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Add ethmoidal veins (#3348)
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* Add ethmoidal veins

requested by HUBMap.

* Fix unsats

related to the anatomical cavity of ethmoid sinus.

* Update definitions.owl

* Fix a typo in the text definition

* Update definitions.owl

* Fix incorrect vessel_supplies_blood_to filler

* Update definitions.owl

* Fix location of ethmoidal vein

* Update definitions.owl

* Improve definitions and references

* Fix tributary

* Fix tributary (second attempt)

* Update definitions.owl

* Update the partonomy relationship of ethmoid vein

Now the ethmoid vein is asserted to be part of the vasculature of head, instead of face.

* Update definitions.owl
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@rays22
rays22 authored Aug 30, 2024
1 parent 25213c6 commit 6bd5276
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5 changes: 4 additions & 1 deletion src/patterns/data/default/vein_and_venule_pattern.tsv
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Expand Up @@ -33,4 +33,7 @@ UBERON:8600092 radial vein FMA:22947 UBERON:0001638 UBERON:0001460 "A vein that
UBERON:8600093 ulnar vein FMA:22950 UBERON:0001638 UBERON:0001460 A vein that is tributary of the brachial vein and drains blood from the hand and medial and posterior aspect of forearm. wikipedia:Ulnar_veins UBERON:0001413 UBERON:0002386|UBERON:0002398 https://orcid.org/0000-0001-6677-8489 2024-06-06T09:53:48Z
UBERON:8600103 anterior internal vertebral venous plexus FMA:4869 UBERON:0001593 UBERON:0002240 "A venous plexus that is tributary of the basivertebral veins and internal vertebral veins, draining blood from the vertebrae and spinal cord. The anterior internal vertebral venous plexus is located within the vertebral canal." wikipedia:Internal_vertebral_venous_plexuses UBERON:8600104 https://orcid.org/0000-0001-6677-8489 2024-06-06T09:53:48Z
UBERON:8600104 intervertebral vein FMA:76736 UBERON:0001638 UBERON:0002240 "A vein that drains blood from the vertebral column and intervertebral discs. In the neck, it is tributary of into the vertebral veins. In the thorax, it is tributary of the posterior intercostal veins. In the lumbar and sacral regions, it is tributary of the lumbar and lateral sacral veins" https://www.kenhub.com/en/library/anatomy/veins-of-the-vertebral-column UBERON:0012199|UBERON:8600105|UBERON:8600056 https://orcid.org/0000-0001-6677-8489 2024-06-06T09:53:48Z
UBERON:8600105 lumbar vein FMA:70889 UBERON:0001638 UBERON:0002355 A vein that is tributary of the inferior vena cava and drains blood from the posterior abdominal wall and lumbar region. https://www.kenhub.com/en/library/anatomy/lumbar-veins set of lumbar veins FMA:70889 UBERON:0001072 UBERON:0003697|UBERON:0005462 https://orcid.org/0000-0001-6677-8489 2024-06-06T09:53:48Z
UBERON:8600105 lumbar vein FMA:70889 UBERON:0001638 UBERON:0002355 A vein that is tributary of the inferior vena cava and drains blood from the posterior abdominal wall and lumbar region. https://www.kenhub.com/en/library/anatomy/lumbar-veins set of lumbar veins FMA:70889 UBERON:0001072 UBERON:0003697|UBERON:0005462 https://orcid.org/0000-0001-6677-8489 2024-06-06T09:53:48Z
UBERON:8420001 ethmoidal vein FMA:51770 UBERON:0001638 UBERON:0002200 A vein that accompanies an ethmoidal artery and drains the ethmoidal cells. wikipedia:Ethmoidal_veins|https://www.ncbi.nlm.nih.gov/books/NBK499826/ UBERON:0011241 https://orcid.org/0000-0001-8314-2140 2024-08-28T09:55:00Z
UBERON:8420002 anterior ethmoidal vein FMA:51771 UBERON:8420001 An ethmoidal vein that accompanies an anterior ethmoidal artery. The anterior ethmoidal vein normally drains into the inferior root of the superior ophthalmic vein. https://doi.org/10.1167/iovs.02-0865|https://doi.org/10.1007/978-3-031-40697-3_23 UBERON:0011192 https://orcid.org/0000-0001-8314-2140 2024-08-28T09:55:00Z
UBERON:8420003 posterior ethmoidal vein FMA:51772 UBERON:8420001 An ethmoidal vein that accompanies a posterior ethmoidal artery. The posterior ethmoidal vein often drains into a venous network under the orbital roof. https://doi.org/10.1167/iovs.02-0865|https://doi.org/10.1007/978-3-031-40697-3_23 https://orcid.org/0000-0001-8314-2140 2024-08-28T09:55:00Z
40 changes: 38 additions & 2 deletions src/patterns/definitions.owl
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Expand Up @@ -7,8 +7,8 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)


