2016
DNA methylation changes in extracellular remodeling pathway genes during the transformation of human mesenchymal stem cells
Kim T, Park S, Kim H, Ahuja N, Yi J. DNA methylation changes in extracellular remodeling pathway genes during the transformation of human mesenchymal stem cells. Genes & Genomics 2016, 38: 611-617. DOI: 10.1007/s13258-016-0402-x.Peer-Reviewed Original ResearchTranscriptional silencingPathway genesECM genesMesenchymal compartmentStem cell model systemPromoter DNA hypermethylationPromoter hypermethylationDNA methylation changesGene expression profile dataEssential structural componentKey cellular eventsExpression profile dataImportant functional roleExtracellular matrix moleculesColon cancer cell linesCell model systemHuman mesenchymal stem cellsMethylation patternsMethylation changesTranscription-polymerase chain reaction analysisDNA hypermethylationEpigenetic alterationsReverse transcription-polymerase chain reaction analysisHuman malignancesCellular events
2011
Genomic and Epigenomic Integration Identifies a Prognostic Signature in Colon Cancer
Yi JM, Dhir M, Van Neste L, Downing SR, Jeschke J, Glöckner SC, de Freitas Calmon M, Hooker CM, Funes JM, Boshoff C, Smits KM, van Engeland M, Weijenberg MP, Iacobuzio-Donahue CA, Herman JG, Schuebel KE, Baylin SB, Ahuja N. Genomic and Epigenomic Integration Identifies a Prognostic Signature in Colon Cancer. Clinical Cancer Research 2011, 17: 1535-1545. PMID: 21278247, PMCID: PMC3077819, DOI: 10.1158/1078-0432.ccr-10-2509.Peer-Reviewed Original ResearchConceptsDNA methylationExtracellular matrixDNA methylation analysisEpigenetic mechanismsKey genesEpigenomic alterationsCore pathwaysEpigenetic abnormalitiesPathway genesECM genesMultiple genesEpigenetic alterationsPathway componentsPathway analysisIntegrative analysisLarge CRC cohortsGenesMethylationMethylation analysisSimultaneous methylationPathway disruptionPathwayAggregate roleNovel prognostic biomarkerEVL
2008
Epigenetic Regulation of WNT Signaling Pathway Genes in Inflammatory Bowel Disease (IBD) Associated Neoplasia
Dhir M, Montgomery EA, Glöckner SC, Schuebel KE, Hooker CM, Herman JG, Baylin SB, Gearhart SL, Ahuja N. Epigenetic Regulation of WNT Signaling Pathway Genes in Inflammatory Bowel Disease (IBD) Associated Neoplasia. Journal Of Gastrointestinal Surgery 2008, 12: 1745-1753. PMID: 18716850, PMCID: PMC3976145, DOI: 10.1007/s11605-008-0633-5.Peer-Reviewed Original ResearchConceptsInflammatory Bowel Disease-Associated NeoplasiaIBD colitisNormal colon samplesColorectal cancerLogistic regression modelsAssociated neoplasiaWnt Signaling Pathway GenesMultivariate logistic regression modelPathogenesis of IBDUnivariate logistic regression modelDevelopment of IBDSporadic colorectal cancerProgressive increaseEarly eventsIBD samplesRegression modelsPathway genesCRC samplesColitisNeoplasiaIBDPathway dysregulationColon samplesSignaling Pathway GenesTissue samples557 Epigenetic Regulation of WNT Signaling Pathway Genes in Inflammatory Bowel Disease (IBD) Neoplasia
Dhir M, Montgomery E, Schuebel K, Gearhart S, Ahuja N. 557 Epigenetic Regulation of WNT Signaling Pathway Genes in Inflammatory Bowel Disease (IBD) Neoplasia. Gastroenterology 2008, 134: a-848-a-849. DOI: 10.1016/s0016-5085(08)63975-x.Peer-Reviewed Original Research