From 0d53f40b350bf7e22231ce6e006cdf3352f72359 Mon Sep 17 00:00:00 2001 From: Chris Mungall Date: Tue, 20 Nov 2012 14:58:45 -0800 Subject: [PATCH] NT: lateral malleolus; NTs for some fused tarsals and carpals, incl. centrocarpal. fixes 154, 155 --- mod/uberon-bridge-to-fma.obo | 6 +++++ mod/uberon-bridge-to-fma.owl | 26 ++++++++++++++++++ uberon-simple.obo | 42 ++++++++++++++++++++++++++--- uberon-taxmod-amniote.obo | 44 +++++++++++++++++++++++++++--- uberon-with-isa.obo | 52 +++++++++++++++++++++++++++++++++--- uberon.obo | 42 ++++++++++++++++++++++++++--- uberon_edit-implied.obo | 42 ++++++++++++++++++++++++++--- 7 files changed, 236 insertions(+), 18 deletions(-) diff --git a/mod/uberon-bridge-to-fma.obo b/mod/uberon-bridge-to-fma.obo index 7488d8f51a..6bf4c1de8c 100644 --- a/mod/uberon-bridge-to-fma.obo +++ b/mod/uberon-bridge-to-fma.obo @@ -20287,6 +20287,12 @@ property_value: IAO:0000589 "distal epiphysis of fibula (post-embryonic human)" intersection_of: UBERON:0004410 ! distal epiphysis of fibula intersection_of: part_of NCBITaxon:9606 +[Term] +id: FMA:35502 ! lateral malleolus +property_value: IAO:0000589 "lateral malleolus of fibula (post-embryonic human)" xsd:string +intersection_of: UBERON:0012291 ! lateral malleolus of fibula +intersection_of: part_of NCBITaxon:9606 + [Term] id: FMA:23362 ! Proximal epiphysis of humerus property_value: IAO:0000589 "proximal epiphysis of humerus (post-embryonic human)" xsd:string diff --git a/mod/uberon-bridge-to-fma.owl b/mod/uberon-bridge-to-fma.owl index c593d8ce69..550efeedcb 100644 --- a/mod/uberon-bridge-to-fma.owl +++ b/mod/uberon-bridge-to-fma.owl @@ -26938,6 +26938,26 @@ + + + + + + + + + + + + + + + FMA:35502 + lateral malleolus of fibula (post-embryonic human) + + + + @@ -114998,6 +115018,12 @@ + + + + + + diff --git a/uberon-simple.obo b/uberon-simple.obo index d3946aae38..4fde915fe9 100644 --- a/uberon-simple.obo +++ b/uberon-simple.obo @@ -1,6 +1,6 @@ format-version: 1.2 data-version: 2012-11-21 -data-version: 2012-11-19 +data-version: 2012-11-20 subsetdef: cyclostome_subset "cyclostome structures" subsetdef: defined_by_ordinal_series "classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology" subsetdef: developmental_classification "developmental_classification" @@ -27559,6 +27559,7 @@ relationship: part_of UBERON:0005334 ! oral lamina propria id: UBERON:0001831 name: parotid gland def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] +comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] @@ -27589,7 +27590,7 @@ property_value: homology_notes "The most common oral glands in mammals are the s id: UBERON:0001832 name: sublingual gland def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] -comment: This class was created automatically from a combination of ontologies +comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim synonym: "ductus sublingualis" EXACT [] synonym: "glandula sublingualis" RELATED LATIN [Wikipedia:Sublingual_gland] @@ -123850,7 +123851,7 @@ relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0011113 name: inferior tibiofibular joint -def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus Posterior ligament of the lateral malleolus Inferior transverse ligament of the tibiofibular syndesmosis Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] +def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus, Posterior ligament of the lateral malleolus, Inferior transverse ligament of the tibiofibular syndesmosis, Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] synonym: "distal tibiofibular joint" EXACT [FMA:10465] synonym: "inferior tibiofibular articulation" RELATED [Wikipedia:Inferior_tibiofibular_articulation] synonym: "syndesmosis tibiofibularis" EXACT LATIN [FMA:TA] @@ -130254,7 +130255,8 @@ id: UBERON:0012131 name: centrale def: "Endochondral bone located between the proximal and distal rows of carpals or tarsals and thus representing the central carpals or tarsals[PHENOSCAPE]." [PHENOSCAPE:AMAO] comment: Usage notes: This term corresponds both to the navicular bone in the pes and the similar central carpals in the manus. AO notes: the FMA term is under 'general anatomical term'. -synonym: "os centrale" EXACT [] +synonym: "central mesopodium bone" EXACT [] +synonym: "os centrale" EXACT [FMA:77232] xref: FMA:77232 is_a: UBERON:0003656 ! mesopodium bone relationship: part_of UBERON:0009878 ! mesopodium skeleton @@ -131164,6 +131166,38 @@ relationship: develops_from UBERON:0009479 {source="EHDAA2"} ! ectoderm of bucco relationship: part_of UBERON:0005356 ! Rathke's