Genome architecture: domain organization of interphase chromosomes.

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TopDom: an efficient and deterministic method for identifying topological domains in genomes (2015, background): “As shown in Figure 6, in both cell types CTCF binding sites are twice as enriched near TD boundaries compared to surrounding regions, confirming the role of CTCF as an insulator (18,19).”
Regulation of disease-associated gene expression in the 3D genome (2016, positive): “TAD boundaries tend to separate domains with dis tinct chromatin signatures, distinct gene activity and distinct replication timing 57–59, 73 , 74 , whereas CTCF and cohesin are important players in the establishment of the architectural loops that partition chromosomes into structural domains.”
Condensin-Driven Remodeling of X-Chromosome Topology during Dosage Compensation (2015, positive): “FISH analysis confirmed all categories of interactions shown by Hi-C: (1) strong DCCdependent interactions between rex sites at DCC-dependent TAD boundaries (rex-32 to rex-23, rex-47 to rex-8, and rex-23 to rex-14); (2) strong DCC-dependent interactions between X loci lacking DCC binding (Xnb1 to Xn”
Super-resolution imaging reveals distinct chromatin folding for different epigenetic states (2016, background): “1a), as described previously 10,11,20 and in Supplementary Methods.”