Fig. 3

Setdb1 is enriched on the inactive X chromosome. Setdb1 ChIP-seq data from 129/CAST F1 MEFs: Setdb1 ^+/+ Xist ^∆A/+ transduced with Nons (female) (n = 3) or Setdb1 ^+/gt Xist ^∆A/+ transduced with shSetdb1.6 (Setdb1 depleted) (n = 2) MEFs and Male Setdb1 ^+/+ X/Y MEFs transduced with Nons (male) (n = 3). The Xist ^∆A allele ensures the CAST X chromosome is the Xi. a Location of genes shown in purple, MACS2 called peaks of Setdb1 shown as black lines for each sample type along the X chromosome. b Boxplot showing the number of reads at informative SNPs from the Xi vs Xa, at Setdb1 peak and non-peak regions. p values shown were determined by Student’s two-tailed paired t test. c The number of Setdb1 peaks per Mb of the X chromosome or all autosomes is given for each of the sample types. Also see Additional file 8: Figure S7