Last Modified
  2013-06-29 03:40:10 +0000
Requires
  - bio/sequence

## Description

# bio/util/sirna.rb - Class for designing small inhibitory RNAs

Copyright | Copyright (C) 2004, 2005 Itoshi NIKAIDO <dritoshi@gmail.com>
License | The Ruby License

$Id:$

## Bio::SiRNA - Designing siRNA.

This class implements the selection rules described by Kumiko Ui-Tei et al. (2004) and Reynolds et al. (2004).

## Example

    seq = Bio::Sequence::NA.new(ARGF.read)

    sirna = Bio::SiRNA.new(seq)
    pairs = sirna.design

    pairs.each do |pair|
      puts pair.report
      shrna = Bio::SiRNA::ShRNA.new(pair)
      shrna.design
      puts shrna.report

      puts shrna.top_strand.dna
      puts shrna.bottom_strand.dna
    end

## References

- Kumiko Ui-Tei et al. Guidelines for the selection of highly effective siRNA sequences for mammalian and chick RNA interference. Nucl. Acids. Res. 2004 32: 936-948.

- Angela Reynolds et al. Rational siRNA design for RNA interference. Nature Biotech. 2004 22: 326-330.