FGF3 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003924
Fusion event
HPV-FGF3 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
529
Host Sequence
Chromosome
chr11
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
69624679/69809911 (Hg38)
End
69624679/69809911 (Hg38)
Location type
Exon3
Fragile sites / regions
FRA11H ; FRA11A
Target gene
FGF3
miRNAs that regulate target gene
hsa-mir-328-3p
Nearest miRNA
hsa-mir-10392/Upstream/726653; hsa-let-7a-2/Downstream/474044;
Nearest TSS
ENST00000527297/Upstream/34508; ENST00000534086/Downstream/7639;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/34133, chr11-CpG: 32/Downstream/429
Nearest cancer related gene
FGF3(OG, No orient, 0)
Upstream sequence
TCTAGATTTTTTTTTCAGTTTCTTCTATAAATCAAAACATCTCAAAATGGAGACCTAAAATCCTTAAAGGGACTTAGTCTAATCTCGGGAGGTAGTTTTG
Downstream sequence
TGCATGGGTAAACAAATTAAGTATTAACTGGTGTTTTACTATCCAAAGAATGCTAATTTTATAAACATGATCGAGTTATATAAGGTATACCATAATGAGT
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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