Basic Information
VIS ID
TVIS20003934
Fusion event
HPV-chr14:q21.1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
28928286
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E6
Start
618
Host Sequence
Chromosome
chr14
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
38051246/37582041 (Hg38)
End
38051246/37582041 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-208a/Upstream/629650; hsa-mir-1185-1/Downstream/10178954;
Nearest TSS
ENST00000550708/Upstream/14946; ENST00000556845/Downstream/12221;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/383753, chr14-CpG: 123/Downstream/1399
Nearby gene
FOXA1(+7944) ;
Nearest cancer related gene
FOXA1(TSG, +7944) ;
Upstream sequence
TATAACTTATTCTGATTATACATATTATGTTAAACTCTTATTCAAATTGTTAATATGTAAAATCTAATTCATCTTTACCCTGTATAAACATCTTTCTCTT
Downstream sequence
CCCAGTATTTCTAAGCATGTGACAATGAATATGCAAAGGAAGCGCAGCAGTCCACCAGGTGTGGGATATGTGTGGCACAATTCAAGACAAAGATTAAACC
Reference
Koneva, L. A., et al. HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers. Mol Cancer Res ,2018,16(1): 90-102.
Curate