[EMBOSS] CAI Tables

[Peter Rice]

Tamas Hegedus wrote:

> Hi,
> 
> I am not a CAI expert; I also could not find one around me; reading was 
> not enough for me in this topic.
> So I would like to take the opportunity to ask a CAI (not EMBOSS) 
> related question.
> 
> What can you tell me about human (mammalian) CAI tables?
> What do you think/know about the FOP values introduced by Lavner & Kotlar?
> http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15716084&query_hl=1 
> 
> 
> I would like to use some measure to predict the translation speed of 
> certain regions in some proteins I am interested in.

Well, I am not really a CAI expert either. I hope there is someone better 
informed who can help.

I do like the "unaffected by amino acid composition" part of their statistic, 
but that may be just my bias.

If this statistic would be useful, we can try to implement it in EMBOSS. Any 
opinions?

regards,

Peter