2016-05-11 release

Chris Mungall

2016-05-11 release

This release features new mammalian neuroanatomical regions aligned with BrainInfo and Allen Brain Atlases

Ontology Diff Report

Additional neuro terms from Allen atlases and NN added
BTO alignment.
Fixing PNS syns. removing incorrect neuronames xref. Fixes 1214
generalizing def and label of optic canal, fixes 1213. Adding related structures from Hyman. Fixing typo pillar/pilar, see https://github.com/obophenotype/mammalian-phenotype-ontology/issues/2165
Not classifying echioderm ampulla as tooth-like, as it appears non skeletal https://github.com/BgeeDB/anatomical-similarity-annotations/issues/18
fixed def of collagen/cuticulin cuticle
obsoleting protein-based cuticle
NT: epididymal lumen. Fixes 1209
linking tickets to terms
Relaxed syn scope of cerebrum for telencephalon to RELATED.
Also clarified source of synonyms, added comments.
Added an immediately obsoleted concept for Cerebrum denoting the ambiguous concept, with CONSIDER links to alternate more precisely defined concepts. Fixes 1208
consistent nomenclature for postcranial, fixes 1205
Syns for start of neonate stage, 1204 - also placing process boundary in the upper_level category
Added start of neonate stage. Fixes 1204

Original Ontology

IRI: http://purl.obolibrary.org/obo/uberon.owl
VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2016-04-19/uberon.owl

New Ontology

IRI: http://purl.obolibrary.org/obo/uberon.owl
VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2016-05-11/uberon.owl

Report for classes

Class objects lost from source: 0

Class objects new in target: 38

New Class : obsolete proboscis

obsolete proboscis id UBERON:0035961
obsolete proboscis consider UBERON:0014479
obsolete proboscis consider BTO:0001117
obsolete proboscis deprecated true
obsolete proboscis definition 1: The trunk of an elephant; also: any long flexible snout. 2: Any of various elongated or extensible tubular processes as the sucking organ of a butterfly of the oral region of an invertebrate. { database cross reference=BTO:0001117 }
obsolete proboscis has obo namespace uberon
obsolete proboscis label obsolete proboscis

New Class : supravaginal part of cervix

supravaginal part of cervix SubClassOf part of some uterine cervix
supravaginal part of cervix has exact synonym portio supravaginalis cervicis { database cross reference=FMA:TA , has synonym type=latin term }
supravaginal part of cervix database cross reference BTO:0001851
supravaginal part of cervix label supravaginal part of cervix
supravaginal part of cervix SubClassOf reproductive structure
supravaginal part of cervix database cross reference FMA:77055
supravaginal part of cervix definition Supravaginal portion of cervix: the part of the cervix uteri that does not protrude into the vagina. { database cross reference=BTO:0001851 , database cross reference=Dorlands_Medical_Dictionary:MerckSource }
supravaginal part of cervix has obo namespace uberon
supravaginal part of cervix SubClassOf organ part
supravaginal part of cervix id UBERON:0035962

New Class : epithelial lining fluid

epithelial lining fluid SubClassOf bodily fluid
epithelial lining fluid id UBERON:0035963
epithelial lining fluid has obo namespace uberon
epithelial lining fluid SubClassOf part of some alveolus of lung
epithelial lining fluid database cross reference BTO:0005566
epithelial lining fluid has related synonym ELF { database cross reference=BTO:0005566 }
epithelial lining fluid label epithelial lining fluid
epithelial lining fluid database cross reference FMA:276456
epithelial lining fluid definition Epithelial lining fluid forms a thin fluid layer that covers the mucosa of the alveoli, the small airways, and the large airways. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/21948403 , database cross reference=BTO:0005566 }

New Class : promontory of tympanic cavity

promontory of tympanic cavity database cross reference FMA:77694
promontory of tympanic cavity database cross reference BTO:0003089
promontory of tympanic cavity SubClassOf zone of bone organ
promontory of tympanic cavity has exact synonym tympanic cavity promontory { database cross reference=FMA:77694 }
promontory of tympanic cavity definition The promontory of the tympanic cavity, better known as the cochlear promontory is a rounded hollow prominence, formed by the projection outward of the first turn of the cochlea. It is placed between the fenestrae, and is furrowed on its surface by small grooves, for the lodgement of branches of the tympanic plexus. A minute spicule of bone frequently connects the promontory to the pyramidal eminence. { database cross reference=http://en.wikipedia.org/wiki/Promontory_of_tympanic_cavity }
promontory of tympanic cavity database cross reference http://en.wikipedia.org/wiki/Promontory_of_tympanic_cavity
promontory of tympanic cavity has related synonym promontorium { database cross reference=http://en.wikipedia.org/wiki/Promontory_of_tympanic_cavity }
promontory of tympanic cavity label promontory of tympanic cavity
promontory of tympanic cavity id UBERON:0035964
promontory of tympanic cavity has obo namespace uberon
promontory of tympanic cavity has related synonym promontory of the tympanic cavity { database cross reference=http://en.wikipedia.org/wiki/Promontory_of_tympanic_cavity }
promontory of tympanic cavity SubClassOf part of some middle ear
promontory of tympanic cavity has exact synonym promontorium tympani { database cross reference=FMA:TA , has synonym type=latin term }

New Class : wall of blood vessel

wall of blood vessel SubClassOf composed primarily of some blood vessel layer
wall of blood vessel database cross reference BTO:0004378
wall of blood vessel EquivalentTo anatomical wall and part of some blood vessel
wall of blood vessel label wall of blood vessel
wall of blood vessel id UBERON:0035965
wall of blood vessel SubClassOf anatomical wall
wall of blood vessel has obo namespace uberon
wall of blood vessel has exact synonym blood vessel wall { database cross reference=FMA:67473 }
wall of blood vessel database cross reference FMA:67473
wall of blood vessel SubClassOf mesoderm-derived structure
wall of blood vessel has related synonym vascular wall { database cross reference=BTO:0004378 }
wall of blood vessel SubClassOf part of some blood vessel

New Class : scleral lamina cribrosa

scleral lamina cribrosa id UBERON:0035966
scleral lamina cribrosa SubClassOf neural crest-derived structure
scleral lamina cribrosa has related synonym lamina cribrosa of sclera { database cross reference=BTO:0004277 }
scleral lamina cribrosa has obo namespace uberon
scleral lamina cribrosa database cross reference http://www.snomedbrowser.com/Codes/Details/281086001
scleral lamina cribrosa database cross reference FMA:58371
scleral lamina cribrosa label scleral lamina cribrosa
scleral lamina cribrosa definition The perforated part of the sclera through which pass the axons of the retinal ganglion cells. { database cross reference=BTO:0004277 , database cross reference=Dorlands_Medical_Dictionary:MerckSource }
scleral lamina cribrosa has exact synonym lamina cribrosa sclerae { database cross reference=FMA:TA , has synonym type=latin term }
scleral lamina cribrosa has exact synonym lamina cribrosa of sclera { database cross reference=FMA:58371 }
scleral lamina cribrosa SubClassOf part of some sclera
scleral lamina cribrosa database cross reference BTO:0004277
scleral lamina cribrosa SubClassOf organ component layer

New Class : alveolar mucosa

alveolar mucosa has obo namespace uberon
alveolar mucosa definition The mucous membrane apical to the attached gingiva. { database cross reference=http://www.biology-online.org/dictionary/ , database cross reference=BTO:0004046 }
alveolar mucosa SubClassOf part of some mouth mucosa
alveolar mucosa SubClassOf mouth mucosa
alveolar mucosa label alveolar mucosa
alveolar mucosa SubClassOf part of some periodontium
alveolar mucosa database cross reference BTO:0004046
alveolar mucosa database cross reference FMA:289360
alveolar mucosa id UBERON:0035967

New Class : bulboid corpuscle

bulboid corpuscle has related synonym mucocutaneous end-organ { database cross reference=ISBN:9780849388118 }
bulboid corpuscle label bulboid corpuscle
bulboid corpuscle database cross reference http://en.wikipedia.org/wiki/Bulboid_corpuscle
bulboid corpuscle has related synonym mucocutaneous corpuscle { database cross reference=ISBN:9780849388118 }
bulboid corpuscle curator notes Some investigators are doubtful to its existence; or may be a degenerative stage of peripheral nerves[ISBN:9780849388118]
bulboid corpuscle has related synonym krause corpuscle { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle has obo namespace uberon
bulboid corpuscle has related synonym end bulbs of krause { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle has related synonym end-bulbs of krause { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle has related synonym end bulbs { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle SubClassOf sensory receptor
bulboid corpuscle id UBERON:0035968
bulboid corpuscle has related synonym end-bulb of krause { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle has related synonym krause’s end-bulbs { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle definition A receptor in the transitional zone between mucous membrane and skin. { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle , database cross reference=ISBN:9780849388118 }
bulboid corpuscle has related synonym spheroidal tactile corpuscles { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }
bulboid corpuscle has related synonym bulboid corpuscles { database cross reference=http://en.wikipedia.org/wiki/Bulboid_corpuscle }

New Class : encapsulated tactile receptor

encapsulated tactile receptor label encapsulated tactile receptor
encapsulated tactile receptor SubClassOf tactile mechanoreceptor
encapsulated tactile receptor has exact synonym encapsulated nerve ending { database cross reference=FMA:83995 }
encapsulated tactile receptor definition A tacile mechanoreceptor that lacks a capsule. { database cross reference=UBERON:cjm }
encapsulated tactile receptor id UBERON:0035969
encapsulated tactile receptor database cross reference FMA:83995
encapsulated tactile receptor has obo namespace uberon
DisjointClasses( unencapsulated tactile receptor encapsulated tactile receptor )

