Extended Data Fig. 7: Curated list of DEGs induced by IL-12 and IFNγ treatment.
a-d, B cells from n = 3 mice were individually bead purified and stimulated with LPS and the indicated concentrations of IL-12, IFNγ, and blocking antibodies for 4 or 24 hours, and RNA was isolated for bulk sequencing. a, Experimental design; all DEG were compared to IL-12 block + IFNγ block condition for their respective time point. b, Venn diagrams comparing up (top) and down (bottom) DEG for 4 hour IFNγ 0.5 ng/mL versus 3 ng/mL both with IL-12 block. c, Venn diagrams comparing (top left) down DEG for 4 versus 24 hour IFNγ 0.5 ng/mL (block IL-12), (bottom left) those plus 24 hr IL-12 20 pg/mL + IFNγ 0.5 ng/mL, (right) or all 24 hr groups; IL-12 20 pg/mL (block IFNγ), IFNγ 0.5 ng/mL (block IL-12), or IL-12 + IFNγ. d, Heatmap of curated list of top DEG of interest clustered by gene names. Numbers in boxes indicate logFC mean of 3 samples, * indicates significance (FDR < 0.05) of differential regulation compared to control. e, Quantification of IL-12 and IFNγ in culture supernatants from 3 time points. Data are combined from 2 experiments, n = 6 biological replicates per condition. Symbols represent the mean +/- SD. Comparisons are one-way ANOVA with Tukey’s multiple comparisons for suboptimal cytokine concentrations, and two-tailed paired t-test comparing LPS only to either IL-12 or IFNγ at sufficient concentrations (200 pg/mL and 10 ng/mL respectively), NS = not significant, *p < 0.05.
