Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10014540
Fusion event
HBV-SETMAR 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
2183
Orient
+
Integrated sequence
GCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGG| |CCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGC
Host Sequence
Chromosome
chr4
Cytoband
q32.3
Reference genome
End
164545148/163623996 (Hg38)
Orient
+
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-12113/Upstream/530368; hsa-mir-1305/Downstream/1762246;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/128962, chr4-CpG: 36/Downstream/564286
Upstream sequence
gaatattcagtattatacatatatttctctccaaaattaacacaaatttcaatgtataatctgagaatatttcatggtcacgtacaaaagatgattctaa
Downstream sequence
TGAATGGGATGGTGATAATACCTCGTGAACCGTAACATCACAATTACTGGGTTGGATGAGGTGCAAGTGGGTGGGGAAGCATGCAGTATCCCAAGAATAT
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.