Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004682
Fusion event
HPV-KLF12 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
E1
Start
944
Host Sequence
Chromosome
chr13
Cytoband
q22.1
Reference genome
Start
End
73910982/73336845 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-23a-3p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-218-5p ; hsa-mir-4679 ; hsa-mir-4677-3p ; hsa-mir-216b-5p ; hsa-mir-1264 ; hsa-mir-6888-3p ; hsa-mir-4775 ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-34a-5p ; hsa-mir-141-3p ; hsa-mir-137 ; hsa-mir-200a-3p ; hsa-mir-4720-3p ; hsa-mir-4804-3p
Nearest miRNA
hsa-mir-1297/Upstream/7118521; hsa-mir-1267/Downstream/4361167;
Nearest CpG islands
Upstream sequence
cgtatagaagcatctctctagtatgaagacctaaaagtgaaatttttgggATAAGTGATATTTGCATTAAtttttattttttttcttgaaacaggatttc
Downstream sequence
actctgtcacccagcctacagtgcaatagcatgatcacagctcactgcagcctcaacctcccaggctcaagtgatcctcccaactcagcctcctgtctct
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.