2014-11-01 release

Integration of Allen Atlases for adult and developing mouse, human and non-human primate brains
2014-11-01 release image

(Image taken from Wikipedia, Allen Brain Atlas.jpg )

This release sees the integration of the following ontologies (in addition to the existing adult mouse brain atlas, ABA):

  • DHBA - Developing Human Brain Atlas
  • DMBA - Developing Human Brain Atlas
  • HBA - (adult) Human Brain Atlas
  • PBA - (non-human) Primate Brain Atlas

For more details, see: Integration-with-neuroanatomical-atlases and the commits in issue issue 609

The new artefacts created are:

Note that at this time, the Allen ontologies are not merged into composite-metazoan or composite-vertebrate. A preview is available as:

composite-brain.obo

This composite ontology includes Uberon with highly specific classes from the Allen ontologies as root nodes or subtrees.

Ontology Diff Report

  • neuroanatomy -
    • see issue 609
    • Added xrefs for additional Allen ontologies: DHBA, HBA and DMBA
    • Note we retain prefix ABA (though MBA would be consistent with the above)
    • Also added xrefs for Nlx classes not in NIFSTD
    • This release comes with a new ontology, composite-brain.obo
  • Ext (Phenoscape)
    • added internal carotid foramen, added anal fin radial skeleton (series), fix typo in def of supraacetabular buttress [PHENOSCAPE:wd]
  • Other
    • NT: {upper,lower} eyelash. Fixes issue issue 606 HPO:sk
    • added spatial disjoints: glands are never parts of the skeletal system - Fixes issue issue 607 and prevents further issues of this sort. HPO:sk
    • tidied up confusion between orbital regions and ocular regions - see notes below
    • Fixed incorrect logical def. Fixes issue issue 602
    • fixed typo. closes issue issue 605
    • Fixed EMAPA stage/embryo xrefs. Fixes issue issue 601

orbital region changes

UBERON:0001697 has been relabeled from ‘orbital region’ to ‘orbit of skull’ to make its nature as part of the skeleton clear.

The overall partonomy is now

 ocular region (subdivision of face)
   orbit of skull (skeletal)
   eyebrow
   eye
     eyeball
     eyelid
     lacrimal gland

Original Ontology

  • IRI: http://purl.obolibrary.org/obo/uberon.owl
  • VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2014-10-26/uberon.owl

New Ontology

  • IRI: http://purl.obolibrary.org/obo/uberon.owl
  • VersionIRI: http://purl.obolibrary.org/obo/uberon/releases/2014-11-01/uberon.owl