New Class : calcar avis of the lateral ventricle

calcar avis of the lateral ventricle has related synonym unguis avis { database cross reference=BTO:0004691 }
DisjointClasses( calcar calcar avis of the lateral ventricle )
calcar avis of the lateral ventricle has related synonym calcarine spur { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle has related synonym Morand spur { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle has related synonym pes hippocampi minor { database cross reference=NeuroNames:210 , has synonym type=latin term }
calcar avis of the lateral ventricle SubClassOf part of some hippocampal formation
calcar avis of the lateral ventricle has related synonym calcar avis { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle definition On the medial wall of the posterior cornu of the lateral ventricle is a longitudinal eminence, the calcar avis (hippocampus minor), which is an involution of the ventricular wall produced by the calcarine fissure. It is sometimes visible on ultrasonogram. { database cross reference=http://en.wikipedia.org/wiki/Calcar_avis }
calcar avis of the lateral ventricle SubClassOf structure with developmental contribution from neural crest
calcar avis of the lateral ventricle has related synonym CalA { database cross reference=DHBA:12095 , has synonym type=abbreviation }
calcar avis of the lateral ventricle has exact synonym hippocampus minor { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle database cross reference FMA:83707
calcar avis of the lateral ventricle has related synonym minor hippocampus { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle database cross reference http://en.wikipedia.org/wiki/Calcar_avis
calcar avis of the lateral ventricle database cross reference BTO:0004691
calcar avis of the lateral ventricle database cross reference http://www.snomedbrowser.com/Codes/Details/369271006
calcar avis of the lateral ventricle database cross reference DHBA:12095
calcar avis of the lateral ventricle has related synonym calcar { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle SubClassOf part of some telencephalic ventricle
calcar avis of the lateral ventricle has obo namespace uberon
calcar avis of the lateral ventricle id UBERON:0035970
calcar avis of the lateral ventricle has related synonym ergot { database cross reference=BTO:0004691 }
calcar avis of the lateral ventricle SubClassOf regional part of brain
calcar avis of the lateral ventricle database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=210
calcar avis of the lateral ventricle label calcar avis of the lateral ventricle
calcar avis of the lateral ventricle has related synonym Haller unguis { database cross reference=BTO:0004691 }

New Class : postsubiculum

postsubiculum SubClassOf regional part of brain
postsubiculum id UBERON:0035971
postsubiculum has obo namespace uberon
postsubiculum definition Division of subicular cortex characterized by projections from the anterodorsal thalamic nucleus and to a lesser extent the anteroventral nucleus, bordered ventrally and laterally by the presubiculum and dorsally and medially by the retrosplenial granular a cortex.. The border is characterized by an abrupt change in the cyto- and chemoarchitecture { database cross reference=NIFSTD:nlx_144245 }
postsubiculum label postsubiculum
postsubiculum SubClassOf structure with developmental contribution from neural crest
postsubiculum SubClassOf part of some retrohippocampal region
postsubiculum database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1105
postsubiculum database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_144245
postsubiculum database cross reference MBA:1037
postsubiculum has related synonym POST { database cross reference=MBA:1037 , has synonym type=abbreviation }
postsubiculum has related synonym postsubicular cortex { database cross reference=NIFSTD:nlx_144245 }

New Class : interanterodorsal nucleus of the thalamus

interanterodorsal nucleus of the thalamus database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_144468
interanterodorsal nucleus of the thalamus has obo namespace uberon
interanterodorsal nucleus of the thalamus SubClassOf regional part of brain
interanterodorsal nucleus of the thalamus has related synonym interanterodorsal thalamic nucleus { database cross reference=NeuroNames:1273 }
interanterodorsal nucleus of the thalamus definition a group of nerve cells that bridges the midline of the thalamus between the anterodorsal nucleus of the thalamus of the left and right sides. According to Crosby (1962), it is more developed and consistently present in rodents than in primates (adapted from Brain Info). { database cross reference=NIFSTD:nlx_144468 }
interanterodorsal nucleus of the thalamus has related synonym interanterodorsal nucleus thalamus { database cross reference=NeuroNames:1273 }
interanterodorsal nucleus of the thalamus label interanterodorsal nucleus of the thalamus
interanterodorsal nucleus of the thalamus has related synonym interanterodorsal nucleus of the thalamus { database cross reference=NeuroNames:1273 }
interanterodorsal nucleus of the thalamus SubClassOf part of some dorsal plus ventral thalamus
interanterodorsal nucleus of the thalamus has related synonym nucleus interanterodorsalis { database cross reference=NeuroNames:1273 , has synonym type=latin term }
interanterodorsal nucleus of the thalamus database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1273
interanterodorsal nucleus of the thalamus has related synonym interanterodorsal nucleus of thalamus { database cross reference=NIFSTD:nlx_144468 }
interanterodorsal nucleus of the thalamus id UBERON:0035972
interanterodorsal nucleus of the thalamus database cross reference MBA:1113
interanterodorsal nucleus of the thalamus has related synonym IAD { database cross reference=MBA:1113 , has synonym type=abbreviation }
interanterodorsal nucleus of the thalamus has related synonym nucleus commissura interanterodorsalis { database cross reference=NeuroNames:1273 , has synonym type=latin term }
interanterodorsal nucleus of the thalamus SubClassOf part of some anterior nuclear group

New Class : nucleus incertus

nucleus incertus has obo namespace uberon
nucleus incertus has related synonym central Gray pars 0 { database cross reference=NIFSTD:nlx_144477 }
nucleus incertus database cross reference DMBA:17084
nucleus incertus has related synonym NI, CG0, CGalpha, CGbeta { database cross reference=NIFSTD:nlx_144477 , has synonym type=abbreviation }
nucleus incertus has related synonym NI { database cross reference=DHBA:146034972 , has synonym type=abbreviation }
nucleus incertus label nucleus incertus
nucleus incertus has related synonym Inc { database cross reference=DMBA:17084 , has synonym type=abbreviation }
nucleus incertus has related synonym nucleus incertus (Streeter) { database cross reference=NeuroNames:1093 }
nucleus incertus has related synonym central Gray part alpha { database cross reference=NIFSTD:nlx_144477 }
nucleus incertus database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_144477
nucleus incertus SubClassOf hindbrain nucleus
nucleus incertus SubClassOf brainstem nucleus
nucleus incertus id UBERON:0035973
nucleus incertus has related synonym NI { database cross reference=MBA:604 , has synonym type=abbreviation }
nucleus incertus SubClassOf part of some pontine tegmentum
nucleus incertus database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1093
nucleus incertus has related synonym charles Watson. - 5th ed.) { database cross reference=NIFSTD:nlx_144477 }
nucleus incertus database cross reference MBA:604
nucleus incertus definition Distinct cell group in caudoventral regions of the pontine periventricular gray, adjacent to the ventromedial border of the caudal dorsal tegmental nucleus. { database cross reference=NIFSTD:nlx_144477 }
nucleus incertus database cross reference DHBA:146034972

New Class : anteroventral preoptic nucleus

anteroventral preoptic nucleus database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_17240
anteroventral preoptic nucleus label anteroventral preoptic nucleus
anteroventral preoptic nucleus database cross reference MBA:263
anteroventral preoptic nucleus has obo namespace uberon
anteroventral preoptic nucleus has related synonym anteroventral preoptic nuclei { database cross reference=NIFSTD:nlx_17240 , has synonym type=plural term }
anteroventral preoptic nucleus id UBERON:0035974
anteroventral preoptic nucleus has related synonym AVP { database cross reference=MBA:263 , has synonym type=abbreviation }
anteroventral preoptic nucleus SubClassOf preoptic nucleus
anteroventral preoptic nucleus SubClassOf part of some preoptic area
anteroventral preoptic nucleus database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1813

New Class : intergeniculate leaflet of the lateral geniculate complex

intergeniculate leaflet of the lateral geniculate complex has related synonym IGL { database cross reference=MBA:27 , has synonym type=abbreviation }
intergeniculate leaflet of the lateral geniculate complex database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1956
intergeniculate leaflet of the lateral geniculate complex database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_144470
intergeniculate leaflet of the lateral geniculate complex has related synonym intergeniculate leaflet of the lateral geniculate complex { database cross reference=NeuroNames:1956 }
intergeniculate leaflet of the lateral geniculate complex has related synonym lateral geniculate complex, intergeniculate leaflet { database cross reference=NeuroNames:1956 }
intergeniculate leaflet of the lateral geniculate complex has obo namespace uberon
intergeniculate leaflet of the lateral geniculate complex SubClassOf part of some lateral geniculate body
intergeniculate leaflet of the lateral geniculate complex has related synonym intergeniculate leaflet, lateral geniculate complex { database cross reference=NeuroNames:1956 }
intergeniculate leaflet of the lateral geniculate complex SubClassOf regional part of brain
intergeniculate leaflet of the lateral geniculate complex id UBERON:0035975
intergeniculate leaflet of the lateral geniculate complex label intergeniculate leaflet of the lateral geniculate complex
intergeniculate leaflet of the lateral geniculate complex database cross reference MBA:27

New Class : accessory abducens nucleus

accessory abducens nucleus has obo namespace uberon
accessory abducens nucleus database cross reference http://uri.neuinfo.org/nif/nifstd/nlx_144454
accessory abducens nucleus label accessory abducens nucleus
accessory abducens nucleus database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1860
accessory abducens nucleus SubClassOf nucleus of pontine reticular formation
accessory abducens nucleus has related synonym ACVI { database cross reference=MBA:568 , has synonym type=abbreviation }
accessory abducens nucleus SubClassOf part of some pontine reticular formation
accessory abducens nucleus database cross reference MBA:568
accessory abducens nucleus definition A small cluster of neurons in the pontine reticular formation in some mammals, containing the majority of motoneurons innervating thenretractor bulbi muscles of the eye { database cross reference=NIFSTD:nlx_144454 }
accessory abducens nucleus id UBERON:0035976

