Related papers: On the Extremal Maximum Agreement Subtree Problem
We introduce and investigate the approximability of the maximum binary tree problem (MBT) in directed and undirected graphs. The goal in MBT is to find a maximum-sized binary tree in a given graph. MBT is a natural variant of the…
Genomes and genes diversify during evolution; however, it is unclear to what extent genes still retain the relationship among species. Model species for molecular phylogenetic studies include yeasts and viruses whose genomes were sequenced…
The maximum size, $La(n,P)$, of a family of subsets of $[n]=\{1,2,...,n\}$ without containing a copy of $P$ as a subposet, has been intensively studied. Let $P$ be a graded poset. We say that a family $\mathcal{F}$ of subsets of…
A central theme in extremal combinatorics is the study of the maximum number of edges in an $r$-uniform hypergraph ($r$-graph) with matching number at most $s$ (the Erd\H{o}s Matching Conjecture) or with pairwise intersection at least $t$…
It is known that graphs on n vertices with minimum degree at least 3 have spanning trees with at least n/4+2 leaves and that this can be improved to (n+4)/3 for cubic graphs without the diamond K_4-e as a subgraph. We generalize the second…
We study the spectral Tur\'an problem for trees. To avoid limiting our perspective to specific families of trees, we parametrize trees in terms of their unique bipartition. We say $T \in \mathcal{T}_{m,l+1}^{\delta}$ if $T$ is a tree of…
In this short note we prove that, given two (not necessarily binary) rooted phylogenetic trees T_1, T_2 on the same set of taxa X, where |X|=n, the hybridization number of T_1 and T_2 can be computed in time O^{*}(2^n) i.e. O(2^{n}…
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…
In phylogenetics, distances are often used to measure the incongruence between a pair of phylogenetic trees that are reconstructed by different methods or using different regions of genome. Motivated by the maximum parsimony principle in…
Recent years have witnessed a surge of biological interest in the minimum spanning tree (MST) problem for its relevance to automatic model construction using the distances between data points. Despite the increasing use of MST algorithms…
Monadic second order logic can be used to express many classical notions of sets of vertices of a graph as for instance: dominating sets, induced matchings, perfect codes, independent sets or irredundant sets. Bounds on the number of sets…
We consider the top tree compression scheme introduced by Bille et al. [ICALP 2013] and construct an infinite family of trees on $n$ nodes labeled from an alphabet of size $\sigma$, for which the size of the top DAG is…
In this article we study the treewidth of the \emph{display graph}, an auxiliary graph structure obtained from the fusion of phylogenetic (i.e., evolutionary) trees at their leaves. Earlier work has shown that the treewidth of the display…
We prove almost sure convergence of the maximum degree in an evolving tree model combining local choice and preferential attachment. At each step in the growth of the graph, a new vertex is introduced. A fixed, finite number of possible…
Increasingly, biologists are constructing evolutionary trees on large numbers of overlapping sets of taxa, and then combining them into a `supertree' that classifies all the taxa. In this paper, we ask how much coverage of the total set of…
Given any regularly varying dislocation measure, we identify a natural self-similar fragmentation tree as scaling limit of discrete fragmentation trees with unit edge lengths. As an application, we obtain continuum random tree limits of…
A compacted binary tree is a graph created from a binary tree such that repeatedly occurring subtrees in the original tree are represented by pointers to existing ones, and hence every subtree is unique. Such representations form a special…
The concept of $k$-compatibility measures how many phylogenetic trees it would take to display all splits in a given set. A set of trees that display every single possible split is termed a \textit{universal tree set}. In this note, we find…
Inferring a decision tree from a given dataset is one of the classic problems in machine learning. This problem consists of buildings, from a labelled dataset, a tree such that each node corresponds to a class and a path between the tree…
We study the structure of trees minimizing their number of stable sets for given order $n$ and stability number $\alpha$. Our main result is that the edges of a non-trivial extremal tree can be partitioned into $n-\alpha$ stars, each of…