Report for classes

Class objects lost from source: 0

Class objects new in target: 25

New Class : anal fin radial skeleton

New Class : internal carotid foramen

New Class : lateral longitudinal stria

New Class : mesomere 1

New Class : mesomere 2

New Class : uncinate fasciculus of the forebrain

New Class : inferior rostral gyrus

New Class : superior rostral gyrus

New Class : rostral gyrus

New Class : interpositus nucleus

New Class : gray matter of hindbrain

New Class : gray matter of forebrain

New Class : white matter of forebrain

New Class : white matter of myelencephalon

New Class : gray matter of midbrain

New Class : gray matter of diencephalon

New Class : white matter of hindbrain

New Class : lower eyelash

New Class : upper eyelash

New Class : 4-cell stage embryo

New Class : 4-8 cell stage embryo

New Class : upper secondary incisor tooth

New Class : 8-cell stage embryo

New Class : 2-cell stage embryo

New Class : early embryo

Changed Class objects: 828

Changes for: interfascicular linear nucleus

Changes for: rostral linear nucleus

Changes for: paranigral nucleus

Changes for: parabrachial pigmental nucleus

Changes for: supra-orbital ridge

Changes for: peripheral region of retina

Changes for: hump

Changes for: acinus of lacrimal gland

Changes for: anterior perforated substance

Changes for: medial forebrain bundle

Changes for: ventral thalamus

Changes for: thalamic reticular nucleus

Changes for: habenula

Changes for: pineal body

Changes for: subthalamic nucleus

Changes for: zona incerta

Changes for: optic tract

Changes for: habenular commissure

Changes for: tuberomammillary nucleus

Changes for: dorsomedial nucleus of hypothalamus

Changes for: ventromedial nucleus of hypothalamus

Changes for: arcuate nucleus of hypothalamus

Changes for: paraventricular nucleus of hypothalamus

Changes for: lateral preoptic nucleus

Changes for: lateral mammillary nucleus

Changes for: medial mammillary nucleus

Changes for: central medial nucleus

Changes for: paracentral nucleus

Changes for: ventral lateral nucleus

Changes for: lateral geniculate body

Changes for: paraventricular nucleus of thalamus

Changes for: reuniens nucleus

Changes for: parafascicular nucleus

Changes for: medial geniculate body

Changes for: preoptic area

Changes for: supraoptic nucleus

Changes for: presubiculum

Changes for: Ammon’s horn

Changes for: neocortex

Changes for: pretectal region

Changes for: midbrain tegmentum

Changes for: medial habenular nucleus

Changes for: lateral habenular nucleus

Changes for: red nucleus

Changes for: inferior colliculus

Changes for: superior colliculus

Changes for: supramammillary nucleus

Changes for: oval nucleus of stria terminalis

Changes for: substantia nigra pars reticulata

Changes for: substantia nigra pars compacta

Changes for: retrorubral area

Changes for: root of vagus nerve

Changes for: inferior frontal gyrus

Changes for: oral pontine reticular nucleus

Changes for: inferior central nucleus

Changes for: nucleus of pretectal area

Changes for: substantia nigra pars lateralis

Changes for: nucleus of optic tract

Changes for: mammillothalamic tract of hypothalamus

Changes for: paratenial nucleus

Changes for: dorsal column-medial lemniscus pathway

Changes for: lacrimal gland

Changes for: diencephalon

Changes for: telencephalon

Changes for: medulla oblongata

Changes for: metencephalon

Changes for: forebrain

Changes for: rhombomere

Changes for: midbrain

Changes for: dorsal plus ventral thalamus

Changes for: hypothalamus

Changes for: epithalamus

Changes for: dentate gyrus of hippocampal formation

Changes for: olfactory tubercle

Changes for: nucleus accumbens

Changes for: island of Calleja

Changes for: bed nucleus of stria terminalis

Changes for: lateral olfactory tract

Changes for: internal capsule of telencephalon

Changes for: frontal cortex

Changes for: parietal lobe

Changes for: temporal lobe

Changes for: putamen

Changes for: caudate nucleus

Changes for: globus pallidus

Changes for: amygdala

Changes for: medial septal nucleus

Changes for: septofimbrial nucleus

Changes for: nucleus of diagonal band

Changes for: cerebral hemisphere

Changes for: white matter of telencephalon

Changes for: cranial nerve

Changes for: gray matter of telencephalon

Changes for: vagus nerve

Changes for: Reissner’s fiber

Changes for: nucleus ambiguus

Changes for: mesencephalic nucleus of trigeminal nerve

Changes for: oculomotor nuclear complex

Changes for: spinal nucleus of trigeminal nerve

Changes for: medial vestibular nucleus

Changes for: sensory root of facial nerve

Changes for: orbit of skull

Changes for: supraoptic crest

Changes for: nerve connecting eye with brain

Changes for: anteroventral nucleus of thalamus

Changes for: angular gyrus

Changes for: area X of ventral lateral nucleus

Changes for: supramarginal gyrus

  • Added
    • + supramarginal gyrus database cross reference DHBA:SMG
    • + supramarginal gyrus database cross reference HBA:SMG
    • + supramarginal gyrus definition Component of the parietal lobe. The first coronal slice between the superior temporal gyrus and the postcentral gyrus where the supramarginal gyrus appears was the rostral boundary whereas the slice where the supramarginal gyrus becomes continuous with the superior parietal gyrus was the caudal boundary. The medial and lateral boundaries were the lateral banks of the intraparietal sulcus and the medial banks of the lateral fissure and/or the superior temporal gyrus respectively (Christine Fennema-Notestine). { database cross reference=NIF_GrossAnatomy:birnlex_1381 }

