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

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Cell Metadata

ILC3

Ontology Term: Group 3 innate lymphoid cellCL:0001078
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.: group 3 innate lymphoid cellCL:0001071
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: KIT, IL4I1, IL7R, CCR6, IL23R, AHR, RORC,
Canonical Marker Genes: IL7R, KLRB1, KIT, RORC, AHR
Rationale: Top differential gene expression mapped most with ILC3 (NKp44+ and NKp44-) in Azimuth tonsil dataset, low level NCR2 (NKp44) but similar to NK cells
Rationale DOI: https://doi.org/10.1038/ni.3368; DOI: 10.1016/j.celrep.2017.09.070

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: Group 3 innate lymphoid cellCL:0001078
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.: group 3 innate lymphoid cellCL:0001071
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: KIT, IL4I1, IL7R, CCR6, IL23R, AHR, RORC,
Canonical Marker Genes: IL7R, KLRB1, KIT, RORC, AHR
Rationale: Top differential gene expression mapped most with ILC3 (NKp44+ and NKp44-) in Azimuth tonsil dataset, low level NCR2 (NKp44) but similar to NK cells
Rationale DOI: https://doi.org/10.1038/ni.3368; DOI: 10.1016/j.celrep.2017.09.070

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