Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004287
Fusion event
HBV-RPL4 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
chr15
Cytoband
q22.31
Reference genome
Start
End
66795527/66503189 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-1180-3p ; hsa-mir-1237-3p ; hsa-mir-744-5p ; hsa-mir-330-5p ; hsa-mir-454-3p ; hsa-mir-652-3p ; hsa-mir-423-3p ; hsa-mir-324-3p ; hsa-mir-186-5p ; hsa-let-7a-5p ; hsa-mir-1260b ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-5095 ; hsa-mir-7151-3p ; hsa-mir-4731-5p ; hsa-mir-193b-5p ; hsa-mir-767-5p ; hsa-mir-7155-5p ; hsa-mir-3691-3p ; hsa-mir-5697 ; hsa-mir-502-3p ; hsa-mir-501-3p ; hsa-mir-4438 ; hsa-mir-562 ; hsa-mir-5695
Nearest miRNA
hsa-mir-10393/Upstream/6155; hsa-mir-11181/Downstream/2298661;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/5279, chr15-CpG: 58/Downstream/118714
Upstream sequence
TCCCACCACCTCGAACTCTGGGAATTCGAGCCACAGCTCTGCCAGTACCCCAAGACTCAGCACTAGTCTGATGACCTAAAATTGAGAAGAGATAAAAGTT
Downstream sequence
GTAGCTGCTTCATCATACATACCAACCCATGACTATTATGCATGGTAGCAAACAGCATCAGAACATCCGAGAAAATCATGTGGTTCAGAAACACGGACCA
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.