arXiv subjects

Duccio Fanelli

Publications and source records attributed to Duccio Fanelli.

At least 91 records · Page 5Linked to original sources

arXiv2016

Fluctuating hydrodynamics approximation of the stochastic Cowan-Wilson model

We consider a stochastic version of the Wilson-Cowan model which accommodates for discrete populations of excitatory and inhibitory neurons. The model assumes a finite carrying capacity with the two populations being constant in size. The master equation that governs the dynamics of the stochastic model is analyzed by an expansion in powers of the inverse population size, yielding a coupled pair of non-linear Langevin equations with multiplicative noise. Gillespie simulations show the validity of the obtained approximation, for the parameter region where the system exhibits dynamical bistability. We report analytical progress by silencing the retroaction of the activators on the inhibitors, while still assigning the parameters so to fall in the region of deterministic bistability for the excitatory species. The proposed approach forms the basis of a perturbative generalization which applies to the case where a modest degree of coupling is restored.

cond-mat.dis-nn↗

arXiv2016

Global topological control for synchronized dynamics on networks

A general scheme is proposed and tested to control the symmetry breaking instability of a homogeneous solution of a spatially extended multispecies model, defined on a network. The inherent discreteness of the space makes it possible to act on the topology of the inter-nodes contacts to achieve the desired degree of stabilization, without altering the dynamical parameters of the model. Both symmetric and asymmetric couplings are considered. In this latter setting the web of contacts is assumed to be balanced, for the homogeneous equilibrium to exist. The performance of the proposed method are assessed, assuming the Complex Ginzburg-Landau equation as a reference model. In this case, the implemented control allows one to stabilize the synchronous limit cycle, hence time-dependent, uniform solution. A system of coupled real Ginzburg-Landau equations is also investigated to obtain the topological stabilization of a homogeneous and constant fixed point.

cond-mat.stat-mech↗

arXiv2016

Reaction rate of a composite core-shell nanoreactor with multiple, spatially distributed embedded nano-catalysts

We present a detailed theory for the total reaction rate constant of a composite core-shell nanoreactor, consisting of a central solid core surrounded by a hydrogel layer of variable thickness, where a given number of small catalytic nanoparticles are embedded at prescribed positions and are endowed with a prescribed surface reaction rate constant. Besides the precise geometry of the assembly, our theory accounts explicitly for the diffusion coefficients of the reactants in the hydrogel and in the bulk as well as for their transfer free energy jump upon entering the hydrogel shell. Moreover, we work out an approximate analytical formula for the overall rate constant, which is valid in the physically relevant range of geometrical and chemical parameters. We discuss in depth how the diffusion-controlled part of the rate depends on the essential variables, including the size of the central core. In particular, we derive some simple rules for estimating the number of nanocatalysts per nanoreactor for an efficient catalytic performance in the case of small to intermediate core sizes. Our theoretical treatment promises to provide a very useful and flexible tool for the design of superior performing nanoreactor geometries and with optimized nanoparticle load.

cond-mat.soft↗

arXiv2016

Benjamin-Feir instabilities on directed networks

The Complex Ginzburg-Landau equation is studied assuming a directed network of coupled oscillators. The asymmetry makes the spectrum of the Laplacian operator complex, and it is ultimately responsible for the onset of a generalized class of topological instability, reminiscent of the Benjamin-Feir type. The analysis is initially carried out for a specific class of networks, characterized by a circulant adjacency matrix. This allows us to delineate analytically the domain in the parameter space for which the generalized instability occurs. We then move forward to considering the family of non linear oscillators coupled via a generic direct, though balanced, graph. The characteristics of the emerging patterns are discussed within a self-consistent theoretical framework.

cond-mat.stat-mech↗

arXiv2016

Drift-induced Benjamin-Feir instabilities

A modified version of the Ginzburg-Landau equation is introduced which accounts for asymmetric couplings between neighbors sites on a one-dimensional lattice, with periodic boundary conditions. The drift term which reflects the imposed microscopic asymmetry seeds a generalized class of instabilities, reminiscent of the Benjamin-Feir type. The uniformly synchronized solution is spontaneously destabilized outside the region of parameters classically associated to the Benjamin-Feir instability, upon injection of a non homogeneous perturbation. The ensuing patterns can be of the traveling wave type or display a patchy, colorful mosaic for the modulus of the complex oscillators amplitude.

