Fig. 3

ERCC RNA quantification using amplicon barcoding. (a) Correlation between “measured” vs. “expected” numbers for each ERCC RNA transcripts represented by each amplicon. The x-axis represents log2 values of known copies in the ERCC RNA spike-in mix. The y-axis represents log2 values of average barcode or read counts for each amplicon (n = 3). Both barcode count and read count from different sequencing runs were first normalized to a mean value of 10,000 for each run before being averaged. (b) CV computed on the basis of barcode counts vs. raw read counts. Three independent target enrichment experiments were performed. Solid black line represents diagonal and two red dash lines represent 2-fold intervals. (c) CV vs mean plot for both barcode counts and read counts. X-axis represents the mean value for each amplicon on the basis of either barcodes or reads. Corresponding CV is plotted on y-axis. The theoretical Poisson CV is plotted as the black dash line