Fig. 6

Transcriptional Profiles of CO-iMs uninfected, infected with HIV, and infected + treated with cART. RNA-seq analysis of 65-day old iPSC-Ru line derived CO-iMs infected with HIV_BaL (n = 3) for 5 days, or mock infected (n = 3), or infected + cART treated (n = 3) for 5 days from the same production batch. A REACTOME dot plot showing the pathways (FDR < 0.1) enriched in activated and suppressed gene in infected CO-iMs when compared with their uninfected counterparts. B Dot plot showing the GO terms (FDR < 0.05) of biological processes enriched in activated and suppressed genes in infected CO-iMs when compared with their uninfected counterparts. For (A, B) the x-axis indicates the ratio of genes identified by our analysis and the total number of genes that constitute the pathway, the size of the dot is based on gene count in the pathway, and the color of the dot shows the pathway enrichment significance. C Volcano plot comparison of infected vs uninfected CO-iMs indicating average log2 (fold change) versus -log10 (FDR) for all genes. Genes upregulated and downregulated by two-fold change and FDR < 0.05 are labeled with red dots