Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004930
Fusion event
HBV-BRD4 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
2492
Orient
-
Integrated sequence
AGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAACTTTACTGGGCTT| |TATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGATGTCAACAATATG
Host Sequence
Chromosome
chr19
Cytoband
p13.12
Reference genome
Start
End
15354812/15244001 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-2110 ; hsa-mir-877-3p ; hsa-mir-455-3p ; hsa-mir-484 ; hsa-mir-320a ; hsa-mir-544a ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-623 ; hsa-mir-6731-3p ; hsa-mir-6832-3p ; hsa-mir-3938 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-3613-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-380-3p ; hsa-mir-411-3p ; hsa-mir-379-3p ; hsa-mir-4495 ; hsa-mir-1228-3p ; hsa-mir-8485 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-1306-5p
Nearest miRNA
hsa-mir-10395/Upstream/64651; hsa-let-7e/Downstream/205547;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/4823, chr19-CpG: 154/Downstream/87449
Nearest cancer related gene
BRD4(OG, No orient, 0)
Upstream sequence
AGCTGCAGAGGGGTCCCAGCTTTTCCCATCTAACATGACGCCTGGCCCAGCAGCAGAAATAAGTCAAAATCATCTAGATTGTTACTCAAATGATGTCAGT
Downstream sequence
GTTTTAGAAACAAAAATCTTCTGAATCAACGTGTTAATAACTCCATGCATGACCTGTCTTGAGGCATCTCCTTTAACTTCCAAGATGGCCTCGAGAAGCC
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).