New Class : bed nucleus of the accessory olfactory tract

bed nucleus of the accessory olfactory tract has related synonym BA { database cross reference=MBA:292 , has synonym type=abbreviation }
bed nucleus of the accessory olfactory tract database cross reference MBA:292
bed nucleus of the accessory olfactory tract id UBERON:0035977
bed nucleus of the accessory olfactory tract has obo namespace uberon
bed nucleus of the accessory olfactory tract has related synonym accessory olfactory formation { database cross reference=NeuroNames:1179 }
bed nucleus of the accessory olfactory tract has related synonym bed nucleus accessory olfactory tract (Scalia-Winans) { database cross reference=NeuroNames:1179 }
bed nucleus of the accessory olfactory tract definition a group of cells near the surface of the brain between the supraoptic nucleus and the cortical amygdalar nucleus in the rat ( Swanson-1998 ) and the mouse ( Paxinos-2001 ). It is one of five subdivisions of the medial amygdalar nucleus. { database cross reference=NeuroNames:1179 }
bed nucleus of the accessory olfactory tract has related synonym nucleus of the accessory olfactory tract { database cross reference=NeuroNames:1179 }
bed nucleus of the accessory olfactory tract SubClassOf telencephalic nucleus
bed nucleus of the accessory olfactory tract label bed nucleus of the accessory olfactory tract
bed nucleus of the accessory olfactory tract database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1179
bed nucleus of the accessory olfactory tract has related synonym bed nucleus of the accessory olfactory tract { database cross reference=NeuroNames:1179 }
bed nucleus of the accessory olfactory tract SubClassOf part of some medial amygdaloid nucleus

New Class : start of neonate stage

start of neonate stage SubClassOf starts some neonate stage
start of neonate stage SubClassOf life cycle temporal boundary
start of neonate stage has exact synonym time of birth
start of neonate stage has exact synonym moment of birth
start of neonate stage label start of neonate stage
start of neonate stage definition A life cycle temporal boundary that marks the start of the neonate stage of the organism. { database cross reference=https://github.com/obophenotype/uberon/issues/1204 , database cross reference=https://orcid.org/0000-0002-6601-2165 }
start of neonate stage has related synonym birth { has synonym type=indicates that a synonym is used in an inconsistent or confusing way, typically between species }
start of neonate stage EquivalentTo life cycle temporal boundary and starts some neonate stage
start of neonate stage has obo namespace uberon
start of neonate stage id UBERON:0035946

New Class : obsolete cerebrum

obsolete cerebrum deprecated true
obsolete cerebrum has obo namespace uberon
obsolete cerebrum consider UBERON:0001893
obsolete cerebrum consider http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2068
obsolete cerebrum id UBERON:0035955
obsolete cerebrum consider UBERON:0001869
obsolete cerebrum label obsolete cerebrum
obsolete cerebrum definition Historically the term cerebrum has been used for several different parts of the CNS including the whole brain, the cerebral hemispheres and the sum of cerebral cortex and adjacent cerebral white matter. A thorough discussion of the definitional history is to be found in Anthoney-1994 { database cross reference=http://braininfo.rprc.washington.edu/Source.aspx?ID=118&questID=2068 , database cross reference=http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2068 }

New Class : epididymal lumen

epididymal lumen has exact synonym epididymis lumen { database cross reference=FMA:18274 }
epididymal lumen database cross reference FMA:18274
epididymal lumen has exact synonym epididymus lumen
epididymal lumen EquivalentTo anatomical space and luminal space of some epididymis
epididymal lumen SubClassOf contains some seminal fluid
epididymal lumen database cross reference http://www.snomedbrowser.com/Codes/Details/367722009
epididymal lumen definition The lumen of the epididymis { database cross reference=https://github.com/obophenotype/uberon/issues/1209 , database cross reference=GOC:DOS }
epididymal lumen SubClassOf anatomical space
epididymal lumen SubClassOf luminal space of some epididymis
epididymal lumen label epididymal lumen
epididymal lumen id UBERON:0035956
epididymal lumen has exact synonym lumen of epididymis { database cross reference=FMA:18274 }
epididymal lumen has obo namespace uberon

New Class : antotic pillar

antotic pillar SubClassOf part of some optic foramen
antotic pillar id UBERON:0035957
antotic pillar has obo namespace uberon
antotic pillar SubClassOf neural crest-derived structure
antotic pillar label antotic pillar
antotic pillar SubClassOf mesoderm-derived structure
antotic pillar definition The posteriormost orbital pillar, in front of the otic capsule. { database cross reference=ISBN13:978-0226870137 }
antotic pillar SubClassOf orbital pillar

New Class : preoptic pillar

preoptic pillar SubClassOf mesoderm-derived structure
preoptic pillar SubClassOf neural crest-derived structure
preoptic pillar id UBERON:0035958
preoptic pillar has obo namespace uberon
preoptic pillar SubClassOf orbital pillar
preoptic pillar label preoptic pillar
preoptic pillar SubClassOf part of some optic foramen
preoptic pillar definition The anteriormost orbital pillar, in front of the otic capsule. { database cross reference=ISBN13:978-0226870137 }

New Class : orbital pillar

orbital pillar has obo namespace uberon
orbital pillar SubClassOf part of some chondrocranium
orbital pillar SubClassOf zone of bone organ
orbital pillar definition A skeletal projection in the chondrocranium that developmentally connects the orbital cartilage and may develop into bone regions. { database cross reference=ISBN13:978-0226870137 , database cross reference=UBERON:cjm }
orbital pillar id UBERON:0035959
orbital pillar label orbital pillar

Changed Class objects: 128

Changes for: sulcus of brain

Deleted
- - sulcus of brain definition A depression or fissure in the surface of the brain. It surrounds the gyri, creating the characteristic appearance of the brain in humans and other large mammals. { database cross reference=http://en.wikipedia.org/wiki/Sulcus_(neuroanatomy) }
Added
- + sulcus of brain definition A depression or fissure in the surface of the brain. It surrounds the gyri, creating the characteristic appearance of the brain in humans and other large mammals. { database cross reference=http://en.wikipedia.org/wiki/Sulcus_(neuroanatomy) , database cross reference=https://github.com/obophenotype/uberon/issues/315 }

Changes for: immune system

Added
- + immune system database cross reference BTO:0005810

Changes for: autopod region

Deleted
- - autopod region definition Terminal segment of free limb, immediately distal to the zeugopod region. The fully developed autopod consists of the autopod skeleton plus associated structures such as integument, muscle tissue, vasculature etc. The autopod is divided into mesopodial, metapodiual, and acropodial segments. Examples: human hand, mouse paw, human foot { database cross reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + autopod region definition Terminal segment of free limb, immediately distal to the zeugopod region. The fully developed autopod consists of the autopod skeleton plus associated structures such as integument, muscle tissue, vasculature etc. The autopod is divided into mesopodial, metapodiual, and acropodial segments. Examples: human hand, mouse paw, human foot { database cross reference=https://github.com/obophenotype/uberon/issues/303 , database cross reference=https://orcid.org/0000-0002-6601-2165 }

Changes for: arachnoid villus

Deleted
- - arachnoid villus has related synonym pacchioni%27s granulations { database cross reference=http://en.wikipedia.org/wiki/Arachnoid_granulation }
- - arachnoid villus has related synonym paccini%27s granulation { database cross reference=http://en.wikipedia.org/wiki/Arachnoid_granulation }
Added
- + arachnoid villus has related synonym pacchioni’s granulations { database cross reference=http://en.wikipedia.org/wiki/Arachnoid_granulation }
- + arachnoid villus has related synonym paccini’s granulation { database cross reference=http://en.wikipedia.org/wiki/Arachnoid_granulation }

Changes for: endostylar duct

Deleted
- - endostylar duct definition A duct in ammocetes (larval lamprey) that is reputed to connect the endostylar lumen to the pharyngeal lumen. Resembles the thyroglossal duct. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/15592682 }
Added
- + endostylar duct definition A duct in ammocetes (larval lamprey) that is reputed to connect the endostylar lumen to the pharyngeal lumen. Resembles the thyroglossal duct. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/15592682 , database cross reference=https://github.com/obophenotype/uberon/issues/285 }

Changes for: elephant trunk

Deleted
- - elephant trunk definition An appendage formed by the fusion of the nose and upper lip. { database cross reference=Trunk }
Added
- + elephant trunk definition An appendage formed by the fusion of the nose and upper lip. { database cross reference=Trunk , database cross reference=https://github.com/obophenotype/uberon/issues/295 }

Changes for: notochord

Deleted
- - notochord definition A flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube. { database cross reference=http://en.wikipedia.org/wiki/Notochord , database cross reference=http://tolweb.org/Chordata/2499 , database cross reference=https://github.com/obophenotype/uberon/issues/25 , database cross reference=ISBN:0815318960 }
Added
- + notochord definition A flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube. { database cross reference=http://en.wikipedia.org/wiki/Notochord , database cross reference=http://tolweb.org/Chordata/2499 , database cross reference=https://github.com/obophenotype/uberon/issues/25 , database cross reference=https://github.com/obophenotype/uberon/issues/271 , database cross reference=ISBN:0815318960 }

