siRna prediction

subhomoi.bk has asked for the wisdom of the Perl Monks concerning the following question:

Replies are listed 'Best First'.
Re: siRna prediction by moritz (Cardinal) on May 20, 2011 at 09:25 UTC
It should be blue. Without any doubts. Or did you mean some other design aspects? Perl 6 - second systems done right	[reply]
Re^2: siRna prediction by GrandFather (Saint) on May 20, 2011 at 09:29 UTC
and with rounded corners and a padded top. Didn't you take notes in the CB? True laziness is hard work	[reply]
Re^2: siRna prediction by Fletch (Bishop) on May 20, 2011 at 13:58 UTC
Bah, everyone knows mauve has more RAM. And it should have flames down the side. And fuzzy dice. And an attachment to julienne fries. And a pony. The cake is a lie. The cake is a lie. The cake is a lie.	[reply]
Re: siRna prediction by marto (Cardinal) on May 20, 2011 at 09:17 UTC
See How do I post a question effectively?, does the module Bio::Tools::SiRNA help with your task?	[reply]
Re^2: siRna prediction by subhomoi.bk (Initiate) on May 31, 2011 at 07:43 UTC
Thanks... but i m new to bioperl..plz help me on this..when i used the following code...an error msg comes "Target sequence not defined"..so where is $bio_seq? `use Bio::Tools::SiRNA; my $sirna_designer = Bio::Tools::SiRNA->new( -target => $bio_seq, -rules => 'tuschl' ); my @pairs = $sirna_designer->design; foreach $pair (@pairs) { my $sense_oligo_sequence = $pair->sense->seq; my $antisense_oligo_sequence = $pair->antisense->seq; # print out results print join ("\t", $pair->start, $pair->end, $pair->rank, $sense_oligo_sequence, $antisense_oligo_sequence), " +\n"; }` [download]	[reply] [d/l]
Re: siRna prediction by ww (Archbishop) on May 20, 2011 at 11:55 UTC
I'd guess that it'll be more marketable if the double helix pattern is a prominent part of the decoration (perhaps in gold, to contrast with the blue base recommended above), and that all graphic ads use a viewpoint that emphasize the way the tool's shape itself suggests a double helix.	[reply]