[Ontology-editors] cellular components in the nervous system

[Chris Mungall]

One tricky thing is the naming - any upper level term in GO must be  
meaningful to biologists and not cause distress such as the once- 
proposed material/immaterial distinction.

BIRN/NIF call the separable things "cellular components", which seems  
quite reasonable, but I think any attempt to change the root term in  
CC will be met with resistance.

On Jan 26, 2009, at 4:52 AM, Midori Harris wrote:

> Thanks; sounds good. My only objection to adding those upper level  
> terms would have been that we don't have time to work on it, but if  
> they're doing the work, yay!
>
> m
>
> On Fri, 23 Jan 2009, Chris Mungall wrote:
>
>> I'm with the BIRN neuroinformatics group at the moment.
>>
>> They have their own cell and cellular component ontology (used to  
>> be called SAO, now NIF subcellular). They are keen to swap out  
>> their own ontology and swap in GO-CC instead. However, there are a  
>> few things they have in their own ontology which they'd miss. Some  
>> are things we're planning on adding eventually anyway, such as  
>> disjointness relations (http://wiki.geneontology.org/index.php/Cellular_component_disjoint_classes 
>> ) and relations to cells (http://wiki.geneontology.org/index.php/XP:cellular_component_xp_cell 
>> ). They're also keen on having upper level terms that discriminate  
>> between seperable objects (what they call cellular components) from  
>> cell component regions (what they call regional parts). They're  
>> going to do the work of mapping GO-CC terms into these categories,  
>> I said we'd take a look and consider it (if we don't like it it can  
>> always live outside GO as a bridge ontology resource).
>>
>> I think it would be a major coup to have the BIRN group use GO-CC,  
>> they're integrating massive amounts of neuroscience data.
>>
>> More details as they emerge, just keeping you informed
>>
>> Chris
>> _______________________________________________
>> Ontology-editors mailing list
>> Ontology-editors at geneontology.org
>> http://fafner.stanford.edu/mailman/listinfo/ontology-editors
>