Basic Information
VIS ID
TVIS20004281
Fusion event
HPV-chr1:q31.2 integration
Validated
Yes
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
25313082
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
AY686584
Region type
LCR
Start
7239
Integrated sequence
AAAAACGTAAGCTGTAAGTATTGTATGTATGTTGAATTAGTGTTGTTTGTTGTGTATATGTTTGTATGTGCTTGTATGTGCTTGTAAATATTAAGTTGTA| |TGTGTGTTTGTATGTATGGTATAATAAACACGTGTGTATGTGTTTTTAAATGCTTGTGTAACTATTGTGTCATGCAACATAAATAAACTTATTGTTTCAA
Host Sequence
Chromosome
chr1
Cytoband
q31.2
Reference genome
GRCh37/hg19
Start
191334422/191365292 (Hg38)
End
191334422/191365292 (Hg38)
Fragile sites / regions
FRA1K
Nearest miRNA
hsa-mir-101-1/Upstream/10926902; hsa-mir-1182/Downstream/1351036;
Nearest TSS
ENST00000473358/Upstream/136825; ENST00000430776/Downstream/501668;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/4684343, chr1-CpG: 56/Downstream/1443210
Junction sequence
ACACAAGCATTTAAAAACACATACACACGTGTTTATTATACCATACATACAAACACAC---[CCAT]---GGCAAGACCAACTGGCCATGGGAGACCTATGTTCACTGT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Parfenov, M., et al. Characterization of HPV and host genome interactions in primary head and neck cancers. Proc Natl Acad Sci U S A,2014,111(43): 15544-15549.
Curate