SVM RNAi 3.6

siRNA rational design. Now included in BioToolKit 320.

Introduction

      RNAi has become an important method for down-regulating gene functions. The active intermediate, siRNA, is increasingly used for functional studies in mammalian cells. One of the main obstacles of using siRNA as a tool is to find an "effective" target site on the mRNA. SVM RNAi 3.6 provides researchers with a friendly tool for finding the best siRNA target sequences. It designs siRNA by selecting a core 19-nt target sequences that match the profiles of known good siRNA sequences.
      Two methods are included in SVM RNAi to profile good siRNA target sequences. The first uses a simple set of rules and the second uses the machine learning program SVM. Each method has its advantages and disadvantages as explained below. They may be used in tandem to accurately predict high potency siRNA target sequences.

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