Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004782
Fusion event
HBV-chr1 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
1860
Orient
-
Integrated sequence
AAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTAC| |TGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCT
Host Sequence
Chromosome
chr1
Cytoband
p35.3
Reference genome
Start
End
28973766/28647254 (Hg38)
Orient
+
Location type
Promoter TAF12,Promoter
miRNAs that regulate target gene
hsa-mir-92b-3p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-6878-5p ; hsa-mir-4271 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4668-5p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-3202 ; hsa-mir-7515 ; hsa-mir-6124 ; hsa-mir-6783-5p ; hsa-mir-6760-5p ; hsa-mir-5584-5p ; hsa-mir-548k ; hsa-mir-8054 ; hsa-mir-548av-5p
Nearest miRNA
hsa-mir-12136/Upstream/2092661; hsa-mir-101-1/Downstream/2091902;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/3868, chr1-CpG: 71/Downstream/21405
Upstream sequence
atatacgatgtgtacatacatagaaagcagtctggcaagataaacactaaactgttcacagtTTGGAGGAAGCATTTTCACATTTTATAACATCTCTGTG
Downstream sequence
CTGTTTCAATTTCTTTACAATTGTCACATAttgttttttttttattttcttgagacaagatcttcatctgtcacctaggctggagtgcagtggcatgatt
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).