Changes for: anteromedial nucleus of thalamus

Changes for: abducens nucleus

Changes for: rhinal sulcus

Changes for: nucleus raphe obscurus

Changes for: anterodorsal nucleus of thalamus

Changes for: anterior subcentral sulcus

Changes for: vestibular nuclear complex

Changes for: pallidotegmental fasciculus

Changes for: postnatal subventricular zone

Changes for: anteroventral periventricular nucleus

Changes for: ventral tegmental area

Changes for: anterior hypothalamic commissure

Changes for: parieto-occipital sulcus

Changes for: medullary raphe nuclear complex

Changes for: occipitotemporal sulcus

Changes for: preoccipital notch

Changes for: cuneiform nucleus

Changes for: densocellular part of medial dorsal nucleus

Changes for: magnocellular part of medial dorsal nucleus

Changes for: oral pulvinar nucleus

Changes for: decussation of medial lemniscus

Changes for: cuneocerebellar tract

Changes for: medial pulvinar nucleus

Changes for: midbrain reticular formation

Changes for: lateral pulvinar nucleus

Changes for: ventral anterior nucleus

Changes for: anterior nucleus of hypothalamus

Changes for: motor nucleus of trigeminal nerve

Changes for: medial part of medial mammillary nucleus

Changes for: body of caudate nucleus

Changes for: lateral septal nucleus

Changes for: oculomotor nerve fibers

Changes for: superior frontal gyrus

Changes for: lateral part of medial mammillary nucleus

Changes for: septal nuclear complex

Changes for: mesencephalic tract of trigeminal nerve

Changes for: supracallosal gyrus

Changes for: upper lateral primary incisor tooth

Changes for: upper central primary incisor tooth

Changes for: superior medullary velum

Changes for: periamygdaloid area

Changes for: posterior parahippocampal gyrus

Changes for: anterior horn of lateral ventricle

Changes for: paralaminar part of medial dorsal nucleus

Changes for: body of lateral ventricle

Changes for: parvicellular part of medial dorsal nucleus

Changes for: posterior median eminence

Changes for: olfactory nerve

Changes for: extrastriate cortex

Changes for: vestibular nerve

Changes for: collection of basal ganglia

Changes for: basal nucleus of telencephalon

Changes for: spinal nerve root

Changes for: core of nucleus accumbens

Changes for: anterior tegmental nucleus

Changes for: shell of nucleus accumbens

Changes for: central tegmental tract

Changes for: ansa lenticularis

Changes for: glossopharyngeal nerve

Changes for: vestibulocochlear nerve

Changes for: trigeminal nerve

Changes for: trochlear nerve

Changes for: facial nerve

Changes for: abducens nerve

Changes for: oculomotor nerve

Changes for: hypoglossal nerve

Changes for: cingulate sulcus

Changes for: premammillary nucleus

Changes for: nucleus of posterior commissure

Changes for: rubrospinal tract

Changes for: circular sulcus of insula

Changes for: collateral sulcus

Changes for: spinal trigeminal tract of medulla

Changes for: solitary tract

Changes for: rostral interstitial nucleus of medial longitudinal fasciculus

Changes for: spino-olivary tract

Changes for: mammillary peduncle

Changes for: lateral sulcus

Changes for: limen of insula

Changes for: trochlear nucleus

Changes for: claustral amygdaloid area

Changes for: entorhinal cortex

Changes for: medial medullary lamina of globus pallidus

Changes for: vestibulocochlear nerve root

Changes for: longitudinal pontine fibers

Changes for: medial dorsal nucleus of thalamus

Changes for: superior temporal sulcus

Changes for: transverse pontine fibers

Changes for: basal forebrain

Changes for: diagonal band of Broca

Changes for: regional part of cerebellar cortex

Changes for: neodentate part of dentate nucleus

Changes for: lacrimal gland epithelium

Changes for: posterior periventricular nucleus

Changes for: posterior nuclear complex of thalamus

Changes for: posterior nucleus of hypothalamus

Changes for: corticospinal tract

Changes for: middle frontal gyrus

Changes for: precentral gyrus

Changes for: subcuneiform nucleus

Changes for: anterior median oculomotor nucleus

Changes for: calcarine sulcus

Changes for: nucleus subceruleus

Changes for: decussation of superior cerebellar peduncle

Changes for: lateral corticospinal tract

Changes for: brachium of superior colliculus

Changes for: postcentral gyrus

Changes for: pontine reticular formation

Changes for: external nucleus of inferior colliculus

Changes for: principal pretectal nucleus

Changes for: pericentral nucleus of inferior colliculus

Changes for: sublentiform nucleus

Changes for: posterior orbital gyrus

Changes for: temporal pole

Changes for: medial orbital gyrus

Changes for: transverse temporal sulcus

Changes for: amiculum of dentate nucleus

Changes for: lateral orbital gyrus

Changes for: olivary pretectal nucleus

Changes for: superior precentral sulcus

Changes for: basal part of pons

Changes for: temporal operculum

Changes for: superior frontal sulcus

Changes for: central nucleus of inferior colliculus

Changes for: medullary reticular formation

Changes for: linear nucleus

Changes for: corticotectal tract

Changes for: interstitial nucleus of Cajal

Changes for: vestibulocerebellar tract

Changes for: anterior hypothalamic region

Changes for: ventral trigeminal tract

Changes for: upper lateral secondary incisor tooth

Changes for: upper central secondary incisor tooth

Changes for: precentral fissure of cerebellum

Changes for: primary fissure of cerebellum

Changes for: pretectal nucleus

Changes for: ansoparamedian fissure of cerebellum

