releases/2014-02-28

Chris Mungall

releases/2014-02-28

Addition of multiple taxon constraints, invertebrate circulatory system additions, multiple skeletal system additions for Phenoscape

releases/2014-02-28

Summary

Taxon constraints
- multiple new constraints, less conservative
- Some vertebrate structures broadened to Craniata
- Adding present_in for hagfish and lamprey structures
- ‘epidermis’ is now generic, ‘skin epidermis’ is now vert structure
- NT: nematode pharynx
heart/circulatory system
- NT: peristaltic heart
- using PATO tubular for tubes (previous: cylindrical)
- NT: dorsal vessel
- NTs: primary and accessory circ. organs
- NTs: now have all 4 ostia of heart
- NT: lymph heart
nervous system
- NT: pineal complex (obsoleted previous ext term)
  - added pineal gland, parietal organ and NT paraparietal
- neural crest broadened to craniates to avoid potential hagfish forebrain issue
musculoskeletal and integumentary system
- Made text defs for cartilage elements more consistent (s/cartilage condensation/cartilage/element)
- Removed incorrect syn for entepicondyle. Fixes issue #405 reported by AD
- layer of skin broadened to layer of integumentary system
- NTs: glandular system, non-connected functional system (from AEO)
- split cement gland into distinct barnacle and mollusc terms
- added grouping ‘arcuate ligament’ class, plus new subtypes
- added grouping class ‘nasal meatus’, plus new subtypes
- merged cranial muscle
- added classes for sucking discs and soft rays [WD]
- added proximal segment of caudal ray [WD]
- added lateral ethmoid element and cartilage; added distal segment of caudal fin ray [WD]
- added lepidotrichial segment [WD]
- added ectocoracoid bone, caudal vertebra 1, and ventral limb of posttemporal [WD]
- Add rudimentary pectoral fin ray, postcleithral scale, and dorsal fin ceratotrichial spine [WD]
- added anal fin spines 1 and 2, and anal fin pterygiophore 1 [WD]
- added X bone, Y bone, and mesocoracoid element [WD]

Diff Report

Original Ontology

IRI: http://purl.obolibrary.org/obo/uberon.owl
VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2014-02-18/uberon.owl

New Ontology

IRI: http://purl.obolibrary.org/obo/uberon.owl
VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2014-02-28/uberon.owl

Report for classes

Class objects lost from source: 2

Class objects new in target: 48

New Class : anal fin pterygiophore 1

anal fin pterygiophore 1 label anal fin pterygiophore 1
anal fin pterygiophore 1 SubClassOf anal fin pterygiophore
anal fin pterygiophore 1 definition Anal fin pterygiophore that is the anteriormost of the series.
anal fin pterygiophore 1 created_by WD

New Class : anal fin spine 2

anal fin spine 2 definition Anal fin spine that is located posteriorly adjacent to the first anal fin spine.
anal fin spine 2 SubClassOf anal fin spine
anal fin spine 2 created_by WD
anal fin spine 2 label anal fin spine 2

New Class : anal fin spine 1

anal fin spine 1 created_by WD
anal fin spine 1 SubClassOf anal fin spine
anal fin spine 1 definition Anal fin spine that is the anteriormost element of the series.
anal fin spine 1 label anal fin spine 1

New Class : mesocoracoid element

mesocoracoid element label mesocoracoid element
mesocoracoid element SubClassOf endochondral element
mesocoracoid element SubClassOf part_of some pectoral girdle skeleton
mesocoracoid element created_by WD

New Class : Y bone

Y bone definition The y bone is a detached neural spine anterior to the haemal spines of preural centrum 2.
Y bone label Y bone
Y bone comment Comment: In fishes, accessory bones (e.g., Y bone) are common in Gadiformes and rare in Zeiformes (Borden et al., 2013).
Y bone created_by WD
Y bone SubClassOf neural spine

New Class : X bone

X bone comment In fishes, accessory bones (e.g., X bone) are common in Gadiformes and rare in Zeiformes (Borden et al., 2013).
X bone label X bone
X bone definition The x bone is a detached neural spine anterior to the neural spine of preural centrum 2.
X bone created_by WD
X bone SubClassOf neural spine

New Class : ectocoracoid bone

ectocoracoid bone created_by WD
ectocoracoid bone SubClassOf dermal bone
ectocoracoid bone SubClassOf part_of some pectoral girdle skeleton
ectocoracoid bone definition A paired dermal bone in Gasterosteiformes connected with the coracoid and extending posteriorly. Has also been applied to the element below the scapula and applied to the coracoid in Dipnoi. Dictionary of Ichthyology.
ectocoracoid bone SubClassOf pectoral girdle bone
ectocoracoid bone label ectocoracoid bone

New Class : caudal vertebra 1

caudal vertebra 1 SubClassOf caudal vertebra
caudal vertebra 1 created_by WD
caudal vertebra 1 label caudal vertebra 1
caudal vertebra 1 definition Caudal vertebra that is the anteriormost element of the series.

New Class : ventral limb of posttemporal

ventral limb of posttemporal SubClassOf part_of some posttemporal
ventral limb of posttemporal SubClassOf structure with developmental contribution from neural crest
ventral limb of posttemporal definition Zone of bone organ that is the ventral extension of the posttemporal.
ventral limb of posttemporal label ventral limb of posttemporal
ventral limb of posttemporal SubClassOf mesoderm-derived structure
ventral limb of posttemporal SubClassOf zone of bone organ
ventral limb of posttemporal created_by WD
ventral limb of posttemporal SubClassOf ectoderm-derived structure

New Class : postcleithral scale

postcleithral scale definition Scale that is posteriorly adjacent to the pectoral girdle. [Cloutier and Arratia 2004, character 183]
postcleithral scale SubClassOf adjacent_to some pectoral girdle skeleton
postcleithral scale label postcleithral scale
postcleithral scale SubClassOf dermal scale
postcleithral scale created_by WD

New Class : dorsal fin ceratotrichial spine

dorsal fin ceratotrichial spine created_by WD
dorsal fin ceratotrichial spine label dorsal fin ceratotrichial spine
dorsal fin ceratotrichial spine definition A small to large enameloid-covered, dentine-cored spine located on the anterior margins of one or both of the dorsal fins, found on bullhead sharks (Heterodontiformes), many dogfish sharks, fossil (but not living) batoids, chimaeroids, but lost entirely or buried in the fin bases of other shark-like fishes. [def from Compagno, Sharks of the World]
dorsal fin ceratotrichial spine SubClassOf dorsal region organ
dorsal fin ceratotrichial spine SubClassOf ceratotrichium
dorsal fin ceratotrichial spine SubClassOf part_of some dorsal fin skeleton

New Class : dorsal fin soft ray

dorsal fin soft ray SubClassOf dorsal fin lepidotrichium
dorsal fin soft ray definition Soft ray that is part of the dorsal fin.
dorsal fin soft ray label dorsal fin soft ray
dorsal fin soft ray created_by WD
dorsal fin soft ray SubClassOf part_of some dorsal fin
dorsal fin soft ray SubClassOf segmented lepidotrichium

New Class : pelvic fin soft ray

pelvic fin soft ray definition Soft ray that is part of the pelvic fin.
pelvic fin soft ray SubClassOf pelvic fin lepidotrichium
pelvic fin soft ray label pelvic fin soft ray
pelvic fin soft ray SubClassOf part_of some pelvic fin
pelvic fin soft ray SubClassOf segmented lepidotrichium
pelvic fin soft ray created_by WD

New Class : pelvic sucking disc

pelvic sucking disc has_exact_synonym pelvic fin sucking disc
pelvic sucking disc has_exact_synonym adhesive disc
pelvic sucking disc definition An adhesive disk modified from the pelvic fins in, for example, clingfishes (Gobiesocidae), gobies (Gobiidae) and snailfishes (Liparidae). { database_cross_reference=http://www.briancoad.com/dictionary/complete%20dictionary.htm }
pelvic sucking disc has_broad_synonym sucking disc
pelvic sucking disc label pelvic sucking disc
pelvic sucking disc created_by WD
pelvic sucking disc has_exact_synonym ventral sucking disc
pelvic sucking disc SubClassOf pelvic fin

New Class : sucking disc

sucking disc SubClassOf dorsal fin
sucking disc definition Distinctive first dorsal fin taking the form of a modified oval sucker-like organ with slat-like structures that open and close to create suction and take a firm hold against the skin of larger marine animals. { database_cross_reference=http://en.wikipedia.org/wiki/Remora }
sucking disc label sucking disc
sucking disc created_by WD
sucking disc has_exact_synonym sucking disk
sucking disc comment For discussion of the homology of the sucking disc and dorsal fin, see Britz and Johnson (2012) (DOI: 10.1002/jmor.20063).

New Class : distal segment of caudal ray

distal segment of caudal ray created_by WD
distal segment of caudal ray SubClassOf lepidotrichial segment
distal segment of caudal ray SubClassOf part_of some caudal fin lepidotrichium
distal segment of caudal ray label distal segment of caudal ray
distal segment of caudal ray definition Lepidotrichial segment that is part of the distal region of a caudal fin ray.

New Class : lateral ethmoid element

lateral ethmoid element label lateral ethmoid element
lateral ethmoid element SubClassOf endochondral element
lateral ethmoid element definition Endochondral element that separates the olfactory region from the orbit, extends medially to meet its fellow medially below the frontal bones and is bordered by the mesethmoid anteriorly. It may articulate with the autopalatine and infraorbital 1 laterally. The lateral ethmoid is paired. { database_cross_reference=ZFIN:curator }
lateral ethmoid element created_by WD

New Class : lateral ethmoid cartilage

lateral ethmoid cartilage label lateral ethmoid cartilage
lateral ethmoid cartilage SubClassOf lateral ethmoid element
lateral ethmoid cartilage created_by WD
lateral ethmoid cartilage SubClassOf cartilage element
lateral ethmoid cartilage SubClassOf composed_primarily_of some cartilage tissue

New Class : inferior nasal meatus

inferior nasal meatus database_cross_reference SCTID:310214001
inferior nasal meatus id UBERON:0015220
inferior nasal meatus has_related_synonym inferior meatus { database_cross_reference=Wikipedia:Inferior_nasal_meatus }
inferior nasal meatus definition The inferior meatus, the largest of the three meatuses of the nose, is the space between the inferior concha and the floor of the nasal cavity. It extends almost the entire length of the lateral wall of the nose, is broader in front than behind, and presents anteriorly the lower orifice of the nasolacrimal canal. { database_cross_reference=Wikipedia:Inferior_nasal_meatus }
inferior nasal meatus has_obo_namespace uberon
inferior nasal meatus database_cross_reference FMA:53140
inferior nasal meatus SubClassOf nasal meatus
inferior nasal meatus label inferior nasal meatus
inferior nasal meatus database_cross_reference EMAPA:19278
inferior nasal meatus database_cross_reference Wikipedia:Inferior_nasal_meatus

New Class : circulatory organ

circulatory organ SubClassOf compound organ
circulatory organ has_exact_synonym cardiac pump
circulatory organ SubClassOf part_of some circulatory system
circulatory organ definition A hollow, muscular organ, which, by contracting rhythmically, contributes to the circulation of lymph, blood or analogs. Examples: a chambered vertebrate heart; the tubular peristaltic heart of ascidians; the dorsal vessel of an insect; the lymoh heart of a reptile. { database_cross_reference=UBERON:cjm }
circulatory organ has_related_synonym cardiac structure
circulatory organ in_subset grouping_class
circulatory organ label circulatory organ
circulatory organ has_narrow_synonym circulatory vessel
circulatory organ id UBERON:0015228
circulatory organ has_exact_synonym heart or heart like organ
circulatory organ has_obo_namespace uberon

New Class : peristaltic circulatory vessel

peristaltic circulatory vessel database_cross_reference BSA:0000088
peristaltic circulatory vessel definition A vessel down which passes a wave of muscular contraction, that forces the flow of haemolymphatic fluid. { database_cross_reference=UBERON:cjm }
peristaltic circulatory vessel has_obo_namespace uberon
peristaltic circulatory vessel SubClassOf vessel
peristaltic circulatory vessel label peristaltic circulatory vessel
peristaltic circulatory vessel database_cross_reference BSA:0000063
peristaltic circulatory vessel id UBERON:0015227
peristaltic circulatory vessel has_exact_synonym peristaltic heart { database_cross_reference=UBERON:cjm }
peristaltic circulatory vessel comment See PMID:20235196 for discussion of whether embryonic vertebrate heart is peristaltic
peristaltic circulatory vessel present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7718 { source=PMID:20959416 }
peristaltic circulatory vessel SubClassOf primary circulatory organ
peristaltic circulatory vessel database_cross_reference ANISEED:1235302
peristaltic circulatory vessel SubClassOf tube

New Class : bulbar spiral septum

bulbar spiral septum SubClassOf cardiac septum
bulbar spiral septum SubClassOf part_of some heart
bulbar spiral septum has_obo_namespace uberon
bulbar spiral septum id UBERON:0015226
bulbar spiral septum database_cross_reference SCTID:361469006
bulbar spiral septum label bulbar spiral septum

New Class : atrial foramen intermedium

atrial foramen intermedium SubClassOf mesoderm-derived structure
atrial foramen intermedium id UBERON:0015225
atrial foramen intermedium has_related_synonym ostium intermedium
atrial foramen intermedium label atrial foramen intermedium
atrial foramen intermedium SubClassOf anatomical conduit
atrial foramen intermedium EquivalentTo anatomical conduit and part_of some atrial septum intermedium
atrial foramen intermedium has_obo_namespace uberon
atrial foramen intermedium has_exact_synonym interatrial ostium intermedium { has_synonym_type=latin term }
atrial foramen intermedium SubClassOf part_of some atrial septum intermedium

New Class : interventricular foramen intermedium

interventricular foramen intermedium SubClassOf mesoderm-derived structure
interventricular foramen intermedium EquivalentTo anatomical conduit and part_of some ventricular septum intermedium
interventricular foramen intermedium has_obo_namespace uberon
interventricular foramen intermedium id UBERON:0015224
interventricular foramen intermedium SubClassOf part_of some ventricular septum intermedium
interventricular foramen intermedium SubClassOf anatomical conduit
interventricular foramen intermedium SubClassOf neural crest-derived structure
interventricular foramen intermedium label interventricular foramen intermedium
interventricular foramen intermedium has_exact_synonym interventricular ostium intermedium { has_synonym_type=latin term }

New Class : dorsal nasal meatus

dorsal nasal meatus definition The dosal nasal meatus is a narrow passage bounded dorsally by the roof of the nasal cavity and ventrally by the dorsal concha. It terminates caudally at the junction of the inner plate of the frontal bone with the cribiform plate and lateral mass of the ethmoid bone. It is the shortest and shallowest of the three meatuses. { database_cross_reference=MURDOCH:659 }
dorsal nasal meatus label dorsal nasal meatus
dorsal nasal meatus SubClassOf nasal meatus
dorsal nasal meatus has_obo_namespace uberon
dorsal nasal meatus id UBERON:0015223

New Class : ventral nasal meatus

ventral nasal meatus id UBERON:0015222
ventral nasal meatus definition The ventral nasal meatus is found between the ventral nasal concha and the dorsal surface of the hard palate.It connects the nasal vestibule with the nasopharynx. Rostrally it is narrow at the nasal vestibule and widens caudally towards the nasopharyngeal meatus. The ventral nasal meatus is the main passage for air. Apart from olfaction, the nasal cavity functions to warm the inhaled air as it passes through the meatuses over the vascular beds of the mucosa. The air is humidified by the vaporization of tears and serous nasal secretion. The air is cleaned throughout the scattered mucous glands. These glands secrete mucous through the nasal cavity and the mucous serves to trap the large particles that come into contact with it. PPP Clinically in the horse the ventral nasal meatus is the main passage through which a stomach tube can be passed to the pharynx and oesophagus and then to the stomach. This kind of a tube is commonly used when drenching a horse for colic, as well as having many other veterinary applications. The tube has to pass through the ventral nasal meatus to the nasopharyngeal meatus and the caudal nares to reach the pharynx and oesophagus. If the tube is accidentally passed into the dorsal or middle nasal meatuses it would pass to the ethmotubinates and cause massive haemorrhage. { database_cross_reference=MURDOCH:2178 }
ventral nasal meatus SubClassOf nasal meatus
ventral nasal meatus label ventral nasal meatus
ventral nasal meatus has_obo_namespace uberon

