NADSYN1 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004010
Fusion event
HPV-NADSYN1 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
6693
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
71180725/71469679 (Hg38)
End
71180725/71469679 (Hg38)
Location type
Intron5
Fragile sites / regions
FRA11H
Target gene
NADSYN1
miRNAs that regulate target gene
hsa-mir-7856-5p ; hsa-mir-5004-3p ; hsa-mir-4503 ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-4320 ; hsa-mir-6781-3p ; hsa-mir-2682-3p ; hsa-mir-6849-3p ; hsa-mir-6877-3p ; hsa-mir-6819-3p
Nearest miRNA
hsa-mir-10392/Upstream/597311; hsa-let-7a-2/Downstream/3824;
Nearest TSS
ENST00000527297/Upstream/14554; ENST00000530534/Downstream/3984;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/16045, chr11-CpG: 27/Downstream/49262
Upstream sequence
CCTTTAGCCCGATTTCTGGGAATGCCGTCTTCCTCTTAAAGCAGCAGCTGACGCAGGCTGATGCCAGCGCGGATTCTGCTGTGCTGGAAGCAAGCACGTT
Downstream sequence
CCAGTAAAGGCGGCAAGCGCTCCTCAGCCTGCATCACGGTCTACCAAACGACAGAGTAGAATAAAATACTTTAATGTTGTGATGACACAAAGCCCCACAC
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