A normal form for excitable media

We present a normal form for travelling waves in one-dimensional excitable media in form of a differential delay equation. The normal form is built around the well-known saddle-node bifurcation generically present in excitable media. Finite wavelength effects are captured by a delay. The normal form describes the behaviour of single pulses in a periodic domain and also the richer behaviour of wave trains. The normal form exhibits a symmetry preserving Hopf bifurcation which may coalesce with the saddle-node in a Bogdanov-Takens point, and a symmetry breaking spatially inhomogeneous pitchfork bifurcation. We verify the existence of these bifurcations in numerical simulations. The parameters of the normal form are determined and its predictions are tested against numerical simulations of partial differential equation models of excitable media with good agreement.Comment: 22 pages, accepted for publication in Chao

SciRecSys: A Recommendation System for Scientific Publication by Discovering Keyword Relationships

In this work, we propose a new approach for discovering various relationships among keywords over the scientific publications based on a Markov Chain model. It is an important problem since keywords are the basic elements for representing abstract objects such as documents, user profiles, topics and many things else. Our model is very effective since it combines four important factors in scientific publications: content, publicity, impact and randomness. Particularly, a recommendation system (called SciRecSys) has been presented to support users to efficiently find out relevant articles

The effects of intrinsic noise on the behaviour of bistable cell regulatory systems under quasi-steady state conditions

We analyse the effect of intrinsic fluctuations on the properties of bistable stochastic systems with time scale separation operating under1 quasi-steady state conditions. We first formulate a stochastic generalisation of the quasi-steady state approximation based on the semi-classical approximation of the partial differential equation for the generating function associated with the Chemical Master Equation. Such approximation proceeds by optimising an action functional whose associated set of Euler-Lagrange (Hamilton) equations provide the most likely fluctuation path. We show that, under appropriate conditions granting time scale separation, the Hamiltonian can be re-scaled so that the set of Hamilton equations splits up into slow and fast variables, whereby the quasi-steady state approximation can be applied. We analyse two particular examples of systems whose mean-field limit has been shown to exhibit bi-stability: an enzyme-catalysed system of two mutually-inhibitory proteins and a gene regulatory circuit with self-activation. Our theory establishes that the number of molecules of the conserved species are order parameters whose variation regulates bistable behaviour in the associated systems beyond the predictions of the mean-field theory. This prediction is fully confirmed by direct numerical simulations using the stochastic simulation algorithm. This result allows us to propose strategies whereby, by varying the number of molecules of the three conserved chemical species, cell properties associated to bistable behaviour (phenotype, cell-cycle status, etc.) can be controlled.Comment: 33 pages, 9 figures, accepted for publication in the Journal of Chemical Physic

Dynamics of lattice spins as a model of arrhythmia

We consider evolution of initial disturbances in spatially extended systems with autonomous rhythmic activity, such as the heart. We consider the case when the activity is stable with respect to very smooth (changing little across the medium) disturbances and construct lattice models for description of not-so-smooth disturbances, in particular, topological defects; these models are modifications of the diffusive XY model. We find that when the activity on each lattice site is very rigid in maintaining its form, the topological defects - vortices or spirals - nucleate a transition to a disordered, turbulent state.Comment: 17 pages, revtex, 3 figure

Limit theorems for weakly subcritical branching processes in random environment

For a branching process in random environment it is assumed that the offspring distribution of the individuals varies in a random fashion, independently from one generation to the other. Interestingly there is the possibility that the process may at the same time be subcritical and, conditioned on nonextinction, 'supercritical'. This so-called weakly subcritical case is considered in this paper. We study the asymptotic survival probability and the size of the population conditioned on non-extinction. Also a functional limit theorem is proven, which makes the conditional supercriticality manifest. A main tool is a new type of functional limit theorems for conditional random walks.Comment: 35 page

Anti-phase synchronization of phase-reduced oscillators using open-loop control

In this letter, we present an elegant method to build and maintain an anti-phase configuration of two nonlinear oscillators with different natural frequencies and dynamics described by the sinusoidal phase-reduced model. The anti-phase synchronization is achieved using a common input that couples the oscillators and consists of a sequence of square pulses of appropriate amplitude and duration. This example provides a proof of principle that open-loop control can be used to create desired synchronization patterns for nonlinear oscillators, when feedback is expensive or impossible to obtain

Vortex Dynamics in Dissipative Systems

We derive the exact equation of motion for a vortex in two- and three- dimensional non-relativistic systems governed by the Ginzburg-Landau equation with complex coefficients. The velocity is given in terms of local gradients of the magnitude and phase of the complex field and is exact also for arbitrarily small inter-vortex distances. The results for vortices in a superfluid or a superconductor are recovered.Comment: revtex, 5 pages, 1 encapsulated postscript figure (included), uses aps.sty, epsf.te