2023
Genome size and GC content of myxomycetes
Li S, Qi B, Peng X, Wang W, Wang W, Liu P, Liu B, Peng Z, Wang Q, Li Y. Genome size and GC content of myxomycetes. European Journal Of Protistology 2023, 90: 125991. PMID: 37331249, DOI: 10.1016/j.ejop.2023.125991.Peer-Reviewed Original ResearchConceptsDark-spored cladeGenome sizeGC contentMyxomycete speciesAnalysis of genome sizeGC content evolutionGenome size dataGenome size variationPhylogeny-based analysesGenome sequenceMyxomycete studiesSpore sizeGenomeCladeMyxomycetesSize variationSpeciesFlow cytometryAmoebozoaContent evolutionSporesSequenceSize dataExtensive surveyCytometry
2022
Quantitative Analysis of B-Cell Subpopulations in Bone Marrow by Flow Cytometry
Geng T, Wang P. Quantitative Analysis of B-Cell Subpopulations in Bone Marrow by Flow Cytometry. Methods In Molecular Biology 2022, 2585: 71-77. PMID: 36331766, DOI: 10.1007/978-1-0716-2760-0_8.Peer-Reviewed Original ResearchProtocol for assessing translational regulation in mammalian cell lines by OP-Puro labeling
Hsu JC, Pawlak JB, Laurent-Rolle M, Cresswell P. Protocol for assessing translational regulation in mammalian cell lines by OP-Puro labeling. STAR Protocols 2022, 3: 101654. PMID: 36072758, PMCID: PMC9442383, DOI: 10.1016/j.xpro.2022.101654.Peer-Reviewed Original ResearchConceptsTranslational regulationMammalian cell linesDifferent cell typesDifferent growth conditionsMammalian cellsTranslation activityGene expressionBiological processesCell typesComplete detailsConfocal microscopyCell linesGrowth conditionsPuromycin analoguesCritical roleRegulationCellsProteinLabelingFundamental stepExpressionClick chemistry reactionActivityCytometryAutomated analysers underestimate atypical basophil count in myeloid neoplasms
Shah HP, Tormey CA, Siddon AJ. Automated analysers underestimate atypical basophil count in myeloid neoplasms. International Journal Of Laboratory Hematology 2022, 44: 831-836. PMID: 35609868, DOI: 10.1111/ijlh.13882.Peer-Reviewed Original ResearchConceptsMyeloid neoplasmsBasophil percentageBasophil countsMyeloproliferative neoplasmsManual differentialMyeloid disordersFlow cytometryTertiary care centerChronic myeloid leukemiaMyeloid neoplasms patientsControl patientsMyelodysplastic diseasesMean ageNeoplasm patientsControl subjectsCare centerMyeloid leukemiaPatientsNeoplasmsAtypical appearanceScatter propertiesMyeloid diseasesBasophilsDisorder diagnosisCytometry
2021
Using Imaging Mass Cytometry to Define Cell Identities and Interactions in Human Tissues
Kakade VR, Weiss M, Cantley LG. Using Imaging Mass Cytometry to Define Cell Identities and Interactions in Human Tissues. Frontiers In Physiology 2021, 12: 817181. PMID: 35002783, PMCID: PMC8727440, DOI: 10.3389/fphys.2021.817181.Peer-Reviewed Original ResearchSingle-cell sequencingComplex cellular microenvironmentHuman disease pathogenesisKidney cell typesCell identityHuman kidney samplesMultiplexed imaging techniquesMass cytometryCell sequencingCellular microenvironmentCell typesNovel insightsImaging Mass CytometryHuman tissuesDisease pathogenesisPathophysiological processesCellular dataAntibody validationProteomicsCytometryHuman kidneyIMC analysisSequencingKidney samplesPhenotypingHighly Stable Red-Emissive Ratiometric Probe for Monitoring β‑Galactosidase Activity Using Fluorescence Microscopy and Flow Cytometry
