HCA Gut Cell Atlas v1 Stromal Lineage

Main

Cell Metadata

Glia Extra-Ganglionic

Full Name: glial cell
Closest Ontology Term: glial cellCL:0000125
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: glial cellCL:0000125
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: need a term for glia on enteric neurons outside the ganglia (mucosa enervating neuron glia)
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: GFRA3
Canonical Marker Genes: S100B, SOX10, PLP1
Rationale: This label is used for enteric glia captured outside of well-formed myenteric and submucosal ganglia, especially in biopsy-derived datasets. Clusters annotated as Glia Extra-Ganglionic show a broad glial program (NRXN1, S100B, SOX10, PLP1) without clear plexus-restricted signatures and are the dominant glial population in mucosal samples.

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools

Full Name: glial cell
Closest Ontology Term: glial cellCL:0000125
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: glial cellCL:0000125
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: need a term for glia on enteric neurons outside the ganglia (mucosa enervating neuron glia)
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: GFRA3
Canonical Marker Genes: S100B, SOX10, PLP1
Rationale: This label is used for enteric glia captured outside of well-formed myenteric and submucosal ganglia, especially in biopsy-derived datasets. Clusters annotated as Glia Extra-Ganglionic show a broad glial program (NRXN1, S100B, SOX10, PLP1) without clear plexus-restricted signatures and are the dominant glial population in mucosal samples.

Set of Labels Description: Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering
Annotation Method: both
Algorithm Name: scVI
Algorithm Version: 1.3.2
Algorithm URL: https://github.com/scverse/scvi-tools