Basic Information
VIS ID
TVIS20000884
Fusion event
HPV-NSD2 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV18
Reference genome
AY262282.1
Host Sequence
Chromosome
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
1913696/1911969 (Hg38)
End
1913696/1911969 (Hg38)
Location type
Intronic
Target gene
NSD2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-339-5p ; hsa-mir-324-5p ; hsa-mir-92a-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-4262 ; hsa-mir-3674 ; hsa-mir-3973 ; hsa-mir-3591-5p ; hsa-mir-548at-5p ; hsa-mir-5681b ; hsa-mir-6832-5p ; hsa-mir-4423-3p ; hsa-mir-5582-5p ; hsa-mir-6826-5p ; hsa-mir-503-3p ; hsa-mir-95-3p ; hsa-mir-4732-5p ; hsa-mir-4255 ; hsa-mir-142-3p ; hsa-mir-4256 ; hsa-mir-4762-3p ; hsa-mir-4775 ; hsa-mir-3622a-5p ; hsa-mir-1206 ; hsa-mir-3657 ; hsa-mir-4467 ; hsa-mir-4669 ; hsa-mir-5589-5p ; hsa-mir-6770-3p
Nearest miRNA
hsa-mir-571/Upstream/1561717; hsa-mir-12113/Downstream/74415;
Nearest TSS
ENST00000502981/Upstream/11319; ENST00000511904/Downstream/6463;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/39710, chr4-CpG: 24/Downstream/66884
Nearest cancer related gene
NSD2(OG, No orient, 0)
Upstream sequence
tctccccaactcccagcacccactgtgatttcgtagcaaagttaaagccaagcatgggtgctgccccaacctggccaggtgtgtgcttgaggaggcactg
Downstream sequence
TTCTTTATTATAAAAATGCTATAACATACCTGTATTCATTTTCATTACTAAGAAAAGTTCTTACAAAGTTTTAAAGTAATGGAAGAAGTCACAAATCCCT
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
Curate