Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009542
Fusion event
HBV-USP50 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
1936
Orient
-
Integrated sequence
CTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTA| |CTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCC
Host Sequence
Chromosome
chr15
Cytoband
q21.2
Reference genome
Start
End
50801329/50509132 (Hg38)
Orient
-
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-10393/Upstream/148722; hsa-mir-11181/Downstream/733058;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/84503, chr15-CpG: 84/Downstream/177014
Upstream sequence
ctgaggcaggagaatggcgtgaacccggggtcggagcttgcagtgagccaagatcgcgccactgtgctccagcctgggcgacagagcgagactccgtcac
Downstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaattacaaaattagctggacatggtgttgtgcctgtagttccatctacttgggaggctgaggtgggaggatgg
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.