Difference between revisions of "Annotation Extension Relation:happens during"

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* Temporal phases can be either a child of GO:0044848 (biological phase) or UBERON:0000105 (life cycle stage).
 
* Temporal phases can be either a child of GO:0044848 (biological phase) or UBERON:0000105 (life cycle stage).
 
* This extension is no longer used to add a ''biological process'' to the annotation extension field when the role of the gene product in the process is unclear, but its activity appears to coincide with another process.  If the function or process is known to definitely be part of a process, use the 'part of' extension relation.
 
* This extension is no longer used to add a ''biological process'' to the annotation extension field when the role of the gene product in the process is unclear, but its activity appears to coincide with another process.  If the function or process is known to definitely be part of a process, use the 'part of' extension relation.
* To link a '''physical entity''' (''cellular component'') to a process by duration, use the relationship '''exists_during.''' Note, however, that exists_during is not currently in the Relations Ontology and its usage may be addressed in future work.
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* To link a physical entity (''cellular component'') to a process by duration, use the relationship exists_during.  Note, however, that exists_during is not currently in the Relations Ontology and its usage may be addressed in future work.
  
 
==Synonym==
 
==Synonym==
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==Child terms==
 
==Child terms==
  
* None.
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* None
  
 
==Scope of use==
 
==Scope of use==
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== Using examples to demonstrate [[Folding_and_Unfolding]] using the relationship happens_during ==
 
== Using examples to demonstrate [[Folding_and_Unfolding]] using the relationship happens_during ==
  
'''2. A process occurring during a cell cycle phase'''
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'''1. A process occurring during a cell cycle phase'''
 
Cdc14 targets Yen1 to the nucleus in early anaphase, PMID:24626187
 
Cdc14 targets Yen1 to the nucleus in early anaphase, PMID:24626187
  

Latest revision as of 08:05, 9 September 2019

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Definition

Identifies a temporal phase during which a molecular function or biological process occurs.

Comment

  • Temporal phases can be either a child of GO:0044848 (biological phase) or UBERON:0000105 (life cycle stage).
  • This extension is no longer used to add a biological process to the annotation extension field when the role of the gene product in the process is unclear, but its activity appears to coincide with another process. If the function or process is known to definitely be part of a process, use the 'part of' extension relation.
  • To link a physical entity (cellular component) to a process by duration, use the relationship exists_during. Note, however, that exists_during is not currently in the Relations Ontology and its usage may be addressed in future work.

Synonym

occurs_during (EXACT)

Child terms

  • None

Scope of use

Domain

BFO:0000007 ! process (biological_process or molecular_function)

Range

GO:0044848 ! biological phase

UBERON:0000105 ! life cycle stage

Annotation Extension Usage Examples

1. A process occurring during a cell cycle phase

Statement from paper:

We here show that the mitotic master phosphatase Cdc14 targets Yen1 to the nucleus in early anaphase through the FEAR network. In Figure 2, Yen1 re-localizes back to the nucleus in early anaphase in a Cdc14-dependent manner.

Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) Annotation Extension (col 16)
Q00684 cdc14 GO:0034504 protein localization to nucleus PMID:24626187 happens_during(GO:0000090 mitotic anaphase)

Using examples to demonstrate Folding_and_Unfolding using the relationship happens_during

1. A process occurring during a cell cycle phase Cdc14 targets Yen1 to the nucleus in early anaphase, PMID:24626187

Folded/unfolded DB (Col 2) Object (Col 3) GO ID (Col 5) Reference (Col 6) Extension (Col 16) Parent terms for new folded GO term
Unfolded Q00684 cdc14 GO:0034504 protein localization to nucleus PMID:24626187 happens_during(GO:0000090 mitotic anaphase)
Folded Q00684 cdc14 New potential GO term protein localisation to nucleus during mitotic anaphase PMID:24626187 is a GO:0034504 protein localization to nucleus AND part_of?? GO:0048471 mitotic anaphase

OWL class expression: GO:0034504 protein localization to nucleus AND happens_during SOME GO:0000090 mitotic anaphase


Back to Annotation usage examples for each annotation extension relation