Difference between revisions of "Annotation Extension Relation:has agent"

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Back to [http://wiki.geneontology.org/index.php/Annotation_usage_examples_for_each_annotation_extension_relation  Annotation usage examples for each annotation extension relation]
#REDIRECT: [[Deprecated_relations]]
 
=Note that this relation has been deprecated=
 


==Definition==
==Definition==
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The relationship that links an entity with a Molecular Function or Biological Process in which the entity participates in the Function or Process by serving as the continuant that is responsible for the execution of the Function or Process.
The relationship that links an entity with a Molecular Function or Biological Process in which the entity participates in the Function or Process by serving as the continuant that is responsible for the execution of the Function or Process.


[[Category:Relations]]
[[Category:Reasoning]]


==Comment==
==Comment==
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BFO:0000007 ! process (Biological Process or Molecular Function)
BFO:0000007 ! process (Biological Process or Molecular Function)


===Range===
===Local Range===


CL:0000000 (cell), GO:0005575 (cellular component), PO:0025131 (plant anatomical entity), UBERON:0001062 (anatomical entity), WBbt:0004017 (cell), WBbt:0005766 (anatomy)


==Annotation Extension Usage Examples==
==Annotation Extension Usage Examples==


==Annotation Extension Usage Examples==
==Annotation Extension Usage Examples==
1. Recording the cell type that is the agent in a secretion process
{| class="wikitable" border="1"
{| class="wikitable" border="1"
|-
|-
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|}
|}
2. Recording the agent involved in a transport process
{| class="wikitable" border="1"
|-
! Gene Name (col 2)
! GO ID (col 5)
! Reference (col 6)
! Evidence (col 7)
! With (col 8)
! Annotation Extension (col 16)
|-
| F1PRN2
| GO:0061502 early endosome to recycling endosome transport
|
| ECO:0000314
|
|has_agent(GO:0005884; (actin filament))
|}
(Question - could this be better recorded in the ontology?)


== Using examples to demonstrate [[Folding_and_Unfolding]] using the relationship has_agent ==
== Using examples to demonstrate [[Folding_and_Unfolding]] using the relationship has_agent ==
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| Unfolded
| Unfolded
|   
|   
|
| A2A7Q8
|  
| GO:0072643 interferon-gamma secretion
|  
|  
|  
|  
|
| has_agent(CL:0000623 natural killer cell)
|-
|-
| Folded
| Folded
|   
|   
| A2A7Q8
| ??
|
|
|
|
|
| is_a GO:0002370 natural killer cell cytokine production
|
|
|-
|-
|}
|}




'''OWL class expression:'''
interferon-gamma secretion and has_agent some 'naural killer cell'


'''OWL class expression:'''
----
----


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[[Category:relations]]
[[Category:relations]]
[[Category:annotation extension]]

Latest revision as of 08:14, 29 June 2022

Note that this relation has been deprecated

Definition

The relationship that links an entity with a Molecular Function or Biological Process in which the entity participates in the Function or Process by serving as the continuant that is responsible for the execution of the Function or Process.


Comment

Synonyms

has_active_participant

Child terms

  • None

Scope of use

Domain

BFO:0000007 ! process (Biological Process or Molecular Function)

Local Range

CL:0000000 (cell), GO:0005575 (cellular component), PO:0025131 (plant anatomical entity), UBERON:0001062 (anatomical entity), WBbt:0004017 (cell), WBbt:0005766 (anatomy)

Annotation Extension Usage Examples

Annotation Extension Usage Examples

1. Recording the cell type that is the agent in a secretion process

Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) With (col 8) Annotation Extension (col 16)
A2A7Q8 GO:0072643 interferon-gamma secretion ECO:0000315 has_agent(CL:0000623 natural killer cell)

2. Recording the agent involved in a transport process

Gene Name (col 2) GO ID (col 5) Reference (col 6) Evidence (col 7) With (col 8) Annotation Extension (col 16)
F1PRN2 GO:0061502 early endosome to recycling endosome transport ECO:0000314 has_agent(GO:0005884; (actin filament))

(Question - could this be better recorded in the ontology?)

Using examples to demonstrate Folding_and_Unfolding using the relationship has_agent

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 A2A7Q8 GO:0072643 interferon-gamma secretion has_agent(CL:0000623 natural killer cell)
Folded A2A7Q8 ?? is_a GO:0002370 natural killer cell cytokine production


OWL class expression:

interferon-gamma secretion and has_agent some 'naural killer cell'




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