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. 2007;361:201-16.
doi: 10.1385/1-59745-208-4:201.

Guidelines for the Selection of Effective Short-Interfering RNA Sequences for Functional Genomics

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Guidelines for the Selection of Effective Short-Interfering RNA Sequences for Functional Genomics

Kumiko Ui-Tei et al. Methods Mol Biol. .

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.

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