Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004124
Fusion event
HPV-TEAD1 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
HPV33
Reference genome
Not given
Gene
L1
Start
2234
Host Sequence
Chromosome
chr11
Cytoband
p15.2
Reference genome
Start
End
12897531/12875984 (Hg38)
Location type
Intron5
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-98-5p ; hsa-mir-320a ; hsa-mir-215-3p ; hsa-mir-503-3p ; hsa-mir-548at-5p ; hsa-mir-873-5p ; hsa-mir-101-5p ; hsa-mir-377-3p ; hsa-mir-1324 ; hsa-mir-5004-3p ; hsa-mir-1261 ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-624-3p ; hsa-mir-548e-5p ; hsa-mir-7150 ; hsa-mir-580-3p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-4736 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-6077 ; hsa-mir-5580-5p ; hsa-mir-219a-1-3p ; hsa-mir-6868-5p ; hsa-mir-9500 ; hsa-mir-4267 ; hsa-mir-4445-3p ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-494-3p ; hsa-mir-548p ; hsa-mir-561-3p ; hsa-mir-5187-3p ; hsa-mir-6515-3p ; hsa-mir-1236-3p ; hsa-mir-3140-5p ; hsa-mir-4713-5p ; hsa-mir-3156-3p ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-4301 ; hsa-mir-181a-2-3p
Nearest miRNA
hsa-mir-210/Upstream/712217; hsa-let-7a-2/Downstream/3093549;
Nearest CpG islands
Upstream sequence
AAAACATTACTTGTGAATTGCTTATATCCAAAATGCAGACACAGTGCTGGGTGTTGGTGTGCTTGTTTCTGATTTTTCAACCCTCTTTTCTAGGCCAAAG
Downstream sequence
GTGTCCAAACTATACAGACCCACAGAATCTAACAACAGATGTCTCAATATTCCTCGTCCTAGAACTCTCAGAGGATCCAGAACTACAGCCGGTCCTCGCT
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.