Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10008114
Fusion event
HBV-RTN1 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
precore/core protein|Core and e antigen|
Start
1956
Orient
+
Integrated sequence
TCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTT| |TTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACC
Host Sequence
Chromosome
chr14
Cytoband
q23.1
Reference genome
Start
End
60324688/59857970 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-208a/Upstream/210950; hsa-mir-1185-1/Downstream/790678;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/130386, chr14-CpG: 72/Downstream/12263
Upstream sequence
GATAAGCTATGAAACTAGGCTCATCATTGCTCACTTCCTTGTCATCATCCCCATACTCAGACTGCCTTTCTGCTCACTTCTGCCCCCTTCCAATTCTATC
Downstream sequence
CATCCTTCAAGAGACCAGGTACATTGGAACCCATACAGTCATGAAATTCGTGTCACACATATAGCTTGTACCATCCATCCAAGCAACAAGCTGCATGCTG
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.