Figure 3

Drosophila TFIIIC clusters with CTCF at sites combinatorially bound by architectural proteins, cohesin, and condensin II. (a) Example genomics viewer profile of a combinatorially bound APBS, co-bound by dTFIIIC220, SMC-containing cohesin and condensin complexes, dCTCF, BEAF-32, Su(Hw), CP190, Mod(mdg4), DREF, Chromator, L(3)mbt, and marked by strong DHS. (b) Heatmap representation of co-factor co-localization at 3,728 genomic loci combinatorially bound by architectural proteins. Overlap frequency is the fraction of combinatorially bound loci bound by each individual factor. Inset: sites were identified as genomic fragments having four or more proteins in Kc167 cells using MACS called summits ±200 bp for factors dCTCF, BEAF-32, Su(Hw), CP190, Mod(mdg4), Zw5, DREF, Chromator, and L(3)mbt, and mapped independently of TFIIIC and SMC complexes; size distribution (bp) of combinatorially bound loci. P < 0.00001 for overlap between combinatorially bound loci with dTFIIIC220, Rad21, and CAP-H2, permutation test. Overlap frequency matrix hierarchically clustered (absolute centered, single linkage). (c) Heatmaps depict ChIP-seq tag densities for each Drosophila architectural protein as a function of distance, ±5 kb, from ETC loci. (d) Western blot analysis of control preimmune and α-dTFIIIC220 immunoaffinity purifications detect interactions between dTFIIIC220 and CP190, Mod(mdg4), and BEAF-32.