Causally upstream of, positive effect: Difference between revisions

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== Annotation Usage Guidelines==
== Annotation Usage Guidelines==
* Standard Annotation
* Standard Annotation
** What to capture
** Usage Examples
** What not to capture
***This relation should not be used for conventional annotations. To capture this information, curators should create a GO_CAM model in the Noctua tool.
* GO-CAM Annotation
* GO-CAM Annotation
** What to capture
**Usage Examples
** What not to capture
***A peptidase activity that processes a signaling ligand.
****http://noctua.geneontology.org/editor/graph/gomodel:632cf60a00000039


==Ontology Usage Guidelines==
==Ontology Usage Guidelines==
* This relation is not used in the ontology.


==Scope of Use==
==Scope of Use==
* Domain- Domain refers to the ontology terms that can be further specified with the relation.
* Domain- Domain refers to the ontology terms that can be further specified with the relation.
** Any biological process
** Any molecular function
* Range- Range describes the ontology terms that can be used to further specify the domain using the relation.
* Range- Range describes the ontology terms that can be used to further specify the domain using the relation.
 
** Any biological process
==Usage Examples==
** Any molecular function
*A peptidase activity that processes a signaling ligand.
**http://noctua.geneontology.org/editor/graph/gomodel:632cf60a00000039


== Quality Control Checks ==
== Quality Control Checks ==
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Reviewed on Sept 26, 2022  DavidH
Reviewed on Sept 26, 2022  DavidH


Reviewed on Oct 24, 2022 DavidH
Reviewed on Oct 26, 2022 DavidH


[http://wiki.geneontology.org/index.php/Annotation_Relations Back to: Annotation Relations]
[http://wiki.geneontology.org/index.php/Annotation_Relations Back to: Annotation Relations]

Revision as of 09:52, 26 October 2022

Overview

  • The 'causally upstream of, positive effect' relation is used to relate GO Biological Processes (BP) and/or GO Molecular Functions (MF) when:
    • the mechanism that relates the upstream process (BP or MF) to the downstream process (BP or MF) is understood
    • the activities of the gene products in the upstream process occur before events in the downstream process
    • in order for the downstream process to occur normally, the upstream process needs to occur

Annotation Usage Guidelines

  • Standard Annotation
    • Usage Examples
      • This relation should not be used for conventional annotations. To capture this information, curators should create a GO_CAM model in the Noctua tool.
  • GO-CAM Annotation

Ontology Usage Guidelines

  • This relation is not used in the ontology.

Scope of Use

  • Domain- Domain refers to the ontology terms that can be further specified with the relation.
    • Any biological process
    • Any molecular function
  • Range- Range describes the ontology terms that can be used to further specify the domain using the relation.
    • Any biological process
    • Any molecular function

Quality Control Checks

  • Annotations can be validated using a Shape Expressions (ShEx) representation of allowed relations between ontology terms.

Child Terms

Cross Reference to Relation Ontology (RO)

causally upstream of, positive effect

Review Status

Reviewed on Sept 26, 2022 DavidH

Reviewed on Oct 26, 2022 DavidH

Back to: Annotation Relations

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