相关论文: Capturing knots in polymers
New presentations of a link and a virtual link are introduced and algebraic systems on links and virtual links are constructed respectively. Based on the algebraic systems, Reduction Crossing Algorithms for them are proposed which are used…
Motivated by a connection with the factorization of multivariate polynomials, we study integral convex polytopes and their integral decompositions in the sense of the Minkowski sum. We first show that deciding decomposability of integral…
This paper consists of a formal analysis and one solid solution to the knot finding problem given a source polyline and a parametric curve (e.g. circular arc, ellipse or biarc). We solve the problem using both a greedy algorithm to collect…
Simulations in which a globular ring polymer with delocalized knots is separated in two interacting loops by a slipping link, or in two non-interacting globuli by a wall with a hole, show how the minimal crossing number of the knots…
We present a generic coarse-grained model to describe molecular motors acting on polymer substrates, mimicking, for example, RNA polymerase on DNA or kinesin on microtubules. The polymer is modeled as a connected chain of beads; motors are…
We describe four hyperbolic knot complements in $\mathbb{S}^3$, each of which covers a prism orbifold: the quotient of $\mathbb{H}^3$ by the action of a discrete group generated by reflections in the faces of a polyhedron that has the…
We construct two distinct yet related M-theory models that provide suitable frameworks for the study of knot invariants. We then focus on the four-dimensional gauge theory that follows from appropriately compactifying one of these M-theory…
Circuit topology employs fundamental units of entanglement, known as soft contacts, for constructing knots from the bottom up, utilising circuit topology relations, namely parallel, series, cross, and concerted relations. In this article,…
This paper focuses on the graphs in the Petersen family, the set of minor minimal intrinsically linked graphs. We prove there is a relationship between algebraic linking of an embedding and knotting in an embedding. We also present a more…
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"…
Based on an estimate of the knot entropy of a worm-like chain we predict that the interplay of bending energy and confinement entropy will result in a compact metastable configuration of the knot that will diffuse, without spreading, along…
The increasing size of recently proposed Neural Networks makes it hard to implement them on embedded devices, where memory, battery and computational power are a non-trivial bottleneck. For this reason during the last years network…
The topological underpinnings are presented for a new algorithm which answers the question: `Is a given knot the unknot?' The algorithm uses the braid foliation technology of Bennequin and of Birman and Menasco. The approach is to consider…
Knots in open strands such as ropes, fibers, and polymers, cannot typically be described in the language of knot theory, which characterizes only closed curves in space. Simulations of open knotted polymer chains, often parameterized to…
Squeezed knots are those knots that appear as slices of genus-minimizing oriented smooth cobordisms between positive and negative torus knots. We show that this class of knots is large and discuss how to obstruct squeezedness. The most…
We extend knot contact homology to a theory over the ring $\mathbb{Z}[\lambda^{\pm 1},\mu^{\pm 1}]$, with the invariant given topologically and combinatorially. The improved invariant, which is defined for framed knots in $S^3$ and can be…
We develop a theoretical description of the topological disentanglement occurring when torus knots reach the ends of a semi-flexible polymer under tension. These include decays into simpler knots and total unknotting. The minimal number of…
A coarse-grained computational model is used to investigate how the bending rigidity of a polymer under tension affects the formation of a trefoil knot. Thermodynamic integration techniques are applied to demonstrate that the free-energy…
This survey explores knot polynomials and their categorification, culminating in the homological invariants of knots. We begin with an overview of classical knot polynomials, progressing towards the superpolynomial and its role in unifying…
Elucidating the physics of a concentrated suspension of ring polymers, or of an ensemble of ring polymers in a complex environment, is an important outstanding question in polymer physics. Many of the characteristic features of these…