TEX10 _HNSC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004133
Fusion event
HPV-TEX10 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
E1
Start
416
Host Sequence
Chromosome
chr9
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
103088584/100326302 (Hg38)
End
103088584/100326302 (Hg38)
Location type
Exon9
Target gene
TEX10
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-222-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-let-7a-1/Upstream/2097085; hsa-mir-12126/Downstream/6274626;
Nearest TSS
ENST00000422679/Upstream/18433; ENST00000398977/Downstream/21002;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/226907, chr9-CpG: 93/Downstream/26011
Upstream sequence
CGGAAAAAGCTGGCTGTTGTTGTGTCTTTAAAGTTTCACCTGGGTAGTCAAAGATGGATCATGGGTCTCAGTGGAGAGCTGAGCCAGGCAGGAGCTGACT
Downstream sequence
ATGAAAGAAGCTTATTAAGTTTAGGGAGAAGCTGTGATGATTTTGCTGTTTCTTTTGTCCAGATTCCGAGAGTTCCTAAAGCAAATCTTCTCTGCCAATC
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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