Figure 3.

Verification of RNA-seq with qRT-PCR. The log₂ (expression relative to actin and ubiquitin genes in test tissue by qRT-PCR/expression relative to actin and ubiquitin genes in pollen by qRT-PCR) is plotted on the y-axis and the log₂ (expression in test tissue by RNA-seq(FPKM)/expression in pollen by RNA-seq(FPKM)). Although the slopes of the lines are not equal to one, the R² values show good correlation between measurements using both types of data with the lowest correlation for the embryo sac samples. For RNA-seq values expression values were from B73 pollen, B73 seedling, combined W23-B73 embryo sac, and combined W23-B73 ovules without embryo sacs. For RT-PCR expression values, only W23 embryo sac and ovules without embryo sacs were used.