Next Article in Journal
Functional Characterization of Selected Universal Stress Protein from Salvia miltiorrhiza (SmUSP) in Escherichia coli
Next Article in Special Issue
Predicting Variation of DNA Shape Preferences in Protein-DNA Interaction in Cancer Cells with a New Biophysical Model
Previous Article in Journal
RECQ1 Helicase Silencing Decreases the Tumour Growth Rate of U87 Glioblastoma Cell Xenografts in Zebrafish Embryos
Previous Article in Special Issue
Mutation Clusters from Cancer Exome
Article Menu
Issue 9 (September) cover image

Export Article

Open AccessReview
Genes 2017, 8(9), 223; doi:10.3390/genes8090223

Advances in Genomic Profiling and Analysis of 3D Chromatin Structure and Interaction

1
Epigenetics & Function Group, School of the Internet of Things, Hohai University, Changzhou Campus, Changzhou 213022, Jiangsu, China
2
School of Public Health, Shanghai Jiao Tong University, Shanghai 200025, China
3
Department of Molecular Medicine, University of Texas Health Science Center, San Antonio, TX 78229, USA
These authors contributed equally to this work.
*
Authors to whom correspondence should be addressed.
Received: 28 July 2017 / Revised: 25 August 2017 / Accepted: 4 September 2017 / Published: 8 September 2017
(This article belongs to the Special Issue Integrative Genomics and Systems Medicine in Cancer)
View Full-Text   |   Download PDF [4350 KB, uploaded 8 September 2017]   |  

Abstract

Recent sequence-based profiling technologies such as high-throughput sequencing to detect fragment nucleotide sequence (Hi-C) and chromatin interaction analysis by paired-end tag sequencing (ChIA-PET) have revolutionized the field of three-dimensional (3D) chromatin architecture. It is now recognized that human genome functions as folded 3D chromatin units and looping paradigm is the basic principle of gene regulation. To better interpret the 3D data dramatically accumulating in past five years and to gain deep biological insights, huge efforts have been made in developing novel quantitative analysis methods. However, the full understanding of genome regulation requires thorough knowledge in both genomic technologies and their related data analyses. We summarize the recent advances in genomic technologies in identifying the 3D chromatin structure and interaction, and illustrate the quantitative analysis methods to infer functional domains and chromatin interactions, and further elucidate the emerging single-cell Hi-C technique and its computational analysis, and finally discuss the future directions such as advances of 3D chromatin techniques in diseases. View Full-Text
Keywords: Hi-C; 3D chromatin; structure interaction; single cell; disease Hi-C; 3D chromatin; structure interaction; single cell; disease
Figures

Figure 1

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

Scifeed alert for new publications

Never miss any articles matching your research from any publisher
  • Get alerts for new papers matching your research
  • Find out the new papers from selected authors
  • Updated daily for 49'000+ journals and 6000+ publishers
  • Define your Scifeed now

SciFeed Share & Cite This Article

MDPI and ACS Style

Tang, B.; Cheng, X.; Xi, Y.; Chen, Z.; Zhou, Y.; Jin, V.X. Advances in Genomic Profiling and Analysis of 3D Chromatin Structure and Interaction. Genes 2017, 8, 223.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Genes EISSN 2073-4425 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top