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Edits for #1404 and #1417
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@paolaroncaglia
paolaroncaglia committed Jan 14, 2022
1 parent 1687a70 commit 6fb92a5
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Showing 2 changed files with 16 additions and 6 deletions.
20 changes: 15 additions & 5 deletions src/ontology/efo-edit.owl
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Expand Up @@ -185786,9 +185786,8 @@ SubClassOf(efo:EFO_0008799 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersecti

# Class: efo:EFO_0008800 (MDA)

AnnotationAssertion(obo:IAO_0000115 efo:EFO_0008800 "Multiple displacement amplification (MDA)"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:11381035") Annotation(oboInOwl:hasDbXref "Wikipedia:Multiple_displacement_amplification") obo:IAO_0000115 efo:EFO_0008800 "Multiple displacement amplification (MDA)"^^xsd:string)
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0008800 "Dani Welter"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0008800 "PMID:11381035"^^xsd:string)
AnnotationAssertion(rdfs:label efo:EFO_0008800 "MDA"^^xsd:string)
SubClassOf(efo:EFO_0008800 obo:OBI_0000070)
SubClassOf(efo:EFO_0008800 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersectionOf(obo:OBI_0000275 ObjectSomeValuesFrom(obo:RO_0000081 obo:CHEBI_16991))))
Expand Down Expand Up @@ -186366,12 +186365,12 @@ SubClassOf(efo:EFO_0008863 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersecti

# Class: efo:EFO_0008864 (PMA)

AnnotationAssertion(obo:IAO_0000115 efo:EFO_0008864 "Phi29 DNA polymerase multiple amplification (PMA)"^^xsd:string)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:23267071") Annotation(oboInOwl:hasDbXref "Wikipedia:Multiple_displacement_amplification#Phi_29_DNA_polymerase") obo:IAO_0000115 efo:EFO_0008864 "Phi29 DNA polymerase multiple amplification (PMA)"^^xsd:string)
AnnotationAssertion(obo:IAO_0000117 efo:EFO_0008864 "Dani Welter"^^xsd:string)
AnnotationAssertion(oboInOwl:hasDbXref efo:EFO_0008864 "PMID:23267071"^^xsd:string)
AnnotationAssertion(rdfs:label efo:EFO_0008864 "PMA"^^xsd:string)
SubClassOf(efo:EFO_0008864 obo:OBI_0000070)
SubClassOf(efo:EFO_0008864 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersectionOf(obo:OBI_0000275 ObjectSomeValuesFrom(obo:RO_0000081 obo:CHEBI_33697))))
SubClassOf(efo:EFO_0008864 efo:EFO_0008800)
SubClassOf(efo:EFO_0008864 ObjectSomeValuesFrom(obo:BFO_0000055 ObjectIntersectionOf(obo:OBI_0000275 ObjectSomeValuesFrom(obo:RO_0000081 obo:CHEBI_16991))))

# Class: efo:EFO_0008865 (Pol II CLIP)

Expand Down Expand Up @@ -214338,20 +214337,23 @@ SubClassOf(efo:EFO_0030063 obo:IAO_0000030)

# Class: efo:EFO_0030064 (regional base ploidy)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030064 "Copy number assessment of regional base ploidy.")
AnnotationAssertion(dc:creator efo:EFO_0030064 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030064 "2022-01-14T11:10:12Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030064 "regional base ploidy")
SubClassOf(efo:EFO_0030064 efo:EFO_0030063)

# Class: efo:EFO_0030065 (copy-neutral loss of heterozygosity)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030065 "Assessment of copy-neutral loss of heterozygosity.")
AnnotationAssertion(dc:creator efo:EFO_0030065 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030065 "2022-01-14T11:10:59Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030065 "copy-neutral loss of heterozygosity")
SubClassOf(efo:EFO_0030065 efo:EFO_0030064)

# Class: efo:EFO_0030066 (relative copy number variation)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030066 "Assessment of relative copy number variation.")
AnnotationAssertion(dc:creator efo:EFO_0030066 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030066 "2022-01-14T11:24:49Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0030066 "observed copy number variation")
Expand All @@ -214362,41 +214364,48 @@ SubClassOf(efo:EFO_0030066 efo:EFO_0030063)

# Class: efo:EFO_0030067 (copy number loss)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030067 "Assessment of genomic copy number loss.")
AnnotationAssertion(dc:creator efo:EFO_0030067 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030067 "2022-01-14T11:25:28Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030067 "copy number loss")
SubClassOf(efo:EFO_0030067 efo:EFO_0030066)

# Class: efo:EFO_0030068 (low-level copy number loss)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030068 "Assessment of low-level genomic copy number loss.")
AnnotationAssertion(dc:creator efo:EFO_0030068 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030068 "2022-01-14T11:25:45Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030068 "low-level copy number loss")
SubClassOf(efo:EFO_0030068 efo:EFO_0030067)

# Class: efo:EFO_0030069 (complete genomic deletion)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030069 "Assessment of complete genomic deletion.")
AnnotationAssertion(dc:creator efo:EFO_0030069 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030069 "2022-01-14T11:26:00Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:hasExactSynonym efo:EFO_0030069 "homozygous deletion")
AnnotationAssertion(rdfs:label efo:EFO_0030069 "complete genomic deletion")
SubClassOf(efo:EFO_0030069 efo:EFO_0030067)

# Class: efo:EFO_0030070 (copy number gain)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030070 "Assessment of genomic copy number gain.")
AnnotationAssertion(dc:creator efo:EFO_0030070 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030070 "2022-01-14T11:26:27Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030070 "copy number gain")
SubClassOf(efo:EFO_0030070 efo:EFO_0030066)

# Class: efo:EFO_0030071 (low-level copy number gain)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030071 "Assessment of low-level genomic copy number gain.")
AnnotationAssertion(dc:creator efo:EFO_0030071 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030071 "2022-01-14T11:26:45Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:label efo:EFO_0030071 "low-level copy number gain")
SubClassOf(efo:EFO_0030071 efo:EFO_0030070)

# Class: efo:EFO_0030072 (high-level copy number gain)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030072 "Assessment of high-level genomic copy number gain.")
AnnotationAssertion(dc:creator efo:EFO_0030072 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030072 "2022-01-14T11:27:07Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:comment efo:EFO_0030072 "Commonly but not consistently used for >=5 copies on a bi-allelic genome region.")
Expand All @@ -214405,6 +214414,7 @@ SubClassOf(efo:EFO_0030072 efo:EFO_0030070)

# Class: efo:EFO_0030073 (focal genome amplification)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-9903-4248") obo:IAO_0000115 efo:EFO_0030073 "Assessment of focal genome amplification.")
AnnotationAssertion(dc:creator efo:EFO_0030073 "paola"^^xsd:string)
AnnotationAssertion(dc:date efo:EFO_0030073 "2022-01-14T11:28:10Z"^^xsd:dateTime)
AnnotationAssertion(rdfs:comment efo:EFO_0030073 "Commonly used for localized multi-copy genome amplification events where the region does not extend >3Mb (varying 1-5Mb) and may exist in a large number of copies.")
Expand Down
2 changes: 1 addition & 1 deletion src/ontology/efo-edit.properties
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Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
#Fri Jan 14 12:42:00 CET 2022
#Fri Jan 14 16:36:47 CET 2022
jdbc.url=
jdbc.driver=
jdbc.user=
Expand Down

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