Related papers: A Problem of Knot
We introduce a new way to tabulate knots by representing knot diagrams using a pair of planar trees. This pair of trees have their edges labeled by integers, they have no valence 2 vertices, and they have the same number of valence 1…
We consider the problem of finding the probability that a random triangle is obtuse, which was first raised by Lewis Caroll. Our investigation leads us to a natural correspondence between plane polygons and the Grassmann manifold of…
A typical decomposition question asks whether the edges of some graph $G$ can be partitioned into disjoint copies of another graph $H$. One of the oldest and best known conjectures in this area, posed by Ringel in 1963, concerns the…
The evolution of aligned DNA sequence sites is generally modeled by a Markov process operating along the edges of a phylogenetic tree. It is well known that the probability distribution on the site patterns at the tips of the tree…
We consider the problem of uniformly generating a spanning tree, of a connected undirected graph. This process is useful to compute statistics, namely for phylogenetic trees. We describe a Markov chain for producing these trees. For cycle…
Given a class of objects, a pattern theorem is a powerful result describing their structure. We show that alternating knots exhibit a pattern theorem, and use this result to prove a long-standing conjecture that alternating knots grow rare.…
Accessibility percolation is a new type of percolation problem inspired by evolutionary biology. To each vertex of a graph a random number is assigned and a path through the graph is called accessible if all numbers along the path are in…
The degree distributions of complex networks are usually considered to be power law. However, it is not the case for a large number of them. We thus propose a new model able to build random growing networks with (almost) any wanted degree…
In these lecture notes I will give a pedagogical introduction to some common aspects of 4 different problems: (i) random matrices (ii) the longest increasing subsequence problem (also known as the Ulam problem) (iii) directed polymers in…
The structure of an evolving network contains information about its past. Extracting this information efficiently, however, is, in general, a difficult challenge. We formulate a fast and efficient method to estimate the most likely history…
We study the formation of knots on a macroscopic ball-chain, which is shaken on a horizontal plate at 12 times the acceleration of gravity. We find that above a certain critical length, the knotting probability is independent of chain…
A tanglegram is a pair of binary trees with the same set of leaves. Unlabeled tanglegrams were counted recently by Billey, Konvalinka, and Matsen, who also proposed the problem of counting several variations of unlabeled tanglegrams…
This paper introduces a new algebra, the crossing algebra, that is applied to count the number of components for arborescent knots, links, tangles or states (of a state polynomial expansion such as the Kauffman bracket). This algebra is…
'Tree-based' phylogenetic networks proposed by Francis and Steel have attracted much attention of theoretical biologists in the last few years. At the heart of the definitions of tree-based phylogenetic networks is the notion of 'support…
We prove the exact asymptotic $1-\left({\frac{2\pi}{3}-\frac{827}{288\pi}}+o(1)\right)/{\sqrt{n}}$ for the probability that the underlying graph of a random mapping of $n$ elements possesses a unique highest tree. The property of having a…
Although rare, an increasing number of proteins have been observed to contain entanglements in their native structures. To gain more insight into the significance of protein knotting, researchers have been investigating protein knot…
A conjecture by Bollob\'as from 1995 (which is a weakenning of the famous Tree Packing Conjecture by Gy\'arf\'as from 1976) states that any set of $k$ trees $T_n,T_{n-1},\dots,T_{n-k+1}$, such that $T_{n-i}$ has $n-i$ vertices, pack into…
Twisted knot theory, introduced by M.O. Bourgoin, is a generalization of virtual knot theory. It naturally yields the notion of a twisted braid, which is closely related to the notion of a virtual braid due to Kauffman. In this paper, we…
A \emph{binary tanglegram} is a drawing of a pair of rooted binary trees whose leaf sets are in one-to-one correspondence; matching leaves are connected by inter-tree edges. For applications, for example, in phylogenetics, it is essential…
Given a graph, we can form a spanning forest by first sorting the edges in some order, and then only keep edges incident to a vertex which is not incident to any previous edge. The resulting forest is dependent on the ordering of the edges,…