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Addresses #3096 NTR pulmonary venule #3098

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merged 5 commits into from
Nov 16, 2023
Merged

Addresses #3096 NTR pulmonary venule #3098

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6023dc2
Addresses #3096 NTR pulmonary venule
aleixpuigb Oct 24, 2023
6c222ef
edit typo
aleixpuigb Nov 14, 2023
a3cb97b
Merge branch 'master' into 3096_NTR_pulmonary_venule
aleixpuigb Nov 14, 2023
8b9d3a0
Add part of pulmonary venous system
aleixpuigb Nov 14, 2023
2bd0963
Merge branch 'master' into 3096_NTR_pulmonary_venule
aleixpuigb Nov 14, 2023
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25 changes: 18 additions & 7 deletions src/ontology/uberon-edit.obo
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Original file line number Diff line number Diff line change
Expand Up @@ -73166,8 +73166,8 @@ id: UBERON:0003532
name: hindlimb skin
def: "A zone of skin that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic]
synonym: "hind limb skin" EXACT [OBOL:automatic]
synonym: "lower limb skin" EXACT [https://orcid.org/0000-0002-0819-0473]
synonym: "lower limb skin" EXACT [FMA:23102]
synonym: "lower limb skin" EXACT [https://orcid.org/0000-0002-0819-0473]
synonym: "skin of hind limb" EXACT [OBOL:automatic]
synonym: "skin of hindlimb" EXACT [OBOL:automatic]
synonym: "skin of lower extremity" EXACT [OBOL:automatic]
Expand Down Expand Up @@ -187882,10 +187882,10 @@ relationship: present_in_taxon NCBITaxon:8292 ! Amphibia
[Term]
id: UBERON:0036243
name: vaginal fluid
xref: BTO:0003084 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "Fluid that lines the vaginal walls that consists of multiple secretions that collect in the vagina from different glands." [http://www.bumc.bu.edu/sexualmedicine/physicianinformation/female-genital-anatomy/]
synonym: "vaginal discharge" RELATED []
synonym: "vaginal secretion" RELATED []
xref: BTO:0003084 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
intersection_of: UBERON:0006314 ! bodily fluid
intersection_of: located_in UBERON:0000996 ! vagina

Expand Down Expand Up @@ -212064,8 +212064,8 @@ property_value: provenance_notes "This class was sourced from an external ontolo
[Term]
id: UBERON:3010489
name: muscular artery
xref: BTO:0004724 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "Part of the external carotid which delivers blood to the mm rectus cervicis and interhyoideus posterior." [AAO:BJB]
xref: BTO:0004724 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
is_a: UBERON:0001637 ! artery
relationship: part_of UBERON:0001070 ! external carotid artery
relationship: supplies UBERON:3010654 ! rectus cervicis
Expand Down Expand Up @@ -212390,8 +212390,8 @@ property_value: provenance_notes "This class was sourced from an external ontolo
[Term]
id: UBERON:3010586
name: vasa efferentia
xref: BTO:0002254 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "Sperm travel through these 4 or 5 fine ducts which pass through the mesorchium from the testis to the sexual kidney." [AAO:BMZ]
xref: BTO:0002254 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
is_a: UBERON:0006946 ! efferent duct
property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/aao.owl"}

Expand Down Expand Up @@ -217149,8 +217149,8 @@ relationship: dc-contributor https://orcid.org/0000-0003-3162-7490 ! Wasila M Da
[Term]
id: UBERON:4300194
name: photophore
xref: BTO:0001477 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "A light-emitting organ which appears as luminous spots on various marine animals, including fish and cephalopods." [PHENOSCAPE] {comment="https://en.wikipedia.org/wiki/Photophore"}
xref: BTO:0001477 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
is_a: UBERON:0000062 ! organ
relationship: dc-contributor https://orcid.org/0000-0003-3162-7490 ! Wasila M Dahdul
relationship: never_in_taxon NCBITaxon:314146 ! Euarchontoglires
Expand Down Expand Up @@ -223582,8 +223582,8 @@ property_value: seeAlso "https://github.com/obophenotype/uberon/issues/476" xsd:
[Term]
id: UBERON:8450002
name: excretory system
xref: BTO:0006338 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "An anatomical system that eliminates waste products that arise as a result of metabolic activity." [GO:0007588]
xref: BTO:0006338 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
intersection_of: UBERON:0000467 ! anatomical system
intersection_of: capable_of GO:0046903 ! secretion
created_by: http://orcid.org/0000-0002-6095-8718
Expand Down Expand Up @@ -223984,8 +223984,8 @@ property_value: dcterms-date "2022-11-22T09:15:50Z" xsd:dateTime
[Term]
id: UBERON:8480040
name: ovarian fluid
xref: BTO:0004569 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
def: "Fish ovary secretion released with eggs." [PMID:8526977]
xref: BTO:0004569 {http://purl.org/dc/terms/contributor="https://orcid.org/0000-0003-4423-4370"}
is_a: UBERON:0006537 ! female reproductive gland secretion
relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 ! Paula Duek Roggli
relationship: in_taxon NCBITaxon:7898 ! Actinopterygii
Expand Down Expand Up @@ -224613,6 +224613,17 @@ relationship: overlaps UBERON:0018227 ! pulmonary lymphatic vessel
relationship: surrounds UBERON:0010369 ! secondary pulmonary lobule
property_value: dcterms-date "2023-10-23T08:52:12Z" xsd:dateTime

[Term]
id: UBERON:8600024
name: pulmonary venule
def: "A venule that is part of a lung and drains oxygenated blood from pulmonary capillaries. A pulmonary venule merges into a pulmonary vein branch that run in the pulmonary interlobular septa." [PMID:22283705, PMID:30247823]
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Suggested change
def: "A venule that is part of a lung and drains oxygenated blood from pulmonary capillaries. A pulmonary venule merges into a pulmonary vein branch that run in the pulmonary interlobular septa." [PMID:22283705, PMID:30247823]
def: "A venule that is part of a lung and drains oxygenated blood from pulmonary capillaries. A pulmonary venule merges into a pulmonary vein branch that runs in the pulmonary interlobular septa." [PMID:22283705, PMID:30247823]

This sounds like a "pulmonary vein branch", not a pulmonary venule, passes through a pulmonary interlobular septum. Is that aligned with the comment here?

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You are correct, I have to edit interlobular septa accordingly.

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A new ticket #3115 has been opened to correct this.

intersection_of: UBERON:0001979 ! venule
intersection_of: part_of UBERON:0002048 ! lung
relationship: connected_to UBERON:0002016 ! pulmonary vein
relationship: dc-contributor https://orcid.org/0000-0001-6677-8489
relationship: drains UBERON:0016405 ! pulmonary capillary
property_value: dcterms-date "2023-10-24T11:26:27Z" xsd:dateTime

[Typedef]
id: aboral_to
name: aboral to
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