Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005706
Fusion event
HBV-NEK5 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
1685
Orient
-
Integrated sequence
TCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCA| |ACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTA
Host Sequence
Chromosome
chr13
Cytoband
q14.3
Reference genome
Start
End
52661894/52087758 (Hg38)
Orient
-
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-15a/Upstream/535091; hsa-mir-1267/Downstream/722292;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/75327, chr13-CpG: 63/Downstream/40879
Upstream sequence
tctgtcacccaggctggagtacagcggcatgatcttggctcactgcagcctccaactcctaggctcaagcaattgtcctgtctcagccttccgagtagct
Downstream sequence
gggactacaggcacccgccaccacacccggctaattttttgtattttcagtagagacagggtttcactgtgttagccaggatggtctcaatctcctgacc
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).