Fig. 3: Group analysis of temporal gene expression analysis after rDEN2Δ30 primary infection. | Nature Communications

Fig. 3: Group analysis of temporal gene expression analysis after rDEN2Δ30 primary infection.

From: Immunotranscriptomic profiling the acute and clearance phases of a human challenge dengue virus serotype 2 infection model

Fig. 3

a Principal component analysis by timepoint. One symbol per subject. b The top 2400 variable genes clustered on heatmap with column annotations for timepoints post infection. TMM values ln(x + 1)-transformed. Rows are centered; unit variance scaling is applied to rows. Both rows and columns are clustered using correlation distance and average linkage. c F × E plots (log2 fold-change × expression, indicated by log2 counts per million (CPM) reads) of pairwise timepoint comparisons. Differential gene expression threshold is significance level of P < 0.05, FDR < 0.1, and transcript level ≥ 4 CPM. Examples of highly regulated genes are labeled (d) Pathway analysis of differentially expressed genes in pairwise comparisons by timepoint after infection. Predicted pathway directionality (green up-pointing triangle, upregulated; red down-pointing triangle, downregulated) was determined by the behavior of the genes exhibiting |≥1.5-fold change|. Source data are provided as a Source Data file.

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