2024
Protocol for detecting glycoRNAs using metabolic labeling and northwestern blot
Li L, Zhang N, Pantoja C, Wang Y, Lu J. Protocol for detecting glycoRNAs using metabolic labeling and northwestern blot. STAR Protocols 2024, 5: 103321. PMID: 39298321, PMCID: PMC11426122, DOI: 10.1016/j.xpro.2024.103321.Peer-Reviewed Original Research
2017
Capture, amplification, and global profiling of microRNAs from low quantities of whole cell lysate
Wang N, Cheng J, Fan R, Lu J. Capture, amplification, and global profiling of microRNAs from low quantities of whole cell lysate. Analyst 2017, 142: 3203-3211. PMID: 28765841, PMCID: PMC5605290, DOI: 10.1039/c7an00670e.Peer-Reviewed Original ResearchConceptsWhole cell lysatesSmall non-coding RNAsComplex regulatory networkMiRNA profilingCell lysatesPost-transcriptional levelIsogenic cell linesNon-coding RNAsAdaptor ligationLow quantity samplesGenome scaleRegulatory networksGlobal profilingMiRNA captureGene expressionExpression profilesHuman diseasesMiRNA expressionLibrary preparationMiRNA alterationsCell typesMiRNA releaseRNA purificationMulti-step purificationCell lines
2016
Adenosine-to-inosine RNA editing by ADAR1 is essential for normal murine erythropoiesis
Liddicoat BJ, Hartner JC, Piskol R, Ramaswami G, Chalk AM, Kingsley PD, Sankaran VG, Wall M, Purton LE, Seeburg PH, Palis J, Orkin SH, Lu J, Li JB, Walkley CR. Adenosine-to-inosine RNA editing by ADAR1 is essential for normal murine erythropoiesis. Experimental Hematology 2016, 44: 947-963. PMID: 27373493, PMCID: PMC5035604, DOI: 10.1016/j.exphem.2016.06.250.Peer-Reviewed Original ResearchMeSH KeywordsAdenosineAdenosine DeaminaseAnimalsCluster AnalysisErythrocyte IndicesErythroid CellsErythropoiesisGene ExpressionGene Expression ProfilingGene Expression Regulation, DevelopmentalGene Knockout TechniquesGranulocytesHematopoietic Stem Cell TransplantationInosineInterferonsMiceMicroRNAsMyelopoiesisOrgan SpecificityPhenotypeReceptors, InterferonRetroelementsRNA EditingRNA-Binding ProteinsSignal TransductionTranscription, GeneticConceptsRNA editingErythroid cellsNormal erythropoiesisHematopoietic stem/progenitorsHematopoietic cell typesInnate immune signalingStem/progenitorsEditing eventsErythroid-specific transcriptsEssential functionsImmune signalingMurine erythropoiesisADAR1Cell deathCell typesMyeloid-restricted deletionEditingRNAMicroRNA levelsErythropoiesisCellsProfound activationTranscriptsSignalingAdenosine
2015
Characterization of the mammalian miRNA turnover landscape
Guo Y, Liu J, Elfenbein SJ, Ma Y, Zhong M, Qiu C, Ding Y, Lu J. Characterization of the mammalian miRNA turnover landscape. Nucleic Acids Research 2015, 43: 2326-2341. PMID: 25653157, PMCID: PMC4344502, DOI: 10.1093/nar/gkv057.Peer-Reviewed Original ResearchConceptsMiRNA turnoverStable small RNAsMammalian cell typesCultured mammalian cellsSubset of miRNAsTurnover kineticsMiRNA biogenesisMost miRNAsMiR-222-5pNucleotide biasSmall RNAsMiRNA maturationMammalian cellsSame miRNAMiRNA poolExpression profilingHsp90 associationSequence determinantsDeep sequencingHsp90 inhibitionTurnover rateMiRNA isoformsDifferent turnover ratesSequence featuresCell types
2010
Lineage-Specific Transcriptional Regulation of DICER by MITF in Melanocytes
Levy C, Khaled M, Robinson KC, Veguilla RA, Chen PH, Yokoyama S, Makino E, Lu J, Larue L, Beermann F, Chin L, Bosenberg M, Song JS, Fisher DE. Lineage-Specific Transcriptional Regulation of DICER by MITF in Melanocytes. Cell 2010, 141: 994-1005. PMID: 20550935, PMCID: PMC2897150, DOI: 10.1016/j.cell.2010.05.004.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsApoptosis Regulatory ProteinsBcl-2-Like Protein 11Cell DifferentiationCell SurvivalCells, CulturedEpidermal CellsGene Expression RegulationGene Knockdown TechniquesHair FollicleHumansMelanocytesMembrane ProteinsMiceMice, Inbred C57BLMicrophthalmia-Associated Transcription FactorMicroRNAsPromoter Regions, GeneticProto-Oncogene ProteinsRibonuclease IIITranscription, GeneticUp-RegulationConceptsTranscriptional start siteLineage-specific transcriptional regulationDicer-dependent processingRegulatory element upstreamMITF bindsTranscriptional regulationMature miRNAsProapoptotic regulatorsMiRNA regulationStart siteMelanocyte survivalCentral regulatorDicerMelanocyte differentiationElement upstreamMiRNA expressionCell typesDicer expressionMiRNAsTranscriptional targetingMITFRegulatorMelanocytesExpressionRegulation
2008
The Growth Factor Environment Defines Distinct Pluripotent Ground States in Novel Blastocyst-Derived Stem Cells
Chou YF, Chen HH, Eijpe M, Yabuuchi A, Chenoweth JG, Tesar P, Lu J, McKay RD, Geijsen N. The Growth Factor Environment Defines Distinct Pluripotent Ground States in Novel Blastocyst-Derived Stem Cells. Cell 2008, 135: 449-461. PMID: 18984157, PMCID: PMC2767270, DOI: 10.1016/j.cell.2008.08.035.Peer-Reviewed Original ResearchConceptsStem cell linesGrowth factor environmentPluripotent stateTissue of originCell linesEmbryonic stem cell linesPluripotent ground stateBlastocyst embryosStem cell identityCell-cell interactionsGrowth factor conditionsStem cell typesFactor environmentPostimplantation epiblastCell identityES cellsDevelopmental stagesCell typesStem cellsFunctional differencesCritical roleEmbryosGrowth factorGrowth factor milieuEpiSCs
2001
Roads to polyploidy: The megakaryocyte example
Ravid K, Lu J, Zimmet JM, Jones MR. Roads to polyploidy: The megakaryocyte example. Journal Of Cellular Physiology 2001, 190: 7-20. PMID: 11807806, DOI: 10.1002/jcp.10035.Peer-Reviewed Original ResearchConceptsCell cycleHigher ploidyHaploid chromosome numberGroup of genesEndomitotic cell cycleChromosome numberMammalian cellsCell physiologyDifferent cell cyclesAnaphase BS phaseMultiple copiesCell typesPlatelet precursorsPolyploidyGenesMegakaryocytesPloidyPolyploidizationCytokinesisInsectsCellsMitosisPlantsPhysiology