Extended Data Fig. 4: Minimal differences in baseline immune features between post-intervention controllers and non-controllers.

a) Differentially abundant CyTOF features in the peripheral blood (by two-sided Wilcoxon rank-sum test with Benjamini-Hochberg adjustment for multiple comparisons), and b) differentially expressed genes in total peripheral blood mononuclear cells (PBMCs) between the viremic post-intervention controllers (n = 6) and non-controllers (n = 3) at baseline (on ART, prior to interventions). Differential expression analysis was performed using lmfit through limma using the empirical Bayes method to calculate a t-statistic. Significance cut-offs were set at a fold change > 1.5 and nominal P value < 0.05. c) CyTOF landmark and sub-landmark gating scheme. Populations labelled in blue represent landmark populations and populations labelled in red represent sub-landmark populations. CyTOF, cytometry time of flight. PICs, post-intervention controllers. NCs, non-controllers.