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WGS of liver cancer in the Japanese population

Hepatocellular carcinoma (HCC) is the third leading cancer-related cause of death and the seventh most common form of cancer worldwide, with an estimate of more than 700,000 new cases each year. The most established risk factors of HCC are chronic HBV and HCV infection. HBV infection is responsible for over 50% of the worldwide attributable risk of HCC, especially in East Asia and Africa, while in Japan and several Western countries HCV infection is the most common risk factor for HCC. To gain insights into the molecular alterations of virus-associated HCC, we performed whole genome sequencing (WGS) of 321 HCC tumors from 159 patients. This work was performed as a part of the ICGC (International Cancer Genome Consortium) project.

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00001000808 Illumina Genome Analyzer IIx Illumina HiSeq 2000 321
EGAD00001000809 Illumina HiSeq 2000 61
EGAD00001000842 Illumina HiSeq 2000 100
EGAD00001001035 Illumina Genome Analyzer IIx Illumina HiSeq 2000 66
EGAD00001001642 Illumina Genome Analyzer IIx Illumina HiSeq 2000 530
EGAD00001001643 Illumina Genome Analyzer IIx Illumina HiSeq 2000 59
EGAD00001001880 Illumina Genome Analyzer IIx Illumina HiSeq 2000 458
EGAD00001001881 Illumina Genome Analyzer IIx Illumina HiSeq 2000 528
EGAD00001001996 Illumina HiSeq 2000 13
Publications Citations
International network of cancer genome projects.
Nature 464: 2010 993-998
1356
Diverse modes of genomic alteration in hepatocellular carcinoma.
Genome Biol 15: 2014 436
75
Integrated analysis of whole genome and transcriptome sequencing reveals diverse transcriptomic aberrations driven by somatic genomic changes in liver cancers.
PLoS One 9: 2014 e114263
49
miR-135a-5p-mediated downregulation of protein tyrosine phosphatase receptor delta is a candidate driver of HCV-associated hepatocarcinogenesis.
Gut 67: 2018 953-962
41
Advances in genomic hepatocellular carcinoma research.
Gigascience 7: 2018 None
21
The Identification and Interpretation of cis-Regulatory Noncoding Mutations in Cancer.
High Throughput 8: 2018 E1
4
Genomic modeling of hepatitis B virus integration frequency in the human genome.
PLoS One 14: 2019 e0220376
24
Classification of primary liver cancer with immunosuppression mechanisms and correlation with genomic alterations.
EBioMedicine 53: 2020 102659
34
A Method for Identification of the Methylation Level of CpG Islands From NGS Data.
Sci Rep 10: 2020 8635
2
Preoperative immune landscape predisposes adverse outcomes in hepatocellular carcinoma patients with liver transplantation.
NPJ Precis Oncol 5: 2021 27
10
Apolipoprotein L1 High-Risk Genotypes and Albuminuria in Sub-Saharan African Populations.
Clin J Am Soc Nephrol 17: 2022 798-808
6