Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005225
Fusion event
HBV-NAP1L4 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
1802
Orient
+
Integrated sequence
ATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGT| |TCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCAT
Host Sequence
Chromosome
chr11
Cytoband
p15.4
Reference genome
Start
End
2976900/2955670 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-6840-3p ; hsa-mir-659-5p ; hsa-mir-1324 ; hsa-mir-1228-3p ; hsa-mir-4524b-3p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-4291 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-4261 ; hsa-mir-8064 ; hsa-mir-875-3p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-922 ; hsa-mir-10b-3p ; hsa-mir-512-5p ; hsa-mir-3120-3p
Nearest miRNA
hsa-mir-210/Upstream/782532; hsa-let-7a-2/Downstream/900392;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/10798, chr11-CpG: 149/Downstream/35899
Upstream sequence
caaactcctggactcgtgcagtcctcccacctcagcctcccaaagcattaagatcactggcatACCCAGTCCACACACAGCCAGGACTGGACTTTTTTTA
Downstream sequence
ACAAGTAGACAAGTAGACATTCACTCAGGAGAGACTTCAACAGGAAAATAAGACTATTAACAACAAATCTTACCAGTGATTCTCCATCCCCGGATGCTAG
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).