Related papers: Exploiting Low Scanwidth to Resolve Soft Polytomie…
We consider the tree consensus problem, an important problem in bioinformatics. Given a rooted tree $t$ and another tree $T$, one would like to incorporate compatible information from $T$ to $t$. This problem is a subproblem in the tree…
We study the Steiner Tree problem on the intersection graph of most natural families of geometric objects, e.g., disks, squares, polygons, etc. Given a set of $n$ objects in the plane and a subset $T$ of $t$ terminal objects, the task is to…
Boolean-width is a recently introduced graph parameter. Many problems are fixed parameter tractable when parametrized by boolean-width, for instance "Minimum Weighted Dominating Set" (MWDS) problem can be solved in $O^*(2^{3k})$ time given…
Understanding the evolution of a set of genes or species is a fundamental problem in evolutionary biology. The problem we study here takes as input a set of trees describing {possibly discordant} evolutionary scenarios for a given set of…
A common problem in phylogenetics is to try to infer a species phylogeny from gene trees. We consider different variants of this problem. The first variant, called Unrestricted Minimal Episodes Inference, aims at inferring a species tree…
Phylogenetic networks are rooted, labelled directed acyclic graphs which are commonly used to represent reticulate evolution. There is a close relationship between phylogenetic networks and multi-labelled trees (MUL-trees). Indeed, any…
A resolving set $S$ of a graph $G$ is a subset of its vertices such that no two vertices of $G$ have the same distance vector to $S$. The Metric Dimension problem asks for a resolving set of minimum size, and in its decision form, a…
Maximum parsimony is one of the most frequently-discussed tree reconstruction methods in phylogenetic estimation. However, in recent years it has become more and more apparent that phylogenetic trees are often not sufficient to describe…
Phylogenetic networks have gained prominence over the years due to their ability to represent complex non-treelike evolutionary events such as recombination or hybridization. Popular combinatorial objects used to construct them are triplet…
Given a finite set $X$, a collection $\mathcal{T}$ of rooted phylogenetic trees on $X$ and an integer $k$, the Hybridization Number problem asks if there exists a phylogenetic network on $X$ that displays all trees from $\mathcal{T}$ and…
In this paper we study a natural generalization of both {\sc $k$-Path} and {\sc $k$-Tree} problems, namely, the {\sc Subgraph Isomorphism} problem. In the {\sc Subgraph Isomorphism} problem we are given two graphs $F$ and $G$ on $k$ and $n$…
A graph $G$ contains a graph $H$ as an induced minor if $H$ can be obtained from $G$ after vertex deletions and edge contractions. We show that for every $k$-vertex planar graph $H$, every graph $G$ excluding $H$ as an induced minor and…
We consider the problem of finding a subgraph of a given graph which minimizes the sum of given functions at vertices evaluated at their subgraph degrees. While the problem is NP-hard already when all functions are the same, we show that it…
In the context of reconstructing phylogenetic networks from a collection of phylogenetic trees, several characterisations and subsequently algorithms have been established to reconstruct a phylogenetic network that collectively embeds all…
Treewidth (tw) is an important parameter that, when bounded, yields tractability for many problems. For example, graph problems expressible in Monadic Second Order (MSO) logic and QUANTIFIED SAT or, more generally, QUANTIFIED CSP, are FPT…
A graph is a $k$-leaf power of a tree $T$ if its vertices are leaves of $T$ and two vertices are adjacent in $T$ if and only if their distance in $T$ is at most $k$. Then $T$ is a $k$-leaf root of $G$. This notion was introduced by…
The evolutionary relationships between species are typically represented in the biological literature by rooted phylogenetic trees. However, a tree fails to capture ancestral reticulate processes, such as the formation of hybrid species or…
We address the problem of efficiently gathering correlated data from a wired or a wireless sensor network, with the aim of designing algorithms with provable optimality guarantees, and understanding how close we can get to the known…
Spanning trees of low average stretch on the non-tree edges, as introduced by Alon et al. [SICOMP 1995], are a natural graph-theoretic object. In recent years, they have found significant applications in solvers for symmetric diagonally…
We investigate a relaxation of the notion of fractional treewidth-fragility, namely fractional tree-independence-number-fragility. In particular, we obtain polynomial-time approximation schemes for meta-problems such as finding a…