation with electron transport in nanoscaled heterogeneous systems, and we describe the differences, as well as the similarities, between MT and the continuous-time random walk (CTRW). Diffusion of free carriers in MT can be expressed as a generalized continuity equation based on fractional time derivatives, while the CTRW model for diffusive transport generalizes the constitutive equation for the carrier flux.

Journal Article↗

Mapping spatial persistent large deviations of nonequilibrium surface growth processes onto the temporal persistent large deviations of stochastic random walk processes.

Spatial persistent large deviations probability of surface growth processes governed by the Edwards-Wilkinson dynamics, Px(x,s), with -1< or =s< or =1 is mapped isomorphically onto the temporal persistent large deviations probability Pt(t,s) associated with the stochastic Markovian random walk problem. We show using numerical simulations that the infinite family of spatial persistent large deviations exponents thetax(s) characterizing the power-law decay of Px(x,s ) agrees, as predicted on theoretical grounds by Phys. Rev. Lett. 86, 3700 (2001)], with the numerical measurements of thetat(s), the continuous family of exponents characterizing the long-time power law behavior of Pt(t,s). We also discuss the simulations of the spatial persistence probability corresponding to a discrete model in the Mullins-Herring universality class, where our discrete simulations do not agree well with the theoretical predictions perhaps because of the severe finite-size corrections which are known to strongly inhibit the manifestation of the asymptotic continuum behavior in discrete models involving large values of the dynamical exponent and the associated extremely slow convergence to the asymptotic regime.

Journal Article↗

RANDOM WALK MODELS FOR THE SPIKE ACTIVITY OF A SINGLE NEURON.

Quantitative methods for the study of the statistical properties of spontaneously occurring spike trains from single neurons have recently been presented. Such measurements suggest a number of descriptive mathematical models. One of these, based on a random walk towards an absorbing barrier, can describe a wide range of neuronal activity in terms of two parameters. These parameters are readily associated with known physiological mechanisms.

Action Potentials↗

A biased random walk model for the trajectories of swimming micro-organisms.

The motion of swimming micro-organisms that have a preferred direction of travel, such as single-celled algae moving upwards (gravitaxis) or towards a light source (phototaxis), is modelled as the continuous limit of a correlated and biased random walk as the time step tends to zero. This model leads to a Fokker-Planck equation for the probability distribution function of the orientation of the cells, from which macroscopic parameters such as the mean cell swimming direction and the diffusion coefficient due to cell swimming can be calculated. The model is tested on experimental data for gravitaxis and phototaxis and used to derive values for the macroscopic parameters for future use in theories of bioconvection, for example.

Algorithms↗

Radiation-induced total-deletion mutations in the human hprt gene: a biophysical model based on random walk interphase chromatin geometry.

PURPOSE: To develop a biophysical model that explains the sizes of radiation-induced hprt deletions. METHODS: Key assumptions: (1) Deletions are produced by two DSB that are closer than an interaction distance at the time of DSB induction; (2) Interphase chromatin is modelled by a biphasic random walk distribution; and (3) Misrejoining of DSB from two separate tracks dominates at low-LET and misrejoining of DSB from a single track dominates at high-LET. RESULTS: The size spectra for radiation-induced total deletions of the hprt gene are calculated. Comparing with the results of Yamada and coworkers for gamma-irradiated human fibroblasts the study finds that an interaction distance of 0.75 microm will fit both the absolute frequency and the size spectrum of the total deletions. It is also shown that high-LET radiations produce, relatively, more total deletions of sizes below 0.5 Mb. The model predicts an essential gene to be located between 2 and 3 Mb from the hprt locus towards the centromere. Using the same assumptions and parameters as for evaluating mutation frequencies, a frequency of intra-arm chromosome deletions is calculated that is in agreement with experimental data. CONCLUSIONS: Radiation-induced total-deletion mutations of the human hprt gene and intrachange chromosome aberrations share a common mechanism for their induction.

Biophysical Phenomena↗

Air parcel random walk and droplet spectra broadening in clouds.

