Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000024
Fusion event
HPV-PTPRF integration
Validated
Yes
Detection method
PCR Ion Torrent 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
Host Sequence
Chromosome
chr1
Cytoband
p34.2
Reference genome
Start
End
43770932/43532674 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-24-3p ; hsa-mir-1914-5p ; hsa-mir-1229-3p ; hsa-mir-744-5p ; hsa-mir-455-3p ; hsa-mir-15b-3p ; hsa-mir-221-3p ; hsa-mir-1260b ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-4662a-5p ; hsa-mir-4472 ; hsa-mir-4447 ; hsa-mir-3190-3p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-6870-5p ; hsa-mir-7111-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-3175 ; hsa-mir-6878-5p ; hsa-mir-4795-5p ; hsa-mir-1296-3p ; hsa-mir-575 ; hsa-mir-6858-3p ; hsa-mir-4676-5p ; hsa-mir-6516-5p ; hsa-mir-1273e ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-486-3p ; hsa-mir-6499-3p ; hsa-mir-2467-3p ; hsa-mir-298 ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-4537 ; hsa-mir-219b-3p ; hsa-mir-4532 ; hsa-mir-4257 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-302f ; hsa-mir-3714 ; hsa-mir-4484 ; hsa-mir-6768-3p ; hsa-mir-548an ; hsa-mir-4730 ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-6842-5p ; hsa-mir-7110-5p ; hsa-mir-6752-5p ; hsa-mir-25-5p ; hsa-mir-658 ; hsa-mir-4787-5p ; hsa-mir-493-5p ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-let-7c-3p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-2115-5p ; hsa-mir-4679 ; hsa-mir-4677-3p ; hsa-mir-4684-5p ; hsa-mir-1268b ; hsa-mir-1268a ; hsa-mir-585-3p ; hsa-mir-4486 ; hsa-mir-939-3p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-7851-3p ; hsa-mir-619-3p ; hsa-mir-6771-3p ; hsa-mir-425-3p ; hsa-mir-3157-5p ; hsa-mir-7106-3p ; hsa-mir-4660 ; hsa-mir-4655-3p ; hsa-mir-4469 ; hsa-mir-6803-3p ; hsa-mir-4530 ; hsa-mir-6736-3p ; hsa-mir-4691-3p ; hsa-mir-646
Nearest miRNA
hsa-mir-12136/Upstream/84063; hsa-mir-101-1/Downstream/305948;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/845, chr1-CpG: 56/Downstream/32941
Upstream sequence
GAATCTGCTGAGAAGGGAAGATCTGGTGGGGAATCCTTTGGGAGGCTTCGGGGATCTGAGGGATCCAGAAGAGAGTTCTGACAGGCTATCTAAGGAAATT
Downstream sequence
TCTGTGCTTAGCTCCTTATTAACTCTTGCTTCAGGGAGCATGAAAATCCCTGTTTTTTTACTGATTATATGAATGAGCCTAGGGCTTCAAGAAGGAGCAG
Reference
Bodelon, C., et al. Chromosomal copy number alterations and HPV integration in cervical precancer and invasive cancer. Carcinogenesis.2016, 37(2): 188-196.