Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10010127
Fusion event
HBV-SCGB1C1 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
1901
Orient
+
Integrated sequence
TGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGG| |CATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACC
Host Sequence
Chromosome
chr11
Cytoband
p15.5
Reference genome
Start
End
194559/194559 (Hg38)
Orient
-
Location type
UTR3
Target gene
Nearest miRNA
hsa-let-7a-2/Downstream/14777;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/66782, chr11-CpG: 184/Downstream/12416
Upstream sequence
AGACATGGCTCAGCCATAGGACCTGCCACACAAGCAGCCGTGGACACAACGCCCACTACCACCTCCCACATGGAAATGTATCCTCAAACCGTTTAATCAA
Downstream sequence
TAAAGCCTCTTCCGCAGCTCAGGCTCCTGTCTCTGCCCCCACAGAGGGGCACACAAATGGGGACATCAGGAACACACTCGGGGCCACAGCCACACACACA
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.