Human lymph node slices cultured with and without ex vivo stimulation by liposomal TLR4 and QS-21 adjuvant

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Cell Metadata

Proliferating_cells

Ontology Term: mature natural killer cellCL:0000824
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.: natural killer cellCL:0000623
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: MKI67, TOP2A, H2AFZ, TUBA1B, GNLY, KLRB1
Canonical Marker Genes: NCAM1, FCGR3A, EOMES
Rationale: This cluster had the highest expression of MKI67 but most closely mapped to the natural killer clusters, so likely to be a subset of these cells, including expression of granulysin (GNLY) and KLRB1

Set of Labels Description: Cell annotations were based on the finest possible label to describe the 18 clusters found across both culture conditions (control and stimulated) following integration and clustering. Gene expression across clusters correlated with matched cell annotations in the uncultured, whole lymph node dataset (LN partial T and B cell depletion) in addition to some culture-specific cell clusters
Annotation Method: manual

Ontology Term: mature natural killer cellCL:0000824
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.: natural killer cellCL:0000623
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: MKI67, TOP2A, H2AFZ, TUBA1B, GNLY, KLRB1
Canonical Marker Genes: NCAM1, FCGR3A, EOMES
Rationale: This cluster had the highest expression of MKI67 but most closely mapped to the natural killer clusters, so likely to be a subset of these cells, including expression of granulysin (GNLY) and KLRB1

Set of Labels Description: Cell annotations were based on the finest possible label to describe the 18 clusters found across both culture conditions (control and stimulated) following integration and clustering. Gene expression across clusters correlated with matched cell annotations in the uncultured, whole lymph node dataset (LN partial T and B cell depletion) in addition to some culture-specific cell clusters
Annotation Method: manual