pouch relationship: part_of UBERON:0011642 {source="EHDAA2"} ! oral epithelium from ectoderm +[Term] +id: UBERON:0012288 +name: centroquartal bone +def: "A tarsal bone that is formed from the fusion of the central and 4th tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012289 +name: fused tarsals 2 and 3 +def: "A tarsal bone that is formed from the fusion of the 2nd and 3rd tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012290 +name: fused carpals 2 and 3 +def: "A carpal bone that is formed from the fusion of the 2nd and 3rd carpal bones." [UBERON:skansa] +is_a: UBERON:0001435 ! carpal bone + +[Term] +id: UBERON:0012291 +name: lateral malleolus of fibula +synonym: "distal extremity of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "external malleolus of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "fibular malleolus" RELATED [] +synonym: "lateral malleolus" BROAD [FMA:35502] +xref: FMA:35502 +xref: SCTID:361795009 +is_a: UBERON:0004120 ! mesoderm-derived structure +is_a: UBERON:0005055 ! zone of long bone +relationship: part_of UBERON:0004410 ! distal epiphysis of fibula +property_value: taxon_notes "In bovids, the distal end of the fibula is present only as the lateral malleolus, a separate bone that articulats with the lateral side of the distal tibia." xsd:string {scope="NCBITaxon:9895", seeAlso="UBERON:0004410", source="UBERON:skansa"} + [Term] id: UBERON:1000000 name: chin ventral margin diff --git a/uberon-taxmod-amniote.obo b/uberon-taxmod-amniote.obo index d7986cdff7..8f65a36383 100644 --- a/uberon-taxmod-amniote.obo +++ b/uberon-taxmod-amniote.obo @@ -29416,6 +29416,7 @@ id: UBERON:0001831 name: parotid gland namespace: uberon def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] +comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] @@ -29448,7 +29449,7 @@ id: UBERON:0001832 name: sublingual gland namespace: uberon def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] -comment: This class was created automatically from a combination of ontologies +comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Rivinus gland" RELATED [BTO:0001315] synonym: "Rivinus' gland" EXACT [] @@ -134952,7 +134953,7 @@ intersection_of: part_of UBERON:0003823 ! hindlimb zeugopod id: UBERON:0011113 name: inferior tibiofibular joint namespace: uberon -def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus Posterior ligament of the lateral malleolus Inferior transverse ligament of the tibiofibular syndesmosis Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] +def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus, Posterior ligament of the lateral malleolus, Inferior transverse ligament of the tibiofibular syndesmosis, Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] synonym: "distal tibiofibular joint" EXACT [FMA:10465] synonym: "inferior tibiofibular articulation" RELATED [Wikipedia:Inferior_tibiofibular_articulation] synonym: "syndesmosis tibiofibularis" EXACT LATIN [FMA:TA] @@ -142405,7 +142406,8 @@ name: centrale namespace: uberon def: "Endochondral bone located between the proximal and distal rows of carpals or tarsals and thus representing the central carpals or tarsals[PHENOSCAPE]." [PHENOSCAPE:AMAO] comment: Usage notes: This term corresponds both to the navicular bone in the pes and the similar central carpals in the manus. AO notes: the FMA term is under 'general anatomical term'. -synonym: "os centrale" EXACT [] +synonym: "central mesopodium bone" EXACT [] +synonym: "os centrale" EXACT [FMA:77232] xref: FMA:77232 is_a: UBERON:0003656 ! mesopodium bone relationship: part_of UBERON:0009878 ! mesopodium skeleton @@ -143458,6 +143460,42 @@ relationship: part_of UBERON:0011642 ! oral epithelium from ectoderm intersection_of: UBERON:0007499 ! epithelial sac intersection_of: part_of UBERON:0005356 ! Rathke's pouch +[Term] +id: UBERON:0012288 +name: centroquartal bone +namespace: uberon +def: "A tarsal bone that is formed from the fusion of the central and 4th tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012289 +name: fused tarsals 2 and 3 +namespace: uberon +def: "A tarsal bone that is formed from the fusion of the 2nd and 3rd tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012290 +name: fused carpals 2 and 3 +namespace: uberon +def: "A carpal bone that is formed from the fusion of the 2nd and 3rd carpal bones." [UBERON:skansa] +is_a: UBERON:0001435 ! carpal bone + +[Term] +id: UBERON:0012291 +name: lateral malleolus of fibula +namespace: uberon +synonym: "distal extremity of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "external