Basic Information
VIS ID
TVIS20004439
Fusion event
HPV-chr1:q31 integration
Validated
Yes
Detection method
APOT-PCR
Data source
Curated
Sample type
Tumor
Disease
Oropharyngeal squamous cell carcinoma (OSCC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24586376
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.1
Host Sequence
Chromosome
chr1
Cytoband
q31
Reference genome
GRCh37.p5
Start
194643196/194674066 (Hg38)
End
194643196/194674066 (Hg38)
Orient
-
Location type
Intergenic
Fragile sites / regions
FRA1K
Nearest miRNA
hsa-mir-101-1/Upstream/1537483; hsa-mir-1182/Downstream/1908347;
Nearest TSS
ENST00000473358/Upstream/323123; ENST00000496761/Downstream/1387007;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/1551972, chr1-CpG: 24/Downstream/1934512
Upstream sequence
ACCTCAGTGTTGCCGTTGTTTCTTTTAAAGTAGTTTCTTAGTTTCAGGCCTTAGATTTAAGTCTTTAATGCATTTTGATTGTTCCATGTGGTGAGAGCTT
Downstream sequence
TGTAAATTGTGTAGCGTTCAAAGAAAAAAAATATTTATTCATTAAAATAAGGAAATGATTAGAAATAGCGTTTTTGTCAATAATAACTAGATAACATGGG
Target sequence
TATTCTTCTGGATATGGATATTCAGGTTTCCCAGCATCATTTTTGAGAAGACTGTGCTTTCCCCAGTGTATGCCCTTGGAGCCTGGCTTCTTTTCCTCT
Reference
Olthof, N. C., et al.Comprehensive analysis of HPV16 integration in OSCC reveals no significant impact of physical status on viral oncogene and virally disrupted human gene expression.2014, PLoS One 9(2): e88718.
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