Related papers: On the factorization of composite polymer knots in…
Compact polymers are self-avoiding random walks which visit every site on a lattice. This polymer model is used widely for studying statistical problems inspired by protein folding. One difficulty with using compact polymers to perform…
We develop purely algebraic methods for proving that a knot is prime. Our approach uses the Heegaard Floer polynomial in conjunction with classical knot-theoretic methods: cyclic, dihedral, and metacyclic covering spaces. The theory of…
A classical knot is described by a one-stroke trajectory with entanglements of a string. The replica method appears as a powerful tool in statistical mechanics for a polymer or self-avoiding walk. We consider this replica N to 0 limit in…
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 have used Langevin dynamics to simulate the forced translocation of linked polymer rings through a narrow pore. For fixed size (i.e. fixed number of monomers) the translocation time depends on the link type and on whether the rings are…
Spontaneous formation of knots in long polymers at equilibrium is inevitable but becomes rare in sufficiently short chains. Here, we show that knotting and knot complexity increase by orders of magnitude in diblock polymers with a fraction…
The presence of slipknots in configurations of proteins and DNA has been shown to affect their functionality, or alter it entirely. Historically, polymers are modeled as polygonal chains in space. As an alternative to space curves, we…
This is a survey on factorization theory. We discuss finitely generated monoids (including affine monoids), primary monoids (including numerical monoids), power sets with set addition, Krull monoids and their various generalizations, and…
Using a combination of the replica-exchange Monte Carlo algorithm and the multicanonical method, we investigate the influence of bending stiffness on the conformational phases of a bead-stick homopolymer model and present the pseudo-phase…
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,…
We consider a natural model of random knotting- choose a knot diagram at random from the finite set of diagrams with n crossings. We tabulate diagrams with 10 and fewer crossings and classify the diagrams by knot type, allowing us to…
We extend a factorization theorem by Gwo\'zdziewicz and Hejmej from the ring of formal power series to any complete regular local ring $ R $. More precisely, let $ f \in R $ and assume that its Newton polyhedron has a loose edge such that…
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…
Templates are branched 2-manifolds with semi-flows used to model `chaotic' hyperbolic invariant sets of flows on 3-manifolds. Knotted orbits on a template correspond to those in the original flow. Birman and Williams conjectured that for…
We construct new knot polynomials. Let $V$ be the standard solid torus in 3-space and let $pr$ be its standard projection onto an annulus. Let $M$ be the space of all smooth oriented knots in $V$ such that the restriction of $pr$ is an…
By performing Monte Carlo sampling of $N$-steps self-avoiding polygons embedded on different Bravais lattices we explore the robustness of universality in the entropic, metric and geometrical properties of knotted polymer rings. In…
In the first part of this work a summary is provided of some recent experiments and theoretical results which are relevant in the research of systems of polymer rings in nontrivial topological conformations. Next, some advances in modeling…
In this paper we study how randomly generated knots occupy a volume of space using topological methods. To this end, we consider the evolution of the first homology of an immersed metric neighbourhood of a knot's embedding for growing…
We consider the factorization problem in toy models of holography, in SYK and in Matrix Models. In a theory with fixed couplings, we introduce a fictitious ensemble averaging by inserting a projector onto fixed couplings. We compute the…
In this paper we investigate factorizations of polynomials over the ring of dual quaternions into linear factors. While earlier results assume that the norm polynomial is real ("motion polynomials"), we only require the absence of real…