malleolus of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "fibular malleolus" RELATED [] +synonym: "lateral malleolus" BROAD [FMA:35502] +xref: FMA:35502 +xref: SCTID:361795009 +is_a: UBERON:0004120 ! mesoderm-derived structure +is_a: UBERON:0005055 ! zone of long bone +relationship: part_of UBERON:0004410 ! distal epiphysis of fibula +property_value: taxon_notes "In bovids, the distal end of the fibula is present only as the lateral malleolus, a separate bone that articulats with the lateral side of the distal tibia." xsd:string + [Term] id: UBERON:1000000 name: chin ventral margin diff --git a/uberon-with-isa.obo b/uberon-with-isa.obo index b700b1f3e8..5b331d8f8e 100644 --- a/uberon-with-isa.obo +++ b/uberon-with-isa.obo @@ -29728,6 +29728,7 @@ id: UBERON:0001831 name: parotid gland namespace: uberon def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] +comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] @@ -29760,7 +29761,7 @@ id: UBERON:0001832 name: sublingual gland namespace: uberon def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] -comment: This class was created automatically from a combination of ontologies +comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Rivinus gland" RELATED [BTO:0001315] synonym: "Rivinus' gland" EXACT [] @@ -136405,7 +136406,7 @@ intersection_of: part_of UBERON:0003823 ! hindlimb zeugopod id: UBERON:0011113 name: inferior tibiofibular joint namespace: uberon -def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus Posterior ligament of the lateral malleolus Inferior transverse ligament of the tibiofibular syndesmosis Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] +def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus, Posterior ligament of the lateral malleolus, Inferior transverse ligament of the tibiofibular syndesmosis, Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] synonym: "distal tibiofibular joint" EXACT [FMA:10465] synonym: "inferior tibiofibular articulation" RELATED [Wikipedia:Inferior_tibiofibular_articulation] synonym: "syndesmosis tibiofibularis" EXACT LATIN [FMA:TA] @@ -143909,7 +143910,8 @@ name: centrale namespace: uberon def: "Endochondral bone located between the proximal and distal rows of carpals or tarsals and thus representing the central carpals or tarsals[PHENOSCAPE]." [PHENOSCAPE:AMAO] comment: Usage notes: This term corresponds both to the navicular bone in the pes and the similar central carpals in the manus. AO notes: the FMA term is under 'general anatomical term'. -synonym: "os centrale" EXACT [] +synonym: "central mesopodium bone" EXACT [] +synonym: "os centrale" EXACT [FMA:77232] xref: FMA:77232 is_a: UBERON:0003656 ! mesopodium bone relationship: part_of UBERON:0009878 ! mesopodium skeleton @@ -144962,6 +144964,42 @@ relationship: part_of UBERON:0011642 ! oral epithelium from ectoderm intersection_of: UBERON:0007499 ! epithelial sac intersection_of: part_of UBERON:0005356 ! Rathke's pouch +[Term] +id: UBERON:0012288 +name: centroquartal bone +namespace: uberon +def: "A tarsal bone that is formed from the fusion of the central and 4th tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012289 +name: fused tarsals 2 and 3 +namespace: uberon +def: "A tarsal bone that is formed from the fusion of the 2nd and 3rd tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012290 +name: fused carpals 2 and 3 +namespace: uberon +def: "A carpal bone that is formed from the fusion of the 2nd and 3rd carpal bones." [UBERON:skansa] +is_a: UBERON:0001435 ! carpal bone + +[Term] +id: UBERON:0012291 +name: lateral malleolus of fibula +namespace: uberon +synonym: "distal extremity of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "external malleolus of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "fibular malleolus" RELATED [] +synonym: "lateral malleolus" BROAD [FMA:35502] +xref: FMA:35502 +xref: SCTID:361795009 +is_a: UBERON:0004120 ! mesoderm-derived structure +is_a: UBERON:0005055 ! zone of long bone +relationship: part_of UBERON:0004410 ! distal epiphysis of fibula +property_value: taxon_notes "In bovids, the distal end of the fibula is present only as the lateral malleolus, a separate bone that articulats with the lateral side of the distal tibia." xsd:string + [Term] id: UBERON:1000000 name: chin ventral margin @@ -187070,6 +187108,10 @@ is_a: UBERON:0003638 ! manual digit 4 phalanx id: FMA:35489 is_a: UBERON:0003639 ! manual digit 5 phalanx +[Term] +id: FMA:35502 +is_a: UBERON:0012291 ! lateral malleolus of fibula + [Term] id: FMA:37018 is_a: