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

cDC1

Ontology Term: CD141-positive myeloid dendritic cellCL:0002394
SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.: unknown
CategoryClass of which the cell type is a subclass.: conventional dendritic cellCL:0000990
Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.: CLEC9A, THBD, CADM1, BATF3, C1orf54
Canonical Marker Genes: unknown
Rationale: Myeloid and pDC cells were identified via RCAv2. Integration and sub-clustering of all myeloid and pDC cells were performed, and this cluster was manually annotated based on expression of CLEC9A and other marker genes.

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

Ontology Term: CD141-positive myeloid dendritic cellCL:0002394
SynonymsTerms that have the same, or nearly the same, meaning as the selected cell type.: unknown
CategoryClass of which the cell type is a subclass.: conventional dendritic cellCL:0000990
Marker Gene EvidenceGene markers used by researcher to assign this cell annotation.: CLEC9A, THBD, CADM1, BATF3, C1orf54
Canonical Marker Genes: unknown
Rationale: Myeloid and pDC cells were identified via RCAv2. Integration and sub-clustering of all myeloid and pDC cells were performed, and this cluster was manually annotated based on expression of CLEC9A and other marker genes.

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