Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004697
Fusion event
HPV-RAD51B 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
858
Host Sequence
Chromosome
chr14
Cytoband
q24.1
Reference genome
Start
End
68699906/68233189 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-4668-5p ; hsa-mir-2053 ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-30b-3p ; hsa-mir-3689a-3p ; hsa-mir-1273h-5p ; hsa-mir-569 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-766-5p ; hsa-mir-6871-5p ; hsa-mir-4496 ; hsa-mir-4506
Nearest miRNA
hsa-mir-208a/Upstream/791259; hsa-mir-1185-1/Downstream/4283631;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/558024, chr14-CpG: 40/Downstream/395109
Upstream sequence
ATAGTCTGCCTTTTGATAGCTCTAATAATTAATTTGGTCTTCCCTGTCTTTCTTCTCCCTTGCCCCCTACCCCTTCTCCCTGTCTGTTCACAGGTTATCT
Downstream sequence
TTTAGATGGAGTACAGGCCAGATTATAACCCCCTAACAAGAACAGCAACAGTAAACACACAGATAGTGCTTATTATTAGTTAAGCATGGTACTAATATTT
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.