HCA Gut Cell Atlas v1 Lymphoid Lineage

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Cell Metadata

CD8 IEL

Ontology Term: intraepithelial lymphocyteCL:0002496
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: IEL
Category Class of which the cell type is a subclass.: CD8-positive, alpha-beta T cellCL:0000625
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: ITGAE, CD160, KLRC2, KIR2DL4, NCR1, NCR2, NCR3, CD7, CD244
Canonical Marker Genes: ITGAE, CD69, CD160
Rationale: A large cluster of ITGAE high, CD160 exists in the atlas, pointing to resident status. contextualization with radial tissue terms could increase evidence

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: intraepithelial lymphocyteCL:0002496
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: IEL
Category Class of which the cell type is a subclass.: CD8-positive, alpha-beta T cellCL:0000625
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: ITGAE, CD160, KLRC2, KIR2DL4, NCR1, NCR2, NCR3, CD7, CD244
Canonical Marker Genes: ITGAE, CD69, CD160
Rationale: A large cluster of ITGAE high, CD160 exists in the atlas, pointing to resident status. contextualization with radial tissue terms could increase evidence

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