Copyright |
Copyright (C) 2004, 2005 Itoshi NIKAIDO <dritoshi@gmail.com> |
License |
The Ruby License |
$Id:$
This class implements the selection rules described by Kumiko Ui-Tei et al. (2004) and Reynolds et al. (2004).
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
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.