Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013571
Fusion event
HBV-SLCO6A1 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
1807
Orient
-
Integrated sequence
CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA
Host Sequence
Chromosome
chr5
Cytoband
q21.1
Reference genome
End
101743941/102408237 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/1591672; hsa-mir-103a-1/Downstream/8105592;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/111568, chr5-CpG: 32/Downstream/90413
Upstream sequence
ttttgcatcaatgttcatcaaggatattggtctaaaattgtctttttttgttgtgtctctgcccagctttggtatcaggacgatgctggcctcataaaat
Downstream sequence
ttctctctctctctctttctgtgtctcccaaaataccttaatattttcagaccacagttgattgcaggtcatttaaattatggaTGCAGGGGCTACTGTA
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.