Improving RNA-Seq expression estimates by correcting for fragment bias
- PMID: 21410973
- PMCID: PMC3129672
- DOI: 10.1186/gb-2011-12-3-r22
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.
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