Basic Information
VIS ID
TVIS20004074
Fusion event
HPV-LOC107984492 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
709
Host Sequence
Chromosome
chr12
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
12996850/12843916 (Hg38)
End
12996850/12843916 (Hg38)
Location type
Intronic
Target gene
LOC107984492
Nearest miRNA
hsa-mir-1244-3/Upstream/79173; hsa-let-7i/Downstream/71913;
Nearest TSS
ENST00000382841/Upstream/19531; ENST00000534831/Downstream/46866;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/30501, chr12-CpG: 49/Downstream/47192
Nearby gene
RPL13AP20(-31560) ;
Upstream sequence
atgcagtctcaagccccaccccagacttactgaatcaaaaactttgagagaagagttcaacaggctgtatgtacttaacaagccctccaggtaggctcaa
Downstream sequence
gtttggtaccttctgaggtaggctcaaggttgagagcctctgCTTTTAAATCACAGTAAGAGCTATTCAAAATCATTAAGGTCATTAGCTGTGACTTGAG
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