Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014293
Fusion event
HBV-HCN1 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
Polymerase|large S protein|middle S protein|
Start
27
Orient
+
Integrated sequence
AATTCCACAACCTTCCACCAAACTCTG| |CAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATCT
Host Sequence
Chromosome
chr5
Cytoband
p12
Reference genome
Start
End
45349323/45349221 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10397/Upstream/6791660; hsa-mir-103a-1/Downstream/8602283;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/539631, chr5-CpG: 100/Downstream/346071
Upstream sequence
TTATTTCAAAATGATTTTTTAATTTTCTGACTTTAAATAAAATGACTACTTGTGGAACATGTTTAGCACAGGCAGTCTGTGGATGTGGGGTGCAGCAATG
Downstream sequence
ctcaaagccactcaactacatggaaactgaacaacctgctcctgaatgactactgggtacataacgaaatgaaggcagaaataaagatgttctttgaaac
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.