From 34dd68deeaff2d5e859c38388f210fddeadb0e47 Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Thu, 14 Sep 2023 11:27:35 +0200 Subject: [PATCH 1/6] Addresses #3068 NTR placental structures Addresses #3068 NTR placental structures Comment: 'placental basal plate' SubclassOf 'adjacent to' some placental intervillous space won't be added until #3066 is resolved. --- src/ontology/uberon-edit.obo | 33 ++++++++++++++++++++++++++++++++- 1 file changed, 32 insertions(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 04a9b53120..59685e57bb 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -182196,7 +182196,7 @@ synonym: "pain receptor" RELATED [https://meshb.nlm.nih.gov/record/ui?ui=D009619 xref: MESH:D009619 intersection_of: UBERON:0012451 ! sensory receptor intersection_of: capable_of GO:0050966 ! detection of mechanical stimulus involved in sensory perception of pain -relationship: part_of CL:0000198 +relationship: part_of CL:0000198 ! pain receptor cell [Term] id: UBERON:0035018 @@ -224503,6 +224503,37 @@ relationship: overlaps UBERON:0000949 ! endocrine system relationship: overlaps UBERON:0001016 ! nervous system property_value: dcterms-date "2023-08-29T10:49:45Z" xsd:dateTime +[Term] +id: UBERON:8600019 +name: placental basal plate +def: "A maternal facing surface of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] +synonym: "PBP" RELATED [PMID:31002314] +is_a: UBERON:0010000 ! multicellular anatomical structure +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: part_of UBERON:0001987 ! placenta +relationship: present_in_taxon NCBITaxon:9443 {xref="PMID:31002314"} ! Primates +property_value: dcterms-date "2023-09-14T08:19:13Z" xsd:dateTime + +[Term] +id: UBERON:8600020 +name: placental septum +def: "An extension of the basal plate that protrudes into the intervillous space, creating a system of grooves which delimit elevated areas, also known as cotyledons or maternal lobes." [doi: 10.1007/978-3-030-84725-8, PMID:32108320] +synonym: "placental septa" RELATED PLURAL [doi:10.1007/BF00406305] +is_a: UBERON:0003037 ! septum +relationship: adjacent_to UBERON:0010008 ! placental cotyledon +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: part_of UBERON:8600019 ! placental basal plate +property_value: dcterms-date "2023-09-14T08:59:34Z" xsd:dateTime + +[Term] +id: UBERON:8600021 +name: chorionic plate blood vessel +def: "A blood vessel that is part of the chorionic plate." [https://www.ncbi.nlm.nih.gov/books/NBK53254/] +intersection_of: UBERON:0001981 ! blood vessel +intersection_of: part_of UBERON:0004027 ! chorionic plate +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +property_value: dcterms-date "2023-09-14T09:09:36Z" xsd:dateTime + [Typedef] id: aboral_to name: aboral to From ee3db5e140477aae946189bfa41e662f041e9a8c Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Thu, 14 Sep 2023 11:52:32 +0200 Subject: [PATCH 2/6] Fix dbxref typo --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 59685e57bb..c78304259e 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -224517,7 +224517,7 @@ property_value: dcterms-date "2023-09-14T08:19:13Z" xsd:dateTime [Term] id: UBERON:8600020 name: placental septum -def: "An extension of the basal plate that protrudes into the intervillous space, creating a system of grooves which delimit elevated areas, also known as cotyledons or maternal lobes." [doi: 10.1007/978-3-030-84725-8, PMID:32108320] +def: "An extension of the basal plate that protrudes into the intervillous space, creating a system of grooves which delimit elevated areas, also known as cotyledons or maternal lobes." [doi:10.1007/978-3-030-84725-8, PMID:32108320] synonym: "placental septa" RELATED PLURAL [doi:10.1007/BF00406305] is_a: UBERON:0003037 ! septum relationship: adjacent_to UBERON:0010008 ! placental cotyledon From 86303275677e88543c9d0468099eaae886fb5f92 Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Fri, 15 Sep 2023 15:59:59 +0200 Subject: [PATCH 3/6] Add synonyms placenta noun, abbreviation types and change