Figure 3.

NK cell subsets associated with longitudinal trajectory of intact proviruses

(A) (Top) Global t-distributed stochastic neighbor embedding (tSNE) maps of CD56^dim CD16^dim NK cells from early-treated infants; data from indicated time points are shown separately as overlays. (Bottom) tSNE maps showing the expression of individual phenotypic markers measured by flow cytometry in concatenated CD56^dim CD16^dim NK cells analyzed from early-treated infants.

(B) tSNE map displaying 7 phenotypically distinct clusters identified by FlowSOM within concatenated CD56^dim CD16^dim NK cells from early-treated infants.

(C) Heatmap showing the mean fluorescence intensity (MFI) of the phenotypic parameters measured in the 7 clusters shown in (B).

(D) Longitudinal evolution of clusters 2 and 3 NK cell populations from weeks 0 (n = 11), 12/24 (n = 12), and 72/84 (n = 18). ^∗p < 0.05, ^∗∗∗p < 0.001, ^∗∗∗∗p < 0.0001; Kruskal Wallis test with post-hoc Dunn’s test.

(E) Correlation between longitudinal fold changes in proportions of cluster 2 or 3 NK cells (between weeks 0 and 72/84) and corresponding changes in intact proviruses from early-treated infants. Spearman correlation coefficient is shown.