2024
Evaluating performance and applications of sample-wise cell deconvolution methods on human brain transcriptomic data
Dai R, Chu T, Zhang M, Wang X, Jourdon A, Wu F, Mariani J, Vaccarino F, Lee D, Fullard J, Hoffman G, Roussos P, Wang Y, Wang X, Pinto D, Wang S, Zhang C, consortium P, Chen C, Liu C. Evaluating performance and applications of sample-wise cell deconvolution methods on human brain transcriptomic data. Science Advances 2024, 10: eadh2588. PMID: 38781336, PMCID: PMC11114236, DOI: 10.1126/sciadv.adh2588.Peer-Reviewed Original ResearchConceptsHuman brain transcriptome dataBrain transcriptomic dataRNA-seqTranscriptome dataCell-type gene expressionGene expressionCell-type proportionsSingle-cell dataMultiple brain disordersBrain cell typesCell deconvolution methodsPostmortem brainsRNA sequencingBrain disordersBrain developmentSchizophreniaEQTLAlzheimer's diseaseCell typesOrganoid samplesBrainBiological applications
2022
3D Bioprinting Using Hydrogels: Cell Inks and Tissue Engineering Applications
Dell A, Wagner G, Own J, Geibel J. 3D Bioprinting Using Hydrogels: Cell Inks and Tissue Engineering Applications. Pharmaceutics 2022, 14: 2596. PMID: 36559090, PMCID: PMC9784738, DOI: 10.3390/pharmaceutics14122596.Peer-Reviewed Original ResearchTissue engineering applicationsPrintable formulationsBioprinting processEngineering applicationsProcess optimizationBioprinting methodInk formulationTissue engineeringTailorable materialsBioprintingBiomedical applicationsBiological tissuesHydrogelsNew hydrogelsInkPromising optionNovel methodApplicationsBiological applicationsFormulationVariety of techniquesEngineeringMethodMaterials
2016
Ultra-High Resolution 3D Imaging of Whole Cells
Huang F, Sirinakis G, Allgeyer ES, Schroeder LK, Duim WC, Kromann EB, Phan T, Rivera-Molina FE, Myers JR, Irnov I, Lessard M, Zhang Y, Handel MA, Jacobs-Wagner C, Lusk CP, Rothman JE, Toomre D, Booth MJ, Bewersdorf J. Ultra-High Resolution 3D Imaging of Whole Cells. Cell 2016, 166: 1028-1040. PMID: 27397506, PMCID: PMC5005454, DOI: 10.1016/j.cell.2016.06.016.Peer-Reviewed Original ResearchConceptsCell biological researchResolution 3D imagingHigh-resolution 3D imagingOptical nanoscopeSuper-resolution microscopyThree-dimensional structureMammalian cellsNuclear poresSynaptonemal complexFluorescence nanoscopyThick samplesThin samplesBiological researchNanoscopyInferior resolutionCellular volumeWhole cellsDepth directionMolecular architecturePractical biological applicationsBiological applicationsComplex molecular architecturesResolutionNanoscopeCells
2015
“Pop-slide” patterning: rapid fabrication of microstructured PDMS gasket slides for biological applications
Ramji R, Khan NT, Muñoz-Rojas A, Miller-Jensen K. “Pop-slide” patterning: rapid fabrication of microstructured PDMS gasket slides for biological applications. RSC Advances 2015, 5: 66294-66300. PMID: 26949529, PMCID: PMC4772973, DOI: 10.1039/c5ra09056c.Peer-Reviewed Original Research
2013
Electric Field-Driven Water Dipoles: Nanoscale Architecture of Electroporation
Tokman M, Lee JH, Levine ZA, Ho MC, Colvin ME, Vernier PT. Electric Field-Driven Water Dipoles: Nanoscale Architecture of Electroporation. PLOS ONE 2013, 8: e61111. PMID: 23593404, PMCID: PMC3623848, DOI: 10.1371/journal.pone.0061111.Peer-Reviewed Original ResearchConceptsInterfacial water moleculesMolecular mechanismsWater moleculesLipid bilayersNovel molecular mechanismWater-vacuum interfaceMolecular dynamics simulationsRole of waterEnergetic analysisCell membranePore formationWater dipolesMolecular dipolesBiological applicationsNanoscale architectureDynamics simulationsElectroporationLipid layerMain playersMembranePassive barrierMoleculesFavorable configurationBilayersReorganization
2010
A New Wave of Cellular Imaging
Toomre D, Bewersdorf J. A New Wave of Cellular Imaging. Annual Review Of Cell And Developmental Biology 2010, 26: 285-314. PMID: 20929313, DOI: 10.1146/annurev-cellbio-100109-104048.Peer-Reviewed Original ResearchConceptsTransient intermediate statesDiffraction limitTotal internal reflection fluorescence microscopyNanoscopy techniquesEmission depletionStructured illuminationAxial resolutionOptical principlesNanometer resolutionUse of scanningIntermediate stateSingle moleculesCellular imagingReflection fluorescence microscopyBiological applications
1988
Biological 1H NMR spectroscopy
Petroff O. Biological 1H NMR spectroscopy. Comparative Biochemistry And Physiology Part B Comparative Biochemistry 1988, 90: 249-260. PMID: 3044689, DOI: 10.1016/0305-0491(88)90069-7.Peer-Reviewed Original ResearchConceptsProton nuclear magnetic resonance spectroscopyNuclear magnetic resonance spectroscopyRecent biological applicationsPowerful analytical methodMagnetic resonance spectroscopyNMR spectroscopyNMR methodsRate of metabolismBiological applicationsMetabolic fluxResonance spectroscopyChemical compoundsComplex mixturesAbnormal physiological conditionsNMRCompoundsSpectroscopyAnalytical methodPhysiological conditionsExogenous compoundsIntracellular pHBody fluidsMetabolismMetabolic pathophysiologyMagnetization transfer
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