Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019091
Fusion event
HBV-SEMA5A 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
chr5
Cytoband
p15.31
Reference genome
Start
End
9475232/9475120 (Hg38)
Location type
Intron22
Target gene
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-218-5p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-100-3p ; hsa-mir-4270 ; hsa-mir-4709-3p ; hsa-mir-4645-3p ; hsa-mir-3185 ; hsa-mir-144-3p ; hsa-mir-8077 ; hsa-mir-496 ; hsa-mir-216a-5p ; hsa-mir-548c-3p ; hsa-mir-4695-3p ; hsa-mir-4772-3p ; hsa-mir-6787-3p ; hsa-mir-1304-3p ; hsa-mir-660-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-4714-3p
Nearest miRNA
hsa-mir-4277/Upstream/421225; hsa-mir-10397/Downstream/927244;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1016960, chr5-CpG: 138/Downstream/69460
Upstream sequence
GAGTATTCTTTTTGCAGCTCGTCATAATTTCTAGAGGTCATTATGATTTTGTCATGTTATTTTAATCACTTATTTGCATATTATTTGTATAATTTGGTAA
Downstream sequence
tgagtttcgccatgttggccaggctggtctcgaactcctgacctcaggtgatctgcccgccttggcctcccaaagtgctgggattacaggtgtgagccac
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.