Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from 'naïve' and HVC-replicon containing Huh7 cells (Clone A cells)

ABSTRACT: Cyclophilin binding drugs, NIM811 and cyclosporin A (CsA), inhibit the replication of HCV replicon. We investigated the mode of action of these drugs and identified host factors essential for HCV replication in a subgenomic replicon model.

ORGANISM(S): Homo sapiens

PROVIDER: GSE15935 | GEO | 2009/05/03

SECONDARY ACCESSION(S): PRJNA116979

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcription profiling of human naive and HVC-replicon containing Huh7 cells were treated with CsA or NIM811 to investigate mode of action of these drugs and identified host factors essential for HCV replication in a subgenomic replicon model.

Project description:Cyclophilin binding drugs, NIM811 and cyclosporin A (CsA), inhibit the replication of HCV replicon. We investigated the mode of action of these drugs and identified host factors essential for HCV replication in a subgenomic replicon model. Experiment Overall Design: Cultured Huh7 cell were treated with CsA or NIM811 at different concentrations. Cells were harvested after 12, 24 or 48 hours. The extracted mRNA were hybridized on Affymetrix U133 Plus 2 microarrays.

2009-05-11 | E-GEOD-15935 | biostudies-arrayexpress

Expression data from Tp80-Treated HCV replicon cell, Huh7/RepFeo.

Project description:Tp80 is a novel antiviral compound. Antiviral mechanism of Tp80 is the inhibition of the viral genome replication through the recoverly of GPx2 expression downregulated by HCV infection. We used microarrays to evaluated the effect of Tp80 on the transcriptome of HCV replicon cells, compared with Non-infected host cells or non-treated HCV replicon cells.

2016-12-20 | GSE60488 | GEO

Quantitative mRNA expression comparison of Hepatitis C Virus replicon (2a) on Huh7.5 cell lines

Project description:We developed transcriptome expression assisted non-directed proteome profiling (TEAnDPP) method to investigate host-pathogen interaction. Analysis of HCV replicon induced host-cell metabolism perturbation at gene expression level. Gene enrichment analysis on DEG revealed disulfide formation related genes were significantly enriched. Based on this observation, we addminitrated thiol reactive chemical probes to visualize reactive thiol profile in live cell, and observed unique reactivity profile. Using SILAC-based quantitative profiling method, we identified 26 proteins that are labeled by iodoacetamide probes. Among these proteins, we discovered t-plastin was upregulated in APC140 cells, and its knock-down experiment showed significant HCV replication inhibition effect. In short, TEAnDPP strategy demonstrated its usefulness in host-pathogen interaction study for HCV infection.

2014-10-21 | GSE62546 | GEO

Gene expression analysis of different passages and subclones of the Huh7 cell line

Project description:Hepatitis C Virus (HCV) has a extremely narrow host cell tropism and robustly infects only very few cell lines, most importantly the human hepatoma cell line Huh7. This cell line was isolated from a 57-year old Japanese male with fulminant hepatitis. Different subclones and passages of the Huh7 cell line show up to 1000-fold differences in HCV replication efficiency (permissiveness). In this experiment, we sought to identify factors responsible for these differences by correlating gene expression from eight different uninfected Huh7 variants with their respective HCV permissiveness. HCV replication efficiency was determined using electroporation of a subgenomic luciferase reporter replicon (genotype 1b, "con1/ET") and measuring luciferase activity at 48h post transfection normalized to the input value at 4h p.t.. "Relative permissiveness" of cell lines corresponds to their replication efficiency, normalized to the efficiency in the lowest permissive cells (Huh7 p13 and p28).

2019-11-08 | GSE140114 | GEO

Quantitative mRNA expression comparison of Hepatitis C Virus replicon (2a) on Huh7.5 cell lines

Project description:Analysis of HCV replicon induced host-cell metabolism perturbation at gene expression level. Total RNA obtained from APC140 (stable cell line expressing HCV2a replicon) was compared to vehicle cell line (Huh7.5).

2014-10-21 | E-GEOD-62546 | biostudies-arrayexpress

Transcription profiling of human hepatitis C virus replicon cell line treated with interferon-alpha 2a in a time series

Project description:Temporal analysis of genes regulated by Interferon-alpha 2a in a HCV (Hepatitis C Virus) Replicon Cell line

2011-11-08 | E-MEXP-714 | biostudies-arrayexpress

CREB3L1 Target Genes in Response to Hepatitis C Replicon Infection

Project description:Membrane-bound transcription factor CREB3L1 undergoes Regulated Intramembrane Proteolysis (RIP) in response to Hepatitis C infection. RIP activates CREB3L1 so that it can prevent the growth of HCV infected cells through the action of downstream genes. We over-expressed a truncated form of CREB3L1 that does not require RIP to enter the nucleus. Cells over-expressing this truncated form were isolated by Fluorescence Activated Cell Sorting (FACS). We used microarray to determine the downstream genes of CREB3L1 in comparison to a flow sorted empty vector control. HCV Replicon-containing cells were transfected with a CREB3L1Δ381-519 to determine the downstream genes.

2011-05-01 | E-GEOD-25157 | biostudies-arrayexpress

Transcription profiling of human hepatoma-derived Huh7 cells carrying the Hepatitus C virus clone 21-5, cells in which the virus has been eliminated and parental cells

Project description:Hepatitis C virus (HCV) RNA synthesis and protein expression affect cell homeostasis by modulation of gene expression. The impact of HCV replication on global cell transcription has not been fully evaluated. Thus, we analysed the expression profiles of different clones of human hepatoma-derived Huh7 cells carrying a self-replicating HCV RNA which express all viral proteins (HCV replicon system). First, we compared the expression profile of HCV replicon clone 21-5 with both the Huh-7 parental cells and the 21-5 cured (21-5c) cells. In these latter, the HCV RNA has been eliminated by IFN-? treatment. To confirm data, we also analyzed microarray results from both the 21-5 and two other HCV replicon clones, 22-6 and 21-7, compared to the Huh-7 cells. The study was carried out by using the Applied Biosystems (AB) Human Genome Survey Microarray v1.0 which provides 31,700 probes that correspond to 27,868 human genes. A total of 15 hybridization were performed, allowing to compare transcription profiles among the following groups of cell lines: - HCV replicon clone: 21-5 (4 hybs) - cured HCV replicon clone: 21-5c (4 hybs) - parental cell line: Huh-7 (4 hybs) - other HCV replicon clones: 21-7 (2 hybs); 22-6 (1 hyb)

2008-06-27 | E-MEXP-1686 | biostudies-arrayexpress

Transcription profiling of Drosophila cells to FHV RNA1 replicon expression (replicon experiment)

Project description:Virus infections induce cellular gene up and down regulation, and these changes often provide clues to cellular pathways utilized by viruses. We used microarrays to examine the transcriptional responses of cultured Drosophila S2 cells to Flock House virus (FHV) replicon induction. Experiment Overall Design: Cultured S2 cells stably transfected with either a control replicon (pS2F1fs) or an FHV RNA1 replicon (pS2F1) were induced with 1 mM copper and we measured global transcript levels at 18 h after induction using Affymetrix Drosophila Genome 2.0 microarray chips.

2009-04-11 | E-GEOD-15467 | biostudies-arrayexpress