Extended Data Fig. 4: ChIP-seq analysis of CTCF and cohesin binding at the synthetic insulators in various insulator reporter clones.

a, ChIP-seq signal tracks of CTCF in clones with the insertion of different synthetic CBS variants (n = 2). Each insertion consists of six CBSs that were tandemly arrayed in forward orientation (Supplementary Table 4). The insertion ___location is highlighted in the yellow box. b, CTCF binding strength (counts per million uniquely mapped reads) at the insertion ___location in the clones in (a). For each clone, ChIP-seq reads were mapped to a specific customized genome that contains the corresponding insertion in the Sox2 locus (n = 2; for bd core with bd adj, n = 4; for nbd core with bd adj n = 3.). c, ChIP-seq signal tracks of Rad21 in the same clones in (a) (n = 2). The insertion ___location is highlighted in the yellow box. d, Rad21 binding strength (counts per million uniquely mapped reads) at the insertion ___location in the clones in (c). For each clone, ChIP-seq reads were mapped to a specific customized genome that contains the corresponding insertion in the Sox2 locus (n = 2). e, Sequence alignment of the six boundary CBSs. Each CBS consists of 19-bp core motif plus 20-bp adjacent sequences on both sides. The color indicates the base frequency at each position. The CTCF motifs are highlighted in the red box.