The most prominent perturbations centered on the repression of those genes governing mitochondrial biogenesis (TFAM), mitochondrial OXPHOS (OXA1L, NDUFB6, ETFB, LRPPRC, SDHB, COX5B, NDUFA9, NDUFA2, MRPS12, PDHB, NDUFB4, VDAC1), oxidative defense (GPX6, SOD1, GPX7), glycolysis (ALDOA, HK1, ADH5, PDHA1, ALDH3B1), gluconeogenesis (GYS2), fatty acid and cholesterol synthesis (HMGS1, EHHADH, DGAT1, HADH, HACD3, HADHA, ACSM3, ADADSB, PPT1, ACSBG1), β-oxidation (CPT1C, CPT2, ACADM), lactate transportation (SLC16A10), and nucleotide metabolism (ADCY7) during HIV infection. This evidence concerns the gene NDUFA9 and HIV infectious disease.