CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

CRISPR knockout screens outperform shRNA and CRISPR-interference screens in a side-by-side comparison. High-throughput genetic screens have become essential tools for studying a wide variety of biological processes. Here we experimentally compare systems based on clustered regularly interspaced shor...

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Bibliographic Details
Published in:Nature biotechnology Vol. 34; no. 6; pp. 631 - 633
Main Authors: Evers, Bastiaan, Jastrzebski, Katarzyna, Heijmans, Jeroen P M, Grernrum, Wipawadee, Beijersbergen, Roderick L, Bernards, Rene
Format: Journal Article
Language:English
Published: New York Nature Publishing Group US 01.06.2016
Nature Publishing Group
Subjects:
49/47
631/1647/1511
631/1647/2163
631/208/191
Agriculture
Bioinformatics
Biomedical Engineering/Biotechnology
Biomedicine
Biotechnology
brief-communication
Clustered Regularly Interspaced Short Palindromic Repeats - genetics
Comparative analysis
Gene Expression Profiling - methods
Gene Knockout Techniques - methods
Genetic Markers - genetics
Genetic screening
Genetic testing
Genetic Testing - methods
High-throughput screening (Biochemical assaying)
Life Sciences
Oncology
R&D
Reagents
Research & development
Ribonucleic acid
RNA
RNA, Small Interfering - genetics
ISSN:1087-0156, 1546-1696, 1546-1696
Online Access:Get full text
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Summary:CRISPR knockout screens outperform shRNA and CRISPR-interference screens in a side-by-side comparison. High-throughput genetic screens have become essential tools for studying a wide variety of biological processes. Here we experimentally compare systems based on clustered regularly interspaced short palindromic repeat (CRISPR)/CRISPR-associated protein 9 (Cas9) or its transcriptionally repressive variant, CRISPR-interference (CRISPRi), with a traditional short hairpin RNA (shRNA)-based system for performing lethality screens. We find that the CRISPR technology performed best, with low noise, minimal off-target effects and consistent activity across reagents.
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ISSN:1087-0156
1546-1696
1546-1696
DOI:10.1038/nbt.3536