Related papers: Nonlinear waves in double-stranded DNA
We derive an analytic model for nonlinear "photon bubble" wave trains driven by buoyancy forces in magnetized, radiation pressure-dominated atmospheres. Continuous, periodic wave solutions exist when radiative diffusion is slow compared to…
A novel D-model of wave turbulence is presented which allows to reproduce in a single frame various nonlinear wave phenomena such as intermittency, formation and direction of energy cascades, possible growth of nonlinearity due to direct…
We analyze typical models which intend to describe (parts of) the dynamics of H-Bonds in DNA. We show that these models generically allow for nonlinear localized excitatons (NLEs) (discrete breathers). We especially study the scattering of…
We study nonlinear dynamics of a periodic inhomogeneous DNA double helical chain under dynamic plane-base rotator model by considering angular rotation of bases in a plane normal to the helical axis. The dynamics is governed by a perturbed…
Modal synthesis methods are a long-standing approach for modelling distributed musical systems. In some cases extensions are possible in order to handle geometric nonlinearities. One such case is the high-amplitude vibration of a string,…
We investigate the dynamics of stage II retinal waves via a dynamical system, grounded on biophysics, and analysed with bifurcation theory. We show how the nonlinear cells coupling and bifurcation structure explain how waves start,…
We consider a system of equations for the description of nonlinear waves in a liquid with gas bubbles. Taking into account high order terms with respect to a small parameter, we derive a new nonlinear partial differential equation for the…
The equilibrium statistical properties of DNA denaturation bubbles are examined in detail within the framework of the Peyrard-Bishop-Dauxois model. Bubble formation in homogeneous DNA is found to depend crucially on the presence of…
We investigate the electron (hole) transport through short double-stranded DNA wires in which the electrons are strongly coupled to the specific vibrational modes (vibrons) of the DNA. We analyze the problem starting from a tight-binding…
In the present paper we study the impact of dispersion and nonlinearity on DNA dynamics. We rely on the helicoidal Peyrard-Bishop model and use the fact that nonlinear DNA dynamics represents an interplay between nonlinearity and…
A discrete nonlinear Schrodinger (NLS) model with long-range dispersive interactions describing the dynamical structure of DNA is proposed. Dispersive interactions of two types: the power dependence $r^{-s}$ and the exponential dependence…
This work is devoted to analysis of the nonlinear dynamics of interrelated thermal and electromagnetic perturbations in a superconductor caused by dissipative effects involved in the viscous motion of the magnetic flux. The structure and…
Several controversial issues concerning the packing of linear DNA in bacteriophages and globules are discussed. Exact relations for the osmotic pressure, capsid pressure and loading force are derived in terms of the hole size inside phages…
Statistical DNA models available in the literature are often effective models where the base-pair state only (unbroken or broken) is considered. Because of a decrease by a factor of 30 of the effective bending rigidity of a sequence of…
We study the nonlinear wave dynamics of one-dimensional chains of polycatenated rings. These interlocked structures support amplitude-dependent nonlinear wave propagation driven by tensile activation and internal structural flexibility,…
A physical model of a three-dimensional flow of a viscous bubbly fluid in an intermediate regime between bubble formation and breakage is presented. The model is based on mechanics and thermodynamics of a single bubble coupled to the…
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 spatio-temporal dynamics of separation bubbles induced to form in a fully-developed turbulent boundary layer (with Reynolds number based on momentum thickness of the boundary layer of 490) over a flat plate are studied via direct…
In this work we derive evolution equations for the nonlinear behavior of a coasting beam under the influence of a resonator impedance. Using a renormalization group approach we find a set of coupled nonlinear equations for the beam density…
The denaturation dynamics of a long double-stranded DNA is studied by means of a model of the Poland-Scheraga type. We note that the linking of the two strands is a locally conserved quantity, hence we introduce local updates that respect…