Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005726
Fusion event
HBV-SGK2 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1526
Orient
+
Integrated sequence
ACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGGCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCG| |CACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACG
Host Sequence
Chromosome
chr20
Cytoband
q13.12
Reference genome
Start
End
42191771/43563131 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-103a-2/Upstream/2394053; hsa-mir-1-1/Downstream/844989;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/48180, chr20-CpG: 52/Downstream/27745
Upstream sequence
aggctgaggtgggagtatcacttgaacctgggaggcagaggttgcaatgagttgagatagcaccactgcactccagcctgggtgacagagcaagactctg
Downstream sequence
tctcaaaaaaaaaaaaaagaaagaaagaaaaaaaaagatttgggaactgacaagtatagttggttaaaccactaaaatggtagtgatcaactaaagaaca
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).