Supplementary Figure 9: Stimulation of human bone marrow derived cells.

(a) Stimulated BMMC (n = 75,968) cells projected onto the UMAP coordinates defined by the non-stimulated control cells (n = 60,495 cells). (b,c) Cell-cell TF score variability for the stimulation and control cells showing (b) ex vivo culture and (c) ex vivo culture and LPS stimulation, only unique TF motifs are highlighted. (d, e) Cell-cell TF score variability for the control cells and variability of stimulation after normalizing to the control TF variability for (d) ex vivo culture and (e) ex vivo culture and LPS stimulation conditions, only unique TF motifs are highlighted. (f-j) Depictions of transcription factor deviation scores in resting cells (top) compared to the differential after stimulation (bottom) for selected motifs. A total of n = 60,495 cells are plotted. (k) Sample summary of differential peak analysis for the Mono-1 cluster. Each dot represents a chromatin accessibility peak found in at least 1% of cells. The overall % of cells with element are shown on the x-axis whereas the y-axis depicts the difference in the % of cells with the element accessible (stimulated - resting). Peaks found significantly different at a 1% FDR (two-sided binomial test; Benjamini Hochberg corrected) are colored in red and blue. (l) Overall summary statistics per-population from differential peak analysis showing the Z-statistic from the two-sided permutation test for differential accessibility. Each colored curve represents the overall Z-statistics for all peaks in the specified cluster.