HCA Gut Cell Atlas v1 Lymphoid Lineage

Main

Cell Metadata

B Naive

Ontology Term: naive B cellCL:0000788
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: naive B cell
Category Class of which the cell type is a subclass.: B cellCL:0000236
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: IGHM, IGHD
Canonical Marker Genes: IGHM, IGHD, TCL1A
Rationale: MARCKSL1 and IGHD were found in some subclusters found near other follicular B cells. These have high HLA genes, CD79A and B

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: naive B cellCL:0000788
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: naive B cell
Category Class of which the cell type is a subclass.: B cellCL:0000236
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: IGHM, IGHD
Canonical Marker Genes: IGHM, IGHD, TCL1A
Rationale: MARCKSL1 and IGHD were found in some subclusters found near other follicular B cells. These have high HLA genes, CD79A and B

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