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NT: lateral malleolus; NTs for some fused tarsals and carpals, incl. …

…centrocarpal. fixes 154, 155
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1 parent 3a994ce commit 0d53f40b350bf7e22231ce6e006cdf3352f72359 @cmungall cmungall committed Nov 20, 2012
Showing with 236 additions and 18 deletions.
  1. +6 −0 mod/uberon-bridge-to-fma.obo
  2. +26 −0 mod/uberon-bridge-to-fma.owl
  3. +38 −4 uberon-simple.obo
  4. +41 −3 uberon-taxmod-amniote.obo
  5. +49 −3 uberon-with-isa.obo
  6. +38 −4 uberon.obo
  7. +38 −4 uberon_edit-implied.obo
@@ -20288,6 +20288,12 @@ 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
intersection_of: UBERON:0004411 ! proximal epiphysis of humerus
@@ -26938,6 +26938,26 @@
+ <!-- http://purl.obolibrary.org/obo/FMA_35502 -->
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/FMA_35502">
+ <owl:equivalentClass>
+ <owl:Class>
+ <owl:intersectionOf rdf:parseType="Collection">
+ <rdf:Description rdf:about="http://purl.obolibrary.org/obo/UBERON_0012291"/>
+ <owl:Restriction>
+ <owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000050"/>
+ <owl:someValuesFrom rdf:resource="http://purl.obolibrary.org/obo/NCBITaxon_9606"/>
+ </owl:Restriction>
+ </owl:intersectionOf>
+ </owl:Class>
+ </owl:equivalentClass>
+ <oboInOwl:id rdf:datatype="http://www.w3.org/2001/XMLSchema#string">FMA:35502</oboInOwl:id>
+ <obo:IAO_0000589 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">lateral malleolus of fibula (post-embryonic human)</obo:IAO_0000589>
+ </owl:Class>
+
+
+
<!-- http://purl.obolibrary.org/obo/FMA_37018 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/FMA_37018">
@@ -114998,6 +115018,12 @@
+ <!-- http://purl.obolibrary.org/obo/UBERON_0012291 -->
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0012291"/>
+
+
+
<!-- http://purl.obolibrary.org/obo/UBERON_1000019 -->
<owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_1000019"/>
View
@@ -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
@@ -131165,6 +131167,38 @@ 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
def: "Subdivision of the head consisting of the area along the lower edge of the chin." [UBERON:EJS]
View
@@ -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
@@ -143459,6 +143461,42 @@ 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
namespace: uberon
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