Figure 4.

Identification of major blood cell subsets

UMAP of all cells. (A–E) Major immune cell subsets were identified as: A) CD4 and CD8 T cells (CD3G and either CD4 or CD8B); (B) NK cells (cells expressing TYROBP and FCGR3A that cluster with CD8 T cells), monocytes (cells expressing CD14 and/or FCGR3A that cluster together), and cDCs (express high HLA genes and cluster near monocytes); (C) proliferating lymphocytes (MKI67 clustering with lymphocytes); (D) B cells (MS4A1), plasma cells (express JCHAIN but lack MS4A1 and SERPINF1), and pDCs (JCHAIN and SERPINF1); and E) erythrocytes (HBA2) and platelets (PF4) cells. (F) Identified immune cell subsets are indicated. Undefined and undesired subsets such as erythrocytes and platelets can be excluded from subsequent analysis. UMAPs before and after exclusion are shown. Figure modified from (Yao et al., 2021).