SERPINB3 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004085
Fusion event
HPV-SERPINB3 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
E6
Start
836
Host Sequence
Chromosome
chr18
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
61322808/63655574 (Hg38)
End
61322808/63655574 (Hg38)
Location type
Exon8
Target gene
SERPINB3
miRNAs that regulate target gene
hsa-mir-6807-5p ; hsa-mir-556-5p ; hsa-mir-3123 ; hsa-mir-4517
Nearest miRNA
hsa-mir-1-2/Upstream/5204416; hsa-mir-5011/Downstream/3426010;
Nearest TSS
ENST00000575820/Upstream/7995; ENST00000613567/Downstream/6310;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/232450, chr18-CpG: 63/Downstream/280592
Upstream sequence
CATAAGAAGGATTTAGGTATCACCTAAATTCAAAGAAATGTGTGTTTCTAGGTTGCTAAATTCAAAGAAAAAGTATGATTTGGTTTGGTTCATTTAAAAC
Downstream sequence
AGAATCTGTTGTTGCCAGCAATCAGTTTACCAGAACATCTGCAGGTGAACATTTTCCAAATGGAGTGACAGACTAATTGCATCTACGGGGATGAGAATCT
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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