Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004665
Fusion event
HPV-CD274 integration
Validated
No
Detection method
RNA-Seq
Data source
download(HPVbase)
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E7
Start
561
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
Start
End
5462885/5462885 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-513a-5p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-570-3p ; hsa-mir-651-3p ; hsa-mir-3978 ; hsa-mir-593-3p ; hsa-mir-885-3p ; hsa-mir-380-5p ; hsa-mir-124-3p ; hsa-mir-601 ; hsa-mir-708-5p ; hsa-mir-34b-5p ; hsa-mir-665 ; hsa-mir-940 ; hsa-mir-326 ; hsa-mir-363-5p ; hsa-mir-214-3p ; hsa-mir-29c-3p ; hsa-mir-3977 ; hsa-mir-5706 ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-1299 ; hsa-mir-103a-2-5p ; hsa-mir-4790-3p ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-4496 ; hsa-mir-138-5p ; hsa-mir-324-5p ; hsa-mir-338-5p ; hsa-mir-34a-3p ; hsa-mir-152-5p ; hsa-mir-200b-3p ; hsa-mir-152-3p ; hsa-mir-1273a ; hsa-mir-1273c ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-194-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-4503 ; hsa-mir-497-5p ; hsa-mir-6792-5p ; hsa-mir-6838-5p
Nearest miRNA
hsa-mir-101-2/Upstream/612510; hsa-let-7a-1/Downstream/544941;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/12256, chr9-CpG: 107/Downstream/165685
Upstream sequence
TCAGGTAGCTGCGAGTTCAAGTTCAGCCGCAGGCTCTTCCCCAAGGTGCTGGTCTTCGCAGGAACCCCTTGCAGGCAGCTGCAAAGAGCAGCACGGCGCG
Downstream sequence
ACTCTGTGGGCGCTTAACAAATGTTGAATAACAACAATAGACTTTTTTTATATTTATAGACTAGCATTGTAAACATTTCATCACTTCCCTGTTGCTGAAA
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.