Changes for: aggregate regional part of brain

Changes for: prepyriform area

Changes for: juxtarestiform body

Changes for: oral part of spinal trigeminal nucleus

Changes for: paracentral sulcus

Changes for: principal sensory nucleus of trigeminal nerve

Changes for: dentatothalamic tract

Changes for: orbital operculum

Changes for: ventral posterior nucleus of thalamus

Changes for: orbital sulcus

Changes for: lateral medullary reticular complex

Changes for: intermediate reticular formation

Changes for: intermediate reticular nucleus

Changes for: eye skin gland

Changes for: cochlear nuclear complex

Changes for: pars postrema of ventral lateral nucleus

Changes for: regional part of cerebral cortex

Changes for: trochlear nerve fibers

Changes for: globose nucleus

Changes for: transverse orbital sulcus

Changes for: ventral tegmental decussation

Changes for: medial part of ventral lateral nucleus

Changes for: preoptic periventricular nucleus

Changes for: tuber cinereum

Changes for: triangular part of inferior frontal gyrus

Changes for: tail of caudate nucleus

Changes for: head of caudate nucleus

Changes for: median preoptic nucleus

Changes for: orbital part of inferior frontal gyrus

Changes for: neuromere

Changes for: limbic lobe

Changes for: ventral nucleus of lateral lemniscus

Changes for: paraterminal gyrus

Changes for: emboliform nucleus

Changes for: fasciolar gyrus

Changes for: caudal part of ventral lateral nucleus

Changes for: superior rostral sulcus

Changes for: precentral operculum

Changes for: septum pellucidum

Changes for: cerebellar vermis

Changes for: piriform cortex

Changes for: dorsal thalamus

Changes for: intercalated amygdaloid nuclei

Changes for: central amygdaloid nucleus

Changes for: lateral amygdaloid nucleus

Changes for: accessory basal amygdaloid nucleus

Changes for: pontobulbar nucleus

Changes for: white matter of midbrain

Changes for: supraspinal nucleus

Changes for: sublingual nucleus

Changes for: basal amygdaloid nucleus

Changes for: medial part of basal amygdaloid nucleus

Changes for: medial pericuneate nucleus

Changes for: lateral pericuneate nucleus

Changes for: interpolar part of spinal trigeminal nucleus

Changes for: inferior salivatory nucleus

Changes for: hypoglossal nucleus

Changes for: dorsal motor nucleus of vagus nerve

Changes for: peritrigeminal nucleus

Changes for: nucleus intercalatus

Changes for: parasolitary nucleus

Changes for: nucleus of lateral olfactory tract

Changes for: cortical amygdaloid nucleus

Changes for: anterior amygdaloid area

Changes for: olfactory cortex

Changes for: hippocampal sulcus

Changes for: frontal lobe

Changes for: dorsolateral prefrontal cortex

Changes for: brain white matter

Changes for: cavum septum pellucidum

Changes for: upper rhombic lip

Changes for: lower rhombic lip

Changes for: lunate sulcus

Changes for: occipital pole

Changes for: intralingual sulcus

Changes for: lateral occipital sulcus

Changes for: posterior calcarine sulcus

Changes for: transverse occipital sulcus

Changes for: superior postcentral sulcus

Changes for: anterior occipital sulcus

Changes for: subparietal sulcus

Changes for: medial parabrachial nucleus

Changes for: anterior parolfactory sulcus

Changes for: parietal operculum

Changes for: marginal sulcus

Changes for: intraparietal sulcus

Changes for: postcentral sulcus

Changes for: central sulcus

Changes for: posterior parolfactory sulcus

Changes for: callosal sulcus

Changes for: longitudinal fissure

Changes for: ventral posteroinferior nucleus

Changes for: magnocellular part of ventral anterior nucleus

Changes for: magnocellular part of red nucleus

Changes for: parvicellular part of ventral anterior nucleus

Changes for: parvocellular part of red nucleus

Changes for: trapezoid body

Changes for: nucleus of anterior commissure

Changes for: ventral oculomotor nucleus

Changes for: tectopontine tract

Changes for: superior occipital gyrus

Changes for: tectospinal tract

Changes for: frontal operculum

Changes for: ventral posteromedial nucleus of thalamus

Changes for: ventral posterolateral nucleus

Changes for: lingual gyrus

Changes for: dorsal hypothalamic area

Changes for: lateral lemniscus

Changes for: rhomboidal nucleus

Changes for: caudal central oculomotor nucleus

Changes for: intermediate acoustic stria

Changes for: cingulate gyrus

Changes for: rostral intralaminar nuclear group

Changes for: dorsal oculomotor nucleus

Changes for: inferior temporal sulcus

Changes for: central gray substance of pons

Changes for: caudal pontine reticular nucleus

Changes for: central oculomotor nucleus

Changes for: archicortex

Changes for: preolivary nucleus

Changes for: medial oculomotor nucleus

Changes for: oral part of ventral lateral nucleus

Changes for: triangular septal nucleus

Changes for: periolivary nucleus

Changes for: centromedian nucleus

Changes for: parahippocampal gyrus

Changes for: intermediate oculomotor nucleus

Changes for: anterior spinocerebellar tract

Changes for: lateral dorsal nucleus

Changes for: ventral nucleus of medial geniculate body

Changes for: inferior pulvinar nucleus

Changes for: lateral posterior nucleus of thalamus

Changes for: opercular part of inferior frontal gyrus

Changes for: pulvinar nucleus

Changes for: caudal part of ventral posterolateral nucleus of thalamus

Changes for: medial superior olivary nucleus

Changes for: abducens nerve fibers

Changes for: anterior nuclear group

Changes for: olfactory sulcus

