Related papers: Nonlinear dynamics of damped DNA systems with long…
We consider a complex Ginzburg-Landau equation, corresponding to a Gross-Pitaevskii equation with a small dissipation term. We study an asymptotic regime for long-wave perturbations of constant maps of modulus one. We show that such…
In a wide range of applications, microfluidic channels are implemented in soft substrates. In such configurations, where fluidic inertia and compressibility are negligible, the propagation of fluids in channels is governed by a balance…
A simple model of DNA based on two interacting polymers has been used to study the unzipping of a double stranded DNA subjected to a periodic force. We propose a dynamical transition, where without changing the physiological condition, it…
We present a nonlinear dynamical model for DNA thermal denaturation, which is based on the finite stacking enthalpies used in thermodynamical nearest-neighbour calculations. Within this model, the finiteness of stacking enthalpies is shown…
The electrodynamic response of DNA in the millimeter wave range is investigated. By performing measurements under a wide range of humidity conditions and comparing the response of single strand DNA and double strand DNA, we show that the…
We study the dynamics of a system of $N$ interacting bosons in a disc-shaped trap, which is realised by an external potential that confines the bosons in one spatial dimension to a region of order $\varepsilon$. The interaction is…
We investigate the coupled dynamics of charge and energy in interacting lattice models with dipole conservation. We formulate a generic hydrodynamic theory for this combination of fractonic constraints and numerically verify its…
We study the effects of the sequence on the propagation of nonlinear excitations in simple models of DNA in which we incorporate actual DNA sequences obtained from human genome data. We show that kink propagation requires forces over a…
This work addresses non-classically damped coupled oscillators with closely spaced modes focusing on the physics of modal interactions. Considering the simplest representative example in the form of an impulsively excited…
Three-dimensional DNA networks, composed of tri- or higher valent nanostars with sticky, single-stranded DNA overhangs, have been previously studied in the context of designing thermally responsive, viscoelastic hydrogels. In this work, we…
While the thermodynamics of DNA hybridization is well understood, much less is known about the kinetics of this classic system. Filling this gap in our understanding has new urgency because DNA nanotechnology often depends critically on…
We present a phenomenological dynamical model able to describe the stretching features of the curve of DNA length vs applied force. As concerns the chain, the model is based on the discrete wormlike chain model with elastic modifications,…
The response of a semiflexible polyelectrolyte chain to stretching in the regimes of moderate and weak screening is studied theoretically, with a special focus on DNA experiments. By using the nonlinear Poisson--Boltzmann description of…
A unified approach has been developed to study nonlinear dynamics of a 1D lattice of particles with long-range power-law interaction. A classical case is treated in the framework of the generalization of the well-known Frenkel-Kontorova…
We model the expansion of an interacting atomic Bose-Einstein condensate in a disordered lattice with a nonlinear diffusion equation normally used for a variety of classical systems. We find approximate solutions of the diffusion equation…
We study the dynamics of a double-stranded DNA (dsDNA) segment, as a semiflexible polymer, in a shear flow, the strength of which is customarily expressed in terms of the dimensionless Weissenberg number Wi. Polymer chains in shear flows…
The dynamics of solitons of the nonlinear Schr\"odinger equation under the influence of dissipative and dispersive perturbations is investigated. In particular a coupling to a long-wave mode is considered using extended Ginzburg-Landau…
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 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…
We investigate the impact of nonlinear damping on the dynamics of a nanomechanical doubly clamped beam. The beam is driven into nonlinear regime and the response is measured by a displacement detector. For data analysis we introduce a…