Re: [Gusdev-gusdev] dots.nagene to dots.gene

[Steve F. <sfi...@pc...>]

To my knowledge we haven't done this yet.   We are just now starting 
the planning phases of how to completely use the central dogma to 
captures gene, geneinstances, rnas, etc.   So far we have only been 
using it partially.

Others have opinions?

steve


On Aug 25, 2004, at 5:47 PM, Jinal Jhaveri wrote:

> Hi,
>
> As per my understanding the "gbparser" loads the uniq genes obtained 
> from the
> genbank file in dots.nagene table. Our group is planning to do 
> annotation
> (and reannotation) of several genomes and thus we might have multiple
> instances of the same gene and the reviewers might add comments etc. 
> All
> these required information is not available with dots.nagene but with
> dots.gene (which make sense). I do understand the handling of central 
> dogma
> (thanks to the excellent explanation on WIKI) but what I don't 
> understand is
> how to handle the transition between each phase. How shall one load 
> the genes
> obtained from the genbank file (i.e in dots.nagene) in dots.gene (&
> dots.geninstance). Is it the matter of writing our own script/plugin 
> (I am
> fine with it), or am I missing a very basic step of the pipeline? I am 
> asking
> this because, in our project we are at a stage where I have to make 
> decision
> (which might be very inefficient/wrong from the design perspective but 
> FAST
> as far as time is concerned) ,whether to change the GUS Schema and let 
> the
> data be in dots.nafeatureimp and dots.nagene table OR to use the 
> dots.gene,
> dots.geneinstance, etc tables and proceed logically.
>
> Please Help!!!!!!
>
>
> On the other note, I remember Steve mentioning about plans to arrange 
> a GUS
> Users Meeting in PCBI, in one of the mails. IMHO It would be great if 
> we can
> have that as I know atleast of 3 to 4 more groups (at Virginia 
> Bioinformatics
> Institute)  are planning to use GUS and everyone is waiting for a GUS 
> User
> Meeting like this where we can clear our doubts and become more 
> efficient to
> handle it for our projects. I am sure other groups too will be 
> interested in
> joining this. Any thoughts/comments on the plan ?
>
>
>
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