Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcription profiling by array of Huh7.5 cells infected with Hepatitis C Virus Jc1

ABSTRACT: Huh7/5-2 cells (Binder et al., Hepatology 2007) were mock infected (DMEM) (time points 4 and 48 h) or infected with the chimeric HCV virus Jc1 (Pietschmann et al., PNAS 2006) (all time points). Multiplicity of infection was 15 (TCID50). Cells were lysed after 4, 12, 24, 48 and 72 hours post infection and total cellular RNA was prepared. Mock infected cells serve as controls for the infected samples. The whole experiment was repeated on independent days (2 biological replicates). The dataset was also submitted to GEO (GSE38720).

ORGANISM(S): Homo sapiens

DISEASE(S): mock infection

SUBMITTER: Giulio Superti-Furga

PROVIDER: E-MTAB-1148 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Viral immune modulators perturb the human molecular network by common and unique strategies.

Pichlmair Andreas A Kandasamy Kumaran K Alvisi Gualtiero G Mulhern Orla O Sacco Roberto R Habjan Matthias M Binder Marco M Stefanovic Adrijana A Eberle Carol-Ann CA Goncalves Adriana A Bürckstümmer Tilmann T Müller André C AC Fauster Astrid A Holze Cathleen C Lindsten Kristina K Goodbourn Stephen S Kochs Georg G Weber Friedemann F Bartenschlager Ralf R Bowie Andrew G AG Bennett Keiryn L KL Colinge Jacques J Superti-Furga Giulio G

Nature 20120701 7408

Viruses must enter host cells to replicate, assemble and propagate. Because of the restricted size of their genomes, viruses have had to evolve efficient ways of exploiting host cell processes to promote their own life cycles and also to escape host immune defence mechanisms. Many viral open reading frames (viORFs) with immune-modulating functions essential for productive viral growth have been identified across a range of viral classes. However, there has been no comprehensive study to identify ...[more]

PMID: 22810585

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Project description:Hepatitis C Virus is a leading cause of chronic liver disease. The identification and characterisation of key host cellular factors that play a role in the HCV replication cycle is important for the understanding of disease pathogenesis and the identification of novel anti-viral therapeutic targets. Gene expression profiling of HCV infected Huh7 cells by microarray analysis was performed to identify host cellular genes that are transcriptionally regulated by infection. The expression of host genes involved in cellular defence mechanisms (apoptosis, proliferation and anti-oxidant responses), cellular metabolism (lipid and protein metabolism) and intracellular transport (vesicle trafficking and cytoskeleton regulation) was significantly altered by HCV infection. The gene expression patterns identified provide insight into the potential mechanisms that contribute to HCV associated pathogenesis. These include an increase in pro-inflammatory and pro-apoptotic signalling and a decrease in the anti-oxidant response pathways of the infected cell. 5x105 Huh7 cells were seeded in 25cm2 culture flasks and infected in triplicate either with the genotype 2a HCV clone, JFH-1 at a multiplicity of infection (MOI) of 3 or mock infected with an equal volume of concentrated conditioned growth medium. At 6, 12, 18, 24 and 48 hours post-infection, cellular RNA was extracted using TRIzol reagent (Invitrogen). Trizol lysates were shipped to Expression Analysis (NC, USA) where RNA was purified, quality tested using the Agilent Bioanalyser and hybridised onto Human U133 Plus 2.0 Affymetrix microarray chips for fluorescence data acquisition. In summary, a total of 30 RNA samples were analysed including 3x mock infected samples taken at 6, 12, 18, 24 and 48 hours post-treatment and 3x JFH-1 infected samples taken at 6, 12, 18, 24 and 48 hours post-infection. Two samples (Mock_6hrs_1 and JFH-1_6hrs_1) did not pass our data quality control measures and were therefore excluded from the statistical analysis.

Dataset Information

Transcription profiling by array of Huh7.5 cells infected with Hepatitis C Virus Jc1

Publications

Viral immune modulators perturb the human molecular network by common and unique strategies.

Similar Datasets

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