Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019517
Fusion event
HBV-RPLP1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr15
Cytoband
q23
Reference genome
Start
End
69745359/69453020 (Hg38)
Location type
Exon1
Target gene
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-mir-1180-3p ; hsa-mir-877-5p ; hsa-mir-744-5p ; hsa-mir-296-3p ; hsa-mir-423-3p ; hsa-mir-324-3p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-204-5p ; hsa-mir-100-5p ; hsa-mir-92a-3p ; hsa-mir-32-5p ; hsa-mir-3188 ; hsa-mir-3605-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-5010-3p ; hsa-mir-3692-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-4748 ; hsa-mir-4464
Nearest miRNA
hsa-mir-10393/Upstream/651022; hsa-mir-11181/Downstream/626352;
Nearest CpG islands
chr15-CpG: 72/Target, None/Upstream, None/Downstream
Upstream sequence
GAACCTATGGATTTTTGTTTCCAAGTTTACAGAATTTGATGCTCGAAAACTGCATAAGTTATACAAGATGGCTCATAAGAAAAGGTCTCAAGAAGAAGAG
Downstream sequence
GTGAGTgcgggcgcgggccggcggccgggcTGCCTGTGGGCGGTGACTTTCGGCTCTCCATGCGGTTCCCGGCTCCAGGCCGTTCGACTGAGCACTTCCG
Target sequence
CATGGCCTCTGTCTCCGAGCTCGCCTGCATCTACTCGGCCCTCATTCTGCACGACGATGAGGTGACAGTCACG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.