Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019436
Fusion event
HBV-RPL30 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
chr8
Cytoband
q22.2
Reference genome
Start
End
99054079/98041851 (Hg38)
Location type
Exon1
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-346 ; hsa-mir-320a ; hsa-mir-93-5p ; hsa-mir-20a-5p ; hsa-let-7a-5p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-7856-5p ; hsa-mir-450b-5p ; hsa-mir-6516-5p ; hsa-mir-6811-5p ; hsa-mir-4477b ; hsa-mir-6511b-5p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-125a-3p ; hsa-mir-4748 ; hsa-mir-4464
Nearest miRNA
hsa-mir-12123/Upstream/2968775; hsa-mir-10400/Downstream/351794;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/172156, chr8-CpG: 17/Downstream/3458
Upstream sequence
gcgttttctcctaaaagttttatagttttagcttttaagtttaggtctttgatccattttgagttaatttttgtaaatggtatgtataaggtaagagtct
Downstream sequence
taaaaaataaaaataaaaaaaCAGTAATTTTACAATTCATTTAATAGCAACTGGTACCATAAAATTTCTCTACCTTTGGTTATCCCTTCTGTAGACAATG
Target sequence
TGCAGGTGAAATTTTGTAGGTGAAAAGGTTTACTTTTCACCAGTCTGTTCTGGCATGCTTCTAATGATGTCAGAGTCACC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.