Figure 4.

Differentially expressed genes selected on spline (EV) or VSN transformed data. The same dataset represented in Figure 2 was used to select differentially expressed genes on spline (EV) or VSN-transformed data. MA plots of scaled log-transformed signals for probe sets from two experimental conditions of the B6.1 cells. Color codes are as in Figure 1. Up-regulated genes are shown as green bold dots, down-regulated as red bold dots. (A) Distribution of 555 genes (P-value = 0.05) selected upon a spline fit. (B) Distribution of 555 genes (FC = 1.63) on VSN-transformed data. (C) Distribution of genes selected by both approaches. (D) Distribution of genes selected by EV (spline fit) alone. (E) genes selected by VSN (arcsinh transformation) alone.