AIDA Phase 1 Data Freeze v2: Chinese, Indian, Japanese, Korean, Malay, and Thai donors in Japan, Singapore, South Korea, Thailand, and India

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Cell Metadata

atypical_B

Full Name: B cell, atypical, with expression of FCRL5, FGR, FCRL3
Closest Ontology Term: mature B cellCL:0000785
SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.: mature B-cell, mature B-lymphocyte, mature B lymphocyte
CategoryClass of which the cell type is a subclass.: B cellCL:0000236
Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.: MS4A1, CD79A, FCRL5, FGR, FCRL3, RHOB
Canonical Marker Genes: unknown
Rationale: B cells were identified via RCAv2. Integration and sub-clustering of all B cells were performed, and clusters were annotated based on marker genes, particularly heightened levels of FGR and FCRL3 and / or FCRL5. These clusters are proximal to memory B cell clusters in gene expression space.

Set of Labels Description: These author cell type labels were assigned largely at the per-cluster level. We identified broad cell types using RCAv2-based clustering (B, CD34+ haematopoietic stem and progenitor cell (HSPC), myeloid, natural killer (NK), plasma cell, plasmacytoid dendritic cell (pDC), platelet, and T). We then performed cell population-specific (B; myeloid + pDC; CD4+ T and dnT; non-CD4+ T and NK and ILC) integration (Seurat RPCA) and sub-clustering (Louvain clustering), and annotated clusters based on their marker genes.
Annotation Method: manual

Full Name: B cell, atypical, with expression of FCRL5, FGR, FCRL3
Closest Ontology Term: mature B cellCL:0000785
SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.: mature B-cell, mature B-lymphocyte, mature B lymphocyte
CategoryClass of which the cell type is a subclass.: B cellCL:0000236
Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.: MS4A1, CD79A, FCRL5, FGR, FCRL3, RHOB
Canonical Marker Genes: unknown
Rationale: B cells were identified via RCAv2. Integration and sub-clustering of all B cells were performed, and clusters were annotated based on marker genes, particularly heightened levels of FGR and FCRL3 and / or FCRL5. These clusters are proximal to memory B cell clusters in gene expression space.

Set of Labels Description: These author cell type labels were assigned largely at the per-cluster level. We identified broad cell types using RCAv2-based clustering (B, CD34+ haematopoietic stem and progenitor cell (HSPC), myeloid, natural killer (NK), plasma cell, plasmacytoid dendritic cell (pDC), platelet, and T). We then performed cell population-specific (B; myeloid + pDC; CD4+ T and dnT; non-CD4+ T and NK and ILC) integration (Seurat RPCA) and sub-clustering (Louvain clustering), and annotated clusters based on their marker genes.
Annotation Method: manual