cond-mat.stat-mech↗

arXiv2016

Tune the topology to create or destroy patterns

We consider the dynamics of a reaction-diffusion system on a multigraph. The species share the same set of nodes but can access different links to explore the embedding spatial support. By acting on the topology of the networks we can control the ability of the system to self-organise in macroscopic patterns, emerging as a symmetry breaking instability of an homogeneous fixed point. Two different cases study are considered: on the one side, we produce a global modification of the networks, starting from the limiting setting where species are hosted on the same graph. On the other, we consider the effect of inserting just one additional single link to differentiate the two graphs. In both cases, patterns can be generated or destroyed, as follows the imposed, small, topological perturbation. Approximate analytical formulae allows to grasp the essence of the phenomenon and can potentially inspire innovative control strategies to shape the macroscopic dynamics on multigraph networks

cond-mat.stat-mech↗

arXiv2016

Pattern formation in a two-component reaction-diffusion system with delayed processes on a network

Reaction-diffusion systems with time-delay defined on complex networks have been studied in the framework of the emergence of Turing instabilities. The use of the Lambert W-function allowed us get explicit analytic conditions for the onset of patterns as a function of the main involved parameters, the time-delay, the network topology and the diffusion coefficients. Depending on these parameters, the analysis predicts whether the system will evolve towards a stationary Turing pattern or rather to a wave pattern associated to a Hopf bifurcation. The possible outcomes of the linear analysis overcome the respective limitations of the single-species case with delay, and that of the classical activator-inhibitor variant without delay. Numerical results gained from the Mimura-Murray model support the theoretical approach.

cond-mat.stat-mech↗

arXiv2015

The second will be first: competition on directed networks

Multiple sinks competition is investigated for a walker diffusing on directed complex networks. The asymmetry of the imposed spatial support makes the system non transitive. As a consequence, it is always possible to identify a suitable location for the second absorbing sink that screens at most the flux of agents directed against the first trap, whose position has been preliminarily assigned. The degree of mutual competition between pairs of nodes is analytically quantified through apt indicators that build on the topological characteristics of the hosting graph. Moreover, the positioning of the second trap can be chosen so as to minimize, at the same time the probability of being in turn shaded by a thirdly added trap. Supervised placing of absorbing traps on a asymmetric disordered and complex graph is hence possible, as follows a robust optimization protocol. This latter is here discussed and successfully tested against synthetic data.

physics.soc-ph↗

arXiv2015

Theory of diffusion-influenced reactions in complex geometries

Chemical reactions involving diffusion of reactants and subsequent chemical fixation steps are generally termed "diffusion-influenced" (DI). Virtually all biochemical processes in living media can be counted among them, together with those occurring in an ever-growing number of emerging nano-technologies. The role of the environment's geometry (obstacles, compartmentalization) and distributed reactivity (competitive reactants, traps) is key in modulating the rate constants of DI reactions, and is therefore a prime design parameter. Yet, it is a formidable challenge to build a comprehensive theory able to describe the environment's "reactive geometry". Here we show that such a theory can be built by unfolding this many-body problem through addition theorems for special functions. Our method is powerful and general and allows one to study a given DI reaction occurring in arbitrary "reactive landscapes", made of multiple spherical boundaries of given size and reactivity. Importantly, ready-to-use analytical formulas can be derived easily in most cases.

physics.chem-ph↗

arXiv2015

Emergence of a collective crystal in a classical system with long-range interactions

