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In this paper we consider the problem of computing an mRNA sequence of maximal similarity for a given mRNA of secondary structure constraints, introduced by Backofen et al. in [BNS02] denoted as the MRSO problem. The problem is known to be…
We propose a novel stochastic distributed method for both monotone and strongly monotone variational inequalities with Lipschitz operator and proper convex regularizers arising in various applications from game theory to adversarial…
In the $d$-Scattered Set problem we are asked to select at least $k$ vertices of a given graph, so that the distance between any pair is at least $d$. We study the problem's (in-)approximability and offer improvements and extensions of…
Many algorithms have been developed for NP-hard problems on graphs with small treewidth $k$. For example, all problems that are expressable in linear extended monadic second order can be solved in linear time on graphs of bounded treewidth.…
We investigate the classes of functions whose minimization diagrams can be approximated efficiently in \Re^d. We present a general framework and a data-structure that can be used to approximate the minimization diagram of such functions.…
The $k$-cut problem asks, given a connected graph $G$ and a positive integer $k$, to find a minimum-weight set of edges whose removal splits $G$ into $k$ connected components. We give the first polynomial-time algorithm with approximation…
We study the problem of minimizing a multivariate polynomial function over the unit hypercube. By representing the polynomial through a hypergraph and exploiting its sparsity structure, we establish a new sufficient condition under which…
A breakthrough result of Cygan et al. (FOCS 2011) showed that connectivity problems parameterized by treewidth can be solved much faster than the previously best known time $\mathcal{O}^*(2^{\mathcal{O}(tw \log(tw))})$. Using their inspired…
We consider a refinement of the partition function of graph homomorphisms and present a quasi-polynomial algorithm to compute it in a certain domain. As a corollary, we obtain quasi-polynomial algorithms for computing partition functions…
We show that the problem of constructing tree-structured descriptions of data layouts that are optimal with respect to space or other criteria from given sequences of displacements, can be solved in polynomial time. The problem is relevant…
Tree decompositions were developed by Robertson and Seymour. Since then algorithms have been developed to solve intractable problems efficiently for graphs of bounded treewidth. In this paper we extend tree decompositions to allow cycles to…
Designing well-connected graphs is a fundamental problem that frequently arises in various contexts across science and engineering. The weighted number of spanning trees, as a connectivity measure, emerges in numerous problems and plays a…
One of the most important combinatorial optimization problems is graph coloring. There are several variations of this problem involving additional constraints either on vertices or edges. They constitute models for real applications, such…
Graph partitioning is a key fundamental problem in the area of big graph computation. Previous works do not consider the practical requirements when optimizing the big data analysis in real applications. In this paper, motivated by…
We consider the following basic problem: given an $n$-variate degree-$d$ homogeneous polynomial $f$ with real coefficients, compute a unit vector $x \in \mathbb{R}^n$ that maximizes $|f(x)|$. Besides its fundamental nature, this problem…
In this paper, we present a polynomial-time algorithm that approximates sufficiently high-value Max 2-CSPs on sufficiently dense graphs to within $O(N^{\varepsilon})$ approximation ratio for any constant $\varepsilon > 0$. Using this…
A large number of NP-hard graph problems can be solved in $f(w)n^{O(1)}$ time and space when the input graph is provided together with a tree decomposition of width $w$, in many cases with a modest exponential dependence $f(w)$ on $w$.…
Suppose we are given a bipartite graph that admits a perfect matching and an adversary may delete any edge from the graph with the intention of destroying all perfect matchings. We consider the task of adding a minimum cost edge-set to the…
We extend Babai's quasipolynomial-time graph isomorphism test (STOC 2016) and develop a quasipolynomial-time algorithm for the multiple-coset isomorphism problem. The algorithm for the multiple-coset isomorphism problem allows to exploit…
We give an analog of the Myhill-Nerode methods from formal language theory for hypergraphs and use it to derive the following results for two NP-hard hypergraph problems: * We provide an algorithm for testing whether a hypergraph has…