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Fixes #3317 Fallopian tube hierarchy and relabel (#3319)
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* Fixes #3317 Fallopian tube hierarchy and relabel

Fixes #3317 Fallopian tube hierarchy and relabel

* Relabels structures from 'X of uterine tube' to 'X of fallopian tube'

* Change wrong axiom

It was using 'mucosa of uterine tube', which has been relabeled as 'mucosa of uterus', which it doesn't exist.
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@aleixpuigb
aleixpuigb authored Aug 5, 2024
1 parent b197285 commit 1f4a6b8
Showing 1 changed file with 30 additions and 32 deletions.
62 changes: 30 additions & 32 deletions src/ontology/uberon-edit.obo
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Expand Up @@ -18412,10 +18412,10 @@ property_value: taxon_notes "A similar, but probably non-homologous, structure i

[Term]
id: UBERON:0001302
name: right uterine tube
name: right fallopian tube
def: "A fallopian tube that is part of a right side of organism [Automatically generated definition]." [OBOL:automatic]
synonym: "right fallopian tube" EXACT []
synonym: "right oviduct" EXACT []
synonym: "right oviduct" BROAD []
synonym: "right uterine tube" EXACT []
xref: EMAPA:37369 {source="MA:th"}
xref: FMA:18483
xref: MA:0001717
Expand All @@ -18429,10 +18429,10 @@ property_value: taxon_notes "non-functional in monotremes[ISBN:978-0226870137]"

[Term]
id: UBERON:0001303
name: left uterine tube
name: left fallopian tube
def: "A fallopian tube that is part of a left side of organism [Automatically generated definition]." [OBOL:automatic]
synonym: "left fallopian tube" EXACT []
synonym: "left oviduct" EXACT []
synonym: "left oviduct" BROAD []
synonym: "left uterine tube" EXACT []
xref: EMAPA:37368 {source="MA:th"}
xref: FMA:18484
xref: MA:0001716
Expand Down Expand Up @@ -72994,8 +72994,8 @@ 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 [FMA:23102]
synonym: "lower limb skin" EXACT [https://orcid.org/0000-0002-0819-0473]
synonym: "lower limb skin" EXACT [FMA:23102]
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 @@ -78455,11 +78455,10 @@ xref: NCIT:C12403
xref: SCTID:181463001
xref: UMLS:C0015560 {source="ncithesaurus:Fallopian_Tube"}
xref: Wikipedia:Fallopian_tube
intersection_of: UBERON:0013515 ! subdivision of oviduct
intersection_of: develops_from UBERON:0003890 ! Mullerian duct
intersection_of: part_of UBERON:0000993 ! oviduct
is_a: UBERON:0013515 ! subdivision of oviduct
relationship: connects UBERON:0000995 ! uterus
relationship: connects UBERON:0003984 ! uterine tube infundibulum
relationship: develops_from UBERON:0003890 ! Mullerian duct
relationship: in_lateral_side_of UBERON:0003975 {source="FMA-abduced-lr"} ! internal female genitalia
relationship: only_in_taxon NCBITaxon:40674 ! Mammalia
relationship: part_of UBERON:0002355 ! pelvic region of trunk
Expand Down Expand Up @@ -92537,7 +92536,6 @@ xref: EMAPA:29043
xref: MA:0001718
intersection_of: UBERON:0000483 ! epithelium
intersection_of: part_of UBERON:0000993 ! oviduct
relationship: part_of UBERON:0003889 ! fallopian tube
property_value: external_ontology_notes "in FMA, epithelium of uterine tube is a subclass of ciliated columnar epithelium. MA introduces subtypes: ciliated columnar and cuboidal. We map the FMA type according to its relationships, not its label" xsd:string {external_ontology="FMA"}

[Term]
Expand Down Expand Up @@ -95348,13 +95346,13 @@ intersection_of: part_of UBERON:0001258 ! neck of urinary bladder

