E-GEOD-58116
Ontology highlight
ABSTRACT:
OTHER RELATED OMICS DATASETS IN: PRJNA248947
PROVIDER: E-GEOD-58116 | ExpressionAtlas | 2019-05-14
REPOSITORIES: ExpressionAtlas
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| E-GEOD-58116-analysis-methods.tsv | Tabular | |||
| E-GEOD-58116-analytics.tsv | Tabular | |||
| E-GEOD-58116-analytics.tsv.undecorated | Tabular | |||
| E-GEOD-58116-analytics.tsv.undecorated.unrounded | Tabular | |||
| E-GEOD-58116-analytics.tsv.unrounded | Tabular |
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Project description:<p>Hepatitis B virus (HBV) infection is a major risk factor for hepatocellular carcinoma (HCC). In this study we sequenced the whole genome (~80X) and transcriptome of tumor and non-tumor samples from four HCC patients and identified over two hundred HBV integration sites. We found significant clonal expansion of HBV-integrated hepatocytes specifically in the tumor samples. We observed a diverse collection of genomic perturbations near viral integration sites, including gene disruption, viral promoter-driven human transcription, viral-human transcript fusion and DNA copy number alteration. We also sequenced one patient at ultra-high coverage (~240X) to build the most comprehensive HBV-integration landscape yet attempted. Our data suggest that the viral integration significantly expands carcinogenic opportunities in HBV-infected individuals.</p>
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