Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016396
Fusion event
HBV-PRKACB integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1042
End
1077
Orient
-
Integrated sequence
TTATCCTGCGTTGATGCCTTTGTATGCATGTATTCA
Host Sequence
Chromosome
chr1
Cytoband
p31.1
Reference genome
Start
End
84544421/84078738 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-23b-3p ; hsa-mir-93-5p ; hsa-mir-19b-3p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-20a-5p ; hsa-mir-106a-5p ; hsa-mir-203a-3p ; hsa-mir-106b-5p ; hsa-mir-302a-3p ; hsa-mir-302b-3p ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-372-3p ; hsa-mir-373-3p ; hsa-mir-20b-5p ; hsa-mir-520e ; hsa-mir-520f-3p ; hsa-mir-520a-3p ; hsa-mir-526b-3p ; hsa-mir-520b ; hsa-mir-520c-3p ; hsa-mir-519d-3p ; hsa-mir-520d-3p ; hsa-mir-513a-3p ; hsa-mir-636 ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-302e ; hsa-mir-513c-3p ; hsa-mir-548x-5p ; hsa-mir-3606-3p ; hsa-mir-3622a-3p ; hsa-mir-3622b-3p ; hsa-mir-1273e ; hsa-mir-3660 ; hsa-mir-548aj-5p ; hsa-mir-4526 ; hsa-mir-548aw ; hsa-mir-3692-3p ; hsa-mir-7158-3p ; hsa-mir-1468-3p ; hsa-mir-2277-3p ; hsa-mir-4539 ; hsa-mir-4724-5p ; hsa-mir-3120-3p
Nearest miRNA
hsa-mir-101-1/Upstream/7018501; hsa-mir-11399/Downstream/1055056;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/125, chr1-CpG: 77/Downstream/219687
Upstream sequence
TCAAGTCAGCAAATACTATTTGTTTTTGTCTCATTCCTACAAACATTCTAAGTCATTCTAAGGCGGTCAAGTGGGTCAACATTTTCCCTGTGAAGATTGA
Downstream sequence
GCTACAGGTAGTGCTGTGGGTAAGGTTGGCTCTTCTCCCTCCATCACTTGGGTCCGACCCAACCTTATCACAAGGCGGGGGCTGCTAGTCTGGCTCTACG
Target sequence
CACCCCTGCTTTCCCCCCTCGCCGACTCTTTGGGA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.