Basic Information
VIS ID
TVIS20004417
Fusion event
HPV-LINC01414 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
chr8
Cytoband
p12.3
Reference genome
GRCh37.p5
Start
64769670/63857113 (Hg38)
End
64769670/63857113 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC01414
Nearest miRNA
hsa-mir-124-1/Upstream/2142254; hsa-mir-10400/Downstream/522036;
Nearest TSS
ENST00000518652/Upstream/87683; ENST00000524060/Downstream/383169;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/687906, chr8-CpG: 109/Downstream/512233
Upstream sequence
TTTTGGCAGCTTCTCTTTCCCTTCTCCTCTCTCTGGGTCTTCATTCATATTGGCTCCAGGAAACGAAAGGTAAGAAGCGGTCTTATAGTATGCCTCCCTC
Downstream sequence
TGTGAAAAAAGTAAAAGGAGAGGGAAAGTAGATCACTTGATAACACAGAAAAATTTCAAGGATAAAGAACTTGCCATAATCATCCTTATTCCAAGCTTCT
Target sequence
ACCTGTGCGTCATTTTCACATTCTTCCTCAATGGGAAATGATTGTGCAGGAAGAGCAGGGGGAGACTCCCACCATTGAACTGGCTGGAAGGCTTTGCCT
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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