Related papers: Perfect phylogenies via the Minimum Uncovering Bra…

We propose polynomial-time algorithms that sparsify planar and bounded-genus graphs while preserving optimal or near-optimal solutions to Steiner problems. Our main contribution is a polynomial-time algorithm that, given an unweighted graph…

Many important combinatorial problems can be modeled as constraint satisfaction problems. Hence identifying polynomial-time solvable classes of constraint satisfaction problems has received a lot of attention. In this paper, we are…

The question if a given partial solution to a problem can be extended reasonably occurs in many algorithmic approaches for optimization problems. For instance, when enumerating minimal dominating sets of a graph $G=(V,E)$, one usually…

We introduce a graph partitioning problem motivated by computational topology and propose two algorithms that produce approximate solutions. Specifically, given a weighted, undirected graph $G$ and a positive integer $k$, we desire to find…

We study the problem of constructing phylogenetic trees for a given set of species. The problem is formulated as that of finding a minimum Steiner tree on $n$ points over the Boolean hypercube of dimension $d$. It is known that an optimal…

In this paper, we provide polynomial-time algorithms for different extensions of the matching counting problem, namely maximal matchings, path matchings (linear forest) and paths, on graph classes of bounded clique-width. For maximal…

We consider the problem of finding a subgraph of a given graph which maximizes a given function evaluated at its degree sequence. While the problem is intractable already for convex functions, we show that it can be solved in polynomial…

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…

Comparative analyses of phylogenetic trees typically require identical taxon sets, however, in practice, trees often include distinct but overlapping taxa. Pruning non-shared leaves discards phylogenetic signal, whereas tree completion can…

Algorithms for listing the subgraphs satisfying a given property (e.g.,being a clique, a cut, a cycle, etc.) fall within the general framework of set systems. A set system (U, F) uses a ground set U (e.g., the network nodes) and an…

Planning can often be simpli ed by decomposing the task into smaller tasks arranged hierarchically. Charlin et al. [4] recently showed that the hierarchy discovery problem can be framed as a non-convex optimization problem. However, the…

The problem of covering minimum cost common bases of two matroids is NP-complete, even if the two matroids coincide, and the costs are all equal to 1. In this paper we show that the following special case is solvable in polynomial time:…

We study a large family of graph covering problems, whose definitions rely on distances, for graphs of bounded cyclomatic number (that is, the minimum number of edges that need to be removed from the graph to destroy all cycles). These…

This paper is about minimum cost constrained selection of inputs and outputs for generic arbitrary pole placement. The input-output set is constrained in the sense that the set of states that each input can influence and the set of states…

We revisit the problem max-min degree arborescence, which was introduced by Bateni et al. [STOC'09] as a central special case of the general Santa Claus problem, which constitutes a notorious open question in approximation algorithms. In…

This paper presents an algorithmic study of a class of covering mixed-integer linear programming problems which encompasses classic cover problems, including multidimensional knapsack, facility location and supplier selection problems. We…

We prove essentially tight lower bounds, conditionally to the Exponential Time Hypothesis, for two fundamental but seemingly very different cutting problems on surface-embedded graphs: the Shortest Cut Graph problem and the Multiway Cut…

We study the problem of efficient exact partitioning of the hypergraphs generated by high-order planted models. A high-order planted model assumes some underlying cluster structures, and simulates high-order interactions by placing…

Alternating Minimization is a widely used and empirically successful heuristic for matrix completion and related low-rank optimization problems. Theoretical guarantees for Alternating Minimization have been hard to come by and are still…

The branching algorithm is a fundamental technique for designing fast exponential-time algorithms to solve combinatorial optimization problems exactly. It divides the entire solution space into independent search branches using…