Fig. 7

Comparison of gene expression in PH5CH^mock and PH5CH^IFN−β cells (compare Fig. 2). a–c Protein expression levels of PH5CH^mock and PH5CH^IFN−β cells determined by label-free mass-spectrometry-based proteomics. Cells were analysed nine days after withdrawal of IFN-β. a Scatter plot comparing log₂-transformed protein intensity for each protein in in PH5CH^IFN−β compared to PH5CH^mock cells. Green and orange dots represent proteins only detected in one cell population. b Dot-plot depicting the log₂-transformed protein intensity of selected key members and regulators of type I IFN signalling. Grey dots represent PH5CH^mock and red dots represent PH5CH^IFN−β c Volcano plot illustrating significantly differentially expressed proteins in PH5CH^mock and PH5CH^IFN−β cells. The -log₁₀-transformed unadjusted p-value is plotted against the log₂ PH5CH^IFN−β/PH5CH^mock fold-change. The dotted horizontal line denotes unadjusted p-value < 0.05 and the dotted vertical lines a fold change cut-off of twofold. 6974 proteins were detected in both samples, blue dots indicate proteins that are more abundant in PH5CH^mock cells (81 proteins), red dots indicate proteins that are more abundant in PH5CH^IFN−β cells (29 proteins). Proteins uniquely identified in either condition given in the list on the right. d mRNA expression levels of IFNAR1 and IFNAR2, determined by qRT-PCR. Cells were analysed 29 days after withdrawal of IFN-β. All graphs display mean (± SD) of three subpopulations of one PH5CH^IFN−β population and PH5CH^mock