Changes for: middle temporal gyrus

Changes for: posterior hypothalamic region

Changes for: olivocochlear bundle

Changes for: lateral superior olivary nucleus

Changes for: ventral pallidum

Changes for: accessory medullary lamina of globus pallidus

Changes for: internal medullary lamina of thalamus

Changes for: lateral medullary lamina of globus pallidus

Changes for: inferior frontal sulcus

Changes for: ventral corticospinal tract

Changes for: fusiform gyrus

Changes for: inferior rostral sulcus

Changes for: superior temporal gyrus

Changes for: posterior spinocerebellar tract

Changes for: olivocerebellar tract

Changes for: inferior temporal gyrus

Changes for: magnocellular nucleus of medial geniculate body

Changes for: dorsal nucleus of medial geniculate body

Changes for: pyramidal decussation

Changes for: paragigantocellular nucleus

Changes for: parvocellular reticular nucleus

Changes for: lateral periolivary nucleus

Changes for: dorsal trigeminal tract

Changes for: frontal pole

Changes for: motor root of trigeminal nerve

Changes for: medial longitudinal fasciculus of pons

Changes for: subparafascicular nucleus

Changes for: dorsal acoustic stria

Changes for: fronto-orbital sulcus

Changes for: piriform cortex layer 2

Changes for: nucleus of solitary tract

Changes for: endopiriform nucleus

Changes for: sensory root of trigeminal nerve

Changes for: retrotrapezoid nucleus

Changes for: lamina terminalis of cerebral hemisphere

Changes for: medial gland of ocular region

Changes for: lateral gland of orbital region

Changes for: Harderian gland duct

Changes for: gland of ocular region

Changes for: posterior superior fissure of cerebellum

Changes for: horizontal fissure of cerebellum

Changes for: prepyramidal fissure of cerebellum

Changes for: secondary fissure of cerebellum

Changes for: posterolateral fissure of cerebellum

Changes for: ventral cochlear nucleus

Changes for: dorsal cochlear nucleus

Changes for: stratum zonale of thalamus

Changes for: diffuse reticular nucleus

Changes for: central gray substance of medulla

Changes for: caudal part of spinal trigeminal nucleus

Changes for: arcuate nucleus of medulla

Changes for: accessory cuneate nucleus

Changes for: medial nucleus of trapezoid body

Changes for: ventral nucleus of trapezoid body

Changes for: anteroventral cochlear nucleus

Changes for: posteroventral cochlear nucleus

Changes for: lower jaw incisor

Changes for: upper jaw incisor

Changes for: reticular formation

Changes for: perifornical nucleus

Changes for: midbrain cerebral aqueduct

Changes for: choroid plexus of third ventricle

Changes for: third ventricle

Changes for: telencephalic ventricle

Changes for: central canal of spinal cord

Changes for: choroid plexus of fourth ventricle

Changes for: gland of nictitating membrane

Changes for: eyelid gland

Changes for: cerebellar hemisphere

Changes for: spinal cord

Changes for: corpora quadrigemina

Changes for: olfactory tract

Changes for: anterior olfactory nucleus

Changes for: olfactory bulb

Changes for: laterodorsal tegmental nucleus

Changes for: lateral pallium

Changes for: mammillary body

Changes for: allocortex

Changes for: paleocortex

Changes for: periallocortex

Changes for: subfornical organ

Changes for: spinal trigeminal tract

Changes for: prosomere

Changes for: midbrain neuromere

Changes for: lateral cervical nucleus

Changes for: substantia gelatinosa

Changes for: ventral funiculus of spinal cord

Changes for: principal inferior olivary nucleus

Changes for: nucleus raphe pallidus

Changes for: medial accessory inferior olivary nucleus

Changes for: fastigial nucleus

Changes for: nucleus raphe magnus

Changes for: superior cerebellar peduncle

Changes for: middle cerebellar peduncle

Changes for: pontine nuclear group

Changes for: barrel cortex

Changes for: tectobulbar tract

Changes for: inferior cerebellar peduncle

Changes for: area postrema

Changes for: gracile nucleus

Changes for: nucleus prepositus

Changes for: cerebellar nuclear complex

Changes for: dentate nucleus

Changes for: hilus of dentate gyrus

  • Added

Changes for: subcommissural organ

Changes for: parabigeminal nucleus

Changes for: parvocellular oculomotor nucleus

Changes for: peripeduncular nucleus

Changes for: interpeduncular nucleus

Changes for: pedunculopontine tegmental nucleus

Changes for: dorsal tegmental nucleus

Changes for: pedal digit 2, 3 or 4

Changes for: locus ceruleus

Changes for: superior salivatory nucleus

Changes for: reticulotegmental nucleus

Changes for: axon tract

Changes for: manual digit 2, 3 or 4

Changes for: solitary tract nuclear complex

Changes for: inferior olivary complex

Changes for: cerebellar cortex

Changes for: superior olivary complex

Changes for: neural tube

Changes for: nerve

Changes for: choroidal gland

Changes for: cortical marginal zone

Changes for: flocculus

Changes for: genu of facial nerve

Changes for: ventral pallium

Changes for: cerebral cortex subventricular zone

Changes for: subiculum

Changes for: ventricular system choroidal fissure

Changes for: adenohypophysis

Changes for: median eminence of neurohypophysis

Changes for: neurohypophysis

Changes for: lateral globus pallidus

Changes for: medial globus pallidus

Changes for: dorsal lateral geniculate nucleus

Changes for: ventral lateral geniculate nucleus

Changes for: anterior nucleus of hypothalamus posterior part

Changes for: paraventricular nucleus of the hypothalamus descending division - lateral parvicellular part

