Releases: obophenotype/cell-ontology
2021-11-25 Release
Quick release to fix some urgent changes
New Terms:
specified double negative thymocyte (Homo sapiens)
committed double negative thymocyte (Homo sapiens)
rearranging double negative thymocyte (Homo sapiens)
monocyte-derived dendritic cell
type 1 spiral ganglion neuron
type 2 spiral ganglion neuron
cochlea auditory hair cell
Edits:
Temporary fix on enterocyte of the appendix (will break if uberon import is refreshed)
Made auditory hair cell more general
Fixed def of Cajal-Retzius cell
Added some comments on thyocte cells
Added various synonyms
Merged myoepithelial cell of lactiferous gland
Added layer axioms and equivalent classes for a bunch of neuronal cells
2021-11-23 Release
New Terms:
vacuolated fetal-type enterocyte
CD8aa(I) thymocytes
CD8aa(II) thymocytes
corticomedullary thymic epithelial cell
medullary thymic epithelial cell type 1-4
myo-medullary thymic epithelial cell
neuro-medullary thymic epithelial cell
subcapsular thymic epithelial cell
thymic fibroblast type 1-2
tuft cell of small intestine
cnidocyte
lysosome-rich enterocyte
amygdala pyramidal neuron
cerebral cortex pyramidal neuron
vestibular afferent neuron
bouton vestibular afferent neuron
calyx vestibular afferent neuron
displaced amacrine cell
Edits:
minor grammatical and spelling fixes
added various synonyms
updated def for progenitor cell of endocrine pancreas
fixed def for pancreatic epsilon cell
added taxon for inhibitory motor neuron
changed betz cells to subclass of L5 ET
Made various neuron terms species agnostic by merging species specific terms
Others:
added location_grouping subset
2021-09-09 Release
New Terms
• lymph node mantle zone B cell
• smooth muscle cell of high endothelial venule of lymph node
• plasma cell of medullary sinus of lymph node
• marginal zone B cell of lymph node
• germinal center T cell
• lymph node paracortex T cell
• L5/6 near-projecting glutamatergic neuron of the primary motor cortex (Callithrix jacchus)
• L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Callithrix jacchus)
• L5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Callithrix jacchus)
• L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Callithrix jacchus)
• meis2 expressing cortical GABAergic cell (Callithrix jacchus)
• reticulospinal neuron
• oxytocin-secreting magnocellular cell
• vasopressin-secreting magnocellular cell
• L5/6 non-Martinotti morphology sst expressing GABAergic cortical internueron (Mus musculus)
Fixes
• Various spelling and grammar fix
• Added synonym spermatogonial cell
• Merged duplicate Mueller cell
• Merged duplicate magnocellular neurosecretory cell
• Changed Marginal zone B cell -> marginal zone B cell of spleen and fixed synonyms
• Relaxed pyramidal neuron equiv class to neuron (from CNS neuron (sensu vertebrata))
• Fixed synonym of L5/6 NP MOp (Mus)
2021-08-10 Release
New Terms:
L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Homo sapiens)
L5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Homo sapiens)
L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Homo sapiens)
L5/6 near-projecting glutamatergic neuron of the primary motor cortex (Homo sapiens)
Edits:
synonym L5/6 NP -> L5/6 NP (Mus)
fixed duplicated entries in cl-full.obo
various other fixes
2021-08-06 release
New Terms:
enteroendocrine cell of small intestine
colon macrophage
colon goblet cell
stromal cell of lamina propria of colon
tuft cell of colon
enteroendocrine cell of colon
intestinal crypt stem cell of colon
lymphocyte of small intestine lamina propria
B cell of medullary sinus of lymph node
T cell of medullary sinus of lymph node
macrophage of medullary sinus of lymph node
anorectum macrophage
B cell of anorectum
T cell of anorectum
smooth muscle cell of anorectum
stromal cell of anorectum lamina propria
microfold cell of epithelium proper of anorectum
paneth cell of anorectum
transit amplifying cell of anorectum
anorectum goblet cell
enterocyte of anorectum
intestinal crypt stem cell of anorectum
enteroendocrine cell of anorectum
tuft cell of anorectum
stratified squamous epithelial cell of anal canal
dynamic gamma motor neuron
static gamma motor neuron