Changes for: molar tooth

Deleted
- - molar tooth definition Molars are the rearmost and most complicated kind of tooth in most mammals. { database cross reference=http://en.wikipedia.org/wiki/Molar_(tooth) }
Added
- + molar tooth definition Molars are the rearmost and most complicated kind of tooth in most mammals. { database cross reference=http://en.wikipedia.org/wiki/Molar_(tooth) , database cross reference=https://github.com/obophenotype/uberon/issues/221 }

Changes for: mucosa of vagina

Added
- + mucosa of vagina database cross reference BTO:0005676

Changes for: axon tract

Deleted
- - axon tract definition A group of axons linking two or more neuropils and having a common origin, termination[FBbt]. { database cross reference=http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html }
Added
- + axon tract definition A group of axons linking two or more neuropils and having a common origin, termination[FBbt]. { database cross reference=http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html , database cross reference=https://github.com/obophenotype/uberon/issues/286 }

Changes for: aorta tunica intima

Added
- + aorta tunica intima database cross reference BTO:0005553

Changes for: juxtaglomerular apparatus

Added
- + juxtaglomerular apparatus database cross reference BTO:0005157

Changes for: mesenchyme derived from neural crest

Deleted
- - mesenchyme derived from neural crest definition Mesenchyme that develops_from the neural crest[Automatically generated definition]. { database cross reference=OBOL:automatic }
Added
- + mesenchyme derived from neural crest definition Mesenchyme that develops_from the neural crest[Automatically generated definition]. { database cross reference=https://github.com/obophenotype/uberon/issues/248 , database cross reference=OBOL:automatic }

Changes for: embryoid body

Deleted
- - embryoid body definition Embryoid bodies (EBs) are three-dimensional aggregates of pluripotent stem cells. { database cross reference=EFO:0004988 }
Added
- + embryoid body definition Embryoid bodies (EBs) are three-dimensional aggregates of pluripotent stem cells. { database cross reference=https://github.com/obophenotype/uberon/issues/245 , database cross reference=EFO:0004988 }

Changes for: muscle layer of ileum

Added
- + muscle layer of ileum database cross reference BTO:0005574

Changes for: incisor tooth

Deleted
- - incisor tooth definition Incisors are the first kind of tooth in heterodont mammals. They are located in the premaxilla above and mandible below. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Incisor_tooth }
Added
- + incisor tooth definition Incisors are the first kind of tooth in heterodont mammals. They are located in the premaxilla above and mandible below. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Incisor_tooth , database cross reference=https://github.com/obophenotype/uberon/issues/221 }

Changes for: atrioventricular node

Added
- + atrioventricular node database cross reference BTO:0005689

Changes for: inguinal canal

Added
- + inguinal canal database cross reference BTO:0005576

Changes for: Pacinian corpuscle

Added
- + Pacinian corpuscle structure notes consists of a nerve fiber, an inner core of modified Schwann cells, a subcapsular space and a capsule [ISBN:9780849388118]
- + Pacinian corpuscle taxon notes may also be present in the mesentery of cats, in pancreas, in lymph nodes [ISBN:9780849388118]

Changes for: nerve root

Deleted
- - nerve root definition A continuation of the neuron projection bundle component of a nerve inside, crossing or immediately outside the central nervous system. { database cross reference=http://orcid.org/0000-0002-6601-2165 }
Added
- + nerve root definition A continuation of the neuron projection bundle component of a nerve inside, crossing or immediately outside the central nervous system. { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/286 }

Changes for: nephron tubule epithelium

Added
- + nephron tubule epithelium database cross reference BTO:0005239

Changes for: ventral horn of spinal cord

Added
- + ventral horn of spinal cord database cross reference BTO:0005151

Changes for: neuromere

Deleted
- - neuromere definition A transverse unitary subdivision of the neural tube that shares a common dorsoventral structure (floor, basal, alar, and roof plates), but each having differential molecular identities and fates; they comprise the secondary prosencephalon, diencephalon (prosomeres), the midbrain (mesomeres), and the hindbrain (rhombomeres). { database cross reference=http://dx.doi.org/10.1016/j.tins.2013.06.004 }
Added
- + neuromere definition A transverse unitary subdivision of the neural tube that shares a common dorsoventral structure (floor, basal, alar, and roof plates), but each having differential molecular identities and fates; they comprise the secondary prosencephalon, diencephalon (prosomeres), the midbrain (mesomeres), and the hindbrain (rhombomeres). { database cross reference=http://dx.doi.org/10.1016/j.tins.2013.06.004 , database cross reference=https://github.com/obophenotype/uberon/issues/318 }

Changes for: dermal skeletal element

Deleted
- - dermal skeletal element definition dermis-derived entity that is made of skeletal tissue. { database cross reference=http://orcid.org/0000-0002-6601-2165 }
Added
- + dermal skeletal element definition dermis-derived entity that is made of skeletal tissue. { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/206 }

Changes for: blood vessel layer

Added
- + blood vessel layer SubClassOf part of some wall of blood vessel

Changes for: mole

Added
- + mole database cross reference MPATH:361

Changes for: alular digit

Deleted
- - alular digit definition A manual digit found in Aves that is the most preaxial position and is morphologically similar to digit 1 in the standard tetrapod configuration and develops from embryonic digit 2, with contributions from embryonic digit 1. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/10220427 , database cross reference=PhenoscapeRCN:Oct2012 }
Added
- + alular digit definition A manual digit found in Aves that is the most preaxial position and is morphologically similar to digit 1 in the standard tetrapod configuration and develops from embryonic digit 2, with contributions from embryonic digit 1. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/10220427 , database cross reference=https://github.com/obophenotype/uberon/issues/247 , database cross reference=https://github.com/obophenotype/uberon/issues/264 , database cross reference=PhenoscapeRCN:Oct2012 }

Changes for: crustacean post-larval stage

Added
- + crustacean post-larval stage database cross reference BTO:0002655

Changes for: ophthalmic artery

Deleted
- - ophthalmic artery definition The ophthalmic artery is a branch of the internal carotid artery which supplies branches to supply the eye and other structures in the orbit. It enters the orbit together with the Optic nerve through the Optic canal. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Ophthalmic_artery }
Added
- + ophthalmic artery definition The ophthalmic artery is a branch of the internal carotid artery which supplies branches to supply the eye and other structures in the orbit. It enters the orbit together with the Optic nerve through the Optic foramen/canal. [WP,modified]. { database cross reference=http://en.wikipedia.org/wiki/Ophthalmic_artery }

Changes for: respiratory velum

Added
- + DisjointClasses( respiratory velum velum feeding organ )

Changes for: feather barbicel

Added
- + feather barbicel database cross reference BTO:0003269

Changes for: bone element

Deleted
- - bone element definition Skeletal element that is composed of bone tissue. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=GO_REF:0000034 , database cross reference=PSPUB:0000170 , database cross reference=VSAO:0000057 }
Added
- + bone element definition Skeletal element that is composed of bone tissue. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=https://github.com/obophenotype/uberon/issues/277 , database cross reference=GO_REF:0000034 , database cross reference=PSPUB:0000170 , database cross reference=VSAO:0000057 }

Changes for: osteon

Deleted
- - osteon has related synonym volkmann%27s vessel { database cross reference=http://en.wikipedia.org/wiki/Osteon }
Added
- + osteon database cross reference BTO:0004592
- + osteon has related synonym volkmann’s vessel { database cross reference=http://en.wikipedia.org/wiki/Osteon }

Changes for: hyperpallium apicale

Added
- + hyperpallium apicale database cross reference BTO:0003402

Changes for: pallium

Deleted
- - pallium definition Dorsal part (roof region) of the telencephalon[GO]. { database cross reference=http://en.wikipedia.org/wiki/Pallium_(neuroanatomy) , database cross reference=GO:0021543 , database cross reference=ISBN10:0471888893 }
Added
- + pallium definition Dorsal part (roof region) of the telencephalon[GO]. { database cross reference=http://en.wikipedia.org/wiki/Pallium_(neuroanatomy) , database cross reference=https://github.com/obophenotype/uberon/issues/287 , database cross reference=GO:0021543 , database cross reference=ISBN10:0471888893 }

Changes for: peripheral nervous system

Deleted
- - peripheral nervous system database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=247
- - peripheral nervous system database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=247 { source=NIFSTD:birnlex_1111 }
- - peripheral nervous system has exact synonym pars peripherica { database cross reference=FMA:9903 , database cross reference=FMA:TA , has synonym type=latin term }
- - peripheral nervous system has exact synonym systema nervosum periphericum { database cross reference=FMA:9903 , database cross reference=FMA:TA , has synonym type=latin term }
- - peripheral nervous system has related synonym PNS
- - peripheral nervous system has related synonym lateral part of the basal amygdalar nucleus { database cross reference=NeuroNames:247 }
- - peripheral nervous system has related synonym lateral part of the basolateral nucleus { database cross reference=NeuroNames:247 }
- - peripheral nervous system has related synonym nucleus amygdalae basalis, pars lateralis { database cross reference=NeuroNames:247 , has synonym type=latin term }
- - peripheral nervous system has related synonym nucleus amygdaloideus basalis, pars lateralis magnocellularis { database cross reference=NeuroNames:247 , has synonym type=latin term }
- - peripheral nervous system has related synonym nucleus basalis lateralis amygdalae { database cross reference=NeuroNames:247 , has synonym type=latin term }
- - peripheral nervous system has related synonym pars peripherica; systema nervosum periphericum { database cross reference=http://en.wikipedia.org/wiki/Peripheral_nervous_system , has synonym type=latin term }
Added
- + peripheral nervous system database cross reference http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=3232
- + peripheral nervous system has broad synonym PNS { has synonym type=abbreviation }
- + peripheral nervous system has exact synonym pars peripherica { database cross reference=http://en.wikipedia.org/wiki/Peripheral_nervous_system , database cross reference=FMA:9903 , database cross reference=FMA:TA , has synonym type=latin term }
- + peripheral nervous system has exact synonym systema nervosum periphericum { database cross reference=http://en.wikipedia.org/wiki/Peripheral_nervous_system , database cross reference=FMA:9903 , database cross reference=FMA:TA , has synonym type=latin term }

