Virus Expression Database
Submitted by Christopher Bolen (Yale University, USA) on Aug 17 2012
Platform: microarray – [HG-U133A] Affymetrix Human Genome U133A Array
Pubmed: 23067362
Summary This study characterizes the effects of chronic Hepatitis C virus (HCV) infection on gene expression by analyzing blood samples from 10 treatment-naive HCV patients and 6 healthy volunteers.
Differential expression analysis of microarray data from peripheral blood mononuclear cells (PBMCs) identified a 136 gene signature, including 66 genes elevated in infected individuals. Most of the up-regulated genes were associated with interferon (IFN) activity (including members of the OAS and MX families, ISG15 and IRF7), suggesting an ongoing immune response. This HCV signature was also found to be consistently enriched in many other viral infection and vaccination datasets. Validation of these genes was carried out using a second cohort composed of 5 HCV patients and 5 healthy volunteers, confirming the up-regulation of the IFN signature. In summary, this is the first study to directly compare blood transcriptional profiles from HCV patients with healthy controls. The results show that chronic HCV infection has a pronounced effect on gene expression in PBMCs of infected individuals, and significantly elevates the expression of a subset of interferon-stimulated genes.
| ID | Title | Cell Type | Timepoint | Reported Virus | Virus Species | Exclusion Reason |
|---|---|---|---|---|---|---|
| GSM988002 | Healthy_p01 [Affymetrix] | peripheral blood mononuclear cell  |
healthy | Uninfected | ||
| GSM988003 | Healthy_p02 [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | ||
| GSM988004 | Healthy_p03 [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | ||
| GSM988005 | Healthy_p04 [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | ||
| GSM988006 | Healthy_p05 [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | ||
| GSM988007 | Healthy_p06 [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | ||
| GSM988008 | Healthy_p07_OUTLIER [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | Extra interventions flagged as outlier |
|
| GSM988009 | Healthy_p08_OUTLIER [Affymetrix] | peripheral blood mononuclear cell |
healthy | Uninfected | Extra interventions flagged as outlier |
|
| GSM988010 | HCV_p01 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988011 | HCV_p02 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988012 | HCV_p03 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988013 | HCV_p04 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988014 | HCV_p05 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988015 | HCV_p06 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988016 | HCV_p07 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988017 | HCV_p08 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988018 | HCV_p09 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C | |
| GSM988019 | HCV_p10 [Affymetrix] | peripheral blood mononuclear cell |
chronic | HCV | Hepacivirus C |