Basic Information
VIS ID
TVIS20004023
Fusion event
HPV-chr19:p13.11 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
E1
Start
672
Host Sequence
Chromosome
chr19
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
16811402/16700591 (Hg38)
End
16811402/16700591 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA19B
Nearest miRNA
hsa-mir-10395/Upstream/1250983; hsa-let-7e/Downstream/1581486;
Nearest TSS
ENST00000633603/Upstream/39330; ENST00000438489/Downstream/19385;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/38770, chr19-CpG: 20/Downstream/107056
Nearby gene
NWD1(-19384) ;
Upstream sequence
GTGGTTCTCAACTAGGGGAGCTGGTTTCACCCCgtgtttgttttctatggccgccgtcaacaaatgacacagccttggtggctgaaacaacacaagtgat
Downstream sequence
ccagctacttggaaggctgaggcaggagaatcacttgaactggggaggtggaggttgcagtgagccgagactgtgccattgcactctagcctggacgaca
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