Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002641
Fusion event
HBV-PTPRD integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr9
Cytoband
p23
Reference genome
Start
End
10444339/10444339 (Hg38)
Location type
Intronic
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/4436435; hsa-let-7a-1/Downstream/8128967;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/1585631, chr9-CpG: 76/Downstream/168296
Nearest cancer related gene
PTPRD(TSG, No orient, 0)
Upstream sequence
AAAGAGTATCCATGAAGAAATGCACATTTTATTGAATATACAGAAGTGTGATTAGTGGTGAAGGAGGGTGAATTCTGTTTGTTATATGACTATGACATGT
Downstream sequence
CGGCCTATTTGAAAAATGCATAGCTCCATAGTGGTAAGTAGATAAAAACACCTTTACAGACATAAATACTAACATTATATAGGCAAAATTATTCAACTCT
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.