Basic Information
VIS ID
TVIS20004135
Fusion event
HPV-chr1:q25.1 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
492
Host Sequence
Chromosome
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
173082199/173113059 (Hg38)
End
173082199/173113059 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA1G
Nearest miRNA
hsa-mir-101-1/Upstream/968415; hsa-mir-1182/Downstream/2855311;
Nearest TSS
ENST00000473358/Upstream/62096; ENST00000460950/Downstream/62444;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/579654, chr1-CpG: 100/Downstream/363780
Nearby gene
TNFSF4(+70670) ;
Upstream sequence
ATTATACTATTGCATAAATAAGCATTTTCAGAGTTATCATAGTTCCAGTTTCACTGATCAGAATAACAACAAATTCTATATATTGCTCTTGAGGAAACCC
Downstream sequence
CACTTTCCTGTTCAAAAATGGTAGGAAAACTATCTGTGTACTTTGAGATTAGTCCCTGTTATACTAACTAAAATGTTTCCGGATCTTTCTTTTGCTATTT
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.
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