Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004667
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
E6
Start
43
Host Sequence
Chromosome
chr9
Cytoband
q34.11
Reference genome
End
131856423/129094144 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7a-1/Upstream/701430; hsa-mir-12126/Downstream/775461;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/12675, chr9-CpG: 135/Downstream/16201
Upstream sequence
CCACACAGCTTTCAACACAATGTCATATCATCTACAATATACAGCAACAACCATTACAAAAATAACTAGGAGGAAAAAAGCCACAGTGAATCTGAATGTC
Downstream sequence
gcaggacagacttatcagagagagagagaaactgaggccagtctgaccagatgtgtcatcataaggctgctgagatgacactggcaccctctgtgaccct
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.