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Adjust hierarchy of somatosensory neurons (sensu Teleostei) #2751

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Adjust hierarchy of somatosensory neurons (sensu Teleostei) #2751

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a4640c1
Adjust hierarchy of somatosensory neurons (sensu Teleostei)
AvolaAmg Nov 13, 2024
70e1c7e
Merge branch 'master' into Adjust-hierarchy-of-somatosensory-neurons-…
AvolaAmg Nov 14, 2024
730adc5
Merge branch 'master' into Adjust-hierarchy-of-somatosensory-neurons-…
Caroline-99 Nov 14, 2024
436c572
Merge branch 'master' into Adjust-hierarchy-of-somatosensory-neurons-…
AvolaAmg Nov 22, 2024
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29 changes: 27 additions & 2 deletions src/ontology/cl-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -3087,6 +3087,8 @@ Declaration(Class(obo:CL_4042033))
Declaration(Class(obo:CL_4042034))
Declaration(Class(obo:CL_4042035))
Declaration(Class(obo:CL_4042036))
Declaration(Class(obo:CL_4042037))
Declaration(Class(obo:CL_4042038))
Declaration(Class(obo:CL_4042039))
Declaration(Class(obo:CL_4042040))
Declaration(Class(obo:CL_4047006))
Expand Down Expand Up @@ -8018,7 +8020,7 @@ SubClassOf(obo:CL_0000529 obo:CL_0000710)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1842357") Annotation(oboInOwl:hasDbXref "doi:10.1242/dev.108.1.121") obo:IAO_0000115 obo:CL_0000530 "A neuron that develops during the early segmentation stages in teleosts, before the neural tube is formed.")
AnnotationAssertion(rdfs:label obo:CL_0000530 "primary neuron (sensu Teleostei)")
SubClassOf(obo:CL_0000530 obo:CL_0000540)
SubClassOf(obo:CL_0000530 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001017))
SubClassOf(obo:CL_0000530 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0002240))
SubClassOf(Annotation(obo:IAO_0000233 "https://github.com/obophenotype/cell-ontology/pull/1950") obo:CL_0000530 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_32443))

# Class: obo:CL_0000531 (primary sensory neuron (sensu Teleostei))
Expand All @@ -8029,6 +8031,10 @@ EquivalentClasses(obo:CL_0000531 ObjectIntersectionOf(obo:CL_0000101 obo:CL_0000

# Class: obo:CL_0000532 (CAP motoneuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17971221") Annotation(oboInOwl:hasDbXref "PMID:35431796") obo:IAO_0000115 obo:CL_0000532 "A primary motor neuron with its soma in the caudal region of a spinal cord. The axon of this motoneuron exit the spinal cord from one single point and innervates muscles from its lateral region.")
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I think CAP motoneuron innervating muscles from its **lateral region** needs more explanation. I found that this motornereron innervates the ventral portion of the axial musculature from its lateral region (PMID: 3746410, PMID: 3746409). If this is accurate, I would suggest adding The axon of this motoneuron exit the spinal cord from one single point and innervates the lateral surface of ventral axial muscles

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:3746410") oboInOwl:hasExactSynonym obo:CL_0000532 "CaP motorneuron")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17971221") oboInOwl:hasRelatedSynonym obo:CL_0000532 "cap cell")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:18077593") oboInOwl:hasRelatedSynonym obo:CL_0000532 "caudal primary motor neuron")
AnnotationAssertion(rdfs:label obo:CL_0000532 "CAP motoneuron")
SubClassOf(obo:CL_0000532 obo:CL_0000533)

Expand All @@ -8051,8 +8057,9 @@ SubClassOf(obo:CL_0000534 obo:CL_0000530)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1842357") Annotation(oboInOwl:hasDbXref "doi:10.1242/dev.108.1.121") obo:IAO_0000115 obo:CL_0000535 "A neuron of teleosts that develops later than a primary neuron, typically during the larval stages.")
AnnotationAssertion(rdfs:label obo:CL_0000535 "secondary neuron (sensu Teleostei)")
SubClassOf(obo:CL_0000535 obo:CL_0000540)
SubClassOf(obo:CL_0000535 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0001017))
SubClassOf(obo:CL_0000535 ObjectSomeValuesFrom(obo:RO_0002100 obo:UBERON_0002240))
SubClassOf(Annotation(obo:IAO_0000233 "https://github.com/obophenotype/cell-ontology/pull/1950") obo:CL_0000535 ObjectSomeValuesFrom(obo:RO_0002162 obo:NCBITaxon_32443))
SubClassOf(obo:CL_0000535 ObjectSomeValuesFrom(obo:RO_0002202 obo:UBERON_0002342))

# Class: obo:CL_0000536 (secondary motor neuron (sensu Teleostei))

Expand Down Expand Up @@ -32748,6 +32755,24 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:38020069") rdfs:comment
AnnotationAssertion(rdfs:label obo:CL_4042036 "melanin-concentrating hormone neuron"@en)
SubClassOf(obo:CL_4042036 obo:CL_2000029)

# Class: obo:CL_4042037 (middle primary motoneuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:35431796") Annotation(oboInOwl:hasDbXref "PMID:3746410") obo:IAO_0000115 obo:CL_4042037 "A type of primary motor neuron located in the middle region of the spinal cord. This primary motor neuron type is characterized by their distinct axonal pathways that innervate the middle trunk muscles.")
AnnotationAssertion(terms:contributor obo:CL_4042037 <https://orcid.org/0000-0002-0098-8958>)
AnnotationAssertion(terms:date obo:CL_4042037 "2024-11-13T13:39:28Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_4042037 "ZFA:0005179")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:3746410") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4042037 "MiP")
AnnotationAssertion(rdfs:label obo:CL_4042037 "middle primary motoneuron"@en)
SubClassOf(obo:CL_4042037 obo:CL_0000533)

# Class: obo:CL_4042038 (rostral primary motorneuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:35431796") Annotation(oboInOwl:hasDbXref "PMID:3746410") obo:IAO_0000115 obo:CL_4042038 "A type of primary motor neuron situated in the rostral region of the spinal cord. RoP neurons extend their axons to innervate the dorsal trunk musculature.")
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Based on these references PMID: 35431796 and PMID: 3746410, RoP neurons extend their axons to innervate the ventral trunk musculature not the dorsal trunk musculature

AnnotationAssertion(terms:contributor obo:CL_4042038 <https://orcid.org/0000-0002-0098-8958>)
AnnotationAssertion(terms:date obo:CL_4042038 "2024-11-13T13:42:01Z"^^xsd:dateTime)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:3746410") Annotation(oboInOwl:hasSynonymType obo:OMO_0003000) oboInOwl:hasRelatedSynonym obo:CL_4042038 "RoP")
AnnotationAssertion(rdfs:label obo:CL_4042038 "rostral primary motorneuron"@en)
SubClassOf(obo:CL_4042038 obo:CL_0000533)
# Class: obo:CL_4042039 (caudal ganglionic eminence derived neuron)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:12593982") Annotation(oboInOwl:hasDbXref "PMID:12637172") Annotation(oboInOwl:hasDbXref "PMID:20130169") Annotation(oboInOwl:hasDbXref "https://www.ncbi.nlm.nih.gov/books/NBK98190/") obo:IAO_0000115 obo:CL_4042039 "A neuron of the central nervous system that develops from a caudal ganglionic eminence.")
Expand Down
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