Fig. 6

Setdb1-mediated H3K9 methylation is also required for autosomal gene silencing. RNA-seq data from differentiating Xist ^∆A/+ 129/CAST ES cells transduced with the indicated shRNAs (as described in Fig. 5). a, b Data from both replicate experiments showing the average expression of all autosomal genes proximal to Setdb1 ChIP-seq peaks, that either become silenced, or maintain expression from day 0 to day 3 (a, n = 71 and 3487 genes, respectively) and day 3 to day 5 (b, n = 171 and 3487 genes, respectively). These are genes that are either establishing silencing or being stably expressed. c, d Data from both replicate experiments showing the average expression of all autosomal genes (n = 2224) that remain silent in the Nons samples from day 0 to day 3 (c) and day 3 to day 5 (d). These are genes that are maintaining silencing. For a-d, p-values were determined by Student’s two-tailed t test