A one-dimensional long-range model of classical rotators with an extended degree of complexity, as compared to paradigmatic long-range systems, is introduced and studied. Working at constant density, in the thermodynamic limit one can prove the statistical equivalence with the Hamiltonian Mean Field model (HMF) and $α$-HMF: a second order phase transition is indeed observed at the critical energy threshold $\varepsilon_c=0.75$. Conversely, when the thermodynamic limit is performed at infinite density (while keeping the length of the hosting interval $L$ constant), the critical energy $\varepsilon_c$ is modulated as a function of $L$. At low energy, a self-organized collective crystal phase is reported to emerge, which converges to a perfect crystal in the limit $ε\rightarrow 0$. To analyze the phenomenon, the equilibrium one particle density function is analytically computed by maximizing the entropy. The transition and the associated critical energy between the gaseous and the crystal phase is computed. Molecular dynamics show that the crystal phase is apparently split into two distinct regimes, depending on the the energy per particle $\varepsilon$. For small $\varepsilon$, particles are exactly located on the lattice sites; above an energy threshold $\varepsilon{*}$, particles can travel from one site to another. However, $\varepsilon{*}$ does not signal a phase transition but reflects the finite time of observation: the perfect crystal observed for $\varepsilon >0$ corresponds to a long lasting dynamical transient, whose life time increases when the $\varepsilon >0$ approaches zero.

cond-mat.stat-mech↗

arXiv2015

WKB versus generalized van Kampen system-size expansion: the stochastic logistic equation

Stochastic fluctuations are central to the understanding of extinction dynamics. In the context of population models they allow for the description of the transition from the vicinity of a non-trivial fixed point of the deterministic dynamics to a trivial fixed point, where the population has become extinct. To characterize analytically the fluctuations of a given stochastic population model, one can operate within the so-called linear-noise approximation. Here the fluctuations are taken to be Gaussian, and the phenomenon of extinction is so rare as to be negligible, for all practical purposes. When the size of the population becomes small, non-Gaussian fluctuations are instead found. Two analytical schemes are in principle available to determine the nature of the distribution of associated fluctuations: the generalized van Kampen system-size expansion beyond the conventional order of approximation and a WKB-like method. Here we investigate the accuracy of these two different approximation schemes, with reference to a simple stochastic process that converges to the logistic equation in the deterministic limit.

cond-mat.stat-mech↗

arXiv2015

Multiple scale theory of topology driven pattern on directed networks

Dynamical processes on networks are currently being considered in different domains of cross-disciplinary interest. Reaction-diffusion systems hosted on directed graphs are in particular relevant for their widespread applications, from neuroscience, to computer networks and traffic systems. Due to the peculiar spectrum of the discrete Laplacian operator, homogeneous fixed points can turn unstable, on a directed support, because of the topology of the network, a phenomenon which cannot be induced on undirected graphs. A linear analysis can be performed to single out the conditions that underly the instability. The complete characterization of the patterns, which are eventually attained beyond the linear regime of exponential growth, calls instead for a full non linear treatment. By performing a multiple time scale perturbative calculation, we here derive an effective equation for the non linear evolution of the amplitude of the most unstable mode, close to the threshold of criticality. This is a Stuart-Landau equation whose complex coefficients appear to depend on the topological features of the embedding directed graph. The theory proves adequate versus simulations, as confirmed by operating with a paradigmatic reaction-diffusion model.

cond-mat.stat-mech↗

arXiv2015

Generalized maximum entropy approach to quasi-stationary states in long range systems

Systems with long-range interactions display a short-time relaxation towards Quasi Stationary States (QSS) whose lifetime increases with the system size. In the paradigmatic Hamiltonian Mean-field Model (HMF) out-of-equilibrium phase transitions are predicted and numerically detected which separate homogeneous (zero magnetization) and inhomogeneous (nonzero magnetization) QSS. In the former regime, the velocity distribution presents (at least) two large, symmetric, bumps, which cannot be self-consistently explained by resorting to the conventional Lynden-Bell maximum entropy approach. We propose a generalized maximum entropy scheme which accounts for the pseudo-conservation of additional charges, the even momenta of the single particle distribution. These latter are set to the asymptotic values, as estimated by direct integration of the underlying Vlasov equation, which formally holds in the thermodynamic limit. Methodologically, we operate in the framework of a generalized Gibbs ensemble, as sometimes defined in statistical quantum mechanics, which contains an infinite number of conserved charges. The agreement between theory and simulations is satisfying, both above and below the out of equilibrium transition threshold. A precedently unaccessible feature of the QSS, the multiple bumps in the velocity profile, is resolved by our new approach.

