Biases in Illumina transcriptome sequencing caused by random hexamer priming

Kasper Daniel Hansen, Steven E. Brenner, Sandrine Dudoit

Research output: Contribution to journalArticle

Abstract

Generation of cDNA using random hexamer priming induces biases in the nucleotide composition at the beginning of transcriptome sequencing reads from the Illumina Genome Analyzer. The bias is independent of organism and laboratory and impacts the uniformity of the reads along the transcriptome. We provide a read count reweighting scheme, based on the nucleotide frequencies of the reads, that mitigates the impact of the bias.

Original languageEnglish (US)
Article numbergkq224
JournalNucleic Acids Research
Volume38
Issue number12
DOIs
StatePublished - Apr 14 2010
Externally publishedYes

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Transcriptome
Nucleotides
Complementary DNA
Genome

ASJC Scopus subject areas

  • Genetics

Cite this

Biases in Illumina transcriptome sequencing caused by random hexamer priming. / Hansen, Kasper Daniel; Brenner, Steven E.; Dudoit, Sandrine.

In: Nucleic Acids Research, Vol. 38, No. 12, gkq224, 14.04.2010.

Research output: Contribution to journalArticle

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