Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009547
Fusion event
HBV-HS3ST4 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|precore/core protein|
Start
1814
Orient
-
Integrated sequence
GACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCAC| |CATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGAC
Host Sequence
Chromosome
chr16
Cytoband
p12.1
Reference genome
Start
End
25771423/25760102 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-1225/Upstream/1556871; hsa-mir-11401/Downstream/265135;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/66792, chr16-CpG: 34/Downstream/1349588
Upstream sequence
aaaactgaggctaacagagatgaaggtgaaggtcaatggcatctccgggacttgaacttcaatctgggagactttgtgcGTCTATGAGGGCTGCCAtagc
Downstream sequence
cctaaccctaaccctaaccctaaccctaactctaaccctaaccctaaccctaacACTTTGTTTAGGGCTCAACAACACTGTTAAAGCCactgggtgcctt
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.