2024
Unveiling Gene Interactions in Alzheimer’s Disease by Integrating Genetic and Epigenetic Data with a Network-Based Approach
Sanders K, Manuel A, Liu A, Leng B, Chen X, Zhao Z. Unveiling Gene Interactions in Alzheimer’s Disease by Integrating Genetic and Epigenetic Data with a Network-Based Approach. Epigenomes 2024, 8: 14. PMID: 38651367, PMCID: PMC11036294, DOI: 10.3390/epigenomes8020014.Peer-Reviewed Original ResearchEnrichment analysisGenome-wide association studiesAlzheimer's diseaseDense module searchDNA methylation dataGene network modulesFunctional enrichment analysisGWAS signalsGWAS datasetsTarget enrichmentAssociation studiesGenetic dataEpigenetic signalsNetwork-based toolCause of dementiaGene interactionsAD pathogenesisMethylation dataDNA methylationBIN1 geneAD pathologyComplex diseasesGenesSignificant cell typeDrug repurposing efforts
2012
Identification of Disease-Associated DNA Methylation in B Cells from Crohn’s Disease and Ulcerative Colitis Patients
Lin Z, Hegarty J, Yu W, Cappel J, Chen X, Faber P, Wang Y, Poritz L, Fan J, Koltun W. Identification of Disease-Associated DNA Methylation in B Cells from Crohn’s Disease and Ulcerative Colitis Patients. Digestive Diseases And Sciences 2012, 57: 3145-3153. PMID: 22821069, DOI: 10.1007/s10620-012-2288-z.Peer-Reviewed Original ResearchConceptsDNA methylationB cell linesReaction (PCR)-based restriction fragment length polymorphismCpG sitesCpG DNA methylation levelsComparison of methylation profilesDNA methylation lociRestriction fragment length polymorphismDNA methylation profilesLevel of gene expressionDNA methylation levelsDNA methylation markersPolymerase chain reaction (PCR)-based restriction fragment length polymorphismFragment length polymorphismInterleukin (IL)-12/IL-23 pathwayMethylation lociBeadArray dataMethylation changesMethylation profilesB cellsMethylation levelsLength polymorphismMethylation markersGene expressionMethylation status
2011
Disease-associated DNA methylationin Inflammatory Bowel Disease subtypes Crohn's disease and Ulcerative Colitis
lin Z, Yu W, Chen X, Hegarty J, Faber P, Wang Y, Poritz L, Fan J, Koltun W. Disease-associated DNA methylationin Inflammatory Bowel Disease subtypes Crohn's disease and Ulcerative Colitis. Inflammatory Bowel Diseases 2011, 17: s78-s78. DOI: 10.1097/00054725-201112002-00257.Peer-Reviewed Original ResearchAberrant DNA methylationDNA methylationTranscriptional regulationNondiseased tissueTissue-specific DNA methylationDNA methylation eventsGene transcriptional regulationDisease-associated changesMethylation eventsCpG methylationIntron 5Protein processingDiseased tissuesColon tissuesGenetic variationGenomic DNAMethylation assayCell signalingEpigenetic alterationsCpGGenesCell adhesionFunctional studiesIntestinal biologyCellular transport
2010
Identification of disease‐associated DNA methylation in intestinal tissues from patients with inflammatory bowel disease
Lin Z, Hegarty J, Cappel J, Yu W, Chen X, Faber P, Wang Y, Kelly A, Poritz L, Peterson B, Schreiber S, Fan J, Koltun W. Identification of disease‐associated DNA methylation in intestinal tissues from patients with inflammatory bowel disease. Clinical Genetics 2010, 80: 59-67. PMID: 20950376, DOI: 10.1111/j.1399-0004.2010.01546.x.Peer-Reviewed Original ResearchConceptsDNA methylationCpG sitesDifferentially methylated CpG sitesDNA methylation profilesLevel of gene expressionIBD-associated genesInflammatory bowel disease pathogenesisIntestinal tissueMethylation stateMultiple genesMethylation profilesMethylation assayPathogenesis of diseaseGene expressionInflammatory bowel diseaseEpigenetic factorsDNAGenetic predispositionGenesDisease subtype-specificAbnormal interactionsNon-diseaseEnvironmental factorsMethylationBowel disease
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