UBERON:0003683 ! rotator cuff @@ -235548,6 +235590,10 @@ is_a: UBERON:0006767 ! head of femur id: SCTID:361792007 is_a: UBERON:0007119 ! neck of femur +[Term] +id: SCTID:361795009 +is_a: UBERON:0012291 ! lateral malleolus of fibula + [Term] id: SCTID:361796005 is_a: UBERON:0009879 ! tarsal skeleton diff --git a/uberon.obo b/uberon.obo index d34a4b0432..77b3a9528e 100644 --- a/uberon.obo +++ b/uberon.obo @@ -1,6 +1,6 @@ format-version: 1.2 data-version: 2012-11-21 -data-version: 2012-11-19 +data-version: 2012-11-20 subsetdef: cyclostome_subset "cyclostome structures" subsetdef: defined_by_ordinal_series "classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology" subsetdef: developmental_classification "developmental_classification" @@ -29074,6 +29074,7 @@ relationship: part_of UBERON:0005334 ! oral lamina propria id: UBERON:0001831 name: parotid gland def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] +comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] @@ -29105,7 +29106,7 @@ property_value: homology_notes "The most common oral glands in mammals are the s id: UBERON:0001832 name: sublingual gland def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] -comment: This class was created automatically from a combination of ontologies +comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim synonym: "ductus sublingualis" EXACT [] synonym: "glandula sublingualis" RELATED LATIN [Wikipedia:Sublingual_gland] @@ -132615,7 +132616,7 @@ relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0011113 name: inferior tibiofibular joint -def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus Posterior ligament of the lateral malleolus Inferior transverse ligament of the tibiofibular syndesmosis Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] +def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus, Posterior ligament of the lateral malleolus, Inferior transverse ligament of the tibiofibular syndesmosis, Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] synonym: "distal tibiofibular joint" EXACT [FMA:10465] synonym: "inferior tibiofibular articulation" RELATED [Wikipedia:Inferior_tibiofibular_articulation] synonym: "syndesmosis tibiofibularis" EXACT LATIN [FMA:TA] @@ -139820,7 +139821,8 @@ id: UBERON:0012131 name: centrale def: "Endochondral bone located between the proximal and distal rows of carpals or tarsals and thus representing the central carpals or tarsals[PHENOSCAPE]." [PHENOSCAPE:AMAO] comment: Usage notes: This term corresponds both to the navicular bone in the pes and the similar central carpals in the manus. AO notes: the FMA term is under 'general anatomical term'. -synonym: "os centrale" EXACT [] +synonym: "central mesopodium bone" EXACT [] +synonym: "os centrale" EXACT [FMA:77232] xref: FMA:77232 is_a: UBERON:0003656 ! mesopodium bone relationship: part_of UBERON:0009878 ! mesopodium skeleton @@ -140824,6 +140826,38 @@ relationship: develops_from UBERON:0009479 {source="EHDAA2"} ! ectoderm of bucco relationship: part_of UBERON:0005356 ! Rathke's pouch relationship: part_of UBERON:0011642 {source="EHDAA2"} ! oral epithelium from ectoderm +[Term] +id: UBERON:0012288 +name: centroquartal bone +def: "A tarsal bone that is formed from the fusion of the central and 4th tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012289 +name: fused tarsals 2 and 3 +def: "A tarsal bone that is formed from the fusion of the 2nd and 3rd tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012290 +name: fused carpals 2 and 3 +def: "A carpal bone that is formed from the fusion of the 2nd and 3rd carpal bones." [UBERON:skansa] +is_a: UBERON:0001435 ! carpal bone + +[Term] +id: UBERON:0012291 +name: lateral malleolus of fibula +synonym: "distal extremity of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "external malleolus of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "fibular malleolus" RELATED [] +synonym: "lateral malleolus" BROAD [FMA:35502] +xref: FMA:35502 +xref: SCTID:361795009 +is_a: UBERON:0004120 ! mesoderm-derived structure +is_a: UBERON:0005055 ! zone of long bone +relationship: part_of UBERON:0004410 ! distal epiphysis of fibula +property_value: taxon_notes "In bovids, the distal end of the fibula is present only as the lateral malleolus, a separate bone that articulats with the lateral side of the distal tibia." xsd:string {scope="NCBITaxon:9895", seeAlso="UBERON:0004410", source="UBERON:skansa"} + [Term] id: UBERON:1000000 name: chin ventral margin diff --git a/uberon_edit-implied.obo b/uberon_edit-implied.obo index eaf9cf6510..02e4e84086 100644 --- a/uberon_edit-implied.obo +++ b/uberon_edit-implied.