New Class : common nasal meatus

common nasal meatus id UBERON:0015221
common nasal meatus SubClassOf nasal meatus
common nasal meatus has_obo_namespace uberon
common nasal meatus label common nasal meatus
common nasal meatus database_cross_reference FMA:53141

New Class : accessory circulatory organ

accessory circulatory organ has_obo_namespace uberon
accessory circulatory organ id UBERON:0015229
accessory circulatory organ label accessory circulatory organ
accessory circulatory organ SubClassOf circulatory organ

New Class : circulatory system dorsal vessel

circulatory system dorsal vessel has_related_synonym adult dorsal vessel { database_cross_reference=FBbt:00003152 }
circulatory system dorsal vessel has_obo_namespace uberon
circulatory system dorsal vessel SubClassOf vessel
circulatory system dorsal vessel label circulatory system dorsal vessel
circulatory system dorsal vessel SubClassOf part_of some circulatory system
circulatory system dorsal vessel id UBERON:0015231
circulatory system dorsal vessel has_exact_synonym dorsal vessel
circulatory system dorsal vessel database_cross_reference FBbt:00003152

New Class : dorsal vessel heart

dorsal vessel heart id UBERON:0015230
dorsal vessel heart SubClassOf part_of some circulatory system dorsal vessel
dorsal vessel heart has_obo_namespace uberon
dorsal vessel heart label dorsal vessel heart
dorsal vessel heart database_cross_reference FBbt:00003154
dorsal vessel heart SubClassOf primary circulatory organ

New Class : pineal complex

pineal complex label pineal complex
pineal complex SubClassOf ectoderm-derived structure
pineal complex database_cross_reference TAO:0001359
pineal complex definition A cluster in the epithalamus that consists of the pineal body and any associated structures, such as the parapineal gland or the parietal organ. The complex is poorly developed in mammals. { database_cross_reference=UBERON:cjm }
pineal complex id UBERON:0015238
pineal complex database_cross_reference ZFA:0001359
pineal complex SubClassOf part_of some epithalamus
pineal complex has_obo_namespace uberon
pineal complex SubClassOf anatomical cluster

New Class : nucleus of dorsal thalamus

nucleus of dorsal thalamus SubClassOf nucleus of thalamus
nucleus of dorsal thalamus has_exact_synonym nucleus of thalamus proper
nucleus of dorsal thalamus has_exact_synonym dorsal thalamic nucleus
nucleus of dorsal thalamus label nucleus of dorsal thalamus
nucleus of dorsal thalamus has_obo_namespace uberon
nucleus of dorsal thalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762 { notes=Hagfish possess a habenular complex and separate nuclei in the dorsal thalamus , source=Butler, 1996, p. 303 }
nucleus of dorsal thalamus id UBERON:0015233
nucleus of dorsal thalamus SubClassOf part_of some dorsal thalamus
nucleus of dorsal thalamus EquivalentTo nucleus of brain and part_of some dorsal thalamus

New Class : nematode pharynx

nematode pharynx has_related_synonym esophagus { database_cross_reference=WBbt:0003681 }
nematode pharynx SubClassOf foregut
nematode pharynx label nematode pharynx
nematode pharynx definition the feeding organ, a neuro-muscular pump in the head of the animal, used to ingest food, bacteria suspended in liquid, filter them out, grind them up and transport posteriorly into the instestine. { database_cross_reference=WBbt:0003681 }
nematode pharynx id UBERON:0015232
nematode pharynx database_cross_reference WBbt:0003681
nematode pharynx has_obo_namespace uberon

New Class : nucleus of ventral thalamus

nucleus of ventral thalamus SubClassOf part_of some ventral thalamus
nucleus of ventral thalamus SubClassOf nucleus of thalamus
nucleus of ventral thalamus has_obo_namespace uberon
nucleus of ventral thalamus has_exact_synonym ventral thalamic nucleus
nucleus of ventral thalamus id UBERON:0015234
nucleus of ventral thalamus label nucleus of ventral thalamus
nucleus of ventral thalamus EquivalentTo nucleus of brain and part_of some ventral thalamus

New Class : parapineal organ

parapineal organ SubClassOf part_of some pineal complex
parapineal organ label parapineal organ
parapineal organ SubClassOf compound organ
parapineal organ comment Taxon notes: In lampreys and apparently in some fossil fish, the parapineal body and the pineal body (epiphysis) are a bilateral pair of structures rather than being located in series, one in front of the other. A pair of visual structures may have been the ancestral condition of this pineal complex (Weichert, 1970, p.622). The parapineal organs of lampreys, tadpoles, and lizards possess cells similar to rods and cones. Frogs possess a brow spot or frontal organ where ancestral pineal eye might have been (Weichert, 1970, p.622)
parapineal organ has_related_synonym parapineal gland
parapineal organ external_definition An unpaired left-sided accessory organ which plays a role in establishing lateral brain left right asymmetry[ZFA:0001360, ZFIN:ZDB-PUB-030206-1]. { source=ZFA:0001360, ZFIN:ZDB-PUB-030206-1 }
parapineal organ database_cross_reference TAO:0001360
parapineal organ id UBERON:0015241
parapineal organ database_cross_reference ZFA:0001360
parapineal organ has_obo_namespace uberon
parapineal organ SubClassOf ectoderm-derived structure

New Class : lymph heart

lymph heart id UBERON:0015202
lymph heart has_obo_namespace uberon
lymph heart definition A circulatory organ that is reponsible for pumping lymph throughout the body. { database_cross_reference=UBERON:cjm }
lymph heart SubClassOf accessory circulatory organ
lymph heart label lymph heart
lymph heart present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_8342
lymph heart database_cross_reference Wikipedia:Lymph_heart

New Class : non-connected functional system

non-connected functional system id UBERON:0015203
non-connected functional system SubClassOf anatomical system
non-connected functional system database_cross_reference FBbt:00007278
non-connected functional system database_cross_reference AEO:0000093
non-connected functional system label non-connected functional system
non-connected functional system has_obo_namespace uberon
non-connected functional system definition An anatomical group whose component structures share a common function. { database_cross_reference=AEO:0000093 , database_cross_reference=AEO:JB }

New Class : glandular system

glandular system has_obo_namespace uberon
glandular system SubClassOf composed_primarily_of some gland
glandular system database_cross_reference EHDAA2:0002223
glandular system EquivalentTo non-connected functional system and composed_primarily_of some gland
glandular system SubClassOf non-connected functional system
glandular system label glandular system
glandular system id UBERON:0015204

New Class : lateral structure

lateral structure label lateral structure
lateral structure id UBERON:0015212
lateral structure SubClassOf in_lateral_side_of some material anatomical entity
lateral structure definition Any structure that is placed on one side of the left-right axis of a bilaterian. { database_cross_reference=UBERON:cjm }
lateral structure EquivalentTo anatomical structure and in_lateral_side_of some material anatomical entity
lateral structure in_subset non_informative
lateral structure in_subset grouping_class
lateral structure SubClassOf anatomical structure
lateral structure comment Usage notes: This class is primarily to implement taxon constraints. It may be removed in the future.
lateral structure has_obo_namespace uberon

New Class : barnacle cement gland

barnacle cement gland definition Typical barnacles, common name of the sedentary crustacean marine animals constituting the subclass Cirripedia, attach to the substrate by means of an exceedingly adhesive cement, produced by a cement gland, and secrete a shell, or carapace, of calcareous (limestone) plates, around themselves. { database_cross_reference=BTO:0002738 }
barnacle cement gland label barnacle cement gland
barnacle cement gland has_obo_namespace uberon
barnacle cement gland database_cross_reference BTO:0002738
barnacle cement gland has_broad_synonym cement gland { database_cross_reference=BTO:0002738 }
barnacle cement gland has_related_synonym cementary gland { database_cross_reference=BTO:0002738 }
barnacle cement gland SubClassOf exocrine gland
barnacle cement gland id UBERON:0015213

New Class : arcuate ligament

arcuate ligament SubClassOf respiratory system connective tissue
arcuate ligament SubClassOf ligament
arcuate ligament label arcuate ligament
arcuate ligament database_cross_reference EMAPA:19236
arcuate ligament id UBERON:0015214
arcuate ligament has_obo_namespace uberon
arcuate ligament SubClassOf mesoderm-derived structure
arcuate ligament SubClassOf part_of some diaphragm
arcuate ligament EquivalentTo ligament and part_of some diaphragm
arcuate ligament database_cross_reference FMA:58280
arcuate ligament SubClassOf thoracic segment connective tissue

New Class : median arcuate ligament

median arcuate ligament label median arcuate ligament
median arcuate ligament has_obo_namespace uberon
median arcuate ligament id UBERON:0015215
median arcuate ligament database_cross_reference Wikipedia:Median_arcuate_ligament
median arcuate ligament SubClassOf arcuate ligament
median arcuate ligament definition The median arcuate ligament is a ligament under the diaphragm that connects the right and left crura of diaphragm. { database_cross_reference=Wikipedia:Median_arcuate_ligament }
median arcuate ligament database_cross_reference FMA:58281

New Class : nasal meatus

nasal meatus id UBERON:0015216
nasal meatus SubClassOf part_of some olfactory apparatus
nasal meatus label nasal meatus
nasal meatus SubClassOf anatomical cavity
nasal meatus database_cross_reference EMAPA:18593
nasal meatus has_obo_namespace uberon
nasal meatus database_cross_reference FMA:53146
nasal meatus database_cross_reference SCTID:310212002

New Class : middle nasal meatus

middle nasal meatus SubClassOf nasal meatus
middle nasal meatus has_related_synonym middle meatus { database_cross_reference=Wikipedia:Middle_nasal_meatus }
middle nasal meatus database_cross_reference SCTID:361925009
middle nasal meatus id UBERON:0015219
middle nasal meatus database_cross_reference FMA:53139
middle nasal meatus database_cross_reference EMAPA:19277
middle nasal meatus has_obo_namespace uberon
middle nasal meatus has_related_synonym middle meatus of the nose { database_cross_reference=Wikipedia:Middle_nasal_meatus }
middle nasal meatus definition The middle meatus is a nasal opening or canal situated between the middle and inferior conchae, and extends from the anterior to the posterior end of the latter. The lateral wall of this meatus can be satisfactorily studied only after the removal of the middle concha. On it is a curved fissure, the hiatus semilunaris, limited below by the edge of the uncinate process of the ethmoid and above by an elevation named the bulla ethmoidalis; the middle ethmoidal cells are contained within this bulla and open on or near to it. Through the hiatus semilunaris the meatus communicates with a curved passage termed the infundibulum, which communicates in front with the anterior ethmoidal cells and in rather more than fifty percent of skulls is continued upward as the frontonasal duct into the frontal air-sinus; when this continuity fails, the frontonasal duct opens directly into the anterior part of the meatus. Below the bulla ethmoidalis and hidden by the uncinate process of the ethmoid is the opening of the maxillary sinus (ostium maxillare); an accessory opening is frequently present above the posterior part of the inferior nasal concha. { database_cross_reference=Wikipedia:Middle_nasal_meatus }
middle nasal meatus label middle nasal meatus
middle nasal meatus database_cross_reference Wikipedia:Middle_nasal_meatus

New Class : perineural vascular plexus

perineural vascular plexus definition the capillary bed that initially surrounds the relative avascular brain and spinal cord; the perineural vascular plexus (PNVP) is the precursor to the blood brain barrier formed by angioblasts which migrate away from somites and is recruited to surround the neural tube in response to VEGF; vascularization of the brain and spinal cord occurs via angiogenesis as sprouting vessels from the PNVP invade the neuroepithelium and grow inward toward the ventricular lumen[MP]. { database_cross_reference=J:128915 , database_cross_reference=J:136236 , database_cross_reference=J:166127 , database_cross_reference=J:171226 , database_cross_reference=J:50761 , database_cross_reference=J:55403 , database_cross_reference=MGI:anna }
perineural vascular plexus label perineural vascular plexus
perineural vascular plexus has_obo_namespace uberon
perineural vascular plexus SubClassOf part_of some nervous system
perineural vascular plexus id UBERON:0015189
perineural vascular plexus SubClassOf capillary bed
perineural vascular plexus has_exact_synonym PNVP { database_cross_reference=MGI:anna , has_synonym_type=abbreviation }

Changed Class objects: 521

Changes for: integumentary system layer

Deleted
- - layer of skin SubClassOf ectoderm-derived structure
- - layer of skin SubClassOf part_of some skin of body
- - layer of skin comment todo - add subtypes
- - layer of skin has_exact_synonym skin layer
- - layer of skin label layer of skin
Added
- + integumentary system layer SubClassOf part_of some integumental system
- + integumentary system layer has_narrow_synonym layer of skin
- + integumentary system layer has_narrow_synonym skin layer
- + integumentary system layer label integumentary system layer

Changes for: crop

Added
- + crop SubClassOf thoracic segment organ

Changes for: notochordal fluid

Added
- + notochordal fluid SubClassOf part_of some notochord

Changes for: main body axis

Deleted
- - main body axis definition A principle subdivision of an organism that includes all structures along the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages. { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + main body axis definition A principle subdivision of an organism that includes all structures along the primary axis, typically the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages. { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }

Changes for: internal pudendal artery

Added
- + internal pudendal artery SubClassOf lateral structure

Changes for: stratum compactum

Added
- + stratum compactum SubClassOf ectoderm-derived structure

Changes for: outer epithelium

Deleted
- - outer epithelial layer EquivalentTo epithelium and surrounds some multi-cellular organism
- - outer epithelial layer SubClassOf epithelium
- - outer epithelial layer definition The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]. The epidermis of a more complex invertebrate is just one-layer deep, and may be protected by a non-cellular cuticle. The epidermis of a higher vertebrate has many layers, and the outer layers are reinforced with keratin and then die[WP]. { database_cross_reference=Wikipedia:Epidermis_(zoology) }
- - outer epithelial layer has_narrow_synonym epidermis { database_cross_reference=GO:0008544 }
- - outer epithelial layer label outer epithelial layer
Added
- + outer epithelium EquivalentTo epithelium and develops_from some enveloping layer of ectoderm and surrounds some multi-cellular organism
- + outer epithelium SubClassOf develops_from some enveloping layer of ectoderm
- + outer epithelium SubClassOf ecto-epithelium
- + outer epithelium database_cross_reference BSA:0000073
- + outer epithelium definition The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]. { database_cross_reference=GO:0008544 }
- + outer epithelium has_exact_synonym epidermis { database_cross_reference=GO:0008544 , has_synonym_type=preferred term when talking about an instance of this class in Homo sapiens }
- + outer epithelium has_exact_synonym outer epithelial layer
- + outer epithelium label outer epithelium

Changes for: transverse foramen of axis

Added
- + transverse foramen of axis SubClassOf lateral structure

Changes for: mammary ridge

Deleted
- - mammary ridge SubClassOf part_of some embryo
Added
- + mammary ridge SubClassOf has potential to develop into some mammary gland

Changes for: enveloping layer of ectoderm

Deleted
- - enveloping layer of ectoderm SubClassOf developing anatomical structure
- - enveloping layer of ectoderm definition Outermost monolayer of cells surrounding the embryo that become very flattened in the blastula and give rise to the periderm. Originally this tissue is one cell layer thick but in most vertebrates it soon becomes a two layered structure. The outer layer gives rise to the periderm. { database_cross_reference=ISBN:9780878932504 , database_cross_reference=ZFIN:ZDB-PUB-961014-576 }
Added
- + enveloping layer of ectoderm SubClassOf ecto-epithelium
- + enveloping layer of ectoderm SubClassOf embryonic tissue
- + enveloping layer of ectoderm SubClassOf surrounds some embryo
- + enveloping layer of ectoderm SubClassOf unilaminar epithelium
- + enveloping layer of ectoderm comment Taxon notes: Originally this tissue is one cell layer thick but in most vertebrates it soon becomes a two layered structure. The outer layer gives rise to the periderm.
- + enveloping layer of ectoderm definition Outermost layer of cells surrounding the embryo. { database_cross_reference=UBERON:cjm }

