Related papers: Nonlinear DNA dynamics: nonlinearity versus disper…
In recent work, we have proposed a theory for the derivation of an exact nonlinear dispersion relation for elastic wave propagation which here we consider for a thin rod (linearly nondispersive) and a thick rod (linearly dispersive). The…
We investigate how shear influences the dynamics of active particles in dilute to concentrated suspensions. Using apolar active suspensions of squirmers as model systems, we show how their long-time diffusive dynamics can surprisingly slow…
Genetic sequences are known to possess non-trivial composition together with symmetries in the frequencies of their components. Recently, it has been shown that symmetry and structure are hierarchically intertwined in DNA, suggesting a…
We report model calculations on DNA single strands which describe the equilibrium dynamics and kinetics of hairpin formation and melting. Modeling is at the level of single bases. Strand rigidity is described in terms of simple polymer…
In recent years, Winter's nonlinear model has been adopted in theoretical physics as the prototype for the study of quantum resonances and the dynamics of observables in the context of nonlinear Schr\"odinger equations. However, its…
We study spreading dynamics of nematic liquid crystal droplets within the framework of the long-wave approximation. A fourth order nonlinear parabolic partial differential equation governing the free surface evolution is derived. The…
A nonlinear Tracking-Differentiator is one-input-two-output system that can generate smooth approximation of measured signals and get the derivatives of the signals. The nonlinear tracking-Differentiator is explored to denoise and generate…
We consider a nonlinear Schroedinger equation in two spatial dimensions subject to a periodic honeycomb lattice potential. Using a multi-scale expansion together with rigorous error estimates, we derive an effective model of nonlinear Dirac…
The control of wave propagation, particularly the quest for unidirectional transport, plays an important role in photonics and metamaterial science. While nonreciprocity is known to enable unidirectional amplification and stabilize complex…
Edge instabilities are believed to be one of the possible causes of shear banding in entangled polymeric fluids. Here, we investigate the effect of edge disturbance on the shear-induced dynamics of well-entangled DNA solutions. Using a…
We investigate the dynamics of a particle moving randomly along a disordered hetero-polymer subjected to rapid conformational changes which induce superdiffusive motion in chemical coordinates. We study the antagonistic interplay between…
We here examine the nonlinear dynamics of artificial homogeneous DNA chain relying on the plain-base rotator model. It is shown that such dynamics can exhibit kink and antikink solitons of sine-Gordon type. In that respect we propose…
A study of the micromechanical unzipping of DNA in the framework of the Peyrard-Bishop-Dauxois model is presented. We introduce a Monte Carlo technique that allows accurate determination of the dependence of the unzipping forces on…
We study the discrete nonlinear Schr\"odinger equation (DNLS) in an annular geometry with on-site defects. The dynamics of a traveling plane-wave maps onto an effective ''non-rigid pendulum'' Hamiltonian. The different regimes include the…
Recent experimental and theoretical approaches have attempted to quantify the physical organization (compaction and geometry) of the bacterial chromosome with its complement of proteins (the nucleoid). The genomic DNA exists in a complex…
Charge diffusion through desoxyribonucleic acid (DNA) is a physico-chemical phenomenon that on the one hand is being explored for technological purposes, on the other hand is applied by nature for various informational processes in life.…
We study delay-independent stability in nonlinear models with a distributed delay which have a positive equilibrium. Such models frequently occur in population dynamics and other applications. In particular, we construct a relevant…
A mechanism for asymmetric (nonreciprocal) wave transmission is presented. As a reference system, we consider a layered nonlinear, non mirror-symmetric model described by the one-dimensional Discrete Nonlinear Schreodinger equation with…
We show that the NLS systems with multiplicative noise, nonlinear damping and nonlocal dispersion exhibit a variety of interesting effects which may be useful for modelling the dynamical behavior of one- and two-dimensional molecular…
Latent variable models have been widely applied for the analysis of time series resulting from experimental neuroscience techniques. In these datasets, observations are relatively smooth and possibly nonlinear. We present Variational…