Related papers: Nonlinear DNA dynamics: nonlinearity versus disper…
We investigate the nonlocal behavior of passive tracer dispersion with random stopping at various sites in fluids. This kind of dispersion processes is modeled by an integral partial differential equation, i.e., an advection-diffusion…
In this paper we investigate, through numerical studies, the dynamical evolutions encoded in a linear one-dimensional nonlocal equation arising in peridynamcs. The different propagation regimes ranging from the hyperbolic to the dispersive,…
Nonlinear reaction-diffusion systems admit a wide variety of spatiotemporal patterns or structures. In this lecture, we point out that there is certain advantage in studying discrete arrays, namely cellular neural/nonlinear networks (CNNs),…
The effects of nonlinear oscillations in compact stars are attracting considerable current interest. In order to study such phenomena in the framework of fully nonlinear general relativity, highly accurate numerical studies are required. We…
The formation of polaron and its migration in a DNA chain are studied within a semiclassical Peyrard-Biship-Holstein polaron model. Comparing the energetics of the polaron system found from the quantum chemical and semiclassical…
A simple Langevin approach is used to study stationary properties of the Peyrard-Bishop-Dauxois model for DNA, allowing known properties to be recovered in an easy way. Results are shown for the denaturation transition in homogeneous…
A dynamical model is presented for chiral change in DNA molecules. The model is an extension of the conventional elastic model which incorporates the structure of base pairs and uses a spinor representation for the DNA configuration…
The non-Hermitian skin effect is the accumulation of eigenstates at the boundaries, reflecting the system's nonreciprocity. Introducing disorder leads to a competition between the skin effect and Anderson localization, giving rise to the…
The dynamics of models described by a one-dimensional discrete nonlinear Schr\"odinger equation is studied. The nonlinearity in these models appears due to the coupling of the electronic motion to optical oscillators which are treated in…
Dynamics of topological solitons describing open states in the DNA double helix are studied in the frameworks of the model which takes into account asymmetry of the helix. It is shown that three types of topological solitons can occur in…
A novel statistical approach based on the Wigner transform is proposed for the description of partially incoherent optical wave dynamics in nonlinear media. An evolution equation for the Wigner transform is derived from a nonlinear…
The twisting deformation of mechanically stretched DNA molecules is studied by a coarse grained Hamiltonian model incorporating the fundamental interactions that stabilize the double helix and accounting for the radial and angular base pair…
We numerically study stochastic resonance in the unzipping of a model double-stranded DNA by a periodic force. We observe multiple peaks in stochastic resonance in the output signal as the driving force frequency is varied for different…
Although mechanical properties of DNA are well characterized at the kilo base-pair range, a number of recent experiments have suggested that DNA is more flexible at shorter length scales, which correspond to the regime that is crucial for…
The so called long range correlation properties of DNA sequences are studied using the variance analyses of the density distribution of a single or a group of nucleotides in a model independent way. This new method which was suggested…
We employ molecular dynamics simulation to study the phase separation and rheological properties of a three-dimensional binary liquid mixture with hydrodynamics undergoing simple shear deformation. The impact of shear intensity on domain…
Photonic crystal fibers are used in fiber amplifiers and lasers because of the flexibility in the design of mode area and dispersion. However, these quantities depend strongly on the wavelength. The wavelength dependence of gain,…
Interactions between active particles may be non-reciprocal, breaking action-reaction symmetry and leading to novel physics not observed in equilibrium systems. The non-reciprocalCahn-Hilliard (NRCH) model is a phenomenological model that…
We study a 1D nonlinear Schr{\"o}dinger equation appearing in the description of a particle inside an atomic nucleus. For various nonlinearities, the ground states are discussed and given in explicit form. Their stability is studied…
The concept of Nonlinear dispersion relation (NDR) is used in various fields of Physics (nonlinear optics, hydrodynamics, hydroelasticity, mechanics, quantum optics, plasma physics,...) to characterize fundamental phenomena induced by…