Changes for: endolymphatic appendage

Added
- + endolymphatic appendage SubClassOf has potential to develop into some endolymphatic duct

Changes for: mesocoracoid bone

Deleted
- - mesocoracoid bone SubClassOf part_of some pectoral girdle skeleton
Added
- + mesocoracoid bone EquivalentTo mesocoracoid element and composed_primarily_of some bone tissue
- + mesocoracoid bone SubClassOf composed_primarily_of some bone tissue
- + mesocoracoid bone SubClassOf mesocoracoid element

Changes for: tetrapod frontal bone primordium

Deleted
- - frontal bone primordium SubClassOf embryonic structure
- - frontal bone primordium label frontal bone primordium
Added
- + tetrapod frontal bone primordium SubClassOf has potential to develop into some tetrapod frontal bone
- + tetrapod frontal bone primordium SubClassOf primordium
- + tetrapod frontal bone primordium has_exact_synonym frontal bone primordium { database_cross_reference=EHDAA2:0000577 }
- + tetrapod frontal bone primordium label tetrapod frontal bone primordium

Changes for: lateral ethmoid bone

Deleted
- - lateral ethmoid label lateral ethmoid
Added
- + lateral ethmoid bone SubClassOf composed_primarily_of some bone tissue
- + lateral ethmoid bone SubClassOf lateral ethmoid element
- + lateral ethmoid bone label lateral ethmoid bone

Changes for: mouth-foregut junction

Deleted
- - mouth-foregut junction SubClassOf part_of some gastrointestinal system
Added
- + mouth-foregut junction SubClassOf part_of some digestive tract

Changes for: laryngotracheal groove

Added
- + laryngotracheal groove SubClassOf has potential to develop into some larynx
- + laryngotracheal groove SubClassOf has potential to develop into some trachea

Changes for: rostrolateral thalamic nucleus of Butler & Saidel

Deleted
- - rostrolateral thalamic nucleus of Butler & Saidel SubClassOf nucleus of thalamus
Added
- + rostrolateral thalamic nucleus of Butler & Saidel SubClassOf nucleus of ventral thalamus

Changes for: tetrapod parietal bone primordium

Deleted
- - parietal bone primordium SubClassOf developing anatomical structure
- - parietal bone primordium label parietal bone primordium
Added
- + tetrapod parietal bone primordium SubClassOf has potential to develop into some tetrapod parietal bone
- + tetrapod parietal bone primordium SubClassOf primordium
- + tetrapod parietal bone primordium has_exact_synonym parietal bone primordium { database_cross_reference=EHDAA2:0001404 }
- + tetrapod parietal bone primordium label tetrapod parietal bone primordium

Changes for: otic pit

Added
- + otic pit SubClassOf has potential to develop into some internal ear

Changes for: thoracic cavity organ

Deleted
- - thoracic cavity organ SubClassOf organ
Added
- + thoracic cavity organ SubClassOf part_of some thoracic segment of trunk
- + thoracic cavity organ SubClassOf thoracic segment organ

Changes for: right dorsal thalamus

Added
- + right dorsal thalamus SubClassOf lateral structure

Changes for: left dorsal thalamus

Added
- + left dorsal thalamus SubClassOf lateral structure

Changes for: buttock

Added
- + buttock SubClassOf lateral structure

Changes for: retractor tentaculi

Deleted
- - retractor tentaculi SubClassOf cranial muscle
Added
- + retractor tentaculi SubClassOf cranial muscle

Changes for: columella nasi

Deleted
- - columella nasi SubClassOf organ segment
Added
- + columella nasi SubClassOf surface structure

Changes for: presumptive forebrain midbrain boundary

Added
- + presumptive forebrain midbrain boundary SubClassOf part_of some future brain

Changes for: presumptive neural plate

Added
- + presumptive neural plate comment Editor notes: consider merging

Changes for: lingual tonsil

Added
- + lingual tonsil SubClassOf lateral structure

Changes for: preoptic nucleus

Added
- + preoptic nucleus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Hardisty, p. 320-1 }

Changes for: adductor mandibulae complex

Deleted
- - adductor mandibulae complex SubClassOf muscle of head
Added
- + adductor mandibulae complex SubClassOf craniocervical muscle
- + adductor mandibulae complex SubClassOf mesoderm-derived structure

Changes for: cement gland

Deleted
- - cement gland database_cross_reference BTO:0002738
- - cement gland has_related_synonym cementary gland { database_cross_reference=BTO:0002738 }
- - cement gland in_subset organ_slim
Added
- + cement gland SubClassOf part_of some embryo

Changes for: left horn of sinus venosus

Added
- + left horn of sinus venosus SubClassOf lateral structure

Changes for: right horn of sinus venosus

Added
- + right horn of sinus venosus SubClassOf lateral structure

Changes for: myelinated nerve fiber

Added
- + myelinated nerve fiber present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7776

Changes for: ectodermal placode

Deleted
- - ectodermal placode EquivalentTo primordium and part_of some ectoderm
- - ectodermal placode comment Homology: With the exception of the adenohypophysis, homologues of the nonneurogenic placodes (e.g. placodes giving rise to the teeth, hair follicles and lens), appear to be lacking in invertebrate chordates. Editor notes: consder adding placodal ectoderm as a distinct class? Also place placodal ectoderm as develops_from ectoderm // AO notes: in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous
Added
- + ectodermal placode comment Homology: With the exception of the adenohypophysis, homologues of the nonneurogenic placodes (e.g. placodes giving rise to the teeth, hair follicles and lens), appear to be lacking in invertebrate chordates. Editor notes: consder adding placodal ectoderm as a distinct class? Also place placodal ectoderm as develops_from ectoderm; need to check taxon-appropriateness // AO notes: in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous.

Changes for: hindbrain-spinal cord boundary

Added
- + hindbrain-spinal cord boundary SubClassOf part_of some central nervous system

Changes for: forebrain-midbrain boundary

Added
- + forebrain-midbrain boundary SubClassOf part_of some brain

Changes for: neural fold

Added
- + neural fold SubClassOf lateral structure

Changes for: carapace bone

Deleted
- - carapace bone SubClassOf bone element
Added
- + carapace bone SubClassOf bone of dorsum

Changes for: pleural plate of carapace

Added
- + pleural plate of carapace SubClassOf lateral structure

Changes for: hypoplastron

Added
- + hypoplastron SubClassOf lateral structure

Changes for: xiphiplastron

Added
- + xiphiplastron SubClassOf lateral structure

Changes for: subdivision of organism along main body axis

Deleted
- - subdivision of organism along main body axis definition A major subdivision of an organism that divides an organism along its anterio-posterior axis. In vertebrates, this is based on the vertebral column. { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + subdivision of organism along main body axis definition A major subdivision of an organism that divides an organism along its main body axis (typically anterio-posterior axis). In vertebrates, this is based on the vertebral column. { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }

Changes for: genital labium

Added
- + genital labium SubClassOf lateral structure

Changes for: orbital part of frontal bone

Added
- + orbital part of frontal bone SubClassOf lateral structure

Changes for: right nipple

Added
- + right nipple SubClassOf lateral structure

Changes for: left nipple

Added
- + left nipple SubClassOf lateral structure

Changes for: epiplastron

Added
- + epiplastron SubClassOf lateral structure

Changes for: anatomical conduit

Added
- + anatomical conduit has_related_synonym ostia { has_synonym_type=plural term }
- + anatomical conduit has_related_synonym ostium

Changes for: primary circulatory organ

Deleted
- - circulatory organ SubClassOf compound organ
- - circulatory organ SubClassOf part_of some circulatory system
- - circulatory organ comment editor note: we need to find the appropriate GO process to use for the definition - ‘blood circulation’ may not apply to invertebrates; ‘circulatory system process’ is circular. Note we cannot use a part_of-based definition as this results in the iris and all vascular elements being categorized as circulatory organs. Taxon notes: note we reserve the subclass ‘heart’ from the vertebrate multi-chambered heart. “The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian”. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis. Gene notes: Bmp, Nkx, Gata
- - circulatory organ database_cross_reference ANISEED:1235302
- - circulatory organ database_cross_reference BSA:0000063
- - circulatory organ definition A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood[GO]. { database_cross_reference=GO:0007507 }
- - circulatory organ has_exact_synonym cardiac pump
- - circulatory organ has_exact_synonym heart or heart like organ
- - circulatory organ has_related_synonym cardiac structure
- - circulatory organ label circulatory organ
- - circulatory organ present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7718 { source=PMID:20959416 }
Added
- + primary circulatory organ SubClassOf circulatory organ
- + primary circulatory organ comment Taxon notes: note we reserve the subclass ‘heart’ from the vertebrate multi-chambered heart. “The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian”. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis. Gene notes: Bmp, Nkx, Gata
- + primary circulatory organ database_cross_reference SPD:0000130
- + primary circulatory organ definition A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]. { database_cross_reference=GO:0007507 }
- + primary circulatory organ label primary circulatory organ

Changes for: superior nasal meatus

Deleted
- - superior meatus SubClassOf anatomical cavity
- - superior meatus has_related_synonym superior nasal meatus { database_cross_reference=Wikipedia:Superior_nasal_meatus }
- - superior meatus label superior meatus
Added
- + superior nasal meatus SubClassOf nasal meatus
- + superior nasal meatus has_related_synonym superior meatus { database_cross_reference=Wikipedia:Superior_nasal_meatus }
- + superior nasal meatus label superior nasal meatus

Changes for: medial arcuate ligament

Deleted
- - medial arcuate ligament SubClassOf ligament
Added
- + medial arcuate ligament SubClassOf arcuate ligament
- + medial arcuate ligament database_cross_reference Wikipedia:Medial_arcuate_ligament
- + medial arcuate ligament definition The medial arcuate ligament (also medial lumbocostal arch) is tendinous fascia that arches over the psoas major muscle as it passes through the diaphragm. { database_cross_reference=Wikipedia:Medial_arcuate_ligament }
- + medial arcuate ligament has_related_synonym internal arcuate ligament { database_cross_reference=Wikipedia:Medial_arcuate_ligament }
- + medial arcuate ligament has_related_synonym medial lumbocostal arch { database_cross_reference=Wikipedia:Medial_arcuate_ligament }
- + medial arcuate ligament has_related_synonym medial lumbocostal arches { database_cross_reference=Wikipedia:Medial_arcuate_ligament }

Changes for: lateral arcuate ligament

Deleted
- - lateral arcuate ligament SubClassOf ligament
Added
- + lateral arcuate ligament SubClassOf arcuate ligament
- + lateral arcuate ligament database_cross_reference Wikipedia:Lateral_arcuate_ligament
- + lateral arcuate ligament definition The lateral arcuate ligament (also lateral lumbocostal arch) is a ligament under the diaphragm that arches across the upper part of the quadratus lumborum. It is traversed by the subcostal nerve, artery and vein. { database_cross_reference=Wikipedia:Lateral_arcuate_ligament }
- + lateral arcuate ligament has_related_synonym external arcuate ligament { database_cross_reference=Wikipedia:Lateral_arcuate_ligament }
- + lateral arcuate ligament has_related_synonym lateral lumbocostal arch { database_cross_reference=Wikipedia:Lateral_arcuate_ligament }

Changes for: angle of scapula

Added
- + angle of scapula SubClassOf part_of some scapula

Changes for: ventromedial thalamic nucleus

Deleted
- - ventromedial thalamic nucleus SubClassOf nucleus of thalamus
Added
- + ventromedial thalamic nucleus SubClassOf nucleus of ventral thalamus

Changes for: annulus fibrosus

Added
- + annulus fibrosus has_exact_synonym fibrocartilaginous ring { database_cross_reference=UBERON:cjm }

Changes for: mesocoracoid cartilage

Added
- + mesocoracoid cartilage EquivalentTo mesocoracoid element and composed_primarily_of some cartilage tissue
- + mesocoracoid cartilage SubClassOf composed_primarily_of some cartilage tissue
- + mesocoracoid cartilage SubClassOf mesocoracoid element

Changes for: vagus nerve nucleus

Added
- + vagus nerve nucleus SubClassOf structure with developmental contribution from neural crest

Changes for: genital swelling

Deleted
- - genital swelling definition Paired structures in the human embryo that represent the final stage of development of the caudal end of the external genitals before sexual differentiation. In both males and females the two swellings merge: in the female, they become the posterior labial commissure; In the male, they become the scrotum { database_cross_reference=Wikipedia:Labioscrotal_swelling }
Added
- + genital swelling definition Paired structures in the embryo that represent the final stage of development of the caudal end of the external genitals before sexual differentiation. In both males and females the two swellings merge: in the female, they become the posterior labial commissure; In the male, they become the scrotum { database_cross_reference=Wikipedia:Labioscrotal_swelling }

Changes for: atrial septum primum

Deleted
- - septum primum definition In the developing heart, the cavity of the primitive atrium becomes subdivided into right and left chambers by a septum, the septum primum, which grows downward into the cavity. The increasingly smaller gap below it (before it fuses with the endocardial cushion) is known as the ostium primum. The septum primum eventually fuses with the endocardial cushion, closing the ostium primum off completely. Meanwhile, perforations appear in the superior part of the septum primum, forming the ostium secundum. This will eventually form part of the fossa ovalis.. { database_cross_reference=GO:0003284 , database_cross_reference=Wikipedia:Septum_primum }
- - septum primum label septum primum
Added
- + atrial septum primum definition In the developing heart, the cavity of the primitive atrium becomes subdivided into right and left chambers by a septum, the septum primum, which grows downward into the cavity. The increasingly smaller gap below it (before it fuses with the endocardial cushion) is known as the ostium primum. The septum primum eventually fuses with the endocardial cushion, closing the ostium primum off completely. Meanwhile, perforations appear in the superior part of the septum primum, forming the ostium secundum. This will eventually form part of the fossa ovalis. { database_cross_reference=GO:0003284 }
- + atrial septum primum has_alternative_id UBERON:0004157
- + atrial septum primum has_exact_synonym Septum primum { database_cross_reference=FMA:63909 }
- + atrial septum primum has_exact_synonym atrial septum primum { database_cross_reference=GO:0003289 }
- + atrial septum primum label atrial septum primum

Changes for: atrial septum secundum

Deleted
- - septum secundum label septum secundum
Added
- + atrial septum secundum has_alternative_id UBERON:0004158
- + atrial septum secundum has_exact_synonym Septum secundum { database_cross_reference=FMA:63910 }
- + atrial septum secundum label atrial septum secundum

Changes for: levator labii superioris alaeque nasi

Deleted
- - levator labii superioris alaeque nasi SubClassOf has_muscle_insertion some external naris
Added
- + levator labii superioris alaeque nasi SubClassOf has_muscle_insertion some ala of nose

Changes for: mentalis

Added
- + mentalis SubClassOf lateral structure

Changes for: skin of body

Deleted
- - skin of body comment Note that FMA uses ‘skin’ for the entire organ. XAO seems consistent. MA seems to use it analagously to zone of skin
- - skin of body definition Nonparenchymatous organ that consists of the dermis and epidermis. Subdivisions of the skin surround various body parts; as a whole, the skin constitutes the external layer of the body. Examples: There is only one skin[FMA]. Surface structure that consists of the external membranous integument of the animal. { database_cross_reference=FMA:7163 , database_cross_reference=OMD:skin , database_cross_reference=Wikipedia:Skin }
Added
- + skin of body comment Usage notes: consider ‘integumentary system’ for invertebrates. AO notes: Note that FMA uses ‘skin’ for the entire organ. XAO seems consistent. MA seems to use it analagously to zone of skin
- + skin of body definition Nonparenchymatous organ that consists of the dermis and epidermis. Subdivisions of the skin surround various body parts; as a whole, the skin constitutes the external layer of the body.[FMA]. { database_cross_reference=FMA:7163 }

