Non-random DNA fragmentation in next-generation sequencingстатья
Статья опубликована в высокорейтинговом журнале
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Статья опубликована в журнале из списка Web of Science и/или Scopus
Дата последнего поиска статьи во внешних источниках: 9 октября 2015 г.
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.