Fig. 4: Analyses with data from alternative contact technologies.
From: Computer vision for pattern detection in chromosome contact maps
a Magnification of Homo sapiens chromosome 2 contact maps generated with five different experimental methods (around STAT1 gene; bin:10 kb): Hi–C36, In situ ChiA-PET of CTCF42, DNA SPRITE43, HiChIP of cohesin44, Micro-C45. All cells are cycling GM12878 cell types except for Micro-C (hESC). Blue circles: loops detected using Chromosight. The corresponding number of reads in each of the genome-wide map is indicated above the panels. The parameter (if any) notified to Chromosight is also indicated above each map. b Number of loops detected using Chromosight with default parameters for the five datasets. c Left: loop spectrum computed using Chromosight in quantify mode on pairs of cohesin peaks for the five datasets (Methods). Curves represent lowess-smoothed data with 95% confidence intervals. Right: associated pileup plots of the quantified positions for the five different experimental methods.
