Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019501
Fusion event
HBV-STAU1 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
chr20
Cytoband
q13.13
Reference genome
Start
End
47794907/49178370 (Hg38)
Location type
Intron12
Target gene
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-27a-3p ; hsa-mir-16-5p ; hsa-mir-877-5p ; hsa-mir-30e-5p ; hsa-mir-5011-5p ; hsa-mir-218-5p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-6513-5p ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-222-5p ; hsa-mir-190a-3p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-1290 ; hsa-mir-16-1-3p ; hsa-mir-4781-3p ; hsa-mir-218-2-3p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/2011312; hsa-mir-1-1/Downstream/685489;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/131458, chr20-CpG: 83/Downstream/9446
Upstream sequence
gcttggagcctcagttacctcatctgtaatttgggaacatcaaccctgcctgataagacggttgtgagggttgagtgagcacagacattcagtggacctg
Downstream sequence
tgggaggccaaggtgggccaatcacctgaagtcaggagtttgaggctaggctggccaacatggtgaaatcccatctctactaaaaatacaaaaattaggc
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.