Related papers: Falling chains as variable mass systems: theoretic…
Biomolecular folding and function are often coupled. During molecular recognition events, one of the binding partners may transiently or partially unfold, allowing more rapid access to a binding site. We describe a simple model for this…
The evolution of effective force chains percolating through a compressed granular system is investigated. We performed experiments by compressing an ensemble of spherical particles in a cylindrical container monitoring the macroscopic…
Single-chain elasticity is of fundamental importance in polymer physics, as it underlies many of the unique properties of polymer systems. Recently, there has been interest in characterizing the elastic properties of catenanes, molecular…
The modeling of cascading failure in power systems is difficult because of the many different mechanisms involved; no single model captures all of these mechanisms. Understanding the relative importance of these different mechanisms is an…
A coarse-grained variational model is used to investigate the polymer dynamics of barrier crossing for a diverse set of two-state folding proteins. The model gives reliable folding rate predictions provided excluded volume terms that induce…
Folding of Ubiquitin (Ub) is investigated at low and neutral pH at different temperatures using simulations of the coarse-grained Self-Organized-Polymer model with side chains. The calculated radius of gyration, showing dramatic variations…
We explore a surprising phenomenon in which an obstruction accelerates, rather than decelerates, a moving flexible object. It has been claimed that the right kind of discrete chain falling onto a table falls \emph{faster} than a…
As a granular material is compressed, the particles and forces within the system arrange to form complex heterogeneous structures. Force chains are a prime example and are thought to constrain bulk properties such as mechanical stability…
We consider the propulsive performance of an unsteady heaving and pitching foil, experimentally studying an extensive parameter space of motion amplitudes, frequencies, and phase offsets between the heave and pitch motions. The phase offset…
We present a molecular dynamics and kinetic theory study of granular material, modeled by inelastic hard disks, fluidized by a random driving force. The focus is on collisional averages and short distance correlations in the non-equilibrium…
In this article, we investigate the convergence behavior of two classes of gathering protocols with fixed circulant topologies using tools from dynamical systems. Given a fixed number of mobile entities moving in the Euclidean plane, we…
The problem of a suspended rope wrapped around a fixed cylinder is studied. If the suspension force is larger than a certain threshold (which is larger than the weight of the rope), the rope would remain tightly wrapped around the cylinder.…
Dense suspensions of fine particles are significant in numerous biological, industrial, and natural phenomena. They also provide an ideal tool to develop statistical mechanics description for out-of-equilibrium systems. Predicting the bulk…
Simulation results are presented on the collapse of granular columns composed of rod-like particles. Columns can be stable and free-standing if either the friction coefficient is large enough, or the rods long enough. Destabilizing…
We investigate conformations and dynamics of a polymer considering its monomers to be active Brownian particles. This active polymer shows very intriguing physical behavior which is absent in an active Rouse chain. The chain initially…
We show via proof-by-construction that the chain fountain, also known as the Mould effect, is a generic consequence of energy conserving dynamics of linear chains, similar to the extra acceleration observed for hanging or falling chains.…
We investigate both numerically and analytically the effect of strong disorder on the large scale properties of the hyperbolic equations for stresses proposed in \protect\cite{bcc,wcc}. The physical mechanism that we model is the local…
We present calculations of forces for two dimensional static sandpile models. Using a symbolic calculation software we obtain exact results for several different orientations of the lattice and for different types of supporting surfaces.…
The structure and stresses of static granular packs in cylindrical containers are studied using large-scale discrete element molecular dynamics simulations in three dimensions. We generate packings by both pouring and sedimentation and…
Based on the wormlike chain model, a coarse-grained description of the nonlinear dynamics of a weakly bending semiflexible polymer is developed. By means of a multiple scale perturbation analysis, a length-scale separation inherent to the…