Using Open Chromatin Enrichment and Network Hi-C (OCEAN-C) to Identify Open Chromatin Interactions

Lumeng Jia; Cheng Li; Tingting Li

doi:10.1007/978-1-0716-1597-3_12

Using Open Chromatin Enrichment and Network Hi-C (OCEAN-C) to Identify Open Chromatin Interactions

Methods Mol Biol. 2021:2351:211-227. doi: 10.1007/978-1-0716-1597-3_12.

Authors

Lumeng Jia¹, Cheng Li², Tingting Li³

Affiliations

¹ Center for Bioinformatics, School of Life Sciences, Center for Statistical Science, Peking University, Beijing, China.
² Center for Bioinformatics, School of Life Sciences, Center for Statistical Science, Peking University, Beijing, China. cheng_li@pku.edu.cn.
³ State Key Laboratory of Proteomics, Institute of Basic Medical Sciences, National Center of Biomedical Analysis, Beijing, China. tingtingli@xmail.ncba.ac.cn.

PMID: 34382192
DOI: 10.1007/978-1-0716-1597-3_12

Abstract

The open chromatin enrichment and network Hi-C (OCEAN-C) was developed not only for identifying large-scale chromatin structures, including topologically associated domains (TADs) and A/B compartments, but also for globally mapping hubs of open chromatin interactions (HOCIs) and their interaction networks independent of antibody and bait-sequences.

Keywords: Chromatin conformation capture; Hubs of open chromatin interaction; Open chromatin interaction network; Transcriptional regulation.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Binding Sites
Chromatin / genetics*
Chromatin / metabolism
Chromatin Assembly and Disassembly*
Computational Biology / methods*
Gene Expression Regulation
Gene Library
High-Throughput Nucleotide Sequencing
Protein Binding
Quality Control
Software
Transcription, Genetic
Web Browser

Substances

Chromatin