[Annotation] phenotype or GO-still struggling

[David Hill]

Doug,

I do this all the time. I just finished systematically doing all the 
homeobox genes in mouse. Many of them are annotated to things like 
pattern specification. I think in the future, it will be very nice to 
know these are playing roles in regulating transcription but that 
regulation is fundamental in other processes as well.

David

Doug howe wrote:
> I'm still struggling with the issue of whether to make a GO annotation 
> (processes in particular) or only phenotype annotation.  The zebrafish 
> literature is replete with mutant papers that often describe 
> phenotypes involving eyes, otic vesicles, or pharyngeal arches, organ 
> development etc.   Often, the IEA annotations for a gene seems to 
> indicate that the gene is binding DNA, and may be some sort of 
> transcriptional regulator.  Should such a gene be annotated with GO 
> terms like 'otic vesicle development', or 'eye morphogenesis', or 
> should that be left for phenotype annotations?
>