Basic Information
VIS ID
TVIS20002852
Fusion event
HPV-SHB integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
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
p13.2
Reference genome
GRCh37/hg19
Start
38047885/38047888 (Hg38)
End
38047885/38047888 (Hg38)
Location type
Intronic
Target gene
SHB
miRNAs that regulate target gene
hsa-mir-935 ; hsa-mir-939-5p ; hsa-mir-6826-3p ; hsa-mir-7160-5p ; hsa-mir-6778-3p ; hsa-mir-6089 ; hsa-mir-5008-5p ; hsa-mir-4649-3p ; hsa-mir-1234-3p ; hsa-mir-7107-5p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-4308 ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-7113-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-4469 ; hsa-mir-6868-3p ; hsa-mir-212-5p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/1154357; hsa-let-7a-1/Downstream/2881122;
Nearest TSS
ENST00000422679/Upstream/143535; ENST00000422554/Downstream/20799;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/143410, chr9-CpG: 248/Downstream/19798
Upstream sequence
CCCCACTTCCTTTCTAAATGCAGTGACCTCTGTTCTTCAGCCCTATCCCTTTCTATTCCTCTGACCCCGCCTCCTTTCTAAATGCAGCGACCTCTGTTCT
Downstream sequence
CATGGTAAGAATTAAGGATAAGAAGATACTCAAAGACGGGTTGGAACTGCTCTAGTTCTAAGCAATTTGATTATTTACAAGAGAACCCATGAGTTTTTGC
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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