Related papers: Spontaneous knotting of a flexible fiber in chaoti…
Some important biomolecules (for instance, bacterial FtsZ and eukaryotic DNA) are known to posses spontaneous (intrinsic) curvature. Using a simple extension of the wormlike chain model, we study the response of a weakly bending filament in…
Semiflexible polymer models are widely used as a paradigm to understand structural phases in biomolecules including folding of proteins. Since stable knots are not so common in real proteins, the existence of stable knots in semiflexible…
Dynamic network flows, sometimes called flows over time, extend the notion of network flows to include a transit time for each edge. While Ford and Fulkerson showed that certain dynamic flow problems can be solved via a reduction to static…
It is known that the Alexander polynomial detects fibered knots and 3-manifolds that fiber over the circle. In this note, we show that when the Alexander polynomial becomes inconclusive, the notion of "knot adjacency", studied in the paper…
In the finite element analysis with fast decoupled time integration scheme for viscoelastic fluid (the Leonov model) flow, we investigate strong nonlinear behavior in 2D creeping contraction flow. The algorithm is applicable in the whole…
Fix a straight line L in Euclidean 3-space and consider the fibration of the complement of L by half-planes. A generic knot K in the complement of L has neither fiber quadrisecants nor fiber extreme secants such that K touches the…
In cellular vortical flows, namely arrays of counter-rotating vortices, short but flexible filaments can show simple random walks through their stretch-coil interactions with flow stagnation points. Here, we study the dynamics of semi-rigid…
We study experimentally statistical properties of the opening times of knots in vertically vibrated granular chains. Our measurements are in good qualitative and quantitative agreement with a theoretical model involving three random walks…
We show and explain how a long bead-spring chain, immersed in a homogeneous, isotropic turbulent flow, preferentially samples vortical flow structures. We begin with an elastic, extensible chain which is stretched out by the flow, up to…
As a model of temporally evolving networks, we consider a globally coupled logistic map with variable connection weights. The model exhibits self-organization of network structure, reflected by the collective behavior of units. Structural…
We study several related models of self-avoiding polygons in a tubular subgraph of the simple cubic lattice, with a particular interest in the asymptotics of the knotting statistics. Polygons in a tube can be characterised by a finite…
Knots across various length scales, from micro to macro-scales, such as polymers, DNA, shoelaces, and surgery, serving their unique mechanical properties. The shape of ideal knots has been extensively studied in the context of knot theory,…
A theoretical analysis of the effect of force and torque on spontaneously twisted, fluctuating elastic ribbons is presented. We find that when a filament with a straight center line and a spontaneously twisted noncircular cross section is…
We investigate the knotting probability after a local strand passage is performed in an unknotted self-avoiding polygon on the simple cubic lattice. We assume that two polygon segments have already been brought close together for the…
Many experiments have been done to determine the relative strength of different knots, and these show that the break in a knotted rope almost invariably occurs at a point just outside the `entrance' to the knot. The influence of knots on…
The interplay of inertia and elasticity is shown to have a significant impact on the transport of filamentary objects, modelled by bead-spring chains, in a two-dimensional turbulent flow. We show how elastic interactions amongst inertial…
We present a computer simulation study of the compact self-avoiding loops as regards their length and topological state. We use a Hamiltonian closed path on the cubic-shaped segment of a 3D cubic lattice as a model of a compact polymer. The…
We present a methodology to simulate the mechanics of knots in elastic rods using geometrically nonlinear, full three-dimensional (3D) finite element analysis. We focus on the mechanical behavior of knots in tight configurations, for which…
Motivated by recent advances in single molecule manipulation techniques that enabled several groups to tie knots in individual polymer strands and to monitor their dynamics, we have used computer simulations to study "friction knots"…
Effects of chord-wise flexibility as an instrument to control chaotic transitions in the wake of a flexible flapping foil have been studied here using an immersed boundary method-based in-house fluid-structure-interaction solver. The…