2019
MKL1-actin pathway restricts chromatin accessibility and prevents mature pluripotency activation
Hu X, Liu ZZ, Chen X, Schulz VP, Kumar A, Hartman AA, Weinstein J, Johnston JF, Rodriguez EC, Eastman AE, Cheng J, Min L, Zhong M, Carroll C, Gallagher PG, Lu J, Schwartz M, King MC, Krause DS, Guo S. MKL1-actin pathway restricts chromatin accessibility and prevents mature pluripotency activation. Nature Communications 2019, 10: 1695. PMID: 30979898, PMCID: PMC6461646, DOI: 10.1038/s41467-019-09636-6.Peer-Reviewed Original ResearchConceptsCell fate reprogrammingChromatin accessibilityActin cytoskeletonSomatic cell reprogrammingPluripotency transcription factorsGlobal chromatin accessibilityGenomic accessibilityCytoskeleton (LINC) complexCell reprogrammingCytoskeletal genesTranscription factorsReprogrammingPluripotencyChromatinCytoskeletonMKL1Unappreciated aspectPathwayNuclear volumeNucleoskeletonSUN2CellsActivationGenesExpression
2009
microRNA Expression during Trophectoderm Specification
Viswanathan SR, Mermel CH, Lu J, Lu CW, Golub TR, Daley GQ. microRNA Expression during Trophectoderm Specification. PLOS ONE 2009, 4: e6143. PMID: 19582159, PMCID: PMC2702083, DOI: 10.1371/journal.pone.0006143.Peer-Reviewed Original ResearchConceptsEmbryonic stem cellsTrophectoderm specificationPreimplantation developmentMurine embryosFirst cell fate decisionCell fate decisionsTight developmental regulationStem cellsInner cell massCandidate miRNAsNumber of miRNAsStages of embryogenesisRole of microRNAsMiRNA expression changesMammalian developmentTranscription factorsDevelopmental regulationEctopic expressionTarget genesExpression changesTrophectodermal cellsTrophectodermMiRNA expressionFunctional roleMiRNAs
2006
Hematopoietic gene promoters subjected to a group-combinatorial study of DNA samples: identification of a megakaryocytic selective DNA signature
Hazony Y, Lu J, St. Hilaire C, Ravid K. Hematopoietic gene promoters subjected to a group-combinatorial study of DNA samples: identification of a megakaryocytic selective DNA signature. Nucleic Acids Research 2006, 34: 4416-4428. PMID: 16936310, PMCID: PMC1636359, DOI: 10.1093/nar/gkl578.Peer-Reviewed Original ResearchConceptsCell-specific gene expressionNon-coding regionsRelated DNA sequencesDNA sequencesGene expressionMegakaryocytic lineageUnique transcription factorsCommon DNA sequenceNon-coding sequencesGroup of genesGene promoter sequencesMammalian genomesRegulatory sequencesTranscription factorsPromoter sequencesCross-species differencesGene promoterDNA signaturesLineagesSpecific sequencesCommon sequenceDNA samplesSequencePromoter groupExpression
2005
MicroRNA expression profiles classify human cancers
Lu J, Getz G, Miska EA, Alvarez-Saavedra E, Lamb J, Peck D, Sweet-Cordero A, Ebert BL, Mak RH, Ferrando AA, Downing JR, Jacks T, Horvitz HR, Golub TR. MicroRNA expression profiles classify human cancers. Nature 2005, 435: 834-838. PMID: 15944708, DOI: 10.1038/nature03702.Peer-Reviewed Original ResearchConceptsCluster of microRNAsHuman cancersHuman chromosome 13Non-coding RNAsImportant transcription factorMicroRNA expression profileTranscription factorsExpression profilesGlobal downregulationRegulatory moleculesDifferentiation statePotential oncogeneMiR-17C-MycChromosome 13MicroRNAsHuman B-cell lymphomasMicroRNA profilesTumor formationVivo modelRNANucleotidesOncogeneDownregulationExpression
2004
Properties of Ets-1 Binding to Chromatin and Its Effect on Platelet Factor 4 Gene Expression
Lu J, Pazin MJ, Ravid K. Properties of Ets-1 Binding to Chromatin and Its Effect on Platelet Factor 4 Gene Expression. Molecular And Cellular Biology 2004, 24: 428-441. PMID: 14673175, PMCID: PMC303331, DOI: 10.1128/mcb.24.1.428-441.2004.Peer-Reviewed Original ResearchMeSH KeywordsAdenosine TriphosphateAnimalsChromatinDetergentsGene Expression RegulationHumansMegakaryocytesMiceNucleosomesPlatelet Factor 4Platelet Glycoprotein GPIb-IX ComplexPlatelet Membrane GlycoproteinsPromoter Regions, GeneticProto-Oncogene Protein c-ets-1Proto-Oncogene ProteinsProto-Oncogene Proteins c-etsRatsSarcosineTranscription FactorsConceptsEts-1 bindsPromoter activityLineage-specific factorsChromatin immunoprecipitation assaysEts-1 siteGlycoprotein IIbLineage-specific promotersNaked DNAGPIIb promoterTranscriptional regulationAccessory factorsPF4 promoterTranscription factorsHypersensitive sitesImmunoprecipitation assaysHematopoietic lineagesDNase IChromatinGene expressionPromoter activationPromoterProximal regionModel systemFactor 4ET-1
1999
Mpl ligand enhances the transcription of the cyclin D3 gene: a potential role for Sp1 transcription factor.
Wang Z, Zhang Y, Lu J, Sun S, Ravid K. Mpl ligand enhances the transcription of the cyclin D3 gene: a potential role for Sp1 transcription factor. Blood 1999, 93: 4208-21. PMID: 10361118, DOI: 10.1182/blood.v93.12.4208.412k17_4208_4221.Peer-Reviewed Original ResearchConceptsProtein phosphatase 1Cyclin D3 promoterMpl ligandCyclin D3 geneTranscription factorsSp1-dependent genesD3 geneSp1 transcription factorForm of Sp1Basal promoter activityMegakaryocytic cell linesCyclin D3 proteinSp familySp1 proteinD3 gene expressionSp1 sitesPhosphatase 1Okadaic acidCyclin D3 gene expressionNuclear runSp1DNase IGene expressionPromoter activityPromoter region