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obophenotype / cell-ontology

An ontology of cell types
https://obophenotype.github.io/cell-ontology/
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Atlas of the Aging Mouse Brain, 'mature neuron' and 'immature neuron' needed? #2436

Open ANiknejad opened 1 month ago

ANiknejad commented 1 month ago

Hello CL Team,

Atlas of the Aging Mouse Brain brings up some new concepts/terms that are currently missing in CL https://singlecell.broadinstitute.org/single_cell/study/SCP263/aging-mouse-brain#study-summary

adult neurogenesis with concept of 'mature' and 'immature' neurons sounds emerging..?

https://www.pennmedicine.org/news/news-releases/2022/july/discovery-of-molecular-signatures-of-immature-neurons-in-the-human-brain

Thank you for your help here!

Anne

AvolaAmg commented 1 month ago

Hi Anne,

Thank you for your ticket, I will get back to you as soon as possible to incorporate these new concepts in CL.

Alida

AvolaAmg commented 6 days ago

@JABelfiore please review:

Given the following literature research (see list of papers below), the concept of immature neurons should be included in the ontology as a cell classification as these cells remain in this state for a prolonged time in the tissue and therefore can be identified. PMID: 31096632 PMID: 37833544 PMID: 32116519 https://molecularbrain.biomedcentral.com/articles/10.1186/s13041-019-0522-8 https://pubmed.ncbi.nlm.nih.gov/21609825/

The following NTRs will be added:

cell label: immature neuron

cell definition: A neuron in a central nervous system that is not committed to a differentiated fate, that it is not been newly derived from neurogenesis, and that does not integrate within any circuit.

database_cross_reference:

comments: It is hypothesised that immature neurons can be utilised as a neurogenic reserve and that they can be involved in circuit plasticity.

database_cross_reference: PMID: 32116519

has related synonym: IN

has related synonym: nng-IN PMID: 31096632

parent term: central nervous system neuron uberon term: central nervous system

cell label: cortical immature neuron

definition: An immature neuron of a cerebral cortex. database_cross_reference:

has related synonym: cIN database_cross_reference:

parent term: immature neuron uberon term: cerebral cortex

scheuerm commented 4 days ago

I would not add a new term just because of its anatomic location, unless there is some evidence that it has a different molecular or functional property in this location.