Ontology(<http://purl.obolibrary.org/obo/uberon/patterns/definitions.owl>
<http://purl.obolibrary.org/obo/uberon/releases/2024-08-21/patterns/definitions.owl>
Annotation(owl:versionInfo "2024-08-21")
<http://purl.obolibrary.org/obo/uberon/releases/2024-08-29/patterns/definitions.owl>
Annotation(owl:versionInfo "2024-08-29")

Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000004>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0000007>))
Expand Down Expand Up @@ -78,6 +78,7 @@ Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002060>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002084>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002094>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002103>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002200>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002240>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002299>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0002345>))
Expand Down Expand Up @@ -111,6 +112,8 @@ Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0009679>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0010369>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0010496>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0010743>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0011192>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0011241>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0011640>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0012199>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0013137>))
Expand Down Expand Up @@ -145,6 +148,9 @@ Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0018598>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0018599>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0018600>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_0039262>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8420001>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8420002>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8420003>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8490000>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8490001>))
Declaration(Class(<http://purl.obolibrary.org/obo/UBERON_8490002>))
Expand Down Expand Up @@ -290,6 +296,36 @@ SubClassOf(<http://purl.obolibrary.org/obo/UBERON_0001394> ObjectSomeValuesFrom(

SubClassOf(<http://purl.obolibrary.org/obo/UBERON_0013137> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002252> <http://purl.obolibrary.org/obo/UBERON_0002060>))

# Class: <http://purl.obolibrary.org/obo/UBERON_8420001> (ethmoidal vein)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://www.ncbi.nlm.nih.gov/books/NBK499826/") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "wikipedia:Ethmoidal_veins") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/UBERON_8420001> "A vein that accompanies an ethmoidal artery and drains the ethmoidal cells.")
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/UBERON_8420001> <https://orcid.org/0000-0001-8314-2140>)
AnnotationAssertion(<http://purl.org/dc/terms/date> <http://purl.obolibrary.org/obo/UBERON_8420001> "2024-08-28T09:55:00Z")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/UBERON_8420001> "FMA:51770")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/UBERON_8420001> "ethmoidal vein")
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420001> <http://purl.obolibrary.org/obo/UBERON_0001638>)
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420001> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000050> <http://purl.obolibrary.org/obo/UBERON_0002200>))
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420001> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0020102> <http://purl.obolibrary.org/obo/UBERON_0011241>))

# Class: <http://purl.obolibrary.org/obo/UBERON_8420002> (anterior ethmoidal vein)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://doi.org/10.1007/978-3-031-40697-3_23") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://doi.org/10.1167/iovs.02-0865") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/UBERON_8420002> "An ethmoidal vein that accompanies an anterior ethmoidal artery. The anterior ethmoidal vein normally drains into the inferior root of the superior ophthalmic vein.")
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/UBERON_8420002> <https://orcid.org/0000-0001-8314-2140>)
AnnotationAssertion(<http://purl.org/dc/terms/date> <http://purl.obolibrary.org/obo/UBERON_8420002> "2024-08-28T09:55:00Z")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/UBERON_8420002> "FMA:51771")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/UBERON_8420002> "anterior ethmoidal vein")
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420002> <http://purl.obolibrary.org/obo/UBERON_8420001>)
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420002> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/RO_0002376> <http://purl.obolibrary.org/obo/UBERON_0011192>))

# Class: <http://purl.obolibrary.org/obo/UBERON_8420003> (posterior ethmoidal vein)

AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://doi.org/10.1007/978-3-031-40697-3_23") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "https://doi.org/10.1167/iovs.02-0865") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/UBERON_8420003> "An ethmoidal vein that accompanies a posterior ethmoidal artery. The posterior ethmoidal vein often drains into a venous network under the orbital roof.")
AnnotationAssertion(<http://purl.org/dc/terms/contributor> <http://purl.obolibrary.org/obo/UBERON_8420003> <https://orcid.org/0000-0001-8314-2140>)
AnnotationAssertion(<http://purl.org/dc/terms/date> <http://purl.obolibrary.org/obo/UBERON_8420003> "2024-08-28T09:55:00Z")
AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/UBERON_8420003> "FMA:51772")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/UBERON_8420003> "posterior ethmoidal vein")
SubClassOf(<http://purl.obolibrary.org/obo/UBERON_8420003> <http://purl.obolibrary.org/obo/UBERON_8420001>)

# Class: <http://purl.obolibrary.org/obo/UBERON_8490000> (right upper third secondary molar tooth)

AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/UBERON_8490000> "A upper third secondary molar tooth that is in the right side of the upper jaw region.")
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