Add new term 'functional assay in yeast' (EFO_0920043) (#2583)

* Initial plan

* Add new term 'functional assay in yeast' (EFO_0920043)

Added new EFO term for yeast-based functional assays used in variant
classification and functional genomics studies.

- ID: EFO_0920043
- Parent: assay (OBI_0000070)
- Definition references: PMID:38486025, PMID:34573285
- Synonyms: yeast functional assay, yeast-based functional assay,
  yeast complementation assay (narrow), S. cerevisiae functional assay (related)

Co-authored-by: aleixpuigb <[email protected]>

---------

Co-authored-by: copilot-swe-agent[bot] <[email protected]>
Co-authored-by: aleixpuigb <[email protected]>

Author: Copilot

src/ontology/efo-edit.owl

@@ -486969,8 +486969,8 @@ Smart-seq3 is a continuation and improvement of the Smart-seq technology, specif
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/MONDO_0004822"/>
         <obo:IAO_0000115>A bronchiectasis endotype characterized by cystic fibrosis transmembrane conductance regulator (CFTR) dysfunction that does not meet full diagnostic criteria for cystic fibrosis, typically presenting with elevated sweat chloride concentration (intermediate range 30-59 mmol/L), mucociliary clearance defects, and susceptibility to nontuberculous mycobacterial pulmonary infection. Patients may carry heterozygous CFTR mutations or have reduced CFTR function without detectable mutations, and may be candidates for CFTR modulator therapy.</obo:IAO_0000115>
         <obo:IAO_0000117>AI agent</obo:IAO_0000117>
-        <oboInOwl:hasExactSynonym>CFTR-related bronchiectasis</oboInOwl:hasExactSynonym>
         <oboInOwl:hasExactSynonym>CFTR-predominant bronchiectasis</oboInOwl:hasExactSynonym>
+        <oboInOwl:hasExactSynonym>CFTR-related bronchiectasis</oboInOwl:hasExactSynonym>
         <oboInOwl:hasExactSynonym>cystic fibrosis transmembrane conductance regulator dysfunction bronchiectasis</oboInOwl:hasExactSynonym>
         <rdfs:label xml:lang="en">CFTR dysfunction bronchiectasis</rdfs:label>
         <rdfs:seeAlso>https://github.com/EBISPOT/efo/issues/2546</rdfs:seeAlso>
@@ -487049,6 +487049,28 @@ Smart-seq3 is a continuation and improvement of the Smart-seq technology, specif
 
 
 
+    <!-- http://www.ebi.ac.uk/efo/EFO_0920043 -->
+
+    <owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0920043">
+        <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/OBI_0000070"/>
+        <obo:IAO_0000115>An assay that evaluates the biological function or activity of a gene, protein, or variant by measuring a phenotypic or molecular readout in a yeast cell system, typically through growth, morphology, stress sensitivity, reporter expression, or related outputs.</obo:IAO_0000115>
+        <obo:IAO_0000117>AI agent</obo:IAO_0000117>
+        <oboInOwl:hasExactSynonym>yeast functional assay</oboInOwl:hasExactSynonym>
+        <oboInOwl:hasExactSynonym>yeast-based functional assay</oboInOwl:hasExactSynonym>
+        <oboInOwl:hasNarrowSynonym>yeast complementation assay</oboInOwl:hasNarrowSynonym>
+        <oboInOwl:hasRelatedSynonym>S. cerevisiae functional assay</oboInOwl:hasRelatedSynonym>
+        <rdfs:label xml:lang="en">functional assay in yeast</rdfs:label>
+    </owl:Class>
+    <owl:Axiom>
+        <owl:annotatedSource rdf:resource="http://www.ebi.ac.uk/efo/EFO_0920043"/>
+        <owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
+        <owl:annotatedTarget>An assay that evaluates the biological function or activity of a gene, protein, or variant by measuring a phenotypic or molecular readout in a yeast cell system, typically through growth, morphology, stress sensitivity, reporter expression, or related outputs.</owl:annotatedTarget>
+        <efo:definition_citation>PMID:34573285</efo:definition_citation>
+        <efo:definition_citation>PMID:38486025</efo:definition_citation>
+    </owl:Axiom>
+    
+
+
     <!-- http://www.ebi.ac.uk/efo/EFO_1000003 -->
 
     <owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_1000003">
@@ -680408,27 +680430,27 @@ Use: http://purl.obolibrary.org/obo/HP_0007773</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000992</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000967</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000992</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000967</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000967</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000992</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000967</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000992</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001547</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_2045321</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001547</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:2045321</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000964</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001547</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000964</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001547</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
@@ -680438,21 +680460,21 @@ Use: http://purl.obolibrary.org/obo/HP_0007773</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001547</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1000964</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001547</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1000964</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_2045321</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0010499</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:2045321</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0010499</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001565</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_2045376</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001565</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:2045376</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
@@ -680462,21 +680484,21 @@ Use: http://purl.obolibrary.org/obo/HP_0007773</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_2045376</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001565</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:2045376</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001565</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0010499</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1001001</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0010499</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1001001</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>
     <rdf:Description>
-        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_1001001</obo:IAO_0100001>
+        <obo:IAO_0100001>http://purl.obolibrary.org/obo/OBA_VT0001547</obo:IAO_0100001>
         <efo:obsoleted_in_version>3.77.0</efo:obsoleted_in_version>
-        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:1001001</efo:reason_for_obsolescence>
+        <efo:reason_for_obsolescence>Project to replace EFO measurement branch with enriched OBA branch. Please use: OBA:VT0001547</efo:reason_for_obsolescence>
         <owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
     </rdf:Description>