Basic Information
VIS ID
TVIS20004005
Fusion event
HPV-LOC107984299 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
729
Host Sequence
Chromosome
chr11
Cytoband
p15.5
Reference genome
GRCh37/hg19
Start
1865946/1844716 (Hg38)
End
1865946/1844716 (Hg38)
Location type
Intronic
Target gene
LOC107984299
Nearest miRNA
hsa-mir-210/Upstream/588046; hsa-let-7a-2/Downstream/14748;
Nearest TSS
ENST00000527297/Upstream/4498; ENST00000418975/Downstream/8254;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/18565, chr11-CpG: 45/Downstream/26091
Nearby gene
MIR4298(+14747) ;
Upstream sequence
ctccacgcacacacacacgatgcacacacatgcacaaacaTGCCTTTGCTTGTTTCCAACCATCCAAAAAAACGTAACTTTCTAAAACCAGGGAACTGAA
Downstream sequence
ATGCACCTTTAGCCCGATTTCTGGGAATGCCGTCTTCCTCTTAAAGCAGCAGCTGACGCAGGCTGATGCCAGCGCGGATTCTGCTGTGCTGGAAGCAAGC
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