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Correcting palindromes in long reads after whole-genome amplification

التفاصيل البيبلوغرافية
العنوان: Correcting palindromes in long reads after whole-genome amplification
المؤلفون: Sven Warris, Elio Schijlen, Henri van de Geest, Rahulsimham Vegesna, Thamara Hesselink, Bas te Lintel Hekkert, Gabino Sanchez Perez, Paul Medvedev, Kateryna D. Makova, Dick de Ridder
المصدر: BMC Genomics, Vol 19, Iss 1, Pp 1-12 (2018)
بيانات النشر: BMC, 2018.
سنة النشر: 2018
المجموعة: LCC:Biotechnology
LCC:Genetics
مصطلحات موضوعية: Whole-genome amplification, High molecular weight DNA, Long read sequencing, Palindromes, Chimeric reads, de novo assembly, Biotechnology, TP248.13-248.65, Genetics, QH426-470
الوصف: Abstract Background Next-generation sequencing requires sufficient DNA to be available. If limited, whole-genome amplification is applied to generate additional amounts of DNA. Such amplification often results in many chimeric DNA fragments, in particular artificial palindromic sequences, which limit the usefulness of long sequencing reads. Results Here, we present Pacasus, a tool for correcting such errors. Two datasets show that it markedly improves read mapping and de novo assembly, yielding results similar to these that would be obtained with non-amplified DNA. Conclusions With Pacasus long-read technologies become available for sequencing targets with very small amounts of DNA, such as single cells or even single chromosomes.
نوع الوثيقة: article
وصف الملف: electronic resource
اللغة: English
تدمد: 1471-2164
Relation: http://link.springer.com/article/10.1186/s12864-018-5164-1; https://doaj.org/toc/1471-2164
DOI: 10.1186/s12864-018-5164-1
URL الوصول: https://doaj.org/article/001d87fcf69a46df825e8c062828623b
رقم الأكسشن: edsdoj.001d87fcf69a46df825e8c062828623b
قاعدة البيانات: Directory of Open Access Journals
الوصف
تدمد:14712164
DOI:10.1186/s12864-018-5164-1