HCA Gut Cell Atlas v1 Lymphoid Lineage

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Cell Metadata

CD4 Treg

Ontology Term: regulatory T cellCL:0000815
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: Treg, regulatory CD4 T cell
Category Class of which the cell type is a subclass.: CD4-positive, alpha-beta T cellCL:0000624
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: IL2RA, FOXP3, CTLA4, PDCD1, TIGIT, ICOS
Canonical Marker Genes: FOXP3, IL2RA, CTLA4
Rationale: Coexpress FOXP3 and IL2RA (CD25), FOXP3 expression quickly identifies clusters of T-regs

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

Ontology Term: regulatory T cellCL:0000815
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: Treg, regulatory CD4 T cell
Category Class of which the cell type is a subclass.: CD4-positive, alpha-beta T cellCL:0000624
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: IL2RA, FOXP3, CTLA4, PDCD1, TIGIT, ICOS
Canonical Marker Genes: FOXP3, IL2RA, CTLA4
Rationale: Coexpress FOXP3 and IL2RA (CD25), FOXP3 expression quickly identifies clusters of T-regs

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