[Annotation] check for ND + additional annotation

[Harold Drabkin]

We also allow IEA along with ND as ND means no literature. Also, we have 
triggers in our Editorial Interface that
1. removes ND to an aspect when a non IEA is entered.
2. prevents an ND being added if a non-IEA exits for the gene.

We have various qc's operating based on the ND status of a gene and if 
new literature comes in that is indexed to the gene, etc.
The users need to be made more aware that the ND specifically means no 
literature known to support higher annotations at the time.

h

Pascale Gaudet wrote:
> That seems to make sense. Otherwise, how do you know a curator has reviewed the 
> literature for that gene?
>
> Stacia Engel wrote:
> > the gene in question was a yeast gene, CWC23.  there is ND to generic BP 
> > because we have no experimental data for that gene.
> >
> > the gene has computational annotations from both UniProtKB and bioPIXIE.  at 
> > SGD, we don't remove NDs to root nodes when only computational annotations exist.
> >
> > stacia
> >
> >
> > On Sep 3, 2008, at 11:37 AM, Judith Blake wrote:
> >
> >> Typically, I think this should be done at the time of generating the 
> >> annotation...even an IEA.  Each group might consider implementing something 
> >> to QC this, but a QC at the time of submission of data file to AmiGO would be 
> >> good too.
> >>
> >> Judy
> >>
> >>
> >>
> >> Midori Harris wrote:
> >>> Hi,
> >>>
> >>> We received a query on the GO Help list from a user who noticed a gene that 
> >>> was annotated to both the biological process (BP) root with ND, and 
> >>> annotated to a non-root BP term with another evidence code. I agreed with 
> >>> him that it doesn't make sense to keep the ND/root annotation if a "real"
> >>> annotation could be made to a term in the same ontology. Would it be 
> >>> worthwhile to add a check for cases like this, perhaps in Mike's script?
> >>>
> >>> cheers,
> >>> midori
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