Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019555
Fusion event
HBV-LARP4B 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
chr10
Cytoband
p15.3
Reference genome
Start
End
878317/832377 (Hg38)
Location type
Intron10
Target gene
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-30a-5p ; hsa-let-7d-5p ; hsa-mir-218-5p ; hsa-mir-4642 ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-3622b-5p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4715-5p ; hsa-mir-106a-3p ; hsa-mir-191-3p ; hsa-mir-603 ; hsa-mir-6776-3p ; hsa-mir-3941 ; hsa-mir-4789-3p ; hsa-mir-8485 ; hsa-mir-6822-3p ; hsa-mir-21-3p ; hsa-mir-3591-3p ; hsa-mir-4768-5p ; hsa-mir-6833-3p ; hsa-mir-6873-3p
Nearest miRNA
hsa-mir-5699/Upstream/190493; hsa-mir-107/Downstream/1243642;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/22326, chr10-CpG: 134/Downstream/98972
Upstream sequence
ttgtgaattatacctcaataatgctggaaTTAAAaaaaatgcaggagccttttgccagggctcctcagcagtgagataattctcccctgtctatcatgtg
Downstream sequence
ggagatgaaaaatacaatgtctgaaattaaaactacactaaataagattaacagctgactagacactttctgaagaaaagGACAAAAGGCAGAGGAAAAC
Target sequence
tgacctcgtgatccgcccgcctcagcctcccaaagtgctgggattacaggcatgagccactgcgcccggccagattttttttaaaagaccaaaatcaaactttact
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.