We downloaded the processed single-cell RNA-seq count matrices comprising PBMCs of seven supercentenarians and five younger controls from http://gerg.gsc.riken.jp/SC2018/. Read counts were log-transformed and PCA embedded using the first 50 PCs. Leiden clustering was used to cluster cells into major groups. Following the described analysis in Hashimoto et al.3, we annotated the major cell types including T cells characterized by CD3 and T-cell receptor (TRAC) expression, B cells characterized by MS4A1 (CD20) and CD19 expression, natural killer cells characterized by KLRF1 expression, monocytes characterized by CD14 and FCGR3A (CD16) expression, respectively, and erythrocytes characterized by HBA1 expression, and determined their cell counts per sample (Supplementary Fig. 5). All analysis steps were carried out using Scanpy v.1.5.1.
