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Non-random DNA fragmentation in next-generation sequencingстатья
Статья опубликована в высокорейтинговом журнале
Информация о цитировании статьи получена из
Web of Science,
Scopus
Статья опубликована в журнале из списка Web of Science и/или Scopus
Дата последнего поиска статьи во внешних источниках: 9 октября 2015 г.
- Авторы: Poptsova M.S., Il'icheva I.A., Nechipurenko D.Y., Panchenko L.A., Khodikov M.V., Oparina N.Y., Polozov R.V., Nechipurenko Y.D., Grokhovsky S.L.
- Журнал: Scientific reports
- Том: 31
- Год издания: 2014
- Издательство: Nature Publishing Group
- Местоположение издательства: United Kingdom
- Первая страница: 4532
- Последняя страница: 4535
- DOI: 10.1038/srep04532
- Аннотация: Next Generation Sequencing (NGS) technology is based on cutting DNA into small fragments, and their massive parallel sequencing. The multiple overlapping segments termed ‘‘reads’’ are assembled into a contiguous sequence. To reduce sequencing errors, every genome region should be sequenced several dozen times. This sequencing approach is based on the assumption that genomic DNA breaks are random and sequence-independent. However, previously we showed that for the sonicated restriction DNA fragments the rates of double-stranded breaks depend on the nucleotide sequence. In this work we analyzed genomic reads from NGS data and discovered that fragmentation methods based on the action of the hydrodynamic forces on DNA, produce similar bias. Consideration of this non-randomDNAfragmentation may allow one to unravel what factors and to what extent influence the non-uniform coverage of various genomic regions.
- Добавил в систему: Нечипуренко Дмитрий Юрьевич