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Design
Review
This review provides comprehensive guidelines and bioinformatics resources for designing highly effective and specific siRNA, shRNA, and amiRNA sequences for gene therapy and functional genomics.
Review is devoted to analysis of design rules as well as quality controls in development of high effective and specific short interfering RNA (siRNA). Four crucial steps in development of such siRNAs are discussed: choice of target RNA, design of sense and antisense strands as well as assessment of activity and specificity of corresponding siRNAs. The special consideration is given to siRNA construction principles which are based on both structural and thermodynamical features and nucleotide composition of siRNAs as well as structural and thermodynamical properties of target RNA and features of experiment performance. Bioinformatics resources for development of siRNAs are also discussed. The information from this review can be useful for development of high effective and specific siRNA, short hairpin RNA (shRNA) and/or artificial microRNA (amiRNA) sequences for gene therapy and functional genomics purposes.
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Vasily V. Grinev (2012) studied this question.
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