Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000013
Fusion event
HPV-chr15:q23 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
chr15
Cytoband
q23
Reference genome
Start
End
70231187/72151792 (Hg38)
Location type
Intronic
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-6869-5p ; hsa-mir-4279 ; hsa-mir-8077 ; hsa-mir-7160-5p ; hsa-mir-4663 ; hsa-mir-93-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-8062 ; hsa-mir-596 ; hsa-mir-5089-5p ; hsa-mir-6878-3p ; hsa-mir-6894-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-6744-3p ; hsa-mir-4312 ; hsa-mir-4757-5p ; hsa-mir-4763-5p ; hsa-mir-6778-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-212-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-186-3p ; hsa-mir-6838-3p ; hsa-mir-6507-3p
Nearest miRNA
hsa-mir-10393/Upstream/2072324; hsa-mir-11181/Downstream/435425;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/33131, chr15-CpG: 26/Downstream/32543
Upstream sequence
aacgatccacccgcctcggcctcccaaagtgctgggattacagacatgtgccaccgtgcccagccctactgtctcatttcttataagtctacttaaatat
Downstream sequence
caacttctctgttggaccttccctgataatcatctaatgtgatgccctataagcatttccaatctcccttttcttgttctatatttgttcttttttcttt
Reference
Bodelon, C., et al. Chromosomal copy number alterations and HPV integration in cervical precancer and invasive cancer. Carcinogenesis.2016, 37(2): 188-196.