Changes for: left cardiac atrium

Added
- + left cardiac atrium SubClassOf lateral structure

Changes for: right cardiac atrium

Added
- + right cardiac atrium SubClassOf lateral structure

Changes for: stratum lucidum of epidermis

Added
- + stratum lucidum of epidermis SubClassOf ectoderm-derived structure

Changes for: levator veli palatini

Added
- + levator veli palatini SubClassOf lateral structure

Changes for: tensor veli palatini

Added
- + tensor veli palatini SubClassOf lateral structure

Changes for: heart left ventricle

Added
- + heart left ventricle SubClassOf lateral structure

Changes for: heart right ventricle

Added
- + heart right ventricle SubClassOf lateral structure

Changes for: future trigeminal ganglion

Deleted
- - trigeminal V preganglion label trigeminal V preganglion
Added
- + future trigeminal ganglion SubClassOf has potential to develop into some trigeminal ganglion
- + future trigeminal ganglion has_exact_synonym trigeminal V preganglion { database_cross_reference=EMAPA:16663 }
- + future trigeminal ganglion label future trigeminal ganglion

Changes for: cranial midline area

Added
- + cranial midline area SubClassOf intersects_midsagittal_plane_of some head

Changes for: left part of face

Added
- + left part of face SubClassOf lateral structure

Changes for: right part of face

Added
- + right part of face SubClassOf lateral structure

Changes for: vestibular gland

Deleted
- - vestibular gland SubClassOf part_of some female reproductive system
Added
- + vestibular gland SubClassOf part_of some mammalian vulva

Changes for: stratum granulosum of epidermis

Added
- + stratum granulosum of epidermis SubClassOf ectoderm-derived structure

Changes for: lung

Added
- + lung SubClassOf lateral structure

Changes for: ramus hyomandibularis

Added
- + ramus hyomandibularis SubClassOf structure with developmental contribution from neural crest

Changes for: endoneurial fluid

Added
- + endoneurial fluid SubClassOf part_of some endoneurium

Changes for: substantia nigra

Added
- + substantia nigra SubClassOf lateral structure

Changes for: stratum spinosum of epidermis

Added
- + stratum spinosum of epidermis SubClassOf ectoderm-derived structure

Changes for: stratum basale of epidermis

Added
- + stratum basale of epidermis SubClassOf ectoderm-derived structure

Changes for: hindbrain

Added
- + hindbrain present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762 { source=PMID:8932866 }

Changes for: eye muscle

Deleted
- - eye muscle SubClassOf muscle of head
Added
- + eye muscle SubClassOf craniocervical muscle

Changes for: ramus recurrens

Added
- + ramus recurrens SubClassOf structure with developmental contribution from neural crest

Changes for: ramus muscularis of vagus nerve

Added
- + ramus muscularis of vagus nerve SubClassOf structure with developmental contribution from neural crest

Changes for: descending branch of the vagus nerve

Added
- + descending branch of the vagus nerve SubClassOf structure with developmental contribution from neural crest

Changes for: protractor operculi

Deleted
- - protractor operculi SubClassOf cranial muscle
Added
- + protractor operculi SubClassOf cranial muscle
- + protractor operculi SubClassOf part_of some cheek

Changes for: laryngeus ventralis

Added
- + laryngeus ventralis SubClassOf structure with developmental contribution from neural crest

Changes for: blood-cerebrospinal fluid barrier

Added
- + blood-cerebrospinal fluid barrier SubClassOf part_of some nervous system

Changes for: shell septum

Added
- + shell septum comment Cede to CEPH

Changes for: pharyngeal gill precursor

Deleted
- - gill precursor label gill precursor
Added
- + pharyngeal gill precursor label pharyngeal gill precursor

Changes for: external gill

Added
- + external gill SubClassOf surface structure

Changes for: blood nerve barrier

Added
- + blood nerve barrier SubClassOf part_of some nervous system

Changes for: vertebra cartilage element

Deleted
- - vertebra cartilage element definition A cartilaginous condensation that is part of a vertebral column. { database_cross_reference=OBOL:automatic }
Added
- + vertebra cartilage element definition A cartilage element that is part of a vertebral column. { database_cross_reference=OBOL:automatic }
- + vertebra cartilage element present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7764 { notes=vertebra-like cartilage in hagfish are homologous to gnathostome vertebrae. mesenchymal cells express Pax1/9 and Twist , source=PMC3157150 }

Changes for: angular bone

Added
- + angular bone SubClassOf lateral structure

Changes for: transduate

Deleted
- - transudate label transudate
Added
- + transduate label transduate

Changes for: gyrus

Deleted
- - gyrus SubClassOf surrounded_by some sulcus
Added
- + gyrus SubClassOf surrounded_by some sulcus of brain

Changes for: pallium

Added
- + pallium present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762 { source=PMID:8932866 }

Changes for: lung vasculature

Added
- + lung vasculature SubClassOf vasculature of trunk

Changes for: lung connective tissue

Added
- + lung connective tissue SubClassOf thoracic segment connective tissue

Changes for: epineurium

Added
- + epineurium SubClassOf part_of some nervous system

Changes for: neural nucleus

Deleted
- - neural nucleus SubClassOf part_of some nervous system

Changes for: endoneurium

Added
- + endoneurium SubClassOf part_of some nervous system

Changes for: blood brain barrier

Added
- + blood brain barrier SubClassOf part_of some nervous system

Changes for: perineurium

Added
- + perineurium SubClassOf located_in some epineurium
- + perineurium SubClassOf part_of some nervous system
- + perineurium database_cross_reference ncithesaurus:Perineural_Tissue
- + perineurium has_relational_adjective perineurial

Changes for: anterior region of body

Deleted
- - anterior region of body database_cross_reference NeuroNames:2645

Changes for: intestine

Deleted
- - intestine comment MA also has a class MA:0001524 bowel, not clear how this is different. Usage notes: this class is currently very general, encompassing the C elegans ‘intestine’, which is a tube of epithelial cells extending from the ‘pharynx’ to ‘rectum’. Taxon notes: [in zebrafish] No stomach, small intestine, or large intestine can be distinguished. However, differences can be found in the morphology of the mucosa columnar epithelial cells and the number of goblet cells, suggesting functional differentiation. The intestine has numerous folds that become progressively shorter in a rostral-to-caudal direction. Proportionally, these folds are significantly larger than the finger-like intestinal villi of mammals and other amniotes (Wallace et al. 2005). Columnar-shaped absorptive enterocytes are the most numerous in the zebrafish intestinal epithelium. Goblet cells are the second most populous epithelial cell type.
Added
- + intestine comment Editor notes: This class is probably too inclusive. Taxon notes: [in zebrafish] No stomach, small intestine, or large intestine can be distinguished. However, differences can be found in the morphology of the mucosa columnar epithelial cells and the number of goblet cells, suggesting functional differentiation. The intestine has numerous folds that become progressively shorter in a rostral-to-caudal direction. Proportionally, these folds are significantly larger than the finger-like intestinal villi of mammals and other amniotes (Wallace et al. 2005). Columnar-shaped absorptive enterocytes are the most numerous in the zebrafish intestinal epithelium. Goblet cells are the second most populous epithelial cell type.

Changes for: muscle of Aristotle’s lantern

Deleted
- - muscle of Aristotle’s lantern SubClassOf muscle of head
Added
- + muscle of Aristotle’s lantern SubClassOf craniocervical muscle

Changes for: pleural effusion

Added
- + pleural effusion SubClassOf located_in some pleural cavity

Changes for: amniotic fluid

Added
- + amniotic fluid SubClassOf located_in some amnion

Changes for: gingival groove

Added
- + gingival groove SubClassOf part_of some mouth

Changes for: stylopharyngeus muscle

Added
- + stylopharyngeus muscle SubClassOf lateral structure

Changes for: obsolete parapineal organ

Deleted
- - parapineal organ SubClassOf compound organ
- - parapineal organ SubClassOf ectoderm-derived structure
- - parapineal organ SubClassOf part_of some pineal complex
- - parapineal organ label parapineal organ
Added
- + obsolete parapineal organ deprecated true
- + obsolete parapineal organ label obsolete parapineal organ

Changes for: colorectum

Added
- + colorectum SubClassOf has_part some colon
- + colorectum SubClassOf has_part some rectum

Changes for: presphenoid bone

Deleted
- - presphenoid bone has_exact_synonym presphenoidal bone { database_cross_reference=SCTID:95949009 }
Added
- + presphenoid bone has_exact_synonym presphenoidal bone

Changes for: obsolete pineal complex

Deleted
- - pineal complex SubClassOf anatomical group
- - pineal complex SubClassOf ectoderm-derived structure
- - pineal complex SubClassOf part_of some epithalamus
- - pineal complex label pineal complex
Added
- + obsolete pineal complex deprecated true
- + obsolete pineal complex label obsolete pineal complex

Changes for: ventral thalamus

Added
- + ventral thalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }
- + ventral thalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742

Changes for: thalamic reticular nucleus

Deleted
- - thalamic reticular nucleus SubClassOf nucleus of thalamus
Added
- + thalamic reticular nucleus SubClassOf nucleus of ventral thalamus

Changes for: habenula

Deleted
- - habenula comment TODO - add separate term for nucleus (e.g. BTO:0003685 habenular nucleus)
- - habenula definition A segment of the epithalamus that has as its parts the lateral and medial habenular nuclei and the habenular commissure. // The habenula relays impulses from limbic areas of the telencephalon to an unpaired midbrain nucleus, the interpeduncular nucleus. { database_cross_reference=Wikipedia:Habenula , database_cross_reference=ZFIN:curator }
- - habenula has_related_synonym habenular nucleus
Added
- + habenula definition A segment of the epithalamus that has as its parts the lateral and medial habenular nuclei and the habenular commissure. { database_cross_reference=FMA:62032 }
- + habenula has_related_synonym habenular complex
- + habenula present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762 { source=Butler, 1996, p. 303 }

Changes for: pineal body

Deleted
- - pineal body SubClassOf part_of some epithalamus
Added
- + pineal body SubClassOf part_of some pineal complex
- + pineal body present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Hardisty, p. 310 }

Changes for: subthalamic nucleus

Deleted
- - subthalamic nucleus SubClassOf nucleus of thalamus
Added
- + subthalamic nucleus SubClassOf nucleus of dorsal thalamus
- + subthalamic nucleus SubClassOf nucleus of ventral thalamus

Changes for: zona incerta

Deleted
- - zona incerta SubClassOf nucleus of thalamus
Added
- + zona incerta SubClassOf nucleus of ventral thalamus

Changes for: central medial nucleus

Deleted
- - central medial nucleus SubClassOf nucleus of thalamus
Added
- + central medial nucleus SubClassOf nucleus of dorsal thalamus

Changes for: paracentral nucleus

Deleted
- - paracentral nucleus SubClassOf nucleus of thalamus
Added
- + paracentral nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral lateral nucleus

Deleted
- - ventral lateral nucleus SubClassOf nucleus of thalamus
Added
- + ventral lateral nucleus SubClassOf nucleus of dorsal thalamus
- + ventral lateral nucleus SubClassOf nucleus of ventral thalamus

Changes for: lateral geniculate body

Deleted
- - lateral geniculate body SubClassOf nucleus of thalamus
Added
- + lateral geniculate body SubClassOf nucleus of dorsal thalamus
- + lateral geniculate body present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }

Changes for: paraventricular nucleus of thalamus

Deleted
- - paraventricular nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + paraventricular nucleus of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: reuniens nucleus

Deleted
- - reuniens nucleus SubClassOf nucleus of thalamus
Added
- + reuniens nucleus SubClassOf nucleus of dorsal thalamus

Changes for: parafascicular nucleus

Deleted
- - parafascicular nucleus SubClassOf nucleus of thalamus
Added
- + parafascicular nucleus SubClassOf nucleus of dorsal thalamus

Changes for: medial geniculate body

Deleted
- - medial geniculate body SubClassOf nucleus of thalamus
Added
- + medial geniculate body SubClassOf nucleus of dorsal thalamus

Changes for: preoptic area

Added
- + preoptic area present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742

Changes for: Verson’s gland

Added
- + Verson’s gland SubClassOf ectoderm-derived structure

Changes for: upper urinary tract

Added
- + upper urinary tract SubClassOf has_part some kidney
- + upper urinary tract SubClassOf has_part some ureter
- + upper urinary tract SubClassOf lateral structure

Changes for: Marshall’s gland

Added
- + Marshall’s gland present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7858

Changes for: pharyngeal arch derived gill

Deleted
- - pharyngeal arch derived gill database_cross_reference AAO:0010171
Added
- + pharyngeal arch derived gill EquivalentTo gill and develops_from some pharyngeal gill precursor

Changes for: inferior colliculus

Added
- + inferior colliculus SubClassOf lateral structure

Changes for: superior colliculus

Added
- + superior colliculus SubClassOf lateral structure

Changes for: bile

Added
- + bile SubClassOf produced_by some liver

Changes for: nucleus of thalamus

Added
- + nucleus of thalamus database_cross_reference Wikipedia:List_of_thalamic_nuclei

Changes for: kidney field

Added
- + kidney field SubClassOf has potential to develop into some kidney

Changes for: pancreatic juice

Added
- + pancreatic juice EquivalentTo bodily secretion and produced_by some pancreas

Changes for: gut wall

Added
- + gut wall EquivalentTo anatomical wall and part_of some digestive tract

Changes for: reticular layer of dermis

Added
- + reticular layer of dermis SubClassOf ectoderm-derived structure

Changes for: cervical mucus

Added
- + cervical mucus EquivalentTo mucus and produced_by some uterine cervix
- + cervical mucus SubClassOf produced_by some uterine cervix

Changes for: root of vagus nerve

Added
- + root of vagus nerve SubClassOf structure with developmental contribution from neural crest

Changes for: atlanto-occipital joint

Added
- + atlanto-occipital joint SubClassOf lateral structure

Changes for: supraauricular point

Added
- + supraauricular point SubClassOf part_of some zygomatic process of temporal bone

Changes for: paratenial nucleus

Deleted
- - paratenial nucleus SubClassOf nucleus of thalamus
Added
- + paratenial nucleus SubClassOf nucleus of dorsal thalamus

Changes for: posterior nucleus of thalamus

Deleted
- - posterior nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + posterior nucleus of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: submedial nucleus

Deleted
- - submedial nucleus SubClassOf nucleus of thalamus
Added
- + submedial nucleus SubClassOf nucleus of dorsal thalamus

Changes for: primitive palate

Added
- + primitive palate SubClassOf has_fused_element some ectopterygoid bone
- + primitive palate SubClassOf has_fused_element some palatine bone
- + primitive palate SubClassOf has_fused_element some parasphenoid
- + primitive palate SubClassOf has_fused_element some pterygoid bone
- + primitive palate SubClassOf has_fused_element some vomer

Changes for: incisive foramen

Added
- + incisive foramen SubClassOf part_of some skull

Changes for: central dorsal nucleus

Deleted
- - central dorsal nucleus SubClassOf nucleus of thalamus
Added
- + central dorsal nucleus SubClassOf nucleus of dorsal thalamus

Changes for: central lateral nucleus

Deleted
- - central lateral nucleus SubClassOf nucleus of thalamus
Added
- + central lateral nucleus SubClassOf nucleus of dorsal thalamus

Changes for: retrocerebral complex

Added
- + retrocerebral complex comment To be ceded to ARTHRO

Changes for: diencephalon

Added
- + diencephalon present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762 { notes=not well differentiated from the cerebrum. (Ariens, p. 868) , source=PMID:8932866 }

Changes for: medulla oblongata

Added
- + medulla oblongata database_cross_reference BM:Me

Changes for: dorsal plus ventral thalamus

Added
- + dorsal plus ventral thalamus SubClassOf lateral structure

Changes for: hypothalamus

Added
- + hypothalamus dubious_for_taxon http://purl.obolibrary.org/obo/NCBITaxon_7737 { notes=Lancelets possess a region similar to the hypothalamus (Murakami, 2005) }
- + hypothalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }
- + hypothalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742

