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CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

by Jastrzebski, Katarzyna , Grernrum, Wipawadee , Heijmans, Jeroen P M , Bernards, Rene , Evers, Bastiaan , Beijersbergen, Roderick L

in 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

2016

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CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

by Jastrzebski, Katarzyna , Grernrum, Wipawadee , Heijmans, Jeroen P M , Bernards, Rene , Evers, Bastiaan , Beijersbergen, Roderick L

2016

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CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

by Jastrzebski, Katarzyna , Grernrum, Wipawadee , Heijmans, Jeroen P M , Bernards, Rene , Evers, Bastiaan , Beijersbergen, Roderick L

2016

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Journal Article

CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

Jastrzebski, Katarzyna,

Grernrum, Wipawadee,

Heijmans, Jeroen P M,

Bernards, Rene,

Evers, Bastiaan,

Beijersbergen, Roderick L

2016

Overview

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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Publisher

Nature Publishing Group US,Nature Publishing Group

Subject

/ Biomedical Engineering/Biotechnology