Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003898
Fusion event
HPV-DUSP5 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
L1
Start
3377
Host Sequence
Chromosome
chr10
Cytoband
q25.2
Reference genome
End
112262477/110502719 (Hg38)
Location type
Exon2
Target gene
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-335-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-16-1-3p ; hsa-mir-25-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-203a-3p ; hsa-mir-222-5p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-92b-3p ; hsa-mir-627-5p ; hsa-mir-924 ; hsa-mir-3912-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-302a-5p ; hsa-mir-26a-5p
Nearest miRNA
hsa-mir-107/Upstream/6234314; hsa-mir-202/Downstream/395371;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/3793, chr10-CpG: 27/Downstream/27470
Nearest cancer related gene
DUSP5(TSG, No orient, 0)
Upstream sequence
TGTCAAACATTGGGCTGGACACTGAATCTCCTGCATTATCTCTCTCTACGAGATAATTTGTGAAACACCTGACCTACATGGTCACCGTGTGAGAATAGGC
Downstream sequence
AAAGCATAAATACATTTCAAAGGATGTATACCTTTTCAGCAGGGGGCTTGCTAAAAGGAAAAAGTTCTGATTCATTTTCTCGCATAATAGCTACTACACT
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.