Figure 3

The scatter plots of the log values of expression data from two duplicate microarray slides before (left) and after flagging and normalization (right). RNAs were extracted from seed coats of the 50–75 mg per seed fresh weight range by standard methods [13]. Replicate 1 was hybridized with Cy5 labeled RNA from seed coats of the T/T genotype and Cy3 labeled RNA from seed coats of the isogenic t*/t* mutant line. Replicate 2 is a dye swap experiment in which the mRNA from the T/T genotype is labeled with Cy3 and the isogenic t*/t* line is labeled with Cy5. The lines in each graph indicate expression either two-fold higher or two-fold lower than equivalent levels of expression. The dots encircled by the box represent repeats of flavonoid 3' hydroxylase cDNAs on the array that are overexpressed in the RNA samples from seed coats of the T/T genotype.