Related papers: Moving breathers in a bent DNA-related model
We analyze the dynamics of an active tracer particle embedded in a thermal lattice gas. All particles are subject to exclusion up to third nearest neighbors on the square lattice, which leads to slow dynamics at high densities. For the case…
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…
We consider the discrete p-Schr\"odinger (DpS) equation, which approximates small amplitude oscillations in chains of oscillators with fully-nonlinear nearest-neighbors interactions of order alpha = p-1 >1. Using a mapping approach, we…
In weakly nonlinear dispersive systems, solitons are spatially localized solutions which propagate without changing shape through a delicate balance between dispersion and self-focusing nonlinear effects. These states have been extensively…
Driven particles in presence of crowded environment, obstacles or kinetic constraints often exhibit negative differential mobility (NDM) due to their decreased dynamical activity. We propose a new mechanism for complex many-particle systems…
We develop a simple 1D model for the scattering of an incoming particle hitting the surface of mica crystal, the transmission of energy through the crystal by a localized mode, and the ejection of atom(s) at the incident or distant face.…
We consider a heat conduction model introduced in \cite{Collet-Eckmann 2009}. This is an open system in which particles exchange momentum with a row of (fixed) scatterers. We assume simplified bath conditions throughout, and give a…
We consider one-dimensional systems comprising either active run-and-tumble particles (RTPs) or passive Brownian random walkers. These particles are either noninteracting or have hardcore exclusions. We study the dynamics of a single tracer…
In this work, we model the zero-bias conductance for the four different DNA strands that were used in conductance measurement experiment [A. K. Mahapatro, K. J. Jeong, G. U. Lee, and D. B. Janes, Nanotechnology 18, 195202 (2007)]. Our…
We study the structure and stability of discrete breathers (both pinned and mobile) in two-dimensional nonlinear anisotropic Schrodinger lattices. Starting from a set of identical one-dimensional systems we develop the continuation of the…
We consider a random walker whose motion is tethered around a focal point. We use two models that exhibit the same spatial dependence in the steady state but widely different dynamics. In one case, the walker is subject to a deterministic…
After crossing an initial barrier to break the first base-pair (bp) in double-stranded DNA, the disruption of further bps is characterized by free energies between less than one to a few kT. This causes the opening of intermittent…
We study experimentally and numerically the existence and stability properties of discrete breathers in a periodic nonlinear electric line. The electric line is composed of single cell nodes, containing a varactor diode and an inductor,…
We investigate out-of-equilibrium stationary processes emerging in a Discrete Nonlinear Schroedinger chain in contact with a heat reservoir (a bath) at temperature $T_L$ and a pure dissipator (a sink) acting on opposite edges. We observe…
Breather stability and longevity in thermally relaxing nonlinear arrays depend sensitively on their interactions with other excitations. We review the relaxation of breathers in Fermi-Pasta-Ulam arrays, with a specific focus on the…
Several recent experiments suggest that sharply bent DNA has a surprisingly high bending flexibility, but the cause of this flexibility is poorly understood. Although excitation of flexible defects can explain these results, whether such…
The flexibility of short DNA chains is investigated via computation of the average correlation function between dimers which defines the persistence length. Path integration techniques have been applied to confine the phase space available…
We investigate numerically how the motion of an intruder within a two-dimensional granular system affects its structure and produces drag on the intruder. We made use of discrete numerical simulations in which a larger disk (intruder) is…
Charge migration along DNA molecules has attracted scientific interest for over half a century. Reports on possible high rates of charge transfer between donor and acceptor through the DNA, obtained in the last decade from solution…
The competition between toroidal and rod-like conformations as possible ground states for DNA condensation is studied as a function of the stiffness, the length of the DNA and the form of the long-range interactions between neighboring…