home > bioproject > PRJEB2680
identifier PRJEB2680
type bioproject
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title High-throughput RNA interference screening using pooled shRNA libraries and next generation sequencing
description RNA interference (RNAi) screening is a state-of-the-art technology that enables the dissection of biological processes and disease-related phenotypes. The commercial availability of genome-wide, short hairpin RNA libraries has fuelled interest in this area but the generation and analysis of these complex data remain a challenge. Here, we describe complete experimental protocols and novel open source computational methodologies, shALIGN and shRNAseq, that allow RNAi screens to be rapidly deconvoluted using next generation sequencing. Our computational pipeline offers efficient screen analysis and the flexibility and scalability to quickly incorporate future developments in shRNA library technology.
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dbXrefs
sra-run  ERR046576ERR046577ERR046578ERR046579ERR046580ERR046581ERR046582ERR046583ERR046584ERR046585 More
sra-submission  ERA051873
biosample  SAMEA1094194SAMEA1094196SAMEA1094197SAMEA1094189SAMEA1094195SAMEA1094188SAMEA1094191SAMEA1094187SAMEA1094190SAMEA1094192 More
sra-study  ERP000908
sra-sample  ERS055388ERS055387ERS055378ERS055384ERS055381ERS055379ERS055385ERS055382ERS055380ERS055386 More
sra-experiment  ERX023638ERX023639ERX023640ERX023641ERX023642ERX023643ERX023644ERX023645ERX023646ERX023647 More
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bioproject.xml  HTTPS FTP
status public
visibility unrestricted-access
dateCreated 2011-09-21T01:00:00Z
dateModified 2011-09-21T01:00:00Z
datePublished 2011-09-21T01:00:00Z