Related papers: Finding Diverse Strings and Longest Common Subsequ…
We introduce the notion of Levenshtein graphs, an analog to Hamming graphs but using the edit distance instead of the Hamming distance; in particular, Levenshtein graphs allow for underlying strings (nodes) of different lengths. We…
Result diversification is an important aspect in web-based search, document summarization, facility location, portfolio management and other applications. Given a set of ranked results for a set of objects (e.g. web documents, facilities,…
In the spanning-tree congestion problem ($\mathsf{STC}$), we are given a graph $G$, and the objective is to compute a spanning tree of $G$ that minimizes the maximum edge congestion. While $\mathsf{STC}$ is known to be $\mathbb{NP}$-hard,…
This study aims to publish a novel similarity metric to increase the speed of comparison operations. Also the new metric is suitable for distance-based operations among strings. Most of the simple calculation methods, such as string length…
Here we study the complexity of string problems as a function of the size of a program that generates input. We consider straight-line programs (SLP), since all algorithms on SLP-generated strings could be applied to processing…
Finding paths in graphs is a fundamental graph-theoretic task. In this work, we we are concerned with finding a path with some constraints on its length and the number of vertices neighboring the path, that is, being outside of and incident…
We discuss the problem of extending data mining approaches to cases in which data points arise in the form of individual graphs. Being able to find the intrinsic low-dimensionality in ensembles of graphs can be useful in a variety of…
The longest common extension (LCE) of two indices in a string is the length of the longest identical substrings starting at these two indices. The LCE problem asks to preprocess a string into a compact data structure that supports fast LCE…
For a set of mulitple sequences, their patterns,Longest Common Subsequences (LCS) and Shortest Common Supersequences (SCS) represent different aspects of these sequences profile, and they can all be used for biological sequence comparisons…
In the Shortest Common Superstring problem (SCS), one needs to find the shortest superstring for a set of strings. While SCS is NP-hard and MAX-SNP-hard, the Greedy Algorithm "choose two strings with the largest overlap; merge them; repeat"…
Overlapping frequently occurs in paired texts in natural language processing tasks like text editing and semantic similarity evaluation. Better evaluation of the semantic distance between the overlapped sentences benefits the language…
Given a graph $G$, the longest path problem asks to compute a simple path of $G$ with the largest number of vertices. This problem is the most natural optimization version of the well known and well studied Hamiltonian path problem, and…
We raise the question of approximating the compressibility of a string with respect to a fixed compression scheme, in sublinear time. We study this question in detail for two popular lossless compression schemes: run-length encoding (RLE)…
Heterogeneous graph neural networks have recently gained attention for long document summarization, modeling the extraction as a node classification task. Although effective, these models often require external tools or additional machine…
Computing cohesive subgraphs is a central problem in graph theory. While many formulations of cohesive subgraphs lead to NP-hard problems, finding a densest subgraph can be done in polynomial time. As such, the densest subgraph model has…
Most of existing extractive multi-document summarization (MDS) methods score each sentence individually and extract salient sentences one by one to compose a summary, which have two main drawbacks: (1) neglecting both the intra and…
Similarity search is the task of retrieving data items that are similar to a given query. In this paper, we introduce the time-sensitive notion of similarity search over endless data-streams (SSDS), which takes into account data quality and…
Motivation: Low-complexity (LC) DNA sequences are compositionally repetitive sequences that are often associated with spurious homologous matches and variant calling artifacts. While algorithms for identifying LC sequences exist, they…
The maximum common subtree isomorphism problem asks for the largest possible isomorphism between subtrees of two given input trees. This problem is a natural restriction of the maximum common subgraph problem, which is ${\sf NP}$-hard in…
This paper addresses the Longest Filled Common Subsequence (LFCS) problem, a challenging NP-hard problem with applications in bioinformatics, including gene mutation prediction and genomic data reconstruction. Existing approaches, including…