Differential expression of genes between the L2 and YA stages. (a) Correlation of log2(YA/L2) ratios between RNA-Seq and tiling arrays. Differential expression was determined using the nonparametric Wilcoxon rank sum test. Black: not significantly differentially expressed between samples. Blue: significantly differentially expressed (q ≤ 0.01). The ratio of expression levels is well-correlated, but RNA-Seq has a larger dynamic range. (b) Venn diagram of genes called differentially expressed by each platform. There is significant overlap (8,976) between the two platforms, but more genes were called differentially expressed by RNA-Seq (14,201) than by tiling arrays (10,283), likely reflecting its greater dynamic range. A total of 4,326 genes were not called differentially expressed by either technology.