Basic Information
VIS ID
TVIS20004017
Fusion event
HPV-chr5:q14.3 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
HPV16
Reference genome
Not given
Gene
E6
Start
3355
Host Sequence
Chromosome
chr5
Cytoband
q14.3
Reference genome
GRCh37/hg19
Start
84629561/85333743 (Hg38)
End
84629561/85333743 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-10397/Upstream/2493519; hsa-mir-103a-1/Downstream/1781136;
Nearest TSS
ENST00000502646/Upstream/120129; ENST00000505572/Downstream/86708;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/948958, chr5-CpG: 34/Downstream/1933797
Nearby gene
NBPF22P(-948700) ;
Upstream sequence
GGCTGACCTCTCTCTCTGTGTCTACATATTTAAATCTCAGAACTCCCAGGAAAAAGATGGACAGAACAAAACATGTATCTTTAAGGCAAAGAAGAGTGTG
Downstream sequence
agcaaacaacctttggacttgaactgcaacactgacccttccctgagtctccagcttgccagcctacccttcagatgcaggacttctcagcctaagtaat
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