Basic Information
VIS ID
TVIS20004007
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
E4
Start
792
Host Sequence
Chromosome
chr14
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
45716390/45247187 (Hg38)
End
45716390/45247187 (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/8294796; hsa-mir-1185-1/Downstream/2513808;
Nearest TSS
ENST00000550708/Upstream/4707; ENST00000566976/Downstream/5990;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/110915, chr14-CpG: 69/Downstream/5758
Upstream sequence
tccattttgttcactgctatattctgagcacctaaaacagtgtctgaaacattaaacacttaaGACATTACAGCTTTTTAGCTAACACATAAAACTAACC
Downstream sequence
GCTGTCAAAAAAGATTGCATCCATGGGTAGATTTCTCCTTTGAGAAGATGCCTCTGGAGGTAAGTAAATTCTTGAATGTTTCAAAGGTGTTGCAATCATC
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