Structural heterogeneity and functional diversity of topologically associating domains in mammalian genomes.

ABSTRACT: Recent chromosome conformation capture (3C) derived techniques have revealed that topologically associating domain (TAD) is a pervasive element in chromatin three-dimensional (3D) organization. However, there is currently no parameter to quantitatively measure the structural characteristics of TADs, thus obscuring our understanding on the structural and functional differences among TADs. Based on our finding that there exist intrinsic chromatin interaction patterns in TADs, we define a theoretical parameter, called aggregation preference (AP), to characterize TAD structures by capturing the interaction aggregation degree. Applying this defined parameter to 11 Hi-C data sets generated by both traditional and in situ Hi-C experimental pipelines, our analyses reveal that heterogeneous structu

SUBMITTER: Wang XT 

PROVIDER: S-EPMC4551926 | biostudies-literature | 2015 Sep

REPOSITORIES: biostudies-literature