Changes for: epithalamus

Added
- + epithalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742

Changes for: intra-ocular muscle

Added
- + intra-ocular muscle SubClassOf mesoderm-derived structure

Changes for: cerebral hemisphere

Added
- + cerebral hemisphere SubClassOf lateral structure

Changes for: right eye

Added
- + right eye SubClassOf lateral structure

Changes for: left eye

Added
- + left eye SubClassOf lateral structure

Changes for: stomochord

Deleted
- - stomochord definition A flexible, hollow tube that arises in embryonic development as an outpocketing from the roof of the embryonic gut anterior to the pharynx. In adults, they extend dorsally from the pharynx into the probiscis, and serve to communicate with the oral cavity. Their walls are composed primarily of epithelial cells, but ciliated and glandular cells are also present { database_cross_reference=Wikipedia:Stomochord }
Added
- + stomochord definition A flexible, hollow tube found in hemichordates that arises in embryonic development as an outpocketing from the roof of the embryonic gut anterior to the pharynx. In adults, they extend dorsally from the pharynx into the probiscis, and serve to communicate with the oral cavity. Their walls are composed primarily of epithelial cells, but ciliated and glandular cells are also present { database_cross_reference=Wikipedia:Stomochord }

Changes for: left testis

Deleted
- - left testicle has_exact_synonym left testis { database_cross_reference=MA:0001746 }
- - left testicle label left testicle
Added
- + left testis SubClassOf lateral structure
- + left testis has_exact_synonym left testicle { database_cross_reference=MA:0001746 }
- + left testis label left testis

Changes for: right testis

Deleted
- - right testicle has_exact_synonym right testis { database_cross_reference=MA:0001747 }
- - right testicle label right testicle
Added
- + right testis SubClassOf lateral structure
- + right testis has_exact_synonym right testicle { database_cross_reference=MA:0001747 }
- + right testis label right testis

Changes for: paranasal sinus

Deleted
- - paranasal sinus SubClassOf part_of some head
Added
- + paranasal sinus SubClassOf part_of some skull

Changes for: major salivary gland

Added
- + major salivary gland SubClassOf lateral structure

Changes for: cranial nerve

Added
- + cranial nerve SubClassOf lateral structure

Changes for: lamprey sucker

Added
- + lamprey sucker SubClassOf ectoderm-derived structure
- + lamprey sucker SubClassOf part_of some mouth

Changes for: articular process of vertebra

Added
- + articular process of vertebra SubClassOf lateral structure

Changes for: trigeminal nerve fibers

Deleted
- - trigeminal nerve fibers SubClassOf organ part
Added
- + trigeminal nerve fibers EquivalentTo nerve fiber and part_of some trigeminal nerve
- + trigeminal nerve fibers SubClassOf nerve fiber
- + trigeminal nerve fibers SubClassOf part_of some trigeminal nerve

Changes for: ear vesicle

Deleted
- - ear vesicle SubClassOf ectodermal placode

Changes for: paraxial mesoderm

Added
- + paraxial mesoderm SubClassOf lateral structure

Changes for: sphenoid bone pterygoid process

Added
- + sphenoid bone pterygoid process SubClassOf lateral structure

Changes for: oral cirrus

Added
- + oral cirrus comment This class groups a chordate and lophotrochozoan structure; these should probably be split

Changes for: antler velvet

Deleted
- - antler velvet has_exact_synonym velvet of antler { database_cross_reference=SCTID:47282002 }
Added
- + antler velvet has_exact_synonym velvet of antler

Changes for: submocosal esophageal gland

Added
- + submocosal esophageal gland SubClassOf thoracic segment organ

Changes for: skull

Added
- + skull present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762

Changes for: vagus nerve

Deleted
- - vagus nerve comment This class was created automatically from a combination of ontologies

Changes for: pharyngeal raphe

Deleted
- - pharyngeal raphe SubClassOf connective tissue
- - pharyngeal raphe SubClassOf part_of some pharynx
Added
- + pharyngeal raphe SubClassOf endoderm-derived structure
- + pharyngeal raphe SubClassOf part_of some chordate pharynx
- + pharyngeal raphe SubClassOf respiratory system connective tissue

Changes for: arytenoid cartilage

Added
- + arytenoid cartilage SubClassOf lateral structure

Changes for: capsule of parathyroid gland

Added
- + capsule of parathyroid gland SubClassOf part_of some parathyroid gland

Changes for: transverse process of atlas

Added
- + transverse process of atlas SubClassOf lateral structure

Changes for: spinal cord lateral horn

Added
- + spinal cord lateral horn SubClassOf lateral structure

Changes for: pudendal nerve

Added
- + pudendal nerve SubClassOf lateral structure

Changes for: larynx

Added
- + larynx SubClassOf innervated_by some recurrent laryngeal nerve

Changes for: soft palate

Deleted
- - soft palate database_cross_reference BSA:0000110

Changes for: central caudal thalamic nucleus

Deleted
- - central caudal thalamic nucleus SubClassOf nucleus of thalamus
Added
- + central caudal thalamic nucleus SubClassOf nucleus of dorsal thalamus

Changes for: parasympathetic nervous system

Deleted
- - parasympathetic nervous system comment Development notes: has developmental contribution from NC in verteberates (UBERONREF:0000002)
- - parasympathetic nervous system definition The parasympathetic nervous system (PSNS) is a division of the autonomic nervous system (ANS), along with the sympathetic nervous system (SNS) and enteric nervous system (ENS). The ANS is a subdivision of the peripheral nervous system (PNS). ANS sends fibers to three tissues: cardiac muscle, smooth muscle, or glandular tissue. This stimulation, sympathetic or parasympathetic, is to control smooth muscle contraction, regulate cardiac muscle, or stimulate or inhibit glandular secretion [Wikipedia]. The parasympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system. Parasympathetic nerves emerge cranially as pre ganglionic fibers from oculomotor, facial, glossopharyngeal and vagus and from the sacral region of the spinal cord. Most neurons are cholinergic and responses are mediated by muscarinic receptors. The parasympathetic system innervates, for example: salivary glands, thoracic and abdominal viscera, bladder and genitalia [GO]. { database_cross_reference=Wikipedia:Parasympathetic_nervous_system }
Added
- + parasympathetic nervous system SubClassOf has developmental contribution from some neural crest
- + parasympathetic nervous system SubClassOf structure with developmental contribution from neural crest
- + parasympathetic nervous system definition The parasympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system. Parasympathetic nerves emerge cranially as pre ganglionic fibers from oculomotor, facial, glossopharyngeal and vagus and from the sacral region of the spinal cord. Most neurons are cholinergic and responses are mediated by muscarinic receptors. The parasympathetic system innervates, for example: salivary glands, thoracic and abdominal viscera, bladder and genitalia[GO]. { database_cross_reference=GO:0048486 }

Changes for: peripheral nervous system

Deleted
- - peripheral nervous system definition Nervous structures including ganglia outside of the central nervous system. Divided into somatic nervous system and autonomic nervous system { database_cross_reference=FB:gg , database_cross_reference=OMD:peripheral+nervous+system , database_cross_reference=Wikipedia:Peripheral_nervous_system , database_cross_reference=ZFIN:curator }
Added
- + peripheral nervous system definition A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands. { database_cross_reference=GO:0007422 }

Changes for: sympathetic nervous system

Deleted
- - sympathetic nervous system definition The Sympathetic Nervous System (SNS) is a branch of the autonomic nervous system along with the enteric nervous system and parasympathetic nervous system. It is always active at a basal level (called sympathetic tone) and becomes more active during times of stress. Its actions during the stress response comprise the fight-or-flight response [Wikipedia]. The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter [GO]. { database_cross_reference=Wikipedia:Sympathetic_nervous_system }
Added
- + sympathetic nervous system definition The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter [GO]. { database_cross_reference=GO:0048485 }

Changes for: zone of skin

Deleted
- - zone of skin SubClassOf multi cell component structure
- - zone of skin comment we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive
Added
- + zone of skin SubClassOf organ part
- + zone of skin comment AO notes: we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive

Changes for: camera-type eye

Added
- + camera-type eye SubClassOf lateral structure

Changes for: olfactory apparatus

Deleted
- - olfactory apparatus SubClassOf part_of some midface
- - olfactory apparatus has_exact_synonym nose
- - olfactory apparatus has_exact_synonym peripheral olfactory organ
Added
- + olfactory apparatus SubClassOf part_of some face
- + olfactory apparatus has_exact_synonym nose { database_cross_reference=MA:0000281 , has_synonym_type=preferred term when talking about an instance of this class in Homo sapiens }
- + olfactory apparatus has_exact_synonym peripheral olfactory organ { database_cross_reference=ZFA:0000047 }

Changes for: temporal bone

Added
- + temporal bone SubClassOf lateral structure

Changes for: lacrimal bone

Added
- + lacrimal bone SubClassOf lateral structure

Changes for: nasal bone

Added
- + nasal bone SubClassOf lateral structure

Changes for: palatine bone

Added
- + palatine bone SubClassOf lateral structure

Changes for: jugal bone

Added
- + jugal bone SubClassOf lateral structure

Changes for: external ear

Added
- + external ear SubClassOf lateral structure

Changes for: orbital region

Added
- + orbital region SubClassOf lateral structure

Changes for: egg chamber

Added
- + egg chamber comment Candidate for obsoletion

Changes for: respiratory primordium

Added
- + respiratory primordium SubClassOf has potential to develop into some respiratory system

Changes for: ureter

Added
- + ureter SubClassOf lateral structure

Changes for: organ

Added
- + organ database_cross_reference WBbt:0003760

Changes for: bronchoalveolar duct junction

Added
- + bronchoalveolar duct junction SubClassOf part_of some respiratory system

Changes for: articulation

Added
- + articulation SubClassOf part_of some articular system

Changes for: anteroventral nucleus

Deleted
- - anteroventral nucleus SubClassOf nucleus of thalamus
Added
- + anteroventral nucleus SubClassOf nucleus of dorsal thalamus

Changes for: anteromedial nucleus of thalamus

Deleted
- - anteromedial nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + anteromedial nucleus of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: anterodorsal nucleus of thalamus

Deleted
- - anterodorsal nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + anterodorsal nucleus of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: oral pulvinar nucleus

Deleted
- - oral pulvinar nucleus SubClassOf nucleus of thalamus
Added
- + oral pulvinar nucleus SubClassOf nucleus of dorsal thalamus

Changes for: medial pulvinar nucleus

Deleted
- - medial pulvinar nucleus SubClassOf nucleus of thalamus
Added
- + medial pulvinar nucleus SubClassOf nucleus of dorsal thalamus

Changes for: lateral pulvinar nucleus

Deleted
- - lateral pulvinar nucleus SubClassOf nucleus of thalamus
Added
- + lateral pulvinar nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral anterior nucleus

Deleted
- - ventral anterior nucleus SubClassOf nucleus of thalamus
Added
- + ventral anterior nucleus SubClassOf nucleus of dorsal thalamus

Changes for: cerebral crus

Added
- + cerebral crus SubClassOf lateral structure

Changes for: lower urinary tract

Added
- + lower urinary tract SubClassOf has_part some urethra
- + lower urinary tract SubClassOf has_part some urinary bladder

Changes for: upper respiratory tract

Added
- + upper respiratory tract SubClassOf has_part some olfactory apparatus

Changes for: lower respiratory tract

Added
- + lower respiratory tract SubClassOf has_part some pair of lungs

Changes for: cheek

Added
- + cheek SubClassOf lateral structure

Changes for: auricular muscle

Deleted
- - auricular muscle SubClassOf muscle of head
Added
- + auricular muscle SubClassOf craniocervical muscle

Changes for: depressor labii inferioris

Added
- + depressor labii inferioris SubClassOf lateral structure

Changes for: aryepiglottic fold

Added
- + aryepiglottic fold SubClassOf lateral structure

Changes for: esophagus muscle

Deleted
- - esophagus muscle SubClassOf muscle organ
Added
- + esophagus muscle SubClassOf thoracic segment muscle

Changes for: segmented lepidotrichium

Added
- + segmented lepidotrichium description Lepidotrichium that is articulated or segmented, and that can be simple or branched. { database_cross_reference=http://www.briancoad.com/dictionary/complete%20dictionary.htm }
- + segmented lepidotrichium has_exact_synonym soft ray

Changes for: epigonal organ

Added
- + epigonal organ SubClassOf lateral structure
- + epigonal organ SubClassOf part_of some hematopoietic system
- + epigonal organ SubClassOf surrounds some gonad

Changes for: coccygeal nerve

Added
- + coccygeal nerve SubClassOf lateral structure

Changes for: spiral valve of cystic duct

Added
- + spiral valve of cystic duct SubClassOf endoderm-derived structure
- + spiral valve of cystic duct SubClassOf part_of some cystic duct

Changes for: extra-ocular muscle

Added
- + extra-ocular muscle SubClassOf mesoderm-derived structure

Changes for: stomach primordium

Added
- + stomach primordium EquivalentTo primordium and has potential to develop into some stomach
- + stomach primordium SubClassOf has potential to develop into some stomach

Changes for: lingual artery

Added
- + lingual artery SubClassOf lateral structure

Changes for: food storage organ

Added
- + food storage organ database_cross_reference BSA:0000123

Changes for: pharyngeal opening of pharyngotympanic tube

Added
- + pharyngeal opening of pharyngotympanic tube SubClassOf part_of some chordate pharynx

Changes for: posterior communicating artery

Added
- + posterior communicating artery SubClassOf lateral structure

Changes for: intercostal space

Added
- + intercostal space SubClassOf part_of some thoracic rib cage

Changes for: posterior cerebral artery

Added
- + posterior cerebral artery SubClassOf lateral structure

Changes for: left branch of atrioventricular bundle

Added
- + left branch of atrioventricular bundle SubClassOf lateral structure

Changes for: right branch of atrioventricular bundle

Added
- + right branch of atrioventricular bundle SubClassOf lateral structure

Changes for: parietal organ

Deleted
- - parietal organ SubClassOf part_of some epithalamus
- - parietal organ SubClassOf tissue
Added
- + parietal organ SubClassOf compound organ
- + parietal organ SubClassOf part_of some pineal complex

Changes for: medial dorsal nucleus of thalamus

Deleted
- - medial dorsal nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + medial dorsal nucleus of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: intralaminar nuclear group

Deleted
- - intralaminar nuclear group SubClassOf nucleus of thalamus
Added
- + intralaminar nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: lateral nuclear group

Deleted
- - lateral nuclear group SubClassOf nucleus of thalamus
Added
- + lateral nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: appendicocostalis muscle

Deleted
- - appendicocostalis muscle definition . { database_cross_reference=PMID:15755883 }
Added
- + appendicocostalis muscle definition One of of three muscles associated with the uncinate processes. { database_cross_reference=PMID:15755883 }

Changes for: inferior nasal concha

Added
- + inferior nasal concha SubClassOf lateral structure

Changes for: respiratory velum

Deleted
- - respiratory velum comment Muscular scroll-like flap that moves water through median nostril and over gills // trifid and posteriorly directed lamina arising from roof of pharynx, behind posterior end of naso-pharyngeal duct
- - respiratory velum database_cross_reference BSA:0000110
Added
- + respiratory velum comment Muscular scroll-like flap that moves water through median nostril and over gills // trifid and posteriorly directed lamina arising from roof of pharynx, behind posterior end of naso-pharyngeal duct; Taxon notes: this is restricted to hagfishes; structure with same name found in tunicates

Changes for: esophagus skeletal muscle

Deleted
- - esophagus skeletal muscle SubClassOf skeletal muscle tissue
Added
- + esophagus skeletal muscle SubClassOf skeletal muscle tissue of trunk

Changes for: posterior nuclear complex of thalamus

Deleted
- - posterior nuclear complex of thalamus SubClassOf nucleus of thalamus
Added
- + posterior nuclear complex of thalamus SubClassOf nucleus of dorsal thalamus

Changes for: metathalamus

Deleted
- - metathalamus SubClassOf nucleus of thalamus
Added
- + metathalamus SubClassOf nucleus of dorsal thalamus

Changes for: midline nuclear group

Deleted
- - midline nuclear group SubClassOf nucleus of thalamus
Added
- + midline nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: salivary gland epithelium

