Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002481
Fusion event
HBV-NIPBL 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
chr5
Cytoband
p13.2
Reference genome
Start
End
36945511/36945409 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-421 ; hsa-mir-21-5p ; hsa-let-7b-5p ; hsa-mir-18a-3p ; hsa-mir-30b-5p ; hsa-mir-183-5p ; hsa-let-7a-5p ; hsa-mir-136-5p ; hsa-mir-369-3p ; hsa-mir-4738-5p ; hsa-mir-3936 ; hsa-let-7c-3p ; hsa-mir-6842-3p ; hsa-mir-647 ; hsa-mir-6762-3p ; hsa-mir-4666b ; hsa-mir-604 ; hsa-mir-664a-3p ; hsa-mir-4760-3p
Nearest miRNA
hsa-mir-10397/Upstream/797421; hsa-mir-103a-1/Downstream/1612093;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/67851, chr5-CpG: 28/Downstream/263561
Upstream sequence
ACGAACGTGGCCAGCGGCAGCACCTCGCGGTAGTGGCTGCGCAGCAGGGAGCGCACGGCTCGGCAGCGGGGAGCGCGCGGCATCGCGGGGGTGGCCGGGG
Downstream sequence
TTTATAAACTGCTTTTGAGAAACCCTAAATCTCAACTTTATTTACTTAGTGGTAACTTTTCTTTCTCTGCATAATAGTACTCAGTAGTGTAAATATATCC
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.