Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003721
Fusion event
HPV-POU5F1B integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV18
Reference genome
Start
3094
End
3049
Orient
-
Integrated sequence
ACTGCAAATGGCCCTACAAGGCCTTGCACAAAGTGCATACAAAACC
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
End
128233367/127221122 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-8485 ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3163 ; hsa-mir-590-3p ; hsa-mir-5692a ; hsa-mir-4282 ; hsa-mir-2681-5p ; hsa-mir-4433b-5p ; hsa-mir-4693-5p ; hsa-mir-4669 ; hsa-mir-3657 ; hsa-mir-4433a-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-892a ; hsa-mir-4318
Nearest miRNA
hsa-mir-12123/Upstream/2399064; hsa-mir-10400/Downstream/574840;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/662597, chr8-CpG: 29/Downstream/94520
Upstream sequence
GCTGGTGGACCTTAAAGTTTCTCTACTTTTGCAAGTGTAAAAACTGGGGTAAAGATAGAGTTT
Junction sequence
GCTGGTGGACCTTAAAGTTTCTCTACTTTTGCAAGTGTAAAAACTGGGGTAAAGATAGAGTTTTGTTTTTCCTCGGTTTTGTATGCACTTTGTGCAAGGCCTTGTAGGGCCATTTGCAGTT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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.