Related papers: Tight open knots
We examine the structure and dimensionality of the Jones polynomial using manifold learning techniques. Our data set consists of more than 10 million knots up to 17 crossings and two other special families up to 2001 crossings. We introduce…
We study the geometry of interacting knotted solitons. The interaction is local and advances either as a three-body or as a four-body process, depending on the relative orientation and a degeneracy of the solitons involved. The splitting…
We introduce and explore the relation between knot invariants and quiver representation theory, which follows from the identification of quiver quantum mechanics in D-brane systems representing knots. We identify various structural…
Using methods of high performance computing, we have found indications that knotlike structures appear as stable finite energy solitons in a realistic 3+1 dimensional model. We have explicitly simulated the unknot and trefoil…
Ropelength and embedding thickness are related measures of geometric complexity of classical knots and links in Euclidean space. In their recent work, Freedman and Krushkal posed a question regarding lower bounds for embedding thickness of…
This paper details a series of experiments in searching for minimal energy configurations for knots and links using the computer program KnotPlot. The most interesting phenomena found in these experiments is the dependence of the…
Entangled networks of stiff biopolymers exhibit complex dynamic response, emerging from the topological constraints that neighboring filaments impose upon each other. We propose a class of reference models for entanglement dynamics of stiff…
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,…
The primary objects of study in the ``knot theory of complex plane curves'' are C-links: links (or knots) cut out of a 3-sphere in the complex plane by complex plane transverse and totally tangential. Transverse C-links are naturally…
We present a systematic classification of uncolored bonded knots with singularity number at most seven. Bonded knots provide a topological model for closed protein chains with intramolecular bridges, such as disulfide bonds. Following the…
We investigate the effects of topological constraints (entanglements) on two dimensional polymer loops in the dense phase, and at the collapse transition (Theta point). Previous studies have shown that in the dilute phase the entangled…
A polynomial knot is a smooth embedding $\kappa: \real \to \real^n$ whose components are polynomials. The case $n = 3$ is of particular interest. It is both an object of real algebraic geometry as well as being an open ended topological…
We produce embeddings of knots in thin position that admit compressible thin levels. We also find the bridge number of tangle sums where each tangle is high distance.
This report presents a unified treatment of the density of states for the knots and folds of polymer chains. The physical realization of such systems ranges from DNA molecules to the microscopic configurations of space-time.
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…
We investigate the statistical mechanics of a torsionally constrained polymer. The polymer is modeled as a fluctuating rod with bend stiffness A kT and twist stiffness C kT. In such a model, thermal bend fluctuations couple geometrically to…
The art of tying knots is exploited in nature and occurs in multiple applications ranging from being an essential part of scouting programs to engineering molecular knots. Biomolecular knots, such as knotted proteins, bear various cellular…
Semiflexible polymers are widely used as a paradigm for understanding structural phases in biomolecules including folding of proteins. Here, we compare bead-spring and bead-stick variants of coarse-grained semiflexible polymer models that…
In this paper we study some consequences of the author's classification of graph manifolds by their profinite fundamental groups. In particular we study commensurability, the behaviour of knots, and relation to mapping classes. We prove…
We construct a new type of geometric knot theory, plumbers' knots, and solve the problems of distinguishing and enumerating such knots at a fixed level of complexity. (v2) Minor edits, added theorem 3.18. (v3) Substantial revisions,…