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

From WormBaseWiki
Jump to navigationJump to search
Line 1: Line 1:
 
=Different Types of GO Annotations in GPAD File from UniProtKB=
 
=Different Types of GO Annotations in GPAD File from UniProtKB=
  
−
*WormBase - manual annotation, no extra information
+
==WormBase - manual annotation, no extra information==
  
 
OLD .ACE FILE:
 
OLD .ACE FILE:

Revision as of 20:00, 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

Retrieved from "https://wiki.wormbase.org/index.php?title=Curation_Scenarios_for_new_GO_Model_-_GPAD_and_.ace_Representations&oldid=19578"