Annotation Conf. Call, April 10, 2012

From GO Wiki
Jump to navigation Jump to search

Agenda:

Discussion of the annotation_extension field

1. Introduction to the basic format of this field

2. Data inappropriate for the Annotation Extension field

3. What information are groups currently adding into this field? File:C16 values per group.xls

Total number of annotations from all groups with a filled c.16 field = 83,588

Annotation Count relationship and associated ids types GO ID Process GO ID Component GO ID Function Assigned_by
4 acts_at(SO id) P C PomBase
3 dependent_on(GO id) P C BHF-UCL
38 dependent_on(GO id, Pfam id or PomBase id) P C F PomBase
39 dependent_on(GO id, UniProtKB id) P C F UniProt-GOA
288 during (GO id) P C F PomBase
3 exists_during(GO id) C PomBase
3 exists_during(GO id) F UniProt-GOA
2 exists_during(GO id) C dictyBase
7 happens_during(GO id) P BHF-UCL
1 happens_during(GO id) P PomBase
39 happens_during(GO id) P C F UniProt-GOA
2 has_binding_specificity(SO id) C PomBase
12 has_downstream_target (UniProt id) P BHF-UCL
18 has_downstream_target(UniProt id) P UniProt-GOA
139 has_input(CL, UBERON, UniProt and CHEBI ids) P F UniProt-GOA
7 has_input(UniProt id) P BHF-UCL
1 has_output(UniProt id) P BHF-UCL
1 has_participant(GO id) P BHF-UCL
49 has_participant(GO, UniProt id) P F UniProt-GOA
26 has_regulation_target (ChEBI id, Ensembl, UniProt ids) P BHF-UCL
745 has_regulation_target(UniProt id) P F UniProt-GOA
48 has_substrate (Genedb_Spombe, PomBase, PR, GO ids) P F PomBase
329 has_substrate(CHEBI and UniProt ids) P F UniProt-GOA
1 has_substrate(CL id) F BHF-UCL
1 has_target_anatomical_entity(GO id) F BHF-UCL
37 has_target_cell(CL id) P UniProt-GOA
1 has_upstream_or_downstream_target(UniProt id) P UniProt-GOA
76 in_presence_of(GO, ChEBI, UniProt id) P UniProt-GOA
1 in_presence_of(UniProt id) F BHF-UCL
3 independent_of(GO id) C PomBase
1 independent_of(GO ID) P UniProt-GOA
4 localization_dependency (PomBase ids) P PomBase
93 localization_dependent_on(CHEBI and GO id) C F UniProt-GOA
1 localization_target (PomBase ids) P PomBase
60 localizes(GO, PomBase ids) P C PomBase
10 localizes(UBERON id) P C F BHF-UCL
1 localizes(UniProtKB id) P dictyBase
27131 occurs_in(CL id) P F MGI
15 occurs_in(CL id) P P BHF-UCL
30,477 occurs_in(GO id) F IntAct
9 occurs_in(Pfam or GO id) P F PomBase
11,095 occurs_in(Reactome protein complex identifier) P C F Reactome
1113 occurs_in(UBERON,CL id) P C F UniProt-GOA
265 part_of (CL, UBERON id, GO id) P C UniProt-GOA
10880 part_of(CL id) C MGI
1 protease_activator(PomBase) P PomBase
1 protease_inhibitor_of(PomBase F PomBase
2 required_for(GO id) C F PomBase
2 requires_substance(ChEBI ID) F UniProt-GOA
2 stabilizes(UniProt id) P UniProt-GOA
2 stablizes(PomBase ids) P PomBase
1 transcriptionally_regulates(PomBase id) P PomBase

WormBase: contains either CheBI or WB identifiers, but not supplied with any relationships.

SGN: contains genomic identifiers, but not supplied with any relationships: e.g. AB623205.1; missing a tab?