Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005338
Fusion event
HBV-PRUNE2 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
2714
Orient
-
Integrated sequence
AAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACAT| |GCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTTCATTTTGTG
Host Sequence
Chromosome
chr9
Cytoband
q21.2
Reference genome
Start
End
79425182/76810266 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-196a-5p ; hsa-mir-93-5p ; hsa-mir-19b-3p ; hsa-mir-769-5p ; hsa-mir-382-3p ; hsa-mir-527 ; hsa-mir-518a-5p ; hsa-mir-4671-3p ; hsa-mir-593-5p ; hsa-mir-6124 ; hsa-mir-4733-3p ; hsa-mir-3148 ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-570-5p ; hsa-mir-548ba ; hsa-mir-548ai ; hsa-mir-548ag ; hsa-mir-4796-3p ; hsa-mir-548m ; hsa-mir-196b-5p ; hsa-mir-301a-3p ; hsa-mir-3666 ; hsa-mir-130a-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-4295 ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/6000182; hsa-let-7a-1/Downstream/7159482;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/350621, chr9-CpG: 75/Downstream/95621
Upstream sequence
aaacttttatactactagcttttatatttaggcatatatgatccattctcatcacataatggtatgactgctatgatttatgggttggtgtttatttttc
Downstream sequence
acagacctatttcaaagggtagtcatggaggttcaatgagaaaatAAAAATCAAATGTAAGGTATATACACTCAAAAAAGGTATGATAGACATTCAATGA
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).