Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005705
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
1800
Orient
+
Integrated sequence
GCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCT| |GTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGC
Host Sequence
Chromosome
chr13
Cytoband
q14.3
Reference genome
Start
End
52661909/52087773 (Hg38)
Orient
+
Location type
Intron
Target gene
Nearest miRNA
hsa-mir-15a/Upstream/535106; hsa-mir-1267/Downstream/722277;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/75342, chr13-CpG: 63/Downstream/40864
Upstream sequence
ggagtacagcggcatgatcttggctcactgcagcctccaactcctaggctcaagcaattgtcctgtctcagccttccgagtagctgggactacaggcacc
Downstream sequence
cgccaccacacccggctaattttttgtattttcagtagagacagggtttcactgtgttagccaggatggtctcaatctcctgacctcgtgatctgcccgc
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).