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dc.contributor.authorBray, Isabella
dc.contributor.authorBryan, Kenneth
dc.contributor.authorPrenter, Suzanne
dc.contributor.authorBuckley, Patrick G
dc.contributor.authorFoley, Niamh H
dc.contributor.authorMurphy, Derek M
dc.contributor.authorAlcock, Leah
dc.contributor.authorMestdagh, Pieter
dc.contributor.authorVandesompele, Jo
dc.contributor.authorSpeleman, Frank
dc.contributor.authorLondon, Wendy B
dc.contributor.authorMcGrady, Patrick W
dc.contributor.authorHiggins, Desmond G
dc.contributor.authorO'Meara, Anne
dc.contributor.authorO'Sullivan, Maureen
dc.contributor.authorStallings, Raymond L
dc.date.accessioned2010-05-04T11:31:07Z
dc.date.available2010-05-04T11:31:07Z
dc.date.issued2009
dc.identifier.citationWidespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival. 2009, 4 (11):e7850 PLoS ONEen
dc.identifier.issn1932-6203
dc.identifier.pmid19924232
dc.identifier.doi10.1371/journal.pone.0007850
dc.identifier.urihttp://hdl.handle.net/10147/97862
dc.description.abstractMiRNAs regulate gene expression at a post-transcriptional level and their dysregulation can play major roles in the pathogenesis of many different forms of cancer, including neuroblastoma, an often fatal paediatric cancer originating from precursor cells of the sympathetic nervous system. We have analyzed a set of neuroblastoma (n = 145) that is broadly representative of the genetic subtypes of this disease for miRNA expression (430 loci by stem-loop RT qPCR) and for DNA copy number alterations (array CGH) to assess miRNA involvement in disease pathogenesis. The tumors were stratified and then randomly split into a training set (n = 96) and a validation set (n = 49) for data analysis. Thirty-seven miRNAs were significantly over- or under-expressed in MYCN amplified tumors relative to MYCN single copy tumors, indicating a potential role for the MYCN transcription factor in either the direct or indirect dysregulation of these loci. In addition, we also determined that there was a highly significant correlation between miRNA expression levels and DNA copy number, indicating a role for large-scale genomic imbalances in the dysregulation of miRNA expression. In order to directly assess whether miRNA expression was predictive of clinical outcome, we used the Random Forest classifier to identify miRNAs that were most significantly associated with poor overall patient survival and developed a 15 miRNA signature that was predictive of overall survival with 72.7% sensitivity and 86.5% specificity in the validation set of tumors. We conclude that there is widespread dysregulation of miRNA expression in neuroblastoma tumors caused by both over-expression of the MYCN transcription factor and by large-scale chromosomal imbalances. MiRNA expression patterns are also predicative of clinical outcome, highlighting the potential for miRNA mediated diagnostics and therapeutics.
dc.language.isoenen
dc.subjectCANCERen
dc.subjectGENETICSen
dc.subject.meshCell Line, Tumor
dc.subject.meshChromosome Aberrations
dc.subject.meshCluster Analysis
dc.subject.meshCohort Studies
dc.subject.meshGene Expression Regulation, Neoplastic
dc.subject.meshHumans
dc.subject.meshMicroRNAs
dc.subject.meshNervous System Neoplasms
dc.subject.meshNeuroblastoma
dc.subject.meshNuclear Proteins
dc.subject.meshNucleic Acid Hybridization
dc.subject.meshOncogene Proteins
dc.subject.meshReverse Transcriptase Polymerase Chain Reaction
dc.subject.meshSensitivity and Specificity
dc.subject.meshSequence Analysis, DNA
dc.subject.meshSympathetic Nervous System
dc.subject.meshTreatment Outcome
dc.titleWidespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival.en
dc.contributor.departmentDepartment of Cancer Genetics, Royal College of Surgeons in Ireland, Dublin, Ireland.en
dc.identifier.journalPloS oneen
refterms.dateFOA2018-09-03T11:08:23Z
html.description.abstractMiRNAs regulate gene expression at a post-transcriptional level and their dysregulation can play major roles in the pathogenesis of many different forms of cancer, including neuroblastoma, an often fatal paediatric cancer originating from precursor cells of the sympathetic nervous system. We have analyzed a set of neuroblastoma (n = 145) that is broadly representative of the genetic subtypes of this disease for miRNA expression (430 loci by stem-loop RT qPCR) and for DNA copy number alterations (array CGH) to assess miRNA involvement in disease pathogenesis. The tumors were stratified and then randomly split into a training set (n = 96) and a validation set (n = 49) for data analysis. Thirty-seven miRNAs were significantly over- or under-expressed in MYCN amplified tumors relative to MYCN single copy tumors, indicating a potential role for the MYCN transcription factor in either the direct or indirect dysregulation of these loci. In addition, we also determined that there was a highly significant correlation between miRNA expression levels and DNA copy number, indicating a role for large-scale genomic imbalances in the dysregulation of miRNA expression. In order to directly assess whether miRNA expression was predictive of clinical outcome, we used the Random Forest classifier to identify miRNAs that were most significantly associated with poor overall patient survival and developed a 15 miRNA signature that was predictive of overall survival with 72.7% sensitivity and 86.5% specificity in the validation set of tumors. We conclude that there is widespread dysregulation of miRNA expression in neuroblastoma tumors caused by both over-expression of the MYCN transcription factor and by large-scale chromosomal imbalances. MiRNA expression patterns are also predicative of clinical outcome, highlighting the potential for miRNA mediated diagnostics and therapeutics.


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