Fig. 9

The long distance interaction involving the Cebpβ promoter is decreased in Nipbl+/− MEFs. a Comparison of Rad21-binding peaks in wild type (WT) and Nipbl+/− mutant MEFs with SMC1 and SMC3, CTCF, and Mediator subunit 12 (Med12) [40] (GSE22562), pol II (GSE22302), H3K4me3 (GSE26657), and H3K4me1 (GSE31039) in WT MEFs in the genomic region surrounding the Cebpβ gene. The positions of primers for the 3C analysis (a, b, c and the promoter as the bait) are indicated. These regions were chosen based on the overlapping peaks of cohesin and CTCF, and/or cohesin, pol II and Med12 with H3K4me1/me3. The interaction observed by 3C in (b) is shown in a solid line and other interactions examined but weak are shown in dotted lines at the top. b The 3C analysis of Cebpβ promoter interactions with regions a, b, and c (as indicated in a). The chromatin interactions between WT and Nipbl mutant MEFs (top panel) and between control and Nipbl siRNA-treated MEFs (bottom) were quantified and normalized as described in the "Methods" section. *p value < 0.01. **p value < 0.05