2023
HEXIM1 is an essential transcription regulator during human erythropoiesis
Lv X, Murphy K, Murphy Z, Getman M, Rahman N, Nakamura Y, Blanc L, Gallagher P, Palis J, Mohandas N, Steiner L. HEXIM1 is an essential transcription regulator during human erythropoiesis. Blood 2023, 142: 2198-2215. PMID: 37738561, PMCID: PMC10733840, DOI: 10.1182/blood.2022019495.Peer-Reviewed Original ResearchConceptsFetal globin expressionGene expressionGlobin expressionCycle progressionErythroid gene expressionBeta-globinBeta-globin locusGenome-wide profilingRNA polymerase II activityLong non-coding RNANon-coding RNAErythroid proliferationPolymerase II activityCell cycle progressionEssential transcription regulatorRNAPII activityRNAPII occupancyGlobin locusTranscription machineryTranscription regulatorsFetal globinRNAPIIFetal gene expressionHEXIM1Human erythropoiesis
2009
Patterns of Monomethylation of Histone H3 Lysine 27 Influence Gene Expression in a Cell-Type Specific Manner.
Steiner L, Schulz V, Maksimova Y, Wong C, Tuck D, Gallagher P. Patterns of Monomethylation of Histone H3 Lysine 27 Influence Gene Expression in a Cell-Type Specific Manner. Blood 2009, 114: 4585. DOI: 10.1182/blood.v114.22.4585.4585.Peer-Reviewed Original ResearchTranscription start siteNon-erythroid cellsPost-translational histone modificationsHistone H3 lysine 27Cell type-specific mannerH3 lysine 27Gene expressionGene repressionHistone modificationsActive transcriptionLysine 27Start siteHistone H3 lysine 4Expression arraysHistone H3 lysine 9Beta-globin locusH3 lysine 4Regions of heterochromatinH3 lysine 9Influence gene expressionMRNA transcript analysisType-specific mannerCell-type specificGene expression variesChromatin architectureGenome-Wide ChIP-Seq Reveals a Dramatic Shift in the EKLF Binding Profile Between Erythroid Progenitors and Erythroblasts.
Pilon A, Ajay S, Abaan H, Margulies E, Gallagher P, Bodine D. Genome-Wide ChIP-Seq Reveals a Dramatic Shift in the EKLF Binding Profile Between Erythroid Progenitors and Erythroblasts. Blood 2009, 114: 565. DOI: 10.1182/blood.v114.22.565.565.Peer-Reviewed Original ResearchTarget genesChIP-seqNearest geneSimultaneous genome-wide analysisC2H2 zinc finger transcription factorGenome-wide ChIP-seqErythroid Kruppel-like factorZinc finger transcription factorErythroid progenitorsTranscription factor occupancyBeta-globin locusGenome-wide analysisCell cycle control factorsProtein-DNA interactionsFinger transcription factorChIP-seq dataS-phase entryNon-repetitive regionsKruppel-like factorEKLF geneEKLF proteinFetal liverCell cycle S-phase entryChromatin remodelingFactor occupancyComplex developmental patterns of histone modifications associated with the human β-globin switch in primary cells
Hsu M, Richardson CA, Olivier E, Qiu C, Bouhassira EE, Lowrey CH, Fiering S. Complex developmental patterns of histone modifications associated with the human β-globin switch in primary cells. Experimental Hematology 2009, 37: 799-806.e4. PMID: 19460472, PMCID: PMC2748252, DOI: 10.1016/j.exphem.2009.04.006.Peer-Reviewed Original ResearchConceptsHistone modificationsGene expressionBeta-globin switchDimethyl lysine 9Beta-globin locusΒ-globin switchGamma geneImportant histone modificationsBone marrow cellsGamma gene expressionSuch histonesComplex developmental patternLysine 9Chromatin immunoprecipitationHistone H3Gene suppressionPrimary fetalMarrow cellsUnexpressed genesGamma-globinGenesHistonesDevelopmental stagesBone marrow erythroblastsPrimary cellsDevelopmentally regulated extended domains of DNA hypomethylation encompass highly transcribed genes of the human β-globin locus
Lathrop MJ, Hsu M, Richardson CA, Olivier EN, Qiu C, Bouhassira EE, Fiering S, Lowrey CH. Developmentally regulated extended domains of DNA hypomethylation encompass highly transcribed genes of the human β-globin locus. Experimental Hematology 2009, 37: 807-813.e2. PMID: 19460471, PMCID: PMC3792488, DOI: 10.1016/j.exphem.2009.04.005.Peer-Reviewed Original ResearchConceptsAdult erythroid cellsCpG island genesHistone modificationsGene expressionDNA hypomethylationErythroid cellsDNA methylationBeta-like globin gene expressionBeta-globin gene regulationIsland genesActive histone marksBeta-globin locusGamma-globin promoterGlobin gene expressionHuman embryonic stem cellsDNA methylation patternsSpecific gene expressionEmbryonic stem cellsPrimary human erythroblastsHuman β-globinHistone marksGene regulationMethylation stateBisulfite sequencingCpG islands
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 cellsCorrection of a splice-site mutation in the beta-globin gene stimulated by triplex-forming peptide nucleic acids
Chin JY, Kuan JY, Lonkar PS, Krause DS, Seidman MM, Peterson KR, Nielsen PE, Kole R, Glazer PM. Correction of a splice-site mutation in the beta-globin gene stimulated by triplex-forming peptide nucleic acids. Proceedings Of The National Academy Of Sciences Of The United States Of America 2008, 105: 13514-13519. PMID: 18757759, PMCID: PMC2533221, DOI: 10.1073/pnas.0711793105.Peer-Reviewed Original ResearchConceptsBeta-globin geneEndogenous beta-globin locusSplice site mutationHuman cellsPrimary hematopoietic progenitor cellsBeta-globin locusAltered helical structureHuman beta-globin geneSingle base pair changeSingle base-pair modificationTriplex-forming peptide nucleic acidsDonor DNA moleculesBase pair changesCell cycle stageDisease-related genesDonor DNA fragmentsNucleic acidsProper splicingSite-specific bindingSite-specific modificationMammalian cellsHematopoietic progenitor cellsDNA repairSecond intronGene locus
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