Extended Data Fig. 2: Annotations of CNS cell types from single-nucleus RNA-sequencing data.
From: APOE4/4 is linked to damaging lipid droplets in Alzheimer’s disease microglia
a-c, UMAP visualization of the whole snRNA-seq dataset after quality control and batch correction (n = 100,317). Cells are coloured by cell type annotation (a), subclusters drawn for cell type annotation (b), subject groups (control, AD-APOE3/3, AD-APOE4/4) (c). d, Bar chart indicating the total number of cells per cell type. e-j, Violin plots indicating gene expression levels of marker genes used for cell type annotations across the 6 identified cell types (n = 100,317). Violin plots are centred around the median, with their shape representing cell distribution. k-p, UMAP visualization of the whole snRNA-seq dataset coloured by cell type marker gene expression levels per cell.
