VPS13B _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019176
Fusion event
HBV-VPS13B integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr8
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
100151483/99139255 (Hg38)
End
100151483/99139255 (Hg38)
Location type
Intron12
Target gene
VPS13B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-30e-5p ; hsa-mir-186-5p ; hsa-mir-3613-5p ; hsa-mir-4494 ; hsa-mir-499b-5p ; hsa-mir-4705
Nearest miRNA
hsa-mir-12123/Upstream/745517; hsa-mir-10400/Downstream/397381;
Nearest TSS
ENST00000518652/Upstream/36196; ENST00000521932/Downstream/17374;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/125484, chr8-CpG: 35/Downstream/754174
Upstream sequence
TGGTCCCCCAGGACCTGCCCACTCTCCCAGGTCAGCAGCAGCCCCACAAACAGCAGCAGAGTCTTCATCATGCCTCCAATTCTGGAGTCTTTGCACGCCT
Downstream sequence
tttgagattcatgagaaccactgtcttgcttttGGTttatccccattttacagatgaggaaacagcaaacccaatacaggtaaagtaacaagaaccaaga
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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