Basic Information
VIS ID
TVIS20004081
Fusion event
HPV-chr18: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
E6
Start
1049
Host Sequence
Chromosome
chr18
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
61317161/63649927 (Hg38)
End
61317161/63649927 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-1-2/Upstream/5198769; hsa-mir-5011/Downstream/3431657;
Nearest TSS
ENST00000575820/Upstream/2348; ENST00000613567/Downstream/11957;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/226803, chr18-CpG: 63/Downstream/286239
Nearby gene
SERPINB3(+5269) ;
Upstream sequence
AATCCTTTAAGTAACAAAAAAAAGAGGGAGTGCAGGAAGTAACCACAGCACTGCAGCTCCCTCCTCCGTTGGAGATCATGAGACCTTGTGGGTGGGACCC
Downstream sequence
aattaagctaattagcatatccattacctcatataattattcttttttagaaccagaacattaaaatttcctctctcagcaattttcaagtatacaatat
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