Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019491
Fusion event
HBV-LY6E 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
q24.3
Reference genome
End
144103770/143022353 (Hg38)
Location type
Exon4
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-744-5p ; hsa-mir-7847-3p ; hsa-mir-654-5p ; hsa-mir-541-3p ; hsa-mir-6880-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-486-3p ; hsa-mir-2861 ; hsa-mir-6721-5p ; hsa-mir-4736 ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-3665 ; hsa-mir-6722-3p ; hsa-mir-6836-5p ; hsa-mir-1909-3p ; hsa-mir-6132 ; hsa-mir-6798-5p ; hsa-mir-6732-5p
Nearest miRNA
hsa-mir-1204/Upstream/845909; hsa-mir-10400/Downstream/710730;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/3151, chr8-CpG: 17/Downstream/1905
Upstream sequence
atcctaaattccattttttccccataggattgccactcctgctttctttttgtttgcctggcatttttaactggaaatttcacttattcacattaattgt
Downstream sequence
CCACATTGGAGCCCTCCTGCTGCTTTGGTGCCTCAAATAAATACAGATGTCCCCCAGCTTCCTGCTCTGAGTGTGGCTGCCCCTTGCGGGGAGAGGCAGA
Target sequence
CCAGCCAGTCCTGCCCCAGCCCACCC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.