We study the effect of turbulent flow on the droplet growth in a cloud during the condensation phase. Using the air parcel model, we describe analytically how the size distribution of droplets evolves at the different stages of parcel movement. We show that turbulent random walk superimposed on an accelerated ascent of the parcel makes the relative width of droplet distribution to grow initially as t(1/2) and then decay as t(-3/2).

Journal Article↗

Hopping models of charge transfer in a complex environment: coupled memory continuous-time random walk approach.

Charge transport processes in disordered complex media are accompanied by anomalously slow relaxation for which usually a broad distribution of relaxation times is adopted. To account for those properties of the environment, a standard kinetic approach in description of the system is addressed either in the framework of continuous-time random walks (CTRWs) or fractional diffusion. In this paper the power of the CTRW approach is illustrated by use of the probabilistic formalism and limit theorems that allow one to rigorously predict the limiting distributions of the paths traversed by charges and to derive effective relaxation properties of the entire system of interest. In particular, the standard CTRW scenario is generalized to a new class of coupled memory CTRWs that effectively can lead to the well known Havriliak-Negami response. Application of the method is discussed for nonexponential electron-transfer processes controlled by dynamics of the surrounding medium.

Journal Article↗

Random walk analysis of restricted metabolite diffusion in skeletal myofibril systems.

The purpose of this work was the development of a basal mathematical model for the diffusion of low-molecular metabolites in a skeletal muscle cell. A three-dimension diffusion of low-molecular particles was simulated by a Monte-Carlo method (random walks of diffusing molecules). The model takes into account the following structural elements: (i) a regular lattice of actin and myosin filaments inside a myofibril; (ii) the membranes of sarcoplasmic reticulum and mitochondria surrounding the myofibrils; (iii) a set of myofibrils inside a skeletal muscle cell. We simulated diffusion of particles in the bulk of intracellular water phase and their reflections from the rigid surfaces of intracellular structures. The model allowed to calculate the apparent coefficients of particle diffusion in the axial and radial directions, Dparallel(app) and Dperpendicular(app), respectively. In accordance with experimental data from literature, the coefficient Dparallel(app) was independent of time. The coefficient of radial diffusion Dperpendicular(app) decreased with time to steady state values similar to that determined by the NMR diffusion spectroscopy methods. The interactions of diffusing particles with thin and thick filaments of myofibrils could explain the decrease in the Dperpendicular(app) value by a factor of 20%. The collisions of particles with myofilaments began to reveal themselves as a gradual decrease in the Dperpendicular(app) value at early stages of diffusion (t1/2 approximately equal to 0.05 microsec). The contribution of particle reflections from the membranes of sarcoplasmic reticulum and mitochondria to the retardation of the radial diffusion was about of 20-30%, depending on porosity of a membranous shield around the myofibril. For conventional sizes of a membranous shield (diameter 2 microm), the interactions of particles with the shield caused a decrease in the Dperpendicular(app) value with a half-time t1/2 approximately equal to 0.5 msec. This time is essentially lower by a factor about of 100 than that found in published NMR measurements. When we considered diffusion of particles inside a cell compartment confined to impermeable membranous shield, the reflection of particles from this shield led the drastic decrease in the radial diffusion coefficient (Dperpendicular(app) --> porportional to when t --> porportional to). This pattern of the Dperpendicular(app)(t) time-course might be expected in the NMR measurements on skeletal muscle tissue where a sarcolemma represents an impermeable shield for ATP and PCr molecules.

Models, Theoretical↗

One-dimensional nonequilibrium kinetic Ising models with local spin symmetry breaking: N-component branching annihilating random-walk transition at zero branching rate.

The effects of locally broken spin symmetry are investigated in one-dimensional nonequilibrium kinetic Ising systems via computer simulations and cluster-mean-field calculations. Besides a line of directed percolation transitions, a line of transitions belonging to N-component, two-offspring branching annihilating random-walk class (N-BARW2) is revealed in the phase diagram at zero branching rate. In this way a spin model for N-BARW2 transitions is proposed.

Journal Article↗

A random walk model of oligodendrocyte generation in vitro and associated estimation problems.

