Fig. 1

Global expression analysis of RNA-Seq data shows two main clusters. Heatmap of top 10,000 differentially expressed genes from RNA-Seq data. RNA-Seq was performed on whole blood samples from 16 TB-HIV, 15 HIV and 2 TB-HIV on ART. Dendrograms represent unsupervised hierarchical clustering of samples. Expression scale is log2 of normalized counts. TopHat and Cufflinks algorithmic tools were used for comprehensive expression analysis of high-throughput RNA-Seq data. Red * indicates the 2 TB-HIV subjects on ART that developed IRIS and black * indicates other subjects with TB-HIV IRIS (a). Differential gene expression seen in the Volcano plot represents participants with TB-HIV (including 2 TB-HIV on ART) vs. HIV only, from the RNA-Seq data. The x-axis is log2 of the fold change of TB-HIV vs. HIV only. The y-axis is log odds of the FDR adjusted p value (b). PCA plot of PC1 vs. PC2 of RNA-Seq data of TB-HIV including those that received ART (Blue) and HIV only (Magenta) (c)