Related papers: Universal rooted phylogenetic tree shapes and univ…

A graph $G$ is universal for a class of graphs $\mathcal{C}$, if, up to isomorphism, $G$ contains every graph in $\mathcal{C}$ as a subgraph. In 1978, Chung and Graham asked for the minimal number $s(n)$ of edges in a graph with $n$…

A compacted binary tree is a directed acyclic graph encoding a binary tree in which common subtrees are factored and shared, such that they are represented only once. We show that the number of compacted binary trees of size $n$ grows…

A chief problem in phylogenetics and database theory is the computation of a maximum consistent tree from a set of rooted or unrooted trees. A standard input are triplets, rooted binary trees on three leaves, or quartets, unrooted binary…

We study the average number of distinct fringe subtrees in random trees generated by leaf-centric binary tree sources as introduced by Zhang, Yang and Kieffer. A leaf-centric binary tree source induces for every $n \geq 2$ a probability…

We study the average height of random trees generated by leaf-centric binary tree sources as introduced by Zhang, Yang and Kieffer. A leaf-centric binary tree source induces for every $n \geq 2$ a probability distribution on the set of…

A $k$-universal permutation, or $k$-superpermutation, is a permutation that contains all permutations of length $k$ as patterns. The problem of finding the minimum length of a $k$-superpermutation has recently received significant attention…

A tanglegram of size n is a graph formed from two rooted binary trees with n leaves each and a perfect matching between their leaf sets. Tanglegrams are used to model co-evolution in various settings. A tanglegram layout is a straight line…

Given $d\geq 2$ and two rooted $d$-ary trees $D$ and $T$ such that $D$ has $k$ leaves, the density $\gamma(D,T)$ of $D$ in $T$ is the proportion of all $k$-element subsets of leaves of $T$ that induce a tree isomorphic to $D$, after erasing…

We call a pair of vertex-disjoint, induced subtrees of a rooted trees twins if they have the same counts of vertices by out-degrees. The likely maximum size of twins in a uniformly random, rooted Cayley tree of size $n\to\infty$ is studied.…

Tanglegrams are drawings of two rooted binary phylogenetic trees and a matching between their leaf sets. The trees are drawn crossing-free on opposite sides with their leaf sets facing each other on two vertical lines. Instead of minimizing…

This study is dedicated to precise distributional analyses of the height of non-plane unlabelled binary trees ("Otter trees"), when trees of a given size are taken with equal likelihood. The height of a rooted tree of size $n$ is proved to…

Billey et al. [arXiv:1507.04976] have recently discovered a surprisingly simple formula for the number $a_n(\sigma)$ of leaf-labelled rooted non-embedded binary trees (also known as phylogenetic trees) with $n\geq 1$ leaves, fixed (for the…

Let $L(n,d)$ denote the minimum possible number of leaves in a tree of order $n$ and diameter $d.$ In 1975 Lesniak gave the lower bound $B(n,d)=\lceil 2(n-1)/d\rceil$ for $L(n,d).$ When $d$ is even, $B(n,d)=L(n,d).$ But when $d$ is odd,…

Phylogenetic networks generalize phylogenetic trees by allowing the modelization of events of reticulate evolution. Among the different kinds of phylogenetic networks that have been proposed in the literature, the subclass of binary…

While every rooted binary phylogenetic tree is determined by its set of displayed rooted triples, such a result does not hold for an arbitrary rooted binary phylogenetic network. In particular, there exist two non-isomorphic rooted binary…

Trees without vertices of degree $2$ are sometimes named topological trees. In this work, we bring forward the study of the inducibility of (rooted) topological trees with a given number of leaves. The inducibility of a topological tree $S$…

Let $s(n)$ be the minimum number of edges in a graph that contains every $n$-vertex tree as a subgraph. Chung and Graham [J. London Math. Soc. 1983] claim to prove that $s(n)\leqslant O(n\log n)$. We point out a mistake in their proof. The…

Tanglegrams are formed by taking two rooted binary trees $T$ and $S$ with the same number of leaves and uniquely matching each leaf in $T$ with a leaf in $S$. They are usually represented using layouts, which embed the trees and the…

Given a rooted tree and a ranking of its leaves, what is the minimum number of inversions of the leaves that can be attained by ordering the tree? This variation of the problem of counting inversions in arrays originated in mathematical…

Let $T$ be a rooted tree, and $V(T)$ its set of vertices. A subset $X$ of $V(T)$ is called an infima closed set of $T$ if for any two vertices $u,v\in X$, the first common ancestor of $u$ and $v$ is also in $X$. This paper determines the…