Quality control metrics and integrated UMAP projections of scRNA seq data.

<p><b>A)</b> Violin plots indicating number of features (nFeatures) and percentage mitochondrial content (percent mt) pre-filtering of scRNAseq data. <b>B)</b> Integrated UMAP projection of cells derived from all conditions prior to subsetting for removal of CD40 ligand positive feeder cell population, and <b>C)</b> Feature plot indicating CD40 ligand (CD40LG) expression, highlighting the feeder cell population (cluster 3) which was removed for subsequent analysis. <b>D)</b> UMAP projections of scRNAseq data indicating Seurat clusters, <b>E)</b> Sample origin, and <b>F)</b> Cell cycle phase. <b>G)</b> Feature plot indicating DENV (+) and (-) sense RNA expression. <b>H)</b> Imputed cell labelling of infected (positive for both DENV positive and negative sense RNA) and uninfected control/bystander cell populations. <b>I)</b> Dot plot highlighting selectively upregulated and downregulated DEGs in infected (expressing both DENV (+) and (-) RNA) compared to uninfected control cells (lacking both DENV (+) and (-) RNA expression). Average expression and percent of cells expressing a given transcript are indicated. <b>J)</b> Ingenuity Pathway Analysis (IPA) Graphical summary of predicted pathway enrichment in infected cells compared to uninfected controls based on differential gene expression between infected (expressing both DENV (+) and (-) RNA) compared to uninfected control cells (lacking both DENV (+) and (-) RNA expression).</p> <p>(PDF)</p>