Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001557
Fusion event
HBV-SLBP integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
Start
End
1709026/1707299 (Hg38)
Location type
Intronic
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/1357047; hsa-mir-12113/Downstream/279085;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/22555, chr4-CpG: 188/Downstream/4241
Upstream sequence
ccttaatgagtttctgaaagaagctaTTTATAGAATGTGACTGTATTCTTTGAGAaatggttgggaagtagagactgtgtaaccgcctggacttggatct
Downstream sequence
gttcaagaccagcctggctaacatggtgaaacgctgtctctactaaaaatacaaaaatcagctgggtgtggtggtgggtgcctataatcccagctactcg
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.