Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000584
Fusion event
HBV-PTPRD integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
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
9314169/9314169 (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/3306265; hsa-let-7a-1/Downstream/9259137;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/455461, chr9-CpG: 76/Downstream/1298466
Nearest cancer related gene
PTPRD(TSG, No orient, 0)
Downstream sequence
TTACCATATTCAGACTATCTTAATAATGCACATGCCAATATCTCCACCACCTTCAAACAAACAAATAATGGTGAAAATTATGCTAG
Junction sequence
TTTTCTAGGGGGACACCCGTGTTTACCATATTCAGACTATCTTAATAATGCACATGCCAATATCTCCACCACCTTCAAACAAACAAATAATGGTGAAAATTATGCTAG
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.