Codon Usage Analysis
robison1 at husc10.harvard.edu
Thu Jul 16 14:46:59 EST 1992
lmh at medg.lcs.mit.edu (Minghsun Liu) writes:
>I am not sure if this is the right newsgroup to post too. And
>comments will be appreciated.
>Recently, I was given the task of doing a codon usage analysis on
>pseudomonas putida. Except access to the net, I really don't have
>much resources here. (I am remotely logged in.) My quesrtion is, as
>a novice, what particular points should I look out for. (I am
>planning to pull out the data in GenBank and write a program to parse
>and anlyze the data.) Orr better yet, has there been an analysis like
>Many thanx in advance!
>- Minghsun Liu
I have UNIX software which will accomplish this, but at this time
it requires a local copy of GenBank and software to access it
(i.e. GCG or Eugene).
Generating the data takes very little effort once you have
a set of entries culled of duplicates. I would be happy to generate
the table if you are willing to cull the CDS list.
Program in Biochemistry, Molecular, Cellular, and Developmental Biology
robison at ribo.harvard.edu
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