Basic Information
VIS ID
TVIS20004138
Fusion event
HPV-LOC107986169 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
780
Host Sequence
Chromosome
chr3
Cytoband
q28
Reference genome
GRCh37/hg19
Start
189239650/189521861 (Hg38)
End
189239650/189521861 (Hg38)
Location type
Intronic
Target gene
LOC107986169
Nearest miRNA
hsa-let-7g/Upstream/832995; hsa-mir-3137/Downstream/308061;
Nearest TSS
ENST00000440867/Upstream/211967; ENST00000486398/Downstream/109555;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/574098, chr3-CpG: 99/Downstream/598430
Nearby gene
TP63(-109565) ;
Upstream sequence
ggaaaattaacaatgaaaattaaactttagaacaaatggacctaaaagatgtttatggaacattctacctaacaactacaggatatacattatttttatc
Downstream sequence
agaacttggaatattctccaatataaaccatgttaggcaacaaaacaagtcttaactcatttttaaaagtaatcaaaatcatatcaagtatcttctcagt
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