Basic Information
VIS ID
TVIS20003950
Fusion event
HPV-chr6:p22.2 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
E5
Start
774
Host Sequence
Chromosome
chr6
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
26226318/26226090 (Hg38)
End
26226318/26226090 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA6C
Nearest miRNA
hsa-mir-3691/Upstream/7654210; hsa-mir-10398/Downstream/921536;
Nearest TSS
ENST00000381078/Upstream/935; ENST00000244537/Downstream/8843;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/528, chr6-CpG: 28/Downstream/14379
Nearby gene
HIST1H1D(+8121) ;
Upstream sequence
aagttttgtggtgaaattataaactccagaaaaactgaatttataatggaaatgctgacagacctttcagtggagcagtttgaacgcaacactgtaatTT
Downstream sequence
CGACGGTCGGTGCCTTGGGTGCGGTCAACGTTACTCTCTGTGCGCCTGATACTGGTCTAAGGCTAAGGTTATTAGCTGGAACACCTAGACCCGTGGCACT
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