Deleted
- - salivary gland epithelium SubClassOf develops_from some embryonic skin basal layer

Changes for: anterior calcarine sulcus

Deleted
- - anterior calcarine sulcus SubClassOf sulcus
Added
- + anterior calcarine sulcus SubClassOf sulcus of brain

Changes for: tadpole

Deleted
- - tadpole definition An an organism at the larval stage { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + tadpole definition An an organism at the tadpole stage { database_cross_reference=https://orcid.org/0000-0002-6601-2165 }

Changes for: gill

Deleted
- - gill SubClassOf surface structure
Added
- + gill SubClassOf organ
- + gill database_cross_reference AAO:0010171

Changes for: post-anal tail bud

Deleted
- - tail bud label tail bud
Added
- + post-anal tail bud SubClassOf has potential to develop into some post-anal tail
- + post-anal tail bud has_exact_synonym tail bud { database_cross_reference=ZFA:0000077 }
- + post-anal tail bud label post-anal tail bud

Changes for: tunica intima

Added
- + tunica intima comment Editor note: the FMA class represents a more generic layer which is the superclass of the layer found in both blood vessels and lymph vessels (and also endocardium) - we should probably follow this structure

Changes for: face

Deleted
- - face comment The face develops from outward growth of tissue located rostral to the cranium & pharynx. The lower jaw and most of the upper jaw are formed by growth of the first pharyngeal (branchial) arch. The upper incisor region and the nose and forehead (frontal region) are formed from tissue located rostral to the neural tube (frontonasal prominence)[vanat.cvm.umn.edu/TFFlectPDFs/LectFaceDevelop.pdf]
- - face definition Subdivision of head which consists of the facial skeleton and all layers superficial to it[FMA,modified]. { database_cross_reference=FMA:24728 , database_cross_reference=Wikipedia:Face }
Added
- + face SubClassOf has_part some mouth
- + face comment Development notes: The face develops from outward growth of tissue located rostral to the cranium & pharynx. The lower jaw and most of the upper jaw are formed by growth of the first pharyngeal (branchial) arch. The upper incisor region and the nose and forehead (frontal region) are formed from tissue located rostral to the neural tube (frontonasal prominence)[vanat.cvm.umn.edu/TFFlectPDFs/LectFaceDevelop.pdf]
- + face definition A subdivision of the head that has as parts the layers deep to the surface of the anterior surface, including the mouth, eyes, and olfactory apparatus (when present). In vertebrates, this includes the facial skeleton and structures superficial to the facial skeleton (cheeks, mouth, eyeballs, skin of face, etc). { database_cross_reference=UBERON:cjm }
- + face external_definition Subdivision of head which consists of the viscerocranium and all layers superficial to it. Examples: There is only one face. { source=FMA:24728 }
- + face external_definition The area that extends from the median ocellus to the oral foramen[HAO]. { source=HAO:0000316 , source=http://api.hymao.org/api/ref/67791 , taxon=NCBITaxon:7399 }

Changes for: extraperitoneal space

Added
- + extraperitoneal space SubClassOf part_of some abdomen

Changes for: supratemporal fenestra

Added
- + supratemporal fenestra definition A temporal fenestra in the upper part of the temporal bone. { database_cross_reference=Wikipedia:Skull }

Changes for: temporomandibular joint

Added
- + temporomandibular joint SubClassOf lateral structure

Changes for: laryngeal vocal fold

Added
- + laryngeal vocal fold SubClassOf lateral structure

Changes for: ventral posterior nucleus

Deleted
- - ventral posterior nucleus SubClassOf nucleus of thalamus
Added
- + ventral posterior nucleus SubClassOf nucleus of dorsal thalamus

Changes for: right anterior cardinal vein

Added
- + right anterior cardinal vein SubClassOf lateral structure

Changes for: left anterior cardinal vein

Added
- + left anterior cardinal vein SubClassOf lateral structure

Changes for: pleural sac

Added
- + pleural sac SubClassOf lateral structure

Changes for: trachea cartilage

Deleted
- - trachea cartilage comment Editor notes: check whether to classify as part of splanchoncranium
Added
- + trachea cartilage comment Editor notes: check whether to classify as part of splanchoncranium. Taxon notes: in avians the rings are complete.

Changes for: ala of nose

Deleted
- - ala of nose SubClassOf organ segment
- - ala of nose SubClassOf part_of some olfactory apparatus
Added
- + ala of nose SubClassOf lateral structure
- + ala of nose SubClassOf part_of some external nose
- + ala of nose SubClassOf surface structure

Changes for: pre-muscle condensation

Added
- + pre-muscle condensation SubClassOf has potential to develop into some muscle structure

Changes for: pre-cartilage condensation

Added
- + pre-cartilage condensation SubClassOf has potential to develop into some cartilage element

Changes for: undifferentiated genital tubercle

Added
- + undifferentiated genital tubercle SubClassOf has potential to develop into some differentiated genital tubercle

Changes for: internal carotid artery

Deleted
- - internal carotid artery comment This class was created automatically from a combination of ontologies
- - internal carotid artery definition In human anatomy, the internal carotid artery is a major artery of the head and neck that helps supply blood to the brain. [WP,unvetted]. { database_cross_reference=Wikipedia:Internal_carotid_artery }
Added
- + internal carotid artery SubClassOf supplies some brain
- + internal carotid artery SubClassOf supplies some eye
- + internal carotid artery definition A terminal branch of the left or right common carotid artery which supplies oxygenated blood to the brain and eyes[MP] { database_cross_reference=MGI:anna }

Changes for: tunicate siphon

Deleted
- - siphon label siphon
Added
- + tunicate siphon has_exact_synonym siphon { database_cross_reference=BTO:0002056 }
- + tunicate siphon label tunicate siphon

Changes for: male genital duct

Added
- + male genital duct SubClassOf lateral structure

Changes for: insect leg

Added
- + insect leg SubClassOf develops_from some imaginal disc

Changes for: great vein of heart

Added
- + great vein of heart SubClassOf lateral structure

Changes for: horn

Added
- + horn SubClassOf surrounds some bone element

Changes for: palatal muscle

Deleted
- - palatal muscle SubClassOf muscle of head
Added
- + palatal muscle SubClassOf craniocervical muscle

Changes for: peptonephridium

Added
- + peptonephridium SubClassOf thoracic segment organ

Changes for: stratum intermedium of epidermis

Added
- + stratum intermedium of epidermis SubClassOf ectoderm-derived structure

Changes for: dorsal thalamus

Added
- + dorsal thalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }
- + dorsal thalamus present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742

Changes for: inferior rectal artery

Added
- + inferior rectal artery SubClassOf lateral structure

Changes for: meniscus

Added
- + meniscus SubClassOf composed_primarily_of some fibrocartilage
- + meniscus SubClassOf part_of some skeletal joint

Changes for: tongue muscle

Deleted
- - tongue muscle SubClassOf muscle of head
Added
- + tongue muscle SubClassOf craniocervical muscle
- + tongue muscle SubClassOf mesoderm-derived structure

Changes for: inferior vesical artery

Added
- + inferior vesical artery SubClassOf lateral structure

Changes for: superior vesical artery

Added
- + superior vesical artery SubClassOf lateral structure

Changes for: myelin

Deleted
- - myelin definition a dielectric (electrically insulating) material that forms a layer, the myelin sheath, usually around only the axon of a neuron. Myelin is about 40 % water; the dry mass of myelin is about 70 - 85 % lipids and about 15 - 30 % proteins. Some of the proteins that make up myelin are myelin basic protein (MBP), myelin oligodendrocyte glycoprotein (MOG), and proteolipid protein (PLP). The primary lipid of myelin is a glycolipid called galactocerebroside (GalC). The intertwining hydrocarbon chains of sphingomyelin serve to strengthen the myelin sheath. { database_cross_reference=Wikipedia:Myelin }
Added
- + myelin SubClassOf part_of some nervous system
- + myelin definition a dielectric (electrically insulating) material consisting of protein and fat that forms a layer, the myelin sheath, usually around only the axon of a neuron. Myelin is about 40 % water; the dry mass of myelin is about 70 - 85 % lipids and about 15 - 30 % proteins. Some of the proteins that make up myelin are myelin basic protein (MBP), myelin oligodendrocyte glycoprotein (MOG), and proteolipid protein (PLP). The primary lipid of myelin is a glycolipid called galactocerebroside (GalC). The intertwining hydrocarbon chains of sphingomyelin serve to strengthen the myelin sheath. { database_cross_reference=Wikipedia:Myelin }
- + myelin present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_6340 { source=http://www1.pbrc.hawaii.edu/~danh/MyelinEvolution/evolution.html }
- + myelin present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_6681 { source=http://www1.pbrc.hawaii.edu/~danh/MyelinEvolution/evolution.html }
- + myelin present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7742 { source=http://www1.pbrc.hawaii.edu/~danh/MyelinEvolution/evolution.html }

Changes for: coccygeus muscle

Added
- + coccygeus muscle SubClassOf lateral structure

Changes for: calcaneum endochondral element

Deleted
- - calcaneum endochondral element SubClassOf endochondral element
Added
- + calcaneum endochondral element SubClassOf part_of some tarsal skeleton
- + calcaneum endochondral element SubClassOf tarsus endochondral element

Changes for: ventral intermediate nucleus of thalamus

Deleted
- - ventral intermediate nucleus of thalamus SubClassOf nucleus of thalamus
Added
- + ventral intermediate nucleus of thalamus SubClassOf nucleus of ventral thalamus

Changes for: endopeduncular nucleus

Deleted
- - endopeduncular nucleus SubClassOf nucleus of thalamus
Added
- + endopeduncular nucleus SubClassOf nucleus of ventral thalamus

Changes for: vagus X nerve trunk

Added
- + vagus X nerve trunk SubClassOf structure with developmental contribution from neural crest

Changes for: decidual cell

Deleted
- - decidual cell SubClassOf extraembryonic structure
- - decidual cell comment request from CL
- - decidual cell database_cross_reference BTO:0002770
- - decidual cell database_cross_reference FMA:86480
- - decidual cell database_cross_reference UMLS:C1511740 { source=ncithesaurus:Decidual_Cell }
- - decidual cell database_cross_reference ncithesaurus:Decidual_Cell
Added
- + decidual cell consider BTO:0002770
- + decidual cell consider FMA:86480
- + decidual cell consider UMLS:C1511740 { source=ncithesaurus:Decidual_Cell }
- + decidual cell consider ncithesaurus:Decidual_Cell
- + decidual cell deprecated true
- + decidual cell term replaced by CL:2000002

Changes for: subdural space

Added
- + subdural space SubClassOf part_of some meningeal cluster

Changes for: optic canal

Added
- + optic canal SubClassOf lateral structure

Changes for: zona limitans intrathalamica

Added
- + zona limitans intrathalamica SubClassOf part_of some dorsal plus ventral thalamus

Changes for: urogenital sinus lumen

Added
- + urogenital sinus lumen SubClassOf part_of some primitive urogenital sinus

Changes for: sympathetic trunk

Added
- + sympathetic trunk SubClassOf lateral structure

Changes for: right auditory cortex

Added
- + right auditory cortex SubClassOf lateral structure

Changes for: left auditory cortex

Added
- + left auditory cortex SubClassOf lateral structure

Changes for: embryonic uterus

Added
- + embryonic uterus SubClassOf has potential to develop into some uterus

Changes for: lung blood vessel

Added
- + lung blood vessel SubClassOf thoracic segment blood vessel

Changes for: lateral occipital sulcus

Deleted
- - lateral occipital sulcus SubClassOf sulcus
Added
- + lateral occipital sulcus SubClassOf sulcus of brain

Changes for: ventral posteroinferior nucleus

Deleted
- - ventral posteroinferior nucleus SubClassOf nucleus of thalamus
Added
- + ventral posteroinferior nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral posteromedial nucleus

Deleted
- - ventral posteromedial nucleus SubClassOf nucleus of thalamus
Added
- + ventral posteromedial nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral posterolateral nucleus

Deleted
- - ventral posterolateral nucleus SubClassOf nucleus of thalamus
Added
- + ventral posterolateral nucleus SubClassOf nucleus of dorsal thalamus

Changes for: rhomboidal nucleus

Deleted
- - rhomboidal nucleus SubClassOf nucleus of thalamus
Added
- + rhomboidal nucleus SubClassOf nucleus of dorsal thalamus

Changes for: subfascicular nucleus

Deleted
- - subfascicular nucleus SubClassOf nucleus of thalamus
Added
- + subfascicular nucleus SubClassOf nucleus of dorsal thalamus

Changes for: rostral intralaminar nuclear group

Deleted
- - rostral intralaminar nuclear group SubClassOf nucleus of thalamus
Added
- + rostral intralaminar nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: centromedian nucleus

Deleted
- - centromedian nucleus SubClassOf nucleus of thalamus
Added
- + centromedian nucleus SubClassOf nucleus of dorsal thalamus

Changes for: lateral dorsal nucleus

Deleted
- - lateral dorsal nucleus SubClassOf nucleus of thalamus
Added
- + lateral dorsal nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral nucleus of medial geniculate body

Deleted
- - ventral nucleus of medial geniculate body SubClassOf nucleus of thalamus
Added
- + ventral nucleus of medial geniculate body SubClassOf nucleus of dorsal thalamus

Changes for: inferior pulvinar nucleus

Deleted
- - inferior pulvinar nucleus SubClassOf nucleus of thalamus
Added
- + inferior pulvinar nucleus SubClassOf nucleus of dorsal thalamus

Changes for: lateral posterior nucleus

Deleted
- - lateral posterior nucleus SubClassOf nucleus of thalamus
Added
- + lateral posterior nucleus SubClassOf nucleus of dorsal thalamus

Changes for: pulvinar nucleus

Deleted
- - pulvinar nucleus SubClassOf nucleus of thalamus
Added
- + pulvinar nucleus SubClassOf nucleus of dorsal thalamus

Changes for: anterior nuclear group

Deleted
- - anterior nuclear group SubClassOf nucleus of thalamus
Added
- + anterior nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: ventral nuclear group

Deleted
- - ventral nuclear group SubClassOf nucleus of thalamus
Added
- + ventral nuclear group SubClassOf nucleus of dorsal thalamus

Changes for: interventricular foramen of heart

Added
- + interventricular foramen of heart SubClassOf mesoderm-derived structure
- + interventricular foramen of heart SubClassOf part_of some heart

Changes for: bulb of vestibule

Added
- + bulb of vestibule SubClassOf lateral structure

Changes for: left posterior cardinal vein

Added
- + left posterior cardinal vein SubClassOf lateral structure

Changes for: left subcardinal vein

Added
- + left subcardinal vein SubClassOf lateral structure

Changes for: magnocellular nucleus of medial geniculate body

Deleted
- - magnocellular nucleus of medial geniculate body SubClassOf nucleus of thalamus
Added
- + magnocellular nucleus of medial geniculate body SubClassOf nucleus of dorsal thalamus

Changes for: dorsal nucleus of medial geniculate body

Deleted
- - dorsal nucleus of medial geniculate body SubClassOf nucleus of thalamus
Added
- + dorsal nucleus of medial geniculate body SubClassOf nucleus of dorsal thalamus

Changes for: monkey lips dorsal bursa complex

Added
- + monkey lips dorsal bursa complex SubClassOf lateral structure

Changes for: pubis

Added
- + pubis SubClassOf lateral structure

Changes for: ischium

Added
- + ischium SubClassOf lateral structure

Changes for: ilium

Added
- + ilium SubClassOf lateral structure

Changes for: innominate bone

Added
- + innominate bone SubClassOf lateral structure

Changes for: pelvic girdle region

Added
- + pelvic girdle region SubClassOf lateral structure

Changes for: bony pelvis

Added
- + bony pelvis SubClassOf has_part some ischium
- + bony pelvis SubClassOf has_part some pubis
- + bony pelvis SubClassOf has_part some sacrum

Changes for: right lateral ventricle

Added
- + right lateral ventricle SubClassOf lateral structure

Changes for: left lateral ventricle

Added
- + left lateral ventricle SubClassOf lateral structure

Changes for: wall of intestine

Deleted
- - wall of intestine SubClassOf anatomical wall
Added
- + wall of intestine SubClassOf gut wall