Changes for: paraventricular nucleus of the hypothalamus descending division - dorsal parvicellular part

Changes for: paraventricular nucleus of the hypothalamus descending division - medial parvicellular part, ventral zone

Changes for: paraventricular nucleus of the hypothalamus magnocellular division - anterior magnocellular part

Changes for: paraventricular nucleus of the hypothalamus descending division - forniceal part

Changes for: pyramidal layer of CA1

Changes for: frontomarginal sulcus

Changes for: precommissural fornix of forebrain

Changes for: external medullary lamina of thalamus

Changes for: CA3 stratum lucidum

Changes for: hippocampal formation

Changes for: fourth ventricle

Changes for: CA3 stratum lacunosum moleculare

Changes for: CA2 stratum lacunosum moleculare

Changes for: CA2 stratum oriens

Changes for: CA1 stratum oriens

Changes for: CA3 stratum oriens

Changes for: CA1 stratum radiatum

Changes for: CA2 stratum radiatum

Changes for: CA3 stratum radiatum

Changes for: CA1 stratum lacunosum moleculare

Changes for: striatum

Changes for: pituitary stalk

Changes for: ventral tegmental nucleus

Changes for: primary visual cortex

Changes for: posterior limb of internal capsule

Changes for: extreme capsule

Changes for: anterior limb of internal capsule

Changes for: lenticular fasciculus

Changes for: electromotor division of oculomotor nuclear complex

Changes for: oculomotor division of oculomotor nuclear complex

Changes for: paraventricular nucleus of the hypothalamus magnocellular division - medial magnocellular part

Changes for: paraventricular nucleus of the hypothalamus magnocellular division - posterior magnocellular part

Changes for: infundibular stem

Changes for: inferior occipital gyrus

Changes for: paraventricular nucleus of the hypothalamus magnocellular division

Changes for: paraventricular nucleus of the hypothalamus descending division

Changes for: paraventricular nucleus of the hypothalamus parvicellular division

Changes for: cingulum of brain

Changes for: interventricular foramen of CNS

Changes for: cerebellum fissure

Changes for: midbrain basal plate

Changes for: motor root of facial nerve

Changes for: cerebellum anterior vermis

Changes for: Brodmann (1909) area 10

Changes for: retrosplenial region

Changes for: postoptic commissure

Changes for: diencephalic white matter

Changes for: dorsal accessory nucleus of optic tract

Changes for: hindbrain commissure

Changes for: supraacetabular buttress

  • Deleted
    • - supraacetabular buttress definition A boney protuberance dorsal to the acetabulum on the ilium, confluent with the supraacetabular crest (when present). Acts as a bone brace to prevent excessive femoral abduction and the origin site for part of the M. iliofemoralis.
  • Added
    • + supraacetabular buttress definition A bony protuberance dorsal to the acetabulum on the ilium, confluent with the supraacetabular crest (when present). Acts as a bone brace to prevent excessive femoral abduction and the origin site for part of the M. iliofemoralis.

