Figure 3
Balance of up- and down-regulation of significantly differentially expressed (SDE) genes in response to M. tuberculosis infection of whole blood over a 96 h time course. (a) Proportion of SDE genes coding for surface expressed proteins showing up- or down-regulation over 96 h. Red = up regulated genes; green = down-regulated genes (q < 0.001). Down-regulation is the predominant response to infection, proportion of down-regulated genes increases with effect size, represented by |log2FC|. (b) Assignment of early (0–48 h) and late (48–96 h) SDE genes to canonical pathways (IPA®) according to timing of infection. Height of individual bars corresponds to percentage relative to total number of genes (top of each bar) assigned to respective pathway. Red = up-regulated, green = down-regulated genes. Orange dots show the −log(B–H adjusted p-value) for each pathway.
