Related papers: Breather trapping and breather transmission in a D…
We study the properties of moving breathers in a bent DNA-related model with short range interaction, due to the stacking of the base pairs, and long range interaction, due to the finite dipole moment of the bonds within each base pair. We…
Recent papers that have studied variants of the Peyrard-Bishop model for DNA, have taken into account the long range interaction due to the dipole moments of the hydrogen bonds between base pairs. In these models the helicity of the double…
We present analytical and numerical studies of phase-coherent dynamics of intrinsically localized excitations (breathers) in a system of two weakly coupled nonlinear oscillator chains. We show that there are two qualitatively different…
We study the energy transfer in a classical dipole chain of $N$ interacting rigid rotating dipoles. The underlying high--dimensional potential energy landscape is analyzed in particular by determining the equilibrium points and their…
We explore breather propagation in the damped oscillatory chain with essentially nonlinear (non-linearizable) nearest-neighbour coupling. Combination of the damping and the substantially nonlinear coupling leads to rather unusual two-stage…
Collective coordinate and direct numerical integration methods are applied to the analysis of a one-dimensional DNA model. A modification of the coupling constant in an extended region is found to be less selective towards the breather it…
Previous numerical investigations of an one-dimensional DNA model with an extended modified coupling constant by transcripting enzyme are integrated to longer time and demonstrated explicitly the trapping of breathers by DNA chains with…
We investigate the nonlinear dynamics of a damped Peyrard-Bishop DNA model taking into account long-range interactions with distance dependence |l|^-s on the elastic coupling constant between different DNA base pairs. Considering both…
The impact of damping effect and external forces to the DNA breathing is investigated within the Peyrard-Bishop model. In in the continuum limit, the dynamics of the breathing of DNA is described by the forced-damped nonlinear Schrodinger…
We examine the dynamics of strongly localized periodic solutions (discrete breathers) in two-dimensional array of coupled finite one-dimensional chains of oscillators. Localization patterns with both single and multiple localization sites…
Recent papers have considered moving breathers (MBs) in DNA models including long range interaction due to the dipole moments of the hydrogen bonds. We have recalculated the value of the charge transfer when hydrogen bonds stretch using…
In the present work, we develop a systematic examination of the existence, stability and dynamical properties of a discrete breather at the interface between a diatomic and a monoatomic granular chain. We remarkably find that such an…
We report the results of molecular dynamics simulations of an off-lattice protein model featuring a physical force-field and amino-acid sequence. We show that localized modes of nonlinear origin (discrete breathers) emerge naturally as…
Breathing solitons are nonlinear waves in which the energy concentrates in a localized and oscillatory fashion. Similarly to stationary solitons, breathers in dissipative systems can form stable bound states displaying molecule-like…
We report on the existence of discrete breathers in a one-dimensional, mass-in-mass chain with linear intersite coupling and nonlinear Hertzian local resonators, which is motivated by recent studies of the dynamics of microspheres adhered…
Breathers may be mobile close to an instability threshold where the frequency of a pinning mode vanishes. The translation mode is a marginal mode that is a solution of the linearized (Hill) equation of the breather which grows linearly in…
The dynamics of static and travelling breathers in two-species Bose-Einstein condensates in a one-dimensional optical lattice is modelled within the tight-binding approximation. Two coupled discrete nonlinear Schr\"odinger equations…
In this communication, we examine a nonlinear model with an impurity emulating a bend. We justify the geometric interpretation of the model and connect it with earlier work on models including geometric effects. We focus on both the…
Recently, using a numerical surface cooling approach, we have shown that highly energetic discrete breathers (DB) can form in the stiffest parts of nonlinear network models of large protein structures. In the present study, using an…
The existence, stability and movability of breathers in a model for alpha-helix proteins is studied. This model basically consists a chain of dipole moments parallel to it. The existence of localized linear modes brings about that the…