7.3 years ago by
Washington University School of Medicine, St. Louis, USA
Here are some examples of RNA-seq libraries generated and sequenced in various ways. The same human sample was used for all 8 approaches. Starting from either total RNA or polyA RNA. Using either Nugen Ovation V2 or the Encore kit for cDNA synthesis. And finally, subjecting the library to an exome capture or not. Yes, I know this is an unusual thing to do with an RNA-seq library. ;). All sequence data are paired 2x100 bp reads. The Encore libraries are strand specific and the Ovation are not. Alignments were by Tophat v2 with Bowtie v2.
The plot shows the proportion of reads that map to known coding regions, known UTR regions, intronic regions, etc. So for total reads mapping to known transcript annotations you would add the UTR and coding components. The annotations are from Ensembl.