Related papers: A framework for cost-constrained genome rearrangem…
We investigate the Minimum Weight 2-Edge-Connected Spanning Subgraph (2-ECSS) problem in an arbitrary metric space of doubling dimension and show a polynomial time randomized $(1+\epsilon)$-approximation algorithm.
A Hamiltonian decomposition of a regular graph is a partition of its edge set into Hamiltonian cycles. We consider the second Hamiltonian decomposition problem: for a 4-regular multigraph find 2 edge-disjoint Hamiltonian cycles different…
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…
We study grooming for two-period optical networks, a variation of the traffic grooming problem for WDM ring networks introduced by Colbourn, Quattrocchi, and Syrotiuk. In the two-period grooming problem, during the first period of time,…
The decomposition of undirected graphs simplifies complex problems by breaking them into solvable subgraphs, following the philosophy of divide and conquer. This paper investigates the relationship between atom decomposition and the maximum…
A connected graph is 4-connected if it contains at least five vertices and removing any three of them does not disconnect it. A frequent preprocessing step in graph drawing is to decompose a plane graph into its 4-connected components and…
We tackle three optimization problems in which a colored graph, where each node is assigned a color, must be partitioned into colorful connected components. A component is defined as colorful if each color appears at most once. The problems…
In the Minimum Clique Routing Problem on Cycles \textsc{MCRPC} we are given a cycle together with a set of demands (weighted origin-destination pairs) and the goal is to route all the pairs minimizing the maximum weighted clique of the…
We propose a novel optimization-based approach to embedding heterogeneous high-dimensional data characterized by a graph. The goal is to create a two-dimensional visualization of the graph structure such that edge-crossings are minimized…
By a well known theorem of Robbins, a graph $G$ has a strongly connected orientation if and only if $G$ is 2-edge-connected and it is easy to find, in linear time, either a cut edge of $G$ or a strong orientation of $G$. A result of Durand…
In graph modification problems, one is given a graph G and the goal is to apply a minimum number of modification operations (such as edge deletions) to G such that the resulting graph fulfills a certain property. For example, the Cluster…
We describe a new sampling-based method to determine cuts in an undirected graph. For a graph (V, E), its cycle space is the family of all subsets of E that have even degree at each vertex. We prove that with high probability, sampling the…
We consider the Hypergraph-$k$-cut problem. The input consists of a hypergraph $G=(V,E)$ with non-negative hyperedge-costs $c: E\rightarrow R_+$ and a positive integer $k$. The objective is to find a least-cost subset $F\subseteq E$ such…
A useful approach to the mathematical analysis of large-scale biological networks is based upon their decompositions into monotone dynamical systems. This paper deals with two computational problems associated to finding decompositions…
During cancer progression, malignant cells accumulate somatic mutations that can lead to genetic aberrations. In particular, evolutionary events akin to segmental duplications or deletions can alter the copy-number profile (CNP) of a set of…
In this paper we consider a variation of a recoloring problem, called the Color-Fixing. Let us have some non-proper $r$-coloring $\varphi$ of a graph $G$. We investigate the problem of finding a proper $r$-coloring of $G$, which is "the…
We study the crossing-minimization problem in a layered graph drawing of planar-embedded rooted trees whose leaves have a given total order on the first layer, which adheres to the embedding of each individual tree. The task is then to…
A common computational problem in multiple change-point models is to recover the segmentations with $1$ to $K_{max}$ change-points of minimal cost with respect to some loss function. Here we present an algorithm to prune the set of…
The main result of the paper is motivated by the following two, apparently unrelated graph optimization problems: (A) as an extension of Edmonds' disjoint branchings theorem, characterize digraphs comprising $k$ disjoint branchings $B_i$…
Maximum weight matching is one of the most fundamental combinatorial optimization problems with a wide range of applications in data mining and bioinformatics. Developing distributed weighted matching algorithms is challenging due to the…