Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004676
Fusion event
HPV-ETS2 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
2352
Host Sequence
Chromosome
chr21
Cytoband
q22.2
Reference genome
Start
End
40190767/38818843 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-199a-3p ; hsa-mir-199a-5p ; hsa-mir-218-5p ; hsa-mir-877-5p ; hsa-mir-149-5p ; hsa-mir-18a-5p ; hsa-mir-196b-5p ; hsa-mir-455-5p ; hsa-mir-548t-3p ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-548aa ; hsa-mir-548ap-3p ; hsa-mir-548as-3p ; hsa-mir-548at-3p ; hsa-mir-548ay-3p ; hsa-mir-587 ; hsa-mir-1468-3p ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-548x-5p ; hsa-mir-548aj-5p ; hsa-mir-548aw ; hsa-mir-410-3p ; hsa-mir-582-5p ; hsa-mir-944 ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-190a-3p ; hsa-mir-205-3p ; hsa-mir-338-5p
Nearest miRNA
hsa-let-7c/Upstream/3098035; hsa-mir-3197/Downstream/628167;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/12100, chr21-CpG: 21/Downstream/3877
Nearest cancer related gene
ETS2(TSG, No orient, 0)
Upstream sequence
ATTAGAGAAGGGGGTCAAAGCCCATGTTCTAAGTGGATTtccaacaagcatacccctaatatgtttcaggcactggcccaggtactgcaggcattgagta
Downstream sequence
aacaaaacagtccctgctcttacagCCAGATTTCTCCACACTTTGGGATATTTATGGAGGCGATGCAGGAATGTGACATTtcttcttatggagatgtaac
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.