Lee H, Juvekar V, Lee D, Kim S, Kim H. Highly Stable Red-Emissive Ratiometric Probe for Monitoring β‑Galactosidase Activity Using Fluorescence Microscopy and Flow Cytometry. Analytical Chemistry 2021, 93: 14778-14783. PMID: 34705435, DOI: 10.1021/acs.analchem.1c03453.Peer-Reviewed Original ResearchConceptsCell sorting flow cytometryB-galactosidase activitySorting flow cytometryReporter enzymeFluorescence-activated cell sorting flow cytometryB-galFlow cytometryLiving cellsEnzyme activityB-galactosidaseFluorescence microscopyEnzymeRatiometric imagingOvarian cancerRatiometric probeFluorescent probeMinimal cytotoxicityEmission color changeCytometryProbeLarge-scale, three-dimensional tissue cytometry of the human kidney: a complete and accessible pipeline
Ferkowicz M, Winfree S, Sabo A, Kamocka M, Khochare S, Barwinska D, Eadon M, Cheng Y, Phillips C, Sutton T, Kelly K, Dagher P, El-Achkar T, Dunn K, Project F, Knight R, Lecker S, Stillman I, Mcmahon G, Waikar S, Weins A, Hacohen N, Hoover P, Aulisio M, Cooperman L, Herlitz L, O'toole J, Poggio E, Sedor J, Appelbaum P, Barasch J, Bomback A, D'agati V, Kiryluk K, Mehl K, Shang N, Weng C, Barisoni L, Alexandrov T, Ashkar T, Barwinska D, Dagher P, Dunn K, Eadon M, Ferkowicz M, Kelly K, Sutton T, Winfree S, Menez S, Parikh C, Rosenberg A, Villalobos P, Slack A, Rosas S, Williams M, Azeloglu E, He C, Iyengar R, Parikh S, Anderton C, Pasa-Tolic L, Velickovic D, Oliver G, Ardayfio J, Bebiak J, Brown K, Campbell T, Campbell C, Hayashi L, Jefferson N, Koewler R, Roberts G, Saul J, Shpigel A, Stutzke E, Wright L, Miegs L, Pinkeney R, Sealfon R, Troyanskaya O, Tuttle K, Goltsev Y, Lake B, Zhang K, Dobi D, Joanes M, Laszik Z, Nolan G, Schroeder A, Balis U, He O, Hodgin J, Kretzler M, Mariani L, Menon R, Otto E, Schaub J, Steck B, Elder M, Hall D, Kellum J, Kruth M, Murugan R, Palevsky P, Randhawa P, Rosengart M, Sims-Lucas S, Stefanick M, Stull S, Tublin M, Alpers C, De Boer I, Fullerton M, Himmelfarb J, Mcclelland R, Mooney S, Shankland S, Williams K, Blank K, Dighe A, Carson J, Dowd F, Drager Z, Sharma K, Zhang G, Kermani A, Lee S, Lu C, Miller T, Moe O, Park H, Sambandam K, Sanchez F, Torrealba J, Robert T, Vazquez M, Wang N, Gaut J, Jain S, Vijayan A, Luciano R, Moledina D, Ugochukwu U, Wilson F. Large-scale, three-dimensional tissue cytometry of the human kidney: a complete and accessible pipeline. Laboratory Investigation 2021, 101: 661-676. PMID: 33408350, PMCID: PMC8363780, DOI: 10.1038/s41374-020-00518-w.Peer-Reviewed Original ResearchConceptsSingle-cell techniquesCell physiologyTissue cytometryClinical tissue samplesHuman kidney tissueTissue samplesPersonalized medicineMolecular informationQuantitative censusAdvent of personalized medicineSpectral confocal microscopyRenal biopsyConfocal microscopyDiabetic nephropathyPathology of kidney diseaseKidney diseaseFlow cytometryIntact tissueCellsHuman nephrectomyHuman kidneyCytometryVolumetric Tissue Exploration
2019
P1.04-23 Characterizing the Tumor Immune Microenvironment of Non-Small Cell Lung Carcinoma in People Living with HIV Using Imaging Mass Cytometry
Yusuf R, Villarroel-Espindola F, Schalper K, Emu B. P1.04-23 Characterizing the Tumor Immune Microenvironment of Non-Small Cell Lung Carcinoma in People Living with HIV Using Imaging Mass Cytometry. Journal Of Thoracic Oncology 2019, 14: s448. DOI: 10.1016/j.jtho.2019.08.926.Peer-Reviewed Original ResearchMultiplexed imaging of immune cells in staged multiple sclerosis lesions by mass cytometry
Ramaglia V, Sheikh-Mohamed S, Legg K, Park C, Rojas OL, Zandee S, Fu F, Ornatsky O, Swanson EC, Pitt D, Prat A, McKee TD, Gommerman JL. Multiplexed imaging of immune cells in staged multiple sclerosis lesions by mass cytometry. ELife 2019, 8: e48051. PMID: 31368890, PMCID: PMC6707785, DOI: 10.7554/elife.48051.Peer-Reviewed Original ResearchConceptsMultiple sclerosisMS disease activityT-cell phenotypeMass cytometryTypes of lymphocytesMultiple sclerosis lesionsNatalizumab cessationDisease activityMS patientsInflammatory lesionsImmune cellsSpinal cordLesion morphometryMS lesionsB cellsLesion typeSclerosis lesionsLesionsBlood vesselsCell phenotypeFunctional stateCytometryCellular contentCell-cell interactionsPhenotypeMultiplexed (18-Plex) Measurement of Signaling Targets and Cytotoxic T Cells in Trastuzumab-Treated Patients using Imaging Mass Cytometry
