Basic Information
VIS ID
TVIS20003854
Fusion event
HPV-chr11:q22.2 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
E4
Start
4839
Host Sequence
Chromosome
chr11
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
102181516/102310785 (Hg38)
End
102181516/102310785 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-10392/Upstream/790880; hsa-let-7a-2/Downstream/1539121;
Nearest TSS
ENST00000527297/Upstream/79863; ENST00000528940/Downstream/6665;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/41864, chr11-CpG: 22/Downstream/6663
Nearby gene
BIRC3(-6664) ;
Nearest cancer related gene
BIRC3(OG, -6664) ;
Upstream sequence
aatccaaattcccttcactgataaaaacccttaacagactaggcactgaaggaacataacctcaatataataagagacatttatgacaaacccacagcca
Downstream sequence
ttatcatattgaatgaccaaaatcttggaccattccactttagaactggaacaagacaaggatgcccactctcaccactcctattcaacatagtactgga
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