Fig. 4: PDS5A deletion causes aberrant cohesin activity and TAD boundary violations.
From: Loss of cohesin regulator PDS5A reveals repressive role of Polycomb loops
a Hi-C contact matrices of chromosome 2 in wild-type (left) and Pds5a KO (right) ESCs. b Eigenvector compartment signal tracks of chromosomes 1 and 2 comparing wild-type and Pds5a KO ESCs. c Genomic-distance-dependent contact probability from Hi-C in wild-type and Pds5a KO ESCs. Dashed line separates expected size ranges of TADs and compartments. d Aggregate TAD analysis in wild-type (left) and Pds5a KO (right) ESCs at 5-kb resolution. Effective contact probability is displayed using a set of published TADs in ESCs62. e Aggregate interaction analysis in wild-type (left) and Pds5a KO (right) ESCs at 5-kb resolution. Effective contact probability is displayed using a set of published loops in ESCs62. f Boxplot quantifies TAD boundary violation displaying changes in Hi-C contacts with n+ (x-axis) neighboring TADs in wild-type and Pds5a KO ESCs. Shown are median (horizontal line in the middle) and 25th to 75th percentiles (at the end of the boxes).
