Improving RNA-Seq expression estimates by correcting for fragment bias.

ABSTRACT: The biochemistry of RNA-Seq library preparation results in cDNA fragments that are not uniformly distributed within the transcripts they represent. This non-uniformity must be accounted for when estimating expression levels, and we show how to perform the needed corrections using a likelihood based approach. We find improvements in expression estimates as measured by correlation with independently performed qRT-PCR and show that correction of bias leads to improved replicability of results across libraries and sequencing technologies.

SUBMITTER: Roberts A 

PROVIDER: S-EPMC3129672 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature