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

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NEW .ACE FILE:
 
NEW .ACE FILE:
  
−
Gene : "WBGene00001052"
+
Gene : "WBGene00001052"
−
GO_term "GO:0007191" Relation "RO:0002331" Assigned_by "Gene Ontology Consortium"
+
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" Paper_evidence "WBPaper00006389"
−
GO_term "GO:0007191" GO_code "ECO:0000314" Curator_confirmed "WBPerson1843"
+
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"
+
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 With/From column==

Revision as of 20:16, 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?)

For Reference

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