Literature DB >> 34590276

Mapping Genetic Interactions in Human Cancer Cells Using a One-Step tRNA-CRISPR System.

Derek Yisen Zhang1, Xiong Gui2, Xiaolong Yang3.   

Abstract

While well studied in yeast, mapping genetic interactions in mammalian cells has been limited due to many technical obstacles. We have recently developed a new one-step tRNA-CRISPR method called TCGI (tRNA-CRISPR for genetic interactions) which generates high-efficiency, barcode-free, and scalable pairwise CRISPR libraries to identify genetic interactions in mammalian cells. Here we describe this method in detail regarding the construction of the pairwise CRISPR libraries and performing high throughput genetic interacting screening and data analysis. This novel TCGI dramatically improves upon the current methods for mapping genetic interactions and screening drug targets for combinational therapies.
© 2021. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  CRISPR technology; Combinational therapy; Functional genetic screen; Genetic interactions; tRNA

Mesh：

Substances：

Year:  2021        PMID： 34590276     DOI： 10.1007/978-1-0716-1740-3_9

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  16 in total

1.  Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM.

Authors:  Alan S L Wong; Gigi C G Choi; Cheryl H Cui; Gabriela Pregernig; Pamela Milani; Miriam Adam; Samuel D Perli; Samuel W Kazer; Aleth Gaillard; Mario Hermann; Alex K Shalek; Ernest Fraenkel; Timothy K Lu
Journal:  Proc Natl Acad Sci U S A       Date:  2016-02-10       Impact factor: 11.205

Review 2.  Mechanisms of drug combinations: interaction and network perspectives.

Authors:  Jia Jia; Feng Zhu; Xiaohua Ma; Zhiwei Cao; Zhiwei W Cao; Yixue Li; Yixue X Li; Yu Zong Chen
Journal:  Nat Rev Drug Discov       Date:  2009-02       Impact factor: 84.694

Review 3.  Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application.

Authors:  Aimee L Jackson; Peter S Linsley
Journal:  Nat Rev Drug Discov       Date:  2010-01       Impact factor: 84.694

Review 4.  Genome-wide CRISPR-Cas9 screening in mammalian cells.

Authors:  Jason S L Yu; Kosuke Yusa
Journal:  Methods       Date:  2019-04-26       Impact factor: 3.608

5.  Genetic interaction mapping in mammalian cells using CRISPR interference.

Authors:  Dan Du; Assen Roguev; David E Gordon; Meng Chen; Si-Han Chen; Michael Shales; John Paul Shen; Trey Ideker; Prashant Mali; Lei S Qi; Nevan J Krogan
Journal:  Nat Methods       Date:  2017-05-08       Impact factor: 28.547

6.  Genome-wide recessive genetic screening in mammalian cells with a lentiviral CRISPR-guide RNA library.

Authors:  Hiroko Koike-Yusa; Yilong Li; E-Pien Tan; Martin Del Castillo Velasco-Herrera; Kosuke Yusa
Journal:  Nat Biotechnol       Date:  2013-12-23       Impact factor: 54.908

7.  Synergistic drug combinations for cancer identified in a CRISPR screen for pairwise genetic interactions.

Authors:  Kyuho Han; Edwin E Jeng; Gaelen T Hess; David W Morgens; Amy Li; Michael C Bassik
Journal:  Nat Biotechnol       Date:  2017-03-20       Impact factor: 54.908

8.  A CRISPR Resource for Individual, Combinatorial, or Multiplexed Gene Knockout.

Authors:  Nicolas Erard; Simon R V Knott; Gregory J Hannon
Journal:  Mol Cell       Date:  2017-09-21       Impact factor: 17.970

9.  Computational correction of copy number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells.

Authors:  Robin M Meyers; Jordan G Bryan; James M McFarland; Barbara A Weir; Ann E Sizemore; Han Xu; Neekesh V Dharia; Phillip G Montgomery; Glenn S Cowley; Sasha Pantel; Amy Goodale; Yenarae Lee; Levi D Ali; Guozhi Jiang; Rakela Lubonja; William F Harrington; Matthew Strickland; Ting Wu; Derek C Hawes; Victor A Zhivich; Meghan R Wyatt; Zohra Kalani; Jaime J Chang; Michael Okamoto; Kimberly Stegmaier; Todd R Golub; Jesse S Boehm; Francisca Vazquez; David E Root; William C Hahn; Aviad Tsherniak
Journal:  Nat Genet       Date:  2017-10-30       Impact factor: 38.330

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

Authors:  Andrew J Hill; José L McFaline-Figueroa; Lea M Starita; Molly J Gasperini; Kenneth A Matreyek; Jonathan Packer; Dana Jackson; Jay Shendure; Cole Trapnell
Journal:  Nat Methods       Date:  2018-02-19       Impact factor: 28.547
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