Changes for: dorsal bursa

Added
- + dorsal bursa SubClassOf lateral structure

Changes for: external nose

Deleted
- - external nose definition Subdivision of face, the exterior of the nose, which consists of a root, dorsum, tip, columella, and right and left alae. { database_cross_reference=FMA:59515 }
Added
- + external nose definition External part of the olfactory apparatus. { database_cross_reference=UBERON:cjm }
- + external nose external_definition Subdivision of face, the exterior of the nose, which consists of a root, dorsum, tip, columella, and right and left alae[FMA:59515]. { source=FMA:59515 }

Changes for: major vestibular gland

Added
- + major vestibular gland SubClassOf lateral structure

Changes for: left outer canthus

Added
- + left outer canthus SubClassOf lateral structure

Changes for: right outer canthus

Added
- + right outer canthus SubClassOf lateral structure

Changes for: pterygoideus glandulae muscle

Deleted
- - pterygoideus glandulae muscle SubClassOf muscle of head
Added
- + pterygoideus glandulae muscle SubClassOf craniocervical muscle

Changes for: cerebral subcortex

Added
- + cerebral subcortex SubClassOf ectoderm-derived structure
- + cerebral subcortex SubClassOf part_of some brain

Changes for: compressor glandulae muscle

Deleted
- - compressor glandulae muscle SubClassOf muscle of head
Added
- + compressor glandulae muscle SubClassOf craniocervical muscle

Changes for: sulcus of brain

Added
- + sulcus of brain SubClassOf surrounds some gyrus

Changes for: posterior thoracic air sac

Added
- + posterior thoracic air sac SubClassOf lateral structure

Changes for: abdominal air sac

Added
- + abdominal air sac SubClassOf lateral structure

Changes for: cervical air sac

Added
- + cervical air sac SubClassOf lateral structure

Changes for: anterior thoracic air sac

Added
- + anterior thoracic air sac SubClassOf lateral structure

Changes for: epicondyle

Deleted
- - epicondyle comment grouping class that collected the ect- and ep- icondyles of humerus and femur
Added
- + epicondyle comment grouping class that collected the entepicondyles and epicondyles icondyles of humerus and femur

Changes for: lateral gland of orbital region

Added
- + lateral gland of orbital region SubClassOf lateral structure

Changes for: metapterygial axis

Added
- + metapterygial axis SubClassOf part_of some appendage

Changes for: right posterior cardinal vein

Added
- + right posterior cardinal vein SubClassOf lateral structure

Changes for: right subcardinal vein

Added
- + right subcardinal vein SubClassOf lateral structure

Changes for: thoracic thymus

Deleted
- - thoracic thymus SubClassOf thoracic segment organ

Changes for: nephron progenitor

Added
- + nephron progenitor SubClassOf has potential to develop into some nephron

Changes for: craniofacial suture

Added
- + craniofacial suture SubClassOf part_of some cranial skeletal system

Changes for: cerumen

Deleted
- - cerumen SubClassOf bodily secretion
Added
- + cerumen SubClassOf produced_by some apocrine sweat gland
- + cerumen SubClassOf sweat

Changes for: developing esophageal region

Deleted
- - developing esophageal region SubClassOf developing anatomical structure
- - developing esophageal region SubClassOf part_of some foregut
- - developing esophageal region comment consider merging into esophagus
- - developing esophageal region database_cross_reference EMAPA:16700
- - developing esophageal region database_cross_reference RETIRED_EHDAA2:0000654
- - developing esophageal region database_cross_reference SCTID:245404000
- - developing esophageal region has_broad_synonym esophageal region
Added
- + developing esophageal region consider UBERON:0001043
- + developing esophageal region deprecated true

Changes for: foramen primum

Deleted
- - foramen primum SubClassOf part_of some interatrial septum
Added
- + foramen primum EquivalentTo anatomical conduit and part_of some atrial septum primum

Changes for: clavicle

Added
- + clavicle SubClassOf lateral structure

Changes for: uterine horn

Added
- + uterine horn SubClassOf lateral structure

Changes for: cerebellar hemisphere

Added
- + cerebellar hemisphere SubClassOf lateral structure

Changes for: lobe of thyroid gland

Added
- + lobe of thyroid gland SubClassOf lateral structure

Changes for: longus colli muscle

Deleted
- - longus colli muscle SubClassOf muscle organ
Added
- + longus colli muscle SubClassOf thoracic segment muscle

Changes for: dorsal horn of spinal cord

Added
- + dorsal horn of spinal cord SubClassOf lateral structure

Changes for: ventral horn of spinal cord

Added
- + ventral horn of spinal cord SubClassOf lateral structure

Changes for: dorsal funiculus

Added
- + dorsal funiculus SubClassOf lateral structure

Changes for: olfactory bulb

Added
- + olfactory bulb SubClassOf lateral structure

Changes for: lung primordium

Added
- + lung primordium SubClassOf has potential to develop into some pair of lungs

Changes for: common iliac vein

Added
- + common iliac vein SubClassOf lateral structure

Changes for: ovarian vein

Added
- + ovarian vein SubClassOf lateral structure

Changes for: testicular vein

Added
- + testicular vein SubClassOf lateral structure

Changes for: mammillary body

Added
- + mammillary body present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Hardisty, p. 320-1 }

Changes for: right crus of diaphragm

Added
- + right crus of diaphragm SubClassOf lateral structure

Changes for: anatomical line along groove

Added
- + anatomical line along groove in_subset non_informative

Changes for: left crus of diaphragm

Added
- + left crus of diaphragm SubClassOf lateral structure

Changes for: phalanx cartilage element

Deleted
- - phalanx cartilage element definition A cartilaginous condensation that is part of a digit mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + phalanx cartilage element definition A cartilage element that is part of a digit mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: foramen secundum

Deleted
- - foramen secundum SubClassOf embryonic structure
- - foramen secundum SubClassOf part_of some septum primum
- - foramen secundum definition a foramen in the septum primum. { database_cross_reference=Wikipedia:Foramen_secundum }
- - foramen secundum has_exact_synonym ostium secundum { database_cross_reference=SCTID:308854001 }
Added
- + foramen secundum EquivalentTo anatomical conduit and part_of some atrial septum secundum
- + foramen secundum SubClassOf part_of some atrial septum secundum
- + foramen secundum definition a foramen in the septum secundum. { database_cross_reference=Wikipedia:Foramen_secundum }
- + foramen secundum has_exact_synonym ostium secundum { database_cross_reference=VHOG:0001471 , has_synonym_type=latin term }

Changes for: appendage girdle complex

Added
- + appendage girdle complex SubClassOf lateral structure

Changes for: wall of stomach

Deleted
- - wall of stomach SubClassOf anatomical wall
Added
- + wall of stomach SubClassOf gut wall

Changes for: spiral organ of cochlea

Added
- + spiral organ of cochlea dubious_for_taxon http://purl.obolibrary.org/obo/NCBITaxon_8292

Changes for: rib

Added
- + rib SubClassOf lateral structure

Changes for: left extraembryonic umbilical vein

Added
- + left extraembryonic umbilical vein SubClassOf lateral structure

Changes for: right extraembryonic umbilical vein

Added
- + right extraembryonic umbilical vein SubClassOf lateral structure

Changes for: meningeal cluster

Added
- + meningeal cluster SubClassOf has_part some meninx

Changes for: muscle layer

Added
- + muscle layer SubClassOf adjacent_to some submucosa

Changes for: dorsal caudal thalamic nucleus

Deleted
- - dorsal caudal thalamic nucleus SubClassOf nucleus of thalamus
Added
- + dorsal caudal thalamic nucleus SubClassOf nucleus of dorsal thalamus

Changes for: ventral funiculus

Added
- + ventral funiculus SubClassOf lateral structure

Changes for: manual digit phalanx cartilage element

Deleted
- - manual digit phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit phalanx cartilage element definition A cartilage element that is part of a manual digit mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit 2 phalanx cartilage element

Deleted
- - pedal digit 2 phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit 2 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit 2 phalanx cartilage element definition A cartilage element that is part of a pedal digit 2 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit 1 phalanx cartilage element

Deleted
- - pedal digit 1 phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit 1 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit 1 phalanx cartilage element definition A cartilage element that is part of a pedal digit 1 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit 4 phalanx cartilage element

Deleted
- - pedal digit 4 phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit 4 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit 4 phalanx cartilage element definition A cartilage element that is part of a pedal digit 4 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit 3 phalanx cartilage element

Deleted
- - pedal digit 3 phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit 3 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit 3 phalanx cartilage element definition A cartilage element that is part of a pedal digit 3 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit phalanx cartilage element

Deleted
- - pedal digit phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit phalanx cartilage element definition A cartilage element that is part of a pedal digit mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: pedal digit 5 phalanx cartilage element

Deleted
- - pedal digit 5 phalanx cartilage element definition A cartilaginous condensation that is part of a pedal digit 5 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + pedal digit 5 phalanx cartilage element definition A cartilage element that is part of a pedal digit 5 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: manual digit 3 phalanx cartilage element

Deleted
- - manual digit 3 phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit 3 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit 3 phalanx cartilage element definition A cartilage element that is part of a manual digit 3 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: manual digit 4 phalanx cartilage element

Deleted
- - manual digit 4 phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit 4 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit 4 phalanx cartilage element definition A cartilage element that is part of a manual digit 4 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: manual digit 1 phalanx cartilage element

Deleted
- - manual digit 1 phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit 1 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit 1 phalanx cartilage element definition A cartilage element that is part of a manual digit 1 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: manual digit 2 phalanx cartilage element

Deleted
- - manual digit 2 phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit 2 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit 2 phalanx cartilage element definition A cartilage element that is part of a manual digit 2 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: manual digit 5 phalanx cartilage element

Deleted
- - manual digit 5 phalanx cartilage element definition A cartilaginous condensation that is part of a manual digit 5 mesenchyme. { database_cross_reference=OBOL:automatic }
Added
- + manual digit 5 phalanx cartilage element definition A cartilage element that is part of a manual digit 5 mesenchyme. { database_cross_reference=OBOL:automatic }

Changes for: chitin-based cuticle

Added
- + chitin-based cuticle SubClassOf ectoderm-derived structure

Changes for: left vitelline vein

Added
- + left vitelline vein SubClassOf lateral structure

Changes for: respiratory airway

Deleted
- - respiratory airway comment This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED)
Added
- + respiratory airway comment This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED). As a grouping class this is quite vague, as it is not clear where the airway begins and ends

Changes for: skin epidermis

Deleted
- - epidermis SubClassOf develops_from some enveloping layer of ectoderm
- - epidermis SubClassOf ecto-epithelium
- - epidermis SubClassOf part_of some integument
- - epidermis SubClassOf surrounds some multi-cellular organism
- - epidermis database_cross_reference BSA:0000073
- - epidermis label epidermis
Added
- + skin epidermis EquivalentTo outer epithelium and part_of some skin of body
- + skin epidermis label skin epidermis

Changes for: right umbilical vein

Added
- + right umbilical vein SubClassOf lateral structure

Changes for: right vitelline vein

Added
- + right vitelline vein SubClassOf lateral structure

Changes for: central nervous system

Deleted
- - central nervous system has_exact_synonym cerebrospinal axis { database_cross_reference=FMA:55675 }
Added
- + central nervous system has_narrow_synonym cerebrospinal axis { database_cross_reference=FMA:55675 }

Changes for: kidney

Added
- + kidney SubClassOf lateral structure

Changes for: thymus lobe

Added
- + thymus lobe SubClassOf lateral structure

Changes for: right ovary

Added
- + right ovary SubClassOf lateral structure

Changes for: left ovary

Added
- + left ovary SubClassOf lateral structure

Changes for: chordate pharynx

Added
- + chordate pharynx database_cross_reference CALOHA:TS-0785

Changes for: esophagus

Deleted
- - esophagus SubClassOf develops_from some developing esophageal region
- - esophagus database_cross_reference BSA:0000074
Added
- + esophagus SubClassOf develops_from some foregut

Changes for: foregut

Deleted
- - foregut comment Editor notes: Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. We may explicitly make this a developmental class (as it appears to be in FMA)
Added
- + foregut comment Editor notes: Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. In vertebrates the term may refer to a developmental structure

Changes for: pharynx

Deleted
- - pharynx database_cross_reference CALOHA:TS-0785
- - pharynx database_cross_reference WBbt:0003681
- - pharynx has_exact_synonym pharyngeal tube
Added
- + pharynx has_related_synonym anterior part of foregut
- + pharynx has_related_synonym pharyngeal tube

Changes for: mantle

Deleted
- - mantle database_cross_reference BSA:0000097

Changes for: presumptive hypochord

Added
- + presumptive hypochord SubClassOf has potential to develop into some hypochord

Changes for: quadrate bone

Added
- + quadrate bone SubClassOf lateral structure

Changes for: presumptive blood

Added
- + presumptive blood SubClassOf has potential to develop into some blood
- + presumptive blood has_related_synonym future blood

Changes for: sweat

Added
- + sweat EquivalentTo bodily secretion and produced_by some sweat gland
- + sweat SubClassOf produced_by some sweat gland

Changes for: urine

Added
- + urine EquivalentTo excreta and produced_by some kidney
- + urine SubClassOf produced_by some kidney

Changes for: wall of esophagus

Deleted
- - wall of esophagus SubClassOf anatomical wall
Added
- + wall of esophagus SubClassOf gut wall

Changes for: external carotid artery

Deleted
- - external carotid artery definition In human anatomy, the external carotid artery is a major artery of the head and neck. It arises from the common carotid artery when it bifurcates into the external and internal carotid artery. { database_cross_reference=Wikipedia:External_carotid_artery , database_cross_reference=https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722 }
Added
- + external carotid artery definition A terminal branch of the left or right common carotid artery which supplies oxygenated blood to to the throat, neck glands, tongue, face, mouth, ear, scalp and dura mater of the meninges[MP] { database_cross_reference=MGI:anna }
- + external carotid artery see also https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722

Changes for: velar vocal fold

Added
- + velar vocal fold SubClassOf lateral structure

Changes for: echinoderm pyloric cecum

Deleted
- - echinoderm pyloric cecum database_cross_reference BSA:0000124

Changes for: columnella muscle

Deleted
- - columnella muscle SubClassOf part_of some columnella
- - columnella muscle SubClassOf skin muscle
Added
- + columnella muscle EquivalentTo muscle organ and attaches_to some columnella
- + columnella muscle SubClassOf attaches_to some columnella
- + columnella muscle SubClassOf muscle organ

Changes for: plastron

Added
- + plastron SubClassOf part_of some ventrum

Changes for: carapace

Added
- + carapace SubClassOf part_of some dorsum

Changes for: perivascular space

Added
- + perivascular space SubClassOf part_of some meningeal cluster

Changes for: aboral surface

Added
- + aboral surface present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_6073

Changes for: oral surface

Added
- + oral surface present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_6073

Changes for: peripheral part of autonomous nervous system

Deleted
- - autonomic peripheral nervous system SubClassOf organ system subdivision
- - autonomic peripheral nervous system SubClassOf part_of some autonomic nervous system
- - autonomic peripheral nervous system comment TODO - check ANS, PNS
- - autonomic peripheral nervous system database_cross_reference EHDAA2:0000158
- - autonomic peripheral nervous system database_cross_reference EHDAA:3767
- - autonomic peripheral nervous system database_cross_reference EMAPA:16984
- - autonomic peripheral nervous system database_cross_reference FMA:65553
- - autonomic peripheral nervous system database_cross_reference MESH:A08.800.050
- - autonomic peripheral nervous system database_cross_reference SCTID:429921001
- - autonomic peripheral nervous system label autonomic peripheral nervous system
Added
- + peripheral part of autonomous nervous system comment Obsoleted as our current model is to treat the entire ANS as being part of the PNS
- + peripheral part of autonomous nervous system consider FMA:65553
- + peripheral part of autonomous nervous system consider SCTID:429921001
- + peripheral part of autonomous nervous system deprecated true
- + peripheral part of autonomous nervous system label peripheral part of autonomous nervous system

