Basic Information
VIS ID
TVIS20003895
Fusion event
HPV-chr6:q23.2 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
794
Host Sequence
Chromosome
chr6
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
132247764/131926624 (Hg38)
End
132247764/131926624 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-10398/Upstream/134393; hsa-mir-1202/Downstream/188568;
Nearest TSS
ENST00000381078/Upstream/22976; ENST00000435287/Downstream/24322;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/118201, chr6-CpG: 21/Downstream/23592
Nearby gene
CCN2(+21552) ;
Nearest cancer related gene
CCN2(TSG, +21552) ;
Upstream sequence
aggaaaaaatagaagaatatattcaggatctatgactaggcaaagagttcttagacttgacatttaaaacacaacccatacaaggaaaaactgattaatt
Downstream sequence
aaacacaaaataaattagctgggtgtggtggcaggcacctgtaatcccagctactcaggaggctgaggcaggagaatggcttgaacccgggaggtggagg
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