A branching stochastic process proposed earlier to model oligodendrocyte generation by O-2A progenitor cells under in vitro conditions does not allow invoking the maximum likelihood techniques for estimation purposes. To overcome this difficulty, we propose a partial likelihood function based on an embedded random walk model of clonal growth and differentiation of O-2A progenitor cells. Under certain conditions, the partial likelihood function yields consistent estimates of model parameters. The usefulness of this approach is illustrated with computer simulations and data analyses.

Algorithms↗

Centric rings, acentric rings and excess acentric fragments based on a random-walk interphase chromosome model.

Excess acentric fragments, consisting of acentric rings and acentric linear fragments, are among the most frequent kinds of chromosome-type aberrations produced by radiation. The frequency of acentric rings cannot be obtained directly by experiment but is estimated here from the ratio of acentric to centric rings, evaluated using a random-walk model for the organization of chromatin during interphase and an assumption that the probability of an exchange formation is proportional to the rate of collision between two DSB. This ratio is calculated to be 2.5 in low-LET irradiated human fibroblasts, significantly greater than the ratio if proximity effects are not considered. The calculated frequency of acentric rings is insufficient to account for all the observed excess acentric fragments. Assuming that the rest of the excess acentric fragments are due to incomplete exchanges, all possible recombinations between two DSB that result in acentric rings and acentric linear fragments have been identified. From the chromosome aberration data, the incompleteness parameter has been estimated. Intra-arm chromosome exchanges, either complete or incomplete, were estimated to account for more than 50% of the excess acentric fragments in human fibroblasts.

Chromosome Aberrations↗

Exact and approximate graph matching using random walks.

In this paper, we propose a general framework for graph matching which is suitable for different problems of pattern recognition. The pattern representation we assume is at the same time highly structured, like for classic syntactic and structural approaches, and of subsymbolic nature with real-valued features, like for connectionist and statistic approaches. We show that random walk based models, inspired by Google's PageRank, give rise to a spectral theory that nicely enhances the graph topological features at node level. As a straightforward consequence, we derive a polynomial algorithm for the classic graph isomorphism problem, under the restriction of dealing with Markovian spectrally distinguishable graphs (MSD), a class of graphs that does not seem to be easily reducible to others proposed in the literature. The experimental results that we found on different test-beds of the TC-15 graph database show that the defined MSD class "almost always" covers the database, and that the proposed algorithm is significantly more efficient than top scoring VF algorithm on the same data. Most interestingly, the proposed approach is very well-suited for dealing with partial and approximate graph matching problems, derived for instance from image retrieval tasks. We consider the objects of the COIL-100 visual collection and provide a graph-based representation, whose node's labels contain appropriate visual features. We show that the adoption of classic bipartite graph matching algorithms offers a straightforward generalization of the algorithm given for graph isomorphism and, finally, we report very promising experimental results on the COIL-100 visual collection.

Algorithms↗

Open-loop and closed-loop control of posture: a random-walk analysis of center-of-pressure trajectories.

A new conceptual and theoretical framework for studying the human postural control system is introduced. Mathematical techniques from statistical mechanics are developed and applied to the analysis and interpretation of stabilograms. This work was based on the assumption that the act of maintaining an erect posture could be viewed, in part, as a stochastic process. Twenty-five healthy young subjects were studied under quite-standing conditions. Center-of-pressure (COP) trajectories were analyzed as one-dimensional and two-dimensional random walks. This novel approach led to the extraction of repeatable, physiologically meaningful parameters from stabilograms. It is shown that although individual stabilograms for a single subject were highly variable and random in appearance, a consistent, subject-specific pattern emerged with the generation of averaged stabilogram-diffusion plots (mean square COP displacement vs time interval). In addition, significant inter-subject differences were found in the calculated results. This suggests that the steady-state behavior of the control mechanisms involved in maintaining erect posture can be quite variable even amongst a population of age-matched, anthropometrically similar, healthy individuals. These posturographic analyses also demonstrated that COP trajectories could be modelled as fractional Brownian motion and that at least two control systems-a short-term mechanism and a long-term mechanism-were operating during quit standing. More specifically, the present results suggest that over short-term intervals open-loop control schemes are utilized by the postural control system, whereas over long-term intervals closed-loop control mechanisms are called into play. This work strongly supports the position that much can be learned about the functional organization of the postural control system by studying the steady-state behavior of the human body during periods of undisturbed stance.

