Basic Information
VIS ID
TVIS20003848
Fusion event
HPV-LOC105376208 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
E7
Start
1913
Host Sequence
Chromosome
chr9
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
110516074/107753793 (Hg38)
End
110516074/107753793 (Hg38)
Location type
Intronic
Target gene
LOC105376208
Nearest miRNA
hsa-let-7a-1/Upstream/1152771; hsa-mir-12126/Downstream/1292436;
Nearest TSS
ENST00000422679/Upstream/263311; ENST00000333999/Downstream/501027;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/36654, chr9-CpG: 67/Downstream/1101247
Nearby gene
ACTL7B(+1100794) ;
Upstream sequence
accttaacctcgctaagcctgcttcctcatctgacaaacggagaaaaccaaaggccccactctcggatgactgtCCCAGCTTAGTCAGGTCACAGAGCCC
Downstream sequence
gaagaggtggctttgggttCATCCAGGCCCCCTGCCCACGTGTGCCTGGGTCTGCCCACAGGACAGAGGCTGATGGGAAATCCTACGTAAAGTACCAGGT
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