arachnoid barrier cell
Name Changes:
neuron neural crest derived -> neural crest derived neuron
paneth cell of epithelium of large intestine -> paneth cell of colon
transit amplifying cell of large intestine -> transit amplifying cell of colon
mesothelial cell of large intestine -> mesothelial cell of colon
reticular layer of dermis fibroblast -> fibroblast of the reticular layer of dermis
Fixes:
various spelling errors fixed
Edited synonyms of L5 ET more accurately
2021-06-29 Release
Quick release to update CL for a BDS workshop
Edits:
- CL:000411 - changed from flatworm hypodermal cell -> Caenorhabditis hypodermal cell
- tears secreting cell no subset of CL:0000152 ! exocrine cell
- shorten names of various neuronal types
- Added BDS subset tags to additional cell types
2021-06-28 release
2021-06-21 Release
New Terms
• stromal cell of lamina propria of vermiform appendix
• appendix macrophage
• horizontal pyramidal neuron
• Martinotti morphology L2/3 Pvalb-like Sst GABAergic cortical interneuron (Mus musculus)
• medial ganglionic eminence derived GABAergic cortical interneuron
• caudal ganglionic eminence derived GABAergic cortical interneuron
• L5/6 CCK expressing cortical GABAergic interneuron (Mus musculus)
• Martinotti neuron
• bitufted neuron
• basket morphology L2/3 Pvalb-like Sst GABAergic cortical interneuron (Mus musculus)
• stellate L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• inverted L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• chandelier cell
• T Martinotti neuron
• fan Martinotti neuron
• large basket cell
• nest basket cell
• small basket cell
• inverted pyramidal neuron
• stellate pyramidal neuron
• tufted pyramidal neuron
• untufted pyramidal neuron
Edits
• Improved basket cell entry (adding def and axioms)
• Improved stellate neuron entry (adding def and axioms)
• Edited pyramidal neuron definition
• Edited stellate interneuron axioms
• Improved neurogliaform cell (edited def and axioms)
• Added synonyms for brush cell of large intestine
• Edited lymphoid tissue-inducer cell definition
• Added PATO axioms for various neural cells
• Improved A7 cell (edited def and axioms)
2021-04-22 Release
New Terms:
• upper motor neuron
• Betz cell
• fetal hepatobiliary progenitor cell
• tuft cell of appendix
• enterocyte of appendix
• transit amplifying cell of appendix
• intestinal crypt stem cell of appendix
• L6b glutamatergic cortical neuron
• L2/3-6 intratelencephalic projecting glutamatergic cortical neuron
• L5 extratelencephalic projecting glutamatergic cortical neuron
• L6 corticothalamic-projecting glutamatergic cortical neuron
• L5/6 near-projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• non-medulla-projecting extratelencephalic-projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• medulla-projecting extratelencephalic-projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• L6b subplate glutamatergic neuron of the primary motor cortex (Mus musculus)
• L2/3 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• L4/5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• L5 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• vascular leptomeningeal cell
• Betz upper motor neuron
• spinal interneuron synapsing Betz cell
• mesothelial fibroblast
• corticothalamic VAL/VM projecting glutamatergic neuron of the primary motor cortex (Mus musculus)
• vascular leptomeningeal cell (Mus musculus)
• mesothelial fibroblast of the leptomeninx
• meis2 expressing cortial GABAergic cell (Mus musculus)
• mesothelial cell of appendix
• enteroendocrine cell of appendix
• T cell of appendix
• B cell of appendix
• plasma cell of appendix
• dendritic cell of appendix
Imports:
• PATO_0070001
• PATO_0070007
• PATO_0070008
• PATO_0070009
• PATO_0070011
• PATO_0070017
• PATO_0070019
• PR_000002030
• PR_000003264
• PR_000009981
• PR_P11087
• PR_P26618
• PR_P51885
• PR_P97367
• UBERON_0000391
• UBERON_0001896
• UBERON_0002707
• UBERON_0013486
• UBERON_0022315
• RO_0002175
• RO_0002101
Edits:
BDS subset terms: changed location details in definition to "with a soma found in"
Added BDS subset tags where missing
2021-03-05 release Cell Ontology
v2021-03-05 Release 3 March