2011
miRNA Regulatory Circuits in ES Cells Differentiation: A Chemical Kinetics Modeling Approach
Luo Z, Xu X, Gu P, Lonard D, Gunaratne PH, Cooney AJ, Azencott R. miRNA Regulatory Circuits in ES Cells Differentiation: A Chemical Kinetics Modeling Approach. PLOS ONE 2011, 6: e23263. PMID: 22039400, PMCID: PMC3198445, DOI: 10.1371/journal.pone.0023263.Peer-Reviewed Original ResearchConceptsES cell differentiationMRNA genesRepressive interactionsCell differentiationTarget mRNA genesEmbryonic stem cellsGene regulationRegulatory circuitsTranslation inhibitionMRNA targetsGene MES cellsMiRNAs inhibitorsMicroarray dataGenesMiRNAsStem cellsGene GProtein expressionDirect degradationMRNADifferentiationImportant roleCellsMicroRNAs
2008
Novel MicroRNA Candidates and miRNA-mRNA Pairs in Embryonic Stem (ES) Cells
Gu P, Reid J, Gao X, Shaw C, Creighton C, Tran P, Zhou X, Drabek R, Steffen D, Hoang D, Weiss M, Naghavi A, El-daye J, Khan M, Legge G, Wheeler D, Gibbs R, Miller J, Cooney A, Gunaratne P. Novel MicroRNA Candidates and miRNA-mRNA Pairs in Embryonic Stem (ES) Cells. PLOS ONE 2008, 3: e2548. PMID: 18648548, PMCID: PMC2481296, DOI: 10.1371/journal.pone.0002548.Peer-Reviewed Original ResearchConceptsMiRNA-mRNA pairsEmbryonic stem cellsES cellsMiRNA candidatesPost-transcriptional gene regulationTranscriptional gene regulationCore regulatory networkLoss of repressionMiRNA target predictionOpposite expression trendsStem cellsES cell differentiationNovel candidatesNovel miRNAsGene regulationSmall RNAsMiRNA maturationGene networksTranscript sequencesRegulatory networksExpression trendsSilico searchMicroRNA candidatesCell differentiationTarget predictionNanog and Oct4 associate with unique transcriptional repression complexes in embryonic stem cells
Liang J, Wan M, Zhang Y, Gu P, Xin H, Jung SY, Qin J, Wong J, Cooney AJ, Liu D, Songyang Z. Nanog and Oct4 associate with unique transcriptional repression complexes in embryonic stem cells. Nature Cell Biology 2008, 10: 731-739. PMID: 18454139, DOI: 10.1038/ncb1736.Peer-Reviewed Original ResearchConceptsES cell fateRepression complexMouse ES cellsCell fateTranscription factorsES cellsTranscriptional repression complexES cell differentiationEssential transcription factorEmbryonic stem cellsSub-stoichiometric levelsHistone deacetylase activityNuRD complexRepressor complexEndogenous NanogProtein complexesGene transcriptionTarget genesDeacetylase activityNanogNuRDGenesStem cellsCellsComplexes
2003
GCNF‐dependent repression of BMP‐15 and GDF‐9 mediates gamete regulation of female fertility
Lan Z, Gu P, Xu X, Jackson KJ, DeMayo FJ, O'Malley BW, Cooney AJ. GCNF‐dependent repression of BMP‐15 and GDF‐9 mediates gamete regulation of female fertility. The EMBO Journal 2003, 22: 4070-4081. PMID: 12912906, PMCID: PMC175795, DOI: 10.1093/emboj/cdg405.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBone Morphogenetic Protein 15Bone Morphogenetic ProteinsCHO CellsCricetinaeDNA-Binding ProteinsEgg ProteinsFemaleFertilityGene Expression RegulationGrowth Differentiation Factor 9IntegrasesIntercellular Signaling Peptides and ProteinsMembrane GlycoproteinsMiceMice, KnockoutMice, TransgenicModels, BiologicalNuclear Receptor Subfamily 6, Group A, Member 1OocytesOvaryReceptors, Cell SurfaceReceptors, Cytoplasmic and NuclearRepressor ProteinsTransforming Growth Factor betaTransgenesViral ProteinsZona PellucidaZona Pellucida GlycoproteinsConceptsGerm cell nuclear factorBMP-15Bone morphogenetic protein 15New regulatory pathwayFemale fertilityGDF-9Growth differentiation factor 9DR0 elementsDifferentiation factor 9Knockout mouse modelSomatic cellsGene promoterRegulatory pathwaysReproductive defectsReporter activityFemale reproductionMolecular studiesFactor 9Paracrine communicationProtein 15Nuclear factorAberrant steroidogenesisExpressionOocytesPrimary defect