[Term]
id: UBERON:0005011
name: mucosa of right uterine tube
name: mucosa of right fallopian tube
def: "A mucosa that is part of a right uterine tube [Automatically generated definition]." [OBOL:automatic]
synonym: "mucosa of organ of right fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of organ of right oviduct" EXACT [OBOL:automatic]
synonym: "mucosa of organ of right uterine tube" EXACT [OBOL:automatic]
synonym: "mucosa of right fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of right oviduct" EXACT [OBOL:automatic]
synonym: "mucosa of right uterine tube" EXACT []
synonym: "mucous membrane of right fallopian tube" EXACT [OBOL:automatic]
synonym: "mucous membrane of right oviduct" EXACT [OBOL:automatic]
synonym: "mucous membrane of right uterine tube" EXACT [OBOL:automatic]
Expand All @@ -95375,11 +95373,11 @@ synonym: "right uterine tube mucous membrane" EXACT [OBOL:automatic]
synonym: "right uterine tube organ mucosa" EXACT [OBOL:automatic]
xref: FMA:18452
intersection_of: UBERON:0000344 ! mucosa
intersection_of: part_of UBERON:0001302 ! right uterine tube
intersection_of: part_of UBERON:0001302 ! right fallopian tube

[Term]
id: UBERON:0005012
name: mucosa of left uterine tube
name: mucosa of left fallopian tube
def: "A mucosa that is part of a left uterine tube [Automatically generated definition]." [OBOL:automatic]
synonym: "left fallopian tube mucosa" EXACT [OBOL:automatic]
synonym: "left fallopian tube mucosa of organ" EXACT [OBOL:automatic]
Expand All @@ -95393,8 +95391,8 @@ synonym: "left uterine tube mucosa" EXACT [OBOL:automatic]
synonym: "left uterine tube mucosa of organ" EXACT [OBOL:automatic]
synonym: "left uterine tube mucous membrane" EXACT [OBOL:automatic]
synonym: "left uterine tube organ mucosa" EXACT [OBOL:automatic]
synonym: "mucosa of left fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of left oviduct" EXACT [OBOL:automatic]
synonym: "mucosa of left uterine tube" EXACT []
synonym: "mucosa of organ of left fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of organ of left oviduct" EXACT [OBOL:automatic]
synonym: "mucosa of organ of left uterine tube" EXACT [OBOL:automatic]
Expand All @@ -95406,7 +95404,7 @@ synonym: "organ mucosa of left oviduct" EXACT [OBOL:automatic]
synonym: "organ mucosa of left uterine tube" EXACT [OBOL:automatic]
xref: FMA:18453
intersection_of: UBERON:0000344 ! mucosa
intersection_of: part_of UBERON:0001303 ! left uterine tube
intersection_of: part_of UBERON:0001303 ! left fallopian tube

[Term]
id: UBERON:0005013
Expand Down Expand Up @@ -96189,16 +96187,16 @@ intersection_of: part_of UBERON:0003706 ! laryngeal vocal fold

[Term]
id: UBERON:0005048
name: mucosa of uterine tube
name: mucosa of fallopian tube
def: "A mucosa that is part of a fallopian tube [Automatically generated definition]." [OBOL:automatic]
synonym: "fallopian tube mucosa" EXACT [OBOL:automatic]
synonym: "fallopian tube mucosa of organ" EXACT [OBOL:automatic]
synonym: "fallopian tube mucous membrane" EXACT [OBOL:automatic]
synonym: "fallopian tube organ mucosa" EXACT [OBOL:automatic]
synonym: "mucosa of fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of organ of fallopian tube" EXACT [OBOL:automatic]
synonym: "mucosa of organ of uterine tube" EXACT [OBOL:automatic]
synonym: "mucosa of oviduct" EXACT [FMA:18319]
synonym: "mucosa of uterine tube" EXACT []
synonym: "mucous membrane of fallopian tube" EXACT [OBOL:automatic]
synonym: "mucous membrane of uterine tube" EXACT [OBOL:automatic]
synonym: "organ mucosa of fallopian tube" EXACT [OBOL:automatic]
Expand Down Expand Up @@ -145264,9 +145262,9 @@ intersection_of: part_of UBERON:0001042 ! chordate pharynx

[Term]
id: UBERON:0011298
name: submucosa of uterine tube
name: submucosa of fallopian tube
def: "The submucous layer of the wall of the uterine tube." [BTO:0002116]
synonym: "submucosa of fallopian tube" EXACT []
synonym: "submucosa of uterine tube" EXACT []
synonym: "submucous layer of uterine tube" RELATED [BTO:0002116]
synonym: "tela submucosa tubae uterinae" EXACT OMO:0003011 [BTO:0002116]
synonym: "uterine submucosa" RELATED []
Expand Down Expand Up @@ -153373,10 +153371,10 @@ intersection_of: part_of UBERON:0001154 ! vermiform appendix

