Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004491
Fusion event
HPV-MECOM 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
E1
Start
3048
Integrated sequence
AAACATATTAACCACCAAGTGGTGCCAACACTG GCTGTATCAAAGAATAAAGCATTACAAGCAATTGAACTGCAACTAACGTTAGAAACAATATATAAC| |TCAC AATATAGTAATGAAAAGTGGACATTACAAGACGTTAGCCTTGAAGTGTATTTAACTGCACCAACAGGATG TATAAAAAAACATGGATATACAGT
Host Sequence
Chromosome
chr3
Cytoband
q26.2
Reference genome
End
169306956/169589168 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7g/Upstream/1037219; hsa-mir-1224/Downstream/833935;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/439543, chr3-CpG: 122/Downstream/72481
Nearest cancer related gene
MECOM(OG, No orient, 0)
Upstream sequence
aggaacttaagagccatctagtttaaactcttcattttctggagtggaaaactgaggcccaggcaggaaaaggaactatacagattctcacagcaaggca
Downstream sequence
TAGGGAAAGAAATAAACTCCGAATTATTAACCTGTTGCTAATTTTCCCTATTACTCAATATTAAATGAAGATGGAGAAGAAGGCCCCAGGATATTAACCT
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.