Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019405
Fusion event
HBV-SLBP integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
Start
End
1709042/1707315 (Hg38)
Location type
Intron6
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-106a-3p ; hsa-mir-3124-3p ; hsa-mir-4733-5p ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-548e-5p ; hsa-mir-129-5p ; hsa-mir-8064 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4643 ; hsa-mir-105-5p ; hsa-mir-1197 ; hsa-mir-370-3p ; hsa-mir-6893-3p ; hsa-mir-7853-5p
Nearest miRNA
hsa-mir-571/Upstream/1356974; hsa-mir-12113/Downstream/279069;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/22482, chr4-CpG: 188/Downstream/4225
Upstream sequence
TGCTGACTGAATAATTGCCACGTTGGGTCTGCCCAAATGGTGAGAACCATGGCAGGCAGGAGATGGATAGAAGAAACAAGGTGAATATAACAGTAAGTGG
Downstream sequence
gctaacatggtgaaacgctgtctctactaaaaatacaaaaatcagctgggtgtggtggtgggtgcctataatcccagctactcgggaggctaaggcagga
Target sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagagttcaagaccagcctg
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.