Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000077
Fusion event
HPV-PVT1 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
Gene
L2/L1
Start
5629
Integrated sequence
GGAACAAATGTTTGTTAGACATTTATTTAATAGGGCTGGTACTGTTGGTGAAAATGTACCAGACGATTTATACATTAAAGGCTCTGGGTCTACTGCAAAT| |TTAGCCAGTTCAAATTATTTTCCTACACCTAGTGGTTCTATGGTTACCTCTGATGCCCAAATATTCAATAAACCTTATTGGTTACAACGAGCACAGGGCC
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
End
128827759/127815513 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-1204/Upstream/19485; hsa-mir-10400/Downstream/145120;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/20860, chr8-CpG: 18/Downstream/34198
Nearest cancer related gene
PVT1(OG, No orient, 0)
Upstream sequence
GAAAGGTAAAATGATTTAAACATGAGCTTTTTCCTCAGGCAATTATTAGAACCACTGTAAACAACTCAGATTTTTGGAGAAAACAGTGAAGAAGCTTTAG
Downstream sequence
TCTGCTTTTACATGAGTTCTTGTCAGTGCTTTCGGCAGCTTGATCAGGTAGATGCTGCTTTTCCACTTTGCAAATATGGAAGGGAGCACCCAGCTCTCTT
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.