The mechanism of the interferon-alpha (IFN-␣)-induced antiviral response during hepatitis C virus (HCV) therapy is not completely understood. In this study, we examined the transcriptional response to IFN-␣ in uninfected chimpanzees after single doses of chimpanzee, human, or human-pegylated IFN-␣. Liver and peripheral blood mononuclear cell (PBMC) samples were used for total genome microarray analysis. Most induced genes achieved maximal response within 4 hours, began to decline by 8 hours, and were at baseline levels by 24 hours postinoculation, a time when high levels of circulating pegylated IFN-␣ were still present. W orldwide, approximately 170 million people are chronically infected with hepatitis C virus (HCV), which frequently progresses to serious liver disease, including cirrhosis and hepatocellular carcinoma. 1,2 The current therapy involves the combination of pegylated (peg)-interferon alpha (IFN-␣) and ribavirin (reviewed in Feld and Hoofnagle 3 ) and has response rates for sustained viral clearance of approximately 40% to 50% and 80% to 90% for genotypes 1 and 2/3, respectively. 4,5 However, a significant proportion of the population still develops serious disease as a consequence of HCV infection. HCV infection is the leading cause for liver transplantation in the United States 1,2 and liver cancer due to HCV infection is one of the most rapidly increasing types of cancer in the United States. 6 Little is understood regarding the factors leading to successful or failed viral clearance during IFN-␣ therapy. The early kinetics of viral RNA loss from the circulation during IFN-␣ therapy suggests the presence of two phases. Phase I occurs during the first 24 to 48 hours and is presumed to be due to the decrease in secretion of new virions, whereas phase II kinetics vary between individuals, are predictive of the outcome of therapy, and are thought to be a measurement of loss of infected cells. [7][8][9] We 10,11 and others 12 have previously performed gene expression analyses on liver from chimpanzees that experienced acute-resolving or chronic HCV infections. The