title: The transcriptome of HCV replicon expressing cell lines in the presence of alpha interferon.
abstract: We have used DNA microarray analysis of human hepatoma and epithelial carcinoma cells expressing hepatitis C virus (HCV) subgenomic replicons to test whether HCV replication alters gene expression and influences the alpha interferon (IFN-alpha) response. We directly compared the HCV replicon system with a similar system based on a subgenomic replicon of the West Nile virus (WNV) subtype Kunjin virus. We found that in contrast to WNV replicons, persistent replication of HCV replicons did not significantly alter the transcriptome of infected cells nor did it inhibit the nature of the IFN-stimulated genes (ISGs). Our results also provided evidence for the existence of a small number of ISGs that could play a role in the inhibition of HCV replication by IFN-alpha. Finally, we identified ISGs that are activated by the cytokine in a cell-type specific fashion.
authors.affiliation: Institute for Cancer Research, Fox Chase Cancer Center, 333 Cottman Avenue, Philadelphia, PA 19111, USA.
authors.forename: Junpei
authors.initials: J
authors.lastname: Hayashi
authors.forename: Radka
authors.initials: R
authors.lastname: Stoyanova
authors.forename: Christoph
authors.initials: C
authors.lastname: Seeger
mesh_terms: D002460:Cell Line; D020869:Gene Expression Profiling; D015967:Gene Expression Regulation, Viral / Q000187:drug effects* / Q000235:genetics; D006367:HeLa Cells; D016174:Hepacivirus / Q000187:drug effects* / Q000235:genetics* / Q000502:physiology; D006801:Humans; D016898:Interferon-alpha / Q000494:pharmacology*; D020411:Oligonucleotide Array Sequence Analysis; D011786:Quality Control; D012367:RNA, Viral / Q000235:genetics / Q000378:metabolism; D012093:Replicon / Q000187:drug effects / Q000235:genetics*; D012107:Research Design; D014158:Transcription, Genetic / Q000187:drug effects* / Q000235:genetics; D014779:Virus Replication / Q000187:drug effects / Q000235:genetics*
chemical_list: D016898:Interferon-alpha; D012367:RNA, Viral