Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005406
Fusion event
HBV-SIN3A 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
1852
Orient
-
Integrated sequence
TTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCA| |TGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTT
Host Sequence
Chromosome
chr15
Cytoband
q24.2
Reference genome
Start
End
75715437/75423096 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-455-3p ; hsa-mir-93-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-218-5p ; hsa-mir-210-3p ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-6796-5p ; hsa-mir-6759-5p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-4668-5p ; hsa-mir-4267 ; hsa-mir-4762-5p ; hsa-mir-5586-5p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-548c-3p ; hsa-mir-1343-5p ; hsa-mir-149-3p ; hsa-mir-3150a-3p ; hsa-mir-3151-5p ; hsa-mir-3175 ; hsa-mir-4447 ; hsa-mir-4472 ; hsa-mir-4519 ; hsa-mir-4728-5p ; hsa-mir-491-5p ; hsa-mir-5190 ; hsa-mir-591 ; hsa-mir-6081 ; hsa-mir-6731-5p ; hsa-mir-6742-5p ; hsa-mir-6763-5p ; hsa-mir-6785-5p ; hsa-mir-6825-5p ; hsa-mir-6856-5p ; hsa-mir-6883-5p ; hsa-mir-8085 ; hsa-mir-939-5p
Nearest miRNA
hsa-mir-10393/Upstream/69411; hsa-mir-11181/Downstream/339119;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/54377, chr15-CpG: 401/Downstream/27644
Upstream sequence
gttcaaggctgcagtgagctatgatcatgccactgcattccagcttgggccacagagtgagaccacgtctctaaaaagagaaaagaaagcctgggcaaca
Downstream sequence
tagtgacacccatctccacaaaaaataaaaacttggccaggcatggcaacatgcacctgtggtcccacctactccagaggctaaaggaggaggattgctt
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).