Fig. 2

Gene expression patterns distinguish Death, Survival, and C-IRIS. a Principal component analysis was used to separate gene expression in 211 individual samples from the 68 subjects. 3-D principal components (PC#) accounted for 17.6% total variance in gene expression (PC#1 7.77%, PC#2 5.14%, PC#3 4.66%, respectively). This PCA was performed on 26,380 expressed RNAs. The outcome box within the plot outlines the color assignments. Samples collected at the time of C-IRIS events are colored as red (died-IRIS = Fatal C-IRIS Group) and green (survived-IRIS = samples from C-IRIS Survivor Group). Samples shown in yellow are from patients who survived (excluding samples collected at the time of C-IRIS events). Samples shown in blue are from those who died (excluding samples collected at the time of C-IRIS events). For the simplicity of representation, the longitudinally assessed time points within each group are not colored differently. b PCA subgroup analysis at baseline (at randomization, week 0). This PCA was performed on 2200 expressed RNAs that encode proteins with immune/inflammatory functions. The legend in the plot outlines the color assignment: samples were color-coded by the 7 study groups as shown in the legend box within the figure: DD-N = Deferred arm, Death without C-IRIS Group (black); DS-I = Deferred arm, C-IRIS Survivor Group (yellow); DS-N = Deferred arm, No C-IRIS or Death Group (pink); ED-I = Earlier ART arm, Fatal C-IRIS Group (green); ED-N = Earlier ART arm, Death without C-IRIS Group (grey); ES-I = Earlier ART arm, C-IRIS Survivor Group (maroon); and ES-N = Earlier ART arm, No C-IRIS or Death Group (blue)