cond-mat.stat-mech↗

arXiv2015

Delay induced Turing-like waves for one species reaction-diffusion model on a network

A one species time-delay reaction-diffusion system defined on a complex networks is studied. Travelling waves are predicted to occur as follows a symmetry breaking instability of an homogenous stationary stable solution, subject to an external non homogenous perturbation. These are generalized Turing-like waves that materialize in a single species populations dynamics model, as the unexpected byproduct of the imposed delay in the diffusion part. Sufficient conditions for the onset of the instability are mathematically provided by performing a linear stability analysis adapted to time delayed differential equation. The method here developed exploits the properties of the Lambert W-function. The prediction of the theory are confirmed by direct numerical simulation carried out for a modified version of the classical Fisher model, defined on a Watts-Strogatz networks and with the inclusion of the delay.

cond-mat.stat-mech↗

arXiv2015

Pattern formation for reactive species undergoing anisotropic diffusion

Turing instabilities for a two species reaction-diffusion systems is studied under anisotropic diffusion. More specifically, the diffusion constants which characterize the ability of the species to relocate in space are direction sensitive. Under this working hypothesis, the conditions for the onset of the instability are mathematically derived and numerically validated. Patterns which closely resemble those obtained in the classical context of isotropic diffusion, develop when the usual Turing condition is violated, along one of the two accessible directions of migration. Remarkably, the instability can also set in when the activator diffuses faster than the inhibitor, along the direction for which the usual Turing conditions are not matched.

cond-mat.stat-mech↗

arXiv2014

Turing instabilities on Cartesian product networks

The problem of Turing instabilities for a reaction-diffusion system defined on a complex Cartesian product networks is considered. To this end we operate in the linear regime and expand the time dependent perturbation on a basis formed by the tensor product of the eigenvectors of the discrete Laplacian operators, associated to each of the individual networks that build the Cartesian product. The dispersion relation which controls the onset of the instability depends on a set of discrete wave- lenghts, the eigenvalues of the aforementioned Laplacians. Patterns can develop on the Cartesian network, if they are supported on at least one of its constituive sub-graphs. Multiplex networks are also obtained under specific prescriptions. In this case, the criteria for the instability reduce to compact explicit formulae. Numerical simulations carried out for the Mimura-Murray reaction kinetics confirm the adequacy of the proposed theory.

cond-mat.stat-mech↗

arXiv2014

Turing instabilities from a limit cycle

The Turing instability is a paradigmatic route to patterns formation in reaction-diffusion systems. Following a diffusion-driven instability, homogeneous fixed points can become unstable when subject to external perturbation. As a consequence, the system evolves towards a stationary, nonhomogeneous attractor. Stable patterns can be also obtained via oscillation quenching of an initially synchronous state of diffusively coupled oscillators. In the literature this is known as the oscillation death phenomenon. Here we show that oscillation death is nothing but a Turing instability for the first return map associated to the excitable system in its synchronous periodic state. In particular we obtain a set of closed conditions for identifying the domain in the parameters space that yields the instability. This is a natural generalisation of the original Turing relations, to the case where the homogeneous solution of the examined system is a periodic function of time. The obtained framework applies to systems embedded in continuum space, as well as those defined on a network-like support. The predictive ability of the theory is tested numerically, using different reaction schemes.

nlin.PS↗

arXiv2014

Intrinsic noise and two-dimensional maps: Quasicycles, quasiperiodicity, and chaos

We develop a formalism to describe the discrete-time dynamics of systems containing an arbitrary number of interacting species. The individual-based model, which forms our starting point, is described by a Markov chain, which in the limit of large system sizes is shown to be very well-approximated by a Fokker-Planck-like equation, or equivalently by a set of stochastic difference equations. This formalism is applied to the specific case of two species: one predator species and its prey species. Quasi-cycles --- stochastic cycles sustained and amplified by the demographic noise --- previously found in continuous-time predator-prey models are shown to exist, and their behavior predicted from a linear noise analysis is shown to be in very good agreement with simulations. The effects of the noise on other attractors in the corresponding deterministic map, such as periodic cycles, quasiperiodicity and chaos, are also investigated.

cond-mat.stat-mech↗