Changes for: umbilical artery

Deleted
- - umbilical artery definition The umbilical artery is a paired artery (with one for each half of the body) that is found in the abdominal and pelvic regions. In the fetus, it extends into the umbilical cord. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Umbilical_artery }
Added
- + umbilical artery definition The umbilical artery is a paired artery (with one for each half of the body) that is found in the abdominal and pelvic regions. In the fetus, it extends into the umbilical cord. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Umbilical_artery , database cross reference=https://github.com/obophenotype/uberon/issues/328 }

Changes for: layer of hippocampal field

Deleted
- - layer of hippocampal field definition A subdivision of a layer of the hippocampus (e.g. stratum moleculare) covering all or port of a hippocampal field (e.g. CA1). { database cross reference=http://orcid.org/0000-0002-6601-2165 }
Added
- + layer of hippocampal field definition A subdivision of a layer of the hippocampus (e.g. stratum moleculare) covering all or port of a hippocampal field (e.g. CA1). { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/297 }
- + layer of hippocampal field has exact synonym hippocampal field layer

Changes for: accessory lacrimal gland

Deleted
- - accessory lacrimal gland editor note may be re-classified as a sibling on lacrimal gland
Added
- + accessory lacrimal gland editor note may be re-classified as a sibling of lacrimal gland

Changes for: intramembranous bone

Deleted
- - intramembranous bone definition Bone tissue forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]. { database cross reference=http://en.wikipedia.org/wiki/Intramembranous_ossification , database cross reference=GO:0001957 }
Added
- + intramembranous bone definition Bone tissue forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]. { database cross reference=http://en.wikipedia.org/wiki/Intramembranous_ossification , database cross reference=https://github.com/obophenotype/uberon/issues/267 , database cross reference=GO:0001957 }

Changes for: innominate bone

Deleted
- - innominate bone definition A fused bone consisting of the ilium, ischium and and pubis. Together with the sacrum and coccyx, it comprises the pelvis. [WP,modified]. { database cross reference=http://en.wikipedia.org/wiki/Hip_bone , database cross reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + innominate bone definition A fused bone consisting of the ilium, ischium and and pubis. Together with the sacrum and coccyx, it comprises the pelvis. [WP,modified]. { database cross reference=http://en.wikipedia.org/wiki/Hip_bone , database cross reference=https://github.com/obophenotype/uberon/issues/290 , database cross reference=https://orcid.org/0000-0002-6601-2165 }

Changes for: neuropil

Added
- + neuropil database cross reference BTO:0005268

Changes for: emboliform nucleus

Added
- + emboliform nucleus database cross reference BTO:0003837

Changes for: cerebellum globose nucleus

Added
- + cerebellum globose nucleus database cross reference BTO:0003838

Changes for: branchial basket

Deleted
- - branchial basket definition The network-like cartilaginous skeleton of the gill region of Petromyzontiformes and Holocephali { database cross reference=http://www.briancoad.com/dictionary/DicPics/branchial%20basket.htm }
Added
- + branchial basket definition The network-like non-segmented cartilaginous skeleton of the gill region of Petromyzontiformes and Holocephali, connected to the heart and surrounding respiratory tissue. { database cross reference=http://www.briancoad.com/dictionary/DicPics/branchial%20basket.htm , database cross reference=UBERON:cjm }
- + branchial basket function notes functions by elastic recoil

Changes for: lateral mammillary nucleus

Added
- + lateral mammillary nucleus database cross reference BTO:0004009

Changes for: medial mammillary nucleus

Added
- + medial mammillary nucleus database cross reference BTO:0004008

Changes for: endothelium

Deleted
- - endothelium definition A layer of epithelium that lines the heart, blood vessels (endothelium, vascular), lymph vessels (endothelium, lymphatic), and the serous cavities of the body[MESH]. Simple squamous epithelium which lines blood and lymphatic vessels and the heart[FMA] { database cross reference=FMA:63916 , database cross reference=MESH:A10.272.491 }
Added
- + endothelium definition A layer of epithelium that lines the heart, blood vessels (endothelium, vascular), lymph vessels (endothelium, lymphatic), and the serous cavities of the body[MESH]. Simple squamous epithelium which lines blood and lymphatic vessels and the heart[FMA] { database cross reference=https://github.com/obophenotype/uberon/issues/225 , database cross reference=FMA:63916 , database cross reference=MESH:A10.272.491 }

Changes for: ampulla of uterine tube

Added
- + ampulla of uterine tube database cross reference BTO:0004285

Changes for: crypt of Lieberkuhn

Deleted
- - crypt of Lieberkuhn definition the tubular intestinal glands found in the mucosal membranes { database cross reference=ISBN:0-683-40008-8 , database cross reference=MP:0000490 }
Added
- + crypt of Lieberkuhn definition the tubular intestinal glands found in the mucosal membranes { database cross reference=https://github.com/obophenotype/uberon/issues/213 , database cross reference=ISBN:0-683-40008-8 , database cross reference=MP:0000490 }

Changes for: jaw depressor muscle

Deleted
- - jaw depressor muscle definition A muscle whose action is to depress the lower jaw. { database cross reference=http://dx.doi.org/10.1006/bijl.2000.0436 }
Added
- + jaw depressor muscle definition A muscle whose action is to depress the lower jaw. { database cross reference=http://dx.doi.org/10.1006/bijl.2000.0436 , database cross reference=https://github.com/obophenotype/uberon/issues/232 }

Changes for: Herbst’s corpuscle

Deleted
- - corpuscles of herbst label corpuscles of herbst
Added
- + Herbst’s corpuscle label Herbst’s corpuscle

Changes for: anal tooth

Deleted
- - anal tooth definition Tooth-like structure that typically forms a ring surrounding the anus of some Holothuriidae { database cross reference=https://orcid.org/0000-0002-6601-2165 }
Added
- + anal tooth definition Triangular calcified papillae (often five) placed radially around the anus of some Holothuriidae { database cross reference=http://species-identification.org/species.php?species_group=nasc&selected=definitie&menuentry=woordenlijst&record=Anal%20teeth , database cross reference=https://orcid.org/0000-0002-6601-2165 , database cross reference=https://www.karger.com/Article/Pdf/142845 }
- + anal tooth has related synonym calcified anal papilla

Changes for: postcranial axial skeletal system

Deleted
- - post-cranial axial skeletal system definition Subdivision of the skeletal system which consists of the post-cranial axial skeleton plus associated joints. { database cross reference=https://github.com/obophenotype/uberon/issues/44 , database cross reference=https://orcid.org/0000-0002-6601-2165 }
- - post-cranial axial skeletal system label post-cranial axial skeletal system
Added
- + postcranial axial skeletal system definition Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. { database cross reference=https://github.com/obophenotype/uberon/issues/44 , database cross reference=https://orcid.org/0000-0002-6601-2165 }
- + postcranial axial skeletal system has exact synonym post-cranial axial skeletal system
- + postcranial axial skeletal system label postcranial axial skeletal system

Changes for: Meissner’s corpuscle

Deleted
- - Meissner’s corpuscle has related synonym meisner%27s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- - Meissner’s corpuscle has related synonym meissner%27s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- - Meissner’s corpuscle has related synonym meissner%27s corpuscles { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- - Meissner’s corpuscle has related synonym messner%27s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
Added
- + Meissner’s corpuscle comment located in papillary layer of dermis in glabrous skin[ISBN:9780849388118]
- + Meissner’s corpuscle has related synonym Dogiel’s end bulb { database cross reference=ISBN:9780849388118 }
- + Meissner’s corpuscle has related synonym Ruffini’s end bulb { database cross reference=ISBN:9780849388118 }
- + Meissner’s corpuscle has related synonym meisner’s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- + Meissner’s corpuscle has related synonym meissner’s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- + Meissner’s corpuscle has related synonym meissner’s corpuscles { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }
- + Meissner’s corpuscle has related synonym messner’s corpuscle { database cross reference=http://en.wikipedia.org/wiki/Meissner%27s_corpuscle }

Changes for: Ruffini nerve ending

Deleted
- - Ruffini nerve ending definition The Ruffini ending or Ruffini corpuscle is a class of slowly adapting mechanoreceptor which in humans is thought to exist only in the glabrous dermis and subcutaneous tissue[WP]. { database cross reference=http://en.wikipedia.org/wiki/Bulbous_corpuscle }
- - Ruffini nerve ending has related synonym ruffini corpuscle end-organ { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini corpuscle { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini corpuscles { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini endings { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini%27s corpuscles { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini%27s end organ { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini%27s ending { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- - Ruffini nerve ending has related synonym ruffini%27s organs { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
Added
- + Ruffini nerve ending curator notes there is some debate as to its existence[ISBN:9780849388118]
- + Ruffini nerve ending definition An encapsulated nerve receptor present in subpapillary dermis and deep dermis of hairy and glabrous skin. { database cross reference=http://en.wikipedia.org/wiki/Bulbous_corpuscle , database cross reference=ISBN:9780849388118 }
- + Ruffini nerve ending has related synonym Ruffini corpuscle end-organ { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini corpuscle { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini corpuscles { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini endings { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini’s corpuscles { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini’s end organ { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini’s ending { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }
- + Ruffini nerve ending has related synonym Ruffini’s organs { database cross reference=http://en.wikipedia.org/wiki/Ruffini_ending }

