| Evidence |
Cell cluster annotation. Clusters were annotated based on expression of known marker genes, including CD3G, CD3D, CD3E, CD2 (T cells), CD8A, GZMA (CD8+ T cells), CD4, FOXP3 (CD4+ T cells and Treg cells), KLRC1, KLRC3 (NK cells), CD19, CD79A (B cells), SLAMF7, IGKC (plasma cells), FCGR2A, CSF1R (macrophages), FLT3 (dendritic cells), CLEC4C (plasmacytoid dendritic cells), COL1A2 (fibroblasts), MCAM, MYLK (myofibroblasts), FAP, PDPN (cancer-associated fibroblasts), EPCAM, TP63 (malignant cells), PECAM1, VWF (Endothelial cellss), PMEL and MLANA (melanocytes). Clusters were also confirmed by identifying differentially expressed marker genes for each cluster and comparing to known cell-type-specific marker genes. Finally, we downloaded bulk RNA-seq count data from sorted immune cell populations from a previously published study6 and compared bulk gene expression to pseudo-bulk expression profiles from single-cell clusters. |