Changes for: Brodmann (1909) area 32

Changes for: middle temporal sulcus

Changes for: choroid plexus of lateral ventricle

Changes for: medial longitudinal fasciculus

Changes for: corpus callosum

Changes for: hemisphere part of cerebellar posterior lobe

Changes for: white matter of medulla oblongata

Changes for: nucleus K of ventral tegmentum

Changes for: hemisphere part of cerebellar anterior lobe

Changes for: cerebrocerebellum

Changes for: midbrain tectum

Changes for: hippocampus fimbria

Changes for: white matter of cerebellum

Changes for: white matter of spinal cord

Changes for: gray matter of spinal cord

Changes for: white matter

Changes for: middle frontal sulcus

Changes for: accessory nerve root

Changes for: sulcus limitans of fourth ventricle

Changes for: CA4 field of hippocampus

Changes for: CA3 field of hippocampus

Changes for: CA2 field of hippocampus

Changes for: CA1 field of hippocampus

Changes for: parvocellular layer of dorsal nucleus of lateral geniculate body

Changes for: magnocellular layer of dorsal nucleus of lateral geniculate body

Changes for: lateral accessory nucleus of optic tract

Changes for: rhinosphenoid

Changes for: rhombic lip

Changes for: pyramid of medulla oblongata

Changes for: early prosencephalic vesicle

Changes for: medial entorhinal cortex

Changes for: lateral entorhinal cortex

Changes for: superior vestibular nucleus

Changes for: lateral vestibular nucleus

Changes for: 4 cell stage

Changes for: obsolete 4-8 cell stage

Changes for: 2 cell stage

Changes for: 8 cell stage

Changes for: ventrolateral sulcus of medulla oblongata

Changes for: cerebellum posterior vermis

Changes for: cerebellum intermediate zone

Changes for: cerebellar plate

Changes for: cerebellum hemisphere lobule

Changes for: dorsal accessory inferior olivary nucleus

Changes for: superior olivary nucleus

Changes for: Brodmann (1909) area 36

Changes for: corticomedial nuclear complex

Changes for: basolateral amygdaloid nuclear complex

Changes for: superior colliculus superficial gray layer

Changes for: accessory nerve fiber bundle

Changes for: subbrachial nucleus

Changes for: posterior column of fornix

Changes for: subplate

Changes for: infraorbital

Changes for: caudal ganglionic eminence

Changes for: lateral ganglionic eminence

Changes for: medial ganglionic eminence

Changes for: ganglionic eminence

Changes for: cerebellum vermis lobule X

Changes for: ocular region

Changes for: brain ventricle

Changes for: accessory olfactory bulb

Changes for: Brodmann (1909) area 18

Changes for: olfactory bulb mitral cell layer

Changes for: Harderian gland

Changes for: trigeminothalamic tract

Changes for: orbitofrontal cortex

Changes for: superior reticular formation

Changes for: posterior lateral line

Changes for: dorsal raphe nucleus

Changes for: ventral nucleus of posterior commissure

Changes for: cuneate nucleus

Changes for: pontine raphe nucleus

Changes for: suprachiasmatic nucleus

Changes for: medial preoptic nucleus

Changes for: substantia nigra

Changes for: cerebellum

Changes for: hindbrain

Changes for: insula

Changes for: occipital lobe

Changes for: claustrum of brain

Changes for: gray matter

Changes for: accessory XI nerve

Changes for: rostral migratory stream

Changes for: neural lobe of neurohypophysis

Changes for: taenia tectum of brain

Changes for: dorsal premammillary nucleus

Changes for: medial preoptic region

Changes for: paramedian reticular nucleus

Changes for: pallium

Changes for: ventral part of telencephalon

Changes for: induseum griseum

Changes for: lateral nucleus of trapezoid body

Changes for: subparabrachial nucleus

Changes for: retroambiguus nucleus

Changes for: zygote stage

Changes for: paratrigeminal nucleus

Changes for: facial nucleus

Changes for: cranial nerve nucleus

Changes for: neuron projection bundle

Changes for: spinothalamic tract

Changes for: tract of brain

Changes for: lateral paragigantocellular nucleus

Changes for: dorsal paragigantocellular nucleus

Changes for: paramedian medullary reticular complex

Changes for: dorsal paramedian reticular nucleus

Changes for: intermediate nucleus of lateral lemniscus

Changes for: rostrum of corpus callosum

Changes for: splenium of the corpus callosum

Changes for: roof plate of midbrain

Changes for: floor plate of midbrain

Changes for: lateral recess of fourth ventricle

Changes for: trigeminal nuclear complex

Changes for: subparaventricular zone

Changes for: septohippocampal nucleus

Changes for: Barrington’s nucleus

Changes for: parabrachial nucleus

Changes for: nucleus of trapezoid body

Changes for: hippocampus alveus

Changes for: oral part of ventral posterolateral nucleus

Changes for: flocculonodular lobe

Changes for: facial motor nucleus

Changes for: parvicellular part of ventral posteromedial nucleus

Changes for: substantia innominata

Changes for: dorsal tegmental decussation

Changes for: medial lemniscus

Changes for: lateral parabrachial nucleus

Changes for: dorsal nucleus of lateral lemniscus

Changes for: median raphe nucleus

Changes for: posterior nucleus of thalamus

Changes for: submedial nucleus of thalamus

Changes for: central dorsal nucleus

Changes for: suprageniculate nucleus of thalamus

Changes for: central lateral nucleus

Changes for: stria terminalis

Changes for: commissure of inferior colliculus

Changes for: cingulate cortex

Changes for: limitans nucleus

Changes for: brachium of inferior colliculus

Changes for: principal part of ventral posteromedial nucleus

Changes for: pontine tegmentum

Changes for: external capsule

Changes for: genu of corpus callosum

Changes for: inferior horn of the lateral ventricle

Changes for: cuneus cortex

Changes for: precuneus cortex

Changes for: inferior parietal cortex

Changes for: internal arcuate fiber bundle

Changes for: dorsal external arcuate fiber bundle

Changes for: perirhinal cortex

Changes for: stria medullaris

Changes for: superior parietal cortex

Changes for: body of corpus callosum

Changes for: uncinate fasciculus

Changes for: dorsal longitudinal fasciculus

Changes for: ventral acoustic stria

Changes for: central gray substance of midbrain

Changes for: ventricular zone

Changes for: pre-Botzinger complex

Changes for: midbrain-hindbrain boundary

Changes for: neural plate

Changes for: midbrain raphe nuclei

Changes for: parasubiculum

Changes for: middle temporal area

  • Added
    • + middle temporal area comment “The term “middle temporal visual area” was first used by Allman and Kaas (1971) for a region of the owl monkey brain located on the “caudal third of the middle temporal gyrus.” Functionally, it contains “a complete representation of the contralateral half of the visual field… This representation of the visual field (MT) corresponds to a histologically distinct area adjacent and rostral to area 19… The horizontal meridian divides MT into a lateral portion representing the upper visual quadrant and a medial portion representing the lower quadrant. The center of gaze is represented in the caudal portion of MT bordering area 19.”” [NIF_GrossAnatomy:nlx_anat_20090308]

