Related papers: On the Complexity of Minimum Labeling Alignment of…
Given a collection $L$ of line segments, we consider its arrangement and study the problem of covering all cells with line segments of $L$. That is, we want to find a minimum-size set $L'$ of line segments such that every cell in the…
DNA labeling is a tool in molecular biology and biotechnology to visualize, detect, and study DNA at the molecular level. In this process, a DNA molecule is labeled by a set of specific patterns, referred to as labels, and is then imaged.…
Extreme multi-label classification (XMC) is the problem of finding the relevant labels for an input, from a very large universe of possible labels. We consider XMC in the setting where labels are available only for groups of samples - but…
In this paper we present a collection of results pertaining to haplotyping. The first set of results concerns the combinatorial problem of reconstructing haplotypes from incomplete and/or imperfectly sequenced haplotype data. More…
We study a combinatorial problem arising from microarrays synthesis. The synthesis is done by a light-directed chemical process. The objective is to minimize unintended illumination that may contaminate the quality of experiments.…
We study the complexity of the following cell connection and separation problems in segment arrangements. Given a set of straight-line segments in the plane and two points $a$ and $b$ in different cells of the induced arrangement: (i)…
We study the complexity of the problem of searching for a set of patterns that separate two given sets of strings. This problem has applications in a wide variety of areas, most notably in data mining, computational biology, and in…
Crossing minimization is one of the central problems in graph drawing. Recently, there has been an increased interest in the problem of minimizing crossings between paths in drawings of graphs. This is the metro-line crossing minimization…
A graph is weakly $2$-colored if the nodes are labeled with colors black and white such that each black node is adjacent to at least one white node and vice versa. In this work we study the distributed computational complexity of weak…
A tandem duplication denotes the process of inserting a copy of a segment of DNA adjacent to its original position. More formally, a tandem duplication can be thought of as an operation that converts a string $S = AXB$ into a string $T =…
We present a linear time algorithm for the minimum linear arrangement problem on proper interval graphs. The obtained ordering is a 4-approximation for general interval graphs
Labeling of DNA molecules is a fundamental technique for DNA visualization and analysis. This process was mathematically modeled in [1], where the received sequence indicates the positions of the used labels. In this work, we develop error…
We consider the problem of finding a minimum common partition of two strings (MCSP). The problem has its application in genome comparison. MCSP problem is proved to be NP-hard. In this paper, we develop an Integer Programming (IP)…
In this work, we study the problem of computing a maximum common contraction of two vertex-labeled graphs, i.e. how to make them identical by contracting as little edges as possible in the two graphs. We study the problem from a…
Genetic Programming (GP) has found various applications. Understanding this type of algorithm from a theoretical point of view is a challenging task. The first results on the computational complexity of GP have been obtained for problems…
This note concerns the trade-off between the degree of the constraint graph and the gap in hardness of approximating the Min-Rep variant of Label Cover (aka Projection Game). We make a very simple observation that, for NP-hardness with gap…
We study the well-known Label Cover problem under the additional requirement that problem instances have large girth. We show that if the girth is some $k$, the problem is roughly $2^{\log^{1-\epsilon} n/k}$ hard to approximate for all…
We show that determining the crossing number of a link is NP-hard. For some weaker notions of link equivalence, we also show NP-completeness.
We completely classify the computational complexity of the list H-colouring problem for graphs (with possible loops) in combinatorial and algebraic terms: for every graph H the problem is either NP-complete, NL-complete, L-complete or is…
We introduce and study the Minimum Feasible Tileset problem: Given a set of symbols and subsets of these symbols (scenarios), find a smallest possible number of pairs of symbols (tiles) such that each scenario can be formed by selecting at…