Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019250
Fusion event
HBV-GPC5 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
chr13
Cytoband
q31.3
Reference genome
Start
End
93007261/92355008 (Hg38)
Location type
Intron7
Target gene
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-20a-3p ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-6868-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-3124-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6809-3p ; hsa-mir-1238-3p ; hsa-mir-4753-3p ; hsa-mir-670-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-4637 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-297
Nearest miRNA
hsa-mir-1297/Upstream/1003617; hsa-mir-1267/Downstream/135155;
Nearest CpG islands
Nearest cancer related gene
GPC5(TSG, No orient, 0)
Upstream sequence
TTTCCTAAATCTTTTTTGTTCAATTTCTTCTGCAACATCTTGAGAAATGGTGGCATTCTTTCAATAGATTCTCACTACACTTCTTCTAGGCAGAGTCAGT
Downstream sequence
CGGGGTTTATCGATTACAGAACAGGCTCCTCTAGAGGGATATGAAGCACCGCCAGGTCCTTTGAGTTTTAAGCTGTGGCTCGTAGTGTTCTGGCGAGCAG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.