Revision as of 20:03, 6 August 2013

Different Types of GO Annotations in GPAD File from UniProtKB

WormBase - manual annotation, no extra information

OLD .ACE FILE:

Gene : "WBGene00001052"
GO_term "GO:0007191"    "IDA"   Paper_evidence  "WBPaper00006389"
GO_term "GO:0007191"    "IDA"   Curator_confirmed   "WBPerson1843"

CURRENT GO FILE:

UniProtKB	Q86ME3	involved_in	GO:0007191	PMID:14739932	ECO:0000314			20070522 WormBase		go_evidence=IDA|id=2113475183|curator_name=Kimberly Van Auken

NEW .ACE FILE:

Gene : "WBGene00001052" GO_term "GO:0007191" Relation "RO:0002331" Assigned_by "Gene Ontology Consortium" GO_term "GO:0007191" GO_code "ECO:0000314" Paper_evidence "WBPaper00006389" GO_term "GO:0007191" GO_code "ECO:0000314" Curator_confirmed "WBPerson1843" GO_term "GO:0007191" GO_code "ECO:0000314" Date_last_updated "2007-05-22"

WormBase - manual annotation, entry in With/From column

WormBase - manual annotation, entry in Annotation Extension column

WormBase - manual annotation, isoform-specific annotation

WormBase - manual annotation, use of ND evidence code and GO_REF

WormBase - manual annotation, including interacting taxon

WormBase - manual annotation, same GO term and evidence code but different papers

WormBase - manual annotation, multiple annotations from a single paper

WormBase - manual annotation, use of qualifier

WormBase - manual annotation, multiple additional columns (e.g., With/From and Annotation Extension)

UniProtKB - manual annotation, no extra information

WormBase and UniProtKB - exact same manual annotation

IntAct - manual protein binding annotation (Question: How many of these annotations have a more granular annotation from WB?)

PAINT - annotation from phylogenetic inference

Function-Process Links - annotations inferred by GOC based on inter-ontology relationships

Phenotype2GO Pipeline - Variation Phenotype2GO

Phenotype2GO Pipeline - RNAi Phenotype2GO (Notes: remove secondary targets, remove non-WT background as these are likely to be IGI, rather than IMP annotations?)

Difference between revisions of "Curation Scenarios for new GO Model - GPAD and .ace Representations"