Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004530
Fusion event
HPV-ERBB2 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
2970
Integrated sequence
TACGTGACCATATAGACTATTGGAAACACATGCGCCTAGA ATGTGCTATTTATTACAAGGCCAGAGAAATGGGATTTAAACATATTAACCACCAAGTGG| |TGCCAACACTG GCTGTATCAAAGAATAAAGCATTACAAGCAATTGAACTGCAACTAACGTTAGAAACAATATATAACTCAC AATATAGTAATGAAAAG
Host Sequence
Chromosome
chr17
Cytoband
q21.31
Reference genome
Start
End
37862307/39706054 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-559 ; hsa-mir-548d-3p ; hsa-mir-125b-5p ; hsa-mir-21-5p ; hsa-mir-125a-5p ; hsa-mir-331-3p ; hsa-mir-205-5p ; hsa-mir-199b-5p ; hsa-mir-199a-5p ; hsa-mir-124-3p ; hsa-mir-326 ; hsa-mir-375 ; hsa-mir-25-3p ; hsa-mir-670-3p ; hsa-mir-4326 ; hsa-mir-552-3p ; hsa-mir-541-3p ; hsa-mir-498 ; hsa-mir-323b-5p ; hsa-mir-193a-5p ; hsa-mir-193a-3p ; hsa-mir-134-5p ; hsa-mir-6739-3p ; hsa-mir-4677-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-7109-5p ; hsa-mir-4790-5p ; hsa-mir-6868-3p ; hsa-mir-3127-5p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-593-3p ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-6887-5p ; hsa-mir-486-3p ; hsa-mir-6795-5p ; hsa-mir-3140-3p ; hsa-mir-3116 ; hsa-mir-1254 ; hsa-mir-4790-3p ; hsa-mir-6730-3p ; hsa-mir-4680-3p ; hsa-mir-5187-3p ; hsa-mir-4427 ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-4315 ; hsa-mir-146a-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-211-3p ; hsa-mir-4748 ; hsa-mir-329-5p ; hsa-mir-4464 ; hsa-mir-7845-5p ; hsa-mir-888-3p ; hsa-mir-4506 ; hsa-mir-34a-5p ; hsa-mir-155-3p ; hsa-mir-130b-3p ; hsa-mir-1296-5p ; hsa-mir-133a-3p ; hsa-mir-3622b-5p ; hsa-mir-22-3p
Nearest miRNA
hsa-mir-1180/Upstream/408545; hsa-mir-10226/Downstream/20441;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/5416, chr17-CpG: 17/Downstream/17346
Nearest cancer related gene
ERBB2(OG, No orient, 0)
Upstream sequence
GGGCGGGTAAGTGCCTTTTTCACAACCTGCCCCAGAGAAATACACGAAATTACATCGGGAGTGGAATCGAGCGTCCCTCTCAGCTAAAAATATTACTCAC
Downstream sequence
TGCTTTACCTCCTCTAGTATTCCTGACCTTAGTGGGCATTTCTGGTCTCAGGGATACCAGGCTGGGGTCCAAGTGGGCCAGGTGTGGCAGTTCAGCCCTA
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.