Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10003466
Fusion event
HBV-COL5A1 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
chr9
Cytoband
q34.3
Reference genome
End
137525252/134633406 (Hg38)
Location type
Promoter
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-744-5p ; hsa-mir-145-5p ; hsa-mir-143-3p ; hsa-mir-543 ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6778-5p ; hsa-mir-6825-5p ; hsa-mir-1233-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-6878-5p ; hsa-mir-7106-5p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6760-5p ; hsa-mir-29b-1-5p ; hsa-mir-29b-3p
Nearest miRNA
hsa-let-7a-1/Upstream/253934; hsa-mir-126/Downstream/215892;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/41208, chr9-CpG: 91/Downstream/8259
Upstream sequence
actaatcccattcataagggctcggcccccaagacctggtcacctcccaaGTGTTCTGCTCTCCCTGATCTGTGTCATATACAGACTCTCTTGGATTCCT
Downstream sequence
atatgtcttcatagcagtgtgggaacagactgatacaCCACGTCTGGGAACAGGCAGGGCCACAGTGCCTACCTCGCGGGGGCCTGGCCAGAGGTGCACT
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.