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

[Jinal J. <jjh...@vb...>]

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 ?