Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004531
Fusion event
HPV-VMP1 integration
Validated
Yes
Detection method
Multiplex RT-PCR, APOT assay
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Gene
E2
Start
1354
Integrated sequence
ATTATTTGAAAGCGAAGACAGCG GGTATGGCAATACTGAAGTGGAAACTCAGCAGATGTTACAGGTAGAAGGGCGCCATGAGACTGAAACACC ATGTA| |GTCAGTATAGTGGTGGAAGTGGGGGTGGTTGCAGTCAGTACAGTAGTGGAAGTGGGGGAGAGGGT GTTAGTGAAAGACACACTATATGCCAAACACCAC
Host Sequence
Chromosome
chr17
Cytoband
q23.2
Reference genome
Start
End
57908866/59831505 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-296-3p ; hsa-mir-25-3p ; hsa-mir-4776-3p ; hsa-mir-744-3p ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-5590-5p ; hsa-mir-7159-5p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-4694-5p ; hsa-mir-5186 ; hsa-mir-7978 ; hsa-mir-181a-3p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-1324 ; hsa-mir-4709-5p ; hsa-mir-4272 ; hsa-mir-6856-3p ; hsa-mir-513b-3p ; hsa-mir-505-3p ; hsa-mir-421 ; hsa-mir-3161 ; hsa-mir-622 ; hsa-mir-4761-5p ; hsa-mir-624-3p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-4482-3p ; hsa-mir-7159-3p ; hsa-mir-138-2-3p ; hsa-mir-4282 ; hsa-mir-4698 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-555 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6845-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-5680 ; hsa-mir-4506 ; hsa-mir-150-3p
Nearest miRNA
hsa-mir-10226/Upstream/465351; hsa-mir-1250/Downstream/9761;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/123758, chr17-CpG: 73/Downstream/61176
Upstream sequence
AACGAGGCGATTGGCTGCCTGGTATCCAGGAGACCGACGTCAAACTCGGACTGGGAAAAGGGGAAAGTCTGGGGGGAGCGAAGGAGGGGACGGGGAGAAA
Downstream sequence
GAAGCAGAGTAACATATATATTAAAAACCATAGAAAAATAATAGATTTTGTTTGCAATTTGGCAAGGGCTCTTGGCAGAATTTTGCCCAAATGTTATTTT
Reference
Lu, X., et al. Multiple-integrations of HPV16 genome and altered transcription of viral oncogenes and cellular genes are associated with the development of cervical cancer. PLoS One ,2014,9(7): e97588.