Discovering genome regulation with 3C and 3C-related technologies

被引：30

作者：

Ethier, Sylvain D.

Miura, Hisashi

Dostie, Josee ^{[1
]}

机构：

[1] McGill Univ, Dept Biochem, Montreal, PQ H3G 1Y6, Canada

来源：

BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS | 2012年 / 1819卷 / 05期

基金：

加拿大健康研究院;

关键词：

Chromatin; Gene regulation; Chromosome conformation capture; Epigenetics; Transcription; NUCLEAR LAMINA INTERACTIONS; GENE-EXPRESSION; TRANSCRIPTION FACTORIES; CHROMATIN CONFORMATION; INTERACTIONS REVEALS; DNA METHYLATION; BINDING-SITES; CROSS-LINKING; CTCF; ORGANIZATION;

D O I：

10.1016/j.bbagrm.2011.12.004

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

It has been known for some time that eukaryotic genomic DNA is packaged in the form of highly organized chromatin in vivo. This organization is important not only to reduce the length of chromosomes during interphase but also because it represents a type of higher-order genome regulation mechanism. Indeed, spatial chromatin architecture is known to be important for transcription, DNA replication and repair. Chromosome structure can be observed at different scales and studied with a variety of complementary techniques. For example, microscopy can provide single cell information while technologies such as the chromosome conformation capture (3C) method and its derivatives can yield higher-resolution data from cell populations. In this review, we report on the biological questions addressed with 3C and 3C-related techniques and what has been uncovered to date. We also explore what these methods may further reveal about the regulation of genomic DNA activities. (C) 2011 Elsevier B.V. All rights reserved.

引用

收藏

页码：401 / 410

页数：10

相关论文

共 125 条

[51] Differential chromatin looping regulates CD4 expression in immature thymocytes [J].

Jiang, Huimin ;

Peterlin, B. Matija .

MOLECULAR AND CELLULAR BIOLOGY, 2008, 28 (03) :907-912

[52] Evidence for physical interaction between the immunoglobulin heavy chain variable region and the 3′ regulatory region [J].

Ju, Zhongliang ;

Volpi, Sabrina A. ;

Hassan, Rabih ;

Martinez, Nancy ;

Giannini, Sandra L. ;

Gold, Tamar ;

Birshtein, Barbara K. .

JOURNAL OF BIOLOGICAL CHEMISTRY, 2007, 282 (48) :35169-35178

[53] Mediator and cohesin connect gene expression and chromatin architecture [J].

Kagey, Michael H. ;

Newman, Jamie J. ;

Bilodeau, Steve ;

Zhan, Ye ;

Orlando, David A. ;

van Berkum, Nynke L. ;

Ebmeier, Christopher C. ;

Goossens, Jesse ;

Rahl, Peter B. ;

Levine, Stuart S. ;

Taatjes, Dylan J. ;

Dekker, Job ;

Young, Richard A. .

NATURE, 2010, 467 (7314) :430-435

[54] Nuclear Scaffold Attachment Sites within ENCODE Regions Associate with Actively Transcribed Genes [J].

Keaton, Mignon A. ;

Taylor, Christopher M. ;

Layer, Ryan M. ;

Dutta, Anindya .

PLOS ONE, 2011, 6 (03)

[55] 1,25-dihydroxyvitamin D3 stimulates cyclic vitamin D receptor/retinoid X receptor DNA-binding, co-activator recruitment, and histone acetylation in intact osteoblasts [J].

Kim, S ;

Shevde, NK ;

Pike, JW .

JOURNAL OF BONE AND MINERAL RESEARCH, 2005, 20 (02) :305-317

[56] Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome [J].

Kim, Tae Hoon ;

Abdullaev, Ziedulla K. ;

Smith, Andrew D. ;

Ching, Keith A. ;

Loukinov, Dmitri I. ;

Green, Roland D. ;

Zhang, Michael Q. ;

Lobanenkov, Victor V. ;

Ren, Bing .

CELL, 2007, 128 (06) :1231-1245

[57] Genome-nuclear lamina interactions and gene regulation [J].

Kind, Jop ;

van Steensel, Bas .

CURRENT OPINION IN CELL BIOLOGY, 2010, 22 (03) :320-325

[58] Activation of Estrogen-Responsive Genes Does Not Require Their Nuclear Co-Localization [J].

Kocanova, Silvia ;

Kerr, Elizabeth A. ;

Rafique, Sehrish ;

Boyle, Shelagh ;

Katz, Elad ;

Caze-Subra, Stephanie ;

Bickmore, Wendy A. ;

Bystricky, Kerstin .

PLOS GENETICS, 2010, 6 (04)

[59] Functional interaction between PML and SATB1 regulates chromatin-loop architecture and transcription of the MHC class I locus [J].

Kumar, Pavan P. ;

Bischof, Oliver ;

Purbey, Prabhat Kumar ;

Notani, Dimple ;

Urlaub, Henning ;

Dejean, Anne ;

Galande, Sanjeev .

NATURE CELL BIOLOGY, 2007, 9 (01) :45-U57

[60] Chromatin higher-order structures and gene regulation [J].

Li, Guohong ;

Reinberg, Danny .

CURRENT OPINION IN GENETICS & DEVELOPMENT, 2011, 21 (02) :175-186

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