2023
Massively parallel base editing to map variant effects in human hematopoiesis
Martin-Rufino J, Castano N, Pang M, Grody E, Joubran S, Caulier A, Wahlster L, Li T, Qiu X, Riera-Escandell A, Newby G, Al'Khafaji A, Chaudhary S, Black S, Weng C, Munson G, Liu D, Wlodarski M, Sims K, Oakley J, Fasano R, Xavier R, Lander E, Klein D, Sankaran V. Massively parallel base editing to map variant effects in human hematopoiesis. Cell 2023, 186: 2456-2474.e24. PMID: 37137305, PMCID: PMC10225359, DOI: 10.1016/j.cell.2023.03.035.Peer-Reviewed Original ResearchConceptsHuman hematopoiesisVariant effectsNon-coding variantsDisease-Associated VariantsSingle-cell genotypingHuman hematopoietic stemFetal hemoglobin expressionHigh-throughput variantGenome engineeringSequencing readoutHematopoietic differentiationFunctional screenHemoglobin expressionDifferentiation stateDefines mechanismsHematopoietic stemPrimary cellsGenetic variantsProgenitor cellsSpecific mutationsDiverse diseasesHuman physiologyRich phenotypingHematopoiesisImmunotherapy approaches
2022
Super‐killer CTLs are generated by single gene deletion of Bach2
Barton P, Davenport A, Hukelmann J, Cantrell D, Stinchcombe J, Richard A, Griffiths G. Super‐killer CTLs are generated by single gene deletion of Bach2. European Journal Of Immunology 2022, 52: 1776-1788. PMID: 36086884, PMCID: PMC9828676, DOI: 10.1002/eji.202249797.Peer-Reviewed Original ResearchConceptsCD8<sup>+</sup> T cellsT cellsEffector CTLSplenic CD8<sup>+</sup> T cellsT cell-mediated immune regulationMurine CD8<sup>+</sup> T cellsCentral memory T cellsWild-type CTLMemory T cellsNaive T cellsGene deletionAbsence of Bach2In vitro activityCytolytic capacityBach2 deficiencyNaive cellsEnhanced cytotoxicityImmune regulationCytolytic granulesCytotoxic advantageCTLBach2Wild-typeDifferentiation stateGranule contents
2021
Long noncoding RNA TINCR is a novel regulator of human bronchial epithelial cell differentiation state
Omote N, Sakamoto K, Li Q, Schupp JC, Adams T, Ahangari F, Chioccioli M, DeIuliis G, Hashimoto N, Hasegawa Y, Kaminski N. Long noncoding RNA TINCR is a novel regulator of human bronchial epithelial cell differentiation state. Physiological Reports 2021, 9: e14727. PMID: 33527707, PMCID: PMC7851438, DOI: 10.14814/phy2.14727.Peer-Reviewed Original ResearchConceptsTerminal differentiation-induced lncRNANormal human bronchial epithelial cellsTINCR overexpressionCell differentiationNotch genesTissue developmentBronchial epithelial cellsExtracellular matrix organizationCell phenotypeRNA sequencing analysisNumerous biological functionsRole of lncRNAsCell differentiation stateEpithelial cellsHuman bronchial epithelial cellsCiliated cell differentiationStaufen1 proteinNovel regulatorBasal cell phenotypeDownstream regulatorsRNA immunoprecipitationBiological functionsCritical regulatorDifferential expressionDifferentiation state
2019
ARID1A‐SIN3A drives retinoic acid‐induced neuroblastoma differentiation by transcriptional repression of TERT
Bui C, Le H, Vu D, Truong K, Nguyen N, Ho M, Truong D. ARID1A‐SIN3A drives retinoic acid‐induced neuroblastoma differentiation by transcriptional repression of TERT. Molecular Carcinogenesis 2019, 58: 1998-2007. PMID: 31365169, DOI: 10.1002/mc.23091.Peer-Reviewed Original ResearchMeSH KeywordsCell DifferentiationCell Line, TumorChild, PreschoolDNA-Binding ProteinsFemaleGene Expression Regulation, NeoplasticHumansInfantInfant, NewbornMaleNeuroblastomaRepressor ProteinsSin3 Histone Deacetylase and Corepressor ComplexTelomeraseTranscription FactorsTranscription, GeneticTretinoinConceptsEpigenetic regulationNB differentiationChromatin Remodeling ComplexKey epigenetic pathwaysChromatin immunoprecipitation-qPCRAT-rich interaction domain 1AImmature differentiation stateExact molecular mechanismsRemodeling complexRepressor complexTranscriptional repressionEpigenetic pathwaysEpigenetic dysregulationDNA bindingMolecular mechanismsMultiple cancer typesTelomerase reverse transcriptase (TERT) promoterQuantitative real-time polymerase chain reactionReverse transcriptase promoterHigh telomerase activityDifferentiation stateSwitch/Polymerase chain reactionTERT expressionDomain 1A
2017
