GEO DataSets

(Submitter supplied) We employed a highly sensitive technology, 3C-HTGTS (3C-high-throughput genome-wide sequencing), to globally identify HBV DNA-host DNA contacts in cellular models of HBV infection. We found that HBV cccDNA does not randomly position in host genome, but instead preferentially establishes contacts with the host DNA at active chromatin regions. In contrast, the organization of integrated HBV DNA is largely regulated by the local genome epigenetic environment, which particularly forms chromosome loop with host genome where gene promoters together with active histone modifications are enriched. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL20795

5 Samples

Download data: BEDGRAPH, BW

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Other; Expression profiling by high throughput sequencing

Platform:

GPL20795

11 Samples

Download data: BEDGRAPH, BW

(Submitter supplied) We employed a highly sensitive technology, 3C-HTGTS (3C-high-throughput genome-wide sequencing), to globally identify HBV DNA-host DNA contacts in cellular models of HBV infection. We found that HBV cccDNA does not randomly position in host genome, but instead preferentially establishes contacts with the host DNA at active chromatin regions. In contrast, the organization of integrated HBV DNA is largely regulated by the local genome epigenetic environment, which particularly forms chromosome loop with host genome where gene promoters together with active histone modifications are enriched. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20795

6 Samples

Download data: TXT

(Submitter supplied) Covalently closed circular DNA (cccDNA) forms the basis for replication and persistence of hepatitis B virus (HBV) in the chronically infected liver. We have previously shown through the analysis of de novo HBV infected cell lines that viral transcription is subject to regulation by posttranslational modifications (PTMs) of histone proteins bound to cccDNA. We now report the successful adaptation of this ChIPseq approach for the analysis of fine-needle patient liver biopsy specimens to investigate the role of histone PTMs in chronically HBV-infected patients. more...

Organism:

Homo sapiens; Hepatitis B virus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL15520 GPL24950

179 Samples

Download data: WIG, XLSX

(Submitter supplied) Chronic hepatitis B virus (HBV) infection affects 240 million people worldwide and is a major risk factor for liver failure and hepatocellular carcinoma. Current antiviral therapy inhibits cytoplasmic HBV genomic replication, but is not curative since it does not eliminate nuclear HBV cccDNA, the genomic form that templates viral transcription and sustains viral persistence. Novel approaches that directly target the transcriptional regulation of cccDNA would therefore be highly desirable. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL15520 GPL16791

26 Samples

Download data: BEDGRAPH

(Submitter supplied) In hepatocyte nuclei, hepatitis B virus (HBV) genomes occur episomally as covalently closed circular DNA (cccDNA). The HBV X protein (HBx) is required to initiate and maintain HBV replication and acts as host gene trans-regulator. However, functionally relevant spatiotemporal localization and interactions of cccDNA and HBx remain to be understood. This is the first study utilizing circularized chromosome conformation capture (4C) to identify regional virus-host genome interactions. more...

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:

GPL18573 GPL19057

31 Samples

Download data: BIGWIG

(Submitter supplied) Curing treatment for HBV infection is yet unavailable, mainly due to unmet gaps in current understanding of the details about HBV-host interaction. By quantitatively assessing HBV-induced global changes in host transcriptome, translatome and proteome, we identified multiple previously unknown transcriptional and translational events that HBV orchestrated to remodel host proteostasis networks and afford micro-environments essential for HBV proliferation and persistence.By delineating novel drug targets and biomarkers in HBV-host interaction, multi-omics interrogation may facilitate the development of next-generation therapeutics or diagnostics against HBV infection and the related maladies.

Organism:

Homo sapiens

Type:

Other; Expression profiling by high throughput sequencing

Platform:

GPL16791

12 Samples

Download data: CSV