Synchronization of Random Linear Maps

We study synchronization of random one-dimensional linear maps for which the Lyapunov exponent can be calculated exactly. Certain aspects of the dynamics of these maps are explained using their relation with a random walk. We confirm that the Lyapunov exponent changes sign at the complete synchronization transition. We also consider partial synchronization of nonidentical systems. It turns out that the way partial synchronization manifests depends on the type of differences (in Lyapunov exponent or in contraction points) between the systems. The crossover from partial synchronization to complete synchronization is also examined.Comment: 5 pages, 6 figure

Frequency and phase synchronization of two coupled neurons with channel noise

We study the frequency and phase synchronization in two coupled identical and nonidentical neurons with channel noise. The occupation number method is used to model the neurons in the context of stochastic Hodgkin-Huxley model in which the strength of of channel noise is represented by ion channel cluster size of the initiation region of neuron. It is shown that frequency synchronization only was achieved at arbitrary value of couple strength as long as two neurons' channel cluster sizes are the same. We also show that the relative phase of neurons can display profuse dynamic behavior under the combined action of coupling and channel noise. Both qualitative and quantitative descriptions are applied to describe the transitions between those behaviors. Relevance of our findings to controlling neural synchronization experimentally is discussed.Comment: 8 pages, 10 figure

On the relationship between directed percolation and the synchronization transition in spatially extended systems

We study the nature of the synchronization transition in spatially extended systems by discussing a simple stochastic model. An analytic argument is put forward showing that, in the limit of discontinuous processes, the transition belongs to the directed percolation (DP) universality class. The analysis is complemented by a detailed investigation of the dependence of the first passage time for the amplitude of the difference field on the adopted threshold. We find the existence of a critical threshold separating the regime controlled by linear mechanisms from that controlled by collective phenomena. As a result of this analysis we conclude that the synchronization transition belongs to the DP class also in continuous models. The conclusions are supported by numerical checks on coupled map lattices too

Transition to Stochastic Synchronization in Spatially Extended Systems

Spatially extended dynamical systems, namely coupled map lattices, driven by additive spatio-temporal noise are shown to exhibit stochastic synchronization. In analogy with low-dymensional systems, synchronization can be achieved only if the maximum Lyapunov exponent becomes negative for sufficiently large noise amplitude. Moreover, noise can suppress also the non-linear mechanism of information propagation, that may be present in the spatially extended system. A first example of phase transition is observed when both the linear and the non-linear mechanisms of information production disappear at the same critical value of the noise amplitude. The corresponding critical properties can be hardly identified numerically, but some general argument suggests that they could be ascribed to the Kardar-Parisi-Zhang universality class. Conversely, when the non-linear mechanism prevails on the linear one, another type of phase transition to stochastic synchronization occurs. This one is shown to belong to the universality class of directed percolation.Comment: 21 pages, Latex - 14 EPS Figs - To appear on Physical Review

Correlation property of length sequences based on global structure of complete genome

This paper considers three kinds of length sequences of the complete genome. Detrended fluctuation analysis, spectral analysis, and the mean distance spanned within time $L$ are used to discuss the correlation property of these sequences. The values of the exponents from these methods of these three kinds of length sequences of bacteria indicate that the long-range correlations exist in most of these sequences. The correlation have a rich variety of behaviours including the presence of anti-correlations. Further more, using the exponent $\gamma$, it is found that these correlations are all linear ($\gamma=1.0\pm 0.03$). It is also found that these sequences exhibit $1/f$ noise in some interval of frequency ($f>1$). The length of this interval of frequency depends on the length of the sequence. The shape of the periodogram in $f>1$ exhibits some periodicity. The period seems to depend on the length and the complexity of the length sequence.Comment: RevTex, 9 pages with 5 figures and 3 tables. Phys. Rev. E Jan. 1,2001 (to appear

Random Amino Acid Mutations and Protein Misfolding Lead to Shannon Limit in Sequence-Structure Communication

The transmission of genomic information from coding sequence to protein structure during protein synthesis is subject to stochastic errors. To analyze transmission limits in the presence of spurious errors, Shannon's noisy channel theorem is applied to a communication channel between amino acid sequences and their structures established from a large-scale statistical analysis of protein atomic coordinates. While Shannon's theorem confirms that in close to native conformations information is transmitted with limited error probability, additional random errors in sequence (amino acid substitutions) and in structure (structural defects) trigger a decrease in communication capacity toward a Shannon limit at 0.010 bits per amino acid symbol at which communication breaks down. In several controls, simulated error rates above a critical threshold and models of unfolded structures always produce capacities below this limiting value. Thus an essential biological system can be realistically modeled as a digital communication channel that is (a) sensitive to random errors and (b) restricted by a Shannon error limit. This forms a novel basis for predictions consistent with observed rates of defective ribosomal products during protein synthesis, and with the estimated excess of mutual information in protein contact potentials

How to Achieve Fast Entrainment? The Timescale to Synchronization

Entrainment, where oscillators synchronize to an external signal, is ubiquitous in nature. The transient time leading to entrainment plays a major role in many biological processes. Our goal is to unveil the specific dynamics that leads to fast entrainment. By studying a generic model, we characterize the transient time to entrainment and show how it is governed by two basic properties of an oscillator: the radial relaxation time and the phase velocity distribution around the limit cycle. Those two basic properties are inherent in every oscillator. This concept can be applied to many biological systems to predict the average transient time to entrainment or to infer properties of the underlying oscillator from the observed transients. We found that both a sinusoidal oscillator with fast radial relaxation and a spike-like oscillator with slow radial relaxation give rise to fast entrainment. As an example, we discuss the jet-lag experiments in the mammalian circadian pacemaker

Mechanisms Behind the Generalized Synchronization Conditions

A universal mechanism underlying generalized synchronization conditions in unidirectionally coupled stochastic oscillators is considered. The consideration is carried out in the framework of a modified system with additional dissipation. The approach developed is illustrated with model examples. The conclusion is reached that two types of the behavior of nonlinear dynamic systems known as generalized synchronization and noise-induced synchronization, which are viewed as different phenomena, actually represent a unique type of the synchronous behavior of stochastic oscillators and are caused by the same mechanism.Comment: 8 pages, 5 figure