Rearrangement distance with reversals, indels, and moves in intergenic regions on signed and unsigned permutations

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dc.contributor.authorBrito K.L.
dc.contributor.authorOliveira A.R.
dc.contributor.authorAlexandrino A.O.
dc.contributor.authorDias U.
dc.contributor.authorDias Z.
dc.date.accessioned2024-03-12T19:09:45Z
dc.date.available2024-03-12T19:09:45Z
dc.date.issued2023
dc.description.abstract© 2023 The Author(s).Genome rearrangement events are widely used to estimate a minimum-size sequence of mutations capable of transforming a genome into another. The length of this sequence is called distance, and determining it is the main goal in genome rearrangement distance problems. Problems in the genome rearrangement field differ regarding the set of rearrangement events allowed and the genome representation. In this work, we consider the scenario where the genomes share the same set of genes, gene orientation is known or unknown, and intergenic regions (structures between a pair of genes and at the extremities of the genome) are taken into account. We use two models, the first model allows only conservative events (reversals and moves), and the second model includes non-conservative events (insertions and deletions) in the intergenic regions. We show that both models result in NP-hard problems no matter if gene orientation is known or unknown. When the information regarding the orientation of genes is available, we present for both models an approximation algorithm with a factor of 2. For the scenario where this information is unavailable, we propose a 4-approximation algorithm for both models.
dc.description.issuenumber2
dc.description.volume21
dc.identifier.doi10.1142/S0219720023500099
dc.identifier.issn1757-6334
dc.identifier.urihttps://dspace.mackenzie.br/handle/10899/34085
dc.relation.ispartofJournal of Bioinformatics and Computational Biology
dc.rightsAcesso Restrito
dc.subject.otherlanguageapproximation algorithms
dc.subject.otherlanguagecomplexity analysis
dc.subject.otherlanguageGenome rearrangements
dc.titleRearrangement distance with reversals, indels, and moves in intergenic regions on signed and unsigned permutations
dc.typeArtigo de evento
local.scopus.citations0
local.scopus.eid2-s2.0-85158066308
local.scopus.subjectAlgorithms
local.scopus.subjectDNA, Intergenic
local.scopus.subjectGene Rearrangement
local.scopus.subjectGenome
local.scopus.subjectModels, Genetic
local.scopus.subjectMutation
local.scopus.updated2025-04-01
local.scopus.urlhttps://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=85158066308&origin=inward
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