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Fig. 2 | Epigenetics & Chromatin

Fig. 2

From: Control of directionality of chromatin folding for the inter- and intra-domain contacts at the Tfap2cBmp7 locus

Fig. 2

Establishment of a locally haploid ES cell line for efficient mutagenesis assay of the Tfap2cBmp7 region. a CRISPR targets (represented by scissors) were designed to delete the 1.2-Mb region encompassing the whole locus of Tfap2c-Bmp7 region. The deletion was confirmed by PCR amplification with primers flanking the deleted region (arrows, Additional file 2: Table S4). b Confirmation of the local haploidy by qPCR against Tfap2c and Bmp7 genic regions. c Strategy to efficiently generate mutations without being bothered by the other masking allele. d The Hi-C and CTCF-binding map around the Tfap2c-Bmp7 locus in ES cells. The Hi-C data are from Bonev et al. (2017) [37]. CTCF ChIP-seq peaks called in three independent studies [32, 37, 38] are represented as CTCF-binding sites in ES cells. Those that are not included in the non-tissue-specific sites in Fig. 1b are depicted with arrowheads with a centerline as ES-specific CTCF-binding sites. eg Enrichment of indicated regions by N-ChIP with anti-CTCF antibody (left) or normal rabbit IgG control (right). Each dot represents results of independently performed N-ChIP experiments (N = 3), means of which are indicated by bars. h The CTCF-binding sites from the upstream of Tfap2c to the downstream of Bmp7 are classified to either direct CTCF-binding sites (filled arrowheads) or indirect/weak CTCF-binding sites (open arrowheads) according to the results of the N-ChIP-qPCR (eg)

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