Changes for: sensory ganglion

Added
- + sensory ganglion database cross reference BTO:0005630

Changes for: cerebral hemisphere

Deleted
- - cerebral hemisphere definition One of two bilateral, largely symmetrical organ subdivisions within the telencephalon which contain the cerebral cortex and cerebral white matter.[FMA] { database cross reference=http://en.wikipedia.org/wiki/Cerebral_hemisphere , database cross reference=FMA:FMA }
- - cerebral hemisphere has related synonym cerebrum
- - cerebral hemisphere has related synonym telencephalic vesicle
Added
- + cerebral hemisphere definition One of two bilateral, largely symmetrical organ subdivisions within the telencephalon which contain the cerebral cortex and cerebral white matter.[FMA] { database cross reference=http://en.wikipedia.org/wiki/Cerebral_hemisphere , database cross reference=FMA:61817 }
- + cerebral hemisphere has related synonym cerebrum { database cross reference=https://github.com/obophenotype/uberon/issues/1208 , database cross reference=MA:0000133 , database cross reference=VHOG:0001639 }

Changes for: telencephalon

Deleted
- - telencephalon has exact synonym cerebrum { database cross reference=http://en.wikipedia.org/wiki/Talk:Cerebrum }
- - telencephalon has exact synonym endbrain { database cross reference=Swanson:2004 }
Added
- + telencephalon has exact synonym cerebrum { database cross reference=https://en.wikipedia.org/wiki/Talk:Cerebrum/Archive_1 , database cross reference=https://github.com/obophenotype/uberon/issues/1208 , database cross reference=BTO:0000239 , database cross reference=EMAPA:16910 , database cross reference=FMA:62000 }
- + telencephalon has exact synonym endbrain { database cross reference=http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=31 , database cross reference=Swanson:2004 }
- + telencephalon taxon notes In ray-finned fishes and most pronounced in teleosts the roof plate of the embryonic telencephalon extends laterally with the effect that the paired alar plates forming the hemispheric walls roll out lateroventrally in a process called eversion. This is unlike the development in other vertebrate groups. [ZFA:0000079, ISBN:3764351209]

Changes for: peripheral region of retina

Added
- + peripheral region of retina definition Anatomical region comprising the peripheral part of the retina. { database cross reference=https://github.com/obophenotype/uberon/issues/216 , database cross reference=XAO:0004458 }

Changes for: nasal bone

Deleted
- - nasal bone definition One of two small oblong bones, varying in size and form in different individuals; they are placed side by side at the middle and upper part of the face, and form, by their junction, ‘the bridge’ of the nose[WP]. Paired dermal bones, likened to a bone tube, positioned lateral to the supraethmoid. Nasal bones are transversed by the anterior most part of the supraorbital canals and bear one neuromast foramen in zebrafish[ZFA]. { database cross reference=http://en.wikipedia.org/wiki/Nasal_bone , database cross reference=ZFIN:curator }
Added
- + nasal bone definition One of two small oblong bones, varying in size and form in different individuals; they are placed side by side at the middle and upper part of the face, and form, by their junction, ‘the bridge’ of the nose[WP]. Paired dermal bones, likened to a bone tube, positioned lateral to the supraethmoid. Nasal bones are transversed by the anterior most part of the supraorbital canals and bear one neuromast foramen in zebrafish[ZFA]. { database cross reference=http://en.wikipedia.org/wiki/Nasal_bone , database cross reference=https://github.com/obophenotype/uberon/issues/265 , database cross reference=ZFIN:curator }

Changes for: artery wall

Deleted
- - artery wall SubClassOf anatomical wall
- - artery wall SubClassOf mesoderm-derived structure
Added
- + artery wall SubClassOf wall of blood vessel

Changes for: basibranchial element

Deleted
- - basibranchial element SubClassOf part of some post-hyoid pharyngeal arch skeleton { source=ZFA }
- - basibranchial element definition Endochondral element that is ventral, median, and associated with a single pharyngeal arch in the pharyngeal arch 3-7 skeleton. { database cross reference=TAO:wd }
- - basibranchial element external definition Median ventral cartilage or bony element at the ventral point of a branchial arch, behind the tongue[http://www.fishbase.org/Glossary/Glossary.php?q=basibranchial&sc=is]. { source=http://www.fishbase.org/Glossary/Glossary.php?q=basibranchial&sc=is }
- - basibranchial element has exact synonym basibranchials { database cross reference=ZFA:0000170 , has synonym type=PLURAL }
Added
- + basibranchial element SubClassOf part of some post-hyoid pharyngeal arch skeleton
- + basibranchial element definition Endochondral element that is ventral, median, and associated with a single pharyngeal arch in the pharyngeal arch 3-7 skeleton. { database cross reference=https://github.com/obophenotype/uberon/issues/205 , database cross reference=TAO:wd }

Changes for: taste bud

Deleted
- - taste bud definition A specialized receptor organ that is a collection of cells spanning the gustatory epithelium. Taste buds may be found on the tongue, soft palatte, epiglottis and upper pharynx. { database cross reference=http://periowiki.wikispot.org/Taste_bud_histology }
Added
- + taste bud definition A specialized receptor organ that is a collection of cells spanning the gustatory epithelium. { database cross reference=http://periowiki.wikispot.org/Taste_bud_histology }
- + taste bud taxon notes In humans, saste buds may be found on the tongue, soft palatte, epiglottis and upper pharynx. In other species they may be found in more unusual places, such as the trunk, or on the barbels or fins of fish.

Changes for: tongue

Deleted
- - tongue definition A muscular organ in the floor of the mouth. { database cross reference=FEED:rd }
Added
- + tongue definition A muscular organ in the floor of the mouth. { database cross reference=https://github.com/obophenotype/uberon/issues/256 , database cross reference=FEED:rd }

Changes for: oropharynx

Added
- + oropharynx database cross reference BTO:0005257

Changes for: soft palate

Added
- + soft palate database cross reference BTO:0005405

Changes for: palatine uvula

Added
- + palatine uvula database cross reference BTO:0002204

Changes for: tube foot ampulla

Deleted
- - tube foot ampulla SubClassOf tooth-like structure
- - tube foot ampulla definition The constant contraction of ampulla (to extend and retract the tube feet) helps to move a starfish. The ampullae are teeth like structures surrounding the radial canal. { database cross reference=BTO:0002124 }
Added
- + tube foot ampulla SubClassOf organ
- + tube foot ampulla definition A tooth-like structures surrounding the radial canal within a tube foot. { database cross reference=BTO:0002124 }
- + tube foot ampulla function notes The constant contraction of ampulla (to extend and retract the tube feet) helps to move a starfish

Changes for: plastron

Added
- + plastron database cross reference BTO:0000219

Changes for: vaned feather

Added
- + vaned feather database cross reference BTO:0002536

Changes for: feather rachis

Added
- + feather rachis database cross reference BTO:0002401

Changes for: feather vane

Added
- + feather vane database cross reference BTO:0002536

Changes for: optic radiation

Deleted
- - optic radiation has related synonym meyer%27s loop { database cross reference=http://en.wikipedia.org/wiki/Optic_radiation }
Added
- + optic radiation has related synonym meyer’s loop { database cross reference=http://en.wikipedia.org/wiki/Optic_radiation }

Changes for: stomodeum

Deleted
- - stomodeum definition Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity. { database cross reference=http://en.wikipedia.org/wiki/Stomodeum , database cross reference=http://orcid.org/0000-0002-6601-2165 }
Added
- + stomodeum definition Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity. { database cross reference=http://en.wikipedia.org/wiki/Stomodeum , database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/326 }

Changes for: germ layer

Deleted
- - germ layer definition A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm. { database cross reference=http://en.wikipedia.org/wiki/Germ_layer }
Added
- + germ layer definition A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm. { database cross reference=http://en.wikipedia.org/wiki/Germ_layer , database cross reference=https://github.com/obophenotype/uberon/issues/203 }

Changes for: adductor mandibulae

Deleted
- - adductor mandibulae definition An adductor muscle that acts on the jaw. In some species, this is subdivided into segments based on attachment. { database cross reference=http://orcid.org/0000-0002-6601-2165 }
Added
- + adductor mandibulae definition An adductor muscle that acts on the jaw. In some species, this is subdivided into segments based on attachment. { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/266 }

Changes for: bulb of aorta

Added
- + bulb of aorta database cross reference BTO:0004695

Changes for: endometrial cavity

Deleted
- - endometrial cavity EquivalentTo anatomical cavity and adjacent to some endometrium and lumen of some body of uterus
- - endometrial cavity SubClassOf lumen of some body of uterus
Added
- + endometrial cavity EquivalentTo anatomical cavity and adjacent to some endometrium and luminal space of some body of uterus
- + endometrial cavity SubClassOf luminal space of some body of uterus

Changes for: seminal vesicle fluid

Added
- + seminal vesicle fluid database cross reference BTO:0002053

Changes for: unencapsulated tactile receptor

Deleted
- - unencapsulated nerve ending label unencapsulated nerve ending
Added
- + DisjointClasses( unencapsulated tactile receptor encapsulated tactile receptor )
- + unencapsulated tactile receptor has exact synonym unencapsulated nerve ending { database cross reference=FMA:84005 }
- + unencapsulated tactile receptor label unencapsulated tactile receptor

Changes for: clavicle bone primordium

Added
- + clavicle bone primordium definition A primordium that develops into a clavicle bone. { database cross reference=https://github.com/obophenotype/uberon/issues/327 }