Changes for: uncinate process of ethmoid

Deleted
- - uncinate process of ethmoid SubClassOf anatomical projection
Added
- + uncinate process of ethmoid SubClassOf mesoderm-derived structure
- + uncinate process of ethmoid SubClassOf neural crest-derived structure
- + uncinate process of ethmoid SubClassOf part_of some ethmoid bone
- + uncinate process of ethmoid SubClassOf skeletal element projection

Changes for: left umbilical vein

Added
- + left umbilical vein SubClassOf lateral structure

Changes for: circumventricular organ

Deleted
- - circumventricular organ comment AO notes: MA subdivides into sensory and secretory
Added
- + circumventricular organ comment Taxon notes: All vertebrates possess at least 4 circumventricular organs (including the hypothalamus) which can monitor the contents of the cerebrospinal fluid and secrete additional substances into it. (Butler, 1996, p. 330)

Changes for: integument

Deleted
- - integument comment Usage notes: in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term ‘integument’ used in invertebrates. Note that the VSAO class appears to include adnexa by its definition.
- - integument database_cross_reference EHDAA2:0001844
- - integument database_cross_reference MESH:A17.815
Added
- + integument comment Usage notes: in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term ‘integument’ used in invertebrates; consider ‘integumental system’. Note that the VSAO class appears to include adnexa by its definition.
- + integument has_exact_synonym dermis plus epidermis plus hypodermis
- + integument has_exact_synonym skin plus hypodermis

Changes for: neurohypophysis

Added
- + neurohypophysis has_exact_synonym neuro hypophysis
- + neurohypophysis present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }

Changes for: orbitosphenoid

Added
- + orbitosphenoid SubClassOf lateral structure

Changes for: dorsal lateral geniculate nucleus

Deleted
- - dorsal lateral geniculate nucleus SubClassOf nucleus of thalamus
Added
- + dorsal lateral geniculate nucleus SubClassOf nucleus of dorsal thalamus

Changes for: vagus X ganglion

Added
- + vagus X ganglion SubClassOf structure with developmental contribution from neural crest

Changes for: ventral lateral geniculate nucleus

Deleted
- - ventral lateral geniculate nucleus SubClassOf nucleus of thalamus
Added
- + ventral lateral geniculate nucleus SubClassOf nucleus of dorsal thalamus

Changes for: uterine artery

Added
- + uterine artery SubClassOf lateral structure

Changes for: spermatic cord

Added
- + spermatic cord SubClassOf has_part some vas deferens

Changes for: retractor posttemporalis

Deleted
- - retractor posttemporalis SubClassOf cranial muscle
Added
- + retractor posttemporalis SubClassOf cranial muscle

Changes for: nasal cavity epithelium

Added
- + nasal cavity epithelium comment Editor note: this class may in future be split into the embryonic precursor of the oronasal membrane and the structure that is part of the mucosa in the developed organism

Changes for: pericardial fluid

Added
- + pericardial fluid SubClassOf located_in some pericardial cavity

Changes for: autonomic nervous system

Deleted
- - autonomic nervous system comment This class was created automatically from a combination of ontologies
- - autonomic nervous system definition The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands[GO]. { database_cross_reference=Wikipedia:Autonomic_nervous_system }
Added
- + autonomic nervous system comment FMA splits this into peripheral and nervous parts; GO has ANS directly under NS; PNS is a sib
- + autonomic nervous system database_cross_reference EHDAA2:0000158
- + autonomic nervous system definition The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands[GO]. { database_cross_reference=GO:0048483 }

Changes for: integumental system

Deleted
- - integumental system definition organ system that protects the body from damage, comprising the skin and its adnexa (including hair, scales, and nails). The integumentary system has a variety of functions; it may serve to waterproof, cushion and protect the deeper tissues, excrete wastes, regulate temperature and is the location of receptors for pain, sensation, pressure and temperature. In humans the integumentary system additionally provides vitamin D synthesis[WP]. { database_cross_reference=Wikipedia:Integumentary_system }
Added
- + integumental system definition An organ system that protects the body from damage, comprising the epidermis, its adnexa and secreted products (including hair, glands, cuticles, scales, and nails), and any associated layers (e.g. the hypodermis). The integumentary system has a variety of functions; it may serve to waterproof, cushion and protect the deeper tissues, excrete wastes, regulate temperature and is the location of receptors for pain, sensation, pressure and temperature. In humans the integumentary system additionally provides vitamin D synthesis[WP,modified]. { database_cross_reference=Wikipedia:Integumentary_system }

Changes for: pars intermedia of adenohypophysis

Added
- + pars intermedia of adenohypophysis present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }

Changes for: lateral hypothalamic area

Added
- + lateral hypothalamic area present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569 { source=Ariens, p. 1192 }

Changes for: nasalis muscle

Added
- + nasalis muscle SubClassOf lateral structure

Changes for: palatine gland

Added
- + palatine gland SubClassOf part_of some roof of mouth

Changes for: dorsolateral oculomotor nucleus

Deleted
- - dorsolateral oculomotor nucleus has_exact_synonym oculomotor nerve dorsolateral nucleus { database_cross_reference=SCTID:369237002 }
Added
- + dorsolateral oculomotor nucleus has_exact_synonym oculomotor nerve dorsolateral nucleus

Changes for: anterodorsal nucleus of medial geniculate body

Deleted
- - anterodorsal nucleus of medial geniculate body SubClassOf nucleus of thalamus
Added
- + anterodorsal nucleus of medial geniculate body SubClassOf nucleus of dorsal thalamus

Changes for: salpingopharyngeus muscle

Added
- + salpingopharyngeus muscle SubClassOf lateral structure

Changes for: zygomaticomandibularis muscle

Deleted
- - zygomaticomandibularis muscle SubClassOf muscle of head
Added
- + zygomaticomandibularis muscle SubClassOf craniocervical muscle
- + zygomaticomandibularis muscle SubClassOf mesoderm-derived structure

Changes for: endostyle

Added
- + endostyle present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7712
- + endostyle present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7735
- + endostyle present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7746

Changes for: swim bladder bud

Added
- + swim bladder bud SubClassOf has potential to develop into some swim bladder

Changes for: zygomatic arch

Added
- + zygomatic arch SubClassOf lateral structure

Changes for: scleral mesenchyme

Added
- + scleral mesenchyme EquivalentTo mesenchyme and has potential to develop into some sclera
- + scleral mesenchyme SubClassOf has potential to develop into some sclera

Changes for: entepicondyle of humerus

Deleted
- - entepicondyle of humerus has_related_synonym ulnar condyle of humerus { database_cross_reference=http://www.termiumplus.gc.ca }

Changes for: obsolete cranial muscle

Deleted
- - cranial muscle SubClassOf muscle of head
- - cranial muscle SubClassOf part_of some muscle of head
- - cranial muscle label cranial muscle
Added
- + obsolete cranial muscle deprecated true
- + obsolete cranial muscle label obsolete cranial muscle
- + obsolete cranial muscle term replaced by UBERON:0002376

Changes for: hepatopancreas

Added
- + hepatopancreas present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_6447

Changes for: hyoid bone greater horn

Added
- + hyoid bone greater horn SubClassOf lateral structure

Changes for: hyoid bone lesser horn

Added
- + hyoid bone lesser horn SubClassOf lateral structure

Changes for: cranial muscle

Deleted
- - muscle of head EquivalentTo muscle organ and part_of some head
- - muscle of head comment defined generically so could in theory encompass FBbt:00003260 ‘skeletal muscle of head’, but we restrict this to vertebrates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984)
- - muscle of head label muscle of head
Added
- + cranial muscle EquivalentTo muscle organ and part_of some head and attaches_to some skull
- + cranial muscle SubClassOf attaches_to some skull
- + cranial muscle comment defined generically so could in theory encompass FBbt:00003260 ‘skeletal muscle of head’, or the muscle of a starfish Aristotle’s lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984)
- + cranial muscle has_exact_synonym muscle of head { database_cross_reference=FMA:9616 }
- + cranial muscle label cranial muscle

Changes for: palatopharyngeus muscle

Deleted
- - palatopharyngeus muscle SubClassOf mixed ectoderm/mesoderm/endoderm-derived structure
Added
- + palatopharyngeus muscle SubClassOf endoderm-derived structure
- + palatopharyngeus muscle SubClassOf lateral structure

Changes for: anatomical line between outer ears

Added
- + anatomical line between outer ears has_related_synonym inter-otic line
- + anatomical line between outer ears has_related_synonym inter-pinna line

Changes for: placodal ectoderm

Added
- + placodal ectoderm SubClassOf has potential to develop into some ectodermal placode

Changes for: spiral colon

Added
- + spiral colon present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_35497
- + spiral colon present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_9845

Changes for: gastrolith

Deleted
- - gastrolith SubClassOf part_of some digestive system
Added
- + gastrolith SubClassOf part_of some digestive tract

Changes for: pancreas primordium

Added
- + pancreas primordium SubClassOf has potential to develop into some pancreas

Changes for: pilosebaceous unit

Added
- + pilosebaceous unit SubClassOf has_part some arrector muscle of hair
- + pilosebaceous unit SubClassOf has_part some hair follicle
- + pilosebaceous unit SubClassOf has_part some sebaceous gland
- + pilosebaceous unit SubClassOf structure with developmental contribution from neural crest

Changes for: ruminal fluid

Deleted
- - ruminal fluid EquivalentTo portion of organism substance and located_in some rumen
- - ruminal fluid SubClassOf located_in some rumen
- - ruminal fluid definition A portion of organism substance that surrounded_by a rumen. { database_cross_reference=OBOL:automatic }
Added
- + ruminal fluid EquivalentTo portion of organism substance and produced_by some rumen
- + ruminal fluid SubClassOf part_of some rumen
- + ruminal fluid SubClassOf produced_by some rumen
- + ruminal fluid definition A portion of organism substance that is produced a rumen. { database_cross_reference=OBOL:automatic }

Changes for: lateral vaginal canal

Added
- + lateral vaginal canal SubClassOf lateral structure

Changes for: adrenal gland

Added
- + adrenal gland SubClassOf lateral structure

Changes for: right atrioventricular canal

Added
- + right atrioventricular canal SubClassOf lateral structure

Changes for: left atrioventricular canal

Added
- + left atrioventricular canal SubClassOf lateral structure

Changes for: cardiac jelly

Added
- + cardiac jelly SubClassOf mesoderm-derived structure
- + cardiac jelly SubClassOf part_of some heart

Changes for: cruciate sulcus

Deleted
- - cruciate sulcus SubClassOf sulcus
Added
- + cruciate sulcus SubClassOf sulcus of brain

Changes for: outflow tract cardiac jelly

Deleted
- - outflow tract cardiac jelly SubClassOf mesoderm-derived structure

Changes for: ventricle cardiac jelly

Deleted
- - ventricle cardiac jelly SubClassOf mesoderm-derived structure

Changes for: atrium cardiac jelly

Deleted
- - atrium cardiac jelly SubClassOf mesoderm-derived structure

Changes for: keratinous tooth

Added
- + keratinous tooth present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_117569
- + keratinous tooth present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_7762

Changes for: gastralium

Added
- + gastralium SubClassOf part_of some rib skeletal system
- + gastralium present_in_taxon http://purl.obolibrary.org/obo/NCBITaxon_8508 { source=Wikipedia }

Changes for: maxilla

Added
- + maxilla SubClassOf lateral structure

Changes for: right gastric vein

Added
- + right gastric vein SubClassOf lateral structure

Changes for: left gastric vein

Added
- + left gastric vein SubClassOf lateral structure

Changes for: temporal sulcus

Deleted
- - temporal sulcus EquivalentTo sulcus and part_of some temporal lobe
Added
- + temporal sulcus EquivalentTo sulcus of brain and part_of some temporal lobe

Changes for: exocrine system

Added
- + exocrine system SubClassOf composed_primarily_of some exocrine gland

Changes for: neural crest

Added
- + neural crest dubious_for_taxon http://purl.obolibrary.org/obo/NCBITaxon_117565 { source=ISBN10:0073040584 , source=PMID:17377535 }

Changes for: frontal sulcus

Deleted
- - frontal sulcus EquivalentTo sulcus and part_of some frontal cortex
Added
- + frontal sulcus EquivalentTo sulcus of brain and part_of some frontal cortex

Changes for: calcaneum cartilage element

Deleted
- - calcaneum cartilage element SubClassOf tarsus endochondral element

Changes for: carapacial ridge

Added
- + carapacial ridge SubClassOf part_of some carapace primordium

Changes for: stomach

Deleted
- - stomach database_cross_reference BSA:0000123

Changes for: aorta

Deleted
- - aorta SubClassOf part_of some systemic arterial system

Changes for: heart

Deleted
- - heart comment note that we use the term ‘circulatory organ’ for the generic class. Taxon notes:” the ascidian tube-like heart lacks chambers….The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepi- thelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium…. The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates… all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)” doi:10.1101/gad.1485706
- - heart database_cross_reference BSA:0000088
Added
- + heart comment note that we use the term ‘primary circulatory organ’ for the generic class. Taxon notes:” the ascidian tube-like heart lacks chambers….The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepi- thelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium…. The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates… all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)” doi:10.1101/gad.1485706

Changes for: corneo-scleral junction

Added
- + corneo-scleral junction SubClassOf ectoderm-derived structure
- + corneo-scleral junction SubClassOf part_of some camera-type eye

Changes for: endocrine system

Added
- + endocrine system SubClassOf composed_primarily_of some endocrine gland

Changes for: inferior parathyroid gland

Added
- + inferior parathyroid gland SubClassOf lateral structure

Changes for: calcaneum pre-cartilage condensation

Deleted
- - calcaneum pre-cartilage condensation SubClassOf tarsus endochondral element

Changes for: medulla of organ

Deleted
- - medulla database_cross_reference BM:Me
- - medulla database_cross_reference Wikipedia:Bone_marrow_of_ovary
- - medulla definition Middle part of an organ (as opposed to the cortex)[WP]. { database_cross_reference=Wikipedia:Bone_marrow_of_ovary }
- - medulla label medulla
Added
- + medulla of organ definition Middle part of an organ (as opposed to the cortex)[WP].
- + medulla of organ has_exact_synonym medulla { database_cross_reference=FMA:61108 }
- + medulla of organ label medulla of organ

Changes for: costal plate of carapace

Added
- + costal plate of carapace SubClassOf lateral structure

Changes for: hyoplastron

Added
- + hyoplastron SubClassOf lateral structure

Changes for: carapace primordium

Added
- + carapace primordium SubClassOf has potential to develop into some carapace

Changes for: alisphenoid bone

Added
- + alisphenoid bone SubClassOf lateral structure

Changes for: superior parathyroid gland

Added
- + superior parathyroid gland SubClassOf lateral structure

Changes for: pharyngeal branch of vagus nerve

Added
- + pharyngeal branch of vagus nerve SubClassOf structure with developmental contribution from neural crest

Changes for: canthus

Added
- + canthus SubClassOf ectoderm-derived structure
- + canthus SubClassOf part_of some camera-type eye

Changes for: hepatic portal system

Added
- + hepatic portal system SubClassOf connects some digestive tract
- + hepatic portal system SubClassOf connects some liver

Changes for: pair of dorsal aortae

Added
- + pair of dorsal aortae SubClassOf has_part some dorsal aorta

Changes for: aortic system

Added
- + aortic system SubClassOf part_of some systemic arterial system

Changes for: Mullerian duct

Added
- + Mullerian duct SubClassOf lateral structure

Changes for: stroma

Deleted
- - stroma database_cross_reference Wikipedia:Stroma_of_ovary_%28animal_tissue%29
- - stroma definition Connective, non-functional supportive framework of a biological cell, tissue, or organ. Contrast with parenchyma. { database_cross_reference=Wikipedia:Stroma_of_ovary_%28animal_tissue%29 }
Added
- + stroma definition Connective, non-functional supportive framework of a biological cell, tissue, or organ. Contrast with parenchyma.
- + stroma has_related_synonym stromal connective tissue