From owner-drosophila@net.bio.net Thu Apr 04 23:00:00 1996
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From: Marc_Champagne@cellbio.duke.edu
Newsgroups: bionet.drosophila
Subject: Re: codon usage
Date: 5 Apr 1996 18:15:09 GMT
Organization: Duke University
Lines: 61
Distribution: world
Message-ID: <Marc_Champagne-0504961321470001@ocarina.cellbio.duke.edu>
References: <199604022043.MAA16377@net.bio.net> <_-0304960959430001@ocarina.cellbio.duke.edu> <drm21-0304961954220001@nntp-serv.cam.ac.uk>
NNTP-Posting-Host: ocarina.cellbio.duke.edu

In article <drm21-0304961954220001@nntp-serv.cam.ac.uk>,
drm21@mole.bio.cam.ac.uk (David Micklem) wrote:

> In article <_-0304960959430001@ocarina.cellbio.duke.edu>,
> _@cellbio.duke.edu wrote:
> 
> >In article <199604022043.MAA16377@net.bio.net>, ringo@MAINE.MAINE.EDU
> >(John Ringo/Dept. Zoology/U. Maine/Orono04469) wrote:
> >
> >> I'm looking for a table of codon usage (most-frequent codons for each amino
> >> acid) in Drosophila.  Can anyone steer me to a source?
> >> Thanks, John Ringo 
> >>         ringo@maine.maine.edu
> >
> >Cavener
> >Nucl. AC. Res. 15(4):1353-61, 1987.
> >
> >BTW, 
> >
> >we made a graphic codon bias analyzer (let's you spot coding ORF and slip in
> >the RF).
> >
> >Marc
> 
> Hi Marc,
> 
> That sound rather useful!  Is it available over the net?  What platform
> does it run on?
> 
> Thanks,
> 
> David
> 
> PS Whatever you post to bionet.drosophila with doesn't seem to set your
> return EMail address correctly....
> 
> _____________________________________________________________
> D.R.Micklem,
> Wellcome/CRC Institute,       Time flies like an arrow...
> Tennis Court Road,              
> Cambridge CB2 1QR             Fruit flies like a banana.
> UK                             
> Tel: [+44] (0)1223 334129     Email:drm21@mole.bio.cam.ac.uk
> Fax: [+44] (0)1223 334089               
> _____________________________________________________________

David,

it is a very useful tool.  It can work for any species, as long as you find us 
the codon bias table.  It is extremely easy to use (5 min. and you're all set).
The plots help you spot intron/exon borders (in coding regions), slipping in 
the RF and also detect genes in the genome projects.

It now runs on Unix, and we figured out a way to make it work indirectly on a 
Mac, and our programmer is supposedly working on a WWW java version, but i think
he's not motivated.  Perhaps if you send me an e-mail saying you
'desperately need to use this tool' might help me kick his ass!



Marc_Champagne@cellbio.duke.edu

.