Guidelines for creating a Regulation Term: Difference between revisions
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See [[Ontology_Editors_Daily_Workflow]] for creating branches and basic Protégé instructions. | |||
* To create a ‘positive regulation of x’ or ‘negative regulation of x’ term, the parent ‘regulation of x’ term must first be created. | * To create a ‘positive regulation of x’ or ‘negative regulation of x’ term, the parent ‘regulation of x’ term must first be created. | ||
# To create a '''parent regulation term''', make sure the ‘Asserted view’ is active (not the ‘Inferred view’). | # To create a new term, here, the '''parent <code>regulation</code> term''', make sure the ‘Asserted view’ is active (not the ‘Inferred view’). | ||
# In the | # In the <code>Protege classes view</code>, navigate to <code>biological regulation</code>. | ||
# Click on the add subclass button at the top left corner. | # Click on the add subclass button at the top left corner. | ||
# In the pop-up window add the name of the new regulation term | # In the pop-up window add the name of the new regulation term <code>regulation of target process</code>. The identifier should auto-populate. Click the button to add the term. | ||
# Enter the appropriate information for namespace, definition, synonyms, etc. in the obo editing view as described in the ‘Creating a New Ontology Term’ Section. | # Enter the appropriate information for namespace, definition, synonyms, etc. in the obo editing view as described in the ‘Creating a New Ontology Term’ Section. | ||
# Standard definitions for regulation terms: | # Standard definitions for regulation terms: | ||
#* <code>Regulation: Any process that modulates the frequency, rate or extent of [process]</code> | |||
#* <code>Positive regulation: Any process that activates or increases the frequency, rate or extent of [process]</code> | |||
#* <code>Negative regulation: Any process that stops, prevents or reduces the frequency, rate or extent of [process]</code> | |||
# Create a logical definition for the term: biological regulation and regulates some target process. | # Create a logical definition for the term: <code>biological regulation and (negatively/positively)regulates some target process</code>. | ||
# Remove the asserted | # Remove the asserted <code>biological regulation</code> parent. | ||
# Run the reasoner to be sure that reasoning results in the correct inferred parents. | # Run the reasoner to be sure that reasoning results in the correct inferred parents. | ||
# Save changes. | # Save changes. | ||
See [[Ontology_Editors_Daily_Workflow]] for commit, push and merge instructions. | |||
== Review Status == | |||
Last reviewed: May 24, 2017 | |||
[[Ontology_Development#Editing_the_Ontology |Back to: Editing the Ontology]] | |||
[[Category:GO Editors]][[Category:Ontology]][[Category:Editor_Guide_2018]] | [[Category:GO Editors]][[Category:Ontology]][[Category:Editor_Guide_2018]] |
Revision as of 10:31, 5 April 2019
See Ontology_Editors_Daily_Workflow for creating branches and basic Protégé instructions.
- To create a ‘positive regulation of x’ or ‘negative regulation of x’ term, the parent ‘regulation of x’ term must first be created.
- To create a new term, here, the parent
regulation
term, make sure the ‘Asserted view’ is active (not the ‘Inferred view’). - In the
Protege classes view
, navigate tobiological regulation
. - Click on the add subclass button at the top left corner.
- In the pop-up window add the name of the new regulation term
regulation of target process
. The identifier should auto-populate. Click the button to add the term. - Enter the appropriate information for namespace, definition, synonyms, etc. in the obo editing view as described in the ‘Creating a New Ontology Term’ Section.
- Standard definitions for regulation terms:
Regulation: Any process that modulates the frequency, rate or extent of [process]
Positive regulation: Any process that activates or increases the frequency, rate or extent of [process]
Negative regulation: Any process that stops, prevents or reduces the frequency, rate or extent of [process]
- Create a logical definition for the term:
biological regulation and (negatively/positively)regulates some target process
. - Remove the asserted
biological regulation
parent. - Run the reasoner to be sure that reasoning results in the correct inferred parents.
- Save changes.
See Ontology_Editors_Daily_Workflow for commit, push and merge instructions.
Review Status
Last reviewed: May 24, 2017