[Ontology-editors] organization, biogenesis etc

[Chris Mungall]

Sometimes the biosynthesis of constituent molecules is a kind of  
organization of the component:

        is_a GO:0045230 ! capsule organization
          is_a GO:0045227 ! capsule polysaccharide biosynthetic  
process ***

Sometimes it is part_of:

          is_a GO:0031505 ! fungal-type cell wall organization
           is_a GO:0009272 ! fungal-type cell wall biogenesis
            pt_o GO:0051278 ! fungal-type cell wall polysaccharide  
biosynthetic process ***

Let me know which it is, and we will encode it in the relation -- then  
the reasoner can fix these in one fell swoop...

On Oct 3, 2008, at 11:46 AM, Chris Mungall wrote:

> From the latest meetings summarized here:
> http://wiki.geneontology.org/index.php/Cellular_component_processes
>
> X organization and biogenesis -> X organization
> X biogenesis -> X organization
>
> (with synonyms retained, exceptions allowed etc)
>
> This is great - I was never quite sure how to write the XP  
> definitions for these terms before, which resulted in the reasoner  
> giving curious results. I had to filter them before submitting  
> tracker items.
>
> Now these terms will make use of a single relation in all their XP  
> definitions, results_in_organization_of
>
> I can go ahead and add these today then run the reasoner (I think  
> there will be a lot of graph changes suggested..). Even though the  
> renaming is not complete, I will go ahead on the assumption that the  
> two changes above are being made.
>
> Note that if I do this the reasoner will infer equivalence between  
> "cell projection biogenesis" and ""cell projection organization and  
> biogenesis". This seems fine, since from my reading of the above  
> page these will be merged anyway.
>
>
>
>
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