Carvajal-Hausdorf DE, Patsenker J, Stanton KP, Villarroel-Espindola F, Esch A, Montgomery RR, Psyrri A, Kalogeras KT, Kotoula V, Foutzilas G, Schalper KA, Kluger Y, Rimm DL. Multiplexed (18-Plex) Measurement of Signaling Targets and Cytotoxic T Cells in Trastuzumab-Treated Patients using Imaging Mass Cytometry. Clinical Cancer Research 2019, 25: 3054-3062. PMID: 30796036, PMCID: PMC6522272, DOI: 10.1158/1078-0432.ccr-18-2599.Peer-Reviewed Original ResearchConceptsTrastuzumab-treated patientsT cell infiltrationCD8 T cell infiltrationCohort of patientsCytotoxic T cellsMass cytometryCase-control seriesExtracellular domainMechanism of actionTrastuzumab benefitAdjuvant treatmentCD8 cellsRecurrence eventsT cellsAntibody panelImmune systemPatientsMetal-conjugated antibodiesQuantitative immunofluorescenceTrastuzumabImaging Mass CytometryHER2Signaling targetsObjective measurementsCytometrySu1885 – Analysis of Human Colonic Tissue and Peripheral Blood by Mass Cytometry Reveals Immune Signatures Differentiating Inflammatory States in Uc, Cd, and Controls
Mitsialis V, Wall S, Parmet T, Bousvaros A, Korzenik J, Snapper S, Konnikova L. Su1885 – Analysis of Human Colonic Tissue and Peripheral Blood by Mass Cytometry Reveals Immune Signatures Differentiating Inflammatory States in Uc, Cd, and Controls. Gastroenterology 2019, 156: s-648-s-649. DOI: 10.1016/s0016-5085(19)38522-1.Peer-Reviewed Original ResearchReporting and connecting cell type names and gating definitions through ontologies
Overton JA, Vita R, Dunn P, Burel JG, Bukhari SAC, Cheung KH, Kleinstein SH, Diehl AD, Peters B. Reporting and connecting cell type names and gating definitions through ontologies. BMC Bioinformatics 2019, 20: 182. PMID: 31272390, PMCID: PMC6509839, DOI: 10.1186/s12859-019-2725-5.Peer-Reviewed Original Research
2018
PD-L1 binds to B7-1 only in cis on the same cell surface
Chaudhri A, Xiao Y, Klee A, Wang X, Zhu B, Freeman G. PD-L1 binds to B7-1 only in cis on the same cell surface. Cancer Immunology Research 2018, 6: canimm.0316.2017. PMID: 29871885, PMCID: PMC7394266, DOI: 10.1158/2326-6066.cir-17-0316.Peer-Reviewed Original ResearchConceptsPD-L1PD-1B7-1Tumor-infiltrating myeloid cellsB7-1 interactionPD-L1 bindsSoluble PD-1Death ligand 1T cell functionPD-L1 bindingPeripheral toleranceTumor immunotherapyCancer immunotherapyCell binding assaysImmune attackMyeloid cellsSame cellsSuch coexpressionSame cell surfaceLigand 1ImmunotherapyCD28Further investigationELISACytometryHeat-induced radiolabeling and fluorescence labeling of Feraheme nanoparticles for PET/SPECT imaging and flow cytometry
Yuan H, Wilks M, Normandin M, El Fakhri G, Kaittanis C, Josephson L. Heat-induced radiolabeling and fluorescence labeling of Feraheme nanoparticles for PET/SPECT imaging and flow cytometry. Nature Protocols 2018, 13: 392-412. PMID: 29370158, PMCID: PMC5966297, DOI: 10.1038/nprot.2017.133.Peer-Reviewed Original Research
2016
Review: imaging technologies for flow cytometry
Han Y, Gu Y, Zhang A, Lo Y. Review: imaging technologies for flow cytometry. Lab On A Chip 2016, 16: 4639-4647. PMID: 27830849, PMCID: PMC5311077, DOI: 10.1039/c6lc01063f.Peer-Reviewed Original Research
2015
Heat‐Induced Radiolabeling of Nanoparticles for Monocyte Tracking by PET
