2014
Cytogenomic mapping and bioinformatic mining reveal interacting brain expressed genes for intellectual disability
Xu F, Li L, Schulz VP, Gallagher PG, Xiang B, Zhao H, Li P. Cytogenomic mapping and bioinformatic mining reveal interacting brain expressed genes for intellectual disability. Molecular Cytogenetics 2014, 7: 4. PMID: 24410907, PMCID: PMC3905969, DOI: 10.1186/1755-8166-7-4.Peer-Reviewed Original ResearchBrain-expressed genesIngenuity Pathway AnalysisArray comparative genomic hybridizationCentral nervous system-specific genesNervous system-specific genesChromosomal imbalancesGene expression regulationSignificant gene networksTissue expression patternsOligonucleotide array comparative genomic hybridizationChromosomal structural rearrangementsExpression regulationFunctional annotationGene networksGene relationshipsEnsembl ResourcesComparative genomic hybridizationCell signalingIntegrated DiscoveryCellular assemblyBioinformatics miningSpecific genesCandidate genesExpression patternsGenomic disorders
2008
Genome-Wide Analysis of EKLF Occupancy in Erythroid Chromatin Reveals 5′, 3′ and Intragenic Binding Sites in EKLF Target Genes
Pilon A, Margulies E, Abaan H, Allen A, Townes T, Frederick A, Zhou D, Gallagher P, Bodine D. Genome-Wide Analysis of EKLF Occupancy in Erythroid Chromatin Reveals 5′, 3′ and Intragenic Binding Sites in EKLF Target Genes. Blood 2008, 112: 283. DOI: 10.1182/blood.v112.11.283.283.Peer-Reviewed Original ResearchCell cycle networkChIP-seqIngenuity Pathway AnalysisTranscription factorsEKLF geneWide analysisIntragenic sitesTarget genesChIP-PCRErythroid cellsMapping protein-DNA interactionsErythroid Kruppel-like factorFetal liver erythroid cellsGenome-wide scaleBeta-globin locusGenome-wide analysisCell cycle control networkProtein-DNA interactionsChIP-seq resultsTerminal erythroid maturationDNase hypersensitive sitesKnowledge of genesChIP-seq librariesChIP-seq dataFL cells
2007
Multiple Defects of Both Primitive and Definitive Erythrocytes in EKLF-Deficient Mice.
Pilon A, Beaupre J, Bieker J, Gallagher P, Bodine D. Multiple Defects of Both Primitive and Definitive Erythrocytes in EKLF-Deficient Mice. Blood 2007, 110: 1234. DOI: 10.1182/blood.v110.11.1234.1234.Peer-Reviewed Original ResearchIngenuity Pathway AnalysisFL cellsSevere anemiaFetal liver cellsG0/G1Cell cycle analysisColony-forming assaysLevels of mRNADay 14Cytometric analysisAbsolute numberLiver cellsCell cycle progressionComparable reductionMiceDifferentiation blockOrthochromatic normoblastsNormoblastsKrüppel-like factorAnemiaTranscription factorsApoptosisOsmotic fragility assaysPathway analysisWT levels
2006
Defects in E2F1/2 Expression Are Associated with Abnormalities in Cell Cycle and Differentiation in EKLF-Deficient Erythroid Cells.
Pilon A, Arcasoy M, Vayda S, Dressman H, Bieker J, Bodine D, Gallagher P. Defects in E2F1/2 Expression Are Associated with Abnormalities in Cell Cycle and Differentiation in EKLF-Deficient Erythroid Cells. Blood 2006, 108: 84. DOI: 10.1182/blood.v108.11.84.84.Peer-Reviewed Original ResearchHypersensitive sitesErythroid cellsMicroarray analysisCell cycleNumerous genesMature erythroblastsGel mobility shift assaysMicroarray dataFL cellsTranscription factor EKLFCell cycle controlMobility shift assaysΒ-globin expressionIngenuity Pathway AnalysisImmature erythroid cellsPrevious microarray analysisPrevious microarray dataE2F proteinsDefinitive erythropoiesisDNA replicationTranscription factorsColony forming assaysEKLFShift assaysTarget genes
2005
A Differentiation Block in Erythroid Cells Lacking Erythroid Krupple-Like Factor (EKLF).
Gallagher P, Arcasoy M, Vayda S, Dressman H, Bieker J, Bodine D. A Differentiation Block in Erythroid Cells Lacking Erythroid Krupple-Like Factor (EKLF). Blood 2005, 106: 526. DOI: 10.1182/blood.v106.11.526.526.Peer-Reviewed Original ResearchWild typeErythroid differentiationMicroarray analysisDifferentiation blockErythroid cellsFocus genesMouse Genome 430 2.0 ArrayAffymetrix GeneChip Mouse Genome 430 2.0 ArrayFetal liver cellsCell cycle defectsTerminal erythroid differentiationCell cycle controlFetal liverIngenuity Pathway AnalysisR2 cellsMature erythroid cellsΒ-globin geneErythroid progenitor cellsErythroid genesNumerous genesDefinitive erythropoiesisDNA replicationTranscription factorsΒ-spectrinBiological functions