[Term]
id: UBERON:0012499
name: serosa of uterine tube
name: serosa of fallopian tube
def: "A serous membrane that is part of a fallopian tube." [OBOL:automatic]
synonym: "serosa of fallopian tube" EXACT [FMA:18316]
synonym: "serosa of oviduct" EXACT [FMA:18316]
synonym: "serosa of uterine tube" EXACT []
synonym: "serous coat of uterine tube" EXACT [FMA:18316]
synonym: "tunica serosa (tuba uterina)" EXACT [FMA:18316]
synonym: "tunica serosa tubae uterinae" EXACT [FMA:TA]
Expand Down Expand Up @@ -153491,12 +153489,12 @@ relationship: part_of UBERON:0012641 ! body of tubeworm

[Term]
id: UBERON:0012648
name: ampulla of uterine tube
name: ampulla of fallopian tube
def: "The ampulla is the second portion of the uterine tube. It is an intermediate dilated portion, which curves over the ovary. It is the most common site of human fertilization. The word ampulla is from the Latin for flask." [Wikipedia:Ampulla_of_uterine_tube]
synonym: "ampulla of fallopian tube" EXACT [FMA:18305]
synonym: "ampulla of fallopian tube" RELATED [Wikipedia:Ampulla_of_uterine_tube]
synonym: "ampulla of oviduct" EXACT [FMA:18305]
synonym: "ampulla of the fallopian tube" RELATED [Wikipedia:Ampulla_of_uterine_tube]
synonym: "ampulla of uterine tube" EXACT []
synonym: "ampulla of uterine tube" RELATED [BTO:0004285]
synonym: "ampulla tubae uterinae" EXACT OMO:0003011 [FMA:18305, FMA:TA]
synonym: "uterine tube ampulla" EXACT [FMA:18305]
Expand Down Expand Up @@ -169614,7 +169612,7 @@ id: UBERON:0017259
name: placental caruncle
def: "An oval or round thickening in the uterine mucosa resulting from proliferation of subepithelial connective tissue, in the maternal side of the placentome." [http://www.vivo.colostate.edu/hbooks/pathphys/reprod/placenta/ruminants.html]
is_a: UBERON:0000478 ! extraembryonic structure
relationship: located_in UBERON:0005048 ! mucosa of uterine tube
relationship: located_in UBERON:0000995 ! uterus
relationship: part_of UBERON:0017258 ! placentome of cotyledonary placenta

[Term]
Expand Down Expand Up @@ -187933,10 +187931,10 @@ relationship: part_of UBERON:0002012 {source="FMA"} ! pulmonary artery

[Term]
id: UBERON:0036441
name: wall of uterine tube
name: wall of fallopian tube
synonym: "uterine tube wall" EXACT [FMA:18303]
synonym: "wall of fallopian tube" EXACT [FMA:18303]
synonym: "wall of oviduct" EXACT [FMA:18303]
synonym: "wall of uterine tube" EXACT []
xref: FMA:18303
is_a: UBERON:0000060 {source="FMA"} ! anatomical wall
intersection_of: UBERON:0000060 ! anatomical wall
Expand Down Expand Up @@ -221572,10 +221570,10 @@ relationship: dc-contributor https://orcid.org/0000-0002-2825-0621 ! Paola Ronca

[Term]
id: UBERON:8410010
name: fimbria of uterine tube
name: fimbria of fallopian tube
def: "A fringe of tissue around the ostium of the fallopian tube, in the direction of the ovary." [WikipediaVersioned:Fallopian_tube&oldid=998395727]
subset: added_for_HCA
synonym: "fimbria of fallopian tube" EXACT []
synonym: "fimbria of uterine tube" EXACT []
synonym: "fimbriae of fallopian tube" EXACT OMO:0003004 []
synonym: "fimbriae of uterine tube" EXACT OMO:0003004 []
xref: FMA:18308
Expand Down Expand Up @@ -223515,10 +223513,10 @@ property_value: dcterms-date "2022-12-07T08:52:45Z" xsd:dateTime

[Term]
id: UBERON:8480037
name: subserosa of uterine tube
name: subserosa of fallopian tube
def: "Subserosa that is part of the uterine tube. It contains loose connective tissue, blood vessels and lymphatic tissue." [ISBN:9783662026762, PMID:30095490]
synonym: "subserosa of fallopian tube" EXACT [PMID:30095490]
synonym: "subserosa of oviduct" EXACT [PMID:34440264]
synonym: "subserosa of uterine tube" EXACT []
intersection_of: UBERON:0012375 ! subserosa
intersection_of: part_of UBERON:0003889 ! fallopian tube
relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 ! Paula Duek Roggli
Expand Down

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