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Merge pull request #2272 from EBISPOT/2243
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Added measurement for #2243 and imported term for #2216
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@zoependlington
zoependlington authored Aug 14, 2024
2 parents e1d02c8 + 1d6ef19 commit 6884649
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39 changes: 38 additions & 1 deletion efo-base.owl
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Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the
License. </dc:rights>
<terms:license>www.apache.org/licenses/LICENSE-2.0</terms:license>
<rdfs:comment>2024-08-08</rdfs:comment>
<rdfs:comment>2024-08-14</rdfs:comment>
<owl:versionInfo>3.68.0</owl:versionInfo>
</owl:Ontology>

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<!-- http://www.ebi.ac.uk/efo/EFO_0022840 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0022840">
<rdfs:subClassOf rdf:resource="http://www.ebi.ac.uk/efo/EFO_0002699"/>
<obo:IAO_0000115>The Illumina NovaSeq X is a high-throughput sequencing machine developed by Illumina.</obo:IAO_0000115>
<dc:creator>Zoe May Pendlington</dc:creator>
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2024-08-08T13:01:38Z</dc:date>
<rdfs:label xml:lang="en">Illumina NovaSeq X</rdfs:label>
</owl:Class>



<!-- http://www.ebi.ac.uk/efo/EFO_0022841 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0022841">
<rdfs:subClassOf rdf:resource="http://www.ebi.ac.uk/efo/EFO_0002699"/>
<obo:IAO_0000115>The Illumina NovaSeq X Plus is a high-throughput sequencing machine developed by Illumina.</obo:IAO_0000115>
<dc:creator>Zoe May Pendlington</dc:creator>
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2024-08-08T13:10:10Z</dc:date>
<rdfs:label xml:lang="en">Illumina NovaSeq X Plus</rdfs:label>
</owl:Class>



<!-- http://www.ebi.ac.uk/efo/EFO_0022842 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0022842">
<rdfs:subClassOf rdf:resource="http://www.ebi.ac.uk/efo/EFO_0004554"/>
<obo:IAO_0000115>It is the most common clonal somatic alteration in leukocytes of female individuals.</obo:IAO_0000115>
<dc:creator>Zoe May Pendlington</dc:creator>
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2024-08-14T09:43:25Z</dc:date>
<oboInOwl:hasExactSynonym>mLOX</oboInOwl:hasExactSynonym>
<rdfs:label xml:lang="en">mosaic loss of chromosome X measurement</rdfs:label>
</owl:Class>



<!-- http://www.ebi.ac.uk/efo/EFO_0030000 -->

<owl:Class rdf:about="http://www.ebi.ac.uk/efo/EFO_0030000">
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10 changes: 10 additions & 0 deletions src/ontology/efo-edit.owl
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Expand Up @@ -17225,6 +17225,7 @@ Declaration(Class(efo:EFO_0022838))
Declaration(Class(efo:EFO_0022839))
Declaration(Class(efo:EFO_0022840))
Declaration(Class(efo:EFO_0022841))
Declaration(Class(efo:EFO_0022842))
Declaration(Class(efo:EFO_0030000))
Declaration(Class(efo:EFO_0030001))
Declaration(Class(efo:EFO_0030002))
Expand Down Expand Up @@ -207567,6 +207568,15 @@ AnnotationAssertion(dc:date efo:EFO_0022841 "2024-08-08T13:10:10Z"^^xsd:dateTime
AnnotationAssertion(rdfs:label efo:EFO_0022841 "Illumina NovaSeq X Plus"@en)
SubClassOf(efo:EFO_0022841 efo:EFO_0002699)

