Related papers: Mining Statistically Significant Substrings using …

Computing the densest subgraph is a primitive graph operation with critical applications in detecting communities, events, and anomalies in biological, social, Web, and financial networks. In this paper, we study the novel problem of Most…

Over the last decade, there has been an increasing interest in temporal graphs, pushed by a growing availability of temporally-annotated network data coming from social, biological and financial networks. Despite the importance of analyzing…

Stochastic approximation techniques play an important role in solving many problems encountered in machine learning or adaptive signal processing. In these contexts, the statistics of the data are often unknown a priori or their direct…

The Maximum Common Subgraph (MCS) problem plays a key role in many applications, including cheminformatics, bioinformatics, and pattern recognition, where it is used to identify the largest shared substructure between two graphs. Although…

Searching for all occurrences of a pattern in a text is a fundamental problem in computer science with applications in many other fields, like natural language processing, information retrieval and computational biology. Sampled string…

Longest common substring (LCS), longest palindrome substring (LPS), and Ulam distance (UL) are three fundamental string problems that can be classically solved in near linear time. In this work, we present sublinear time quantum algorithms…

We consider the problem of selecting a small subset of representative variables from a large dataset. In the computer science literature, this dimensionality reduction problem is typically formalized as Column Subset Selection (CSS).…

In the classical longest palindromic substring (LPS) problem, we are given a string $S$ of length $n$, and the task is to output a longest palindromic substring in $S$. Gilbert, Hajiaghayi, Saleh, and Seddighin [SPAA 2023] showed how to…

In this paper, we consider a generalized longest common subsequence problem with multiple substring inclusive constraints. For the two input sequences $X$ and $Y$ of lengths $n$ and $m$, and a set of $d$ constraints $P=\{P_1,\cdots,P_d\}$…

We consider the problem of subspace estimation in situations where the number of available snapshots and the observation dimension are comparable in magnitude. In this context, traditional subspace methods tend to fail because the…

A suffixient set is a novel combinatorial object that captures the essential information of repetitive strings in a way that, provided with a random access mechanism, supports various forms of pattern matching. In this paper, we study the…

Distribution estimation under error-prone or non-ideal sampling modelled as "sticky" channels have been studied recently motivated by applications such as DNA computing. Missing mass, the sum of probabilities of missing letters, is an…

The online square detection problem is to detect the first occurrence of a square in a string whose characters are provided as input one at a time. Recall that a square is a string that is a concatenation of two identical strings. In this…

We present a novel graph embedding space (i.e., a set of measures on graphs) for performing statistical analyses of networks. Key improvements over existing approaches include discovery of "motif-hubs" (multiple overlapping significant…

A substring $u$ of a string $T$ is called a minimal unique substring (MUS) of $T$ if $u$ occurs exactly once in $T$ and any proper substring of $u$ occurs at least twice in $T$. A string $w$ is called a minimal absent word (MAW) of $T$ if…

Longest Increasing Subsequence (LIS) is a fundamental statistic of a sequence, and has been studied for decades. While the LIS of a sequence of length $n$ can be computed exactly in time $O(n\log n)$, the complexity of estimating the…

Let $S$ be a string of length $n$ over an alphabet $\Sigma$ and let $Q$ be a subset of $\Sigma$ of size $q \geq 2$. The 'co-occurrence problem' is to construct a compact data structure that supports the following query: given an integer $w$…

The extraction of $k$-mers is a fundamental component in many complex analyses of large next-generation sequencing datasets, including reads classification in genomics and the characterization of RNA-seq datasets. The extraction of all…

Many common graph data mining tasks take the form of identifying dense subgraphs (e.g. clustering, clique-finding, etc). In biological applications, the natural model for these dense substructures is often a complete bipartite graph…

The Binary Jumbled String Matching problem is defined as: Given a string $s$ over $\{a,b\}$ of length $n$ and a query $(x,y)$, with $x,y$ non-negative integers, decide whether $s$ has a substring $t$ with exactly $x$ $a$'s and $y$ $b$'s.…