Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018985
Fusion event
HBV-PTPRD integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
Start
End
8333333/8333333 (Hg38)
Location type
Intron3
Target gene
miRNAs that regulate target gene
hsa-mir-429 ; hsa-mir-200a-3p ; hsa-mir-200c-3p ; hsa-mir-141-3p ; hsa-mir-1-3p ; hsa-mir-200b-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-374b-3p ; hsa-mir-3924 ; hsa-mir-340-5p ; hsa-mir-4524b-5p ; hsa-mir-4791 ; hsa-mir-4524a-5p ; hsa-mir-3201 ; hsa-mir-891b ; hsa-mir-1246 ; hsa-mir-8076 ; hsa-mir-3163 ; hsa-mir-646 ; hsa-mir-5583-3p ; hsa-mir-503-5p ; hsa-mir-424-5p ; hsa-mir-15a-5p ; hsa-mir-497-5p ; hsa-mir-6838-5p ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-135a-5p
Nearest miRNA
hsa-mir-101-2/Upstream/2325429; hsa-let-7a-1/Downstream/10239973;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/533487, chr9-CpG: 48/Downstream/379948
Nearest cancer related gene
PTPRD(TSG, No orient, 0)
Upstream sequence
gatcaggcatcgggagcttagcttctagccattaactaaatgtgtgatcttgagtatatcCTACAgaaattcagaaaatatgattagttgtagagtttat
Downstream sequence
tttaagtaaacagtggctgaaattttcccatatctggggaaagatgacaacattcaggtaaaggaagctcagaggtctctaattaaattcaacccaaagg
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.