HCA Gut Cell Atlas v1 Lymphoid Lineage

Main

Cell Metadata

GC B Dark Zone

Ontology Term: centroblastCL:0009112
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: centroblast, B GC/DZ
Category Class of which the cell type is a subclass.: germinal center B cellCL:0000844
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CXCR4, AICDA, RGS13, NEIL1, BCL7A
Canonical Marker Genes: CXCR4, AICDA, MKI67
Rationale: CXCR4 high with CD83 point to Dark zone

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

Main

Cell Metadata

Ontology Term: centroblastCL:0009112
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: centroblast, B GC/DZ
Category Class of which the cell type is a subclass.: germinal center B cellCL:0000844
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CXCR4, AICDA, RGS13, NEIL1, BCL7A
Canonical Marker Genes: CXCR4, AICDA, MKI67
Rationale: CXCR4 high with CD83 point to Dark zone

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