Extended Data Fig. 8: H3K27ac and RAD21 in stembryos lacking CBS1 and CBS2.
From: Sequential and directional insulation by conserved CTCF sites underlies the Hox timer in stembryos
a, CTCF ChIP-seq of control stembryos at 168 h (top) and Del(CBS1) stembryos at 96 h (bottom). The deleted fragment containing CBS1 is indicated with scissors. b, H3K27ac ChIP-seq using control and Del(CBS1) stembryos at 96 h (top) and 120 h (bottom) (average of two replicates). A subtraction track with acetylation coverage is shown for each time-point, with colors indicating either control (light green) or Del(CBS1) (dark green) enrichments. The vertical line indicates the position of deleted CBS1, that is, exactly where the inversion of the enrichment occurred. c, RAD21 ChIP-seq of control stembryos (top) and Del(CBS1) stembryos (bottom) at 96 h (one replicate shown). Bottom panel show the quantification of RAD21 accumulation at CBS of the HoxD locus using ChIP-seq data from Del(CBS1) and compared to control stembryos at 96 h (Del(CBS1): n = 2, wt: n = 3). The orientations of CBS1-9 motifs are shown with red and blue arrowheads. Values are normalized to wt. A redistribution of RAD21 binding toward posterior CBS is observed in the mutant. Values are represented as means. d, CTCF ChIP-seq of control stembryos at 168 h (top) and Del(CBS1-2) stembryos at 96 h (bottom). The deleted fragments containing CBS1 and CBS2 are indicated with scissors. e, H3K27ac ChIP-seq using control and Del(CBS1-2) stembryos at 96 h (top) and 120 h (bottom) (average of two replicates). A subtraction track with acetylation coverage is shown for each time-point, with colors indicating either control (light green) or Del(CBS1-2) (dark green) enrichments. The vertical lines indicate the position of deleted CBS1 and CBS2. In b and e, acetylation enrichment at Hoxd9 and Hoxd8 is indicated with black arrows and black arrowhead, respectively. Genomic coordinates: chr2:74636423-74780095.