Cellular differentiation state modulates the mRNA export activity of SR proteins
Botti V, McNicoll F, Steiner MC, Richter FM, Solovyeva A, Wegener M, Schwich OD, Poser I, Zarnack K, Wittig I, Neugebauer KM, Müller-McNicoll M. Cellular differentiation state modulates the mRNA export activity of SR proteins. Journal Of Cell Biology 2017, 216: 1993-2009. PMID: 28592444, PMCID: PMC5496613, DOI: 10.1083/jcb.201610051.Peer-Reviewed Original ResearchMeSH KeywordsActive Transport, Cell NucleusAnimalsArginineCell DifferentiationCell NucleusDNA-Binding ProteinsHeLa CellsHumansImmunoprecipitationMethylationMiceNeurogenesisPhenotypePhosphorylationPluripotent Stem CellsProtein BindingProtein Processing, Post-TranslationalRepressor ProteinsRNA InterferenceRNA-Binding ProteinsRNA, MessengerSerine-Arginine Splicing FactorsTandem Mass SpectrometryTranscription FactorsTransfectionConceptsMRNA export activitySR proteinsP19 cellsMRNA exportSR protein family membersProtein-RNA interactionsMurine P19 cellsCellular differentiation stateProtein family membersLower phosphorylation levelsArginine methylationPluripotency factorsCytoplasmic mRNA levelsMRNA processingPosttranslational modificationsCellular dynamicsDifferentiated cellsNeural differentiationSRSF5Differentiation statePhosphorylation levelsHeLa cellsProteinExport activityMRNA levels
2007
Notch regulates cell fate and dendrite morphology of newborn neurons in the postnatal dentate gyrus
Breunig JJ, Silbereis J, Vaccarino FM, Šestan N, Rakic P. Notch regulates cell fate and dendrite morphology of newborn neurons in the postnatal dentate gyrus. Proceedings Of The National Academy Of Sciences Of The United States Of America 2007, 104: 20558-20563. PMID: 18077357, PMCID: PMC2154470, DOI: 10.1073/pnas.0710156104.Peer-Reviewed Original ResearchConceptsAbrogation of NotchCell cycle exitNeuronal fate determinationPrecursor cellsTransit-amplifying cellsFate determinationInducible gainCell fateCycle exitNeural precursor cellsModulates SurvivalMolecular controlPostnatal progenitor cellsLifelong additionHippocampal morphogenesisDifferentiation statePostnatal dentate gyrusNewborn granule cellsMembrane receptorsNeural stemGenetic ablationExpression of Notch1Structural plasticityProgenitor cellsEnvironmental modulators
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
2003
Epithelial Cell Polarity Alters Rho-GTPase Responses to Pseudomonas aeruginosa
Kazmierczak BI, Mostov K, Engel JN. Epithelial Cell Polarity Alters Rho-GTPase Responses to Pseudomonas aeruginosa. Molecular Biology Of The Cell 2003, 15: 411-419. PMID: 14595106, PMCID: PMC329196, DOI: 10.1091/mbc.e03-08-0559.Peer-Reviewed Original ResearchConceptsRho family GTPasesPolarized MDCK monolayersActin polymerizationP. aeruginosa entryRho family GTPase activationMDCK monolayersCdc42-GTP levelsClostridium difficile toxin BOpportunistic human pathogenMadin-Darby canine kidney cellsActivation of RhoAEpithelial cellsDifficile toxin BCanine kidney cellsCell polarityBasolateral infectionMDCK cell monolayersGTPase activationDifferentiation stateP. aeruginosaPseudomonas aeruginosaSurface proteinsBasolateral surfaceHuman pathogensGTPases
1987
Characterization of intestinal brush border cytoskeletal proteins of normal and neoplastic human epithelial cells. A comparison with the avian brush border.
Carboni J, Howe C, West A, Barwick K, Mooseker M, Morrow J. Characterization of intestinal brush border cytoskeletal proteins of normal and neoplastic human epithelial cells. A comparison with the avian brush border. American Journal Of Pathology 1987, 129: 589-600. PMID: 3425692, PMCID: PMC1899811.Peer-Reviewed Original ResearchConceptsMicrovillar actin bundlesActin binding proteinsHuman brush borderIntestinal epithelial cell brush bordersEpithelial cell brush bordersBrush borderMicrovillar proteinsHuman epithelial cellsCytoskeletal matrixCytoskeletal proteinsMultiple proteinsActin bundlesImmunolocalization studiesSpectrin isoformsMammalian sourcesMajor proteinsDifferentiation stateBinding proteinProtein myosinProteinTerminal webCell brush borderCytoskeletonNeoplastic stateMature enterocytes
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