Related papers: Bubble dynamics in DNA
A precise modelling of the dynamics of bubbles nucleated during first-order phase transitions in the early Universe is pivotal for a quantitative determination of various cosmic relics, including the stochastic background of gravitational…
We generalize the Poland-Scheraga (PS) model to the case of a circular DNA, taking into account the twisting of the two strains around each other. Guided by recent single-molecule experiments on DNA strands, we assume that the torsional…
We study the large distance behavior of a steady distribution of two Brownian particles under external driving in a two-dimensional space. Employing a method of perturbative system reduction, we analyze a Fokker-Planck equation that…
We propose a dynamical model for the secondary structure of DNA, which is based on the finite stacking enthalpies used in thermodynamics calculations. In this model, the two strands can separate and the bases are allowed to rotate…
When double-stranded DNA molecules are heated, or exposed to denaturing agents, the two strands get separated. The statistical physics of this process has a long history, and is commonly described in term of the Poland-Scheraga (PS) model.…
Using Brownian dynamics computer simulations we show that a two-dimensional suspension of self-propelled ("active") colloidal particles crystallizes at sufficiently high densities. Compared to the equilibrium freezing of passive particles…
The Poland--Scheraga model, introduced in the 1970's, is a reference model to describe the denaturation transition of DNA. More recently, it has been generalized in order to allow for asymmetry in the strands lengths and in the formation of…
We compute the dynamical prefactor in the nucleation rate of bubbles or droplets in first order phase transitions for the case where both viscous damping and thermal dissipation are significant. This result, which generalizes previous work…
We study numerically the mechanical stability and elasticity properties of duplex DNA molecules within the frame of a network model incorporating microscopic degrees of freedom related with the arrangement of the base pairs. We pay special…
The formation of novel dynamical states for a collection of dust particles in two dimensions has been shown with the help of Molecular Dynamics (MD) simulation. The charged dust particles interact with each other with Yukawa pair potential…
We calculate bubble nucleation rates in a Lennard-Jones fluid through explicit molecular dynamics simulations. Our approach -- based on a recent free energy method (dubbed reweighted Jarzynski sampling), transition state theory, and a…
Brownian particles interacting via repulsive soft-core potentials can spontaneously aggregate, despite repelling each other, and form periodic crystals of particle clusters. We study this phenomenon in low-dimensional situations (one and…
We consider the driven dynamics of a probe particle moving through an assembly of particles with competing long-range repulsive and short-range attractive interactions, which form crystal, stripe, labyrinth, and bubble states as the ratio…
Knowledge of bubble and drop size distributions in two-phase flows is important for characterizing a wide range of phenomena, including combustor ignition, sonar communication, and cloud formation. The physical mechanisms driving the…
The spontaneous formation of tiny bubbles in a liquid is at the root of the nucleation mechanism during the liquid-to-vapor transition of a metastable liquid. The smaller the bubbles the larger their probability to appear, and even for…
In this paper, we analyze the dynamics of an $N$ particles system evolving according the gradient flow of an energy functional. The particle system is a consistent approximation of the Lagrangian formulation of a one parameter family of…
This study seeks to understand the origins of intermittency in quantities of interest in pool boiling, such as bubble departure diameter and departure time. The intermittency of nucleation site activity due to nonuniform and unsteady…
Two-dimensional dry foams coarsen according to the von Neumann law as $dA/dt \propto (n-6)$ where $n$ is the number of sides of a bubble with area $A$. Such foams reach a self-similar scaling state where area and side-number distributions…
Two-dimensional classical cluster of particles interacting through a screened Coulomb potential is studied. This system can be used as a model for "dusty particles" in high-frequency discharge plasma. For systems consisting of N = 2 - 40…
We present a theory for the steady-state dynamics of a two-dimensional system of spherically symmetric active Brownian particles. The derivation of the theory consists of two steps. First, we integrate out the self-propulsions and obtain a…