Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000048
Fusion event
HPV-CAGE1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Region type
E2
Start
3328
Integrated sequence
ATTACATAATGTATATGTACATAATGTAATTGTTACATATAATTGTTGTATACCATAACTTACTATTTTTTCTTTTTTATTTTCATATATAATTTTTTTT| |TTTGTTTGTTTGTTTGTTTTTTAATAAACTGTTATTACTTAACAATGCGACACAAACGTTCTGCAAAACGCACAAAACGTGCATCGGCTACCCAACTTTA
Host Sequence
Chromosome
chr6
Cytoband
p24.3
Reference genome
Start
End
7328094/7327861 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-3691/Upstream/1158426; hsa-mir-10398/Downstream/3111856;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/14438, chr6-CpG: 65/Downstream/61540
Upstream sequence
AATCGTTTAACTCtttaaaaataaataataatatGCCggccaggcacggtggctcacccctgtaatcccagcactttgggaggctgaggtgggaggactg
Downstream sequence
ggaggttgcagtgagccgagattgcgccattgcactccagcctgggcaacaagagtgaaactccgtctaaaaaataaataaataaataaataaataaata
Reference
Liu, Y., et al. Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology. Oncotarget,2016, 7(5): 5852-5864.