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The problem of sorting a signed permutation by reversals is inspired by genome rearrangements in computational molecular biology. Given two genomes represented as two signed permut...
The problem of comparing two sequences A and B to determine their similarity is one of the fundamental problems in pattern matching. A challenging, basic variation of the sequence...
Gad M. Landau, Eugene W. Myers, Michal Ziv-Ukelson
Optimized spaced seeds improve sensitivity and specificity in local homology search. Several authors have shown that multiple seeds can have better sensitivity and specificity t...
Abstract. We consider the problem of sorting linear and circular permutations and 0/1 sequences by reversals in a length-sensitive cost model. We extend the results on sorting by l...
Firas Swidan, Michael A. Bender, Dongdong Ge, Sima...
A popular approach in comparative genomics is to locate groups or clusters of orthologous genes in multiple genomes and to postulate functional association between the genes contai...
Given two undirected trees T and P, the Subtree Homeomorphism Problem is to find whether T has a subtree t that can be transformed into P by removing entire subtrees, as well as ...
Ron Y. Pinter, Oleg Rokhlenko, Dekel Tsur, Michal ...
Given a set S = {s1, s2, . . . , sn} of strings each of length m, and an integer L, we study the following two problems. k-Closest Substring problem: find k center strings c1, c2,...
Given a matrix X composed of symbols, a bicluster is a submatrix of X obtained by removing some of the rows and some of the columns of X in such a way that each row of what is lef...
Stefano Lonardi, Wojciech Szpankowski, Qiaofeng Ya...
Abstract. Phylogenetics is a science of determining connections between groups of organisms in terms of ancestor/descendent relationships, usually expressed by phylogenetic trees, ...