Basic Information
VIS ID
TVIS20003965
Fusion event
HPV-RIC1 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
E2
Start
737
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
5656580/5656580 (Hg38)
End
5656580/5656580 (Hg38)
Location type
Exon2
Target gene
RIC1
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-101-2/Upstream/806205; hsa-let-7a-1/Downstream/351246;
Nearest TSS
ENST00000422679/Upstream/27461; ENST00000276898/Downstream/74;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/26837, chr9-CpG: 88/Downstream/175999
Upstream sequence
gttgcccaggctggagtcagtggagtgatcttggctcactgcaacctctgcctcccaggttctagtaattcttctgcctcagcctcctgagtagctggga
Downstream sequence
ACTCACAGGCCAGCCAACCTCCCCCAGCCCACCCCGGCATCCGCCCTTGTGGTTTCACACAGGCCTTCCTCACAGGCCAGTGTCCTAATGGGAGACTCTC
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.
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