NTR-pro-opiomelanocortin-neuron

[AvolaAmg]

Fixes #2443
NTR-pro-opiomelanocortin-neuron

[AvolaAmg]

#gogoeditdiff

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[dosumis]

#gogoeditdiff

Looks good.

I think interesting to look at neuropeptide annotation of clusters in whole brain datasets We have this for Siletti. Not much annotation to look at in annotations, but dissections potentially informative - note hypothalamus population which could fit with the cells you describe. But also other populations that don't.

cell_set_accession	cell_label	cell_fullname	parent_cell_set_accession	parent_cell_set_name	labelset	Cluster ID	Class auto_annotation	Neurotransmitter auto_annotation	Neuropeptide auto_annotation	Top three regions	Top three dissections	Top Enriched Genes
CS202210140_337	Splat_336		CS202210140_483	Splatter	Cluster	336	NEUR	VGLUT2 VGLUT3	AGT CBLN CCK CHGA CHGB GAL NAMPT NPPC NTS NUCB NXPH POMC SCG SST UBL proSAAS	Midbrain: 91.5%, Thalamus: 8.1%, Medulla: 0.3%	Human SN-RN: 59.7%, Human PAG: 18.3%, Human CM-Pf: 7.7%	NKX6-1, FAM83B, ASAH2, LINC00261, EBF3, SIM1, ONECUT1, FOXA2, AC024230.1, AC079148.3
CS202210140_338	Splat_337		CS202210140_483	Splatter	Cluster	337	NEUR	GABA	CALCB CHGA CHGB IGF NAMPT NPPC NUCB NXPH PNOC POMC PYY SCG UBL VGF proSAAS	Basal forebrain: 81.9%, Midbrain: 17.6%, Hypothalamus: 0.5%	Human GPi: 53.9%, Human GPe: 26.4%, Human SN: 16.1%	ONECUT1, ASAH2, AC016044.1, LHX1-DT, KANK4, LINC00922, LINC02520, ZNF676, LHX1, MARCHF11-AS1
CS202210140_354	Splat_353		CS202210140_483	Splatter	Cluster	353	NEUR	GABA	CBLN CHGA CHGB NAMPT NMB NPB NPY NUCB NXPH PENK PNOC POMC SCG TAC UBL VGF proSAAS	Thalamus: 97.2%, Midbrain: 2.2%, Hypothalamus: 0.5%	Human LG: 93.9%, Human VLN: 1.4%, Human CM-Pf: 1.1%	GATA3, FABP4, HPGD, LHX5-AS1, NPY, GATA3-AS1, LINC00237, AC096751.2, AL138899.1, NDNF
CS202210140_432	Splat_431		CS202210140_483	Splatter	Cluster	431	NEUR	HDC VGLUT2	CART CBLN CHGA CHGB KISS NAMPT NPPC NUCB NXPH PENK POMC SCG TAC UBL VGF proSAAS	Hypothalamus: 99.7%, Midbrain: 0.2%, Cerebral cortex: 0.0%	Human MN: 57.0%, Human HTHma-HTHtub: 14.2%, Human HTHso-HTHtub: 13.8%	PGR, TBX3, PGR-AS1, AC004870.4, AC026765.3, CALCR, POMC, NR5A2, ESR1, C14orf39

[dosumis]

We could stick with these classical defs for now and wait for any further characterisation of NP expressing neurons. Alternatively, we could keep a general term for "pro-opiomelanocortin-neuron" and add region specific subclasses for neurons in the hypothalamus and brainstem that you mention in your def.

Thoughts?

[AvolaAmg]

@dosumis I agree with creating an intermediate term for neurons in the hypothalamus and then make 'pro-opiomelanocortin-neuron' one of its subclass.
see ticket #2719 I will add a new grouping term specifically for these cell types

[dosumis]

@dosumis I agree with creating an intermediate term for neurons in the hypothalamus and then make 'pro-opiomelanocortin-neuron' one of its subclass.
see ticket #2719 I will add a new grouping term specifically for these cell types

My suggestion is that "pro-opiomelanocortin-neuron" be a general term for neurons expressing this NP and to make subclasses for e.g. pro-opiomelanocortin neuron of hypothalamus. A general term for 'neuron of hypothalamus' sounds too abstract to be useful.

[AvolaAmg]

Neurons of the hypothalamus are neurons of the neuroendocrine system
There are specific neurons that are only in the hypothalamus and have a function related to the regulation of hormones and diet.
I can provide you a literature review of those and a list of neurons.
Otherwise let me know how you want me to proceed.

[dosumis]

There are specific neurons that are only in the hypothalamus and have a function related to the regulation of hormones and diet.

I'm very happy to add those specific neuron types, just wondering how useful the grouping term is. As mentioned in call last week, I am concerned that the classical definitions of "{some neuropeptide}-neuron" will soon be very out of date as we find much broader expression of these NPs.