Identifying Novel Enhancer Elements with CRISPR-Based Screens

被引：23

作者：

Klein, Jason C. ^{[1
]}

Chen, Wei ^{[2
]}

Gasperini, Molly ^{[1
]}

Shendure, Jay ^{[1
,3
]}

机构：

[1] Univ Washington, Dept Genome Sci, Seattle, WA 98195 USA

[2] Univ Washington, Mol Engn & Sci Inst, Seattle, WA 98195 USA

[3] Univ Washington, Howard Hughes Med Inst, Seattle, WA 98195 USA

来源：

ACS CHEMICAL BIOLOGY | 2018年 / 13卷 / 02期

基金：

美国国家卫生研究院; 美国国家科学基金会;

关键词：

PARALLEL REPORTER ASSAY; ONE-STEP GENERATION; REGULATORY ELEMENTS; HUMAN GENOME; TRANSCRIPTIONAL ENHANCERS; SYSTEMATIC DISSECTION; FUNCTIONAL DISSECTION; GENETIC-VARIATION; ACTIVITY MAPS; HUMAN-CELLS;

D O I：

10.1021/acschembio.7b00778

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：

Enhancers control the spatiotemporal expression of genes and are essential for encoding differentiation and development. Since their discovery more than three decades ago, researchers have largely studied enhancers removed from their genomic context. The recent adaptation of CRISPR/Cas9 to genome editing in higher organisms now allows researchers to perturb and test these elements in their genomic context, through both mutation and epigenetic modulation. In this Perspective, we discuss recent advances in scanning noncoding regions of the genome for enhancer activity using CRISPR-based tools.

引用

页码：326 / 332

页数：7

共 56 条

[1] DECKO: Single-oligo, dual-CRISPR deletion of genomic elements including long non-coding RNAs [J].

Aparicio-Prat, Estel ;

Arnan, Carme ;

Sala, Ilaria ;

Bosch, Nuria ;

Guigo, Roderic ;

Johnson, Rory .

BMC GENOMICS, 2015, 16

[2] Quantitative genome-wide enhancer activity maps for five Drosophila species show functional enhancer conservation and turnover during cis-regulatory evolution [J].

Arnold, Cosmas D. ;

Gerlach, Daniel ;

Spies, Daniel ;

Matts, Jessica A. ;

Sytnikova, Yuliya A. ;

Pagani, Michaela ;

Lau, Nelson C. ;

Stark, Alexander .

NATURE GENETICS, 2014, 46 (07) :685-692

[3] Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq [J].

Arnold, Cosmas D. ;

Gerlach, Daniel ;

Stelzer, Christoph ;

Boryn, Lukasz M. ;

Rath, Martina ;

Stark, Alexander .

SCIENCE, 2013, 339 (6123) :1074-1077

[4]

Arnone MI, 2004, METHOD CELL BIOL, V74, P621

[5] Transcriptional enhancers: Intelligent enhanceosomes or flexible billboards? [J].

Arnosti, DN ;

Kulkarni, MM .

JOURNAL OF CELLULAR BIOCHEMISTRY, 2005, 94 (05) :890-898

[6] EXPRESSION OF A BETA-GLOBIN GENE IS ENHANCED BY REMOTE SV40 DNA-SEQUENCES [J].

BANERJI, J ;

RUSCONI, S ;

SCHAFFNER, W .

CELL, 1981, 27 (02) :299-308

[7] BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis [J].

Canver, Matthew C. ;

Smith, Elenoe C. ;

Sher, Falak ;

Pinello, Luca ;

Sanjana, Neville E. ;

Shalem, Ophir ;

Chen, Diane D. ;

Schupp, Patrick G. ;

Vinjamur, Divya S. ;

Garcia, Sara P. ;

Luc, Sidinh ;

Kurita, Ryo ;

Nakamura, Yukio ;

Fujiwara, Yuko ;

Maeda, Takahiro ;

Yuan, Guo-Cheng ;

Zhang, Feng ;

Orkin, Stuart H. ;

Bauer, Daniel E. .

NATURE, 2015, 527 (7577) :192-+

[8] Comprehensive single-cell transcriptional profiling of a multicellular organism [J].

Cao, Junyue ;

Packer, Jonathan S. ;

Ramani, Vijay ;

Cusanovich, Darren A. ;

Huynh, Chau ;

Daza, Riza ;

Qiu, Xiaojie ;

Lee, Choli ;

Furlan, Scott N. ;

Steemers, Frank J. ;

Adey, Andrew ;

Waterston, Robert H. ;

Trapnell, Cole ;

Shendure, Jay .

SCIENCE, 2017, 357 (6352) :661-667

[9] Multiplex Genome Engineering Using CRISPR/Cas Systems [J].

Cong, Le ;

Ran, F. Ann ;

Cox, David ;

Lin, Shuailiang ;

Barretto, Robert ;

Habib, Naomi ;

Hsu, Patrick D. ;

Wu, Xuebing ;

Jiang, Wenyan ;

Marraffini, Luciano A. ;

Zhang, Feng .

SCIENCE, 2013, 339 (6121) :819-823

[10]

Diao YR, 2017, NAT METHODS, V14, P629, DOI [10.1038/NMETH.4264, 10.1038/nmeth.4264]

← 1 2 3 4 5 6 →