Figure 1. SLE NDNs differ in their proteome and phosphoproteome compared to HC NDNs.

(A & B) A total of 4109 proteins (A) and 875 phosphoproteins (B) were identified by mass spectrometry in LDGs and NDNs from SLE subjects (n=5) and unstimulated and primed NDNs from HC volunteers (n=5). Volcano plots depict differences between SLE NDN and LDG proteomes (C) and phosphoproteomes (D). The upregulated (red) and downregulated (green) proteomes are in LDGs, while NDNs are the reference proteome. (E) Gene ontology biological process analysis highlighting biological networks associated with proteins more abundant in at least 4/5 SLE NDN samples relative to HC NDNs. Proteins with abundance ratios greater than 1.5 were included and significance was established by false discovery rate (FDR). (F) Proteins responsible for upregulation of networks associated with neutrophil activation in SLE NDNs relative to HC NDNs in arbitrary units. Significance was established by Kruskal-Wallis test with post hoc Dunn’s tests for multiple comparisons (3 comparisons) or by Mann-Whitney U test (2 comparisons). (G) Relative abundance of IFN inducible proteins in SLE NDNs and HC NDNs relative to SLE LDGs. SLE NDNs were compared to autologous SLE LDGs. HC NDNs were compared to the mean protein abundance in SLE LDGs. Open boxes in heatmaps indicate the given protein was not identified in the sample. (H) Abundance of cell integrins and adhesion-related proteins in SLE NDNs and HC NDNs relative to autologous SLE LDGs and autologous primed HC NDNs respectively. (I) Abundance of phosphoproteins associated with regulation of neutrophil-endothelial interactions in all neutrophil subsets, in arbitrary units. Significance was established by Kruskal-Wallis test with post hoc Dunn’s tests for multiple comparisons. All results are mean ± SEM and significance was set at *p ≤ 0.05, **p≤ 0.01, ns=not significant.