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Stochastic dynamical systems are ubiquitous in physics, biology, and engineering, where both deterministic drifts and random fluctuations govern system behavior. Learning these dynamics from data is particularly challenging in…

Numerical Analysis · Mathematics 2026-03-10 Ziheng Guo , Igor Cialenco , Ming Zhong

Molecular dynamics simulations require barostats to be performed at constant pressure. The usual recipe is to employ the Berendsen barostat first, which displays a first-order volume relaxation efficient in equilibration but results in…

Computational Physics · Physics 2020-09-17 Mattia Bernetti , Giovanni Bussi

We examine the regenerative cutting process by using a single degree of freedom non-smooth model with a friction component and a time delay term. Instead of the standard Lyapunov exponent calculations, we propose a statistical 0-1 test…

Chaotic Dynamics · Physics 2012-01-25 Grzegorz Litak , Sven Schubert , Guenter Radons

It is well known that the kinetics of an intracellular biochemical network is stochastic. This is due to intrinsic noise arising from the random timing of biochemical reactions in the network as well as due to extrinsic noise stemming from…

Subcellular Processes · Quantitative Biology 2019-06-05 Emma M. Keizer , Bjorn Bastian , Robert W. Smith , Ramon Grima , Christian Fleck

While there has been a keen interest in studying computation at the edge of chaos for dynamical systems undergoing a phase transition, this has come under question for cellular automata. We show that for continuously deformed cellular…

Cellular Automata and Lattice Gases · Physics 2019-04-15 E. Estevez-Rams , D. Estevez-Moya , K. Garcia-Medina , R. Lora-Serrano

Statistical models provide a powerful and useful class of approximations for calculating reaction rates by bypassing the need for detailed, and often difficult, dynamical considerations. Such approaches invariably invoke specific…

Chemical Physics · Physics 2020-04-01 Sourav Karmakar , Pankaj Kumar Yadav , Srihari Keshavamurthy

It is well known that chaotic dynamic systems (such as three-body system, turbulent flow and so on) have the sensitive dependence on initial conditions (SDIC). Unfortunately, numerical noises (such as truncation error and round-off error)…

Chaotic Dynamics · Physics 2018-05-22 Xiaoming Li , Shijun Liao

The effects of intrinsic noise on stochastic delay systems is studied within an expansion in the inverse system size. We show that the stochastic nature of the underlying dynamics may induce oscillatory behaviour in parameter ranges where…

Molecular Networks · Quantitative Biology 2015-05-13 Tobias Galla

The flow dynamics of red blood cells in vivo in blood capillaries and in vitro in microfluidic channels is complex. Cells can obtain differnet shapes such as discoid, parachute, slipper-like shapes and various intermediate states depending…

Biological Physics · Physics 2023-04-17 Andreas Link , a Irene Luna Pardo , Bernd Porr , Thomas Franke

The electron beam with a virtual cathode (VC) in the drift tube is investigated with the help of a 1.5-dimensional relativistic electromagnetic code. The existence of complex modes, including chaotic modes,is demonstrated. The dynamic…

Plasma Physics · Physics 2007-05-23 Alexander Hramov

In this paper we present a framework for investigating coloured noise in reaction-diffusion systems. We start by considering a deterministic reaction-diffusion equation and show how external forcing can cause temporally correlated or…

Quantitative Methods · Quantitative Biology 2018-12-03 Michael F Adamer , Heather A Harrington , Eamonn A Gaffney , Thomas E Woolley

Chemical reactions in cell are subject to intense stochastic fluctuations. An important question is how the fundamental physiological behavior of cell is kept stable against those noisy perturbations. In this paper a stochastic model of…

Molecular Networks · Quantitative Biology 2009-11-13 Yurie Okabe , Masaki Sasai

We analyze the effects of noise on the permutation entropy of dynamical systems. We take as numerical examples the logistic map and the R\"ossler system. Upon varying the noise strengthfaster, we find a transition from an…

Data Analysis, Statistics and Probability · Physics 2015-09-30 C. Quintero-Quiroz , Simone Pigolotti , M. C. Torrent , Cristina Masoller

It is well known that chaotic dynamic systems (such as three-body system, turbulent flow and so on) have the sensitive dependance on initial conditions (SDIC). Unfortunately, numerical noises (such as truncation error and round-off error)…

Chaotic Dynamics · Physics 2016-09-30 Xiaoming Li , Shijun Liao

We observe chaotic dynamics in a damped linear oscillator, which is driven only at certain regions of phase space. Both deterministic and random drives are studied. The dynamics is characterized using standard techniques of nonlinear…

Chaotic Dynamics · Physics 2008-09-05 Manu. P. John , V. M. Nandakumaran

The control of nonlinear processes and possible transitions to chaos in systems of interacting particles is a fundamental physical problem. We propose a new nonuniform solid-state plasma system, produced by the optical injection of current…

Mesoscale and Nanoscale Physics · Physics 2015-05-14 E. Ya. Sherman , R. M. Abrarov , J. E. Sipe

Coherent oscillatory activity can arise spontaneously as a result of increased coupling in a system of excitable and passive cells, each being quiescent in isolation. This can potentially explain the appearance of spontaneous rhythmic…

Disordered Systems and Neural Networks · Physics 2012-12-17 Jinshan Xu , Rajeev Singh , Nicolas Garnier , Sitabhra Sinha , Alain Pumir

Simple dynamical systems -- with a small number of degrees of freedom -- can behave in a complex manner due to the presence of chaos. Such systems are most often (idealized) limiting cases of more realistic situations. Isolating a small…

Chaotic Dynamics · Physics 2015-04-17 Temple He , Salman Habib

A new method is introduced for analysis of interactions between time-dependent coupled oscillators, based on the signals they generate. It distinguishes unsynchronized dynamics from noise-induced phase slips, and enables the evolution of…

Data Analysis, Statistics and Probability · Physics 2012-08-09 Tomislav Stankovski , Andrea Duggento , Peter V. E. McClintock , Aneta Stefanovska

Recently, stochastic resonance was obtained numerically in an underdamped periodic potential system driven by a periodic force and a Gaussian white noise. In that numerical work, the occurrence of stochastic resonance was explained in terms…

Chaotic Dynamics · Physics 2018-12-21 Ivan Skhem Sawkmie , Mangal C. Mahato
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