Causally upstream of, positive effect: Difference between revisions
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== Overview == | == Overview and Scope of Use== | ||
*The 'causally upstream of, positive effect' relation is used to relate GO Biological Processes (BP) and/or GO Molecular Functions (MF) when: | *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 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 | **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 | **in order for the downstream process to occur normally, the upstream process needs to occur | ||
* 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 | |||
== Annotation Usage Guidelines== | == Annotation Usage Guidelines== | ||
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** Usage Examples | ** 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. | ***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 | ||
**Usage Examples | **Usage Examples | ||
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* This relation is not used in the ontology. | * This relation is not used in the ontology. | ||
== Quality Control Checks == | == Quality Control Checks == |
Revision as of 10:10, 2 November 2022
Overview and Scope of Use
- 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
- 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
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.
- Usage Examples
- GO-CAM Annotation
- Usage Examples
- A peptidase activity that processes a signaling ligand.
- Usage Examples
Ontology Usage Guidelines
- This relation is not used in the ontology.
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