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We show that the problem k-Dominating Set and its several variants including k-Connected Dominating Set, k-Independent Dominating Set, and k-Dominating Clique, when parameterized by the solution size k, are W[1]-hard in either…
The well-known trace reconstruction problem is the problem of inferring an unknown source string $x \in \{0,1\}^n$ from independent "traces", i.e. copies of $x$ that have been corrupted by a $\delta$-deletion channel which independently…
In order to support the real-time interaction with LLMs and the instant search or the instant recommendation on social media, it becomes an imminent problem to build a k-NN graph or an indexing graph for the massive number of vectorized…
We consider the densest $k$-subgraph problem, which seeks to identify the $k$-node subgraph of a given input graph with maximum number of edges. This problem is well-known to be NP-hard, by reduction to the maximum clique problem. We…
Sampling from combinatorial families can be difficult. However, complicated families can often be embedded within larger, simpler ones, for which easy sampling algorithms are known. We take advantage of such a relationship to describe a…
In the usual trace reconstruction problem, the goal is to exactly reconstruct an unknown string of length $n$ after it passes through a deletion channel many times independently, producing a set of traces (i.e., random subsequences of the…
We address the problem of merging graph and feature-space information while learning a metric from structured data. Existing algorithms tackle the problem in an asymmetric way, by either extracting vectorized summaries of the graph…
The well-known Disjoint Paths problem is to decide if a graph contains k pairwise disjoint paths, each connecting a different terminal pair from a set of k distinct pairs. We determine, with an exception of two cases, the complexity of the…
In this note, we consider the problem of finding a step-by-step transformation between two longest increasing subsequences in a sequence, namely Longest Increasing Subsequence Reconfiguration. We give a polynomial-time algorithm for…
The "Subset Sum problem" is a very well-known NP-complete problem. In this work, a top-k variation of the "Subset Sum problem" is considered. This problem has wide application in recommendation systems, where instead of k best objects the k…
In phylogenetics, a central problem is to infer the evolutionary relationships between a set of species $X$; these relationships are often depicted via a phylogenetic tree -- a tree having its leaves univocally labeled by elements of $X$…
Learning the dependence structure among variables in complex systems is a central problem across medical, natural, and social sciences. These structures can be naturally represented by graphs, and the task of inferring such graphs from data…
Most of major algorithms for phylogenetic tree reconstruction assume that sequences in the analyzed set either do not have any offspring, or that parent sequences can maximally mutate into just two descendants. The graph resulting from such…
The independent set problem is NP-hard and particularly difficult to solve in large sparse graphs. In this work, we develop an advanced evolutionary algorithm, which incorporates kernelization techniques to compute large independent sets in…
This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous…
We introduce a random graph model based on k-trees, which can be generated by applying a probabilistic preferential attachment rule, but which also has a simple combinatorial description. We carry out a precise distributional analysis of…
A string graph is an intersection graph of curves in the plane. A $k$-string graph is a graph with a string representation in which every pair of curves intersects in at most $k$ points. We introduce the class of $(=k)$-string graphs as a…
In this paper we consider the problem to reconstruct a $k$-uniform hypergraph from its line graph. In general this problem is hard. We solve this problem when the number of hyperedges containing any pair of vertices is bounded. Given an…
We study the problem of sampling k-bandlimited signals on graphs. We propose two sampling strategies that consist in selecting a small subset of nodes at random. The first strategy is non-adaptive, i.e., independent of the graph structure,…
We consider the parameterized complexity of the problem of tracking shortest s-t paths in graphs, motivated by applications in security and wireless networks. Given an undirected and unweighted graph with a source s and a destination t,…