Basic Information
VIS ID
TVIS20003869
Fusion event
HPV-chr12:q21.33 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
545
Host Sequence
Chromosome
chr12
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
91299451/90905674 (Hg38)
End
91299451/90905674 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA12B
Nearest miRNA
hsa-let-7i/Upstream/4160525; hsa-mir-1178/Downstream/3656115;
Nearest TSS
ENST00000382841/Upstream/96398; ENST00000546725/Downstream/12349;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/1195386, chr12-CpG: 30/Downstream/48353
Nearby gene
LINC00615(-12348) ;
Upstream sequence
TGTTCTGTAATAATTTTAATGATGTGCATATAAGAACCCCCATGAATGCTCTAGCAcagtgattctcaaagtgtggtccctagaccatcagcaaggtctt
Downstream sequence
tggaaacttgttagaatgcagtctcaagccccaccccagacttactgaatcaaaaactttgagagaagagttcaacaggctgtatgtacttaacaagccc
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