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Improving RNA-Seq expression estimates by correcting for fragment bias.
Genome Biol. 2011 Mar 16;12(3):R22
Authors: Roberts A, Trapnell C, Donaghey J, Rinn JL, Pachter L
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.
PMID: 21410973 [PubMed - as supplied by publisher]
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Improving RNA-Seq expression estimates by correcting for fragment bias.
Genome Biol. 2011 Mar 16;12(3):R22
Authors: Roberts A, Trapnell C, Donaghey J, Rinn JL, Pachter L
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.
PMID: 21410973 [PubMed - as supplied by publisher]
More...