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: 2012-11-19 +data-version: 2012-11-20 subsetdef: cyclostome_subset "cyclostome structures" subsetdef: defined_by_ordinal_series "classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology" subsetdef: developmental_classification "developmental_classification" @@ -29107,6 +29107,7 @@ relationship: part_of UBERON:0005334 ! oral lamina propria id: UBERON:0001831 name: parotid gland def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] +comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] @@ -29138,7 +29139,7 @@ property_value: homology_notes "The most common oral glands in mammals are the s id: UBERON:0001832 name: sublingual gland def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] -comment: This class was created automatically from a combination of ontologies +comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim synonym: "ductus sublingualis" EXACT [] synonym: "glandula sublingualis" RELATED LATIN [Wikipedia:Sublingual_gland] @@ -130895,7 +130896,7 @@ relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0011113 name: inferior tibiofibular joint -def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus Posterior ligament of the lateral malleolus Inferior transverse ligament of the tibiofibular syndesmosis Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] +def: "The inferior tibiofibular articulation (tibiofibular syndesmosis) is formed by the rough, convex surface of the medial side of the lower end of the fibula, and a rough concave surface on the lateral side of the tibia. Below, to the extent of about 4 mm. these surfaces are smooth, and covered with cartilage, which is continuous with that of the ankle-joint. The ligaments are: Anterior ligament of the lateral malleolus, Posterior ligament of the lateral malleolus, Inferior transverse ligament of the tibiofibular syndesmosis, Interosseous ligament" [Wikipedia:Inferior_tibiofibular_articulation] synonym: "distal tibiofibular joint" EXACT [FMA:10465] synonym: "inferior tibiofibular articulation" RELATED [Wikipedia:Inferior_tibiofibular_articulation] synonym: "syndesmosis tibiofibularis" EXACT LATIN [FMA:TA] @@ -137908,7 +137909,8 @@ id: UBERON:0012131 name: centrale def: "Endochondral bone located between the proximal and distal rows of carpals or tarsals and thus representing the central carpals or tarsals[PHENOSCAPE]." [PHENOSCAPE:AMAO] comment: Usage notes: This term corresponds both to the navicular bone in the pes and the similar central carpals in the manus. AO notes: the FMA term is under 'general anatomical term'. -synonym: "os centrale" EXACT [] +synonym: "central mesopodium bone" EXACT [] +synonym: "os centrale" EXACT [FMA:77232] xref: FMA:77232 is_a: UBERON:0003656 ! mesopodium bone relationship: part_of UBERON:0009878 ! mesopodium skeleton @@ -138888,6 +138890,38 @@ relationship: develops_from UBERON:0009479 {source="EHDAA2"} ! ectoderm of bucco relationship: part_of UBERON:0005356 ! Rathke's pouch relationship: part_of UBERON:0011642 {source="EHDAA2"} ! oral epithelium from ectoderm +[Term] +id: UBERON:0012288 +name: centroquartal bone +def: "A tarsal bone that is formed from the fusion of the central and 4th tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012289 +name: fused tarsals 2 and 3 +def: "A tarsal bone that is formed from the fusion of the 2nd and 3rd tarsal bones." [UBERON:skansa] +is_a: UBERON:0001447 ! tarsal bone + +[Term] +id: UBERON:0012290 +name: fused carpals 2 and 3 +def: "A carpal bone that is formed from the fusion of the 2nd and 3rd carpal bones." [UBERON:skansa] +is_a: UBERON:0001435 ! carpal bone + +[Term] +id: UBERON:0012291 +name: lateral malleolus of fibula +synonym: "distal extremity of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "external malleolus of fibula" RELATED [Wikipedia:Malleolus#Lateral_malleolus] +synonym: "fibular malleolus" RELATED [] +synonym: "lateral malleolus" BROAD [FMA:35502] +xref: FMA:35502 +xref: SCTID:361795009 +is_a: UBERON:0004120 ! mesoderm-derived structure +is_a: UBERON:0005055 ! zone of long bone +relationship: part_of UBERON:0004410 ! distal epiphysis of fibula +property_value: taxon_notes "In bovids, the distal end of the fibula is present only as the lateral malleolus, a separate bone that articulats with the lateral side of the distal tibia." xsd:string {scope="NCBITaxon:9895", seeAlso="UBERON:0004410", source="UBERON:skansa"} + [Term] id: UBERON:1000000 name: chin ventral margin