Improving genome assemblies using multi-platform sequence data

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dc.authorid0000-0002-0060-2859
dc.contributor.authorKavak, Pınar
dc.contributor.authorErgüner, Bekir
dc.contributor.authorÜstek, Duran
dc.contributor.authorYüksel, Bayram
dc.contributor.authorSağıroglu, Mahmut Şamil
dc.contributor.authorGüngör, Tunga
dc.contributor.authorAlkan, Can
dc.date.accessioned10.07.201910:49:13
dc.date.accessioned2019-07-10T19:35:32Z
dc.date.available10.07.201910:49:14
dc.date.available2019-07-10T19:35:32Z
dc.date.issued2016
dc.departmentİstanbul Medipol Üniversitesi, Tıp Fakültesi, Dahili Tıp Bilimleri Bölümü, Tıbbi Genetik Ana Bilim Dalı
dc.description.abstractAccurate de novo assembly using short reads generated by next generation sequencing technologies is still an open problem. Although there are several assembly algorithms developed for data generated with different sequencing technologies, and some that can make use of hybrid data, the assemblies are still far from being perfect. There is still a need for computational approaches to improve draft assemblies. Here we propose a new method to correct assembly mistakes when there are multiple types of data generated using different sequencing technologies that have different strengths and biases. We exploit the assembly of highly accurate short reads to correct the contigs obtained from less accurate long reads. We apply our method to Illumina, 454, and Ion Torrent data, and also compare our results with existing hybrid assemblers, Celera and Masurca.
dc.identifier.citationKavak, P., Ergüner, B., Üstek, D., Yüksel, B., Sa?ıro?lu, M.Ş., Güngör, T. ve Alkan, C. (2016) Improving genome assemblies using multi-platform sequence data. Journal of Lecture Notes in Computer Science, 9874 LNCS, 220-232. https://dx.doi.org/10.1007/978-3-319-44332-4_17
dc.identifier.doi10.1007/978-3-319-44332-4_17
dc.identifier.endpage232
dc.identifier.isbn9783319443317
dc.identifier.issn0302-9743
dc.identifier.scopusqualityN/A
dc.identifier.startpage220
dc.identifier.urihttps://hdl.handle.net/20.500.12511/828
dc.identifier.urihttps://dx.doi.org/10.1007/978-3-319-44332-4_17
dc.identifier.volume9874 LNCS
dc.indekslendigikaynakScopus
dc.language.isoen
dc.publisherSpringer Verlag
dc.relation.ispartofLecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)en_US
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/openAccess
dc.subjectAssembly Improvement
dc.subjectDe Novo Assembly
dc.subjectNext Generation Multi-Platform Sequencing
dc.titleImproving genome assemblies using multi-platform sequence data
dc.typeArticle

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