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

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Cell Metadata

HSPhi_ILC

Ontology Term: innate lymphoid cellCL:0001065
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.: lymphocyteCL:0000542
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: HSPA1A, HSPA1B, HSPH1, HSPB1, IL7R, ZBTB16, KIT, AHR, ID2
Canonical Marker Genes: IL7R, ZBTB16, KIT, AHR, ID2
Rationale: Top differentially expressed genes included a range of HSP (HSPA1A, HSPA1B, HSPH1,) in addition to canonical ILC markers such as IL7R, ZBTB16. Likely to result from processing of lymph node via embedding in molten agar

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: innate lymphoid cellCL:0001065
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.: lymphocyteCL:0000542
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: HSPA1A, HSPA1B, HSPH1, HSPB1, IL7R, ZBTB16, KIT, AHR, ID2
Canonical Marker Genes: IL7R, ZBTB16, KIT, AHR, ID2
Rationale: Top differentially expressed genes included a range of HSP (HSPA1A, HSPA1B, HSPH1,) in addition to canonical ILC markers such as IL7R, ZBTB16. Likely to result from processing of lymph node via embedding in molten agar

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