Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019395
Fusion event
HBV-chr22 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr22
Cytoband
q11.23
Reference genome
Start
End
25506380/25110413 (Hg38)
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-1254 ; hsa-mir-1226-3p ; hsa-mir-940 ; hsa-mir-92b-5p ; hsa-mir-93-3p ; hsa-mir-590-5p ; hsa-mir-551b-3p ; hsa-mir-503-5p ; hsa-mir-423-3p ; hsa-mir-326 ; hsa-mir-192-5p ; hsa-mir-29b-3p ; hsa-mir-92a-3p ; hsa-mir-30a-3p ; hsa-mir-4252 ; hsa-mir-766-3p ; hsa-mir-4267 ; hsa-mir-6777-3p ; hsa-mir-508-5p ; hsa-mir-574-5p ; hsa-mir-1277-5p ; hsa-mir-6818-3p ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-4711-3p ; hsa-mir-223-5p ; hsa-mir-6895-3p ; hsa-mir-593-3p ; hsa-mir-5011-5p ; hsa-mir-335-3p ; hsa-mir-376a-3p ; hsa-mir-376b-3p ; hsa-mir-500a-3p ; hsa-mir-767-5p
Nearest miRNA
hsa-mir-1286/Upstream/2224034; hsa-let-7a-3/Downstream/345233;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/82150, chr22-CpG: 62/Downstream/68496
Upstream sequence
GTGGAAAGGACATAGGATGCATTCTGAGCGACCTGGGTTTCAATTGTGTACTTGGTGTCCGAAcaataaatatttacagagccctgactctgggccaggt
Downstream sequence
accatgtcagacctgggaaaacctggggtgggagcagctctggtgcatgcctggtgacatccttgctgtgtgaccttgggcaagtgaatctatgtctctg
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.