相关论文: The distribution of cycles in breakpoint graphs of…
Genome rearrangements can be modeled as $k$-breaks, which break a genome at k positions and glue the resulting fragments in a new order. In particular, reversals, translocations, fusions, and fissions are modeled as $2$-breaks, and…
The study of genome rearrangement has many flavours, but they all are somehow tied to edit distances on variations of a multi-graph called the breakpoint graph. We study a weighted 2-break distance on Eulerian 2-edge-colored multi-graphs,…
During the course of evolution, an organism's genome can undergo changes that affect the large-scale structure of the genome. These changes include gene gain, loss, duplication, chromosome fusion, fission, and rearrangement. When gene gain…
Two genomes over the same set of gene families form a canonical pair when each of them has exactly one gene from each family. Different distances of canonical genomes can be derived from a structure called breakpoint graph, which represents…
In the symmetric group on a set of size 2n, let P_{2n} denote the conjugacy class of involutions with no fixed points (equivalently, we refer to these as ``pairings'', since each disjoint cycle has length 2). Harer and Zagier explicitly…
We consider the distribution of cycle counts in a random regular graph, which is closely linked to the graph's spectral properties. We broaden the asymptotic regime in which the cycle counts are known to be approximately Poisson, and we…
Noting that cycle diagrams of permutations visually resemble grid diagrams used to depict knots and links in topology, we consider the knot (or link) obtained from the cycle diagram of a permutation. We show that the permutations which…
A number of fields, including the study of genome rearrangements and the design of interconnection networks, deal with the connected problems of sorting permutations in "as few moves as possible", using a given set of allowed operations, or…
We consider the cycle structure of a random permutation $\sigma$ chosen uniformly from the symmetric group, subject to the constraint that $\sigma$ does not contain cycles of length exceeding $r.$ We prove that under suitable conditions the…
The graph of overlapping permutations is a directed graph that is an analogue to the De Bruijn graph. It consists of vertices that are permutations of length $n$ and edges that are permutations of length $n+1$ in which an edge $a_1\cdots…
In this paper, we present an algorithm that enumerates a certain class of signed permutations, referred to as grid signed permutation classes. In the case of permutations, the corresponding grid classes are of interest because they are…
This paper develops an analogy between the cycle structure of, on the one hand, random permutations with cycle lengths restricted to lie in an infinite set $S$ with asymptotic density $\sigma$ and, on the other hand, permutations selected…
We undertake a detailed investigation into the structure of permutations in monotone grid classes whose row-column graphs do not contain components with more than one cycle. Central to this investigation is a new decomposition, called the…
We compute the limiting distribution, as n approaches infinity, of the number of cycles of length between gamma n and delta n in a permutation of [n] chosen uniformly at random, for constants gamma, delta such that 1/(k+1) <= gamma < delta…
For a graph with edge ordering, a linear order on the edge set, we obtain a permutation of vertices by considering the edges as transpositions of endvertices. It is known from D\'enes' results that the permutation of a tree is a full cyclic…
Random geometric graphs (RGGs) are commonly used to model networked systems that depend on the underlying spatial embedding. We concern ourselves with the probability distribution of an RGG, which is crucial for studying its random…
Early literature on genome rearrangement modelling views the problem of computing evolutionary distances as an inherently combinatorial one. In particular, attention was given to estimating distances using the minimum number of events…
Given a graph drawn in the plane, the degenerate crossing number of the drawing is the number of points in the plane which are contained in the relative interior of at least two edges, where each edge is required to be drawn as a simple…
Directed acyclic graphs are the basic representation of the structure underlying Bayesian networks, which represent multivariate probability distributions. In many practical applications, such as the reverse engineering of gene regulatory…
Computing the reversal distances of signed permutations is an important topic in Bioinformatics. Recently, a new lower bound for the reversal distance was obtained via the plane permutation framework. This lower bound appears different from…