[Bioperl-l] Bio::Tools::OddCodes

[Heikki Lehvaslaiho]

Yes of course.  How stupid of me. I guess I was half a sleep when I
wrote that.

What I meant was the terms conservative and nonconservative. Any
insights to them.

Sorry,
	-Heikki

Aaron J Mackey wrote:
> 
> On Thu, 13 Jul 2000, Heikki Lehvaslaiho wrote:
> 
> > In a related note: I'd like to ask if anyone on the list might know is
> > there is commonly agreed definition to yet an other way of amino acid
> > change classification: Synonymous and non-synonymous are commonly used
> > terms in population genetic papers to classify coding region mutations
> > but they are never defined. Most probably their definiton is based on
> > something similar to Derek's 'functional' alphabet.
> 
> Synonymous and nonsynonymous usually refer to codon mutations, i.e. a
> mutation which continues to encode the same amino acid (due to genetic
> code redundancy) is a synonymous mutation.  Nonsynonymous mutations affect
> a change in the encoded amino acid.  It's not in the sense of "isoleucine
> is synonymous to leucine" - that's a scoring-matrix derived comparison.
> 
> -Aaron
> 
> --
>  o ~   ~   ~   ~   ~   ~  o
> / Aaron J Mackey           \
> \  Dr. Pearson Laboratory  /
>  \ University of Virginia  \
>  /  (804) 924-2821          \
>  \  amackey@virginia.edu    /
>   o ~   ~   ~   ~   ~   ~  o

-- 
______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
     _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
___ _/_/_/_/_/________________________________________________________