Progressive alignment of genomic signals by multiple dynamic time warping

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dc.contributor.authorVítková, Helenacs
dc.contributor.authorVítek, Martincs
dc.contributor.authorSedlář, Karelcs
dc.contributor.authorProvazník, Valentýnacs
dc.coverage.issue385cs
dc.coverage.volume2015cs
dc.date.issued2015-11-21cs
dc.description.abstractThis paper presents the utilization of progressive alignment principle for positional adjustment of a set of genomic signals with different lengths. The new method of multiple alignment of signals based on dynamic time warping is tested for the purpose of evaluating the similarity of different length genes in phylogenetic studies. Two sets of phylogenetic markers were used to demonstrate the effectiveness of the evaluation of intraspecies and interspecies genetic variability. The part of the proposed method is modification of pairwise alignment of two signals by dynamic time warping with using correlation in a sliding window. The correlation based dynamic time warping allows more accurate alignment dependent on local homologies in sequences without the need of scoring matrix or evolutionary models, because mutual similarities of residues are included in the numerical code of signals.en
dc.description.abstractČlánek se zabývý progresivním principem zarovnání setu různě dlouhých genomických signálů. Metoda je založená na dynamickém borcení časové osy. Výsledné genomické signály s přízpůsobenou délkou jsou použity pro fylogenetickou analýzu.cs
dc.formattextcs
dc.format.extent20-30cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationJournal of Theoretical Biology. 2015, vol. 2015, issue 385, p. 20-30.en
dc.identifier.doi10.1016/j.jtbi.2015.08.007cs
dc.identifier.issn0022-5193cs
dc.identifier.orcid0000-0003-4562-2746cs
dc.identifier.orcid0000-0002-8059-1087cs
dc.identifier.orcid0000-0002-8269-4020cs
dc.identifier.orcid0000-0002-3422-7938cs
dc.identifier.other116346cs
dc.identifier.researcheridD-5194-2014cs
dc.identifier.researcheridD-3351-2014cs
dc.identifier.researcheridK-1120-2014cs
dc.identifier.researcheridF-4121-2012cs
dc.identifier.scopus36521691000cs
dc.identifier.scopus35767287500cs
dc.identifier.scopus56309904900cs
dc.identifier.scopus6701729526cs
dc.identifier.urihttp://hdl.handle.net/11012/69205
dc.language.isoencs
dc.publisherElseviercs
dc.relation.ispartofJournal of Theoretical Biologycs
dc.relation.urihttp://authors.elsevier.com/sd/article/S0022519315003951cs
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 Internationalcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/0022-5193/cs
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/cs
dc.subjectGenomic signal processingen
dc.subjectMultiple alignmenten
dc.subjectCorrelationen
dc.subjectPhylogenetic treeen
dc.subjectSimilarity distanceen
dc.titleProgressive alignment of genomic signals by multiple dynamic time warpingen
dc.title.alternativeProgrsivní zarovnání genomických signálů pomocí dynamického borcení časové osycs
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-116346en
sync.item.dbtypeVAVen
sync.item.insts2025.02.03 15:40:05en
sync.item.modts2025.01.17 16:41:06en
thesis.grantorVysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií. Ústav biomedicínského inženýrstvícs
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