Basic Information
VIS ID
TVIS20003959
Fusion event
HPV-chr1:q31.3 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
HPV18
Reference genome
Not given
Gene
E7
Start
832
Host Sequence
Chromosome
chr1
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
193822759/193853629 (Hg38)
End
193822759/193853629 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA1K
Nearest miRNA
hsa-mir-101-1/Upstream/717046; hsa-mir-1182/Downstream/2728784;
Nearest TSS
ENST00000473358/Upstream/165200; ENST00000454538/Downstream/295844;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/731535, chr1-CpG: 24/Downstream/2754949
Nearby gene
KCNT2(+2372153) ;
Upstream sequence
ggtgtcctggaagtgcgcaaagaaagtacgccaaggggagccatttaccaatggtgtgagacaaacattgctgataggaaaaaaaaaaaagaggatggct
Downstream sequence
gggatctgggtgtagacttagcagtgaggatgttcttgatgctcttgacaagagtcatttatgtggagaagggagaacaaaagcctactgaatacaatgg
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