Normalization of RNA-sequencing data from samples with varying mRNA levels.
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ABSTRACT:
SUBMITTER: Aanes H
PROVIDER: S-EPMC3934880 | biostudies-literature | 2014
REPOSITORIES: biostudies-literature
Publications
Normalization of RNA-sequencing data from samples with varying mRNA levels.
Aanes Håvard H Winata Cecilia C Moen Lars F LF Østrup Olga O Mathavan Sinnakaruppan S Collas Philippe P Rognes Torbjørn T Aleström Peter P
PloS one 20140225 2
Methods for normalization of RNA-sequencing gene expression data commonly assume equal total expression between compared samples. In contrast, scenarios of global gene expression shifts are many and increasing. Here we compare the performance of three normalization methods when polyA(+) RNA content fluctuates significantly during zebrafish early developmental stages. As a benchmark we have used reverse transcription-quantitative PCR. The results show that reads per kilobase per million (RPKM) an ...[more]
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