My NCBI Sign In
Jump to: Authorized Access | Attribution | Authorized Requests

Study Description

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.

  • Study Type: Case Set
  • Number of study subjects that have individual level data available through Authorized Access: 4

Authorized Access
Publicly Available Data (Public ftp)

Connect to the public download site. The site contains release notes and manifests. If available, the site also contains data dictionaries, variable summaries, documents, and truncated analyses.

Study Inclusion/Exclusion Criteria

Patients that were diagnosed with Hepatocellular carcinoma, Hepatitis C virus negative, and Hepatitis B virus positive or negative were included in the study.

Molecular Data
TypeSourcePlatformNumber of Oligos/SNPsSNP Batch IdComment
Whole Genome Sequencing Complete Genomics Inc. Incorporated Assembler Version 1.8 N/A N/A
RNA Sequencing Illumina HiSeq 2000 N/A N/A
Selected publications
Diseases Related to Study (MESH terms)
Links to Other NCBI Resources
Authorized Data Access Requests
Study Attribution
  • Principal Investigator
    • Zemin Zhang, PhD. Genentech Inc., San Francisco, CA, USA
  • Funding Source
    • Genentech Cancer Genome Program. Genentech Inc., San Francisco, CA, USA