Extended Data Fig. 6: Single-cell characterization of the acute hyperinflammatory response to LPS administration in peripheral blood and bone marrow lymphoid T, B and NK cells.
From: Systemic inflammation impairs myelopoiesis and interferon type I responses in humans
a, Violin plot of marker genes of different T and NK cell types identified in samples obtained from LPS-challenged healthy volunteers (n = 3 for each compartment) at baseline (BL, before the LPS challenge) and at 4 h post-LPS challenge. b, Overlayed and separated UMAP of lymphoid T and NK cells in blood and bone marrow obtained from LPS-challenged healthy volunteers (n = 3 for each compartment) at BL, and at 4 h post-LPS challenge, colored based on acquisition time point (upper) and compartment (bottom). c, UMAP representation of identified 3 gene sets in T and NK cells of LPS-challenged healthy volunteers (n = 3 for each compartment) at baseline and at 4 h post-LPS challenge, with relative enrichment on single cell level. d, Heatmap of average enrichment of 3 identified gene sets as in c, per cell type and timepoint. e, Scatterplot of normalized overall gene expression profiles of peripheral blood (x-axis) and bone marrow (y-axis) T and NK cells obtained from healthy volunteers (n = 3) at baseline (before LPS administration). f, Scatterplot of normalized T and NK cell genes (genes highly expressed in T and NK cells) in blood (x-axis) and bone marrow (y-axis) T and NK cells obtained from healthy volunteers (n = 3) at baseline (before LPS administration). g, Scatterplot of logn(fold change) in differentially expressed genes in blood (x-axis) and bone marrow (y-axis) T and NK cells obtained from healthy volunteers (n = 3) at 4 h post-LPS vs. baseline. h, Percentage of each T and NK cell type in blood and bone marrow samples as in b (n = 3 for each compartment) at BL and 4 h post-LPS, separated based on compartment. i, UMAP of B cells and pDCs in blood and bone marrow obtained from LPS-challenged healthy volunteers (n = 3 for each compartment) at BL, and at 4 h post-LPS challenge, colored by cell type. j, Overlayed and separated UMAP of lymphoid B and pDC cells in blood and bone marrow obtained from LPS-challenged healthy volunteers (n = 3 for each compartment) at BL, and at 4 h post-LPS challenge, colored based on acquisition time point (left) and compartment (right). k, Violin plot of marker genes of different lymphoid B and pDC cells identified in peripheral blood and bone marrow obtained from LPS-challenged healthy volunteers (n = 3 for each compartment) at baseline and at 4 h and d7 post-LPS challenge. l, UMAP representation of identified 4 gene sets in blood and bone marrow lymphoid B and pDC cells of LPS-challenged healthy volunteers (n = 3 for each compartment) at baseline and at 4 h post-LPS challenge, with relative enrichment on single cell level. m, Heatmap of average enrichment of 4 identified gene sets in blood and bone marrow lymphoid B and pDC cells of LPS-challenged healthy volunteers (n = 3 for each compartment) at baseline and at 4 h post-LPS challenge per cell type and timepoint.
