Related papers: From tangle fractions to DNA
We develop a model characterizing all possible knots and links arising from recombination starting with a twist knot substrate, extending previous work of Buck and Flapan. We show that all knot or link products fall into three…
Gene assembly in ciliates is one of the most involved DNA processings going on in any organism. This process transforms one nucleus (the micronucleus) into another functionally different nucleus (the macronucleus). We continue the…
Fracterms are introduced as a proxy for fractions. A precise definition of fracterms is formulated and on that basis reasonably precise definitions of various classes of fracterms are given. In the context of the meadow of rational numbers…
In this paper, we introduce a notion called n/k-free tangle and study the degeneration ratio of tunnel numbers of knots.
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…
A tangle of order $k$ in a matroid or graph may be thought of as a "$k$-connected component". For a tangle of order $k$ in a matroid or graph that satisfies a certain robustness condition, we describe a tree decomposition of the matroid or…
We construct a new family of strong linearizations of rational matrices considering the polynomial part of them expressed in a basis that satisfies a three term recurrence relation. For this purpose, we combine the theory developed by…
Two natural generalizations of knot theory are the study of spatial graphs and virtual knots. Our goal is to unify these two approaches into the study of virtual spatial graphs. This paper is a survey, and does not contain any new results.…
DNA and RNA quadruplexes are extensively studied for the key roles they are suspected to play in the cellular regulation networks at both genomic and transcriptomic levels. The reliable detection of quadruplexes in cells was and remains a…
In this work we introduce a convolution operation over the tangent bundle of Riemannian manifolds exploiting the Connection Laplacian operator. We use the convolution to define tangent bundle filters and tangent bundle neural networks…
We demonstrate that solving the classical problems mentioned in the title on quadrature domains when the given boundary data is rational is as simple as the method of partial fractions. A by-product of our considerations will be a simple…
In this paper we discuss a pair of polynomial knot invariants $\Theta=(\Delta,\theta)$ which is: * Theoretically and practically fast: $\Theta$ can be computed in polynomial time. We can compute it in full on random knots with over 300…
A knot in $S^3$ is topologically slice if it bounds a locally flat disk in $B^4$. A knot in $S^3$ is rationally slice if it bounds a smooth disk in a rational homology ball. We prove that the smooth concordance group of topologically and…
In this paper we present algorithmic considerations and theoretical results about the relation between the orders of certain groups associated to the components of a polynomial and the order of the group that corresponds to the polynomial,…
Following is a collection of lecture notes on D-branes, which may be used by the reader as preparation for applications to modern research applications such as: the AdS/CFT and other gauge theory/geometry correspondences, Matrix Theory and…
In this paper, we establish a connection between Apollonian packings and knot theory. We introduce new representations of links realized in the tangency graph of the regular crystallographic sphere packings. Particularly, we prove that any…
We explore the possibility of applying the framework of frequent pattern mining to a class of continuous objects appearing in nature, namely knots. We introduce the frequent knot mining problem and present a solution. The key observation is…
This is a review of a set of recent papers with some new data added. After a brief biological introduction a visualization scheme of the string composition of long DNA sequences, in particular, of bacterial complete genomes, will be…
These notes were prepared to accompany a sequence of three lectures at the conference Winterbraids XI in Dijon, held in December 2021. In them, we provide an introduction to slice knots and the equivalence relation of concordance. We…
Recently, neural tangent kernel (NTK) has been used to explain the dynamics of learning parameters of neural networks, at the large width limit. Quantitative analyses of NTK give rise to network widths that are often impractical and incur…