Related papers: The Binary Perfect Phylogeny with Persistent chara…

We show that for any two values $\alpha, \beta >0 $ for which $\alpha+\beta>1$ then there is a value $N$ so that for all $n \geq N$ the following holds. For any binary phylogenetic tree $T$ on $n$ leaves there is a set of $\lfloor n^\alpha…

A popular method in combinatorial optimization is to express polytopes P, which may potentially have exponentially many facets, as solutions of linear programs that use few extra variables to reduce the number of constraints down to a…

The problems studied in this paper originate from Graph Motif, a problem introduced in 2006 in the context of biological networks. Informally speaking, it consists in deciding if a multiset of colors occurs in a connected subgraph of a…

This paper introduces a general model called CIPNN - Continuous Indeterminate Probability Neural Network, and this model is based on IPNN, which is used for discrete latent random variables. Currently, posterior of continuous latent…

We study two modifications of the Post Correspondence Problem (PCP), namely 1) the bi-infinite version, where it is asked whether there exists a bi-infinite word such that two given morphisms agree on it, and 2) the conjugate version, where…

Linear Genetic Programming (LGP) is a powerful technique that allows for a variety of problems to be solved using a linear representation of programs. However, there still exists some limitations to the technique, such as the need for…

A matching is a set of edges in a graph with no common endpoint. A matching M is called acyclic if the induced subgraph on the endpoints of the edges in M is acyclic. Given a graph G and an integer k, Acyclic Matching Problem seeks for an…

${ NP}$-complete problem "Hamiltonian cycle"\ for graph $G=(V,E)$ is extended to the "Hamiltonian Complement of the Graph"\ problem of finding the minimal cardinality set $H$ containing additional edges so that graph $G=(V,E\cup H)$ is…

Interpreting three-leaf binary trees or {\em rooted triples} as constraints yields an entailment relation, whereby binary trees satisfying some rooted triples must also thus satisfy others, and thence a closure operator, which is known to…

Given a property (graph class) $\Pi$, a graph $G$, and an integer $k$, the \emph{$\Pi$-completion} problem consists in deciding whether we can turn $G$ into a graph with the property $\Pi$ by adding at most $k$ edges to $G$. The…

The process of evolutionary diversification unfolds in a vast genotypic space of potential outcomes. During the past century there have been remarkable advances in the development of theory for this diversification, and the theory's success…

Exploration of task mappings plays a crucial role in achieving high performance in heterogeneous multi-processor system-on-chip (MPSoC) platforms. The problem of optimally mapping a set of tasks onto a set of given heterogeneous processors…

In this paper, we showcase the class XNLP as a natural place for many hard problems parameterized by linear width measures. This strengthens existing $W[1]$-hardness proofs for these problems, since XNLP-hardness implies $W[t]$-hardness for…

This article proposes a bivariate polynomial problem for finite-order real matrices that endows a \textit{`sufficient condition'} for a map from the standard vector spaces of finite-order real matrices to the same dimensional bivariate…

The maximal subgroup of unipotent upper-triangular matrices of the finite general linear groups are a fundamental family of $p$-groups. Their representation theory is well-known to be wild, but there is a standard supercharacter theory,…

Ward and Szab\'o [WS94] have shown that a complete graph with $N^2$ nodes whose edges are colored by $N$ colors and that has at least two colors contains a bichromatic triangle. This fact leads us to a total search problem: Given an…

In an undirected graph $G=(V,E)$, we say $(A,B)$ is a pair of perfectly matched sets if $A$ and $B$ are disjoint subsets of $V$ and every vertex in $A$ (resp. $B$) has exactly one neighbor in $B$ (resp. $A$). The size of a pair of perfectly…

A phylogeny describes the evolutionary history of an evolving population. Evolutionary search algorithms can perfectly track the ancestry of candidate solutions, illuminating a population's trajectory through the search space. However,…

Aligning protein-protein interaction (PPI) networks of different species has drawn a considerable interest recently. This problem is important to investigate evolutionary conserved pathways or protein complexes across species, and to help…

A positive definite completion problem pertains to determining whether the unspecified positions of a partial (or incomplete) matrix can be completed in a desired subclass of positive definite matrices. In this paper we study an important…