[Annotation] filtering IEA translations?

[Doug]

So in my example, I would speculate wildly that the zebrafish gene  
does in fact have a domain that looks very much like something that  
would cause beta-catenin binding, but is perhaps different enough as  
to not promote such binding...so the translation should be stricken  
from the translation file until the domain model itself can be  
improved so it can distinguish between domains that do and don't bind  
beta-catenin?


Doug Howe, Ph.D.
Scientific Curator
Zebrafish Nomenclature Coordinator
Zebrafish Information Network
541-346-0120
dhowe at cs.uoregon.edu



On Mar 12, 2009, at 12:41 PM, David Hill wrote:

> I think we should remove the translation. When we originally made  
> these translation table, we used the very conservative rule that if  
> we could find an exception to the translation being correct, we  
> would remove it. Otherwise, erroneous data may be generated for  
> organisms that don't have experimental support.
>
> David
>
> Doug wrote:
>> For groups that apply interpro2go, spkw2go, or ec2go translation  
>> files:
>>
>> If a translation from interpro2go for example takes you to a GO  
>> term which is directly contradictory to an experimentally supported  
>> annotation in your database, do you apply the IEA annotation or do  
>> you filter it out?
>>
>> Example:
>>    We have an IPI annotation to NOT beta-catenin binding and an IEA  
>> annotation (translation of InterPro:IPR009428) to 'beta-catenin  
>> binding' on our lzic gene.  Should such an IEA annotation be made  
>> when it conflicts with experimental annotations?
>>
>> I see no problem as long as the evidence code is taken into  
>> account...what do others think?
>>
>> -Doug
>>
>> Doug Howe, Ph.D.
>> Scientific Curator
>> Zebrafish Nomenclature Coordinator
>> Zebrafish Information Network
>> 541-346-0120
>> dhowe at cs.uoregon.edu
>>
>>
>>
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>
> -- 
> David P. Hill, Ph.D.
> Bioinformatics Scientist: Ontology Development
> Gene Ontology Consortium
> The Jackson Laboratory
> www.geneontology.org
> www.informatics.jax.org
> tel:207-288-6430