HHV-6 virus belongs to the Beta herpes family and is a major cause of Exanthema Subitum or Roseola with high fever in children under three years old. It can cross the blood-brain barrier for this reason 15% of children develop acute febrile seizures during the febrile phase. Investigation pathogenesis of this virus in febrile patients such as the most important genes cellular pathways and main cellular pathways can be complete information on the diagnostic also therapeutic methods of the virus. For this purpose, after obtaining 11 genes with up-regulation expression important role related fever mediated HHV-6 by Microarray DNA analysis in GSE40396, we compared the expression of these genes in HHV-6 positive patients to the healthy control group.Material and MethodHHV-6 DNA was investigated in 100 whole blood samples in children under five years by Nested PCR in 2 rounds, RNA was extracted from HHV-6 positive samples, Syber green Real-Time PCR on 12 cDNA samples from patients and normal groups was conducted, and results analyzed by GraphPad prism and SPSS software.ResultThe hypothetical model shows 11 genes including AIM2, ZBP1, CASP5, GSDMD, GBP1, IL-1b, IL-18, IL-33, IFN-a, IFN-B, IRF7 are interacted with each other and in the path leading to HHV-6-induced fever. In this study, the expression of these genes showed that all of these genes except GBP1 were overexpressed. The results of molecular and statistical tests also showed that the prevalence of acute HHV-6 infection in whole blood samples from children under five in Iran is 15% with an average of ten months. ConclusionMacrophages play an important role in the development of HHV-6 fever and its mechanism through communication with PGE2. This model shows only the signaling pathways and important genes involved in the development of fever. expression of AIM-2, IL-1B, IL-33, and IRF-7 genes increased significantly following HHV-6 infection.