[Ontology-editors] question about cellular component organization (from bp-xp-cc evaluation)

[Midori Harris]

Hi,

So I finally overcame my fear of OBO-Edit making mincemeat of unrecognized 
relations, and  loaded the bp-xp-cc imports into OE for the first time in 
months. The very first implied link in the list (upon Edit -> Assert 
implied links) raises a question:

   Assert: protein complex assembly is_a cellular macromolecular complex 
assembly

I found the explanation a bit bewildering, but I think I see where the 
implication is coming from. We've deliberately created separate terms for 
protein complex assembly and cellular protein complex assembly (with 
parallel structures for macromolecular complex assembly and m. c. subunit 
organization) because some complexes are assembled at the 
multicellular-organism level. The circulating lipoprotein complexes -- 
HDL, LDL, etc. -- are examples.

So it seems that, instead of asserting the implied link, we actually have 
to move cellular component organization and cellular component biogenesis 
directly under biological process, not under cellular process. This will 
fix a bunch of other implied links too, I think.

I've also put this on the wiki:
http://wiki.geneontology.org/index.php/XP:biological_process_xp_cellular_component#2009-06-16

Comments welcome!

cheers,
m