Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10009167
Fusion event
HBV-SCN5A 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
2252
Orient
+
Integrated sequence
TAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGA| |GTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGA
Host Sequence
Chromosome
chr3
Cytoband
p22.2
Reference genome
Start
End
38631997/38590506 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-12127/Upstream/621026; hsa-let-7g/Downstream/547700;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/93926, chr3-CpG: 108/Downstream/58412
Upstream sequence
ctgaggcaggagaacggtgtgaaccagggagacggagcttgcagtgagccgagatagcgccgctaaggtctggcctgggttaaagggcgagactccgtct
Downstream sequence
ggtttctaggagttacagctaatggctgtaaagtgGATACTCTCTATGACAGGGCGATTATTGTTACTGTCAGCAGCATTTATTATGATTGCTGAGAGTG
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.