Basic Information
VIS ID
TVIS20001961
Fusion event
HPV-PTPRD integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr9
Cytoband
p23
Reference genome
GRCh37/hg19
Start
9605811/9605811 (Hg38)
End
9605811/9605811 (Hg38)
Location type
Intronic
Target gene
PTPRD
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/3597907; hsa-let-7a-1/Downstream/8967495;
Nearest TSS
ENST00000422679/Upstream/669732; ENST00000449531/Downstream/193612;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/747103, chr9-CpG: 76/Downstream/1006824
Nearest cancer related gene
PTPRD(TSG, No orient, 0)
Upstream sequence
ggctgaggcaggaggactgcttgaggccaggagtttgagactgacctgggaaaaatagcaagaccctgtctctaaaaaactaaaaaaattagcaggtgtg
Downstream sequence
tctacaataaacacaacataaaattagctggacgcaatggcacacgcctgtactcccagctacccacaaggctcaggcaggagtattacttgagcccagg
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
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