Pooled RNAi Screens - Technical and Biological Aspects

RNA interference (RNAi) screens have recently emerged as an exciting new tool for studying gene function in mammalian cells. In order to facilitate those studies, short hairpin RNA (shRNA) expression libraries covering the entire human transcriptome have become commercially available. To make use of...

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Bibliographic Details
Published inCurrent genomics Vol. 11; no. 3; pp. 162 - 167
Main Authors Boettcher, M, Hoheisel, J D
Format Journal Article
LanguageEnglish
Published United Arab Emirates Bentham Science Publishers Ltd 01.05.2010
Subjects
molecular tag
microarray
half hairpin
barcode
shRNA library
Pooled RNAi screen
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Summary:RNA interference (RNAi) screens have recently emerged as an exciting new tool for studying gene function in mammalian cells. In order to facilitate those studies, short hairpin RNA (shRNA) expression libraries covering the entire human transcriptome have become commercially available. To make use of the full potential of such large-scale shRNA libraries, microarray-based methods have been developed to analyze complex pooled RNAi screens. In terms of microarray analysis, different strategies have been pursued by different research groups, largely influenced by the employed shRNA library. In this review, we compare the three major shRNA expression libraries with a focus on their suitability for a microarray-based analysis of pooled screens. We analyze and compare approaches previously used to perform pooled RNAi screens and point out their advantages as well as limitations.
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ISSN:1389-2029
1875-5488
DOI:10.2174/138920210791110988