相关论文: DNA toroid condensation as analytic solutions

We develop a theory of the domain patterns in systems with competing short-range attractive interactions and long range repulsive Coulomb interactions. We take an energetic approach, in which patterns are considered as critical points of a…

We study the existence of a global periodic attractor for the reduced dynamics of a discrete toy model for rectilinear crawling locomotion, corresponding to a limit cycle in the shape and velocity variables. The body of the crawler consists…

We obtain for the attractive Dirac delta-function potential in two-dimensional quantum mechanics a renormalized formulation that avoids reference to a cutoff and running coupling constant. Dimensional transmutation is carried out before…

Much of the complexity observed in gene regulation originates from cooperative protein-DNA binding. While studies of the target search of proteins for their specific binding sites on the DNA have revealed design principles for the…

DNA adsorption and naturation is modeled via two interacting flexible homopolymers coupled to a solid surface. DNA denatures if the entropy gain for unbinding the two strands overcomes the loss of binding energy. When adsorbed to a surface,…

We present micro-rheological measurments of the drag force on colloids pulled through a solution of lambda-DNA (used here as a monodisperse model polymer) with an optical tweezer. The experiments show a violation of the Stokes-Einstein…

The elasticity of DNA catenanes, i.e. multiply linked DNA rings, is investigated using the Gauss invariant as a minimal model for topology conservation. An effective elastic free energy as a function of the distance $R$ between segments…

In this paper we study a coupled system modeling the movement of a deformable solid immersed in a fluid. For the solid we consider a given deformation that has to obey several physical constraints. The motion of the fluid is modeled by the…

Driven dissipative systems at ambient conditions typically exhibit continuous responses shaped by fluctuations and relaxation, with discrete macroscopic states arising only under specific dynamical constraints. Here, we report the emergence…

Irreversible random sequential deposition of interacting particles is widely used to model aggregation phenomena in physical, chemical, and biophysical systems. We show that in one dimension the exact time dependent solution of such…

This article proposes a model including thermal effects for closed supercoiled DNA. Existing models include an elastic rod. Euler's elastica, ideal elastic rods on a plane, have only two kinds of closed shapes, the circle and a…

In this paper, we present a coarse-grained model of DNA based on the soft ellipsoid contact potential (ECP) to evaluate the base pairing interaction properly. We extend the ellipsoid contact like potential model (ECP), suitably modified and…

We use the linear $\sigma$ model to analyse the dynamics of a disoriented chiral condensate. For idealized boundary conditions appropriate to high energy collisions, the problem can be reduced to a one dimensional one. The evolution of the…

There is increasing evidence that protein binding to specific sites along DNA can activate the reading out of genetic information without coming into direct physical contact with the gene. There also is evidence that these distant but…

A one parameter solvable model for three bosons subject to delta function interactions in one-dimension with periodic boundary conditions is studied. The energy levels and wave functions are classified and given explicitly in terms of three…

A unified model is constructed to study the recently observed DNA entropic elasticity, cooperative extensibility, and supercoiling property. With the introduction of a new structural parameter (the folding angle $\phi$), bending…

The two-dimensional generalization of the Polyelectolite model of DNA is proposed. It is reduced to the boundary problem for nonlinear completely integrable equation $\sh$-Gordon. In the linearisible version the exact solution is…

We study the compression and extension dynamics of a DNA-like polymer interacting with non-DNA binding and DNA-binding proteins, by means of computer simulations. The geometry we consider is inspired by recent experiments probing the…

We study the thermal and mechanical behavior of DNA denaturation in the frame of the mesoscopic Peyrard- Bishop-Dauxois model with the inclusion of solvent interaction. By analyzing the melting transition of a homogeneous A-T sequence, we…

We study the $d$-dimensional discrete nonlinear Schr\"odinger equation with general power nonlinearity and a delta potential. Our interest lies in the interplay between two localization mechanisms. On the one hand, the attractive…