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Fixing IDs and syntax of DPs #13998

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Aug 8, 2017
Merged

Fixing IDs and syntax of DPs #13998

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16 changes: 8 additions & 8 deletions src/design_patterns/validated_patterns/activator_activity.tsv
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Original file line number Diff line number Diff line change
@@ -1,8 +1,8 @@
iri iri label regulated activity regulated activity label
GO:0008047 enzyme activator activity GO:0003824 catalytic activity
GO:0019209 kinase activator activity GO:0016301 kinase activity
GO:0019211 phosphatase activator activity GO:0016791 phosphatase activity
GO:0030295 protein kinase activator activity GO:0004672 protein kinase activity
GO:0072542 protein phosphatase activator activity GO:0004721 phosphoprotein phosphatase activity
GO:0030296 protein tyrosine kinase activator activity GO:0004713 protein tyrosine kinase activity
GO:0030297 transmembrane receptor protein tyrosine kinase activator activity GO:0004714 transmembrane receptor protein tyrosine kinase activity
?defined_class ?defined_class_label ?regulated_activity ?regulated_activity_label
<http://purl.obolibrary.org/obo/GO_0008047> "enzyme activator activity" <http://purl.obolibrary.org/obo/GO_0003824> "catalytic activity"
<http://purl.obolibrary.org/obo/GO_0019209> "kinase activator activity" <http://purl.obolibrary.org/obo/GO_0016301> "kinase activity"
<http://purl.obolibrary.org/obo/GO_0019211> "phosphatase activator activity" <http://purl.obolibrary.org/obo/GO_0016791> "phosphatase activity"
<http://purl.obolibrary.org/obo/GO_0030295> "protein kinase activator activity" <http://purl.obolibrary.org/obo/GO_0004672> "protein kinase activity"
<http://purl.obolibrary.org/obo/GO_0072542> "protein phosphatase activator activity" <http://purl.obolibrary.org/obo/GO_0004721> "phosphoprotein phosphatase activity"
<http://purl.obolibrary.org/obo/GO_0030296> "protein tyrosine kinase activator activity" <http://purl.obolibrary.org/obo/GO_0004713> "protein tyrosine kinase activity"
<http://purl.obolibrary.org/obo/GO_0030297> "transmembrane receptor protein tyrosine kinase activator activity" <http://purl.obolibrary.org/obo/GO_0004714> "transmembrane receptor protein tyrosine kinase activity"
4 changes: 2 additions & 2 deletions src/design_patterns/validated_patterns/envenomation.yaml
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Expand Up @@ -21,6 +21,6 @@ def:
- mod # Need a way to specify regex transformation that subs 'in the bitten organism' for 'in other organism'

equivalentTo:
text: "'envenomation resulting in modification of morphology or physiology of other organism' and 'has part' some '%s'"
text: "'envenomation resulting in modification of morphology or physiology of other organism' and 'has part' some %s"
vars:
- mod
- mod
4 changes: 2 additions & 2 deletions src/design_patterns/validated_patterns/import_into_cell.yaml
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Original file line number Diff line number Diff line change
@@ -1,9 +1,9 @@
pattern_name: import_into_cell
classes:
classes:
transport: GO:0006810
extracellular region: GO:0005576
intracellular part: GO:0044424
chemical entity: CHEBI_24431 # encompasses protein
chemical entity: CHEBI:24431 # encompasses protein
macromolecular complex: GO:0043234 # encompasses protein complex

relations:
Expand Down
8 changes: 4 additions & 4 deletions src/design_patterns/validated_patterns/inhibitor_activity.yaml
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Original file line number Diff line number Diff line change
@@ -1,12 +1,12 @@
pattern_name: inhibitor_activity

classes:
molecular_function: GO_0003674
catalytic activity: GO_0003824
molecular function: GO:0003674
catalytic activity: GO:0003824


relations:
directly negatively regulates: RO_0002630
directly negatively regulates: RO:0002630


vars:
Expand Down Expand Up @@ -34,6 +34,6 @@ def:


equivalentTo:
text: "'molecular_function that 'directly negatively regulates' some %s"
text: "'molecular function' that 'directly negatively regulates' some %s"
vars:
- regulated_activity
8 changes: 4 additions & 4 deletions src/design_patterns/validated_patterns/regulator_activity.yaml
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Original file line number Diff line number Diff line change
@@ -1,12 +1,12 @@
pattern_name: regulator_activity

classes:
molecular_function: GO_0003674
catalytic activity: GO_0003824
molecular_function: GO:0003674
catalytic activity: GO:0003824


relations:
directly regulates: RO_0002578
directly regulates: RO:0002578

vars:
regulated_activity: "'catalytic activity'"
Expand All @@ -33,6 +33,6 @@ def:


equivalentTo:
text: "'molecular_function that 'directly regulates' some %s"
text: "'molecular_function' that 'directly regulates' some %s"
vars:
- regulated_activity