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We present a method for constructing taxonomic trees (e.g., WordNet) using pretrained language models. Our approach is composed of two modules, one that predicts parenthood relations and another that reconciles those predictions into trees.…

We study learning-augmented binary search trees (BSTs) via Treaps with carefully designed priorities. The result is a simple search tree in which the depth of each item $x$ is determined by its predicted weight $w_x$. Specifically, each…

Given a rooted, binary phylogenetic network and a rooted, binary phylogenetic tree, can the tree be embedded into the network? This problem, called \textsc{Tree Containment}, arises when validating networks constructed by phylogenetic…

We introduce a new compression scheme for labeled trees based on top trees. Our compression scheme is the first to simultaneously take advantage of internal repeats in the tree (as opposed to the classical DAG compression that only exploits…

An evolutionary tree is a rooted tree where each internal vertex has at least two children and where the leaves are labeled with distinct symbols representing species. Evolutionary trees are useful for modeling the evolutionary history of…

The Maximum (Minimum) Leaf Spanning Tree problem asks for a spanning tree with the largest (smallest) number of leaves. As spanning trees are often computed using graph search algorithms, it is natural to restrict this problem to the set of…

Imitating a recently introduced invariant of trees, we initiate the study of the inducibility of $d$-ary trees (rooted trees whose vertex outdegrees are bounded from above by $d\geq 2$) with a given number of leaves. We determine the exact…

Relative Lempel-Ziv (RLZ) parsing is a dictionary compression method in which a string $S$ is compressed relative to a second string $R$ (called the reference) by parsing $S$ into a sequence of substrings that occur in $R$. RLZ is…

Latent tree learning(LTL) methods learn to parse sentences using only indirect supervision from a downstream task. Recent advances in latent tree learning have made it possible to recover moderately high quality tree structures by training…

It has been shown in the indexing literature that there is an essential difference between prefix/range searches on the one hand, and predecessor/rank searches on the other hand, in that the former provably allows faster query resolution.…

The inducibility of a graph represents its maximum density as an induced subgraph over all possible sequences of graphs of size growing to infinity. This invariant of graphs has been extensively studied since its introduction in $1975$ by…

Frequent tree mining asks us to enumerate tree patterns that occur frequently in a database of rooted trees. This problem is motivated by tree-structured data in bioinformatics, such as glycans and pseudoknot-free RNA secondary structures.…

This paper, dating from May 1991, contains preliminary (and unpublishable) notes on investigations about iteration trees. They will be of interest only to the specialist. In the first two sections I define notions of support and embeddings…

Let T be a weighted tree with n leaves. Let D_{i,j} be the distance between the leaves i and j. Let D_{i,j,k}= (D_{i,j} + D_{j,k} +D_{i,k})/2. We will call such numbers "triple weights" of the tree. In this paper, we give a…

Counting the number of spanning trees in specific classes of graphs has attracted increasing attention in recent years. In this note, we present unified proofs and generalizations of several results obtained in the 2020s. The main method is…

We develop a powerful tool for embedding any tree poset $P$ of height $k$ in the Boolean lattice which allows us to solve several open problems in the area. We show that: * If $H$ is a family in $B_n$ with $|H|\ge (q-1+\varepsilon){n\choose…

Tree-based phylogenetic networks, which may be roughly defined as leaf-labeled networks built by adding arcs only between the original tree edges, have elegant properties for modeling evolutionary histories. We answer an open question of…

The Gyarfas-Sumner conjecture asserts that if H is a tree then every graph with bounded clique number and very large chromatic number contains H as an induced subgraph. This is still open, although it has been proved for a few simple…

Semi-labeled trees are phylogenies whose internal nodes may be labeled by higher-order taxa. Thus, a leaf labeled Mus musculus could nest within a subtree whose root node is labeled Rodentia, which itself could nest within a subtree whose…

The conventional general syntax of indexed families in dependent type theories follow the style of "constructors returning a special case", as in Agda, Lean, Idris, Coq, and probably many other systems. Fording is a method to encode indexed…