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Methods Mol Biol. 2007;361:201-16.

Guidelines for the selection of effective short-interfering RNA sequences for functional genomics.

Author information

1
Department of Biophysics and Biochemistry, Graduate School of Science, University of Tokyo, Tokyo, Japan.

Abstract

To avoid long-double-stranded-RNA-dependent interferon response, short-interfering RNAs (siRNAs) are widely used for RNA interference (RNAi) in mammalian cells. siRNA-based RNAi, however, may not be readily available for the large-scale gene silencing essential for systematic functional genomics, because only a limited fraction of siRNAs is capable of inducing effective mammalian RNAi. siRNAs correctly designed for the knockdown of a particular gene may also destroy the functions of unrelated genes. Here, we describe algorithms by which these serious setbacks can be eliminated in mammalian functional genomics using RNAi and a Web-based online software system for computing highly functional siRNA sequences with maximal target-specificity in mammalian RNAi.

PMID:
17172713
DOI:
10.1385/1-59745-208-4:201
[Indexed for MEDLINE]
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