Show simple item record

dc.contributor.authorAdaş, Boran
dc.contributor.authorBayraktar, Ersin
dc.contributor.authorFaro, Simone
dc.contributor.authorMoustafa, Ibraheem Elsayed
dc.contributor.authorKülekçi, Muhammed Oǧuzhan
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.issued2015en_US
dc.identifier.citationAdaş, B., Bayraktar, E., Faro, S., Moustafa, I. E. ve Külekçi, M. O. (2015). Nucleotide sequence alignment and compression via shortest unique substring. L3rd International Work-Conference on Bioinformatics and Biomedical Engineering içinde (363-374. ss.). Grenada, Spain, April 15-17, 2015.en_US
dc.identifier.isbn9783319164793
dc.identifier.issn0302-9743
dc.identifier.urihttps://hdl.handle.net/20.500.12511/829
dc.description.abstractAligning short reads produced by high throughput sequencing equipments onto a reference genome is the fundamental step of sequence analysis. Since the sequencing machinery generates massive volumes of data, it is becoming more and more vital to keep those data compressed also. In this study we present the initial results of an on-going research project, which aims to combine the alignment and compression of short reads with a novel preprocessing technique based on shortest unique substring identifiers. We observe that clustering the short reads according to the set of unique identifiers they include provide us an opportunity to combine compression and alignment. Thus, we propose an alternative path in high-throughput sequence analysis pipeline, where instead of applying an immediate whole alignment, a preprocessing that clusters the reads according to the set of shortest unique substring identifiers extracted from the reference genome is to be performed first. We also present an analysis of the short unique substrings identifiers on the human reference genome and examine how labeling each short read with those identifiers helps in alignment and compression.en_US
dc.language.isoengen_US
dc.publisherSpringer Verlagen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectUniqueen_US
dc.subjectSequenceen_US
dc.subjectShortest Unique Substringen_US
dc.titleNucleotide sequence alignment and compression via shortest unique substringen_US
dc.typeconferenceObjecten_US
dc.relation.ispartof3rd International Work-Conference on Bioinformatics and Biomedical Engineeringen_US
dc.departmentİstanbul Medipol Üniversitesi, Mühendislik ve Doğa Bilimleri Fakültesi, Biyomedikal Mühendisliği Bölümüen_US
dc.identifier.startpage363en_US
dc.identifier.endpage374en_US
dc.relation.ecinfo:eu-repo/grantAgreement/TUBITAK/SOBAG/114E293en_US
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanıen_US
dc.identifier.wosqualityQ4en_US


Files in this item

Thumbnail

This item appears in the following Collection(s)

Show simple item record