Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004669
Fusion event
HPV-CRAT 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
670
Host Sequence
Chromosome
chr9
Cytoband
q34.11
Reference genome
End
131857745/129095466 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7a-1/Upstream/702752; hsa-mir-12126/Downstream/774139;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/13997, chr9-CpG: 135/Downstream/14879
Upstream sequence
gtcgcccaggctggagtgcagtggtgcaatcttggctcactgtaacctccacctcccgggttcaagggattctcctgccttagcctcctgagtagctggg
Downstream sequence
AGGCACCTGCCCCGGGACCCCATCCACATCCCTGGGGTTGTCCTGCCTACTGACCCCTCCCCTTGCTTCCCCACATCCTCTTTACCAAGCTCTGTGCGTC
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.