Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10011866
Fusion event
HBV-SCAPER 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
X protein|
Start
1794
Orient
-
Integrated sequence
ACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAA| |ATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGC
Host Sequence
Chromosome
chr15
Cytoband
q24.3
Reference genome
Start
End
76655801/76363460 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10393/Upstream/601145; hsa-mir-11181/Downstream/2846328;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/15978, chr15-CpG: 77/Downstream/541457
Upstream sequence
AGGACTCAGATAACACCATCTTTCTATGTGTGAGAACAGTTAGCTGAGTATTTTGGCCAGCACCCTAACTGGTCCAACAGCCTCTTGGCACAGTGCCACA
Downstream sequence
GAGAGGAGGGGTAGGGTAGGGCAGAAGCAGCTTCTTTCTGCTGGCTTTGTAAGCACCTGTCAAAACCTAAGGCCAAATCGGTTCCATTGGTTGGTGTGGT
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.