[Ontology-editors] haspart documentation

[Midori Harris]

Hi,

> This is almost done now (phew!!);
> The almost-there page is here:
>
> http://geneontology.org/GO.ontology-ext.relations.shtml

Yay! One comment on the existing has_part examples: for has_part . is_a -> 
has_part, we'll need something more specific than 'spliceosomal complex' 
on the left, because 'spliceosomal complex' is a grouping term for several 
types (corresponding to assembly stages) of complexes involved in 
splicing, not all of which contain U5.

I recommend 'precatalytic spliceosome'.

> there are just two examples left to fill 
> in:
>
> is a . has part -> has part
>
> A is a B, B has part C
>
> I couldn't find any examples in spliceosome.obo :S

True, there's nothing suitable there yet; at the moment none of the 
complexes have is_a parents that themselves have any parts designated by 
has_part. There is, however, the strong possibility that some or all of 
the new is_a children of 'U2-dependent spliceosomal complex' (GO:0005684) 
will have 'U2-dependent' prepended to their names, to distinguish them 
from analogous 'U12-dependent ...' terms and generic parents that we have 
yet to add.

I can confirm with Karen C and Alan Bridge that we're actually going to do 
this; if so, there will soon be an example for the docs:

activated spliceosome [new ID] has_part U5 snRNP has_part U5 snRNP

   and

U2-dependent activated spliceosome [tmpGO:0100006 from spliceosome.obo, 
renamed] is_a activated spliceosome

   so

U2-dependent activated spliceosome has_part U5 snRNP

Hope that's useful!

cheers,
m