Related papers: $k$-noncrossing RNA structures with arc-length $\g…

In this paper we present a complete characterization of the smallest sets that block all the simple spanning trees (SSTs) in a complete geometric graph. We also show that if a subgraph is a blocker for all SSTs of diameter at most 4, then…

Let $P$ be a set of $n$ points in the plane. A crossing-free structure on $P$ is a plane graph with vertex set $P$. Examples of crossing-free structures include triangulations of $P$, spanning cycles of $P$, also known as polygonalizations…

Integrative biomolecular modeling of RNA relies on structural refined collections and accurate experimental data that reflect binding and folding behavior. However, the prediction of such collections remains challenging due to the rugged…

Advanced Monte Carlo simulations are used to study the effect of nano-slit confinement on metric and topological properties of model DNA chains. We consider both linear and circularised chains with contour lengths in the 1.2--4.8 $\mu$m…

We give a list of minimal grid diagrams of the 13 crossing prime nonalternating knots which have arc index 13. There are 9,988 prime knots with crossing number 13. Among them 4,878 are alternating and have arc index 15. Among the other…

Let $ex(n, P)$ be the maximum possible number of ones in any 0-1 matrix of dimensions $n \times n$ that avoids $P$. Matrix $P$ is called minimally non-linear if $ex(n, P) = \omega(n)$ but $ex(n, P') = O(n)$ for every strict subpattern $P'$…

An arc-annotated string is a string of characters, called bases, augmented with a set of pairs, called arcs, each connecting two bases. Given arc-annotated strings $P$ and $Q$ the arc-preserving subsequence problem is to determine if $P$…

In this paper, we mainly investigate $K_{1,2}$-structure-connectivity for any connected graph. Let $G$ be a connected graph with $n$ vertices, we show that $\kappa(G; K_{1,2})$ is well-defined if $diam(G)\geq 4$, or $n\equiv 1\pmod 3$, or…

A family $\mathcal{F}\subset \binom{[n]}{k}$ is called intersecting if $F\cap F'\neq \emptyset$ for all $F,F'\in \mathcal{F}$. The covering number of a family $\mathcal{F}$ is defined as the minimum size of $T\subset [n]$ such that $T\cap…

Let $n,s,k$ be three positive integers such that $1\leq s\leq(n-k+1)/k$ and let $[n]=\{1,\ldots,n\}$. Let $H$ be a $k$-graph with vertex set $\{1,\ldots,n\}$, and let $e(H)$ denote the number of edges of $H$. Let $\nu(H)$ and $\tau(H)$…

A (t,s)-rack is a rack structure defined on a module over the ring $\ddot\Lambda=\mathbb{Z}[t^{\pm 1},s]/(s^2-(1-t)s)$. We identify necessary and sufficient conditions for two $(t,s)$-racks to be isomorphic. We define enhancements of the…

Let $H$ and $F$ be hypergraphs. We say $H$ contains $F$ as a trace if there exists some set $S \subseteq V(H)$ such that $H|_S:=\{E\cap S: E \in E(H)\}$ contains a subhypergraph isomorphic to $F$. In this paper we give an upper bound on the…

Given a directed graph G = (V,E) and an integer k>=1, a k-transitive-closure-spanner (k-TC-spanner) of G is a directed graph H = (V, E_H) that has (1) the same transitive-closure as G and (2) diameter at most k. These spanners were…

A signed graph $\Sigma=(G,\sigma)$ is said to be parity signed if there exists a bijection $f : V(G) \rightarrow \{1,2,...,|V(G)|\}$ such that $\sigma(uv)=+$ if and only if $f(u)$ and $f(v)$ are of same parity, where $uv$ is an edge of $G$.…

Let G be a simple graph without isolated vertices. For a vertex i in G, the degree d_i is the number of vertices adjacent to i and the average 2-degree m_i is the mean of the degrees of the vertices which are adjacent to i. The sequence of…

We show that for any nontrivial knot $K$ and any natural number $n$ there is a diagram $D$ of $K$ such that the unknotting number of $D$ is greater than or equal to $n$. It is well known that twice the unknotting number of $K$ is less than…

We consider $k$-graphs on $n$ vertices, that is, $\mathcal{F}\subset \binom{[n]}{k}$. A $k$-graph $\mathcal{F}$ is called intersecting if $F\cap F'\neq \emptyset$ for all $F,F'\in \mathcal{F}$. In the present paper we prove that for $k\geq…

In this paper we study canonical $\gamma$-structures, a class of RNA pseudoknot structures that plays a key role in the context of polynomial time folding of RNA pseudoknot structures. A $\gamma$-structure is composed by specific building…

The incipient infinite cluster appearing at the bond percolation threshold can be decomposed into singly-connected ``links'' and multiply-connected ``blobs.'' Here we decompose blobs into objects known in graph theory as 3-blocks. A 3-block…

Classical knots in $\mathbb{R}^3$ can be represented by diagrams in the plane. These diagrams are formed by curves with a finite number of transverse crossings, where each crossing is decorated to indicate which strand of the knot passes…