On the design of CRISPR-based single-cell molecular screens

被引：0

作者：

Hill, Andrew J. ^{[1
]}

McFaline-Figueroa, Jose L. ^{[1
]}

Starita, Lea M. ^{[1
]}

Gasperini, Molly J. ^{[1
]}

Matreyek, Kenneth A. ^{[1
]}

Packer, Jonathan ^{[1
]}

Jackson, Dana ^{[1
]}

Shendure, Jay ^{[1
,2
]}

Trapnell, Cole ^{[1
]}

机构：

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

[2] Howard Hughes Med Inst, Seattle, WA 98195 USA

来源：

NATURE METHODS | 2018年 / 15卷 / 04期

关键词：

GENETIC SCREENS; EXPRESSION; CIRCUITS; GENOME; SEQ; P53;

D O I：

10.1038/NMETH.4604

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Several groups recently coupled CRISPR perturbations and single-cell RNA-seq for pooled genetic screens. We demonstrate that vector designs of these studies are susceptible to similar to 50% swapping of guide RNA-barcode associations because of lentiviral template switching. We optimized a published alternative, CROP-seq, in which the guide RNA also serves as the barcode, and here confirm that this strategy performs robustly and doubled the rate at which guides are assigned to cells to 94%.

引用

页码：271 / +

页数：10

共 50 条

[1] On the design of CRISPR-based single-cell molecular screens
Hill A.J.
McFaline-Figueroa J.L.
Starita L.M.
Gasperini M.J.
Matreyek K.A.
Packer J.
Jackson D.
Shendure J.
Trapnell C.
Nature Methods, 2018, 15 (4) : 271 - 274
[2] Single-Cell CRISPR-Based Lineage Tracing in Mice
Kalhor, Kian
Church, George M.
BIOCHEMISTRY, 2019, 58 (48) : 4775 - 4776
[3] Mapping the functional impact of immune-associated regulatory elements through single-cell CRISPR-based screens
Catalinas, Celia Alda
Ibarra-Soria, Ximena
Gordillo, Jorge Esparza
Flouri, Christina
Cortes, Adrian
Acevedo, Alison
Drewes, Gerard
Rapiteanu, Radu
EUROPEAN JOURNAL OF HUMAN GENETICS, 2023, 31 : 14 - 14
[4] Choosing CRISPR-based screens in cancer
Vivien Marx
Nature Methods, 2017, 14 : 343 - 346
[5] Choosing CRISPR-based screens in cancer
Marx, Vivien
NATURE METHODS, 2017, 14 (04) : 343 - 346
[6] Genome-scale single-cell CRISPR screens
Brunello, Lucia
NATURE REVIEWS GENETICS, 2022, 23 (08) : 459 - 459
[7] Genome-scale single-cell CRISPR screens
Lucia Brunello
Nature Reviews Genetics, 2022, 23 : 459 - 459
[8] A method to map single-cell lineages in the mouse brain by CRISPR-based barcoding
Nature Methods, 2023, 20 : 1139 - 1140
[9] A method to map single-cell lineages in the mouse brain by CRISPR-based barcoding
Xie, Lianshun
Chen, Yuejun
NATURE METHODS, 2023, 20 (08) : 1139 - 1140
[10] Massively Parallel CRISPR-Based Genetic Perturbation Screening at Single-Cell Resolution
Cheng, Junyun
Lin, Gaole
Wang, Tianhao
Wang, Yunzhu
Guo, Wenbo
Liao, Jie
Yang, Penghui
Chen, Jie
Shao, Xin
Lu, Xiaoyan
Zhu, Ling
Wang, Yi
Fan, Xiaohui
ADVANCED SCIENCE, 2023, 10 (04)

← 1 2 3 4 5 →