A: Primer design: Is there a source of statistical base distributions in genomes?

Wolfgang Schechinger u7k0201 at sunmail.lrz-muenchen.de
Fri Aug 25 08:27:31 EST 1995


sunger at crl.com (Stefan Unger) wrote:
>The MAC program RightPrimer already does this and is very reasonably 
>priced.  Send mailing address if you would like information.  I am a dealer.  
>Thanks.
>
>Wolfgang Schechinger 
>(u7k0201 at sunmail.lrz-muenchen.de) wrote: : Hello everyone!
>
>: Primer sequences should only match to the targetted sequence. That sounds simple, but how to 
>: prove it? OK, you can search the GenBank for another match, but the GenBank yet is not complete 
>: (will it ever be?). I have heard about a method by mathematically deriving the probabilities of 
>: certain sequences from the real distribution of small fragments (e.g dimers, tetramers or 
>: hexamers) in a genome. 
>: To compile these data sets I suppose there's a need of much workspace and machine capacity. 
>: Thus I would like to know if this approach makes sense and is really neccessary and, if so,
>: if there already exists some data on the issue - where may it be found?
>
>: Thank you for your help!
>: Please email your posting, too.
>
>: -- 
>: +++++++++++++++++++++++++++++++++++++++++++
>: Wolfgang Schechinger
>: [cut off, see below!]
>
>: (Standard disclaimer applies)
>: +++++++++++++++++++++++++++++++++++++++++++
>
>
Dear Stefan, Thank you for your reply! 
Testing my primer for another match on my gene is not the actual problem. Maybe I didn't point 
that out clearly enough. I'm looking for a way of optimizing my primers for minimal match on 
THE REST OF THE GENOME (OR mRNA/cDNA). 

-- 
+++++++++++++++++++++++++++++++++++++++++++
Wolfgang Schechinger
Institute for Diabetes Reserch 
Koelner Platz 1
80804 Munich
Germany 
Phone +49 (89) 30 79 31 24
Fax   +49 (89) 30 81 733
email u7k0201 at sunmail.lrz-muenchen.de

(Standard disclaimer applies)
+++++++++++++++++++++++++++++++++++++++++++





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