Related papers: Dynamics of DNA Bubble in Viscous Medium
We investigate diffusion-limited reactions between a diffusing particle and a target site on a semiflexible polymer, a key factor determining the kinetics of DNA-protein binding and polymerization of cytoskeletal filaments. Our theory…
The dynamics of elastic dumbbells in linear shear flow is investigated by fluid particle dynamics simulations at small Reynolds numbers. The positive contribution of a single dumbbell to the effective shear viscosity is determined via the…
We propose a dynamical model for non-specific DNA-protein interaction, which is based on the 'bead-spring' model previously developed by other groups, and investigate its properties using Brownian Dynamics simulations. We show that the…
In this paper we address the stability of resonantly forced density waves in dense planetary rings. Already by Goldreich & Tremaine (1978) it has been argued that density waves might be unstable, depending on the relationship between the…
The melting transition of deoxyribonucleic acid (DNA), whereby the strands of the double helix structure completely separate at a certain temperature, has been characterized using neutron scattering. A Bragg peak from B-form fibre DNA has…
We construct a theoretical model for the dynamics of a microscale colloidal particle, modeled as an interval, moving horizontally on a DNA-coated surface, modelled as a line coated with springs that can stick to the interval. Averaging over…
Consider the dynamics of a gas bubble in an inviscid, compressible liquid with surface tension. Kinematic and dynamic boundary conditions couple the bubble surface deformation dynamics with the dynamics of waves in the fluid. This system…
The approximation of quantum unitary dynamics of a particle by a swarm of point wise classical samples of this particle is proposed. Quantum mechanism of speedup rests on the creation and annihilation of absolutely rigid bons, which join…
We consider the dynamics of thin two-dimensional viscous droplets on chemically heterogeneous surfaces moving under the combined effects of slip, mass transfer and capillarity. The resulting long-wave evolution equation for the droplet…
We experimentally investigate the interaction between a pair of bubbles ascending in a stagnant viscoelastic shear-thinning fluid. In particular, we focus on the effect of bubble size, across the velocity discontinuity, on the bubble-bubble…
An analytical theory is developed to describe the dynamics of a closed lipid bilayer membrane (vesicle) freely suspended in a general linear flow. Considering a nearly spherical shape, the solution to the creeping-flow equations is obtained…
We investigate the kinetics of bubble coarsening in a single component Lennard-Jones fluid using large-scale molecular dynamics simulations. A homogeneous high-temperature system is quenched below the critical temperature to induce the…
Hydrodynamic systems arising in swarming modelling include nonlocal forces in the form of attractive-repulsive potentials as well as pressure terms modelling strong local repulsion. We focus on the case where there is a balance between…
It has been conjectured by Bagnold [1] that an assembly of hard non-deformable spheres could behave as a compressible medium when slowly sheared, as the average density of such a system effectively depends on the confining pressure. Here we…
We report a study of DNA (150 bp fragments) conformations in very low added salt $<0.05$mM, across wide DNA concentration range $0.0015\leq c \leq 8$~mM (bp). We found an intermediate DNA conformation in the region $0.05 < c < 1$~mM, by…
We study the effect of quenched disorder on nonequilibrium systems of interacting particles, specifically, driven diffusive lattice gases with spatially disordered jump rates. The exact steady-state measure is found for a class of models…
We study how oscillations of a scalar field condensate are damped due to dissipative effects in a thermal medium. Our starting point is a non-linear and non-local condensate equation of motion descending from a 2PI-resummed effective action…
Dynamics of interacting cold atomic gases have recently become a focus of both experimental and theoretical studies. Often cold atom systems show hydrodynamic behavior and support the propagation of nonlinear dispersive waves. Although this…
The Ludwig-Soret effect, the migration of a species due to a temperature gradient, has been extensively studied without a complete picture of its cause emerging. Here we investigate the dynamics of DNA and spherical particles sub jected to…
The impact of various types of external potentials to the Peyrard-Bishop DNA denaturation is investigated through statistical mechanics approach. The partition function is obtained using transfer integral method, and further the stretching…