placental base plate abbreviation type --- src/ontology/uberon-edit.obo | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index c78304259e..1ef1604bf2 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -224506,8 +224506,9 @@ property_value: dcterms-date "2023-08-29T10:49:45Z" xsd:dateTime [Term] id: UBERON:8600019 name: placental basal plate -def: "A maternal facing surface of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] -synonym: "PBP" RELATED [PMID:31002314] +def: "A maternal facing structure of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] +synonym: "PBP" RELATED abbreviation [PMID:31002314] +xref: placenta basal plate {xref="PMID:32108320"} is_a: UBERON:0010000 ! multicellular anatomical structure relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 relationship: part_of UBERON:0001987 ! placenta @@ -224518,6 +224519,7 @@ property_value: dcterms-date "2023-09-14T08:19:13Z" xsd:dateTime id: UBERON:8600020 name: placental septum def: "An extension of the basal plate that protrudes into the intervillous space, creating a system of grooves which delimit elevated areas, also known as cotyledons or maternal lobes." [doi:10.1007/978-3-030-84725-8, PMID:32108320] +synonym: "placenta septum" EXACT [PMID:35190336] synonym: "placental septa" RELATED PLURAL [doi:10.1007/BF00406305] is_a: UBERON:0003037 ! septum relationship: adjacent_to UBERON:0010008 ! placental cotyledon From 954c5527d280bdc2e94782eaf24eeac273cdf320 Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Fri, 15 Sep 2023 16:10:39 +0200 Subject: [PATCH 4/6] Change abbreviation type --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 1ef1604bf2..5ac051cbbd 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -224507,7 +224507,7 @@ property_value: dcterms-date "2023-08-29T10:49:45Z" xsd:dateTime id: UBERON:8600019 name: placental basal plate def: "A maternal facing structure of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] -synonym: "PBP" RELATED abbreviation [PMID:31002314] +synonym: "PBP" RELATED ABBREVIATION [PMID:31002314] xref: placenta basal plate {xref="PMID:32108320"} is_a: UBERON:0010000 ! multicellular anatomical structure relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 From fb1946e7d77547e8a20b18ed2ee65f8e8c4da4a6 Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Fri, 15 Sep 2023 16:32:37 +0200 Subject: [PATCH 5/6] Fix synonym --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 5ac051cbbd..3145e6efca 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -224508,7 +224508,7 @@ id: UBERON:8600019 name: placental basal plate def: "A maternal facing structure of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] synonym: "PBP" RELATED ABBREVIATION [PMID:31002314] -xref: placenta basal plate {xref="PMID:32108320"} +synonym: placenta basal plate EXACT [PMID:32108320] is_a: UBERON:0010000 ! multicellular anatomical structure relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 relationship: part_of UBERON:0001987 ! placenta From 0ae3a2b39af4a230a58c7d3c7027c84c5ae2d73d Mon Sep 17 00:00:00 2001 From: aleixpuig <94959119+aleixpuigb@users.noreply.github.com> Date: Fri, 15 Sep 2023 16:38:25 +0200 Subject: [PATCH 6/6] Fix synonym 2 --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 3145e6efca..5d32a92508 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -224508,7 +224508,7 @@ id: UBERON:8600019 name: placental basal plate def: "A maternal facing structure of the placenta, adjacent to the intervillous space. Major components of the placental basal plate include decidua basalis, fibrinoid, connective tissue, extravillous trophoblasts, and residues of degenerating villi and maternal vessels." [PMID:17059842, PMID:32108320] synonym: "PBP" RELATED ABBREVIATION [PMID:31002314] -synonym: placenta basal plate EXACT [PMID:32108320] +synonym: "placenta basal plate" EXACT [PMID:32108320] is_a: UBERON:0010000 ! multicellular anatomical structure relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 relationship: part_of UBERON:0001987 ! placenta