Normandin M, Yuan H, Wilks M, Chen H, Kinsella J, Cho H, Guehl N, Absi‐Halabi N, Hosseini S, Fakhri G, Sosnovik D, Josephson L. Heat‐Induced Radiolabeling of Nanoparticles for Monocyte Tracking by PET. Angewandte Chemie International Edition 2015, 54: 13002-13006. PMID: 26368132, PMCID: PMC4754124, DOI: 10.1002/anie.201505525.Peer-Reviewed Original ResearchConceptsPositron emission tomographyRadiolabelling of nanoparticlesStandardized uptake valueNP pharmacokineticsSlow uptake processUptake valueLymph nodesCirculating monocytesMonocyte traffickingIV injectionImmune responseBlood clearanceEmission tomographyHepatic uptakeMonocytesPharmacokineticsLymphUptake processCytometryImpact of recent innovations in the use of mass cytometry in support of drug development
Nassar AF, Ogura H, Wisnewski AV. Impact of recent innovations in the use of mass cytometry in support of drug development. Drug Discovery Today 2015, 20: 1169-1175. PMID: 26092491, PMCID: PMC4668584, DOI: 10.1016/j.drudis.2015.06.001.Peer-Reviewed Original ResearchConceptsSingle-cell technologiesSingle-cell levelDrug developmentSingle cellsDiseased statesCell levelMechanism of actionMass cytometryCellsDrug profilingIndividual biological cellsCyTOFImportant roleSignal overlapCytometryIndividual samplesBiological cellsProfilingSignificant advancesCell technology
2014
CyTOF supports efficient detection of immune cell subsets from small samples
Yao Y, Liu R, Shin MS, Trentalange M, Allore H, Nassar A, Kang I, Pober JS, Montgomery RR. CyTOF supports efficient detection of immune cell subsets from small samples. Journal Of Immunological Methods 2014, 415: 1-5. PMID: 25450003, PMCID: PMC4269324, DOI: 10.1016/j.jim.2014.10.010.Peer-Reviewed Original ResearchConceptsImmune cell subsetsCell subsetsImmune cell statesPatient biopsiesTranslational investigationsFlow cytometryClinical researchCellular analysisMass cytometryMultiple cell populationsCell populationsCytometryCyTOFSingle-cell analysisMultiparameter single cell analysisFluorescence cytometryFluorescence-based flow cytometryCell statesHuman diseasesMarkersTremendous detailBiopsyPathogenesisSingle-cell mass cytometry of TCR signaling: Amplification of small initial differences results in low ERK activation in NOD mice
Mingueneau M, Krishnaswamy S, Spitzer MH, Bendall SC, Stone EL, Hedrick SM, Pe'er D, Mathis D, Nolan GP, Benoist C. Single-cell mass cytometry of TCR signaling: Amplification of small initial differences results in low ERK activation in NOD mice. Proceedings Of The National Academy Of Sciences Of The United States Of America 2014, 111: 16466-16471. PMID: 25362052, PMCID: PMC4246343, DOI: 10.1073/pnas.1419337111.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsDiabetes Mellitus, Type 1Disease Models, AnimalEnzyme ActivationExtracellular Signal-Regulated MAP KinasesGenetic VariationI-kappa B ProteinsImmune ToleranceImmunity, CellularImmunologic Deficiency SyndromesImmunologic MemoryLymph NodesLymphopoiesisMaleMAP Kinase Signaling SystemMass SpectrometryMiceMice, Inbred C57BLMice, Inbred NODMice, KnockoutMitogen-Activated Protein Kinase 1NF-KappaB Inhibitor alphaPhosphorylationProtein Processing, Post-TranslationalReceptors, Antigen, T-CellSelf ToleranceSingle-Cell AnalysisThymus GlandConceptsT cellsT cell differentiationNOD T cellsERK activationNonobese diabetic (NOD) miceMemory T cellsKO T cellsMass cytometrySingle-cell mass cytometryNOD miceDiabetic miceB6 miceControl C57BL/6Small impairmentMicePrimary deficiencyTCR signalingPhosphorylation levelsLarge defectsTCR triggeringActivationLower ERK activationImpairmentCytometryCells
2013
Analysis of T Cells Using Flow Cytometry
Kang I. Analysis of T Cells Using Flow Cytometry. Journal Of Rheumatic Diseases 2013, 20: 83-86. DOI: 10.4078/jrd.2013.20.2.83.Peer-Reviewed Original Research
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