A computational method to predict topologically associating domain boundaries combining histone Marks and sequence information.

ABSTRACT: BACKGROUND:The three-dimensional (3D) structure of chromatins plays significant roles during cell differentiation and development. Hi-C and other 3C-based technologies allow us to look deep into the chromatin architectures. Many studies have suggested that topologically associating domains (TAD), as the structure and functional unit, are conserved across different organs. However, our understanding about the underlying mechanism of the TAD boundary formation is still limited. RESULTS:We developed a computational method, TAD-Lactuca, to infer this structure by taking the contextual information of the epigenetic modification signals and the primary DNA sequence information on the genome. TAD-Lactuca is found stable in the case of multi-resolutions and different datasets. It could achieve hig

SUBMITTER: Gan W 

PROVIDER: S-EPMC6933632 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature