Basic Information
VIS ID
TVIS20004006
Fusion event
HPV-MIS18BP1 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
3379
Host Sequence
Chromosome
chr14
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
45715946/45246743 (Hg38)
End
45715946/45246743 (Hg38)
Location type
Exon2
Target gene
MIS18BP1
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-22-3p ; hsa-mir-1184 ; hsa-mir-107 ; hsa-mir-3145-3p ; hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-3908 ; hsa-mir-320e
Nearest miRNA
hsa-mir-208a/Upstream/8294352; hsa-mir-1185-1/Downstream/2514252;
Nearest TSS
ENST00000550708/Upstream/4263; ENST00000566976/Downstream/6434;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/110471, chr14-CpG: 69/Downstream/6202
Upstream sequence
TATAACTTATTCTGATTATACATATTATGTTAAACTCTTATTCAAATTGTTAATATGTAAAATCTAATTCATCTTTACCCTGTATAAACATCTTTCTCTT
Downstream sequence
TCTTAGTGAACTGTCATCTGACTGGAATGATTTGTTGTTTTCCTTTTCTTCACATAGGTAGGTATGCTGCAATTTTTTTTTTTCAACTCTGTTAGGAGTG
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