# Class: efo:EFO_0022842 (mosaic loss of chromosome X measurement)

AnnotationAssertion(obo:IAO_0000115 efo:EFO_0022842 "It is the most common clonal somatic alteration in leukocytes of female individuals.")
AnnotationAssertion(dc:creator efo:EFO_0022842 "Zoe May Pendlington")
AnnotationAssertion(dc:date efo:EFO_0022842 "2024-08-14T09:43:25Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0022842 "mLOX")
AnnotationAssertion(rdfs:label efo:EFO_0022842 "mosaic loss of chromosome X measurement"@en)
SubClassOf(efo:EFO_0022842 efo:EFO_0004554)

# Class: efo:EFO_0030000 (STARmap)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:29930089") Annotation(oboInOwl:hasDbXref "https://orcid.org/0000-0002-3090-9894") obo:IAO_0000115 efo:EFO_0030000 "STARmap is an image-based technology for 3D intact-tissue RNA sequencing, which integrates hydrogel-tissue chemistry, targeted signal amplification, and in situ sequencing.")
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19 changes: 19 additions & 0 deletions src/ontology/imports/hp_import.owl
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<!-- http://purl.obolibrary.org/obo/HP_0025569 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/HP_0025569">
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/HP_0000610"/>
<obo:IAO_0000115>The presence of aneurysmal polypoidal lesions in the choroidal vasculature. The aneurysmal dilatations, also known as polyps, may be found at subfoveal, juxtafoveal, extrafoveal, peripapillary or even peripheral regions. These polypoidal dilatations may be visible as reddish-orange subretinal nodules during ophthalmoscopic examination. The polypoidal lesions are best detected on indocyanine green angiography (ICGA) and might be associated with a branching vascular network (BVN) of neovascularization.</obo:IAO_0000115>
<dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2017-12-14T13:39:58Z</dc:date>
<terms:creator rdf:resource="https://orcid.org/0000-0002-0736-9199"/>
<rdfs:comment>The presence of choroidal polyps and BVN can lead to recurrent episodes of exudative retinal detachment, serous or hemorrhagic pigment epithelial detachment (PED), subretinal hemorrhage, and subretinal exudation.</rdfs:comment>
<rdfs:label>Polypoidal choroidal vasculopathy</rdfs:label>
</owl:Class>
<owl:Axiom>
<owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/HP_0025569"/>
<owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
<owl:annotatedTarget>The presence of aneurysmal polypoidal lesions in the choroidal vasculature. The aneurysmal dilatations, also known as polyps, may be found at subfoveal, juxtafoveal, extrafoveal, peripapillary or even peripheral regions. These polypoidal dilatations may be visible as reddish-orange subretinal nodules during ophthalmoscopic examination. The polypoidal lesions are best detected on indocyanine green angiography (ICGA) and might be associated with a branching vascular network (BVN) of neovascularization.</owl:annotatedTarget>
<oboInOwl:hasDbXref>PMID:24653824</oboInOwl:hasDbXref>
</owl:Axiom>



<!-- http://purl.obolibrary.org/obo/HP_0025700 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/HP_0025700">
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1 change: 1 addition & 0 deletions src/ontology/imports/hp_terms.txt
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Expand Up @@ -1646,6 +1646,7 @@ http://purl.obolibrary.org/obo/HP_0025428
http://purl.obolibrary.org/obo/HP_0025501
http://purl.obolibrary.org/obo/HP_0025517
http://purl.obolibrary.org/obo/HP_0025534
http://purl.obolibrary.org/obo/HP_0025569
http://purl.obolibrary.org/obo/HP_0025700
http://purl.obolibrary.org/obo/HP_0030016
http://purl.obolibrary.org/obo/HP_0030050
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1 change: 1 addition & 0 deletions src/ontology/iri_dependencies/hp_terms.txt
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Expand Up @@ -1887,3 +1887,4 @@ http://purl.obolibrary.org/obo/HP_0009589
http://purl.obolibrary.org/obo/HP_0032025
http://purl.obolibrary.org/obo/HP_0003233
http://purl.obolibrary.org/obo/HP_0040298
http://purl.obolibrary.org/obo/HP_0025569
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