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Fixes 2869 wrongly obsoleted 'CNS interneuron' (#2870)
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* Fixes 2869 wrongly obsoleted 'CNS interneuron'

Fixes 2869 wrongly obsoleted 'CNS interneuron'

* Mark term as deprecated
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@aleixpuigb
aleixpuigb authored Dec 24, 2024
1 parent e9b9108 commit 0f8126a
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Showing 2 changed files with 30 additions and 155 deletions.
10 changes: 10 additions & 0 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -449,6 +449,7 @@ Declaration(Class(obo:CL_0000398))
Declaration(Class(obo:CL_0000399))
Declaration(Class(obo:CL_0000400))
Declaration(Class(obo:CL_0000401))
Declaration(Class(obo:CL_0000402))
Declaration(Class(obo:CL_0000403))
Declaration(Class(obo:CL_0000404))
Declaration(Class(obo:CL_0000405))
Expand Down Expand Up @@ -7037,6 +7038,15 @@ AnnotationAssertion(rdfs:comment obo:CL_0000401 "Obsoleted as plasmatocytes are
AnnotationAssertion(rdfs:label obo:CL_0000401 "obsolete macrophage (sensu Diptera)")
AnnotationAssertion(owl:deprecated obo:CL_0000401 "true"^^xsd:boolean)

# Class: obo:CL_0000402 (obsolete CNS interneuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "doi:10.1016/B978-0-12-817424-1.00001-X") obo:IAO_0000115 obo:CL_0000402 "OBSOLETE. An interneuron that has its cell body in a central nervous system.")
AnnotationAssertion(obo:IAO_0000233 obo:CL_0000402 <https://github.com/obophenotype/cell-ontology/issues/2869>)
AnnotationAssertion(obo:IAO_0100001 obo:CL_0000402 obo:CL_0000099)
AnnotationAssertion(rdfs:comment obo:CL_0000402 "Interneurons are commonly described as being only found in the central nervous system. However, in CL we define 'interneuron' more broadly as any neuron that is neither a motor neuron nor a sensory neuron, regardless of its location, so we need this term to refer strictly to interneurons of the central nervous system.")
AnnotationAssertion(rdfs:label obo:CL_0000402 "obsolete CNS interneuron")
AnnotationAssertion(owl:deprecated obo:CL_0000402 "true"^^xsd:boolean)

# Class: obo:CL_0000403 (obo:CL_0000403)

AnnotationAssertion(obo:IAO_0000231 obo:CL_0000403 obo:IAO_0000227)
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175 changes: 20 additions & 155 deletions src/ontology/components/hra_subset.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -23,12 +23,6 @@



<!-- http://purl.obolibrary.org/obo/IAO_0100001 -->

<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0100001"/>



<!-- http://purl.obolibrary.org/obo/RO_0002175 -->

<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0002175"/>
Expand Down Expand Up @@ -559,11 +553,8 @@
<!-- http://purl.obolibrary.org/obo/CL_0000402 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0000402">
<obo:IAO_0100001 rdf:resource="http://purl.obolibrary.org/obo/CL_0000099"/>
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
<rdfs:comment>https://github.com/obophenotype/cell-ontology/pull/2686</rdfs:comment>
<owl:deprecated rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
</owl:Class>


Expand Down Expand Up @@ -1063,15 +1054,6 @@



<!-- http://purl.obolibrary.org/obo/CL_0000751 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0000751">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0000764 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0000764">
Expand Down Expand Up @@ -2422,42 +2404,6 @@



<!-- http://purl.obolibrary.org/obo/CL_0004219 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0004219">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0004232 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0004232">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0004252 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0004252">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0004253 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0004253">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0005006 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0005006">
Expand Down Expand Up @@ -2872,15 +2818,6 @@



<!-- http://purl.obolibrary.org/obo/CL_0011005 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0011005">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_0011031 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_0011031">
Expand Down Expand Up @@ -3703,7 +3640,7 @@
<!-- http://purl.obolibrary.org/obo/CL_2000054 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_2000054">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_10066"/>
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>

Expand Down Expand Up @@ -4123,15 +4060,6 @@



<!-- http://purl.obolibrary.org/obo/CL_4030028 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4030028">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4030032 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4030032">
Expand Down Expand Up @@ -4249,15 +4177,6 @@



<!-- http://purl.obolibrary.org/obo/CL_4033019 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033019">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033020 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033020">
Expand Down Expand Up @@ -4321,78 +4240,6 @@



<!-- http://purl.obolibrary.org/obo/CL_4033027 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033027">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033028 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033028">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033029 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033029">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033030 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033030">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033031 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033031">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033032 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033032">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033033 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033033">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033034 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033034">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033038 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033038">
Expand Down Expand Up @@ -4465,6 +4312,15 @@



<!-- http://purl.obolibrary.org/obo/CL_4033050 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033050">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033055 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033055">
Expand Down Expand Up @@ -4507,9 +4363,18 @@
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>



<!-- http://purl.obolibrary.org/obo/CL_4033077 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/CL_4033077">
<obo:RO_0002175 rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
<oboInOwl:inSubset rdf:resource="http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas"/>
</owl:Class>
</rdf:RDF>



<!-- Generated by the OWL API (version 4.5.26.2023-07-17T20:34:13Z) https://github.com/owlcs/owlapi -->
<!-- Generated by the OWL API (version 4.5.29) https://github.com/owlcs/owlapi -->

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