Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003857
Fusion event
HPV-BIRC3 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
E7
Start
677
Host Sequence
Chromosome
chr11
Cytoband
q22.2
Reference genome
End
102188216/102317485 (Hg38)
Location type
Exon1
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10392/Upstream/797580; hsa-let-7a-2/Downstream/1532421;
Nearest CpG islands
chr11-CpG: 22/Target, None/Upstream, None/Downstream
Nearest cancer related gene
BIRC3(OG, No orient, 0)
Upstream sequence
aaaagcttatgaactattgcagattaaaggaaactaaacaggcatgacaattaaatgcaacgggtaatgtaacttagatcttggactgaggaaatacaac
Downstream sequence
tataaaagacattatggagacaactgctgaaatgagtttggactgctcattagataataatattgtagcaatgttaaatttcctgattttgataactgca
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.