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dc.contributor.author
Tan, Ge
dc.contributor.author
Opitz, Lennart
dc.contributor.author
Schlapbach, Ralph
dc.contributor.author
Rehrauer, Hubert
dc.date.accessioned
2019-03-13T15:51:06Z
dc.date.available
2019-03-09T03:27:54Z
dc.date.available
2019-03-13T15:51:06Z
dc.date.issued
2019
dc.identifier.other
10.1038/s41598-019-39076-7
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/330223
dc.identifier.doi
10.3929/ethz-b-000330223
dc.description.abstract
Illumina’s technology provides high quality reads of DNA fragments with error rates below 1/1000 per base. Sequencing runs typically generate millions of reads in which the vast majority of the reads has an average error rate below 1/1000. However, some paired-end sequencing data show the presence of a subpopulation of reads where the second read (R2) has lower average qualities. We show that the fragment length is a major driver of increased error rates in the R2 reads. Fragments above 500 nt tend to yield lower base qualities and higher error rates than shorter fragments. We use publicly available Illumina data to demonstrate that the fragment length dependency of the R2 read qualities exists in various library protocols, in different labs and using different sequencer models. Our finding extends the understanding of the Illumina read quality and has implications on error models for Illumina reads. It also sheds a light on the importance of controlling the fragment size during library preparation.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Nature Publishing Group
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.title
Long fragments achieve lower base quality in Illumina paired-end sequencing
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
dc.date.published
2019-02-27
ethz.journal.title
Scientific Reports
ethz.journal.volume
9
en_US
ethz.pages.start
2856
en_US
ethz.size
7 p.
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.wos
ethz.identifier.scopus
ethz.publication.place
London
en_US
ethz.publication.status
published
en_US
ethz.date.deposited
2019-03-09T03:27:55Z
ethz.source
WOS
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2019-03-13T15:51:21Z
ethz.rosetta.lastUpdated
2019-03-13T15:51:21Z
ethz.rosetta.exportRequired
true
ethz.rosetta.versionExported
true
ethz.COinS
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