Improving RNA-Seq expression estimates by correcting for fragment bias.
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ABSTRACT:
SUBMITTER: Roberts A
PROVIDER: S-EPMC3129672 | biostudies-literature | 2011
REPOSITORIES: biostudies-literature
Publications
Improving RNA-Seq expression estimates by correcting for fragment bias.
Roberts Adam A Trapnell Cole C Donaghey Julie J Rinn John L JL Pachter Lior L
Genome biology 20110316 3
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 acros ...[more]
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