相关论文: Parameterized Intractability of Motif Search Probl…

The classic exact pattern matching problem, given two strings -- a pattern $P$ of length $m$ and a text $T$ of length $n$ -- asks whether $P$ occurs as a substring of $T$. A property tester for the problem needs to distinguish (with high…

Let $A_q$ be a $q$-letter alphabet and $w$ be a right infinite word on this alphabet. A subword of $w$ is a block of consecutive letters of $w$. The subword complexity function of $w$ assigns to each positive integer $n$ the number $f_w(n)$…

Considering matrices with missing entries, we study NP-hard matrix completion problems where the resulting completed matrix shall have limited (local) radius. In the pure radius version, this means that the goal is to fill in the entries…

Longest common subsequence (LCS) is one of the most fundamental problems in combinatorial optimization. Apart from theoretical importance, LCS has enormous applications in bioinformatics, revision control systems, and data comparison…

In this paper we initiate the study of computing a maximal (not necessarily maximum) repeating pattern in a single input string, where the corresponding problems have been studied (e.g., a maximal common subsequence) only in two or more…

We study the problem #IndSub(P) of counting all induced subgraphs of size k in a graph G that satisfy the property P. This problem was introduced by Jerrum and Meeks and shown to be #W[1]-hard when parameterized by k for some families of…

Minimizers sampling is one of the most widely-used mechanisms for sampling strings [Roberts et al., Bioinformatics 2004]. Let $S=S[1]\ldots S[n]$ be a string over a totally ordered alphabet $\Sigma$. Further let $w\geq 2$ and $k\geq 1$ be…

We investigate determining the exact bounds of the frequencies of conjunctions based on frequent sets. Our scenario is an important special case of some general probabilistic logic problems that are known to be intractable. We show that…

An RNA sequence is a string composed of four types of nucleotides, $A, C, G$, and $U$. The goal of the RNA folding problem is to find a maximum cardinality set of crossing-free pairs of the form $\{A,U\}$ or $\{C,G\}$ in a given RNA…

We study the linearizability monitoring problem, which asks whether a given concurrent history of a data structure is equivalent to some sequential execution of the same data structure. In general, this problem is $\textsf{NP}$-hard, even…

This paper studies the computational complexity of a robust variant of a two-stage submodular minimization problem that we call Robust Submodular Minimizer. In this problem, we are given $k$ submodular functions~$f_1,\dots,f_k$ over a set…

Cardinality constraints or, more generally, weight constraints are well recognized as an important extension of answer-set programming. Clearly, all common algorithmic tasks related to programs with cardinality or weight constraints - like…

Aligning a sequence to a walk in a labeled graph is a problem of fundamental importance to Computational Biology. For finding a walk in an arbitrary graph with $|E|$ edges that exactly matches a pattern of length $m$, a lower bound based on…

A resolving set $S$ of a graph $G$ is a subset of its vertices such that no two vertices of $G$ have the same distance vector to $S$. The Metric Dimension problem asks for a resolving set of minimum size, and in its decision form, a…

The parameterized model-checking problem for a class of first-order sentences (queries) asks to decide whether a given sentence from the class holds true in a given relational structure (database); the parameter is the length of the…

The Shortest Superstring Problem (SSP) consists, for a set of strings S = {s_1,...,s_n}, to find a minimum length string that contains all s_i, 1 <= i <= k, as substrings. This problem is proved to be NP-Complete and APX-hard. Guaranteed…

Recently it was shown that, for every fixed k>1, given a finite simply connected simplicial complex X, the kth homotopy group \pi_k(X) can be computed in time polynomial in the number n of simplices of X. We prove that this problem is…

In statistical setting of the pattern recognition problem the number of examples required to approximate an unknown labelling function is linear in the VC dimension of the target learning class. In this work we consider the question whether…

Optimal Morse matchings reveal essential structures of cell complexes which lead to powerful tools to study discrete geometrical objects, in particular discrete 3-manifolds. However, such matchings are known to be NP-hard to compute on…

If no optimal propositional proof system exists, we (and independently Pudl\'ak) prove that ruling out length $t$ proofs of any unprovable sentence is hard. This mapping from unprovable to hard-to-prove sentences powerfully translates facts…