Basic Information
VIS ID
TVIS20003882
Fusion event
HPV-chr9:q34.11 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
HPV35
Reference genome
Not given
Gene
L1
Start
750
Host Sequence
Chromosome
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
132350579/129588300 (Hg38)
End
132350579/129588300 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-let-7a-1/Upstream/1195586; hsa-mir-12126/Downstream/281305;
Nearest TSS
ENST00000422679/Upstream/12891; ENST00000459968/Downstream/20584;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/18901, chr9-CpG: 58/Downstream/8903
Nearby gene
C9orf50(+23924) ;
Upstream sequence
ttaacctcgctaagcctgcttcctcatctgacaaacggagaaaaccaaaggccccactctcggatgactgtCCCAGCTTAGTCAGGTCACAGAGCCCTTC
Downstream sequence
GATCTTGGGACCCACACCTGATGTGAGTTGAGCCTGCCACCTCCCAGCTACCTGGAGCACCATAACTGGCCTTGCTGAGTGTATAGAATCCAAGGGGAAA
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