Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004708
Fusion event
HPV-TCTEX1D1 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
E2
Start
3717
Host Sequence
Chromosome
chr1
Cytoband
p31.3
Reference genome
Start
End
67229043/66763360 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-101-1/Upstream/134843; hsa-mir-11399/Downstream/1420158;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/10750, chr1-CpG: 27/Downstream/161837
Upstream sequence
GCTTTCtatttttaataattttaaataatatCAATTTGTATCTTTCCTTTTAGAAAGTAACAGTAGTTTGAATTtatgtatatatatatatatatatata
Downstream sequence
AAGAAGGAAGGAAAGGAGAGACAGAAGGGCGTTTAACCACACTTTACGATTGCTGTGGGGAGAGGGAAAAAAAACTCAACACTTTTGGCATAAGATTATT
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.