Changes for: body of fornix

Changes for: corona radiata of neuraxis

Changes for: dentate gyrus molecular layer

Changes for: spinal cord gray commissure

Changes for: facial nerve root

Changes for: hypoglossal nerve root

Changes for: posterior horn lateral ventricle

Changes for: trigeminal nerve root

Changes for: gyrus rectus

Changes for: camera-type eye

  • Deleted
    • - camera-type eye definition The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field[GO]. The eye contains the following parts (when they are present in the organism): the eyeball (eye proper), the lacrimal apparatus, the conjuctival, the eyelid. { database cross reference=https://orcid.org/0000-0002-6601-2165 , database cross reference=GO:0043010 }
    • - camera-type eye external ontology notes FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ). MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class ‘orbital content’ for this { external ontology=FMA }
    • - camera-type eye has exact synonym orbital part of face { database cross reference=FMA:54448 }
  • Added
    • + camera-type eye definition An organ of sight that includes the camera-type eyeball and supporting structures such as the lacrimal apparatus, the conjunctiva, the eyelid. { database cross reference=https://orcid.org/0000-0002-6601-2165 , database cross reference=GO:0043010 }
    • + camera-type eye external ontology notes FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ), as well as other structures, and the orbit of skull. MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class ‘orbital content’ for this { external ontology=FMA }
    • + camera-type eye has related synonym orbital part of face { database cross reference=FMA:54448 }

Changes for: pituitary gland

Changes for: primary somatosensory cortex

Changes for: antorbital

Changes for: fornix of brain

Changes for: olfactory bulb outer nerve layer

Changes for: gracile fasciculus

Changes for: cuneate fasciculus

Changes for: pars distalis of adenohypophysis

Changes for: tapetum of corpus callosum

Changes for: lateral tuberal nucleus

Changes for: anterior paraventricular nucleus of thalamus

Changes for: endopeduncular nucleus

Changes for: prefrontal cortex

Changes for: cerebral subcortex

Changes for: rhombomere 6 roof plate

Changes for: rhombomere 5 roof plate

Changes for: rhombomere 6 floor plate

Changes for: rhombomere 7 roof plate

Changes for: rhombomere 8 floor plate

Changes for: rhombomere 7 floor plate

Changes for: rhombomere 8 roof plate

Changes for: mammillotegmental axonal tract

Changes for: mammillothalamic axonal tract

Changes for: orbital fat pad

Changes for: supraorbital bone

Changes for: rhombomere 5 floor plate

Changes for: rhombomere 4 roof plate

Changes for: rhombomere 4 floor plate

Changes for: rhombomere 3 roof plate

Changes for: rhombomere 3 floor plate

Changes for: rhombomere 2 roof plate

Changes for: rhombomere 2 floor plate

Changes for: rhombomere 1 roof plate

Changes for: rhombomere 2

Changes for: rhombomere 1 floor plate

Changes for: rhombomere 8

Changes for: rhombomere 7

Changes for: rhombomere 6

Changes for: rhombomere 4

Changes for: rhombomere 5

Changes for: rhombomere 3

Changes for: rhombomere 1

Changes for: spinocerebellar tract

Changes for: ventral striatum

Changes for: olfactory bulb glomerular layer

Changes for: dorsal telencephalic commissure

Changes for: paramedian lobule

Changes for: cortical plate

Changes for: lobule simplex

Changes for: paraflocculus

Changes for: photoreceptor array

Changes for: dorsal striatum

Changes for: dentate gyrus granule cell layer

Changes for: cortical layer VI

Changes for: cortical layer V

Changes for: cortical layer II

Changes for: cortical layer I

Changes for: cortical layer IV

Changes for: cortical layer III

Changes for: cerebellar commissure

Changes for: nucleus of lateral lemniscus

Changes for: myelencephalon

Changes for: deep layer of superior colliculus

Changes for: superficial layer of superior colliculus

Changes for: intermediate layer of superior colliculus

Changes for: deep white layer of superior colliculus

Changes for: cranial nerve II

Changes for: anterior commissure

Changes for: posterior commissure

Changes for: deep gray layer of superior colliculus

Changes for: middle gray layer of superior colliculus

Changes for: middle white layer of superior colliculus

Changes for: zonal layer of superior colliculus

Changes for: superficial white layer of superior colliculus

Changes for: brain

Changes for: cerebral cortex

Changes for: optic chiasma

Changes for: hippocampal commissure

Changes for: paleodentate of dentate nucleus

Changes for: pons

Report for properties

ObjectProperty objects lost from source: 0

ObjectProperty objects new in target: 0

Changed ObjectProperty objects: 0

November 1, 2014 |

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