Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019236
Fusion event
HBV-SCIN 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
chr7
Cytoband
p21.3
Reference genome
Start
End
12689794/12650169 (Hg38)
Location type
Intron12
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4734 ; hsa-mir-182-3p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-5002-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-3163 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-5582-3p ; hsa-mir-8485 ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6857-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-1267 ; hsa-mir-129-5p ; hsa-mir-3672 ; hsa-mir-367-5p ; hsa-mir-4423-5p ; hsa-mir-4524a-3p ; hsa-mir-4797-5p ; hsa-mir-5007-5p ; hsa-mir-593-3p ; hsa-mir-6501-5p ; hsa-mir-6864-3p ; hsa-mir-744-3p ; hsa-mir-8055
Nearest miRNA
hsa-mir-339/Upstream/5583124; hsa-mir-10399/Downstream/5477051;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/78960, chr7-CpG: 111/Downstream/36362
Upstream sequence
gggaatggccccaagccattcattagggatctgccttgggatccaacacctcccaccaggtccatctccaacatcagtggttacatttcaacatgagatt
Downstream sequence
GAGTCAAGCACAGAGATTGTTCCTTTTAAGTTTGTTCCCAATTAATAAACCATTCAGTTATATCACACCCTAGCTTCTGATCTACAATGACCATGTTTGA
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.