Extended Data Fig. 1: Participant and time point breakdown by cluster and cluster annotation.
From: Integrated single-cell analysis of multicellular immune dynamics during hyperacute HIV-1 infection
a, Plasma viral load for the 12 participants studied in Ndhlovu et al.37 with the four individuals characterized here annotated. b, Average ratio of number of reads per number of UMIs measured per single cell. R-squared values reflect variance described by a linear model. Number of cells per participant: P1 – 15,259; P2 – 13,128; P3 – 15,927; P4 – 15,425. c, Time point and d, participant cell frequency by annotated cell type (left) and shared-nearest neighbors (SNN) clusters (right). e, Relative expression levels of exemplary marker genes used for cell type identification projected on the FItSNE. f, Heatmap of the top 10 genes differentiating each SNN cluster. Up to 500 random cells are depicted for each cluster. Two-sample Wilcoxon rank sum test; see Supplementary Table 2 for cell numbers. g, tSNE embedding of dataset colored by SNN cluster and annotated based on genes in e, f, and Supplementary Table 3.
