Basic Information
VIS ID
TVIS20003982
Fusion event
HPV-LOC100506023 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
826
Host Sequence
Chromosome
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
173208780/173239641 (Hg38)
End
173208780/173239641 (Hg38)
Location type
Exon3
Fragile sites / regions
FRA1G
Target gene
LOC100506023
Nearest miRNA
hsa-mir-101-1/Upstream/1094997; hsa-mir-1182/Downstream/2728729;
Nearest TSS
ENST00000473358/Upstream/32328; ENST00000460950/Downstream/202456;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/706236, chr1-CpG: 100/Downstream/237198
Upstream sequence
ctaaaatgtcactgtggaccaccagacatagtgagagcttctcaagaaccggtgacagatggcatctaagtcagaatctgtcttaccaagtgtcctttgg
Downstream sequence
atccacccatttccagaatataaaataggaacacttactgaccacattctcacactggttcctagatccaaggaacaagggcaattattggagaaagggc
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