Changes for: vertebral element

Deleted
- - vertebral element definition Skeletal element that forms around the notochord and is part of the vertebral column. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000184 }
Added
- + vertebral element definition Skeletal element that forms around the notochord and is part of the vertebral column. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=https://github.com/obophenotype/uberon/issues/294 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000184 }

Changes for: metoptic pillar

Deleted
- - metoptic pilar SubClassOf zone of bone organ
- - metoptic pilar label metoptic pilar
Added
- + metoptic pillar SubClassOf orbital pillar
- + metoptic pillar has exact synonym postoptic pillar { database cross reference=ISBN13:978-0226870137 }
- + metoptic pillar label metoptic pillar

Changes for: calcar

Added
- + DisjointClasses( calcar calcar avis of the lateral ventricle )

Changes for: posterior paracentral gyrus

Added
- + posterior paracentral gyrus database cross reference BTO:0005603

Changes for: anterior paracentral gyrus

Added
- + anterior paracentral gyrus database cross reference BTO:0005602

Changes for: feather barbule

Added
- + feather barbule database cross reference BTO:0003397

Changes for: feather barb

Added
- + feather barb database cross reference BTO:0002578

Changes for: life cycle temporal boundary

Added
- + life cycle temporal boundary in subset upper level

Changes for: renal medulla collecting duct

Added
- + renal medulla collecting duct database cross reference BTO:0004536

Changes for: albumen

Added
- + albumen database cross reference BTO:0000370

Changes for: hoof

Deleted
- - hoof definition The tip of a toe of an ungulate mammal, strengthened by a thick horny (keratin) covering. The hoof consists of a hard or rubbery sole, and a hard wall formed by a thick nail rolled around the tip of the toe. The weight of the animal is normally borne by both the sole and the edge of the hoof wall. Hooves grow continuously, and are constantly worn down by use. { database cross reference=http://en.wikipedia.org/wiki/Hoof }
Added
- + hoof definition The tip of a toe of an ungulate mammal, strengthened by a thick horny (keratin) covering. The hoof consists of a hard or rubbery sole, and a hard wall formed by a thick nail rolled around the tip of the toe. The weight of the animal is normally borne by both the sole and the edge of the hoof wall. Hooves grow continuously, and are constantly worn down by use. { database cross reference=http://en.wikipedia.org/wiki/Hoof , database cross reference=https://github.com/obophenotype/uberon/issues/296 }

Changes for: dermal bone

Deleted
- - dermal bone definition Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000130 }
Added
- + dermal bone definition Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=https://github.com/obophenotype/uberon/issues/267 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000130 }

Changes for: descending thin limb

Deleted
- - descending thin limb has related synonym descending limb of henle%27s loop { database cross reference=http://en.wikipedia.org/wiki/Descending_limb_of_loop_of_Henle }
Added
- + descending thin limb has related synonym descending limb of henle’s loop { database cross reference=http://en.wikipedia.org/wiki/Descending_limb_of_loop_of_Henle }

Changes for: neural tube derived brain

Deleted
- - neural tube derived brain definition A brain that develops_from a neural tube. { database cross reference=OBOL:automatic }
Added
- + neural tube derived brain definition A brain that develops_from a neural tube. { database cross reference=https://github.com/obophenotype/uberon/issues/338 , database cross reference=OBOL:automatic }

Changes for: prostate gland dorsolateral lobe

Added
- + prostate gland dorsolateral lobe database cross reference BTO:0000541

Changes for: enamel knot

Added
- + enamel knot database cross reference BTO:0005791

Changes for: bronchus smooth muscle

Added
- + bronchus smooth muscle database cross reference BTO:0004401

Changes for: scapula

Deleted
- - scapula definition Endochondral bone that is dorsoventrally compressed and provides attachment site for muscles of the pectoral appendage. { database cross reference=VSAO:0000157 }
Added
- + scapula definition Endochondral bone that is dorsoventrally compressed and provides attachment site for muscles of the pectoral appendage. { database cross reference=https://github.com/obophenotype/uberon/issues/204 , database cross reference=https://github.com/obophenotype/uberon/issues/339 , database cross reference=VSAO:0000157 }

Changes for: foramen cecum of frontal bone

Deleted
- - foramen cecum of frontal bone definition The frontal crest of the frontal bone ends below in a small notch which is converted into a foramen, the foramen cecum, by articulation with the ethmoid. This foramen varies in size in different subjects, and is frequently impervious; when open, it transmits a vein from the nose to the superior sagittal sinus. This has clinical importance in that infections of the nose and nearby areas can be transmitted to the meninges and brain from what is known as the danger triangle of the face. { database cross reference=http://en.wikipedia.org/wiki/Foramen_cecum_%28frontal_bone%29 }
Added
- + foramen cecum of frontal bone definition The frontal crest of the frontal bone ends below in a small notch which is converted into a foramen, the foramen cecum, by articulation with the ethmoid. This foramen varies in size in different subjects, and is frequently impervious; when open, it transmits a vein from the nose to the superior sagittal sinus. This has clinical importance in that infections of the nose and nearby areas can be transmitted to the meninges and brain from what is known as the danger triangle of the face. { database cross reference=http://en.wikipedia.org/wiki/Foramen_cecum_%28frontal_bone%29 , database cross reference=https://github.com/obophenotype/uberon/issues/281 }

Changes for: optic fissure

Added
- + DisjointClasses( optic fissure optic foramen )

Changes for: corpus cavernosum

Added
- + corpus cavernosum database cross reference BTO:0005454

Changes for: atrium auricular region

Added
- + atrium auricular region database cross reference BTO:0002485

Changes for: spongiotrophoblast layer

Added
- + spongiotrophoblast layer database cross reference BTO:0005402

Changes for: obsolete protein-based cuticle

Deleted
- - protein-based cuticle SubClassOf cuticle
- - protein-based cuticle definition An example of this is found in Caenorhabditis elegans { database cross reference=GO:0007592 }
- - protein-based cuticle label protein-based cuticle
Added
- + obsolete protein-based cuticle deprecated true
- + obsolete protein-based cuticle label obsolete protein-based cuticle
- + obsolete protein-based cuticle see also http://purl.obolibrary.org/obo/GO_0007592

Changes for: foramen cecum of tongue

Deleted
- - foramen cecum of tongue definition The median pit on the dorsum of the posterior part of the tongue, from which the limbs of a V-shaped furrow run forward and outward; the foramen cecum is the point of attachment of the thyroglossal duct and is formed during the embryological descent of the thyroid gland { database cross reference=MP:0013234 }
Added
- + foramen cecum of tongue definition The median pit on the dorsum of the posterior part of the tongue, from which the limbs of a V-shaped furrow run forward and outward; the foramen cecum is the point of attachment of the thyroglossal duct and is formed during the embryological descent of the thyroid gland { database cross reference=https://github.com/obophenotype/uberon/issues/281 , database cross reference=MP:0013234 }

Changes for: olfactory bulb glomerular layer

Deleted
- - olfactory bulb glomerular layer definition The glomerular layer is the most superficial layer, consisting of mitral cell dendritic arborizations (glomeruli), olfactory nerve fibers, and periglomerular cells. Periglomerular cells contact multiple mitral cell dendrites within the glomeruli and provide lateral inhibition of neighboring glomeruli while allowing excitation of a specific mitral cell dendritic tree. Each mitral cell is contacted by at least 1000 olfactory nerve fibers[BTO]. Portion of tissue which is located in between the primary olfactory fiber layer and the external cellular layer of the olfactory bulb[ZFA]. { database cross reference=BTO:0001317 }
Added
- + olfactory bulb glomerular layer definition The glomerular layer is the most superficial layer, consisting of mitral cell dendritic arborizations (glomeruli), olfactory nerve fibers, and periglomerular cells. Periglomerular cells contact multiple mitral cell dendrites within the glomeruli and provide lateral inhibition of neighboring glomeruli while allowing excitation of a specific mitral cell dendritic tree. Each mitral cell is contacted by at least 1000 olfactory nerve fibers[BTO]. Portion of tissue which is located in between the primary olfactory fiber layer and the external cellular layer of the olfactory bulb[ZFA]. { database cross reference=https://github.com/obophenotype/uberon/issues/260 , database cross reference=BTO:0001317 }

Changes for: membrane bone

Deleted
- - membrane bone definition Bone element that arises as a result of intramembranous ossification. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000023 }
Added
- + membrane bone definition Bone element that arises as a result of intramembranous ossification. { database cross reference=http://dx.plos.org/10.1371/journal.pone.0051070 , database cross reference=https://github.com/obophenotype/uberon/issues/267 , database cross reference=GO_REF:0000034 , database cross reference=VSAO:0000023 }

Changes for: brain commissure

Deleted
- - brain commissure definition any of the nerve fiber tracts that span the longitudinal fissure between the cerebral and/or cerebellar hemispheres of the brain { database cross reference=ISBN:0-683-40008-8 , database cross reference=MGI:csmith , database cross reference=MP:0002199 }
Added
- + brain commissure definition any of the nerve fiber tracts that span the longitudinal fissure between the cerebral and/or cerebellar hemispheres of the brain { database cross reference=https://github.com/obophenotype/uberon/issues/325 , database cross reference=ISBN:0-683-40008-8 , database cross reference=MGI:csmith , database cross reference=MP:0002199 }

