Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019591
Fusion event
HBV-TTR 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
chr18
Cytoband
q12.1
Reference genome
Start
End
29178556/31598593 (Hg38)
Location type
Intron3
Target gene
miRNAs that regulate target gene
hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-411-5p ; hsa-mir-4775 ; hsa-mir-6832-5p ; hsa-mir-1273f ; hsa-mir-4735-5p ; hsa-mir-6872-3p ; hsa-mir-6890-5p ; hsa-mir-590-3p ; hsa-mir-2355-5p ; hsa-mir-4772-3p ; hsa-mir-1304-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6777-3p ; hsa-mir-6890-3p ; hsa-mir-512-5p ; hsa-mir-6869-5p ; hsa-mir-4279 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6747-3p
Nearest miRNA
hsa-mir-1-2/Upstream/1299605; hsa-mir-122/Downstream/3993144;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/100002, chr18-CpG: 145/Downstream/86116
Upstream sequence
gctgggattacaggtgcggaccaccacacccagctaatttttgtattttcagtagaaacagggtttcaccatgttggccaggctgatctcgaactcctga
Downstream sequence
CCCCCGCCGCTACACCATTGCCGCCCTGCTGAGCCCCTACTCCTATTCCACCACGGCTGTCGTCACCAATCCCAAGGAATGAGGGACTTCTCCTCCAGTG
Target sequence
AGGTGGTATTCACAGCCAACGACTCCGG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.