Ontology Structure
From GO Public
Note: this page may get merged with Ontology_Development
Contents |
[edit] is_a completeness
DONE
[edit] disjoint_from links
3 terms in GO are no declared mutually disjoint:
CP, MCOP, MOP
Could be done for 3 root nodes
Also for other higher level terms
[edit] Create separate editorial version of ontology
This page has moved: Ontology_CVS_Directory_Layout_Overhaul
[edit] Ontology linking and cross-products
[edit] Internal (Intra-GO) links
GO currently has links within the 3 ontologies, but not between
[edit] Biological process to molecular function
[edit] Cellular component to molecular function
[edit] Implementation
Links spanning the 3 ontologies do not differ significantly from existing DAG links. We could thus include them in the main GO file. However, users expectations will be violated - annotations cannot be propagated up these links in the same way. For this reason it may be better to capture these links in a separate file; for example:
go/
ontology/
gene_ontology_editorial.obo
function_to_process.obo
component_to_function.obo
[edit] OBO-Edit
OBO-Edit is capable of handling these links
[edit] AmiGO
[edit] Internal cross-products
[edit] Regulation cross-products
[edit] Other internal cross-products
[edit] External DAG links
External DAG links are different from external XPs. A DAG link is just a simple link that happens to span two ontologies.
Examples: between microvillus and hair cell
[edit] External cross-products
Cross-product meetings: [1]
We have added a Cross_Product_Guide, intended to answer all your questions about cross-products
[edit] biological_process_xp_cell
CL is currently undergoing rennovation. However, the CL cross-products can still be edited and used.
[edit] biological_process_xp_chebi
Initial set by mike Bada
Ongoing issues:
- plurals in ChEBI
- roles in chebi
- unusual DAG structure