Changes for: occipital region

Added
- + occipital region database cross reference BTO:0004675

Changes for: zona reticularis of adrenal gland

Added
- + zona reticularis of adrenal gland database cross reference BTO:0000056

Changes for: umbilical vein

Deleted
- - umbilical vein definition The umbilical vein is a blood vessel present during fetal development that carries oxygenated blood from the placenta to the growing fetus. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Umbilical_vein }
Added
- + umbilical vein definition The umbilical vein is a blood vessel present during fetal development that carries oxygenated blood from the placenta to the growing fetus. [WP,unvetted]. { database cross reference=http://en.wikipedia.org/wiki/Umbilical_vein , database cross reference=https://github.com/obophenotype/uberon/issues/328 }

Changes for: aorta wall

Deleted
- - aorta wall SubClassOf anatomical wall
- - aorta wall SubClassOf mesoderm-derived structure
Added
- + aorta wall SubClassOf wall of blood vessel

Changes for: pharyngeal epithelium

Added
- + pharyngeal epithelium database cross reference BTO:0005240

Changes for: postcranial axial skeleton

Deleted
- - postcranial axial skeleton definition The post-cranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]. { database cross reference=https://sourceforge.net/tracker/?func=detail&aid=2983975&group_id=76834&atid=974957 , database cross reference=https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=2983977&group_id=76834 , database cross reference=ZFA:0000317 }
Added
- + postcranial axial skeleton definition The postcranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]. { database cross reference=https://sourceforge.net/tracker/?func=detail&aid=2983975&group_id=76834&atid=974957 , database cross reference=https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=2983977&group_id=76834 , database cross reference=ZFA:0000317 }

Changes for: dopaminergic system

Added
- + dopaminergic system database cross reference BTO:0003954

Changes for: epididymis epithelium

Added
- + epididymis epithelium database cross reference BTO:0005768

Changes for: tunica adventitia of blood vessel

Added
- + tunica adventitia of blood vessel database cross reference BTO:0002010

Changes for: optic foramen

Deleted
- - optic canal definition The short canal through the orbitosphenoid bone at the apex of the orbit that gives passage to the optic nerve and the opthalmic artery[MP]. The optic foramen is the opening to the optic canal. The superior surface of the sphenoid bone is bounded behind by a ridge, which forms the anterior border of a narrow, transverse groove, the chiasmatic groove (optic groove), above and behind which lies the optic chiasma; the groove ends on either side in the optic foramen, which transmits the optic nerve and ophthalmic artery (with accompanying sympathetic nerve fibres) into the orbital cavity. The left and right optic canals are 25mm apart posteriorly and 30mm apart anteriorly. They are funnel-shaped (narrowest anteriorly). { database cross reference=http://en.wikipedia.org/wiki/Optic_canal , database cross reference=ISBN:0-683-40008-8 , database cross reference=MP:0010704 }
- - optic canal label optic canal
Added
- + DisjointClasses( optic fissure optic foramen )
- + optic foramen comment In teleost fishes the opening is wider that in mammals. Due to the longer and deeper shape in mammals, this is usually called the optic canal; sometimes the term optic foramen may be used for the opening of the canal, but here we use this term to denote the entire space together with surrounding bone surface.
- + optic foramen definition An opening in the skull through which cranial nerve II passes.[MP]. { database cross reference=http://en.wikipedia.org/wiki/Optic_canal , database cross reference=https://github.com/obophenotype/uberon/issues/1213 , database cross reference=ISBN:0-683-40008-8 , database cross reference=MP:0010704 }
- + optic foramen external definition The short canal through the orbitosphenoid bone at the apex of the orbit that gives passage to the optic nerve and the opthalmic artery { external class=MP:0010704 , ontology=MP }
- + optic foramen has exact synonym optic canal { database cross reference=http://en.wikipedia.org/wiki/Optic_canal }
- + optic foramen label optic foramen

Changes for: adventitia

Added
- + adventitia database cross reference BTO:0002010

Changes for: dermatocranium

Added
- + dermatocranium has related synonym skull exoskeleton

Changes for: vertebral centrum element

Deleted
- - vertebral centrum element definition Skeletal element that functionally replaces the notochord[VSAP,modified]. { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/80 , database cross reference=VSAO:0000183 , database cross reference=VSAO:curator }
Added
- + vertebral centrum element definition Skeletal element that functionally replaces the notochord[VSAP,modified]. { database cross reference=http://orcid.org/0000-0002-6601-2165 , database cross reference=https://github.com/obophenotype/uberon/issues/207 , database cross reference=https://github.com/obophenotype/uberon/issues/80 , database cross reference=VSAO:0000183 , database cross reference=VSAO:curator }

Changes for: vestibular epithelium

Added
- + vestibular epithelium database cross reference BTO:0005581

Changes for: buccal gland

Added
- + buccal gland database cross reference BTO:0005767

Changes for: sclerotome

Deleted
- - sclerotome definition Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. { database cross reference=http://en.wikipedia.org/wiki/Sclerotome , database cross reference=XB:curator }
Added
- + sclerotome definition Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. { database cross reference=http://en.wikipedia.org/wiki/Sclerotome , database cross reference=https://github.com/obophenotype/uberon/issues/316 , database cross reference=XB:curator }

Changes for: collagen and cuticulin-based cuticle

Deleted
- - collagen and cuticulin-based cuticle comment taxonomic restriction may be too strict
- - collagen and cuticulin-based cuticle definition A rigid external coating which is secreted by the hypodermis, seam and some transitional epithelial cells which covers the outer body, the major openings into the body cavity from the exterior, and two large sensory bristles, the male spicules. The cuticle of the spicules, the hook, and of some portions of the spicule channels is especially rigid and is probably sclerotized. Similar sclerotic features are occasionally noted in the ventral surface of the male tail fan[WBbt]. The main structural components of the nematode cuticle are proteins, highly cross-linked collagens and specialised insoluble proteins known as cuticlins, together with glycoproteins and lipids[WP]. { database cross reference=https://orcid.org/0000-0002-6601-2165 , database cross reference=WA:dh }
- - collagen and cuticulin-based cuticle external ontology notes GO has a superclass protein-based cuticle development { external ontology=GO }
Added
- + collagen and cuticulin-based cuticle definition A type of cuticle composed of highly cross-linked collagens and specialised insoluble proteins known as cuticlins, together with glycoproteins and lipids[WP]. { database cross reference=https://orcid.org/0000-0002-6601-2165 , database cross reference=WA:dh }
- + collagen and cuticulin-based cuticle taxon notes currently restricted to nematodes, but this may be too strict

Changes for: pharyngeal arch 2

Deleted
- - pharyngeal arch 2 definition The second pharyngeal arch will form the hyoid apparatus. The cranial neural crest cells that populate the second pharyngeal arch emerge primarily from rhombomere 4 and will form skeletal elements. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/12784288 , database cross reference=ZFIN:yb }
Added
- + pharyngeal arch 2 definition The second pharyngeal arch will form the hyoid apparatus. The cranial neural crest cells that populate the second pharyngeal arch emerge primarily from rhombomere 4 and will form skeletal elements. { database cross reference=http://www.ncbi.nlm.nih.gov/pubmed/12784288 , database cross reference=https://github.com/obophenotype/uberon/issues/258 , database cross reference=ZFIN:yb }

2016-05-11 release

Ontology Diff Report

Original Ontology

New Ontology

Report for classes

Class objects lost from source: 0

Class objects new in target: 38

New Class : Aaq dopaminergic cell group

New Class : telencephalic dopaminergic cell group

New Class : nucleus of the brachium of the inferior colliculus

New Class : A8 dopaminergic cell group

New Class : A14 dopaminergic cell group

New Class : A15 dopaminergic cell group

New Class : A9 dopaminergic cell group

New Class : A17 dopaminergic cell group

New Class : A10 dopaminergic cell group

New Class : A11 dopaminergic cell group

New Class : A13 dopaminergic cell group

New Class : A16 dopaminergic cell group

New Class : A12 dopaminergic cell group

New Class : dopaminergic cell groups

New Class : velum feeding organ

New Class : obsolete proboscis

New Class : supravaginal part of cervix

New Class : epithelial lining fluid

New Class : promontory of tympanic cavity

New Class : wall of blood vessel

New Class : scleral lamina cribrosa

New Class : alveolar mucosa

New Class : bulboid corpuscle

New Class : encapsulated tactile receptor

New Class : calcar avis of the lateral ventricle

New Class : postsubiculum

New Class : interanterodorsal nucleus of the thalamus

New Class : nucleus incertus

New Class : anteroventral preoptic nucleus

New Class : intergeniculate leaflet of the lateral geniculate complex

New Class : accessory abducens nucleus

New Class : bed nucleus of the accessory olfactory tract

New Class : start of neonate stage

New Class : obsolete cerebrum

New Class : epididymal lumen

New Class : antotic pillar

New Class : preoptic pillar

New Class : orbital pillar

Changed Class objects: 128

Changes for: sulcus of brain

Changes for: immune system

Changes for: autopod region

Changes for: arachnoid villus

Changes for: endostylar duct

Changes for: elephant trunk

Changes for: notochord

Changes for: molar tooth

Changes for: mucosa of vagina

Changes for: axon tract

Changes for: aorta tunica intima

Changes for: juxtaglomerular apparatus

Changes for: mesenchyme derived from neural crest

Changes for: embryoid body

Changes for: muscle layer of ileum

Changes for: incisor tooth

Changes for: atrioventricular node

Changes for: inguinal canal

Changes for: Pacinian corpuscle

Changes for: nerve root

Changes for: nephron tubule epithelium

Changes for: ventral horn of spinal cord

Changes for: neuromere

Changes for: dermal skeletal element

Changes for: blood vessel layer

Changes for: mole

Changes for: alular digit

Changes for: crustacean post-larval stage

Changes for: ophthalmic artery

Changes for: respiratory velum

Changes for: feather barbicel

Changes for: bone element

Changes for: osteon

Changes for: hyperpallium apicale