Fig. 3

BL-Hi-C targets functional and active chromatin conformations. a The chromatin loops are determined by combined data sets from BL-Hi-C (blue) and in situ Hi-C (Rao et al., purple). Common loops share paired anchors in the two methods, and others are BL-Hi-C-specific or in situ Hi-C (Rao et al.)-specific loops. The PET count indicates sequencing depth. b, c The percentages of common loops and specific loops that are consistent with the public ChIA-PET loops of CTCF and RNAPII. d Comparison of ChIA-PET loops and Hi-C loops in a typical region, chromosome 12. e The normalized PET counts of the loops identified by BL-Hi-C and in situ Hi-C (Rao et al.). The red line indicates equal counts. f The normalized interaction heatmaps of BL-Hi-C (left), in situ Hi-C (Rao et al., middle), and the difference (right) at 10 kb resolution (up) and 1 kb resolution (down) of chromosome 11, including β-globin region. g Visual 4C of β-globin region. A diamond indicates a viewpoint. All the Hi-C interactions with this viewpoint are accumulated into peaks along the genome and connected by arcs. The bold arcs refer to high PET cluster counts