Adult↗

Universal behavior of one-dimensional multispecies branching and annihilating random walks with exclusion.

A directed percolation process with two symmetric particle species exhibiting exclusion in one dimension is investigated numerically. It is shown that if the species are coupled by branching (A-->AB, B-->BA), a continuous phase transition will appear at the zero-branching-rate limit belonging to the same universality class as that of the two component branching and annihilating random-walk model with two symmetric offsprings. This class persists even if the branching is biased towards one of the species. If the two systems are not coupled by branching but a hard-core interaction is allowed only the transition will occur at finite branching rate belonging to the usual (1+1)-dimensional directed percolation class.

Journal Article↗

Multidelayed random walks: theory and application to the neolithic transition in Europe.

We present a model in which particles (or individuals of a biological population) disperse with a rest time between consecutive motions (or migrations) which may take several possible values from a discrete set. Particles (or individuals) may also react (or reproduce). We derive a new equation for the effective rest time T of the random walk. Application to the neolithic transition in Europe makes it possible to derive more realistic theoretical values for its wavefront speed than those following from the single-delayed framework presented previously [J. Fort and V. Méndez, Phys. Rev. Lett. 82, 867 (1999)]. The new results are consistent with the archaeological observations of this important historical process.

Biological Evolution↗

Measurement error in a random walk model with applications to population dynamics.

Population abundances are rarely, if ever, known. Instead, they are estimated with some amount of uncertainty. The resulting measurement error has its consequences on subsequent analyses that model population dynamics and estimate probabilities about abundances at future points in time. This article addresses some outstanding questions on the consequences of measurement error in one such dynamic model, the random walk with drift model, and proposes some new ways to correct for measurement error. We present a broad and realistic class of measurement error models that allows both heteroskedasticity and possible correlation in the measurement errors, and we provide analytical results about the biases of estimators that ignore the measurement error. Our new estimators include both method of moments estimators and "pseudo"-estimators that proceed from both observed estimates of population abundance and estimates of parameters in the measurement error model. We derive the asymptotic properties of our methods and existing methods, and we compare their finite-sample performance with a simulation experiment. We also examine the practical implications of the methods by using them to analyze two existing population dynamics data sets.

Animals↗

Random walks on complex networks with inhomogeneous impact.

In many complex systems, for the activity f(i) of the constituents or nodes i a power-law relationship was discovered between the standard deviation sigma(i) and the average strength of the activity: sigma(i) proportional variant alpha: universal values alpha=1/2 or 1 were found, however, with exceptions. With the help of an impact variable we present a random walk model where the activity is the product of the number of visitors at a node and their impact. If the impact depends strongly on the node connectivity and the properties of the carrying network are broadly distributed (as in a scale-free network) we find both analytically and numerically nonuniversal alpha values. The exponent always crosses over to the universal value of 1 if the external drive dominates.

Journal Article↗

A reinforced random walk model of tumour angiogenesis and anti-angiogenic strategies.

It is now well accepted that the growth of a tumour beyond approximately 2 mm in diameter is dependent on its ability to induce the growth of new blood vessels, a process called angiogenesis. This has raised hope that an anti-angiogenic treatment may be effective in the fight against cancer. Here we formulate, using the theory of reinforced random walks, an individual cell-based mathematical model of tumour angiogenesis in response to a diffusible angiogenic factor. The early stages of angiogenesis, in which endothelial cells (EC) escape the parent vessel and invade the extra-cellular matrix, are included in the model, as are the action of a proteolytic enzyme, EC proliferation and capillary branching and anastomosis. The anti-angiogenic potential of angiostatin, a known inhibitor of angiogenesis, is also examined. The capillary networks predicted by the model are in qualitative agreement with experimental observations. Proteolysis and proliferation are shown to be crucial for vascularization, whilst angiostatin is seen to be capable of limiting capillary growth.

Angiogenesis Inhibitors↗