Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016040
Fusion event
HBV-CACNB2 integration
Validated
Yes
Detection method
Alu PCR and sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Not given
Start
1827
Orient
+
Host Sequence
Chromosome
chr10
Cytoband
p12.33
Reference genome
Start
End
18446090/18157161 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-mir-640 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-378a-5p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4680-5p ; hsa-mir-4635 ; hsa-mir-3653-5p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6865-3p ; hsa-mir-4260 ; hsa-mir-5572 ; hsa-mir-450a-2-3p ; hsa-mir-6857-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-4450 ; hsa-mir-2052 ; hsa-mir-186-3p ; hsa-mir-8087 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-208a-3p ; hsa-mir-208b-3p
Nearest miRNA
hsa-mir-1265/Upstream/311968; hsa-mir-107/Downstream/2394809;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/15870, chr10-CpG: 24/Downstream/494438
Upstream sequence
cctagctactcaggagtctgaggcacgagaattacttgagcccatgaggtggaggttgcagtggactgagatcacgccactgcactccagcctgggcaac
Downstream sequence
agagtgagactctgtctcaaaaagtaaaaaaaaaataaataaaaaTGTAATAAGTAAATAAAATGCCCTCTTTAAAGACACTCCTACATCTGGGCCAGTA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.