Axiomatize GO brain processes.

[gocentral]

I think these should use occurs_in. See: https://github.com/geneontology/termgenie/issues/71

[Term]
id: GO:0021864
name: radial glial cell division in forebrain
namespace: biological_process
def: "The mitotic division of radial glial cells in the developing forebrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0051301 ! cell division
relationship: occurs_in CL:0000681 ! radial glial cell
relationship: part_of GO:0021846 ! cell proliferation in forebrain

[Term]
id: GO:0021865
name: symmetric radial glial cell division in forebrain
namespace: biological_process
def: "The mitotic division of a radial glial cell giving rise to two new radial glial cells in the forebrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0021864 ! radial glial cell division in forebrain

[Term]
id: GO:0021866
name: asymmetric radial glial cell division in forebrain
namespace: biological_process
def: "The mitotic cell division of a radial glial cell giving rise to a radial glial cell and another cell type." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0021864 ! radial glial cell division in forebrain

[Term]
id: GO:0021867
name: neuron-producing asymmetric radial glial cell division in forebrain
namespace: biological_process
def: "The unequal mitotic division of a radial glial cell in the forebrain that gives rise to a radial glial cell and a post-mitotic neuronal progenitor." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0021866 ! asymmetric radial glial cell division in forebrain

[Term]
id: GO:0021868
name: ventricular zone cell-producing asymmetric radial glial cell division in forebrain
namespace: biological_process
def: "The unequal mitotic division of a forebrain radial glial cell that gives rise to a radial glial cell and a ventricular zone cell." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0021866 ! asymmetric radial glial cell division in forebrain

[Term]
id: GO:0021869
name: forebrain ventricular zone progenitor cell division
namespace: biological_process
def: "The mitotic division of a basal progenitor giving rise to two neurons." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0051301 ! cell division
relationship: part_of GO:0021846 ! cell proliferation in forebrain

[Term]
id: GO:0021870
name: Cajal-Retzius cell differentiation
namespace: biological_process
def: "The process in which a neuroblast acquires specialized structural and/or functional features of a Cajal-Retzius cell, one of a transient population of pioneering neurons in the cerebral cortex. These cells are slender bipolar cells of the developing marginal zone. One feature of these cells in mammals is that they express the Reelin gene." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06]
comment: This term was added by GO_REF:0000021.
is_a: GO:0021895 ! cerebral cortex neuron differentiation
intersection_of: GO:0030154 ! cell differentiation
intersection_of: results_in_acquisition_of_features_of CL:0000695 ! Cajal-Retzius cell

[Term]
id: GO:0021871
name: forebrain regionalization
namespace: biological_process
def: "The regionalization process resulting in the creation of areas within the forebrain that will direct the behavior of cell migration in differentiation as the forebrain develops." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:isa_complete, GOC:jid, GOC:mtg_15jun06, PMID:16226447]
comment: This term was added by GO_REF:0000021.
is_a: GO:0003002 ! regionalization
relationship: part_of GO:0030900 ! forebrain development

[Term]
id: GO:0021872
name: forebrain generation of neurons
namespace: biological_process
def: "The process in which nerve cells are generated in the forebrain. This includes the production of neuroblasts from and their differentiation into neurons." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06]
comment: This term was added by GO_REF:0000021.
synonym: "generation of neurons in forebrain" EXACT [GOC:curators]
is_a: GO:0048699 ! generation of neurons
relationship: part_of GO:0030900 ! forebrain development

[Term]
id: GO:0021873
name: forebrain neuroblast division
namespace: biological_process
def: "The division of a neuroblast located in the forebrain. Neuroblast division gives rise to at least another neuroblast." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06]
comment: This term was added by GO_REF:0000021.
is_a: GO:0055057 ! neuroblast division
relationship: part_of GO:0021872 ! forebrain generation of neurons

Reported by: cmungall

Original Ticket: geneontology/ontology-requests/11756

[pgaudet]

The first set of terms could probably be GO-CAM models, and be obsoleted. ZFIN has 1 annotation to each of the first two terms; other terms are not used:

[Term] id: GO:0021864 name: radial glial cell division in forebrain namespace: biological_process def: "The mitotic division of radial glial cells in the developing forebrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447] comment: This term was added by GO_REF:0000021. is_a: GO:0051301 ! cell division relationship: occurs_in CL:0000681 ! radial glial cell relationship: part_of GO:0021846 ! cell proliferation in forebrain

[Term] id: GO:0021865 name: symmetric radial glial cell division in forebrain namespace: biological_process def: "The mitotic division of a radial glial cell giving rise to two new radial glial cells in the forebrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447] comment: This term was added by GO_REF:0000021. is_a: GO:0021864 ! radial glial cell division in forebrain

[Term] id: GO:0021866 name: asymmetric radial glial cell division in forebrain namespace: biological_process def: "The mitotic cell division of a radial glial cell giving rise to a radial glial cell and another cell type." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447] comment: This term was added by GO_REF:0000021. is_a: GO:0021864 ! radial glial cell division in forebrain

[Term] id: GO:0021867 name: neuron-producing asymmetric radial glial cell division in forebrain namespace: biological_process def: "The unequal mitotic division of a radial glial cell in the forebrain that gives rise to a radial glial cell and a post-mitotic neuronal progenitor." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447] comment: This term was added by GO_REF:0000021. is_a: GO:0021866 ! asymmetric radial glial cell division in forebrain

[Term] id: GO:0021868 name: ventricular zone cell-producing asymmetric radial glial cell division in forebrain namespace: biological_process def: "The unequal mitotic division of a forebrain radial glial cell that gives rise to a radial glial cell and a ventricular zone cell." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, PMID:16226447] comment: This term was added by GO_REF:0000021. is_a: GO:0021866 ! asymmetric radial glial cell division in forebrain

---

The other terms seem OK to me - @sabrinatoro (+ anyone else) what do you think ?

Thanks, Pascale

[sabrinatoro]

@pgaudet It looks like I can re-house this annotation using a GO-CAM model using the GO term "symmetric cell division: (GO:0098725) and creating relationship to "radial glial cell" and forebrain. I will assign this case to me so it is on my radar of things to do. I'll let you know when it is done (probably tomorrow)

[sabrinatoro]

@pgaudet : done! these terms can be obsoleted.

[pgaudet]

Obsoletion notice sent.

[pgaudet]

also obsolete GO:0022014 radial glial cell division in subpallium 0 annotations