TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription

Guangyu Wang, Qingshu Meng, Bo Xia, Shuo Zhang, Jie Lv, Dongyu Zhao, Yanqiang Li, Xin Wang, Lili Zhang, John P. Cooke, Qi Cao, Kaifu Chen

Research output: Contribution to journalArticle

Abstract

We present TADsplimer, the first computational tool to systematically detect topologically associating domain (TAD) splits and mergers across the genome between Hi-C samples. TADsplimer recaptures splits and mergers of TADs with high accuracy in simulation analyses and defines hundreds of TAD splits and mergers between pairs of different cell types, such as endothelial cells and fibroblasts. Our work reveals a key role for TAD remodeling in epigenetic regulation of transcription and delivers the first tool for the community to perform dynamic analysis of TAD splits and mergers in numerous biological and disease models.

Original languageEnglish (US)
Article number84
JournalGenome Biology
Volume21
Issue number1
DOIs
StatePublished - Apr 2 2020

Keywords

  • Bioinformatics
  • Chromatin conformation
  • Computational biology
  • Epigenomics
  • Hi-C
  • Histone modification
  • Topologically associating domains

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology

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