Figure 5: Analysis of co-localization frequencies at cHi-C contacts using interphase FISH.
From: Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci
Three-colour probe sets were designed to cover cHi-C test bins (green), far-cis-interactor bins (red) and control elements (blue), the latter picked randomly at ~5 Mb distance from the interactor bin (Supplementary Methods; Supplementary Table 3). Shown are representative raw (left) and in silico processed (right) images from probe set cis_5 (Supplementary Table 3) applied onto interphase nuclei of LS174T cells (scale bars, 5 μm), confirming the significant cHi-C interaction at the 18q21 risk locus (9kb_contact_135; Supplementary Data 1). (a) Co-localization of the test bin with the cHi-C interactor bin. (b) Co-localization of the test bin with the control element. Co-localization of cHi-C interactions as shown in a was observed at significantly higher frequency compared with random background co-localization as shown in b (Supplementary Table 3).
