Related papers: Chaotic Dynamics of Polyatomic Systems with an Emp…
We discuss the effect of heterogeneity on the chaotic properties of the Peyrard-Bishop-Dauxois nonlinear model of DNA. Results are presented for the maximum Lyapunov exponent and the deviation vector distribution. Different compositions of…
We study the chaotic behavior of multidimensional Hamiltonian systems in the presence of nonlinearity and disorder. It is known that any localized initial excitation in a large enough linear disordered system spreads for a finite amount of…
The melting behavior of long, heterogeneous DNA chains is examined within the framework of the nonlinear lattice dynamics based Peyrard-Bishop-Dauxois (PBD) model. Data for the pBR322 plasmid and the complete T7 phage have been used to…
We study chaoticity and thermalization in Bose-Einstein condensates in disordered lattices, described by the discrete nonlinear Schr\"odinger equation (DNLS). A symplectic integration method allows us to accurately obtain both the full…
The distribution of bubble lengths in double-stranded DNA is presented for segments of varying guanine-cytosine (GC) content, obtained with Monte Carlo simulations using the Peyrard-Bishop-Dauxois model at 310 K. An analytical description…
The dynamical properties of double-stranded DNA are studied in the framework of the Peyrard-Bishop-Dauxois model using Langevin dynamics. Our simulations are analyzed in terms of two probability functions describing coherently localized…
We numerically investigate the characteristics of chaos evolution during wave packet spreading in two typical one-dimensional nonlinear disordered lattices: the Klein-Gordon system and the discrete nonlinear Schr\"{o}dinger equation model.…
We investigate the distribution of bubble lifetimes and bubble lengths in DNA at physiological temperature, by performing extensive molecular dynamics simulations with the Peyrard-Bishop-Dauxois (PBD) model, as well as an extended version…
Protein folding produces characteristic and functional three-dimensional structures from unfolded polypeptides or disordered coils. The emergence of extraordinary complexity in the protein folding process poses astonishing challenges to…
Many complex phenomena, from weather systems to heartbeat rhythm patterns, are effectively modeled as low-dimensional dynamical systems. Such systems may behave chaotically under certain conditions, and so the ability to detect chaos based…
In a recent letter [Phys.Rev.Lett. {\bf 30}, 3269 (1995), chao-dyn/9510011], we reported that a macroscopic chaotic determinism emerges in a multistable system: the unidirectional motion of a dissipative particle subject to an apparently…
High-dimensional dynamical systems of interacting degrees of freedom are ubiquitous in the study of complex systems. When the directed interactions are totally uncorrelated, sufficiently strong and non-linear, many of these systems exhibit…
Turbulence has associated chaotic features. In the past couple of decades there has been growing interest in the study of these features as an alternative means of understanding turbulent systems. Our own input to this effort has been in…
We investigate the nonlinear dynamics of the Peyrard-Bishop DNA model taking into account site dependent inhomogeneities. By means of the multiple-scale expansion in the semi-discrete approximation, the dynamics is governed by the perturbed…
High-intensity beams in modern linacs are frequently encircled by diffuse halos, which drive sustained particle losses and result in gradual degradation of accelerating structures. In large part, the growth of halos is facilitated by…
The interplay of fluctuations, ergodicity, and disorder in many-body interacting systems has been striking attention for half a century, pivoted on two celebrated phenomena: Anderson localization predicted in disordered media, and…
Although it is now understood that chaos in complex classical systems is the foundation of thermodynamic behavior, the detailed relations between the microscopic properties of the chaotic dynamics and the macroscopic thermodynamic…
The orbits of two individual planets in two known binary star systems, \gamma Cephei and HD 196885 are numerically integrated using various numerical techniques to assess the chaotic or quasi-periodic nature of the dynamical system…
We explore the chaotic dynamics of the mass-deformed Aharony-Bergman-Jafferis-Maldacena model. To do so, we first perform a dimensional reduction of this model from $2+1$ to $0+1$ dimensions, considering that the fields are spatially…
Using large-scale parallel numerical simulations we explore spatiotemporal chaos in Rayleigh-B\'enard convection in a cylindrical domain with experimentally relevant boundary conditions. We use the variation of the spectrum of Lyapunov…