Figure 2

Global comparison of RNA-Seq and microarray analysis of transcript expression in developing grape. A. Comparison of microarray probeset intensities for developing Cabernet Sauvignon (purple) and Chardonnay (orange) [8] with transcript abundance for the corresponding genes measured in our study as expressed by log2 (RPKM + 1). Expression values charted here consists of the mean of four developmental stages corresponding to E-L 31, E-L 35, E-L 36 and E-L 38, and give Spearman correlation coefficients of ρ = 0.73 and ρ = 0.72 for Cabernet Sauvignon and Chardonnay, respectively. Dashed lines represent the cut-off whereby genes are not considered expressed in either platform and are not included in the calculation of correlation coefficients. B. Histogram showing the distribution of correlated genes during berry development. Mapped transcripts having a Spearman correlation between correlation thresholds were counted from a total of 7189 unique transcripts measured by both platforms.