相关论文: Joint free energy distribution in the random direc…
In this paper, we study random embeddings of polymer networks distributed according to any potential energy which can be expressed in terms of distances between pairs of monomers. This includes freely jointed chains, steric effects,…
The problem of randomly forced Burgers turbulence ("Burgulence") is considered in terms of the toy Gaussian Larkin model of directed polymers. In terms of the replica technique the explicit expressions for the two-time four-point free…
We prove a formula conjectured in O'Connell and Yor (2001) for the free energy density of a directed polymer in a Brownian environment in 1+1 dimensions.
The sequence of random probability measures $\nu_n$ that gives a path of length $n$, $\unsur{n}$ times the sum of the random weights collected along the paths, is shown to satisfy a large deviations principle with good rate function the…
Monte Carlo computer simulations are used to study the conformational free energy of a folded polymer confined to a long cylindrical tube. The polymer is modeled as a hard-sphere chain. Its conformational free energy $F$ is measured as a…
In this note we give upper bounds for the free energy of discrete polymers in random media. The bounds are given by the so-called generalized multiplicative cascades from the statistical theory of turbulence. For the polymer model, we…
Long distance excitation energy transfer between a donor and an acceptor embedded in a polymer chain is usually assumed to occur via the Forster mechanism which predicts a 1/R^6 distance dependence of the transfer rate, where R is the…
We study the directed polymers in random environment on an infinite graph $G=(V,E)$ on which the underlying random walk satisfies sub-Gaussian heat kernel bounds with spectral dimension $d_{s}$ strictly less than two. Our goal in this paper…
We use Newtonian and overdamped Langevin dynamics to study long flexible polymers dragged by an external force at a constant velocity $v$. The work $W$ by that force depends on the initial state of the polymer and the details of the…
We consider an inextensible, semiflexible polymer or worm-like chain which is confined in the transverse direction by a parabolic potential and subject to a longitudinal force at the ends, so that the polymer is stretched out and…
The free energy of a multi-component scalar field theory is considered as a functional W[G,J] of the free correlation function G and an external current J. It obeys non-linear functional differential equations which are turned into…
We present an ab initio approach for evaluating a free energy profile along a reaction coordinate by combining logarithmic mean force dynamics (LogMFD) and first-principles molecular dynamics. The mean force, which is the derivative of the…
Recently, Vontobel showed the relationship between Bethe free energy and annealed free energy for protograph factor graph ensembles. In this paper, annealed free energy of any random regular, irregular and Poisson factor graph ensembles are…
This paper considers an undirected polymer chain on $\mathbb{Z}^d$, $d \geq 2$, with i.i.d.\ random charges attached to its constituent monomers. Each self-intersection of the polymer chain contributes an energy to the interaction…
We study the free energy and its relevant quantity for the directed polymer in random environment. The polymer is allowed to make unbounded jumps and the environment is given by the Bernoulli variables. We first establish the concentration…
We consider a long, semiflexible polymer, with persistence length $P$ and contour length $L$, fluctuating in a narrow cylindrical channel of diameter $D$. In the regime $D\ll P\ll L$ the free energy of confinement $\Delta F$ and the length…
A microscopic theory of the free energy barriers and folding routes for minimally frustrated proteins is presented, greatly expanding on the presentation of the variational approach outlined previously [J. J. Portman, S. Takada, P. G.…
Although the stretching of polymers and biomolecules is important in numerous settings, their response when confined to two-dimensions is relatively poorly-studied. In this paper, we derive closed-form analytical expressions for the…
We discuss the non-self-averaging phenomena in the critical point of weakly disordered Ising ferromagnet. In terms of the renormalized replica Ginzburg-Landau Hamiltonian in dimensions D <4, we derive an explicit expression for the…
We propose a general theory to describe the distribution of protein-folding transition paths. We show that transition paths follow a predictable sequence of high-free-energy transient states that are separated by free-energy barriers. Each…