2023
Somatic Mutations: The Next Frontier in Demystifying Chronic Obstructive Pulmonary Disease and Idiopathic Pulmonary Fibrosis?
Yan X, Kaminski N. Somatic Mutations: The Next Frontier in Demystifying Chronic Obstructive Pulmonary Disease and Idiopathic Pulmonary Fibrosis? American Journal Of Respiratory And Critical Care Medicine 2023, 208: 1150-1151. PMID: 37856835, PMCID: PMC10868359, DOI: 10.1164/rccm.202310-1774ed.Peer-Reviewed Original ResearchMorphometrics and Mucosal Immune Features in Lungs With End-stage Chronic Obstructive Pulmonary Disease
De Fays C, Beeckmans H, Kerckhof P, Geudens V, Vermaut A, Gyselinck I, Goos T, Vermant M, Kaes J, Van Slambrouck J, Mohamady Y, Willems L, Aversa L, Maes K, Aelbrecht C, Everaerts S, Mcdonough J, De Sadeleer L, Gohy S, Ambroise J, Wuyts W, Janssens W, Ceulemans L, Van Raemdonck D, Vos R, Hackett T, Hogg J, Kaminski N, Pilette C, Gayan-Ramirez G, Vanaudenaerde B. Morphometrics and Mucosal Immune Features in Lungs With End-stage Chronic Obstructive Pulmonary Disease. 2023, a6145-a6145. DOI: 10.1164/ajrccm-conference.2023.207.1_meetingabstracts.a6145.Peer-Reviewed Original ResearchRational engineering of lung alveolar epithelium
Leiby K, Yuan Y, Ng R, Raredon M, Adams T, Baevova P, Greaney A, Hirschi K, Campbell S, Kaminski N, Herzog E, Niklason L. Rational engineering of lung alveolar epithelium. Npj Regenerative Medicine 2023, 8: 22. PMID: 37117221, PMCID: PMC10147714, DOI: 10.1038/s41536-023-00295-2.Peer-Reviewed Original Research
2022
Lung Cell Atlases in Health and Disease
Adams T, Marlier A, Kaminski N. Lung Cell Atlases in Health and Disease. Annual Review Of Physiology 2022, 85: 47-69. PMID: 36351366, DOI: 10.1146/annurev-physiol-032922-082826.Peer-Reviewed Original ResearchConceptsCell atlasesSingle-cell profiling technologiesLung biologyProfiling technologiesCell typesCellular morphologyProgressive lung diseaseCellular measurementsHuman lung biologyGas exchangeLung diseaseComplex branching structuresRecent advancesDiseaseIndividual markersBiologyBranching structureUnprecedented levelHealthStructural changes
2021
A Pulmonary Vascular Model From Endothelialized Whole Organ Scaffolds
Yuan Y, Leiby KL, Greaney AM, Raredon MSB, Qian H, Schupp JC, Engler AJ, Baevova P, Adams TS, Kural MH, Wang J, Obata T, Yoder MC, Kaminski N, Niklason LE. A Pulmonary Vascular Model From Endothelialized Whole Organ Scaffolds. Frontiers In Bioengineering And Biotechnology 2021, 9: 760309. PMID: 34869270, PMCID: PMC8640093, DOI: 10.3389/fbioe.2021.760309.Peer-Reviewed Original ResearchVascular diseaseEndothelial phenotypeLung vascular diseaseAcute lung injuryPulmonary microvascular functionWhole lung scaffoldsVascular barrier functionLung injuryMicrovascular functionEndothelial cell coverageSingle-cell RNA-sequencing analysisLPS treatmentProinflammatory signalsWhole lungLung endotheliumLung systemVascular barrierOrgan engineering approachesBarrier functionLungWhole-organ scaffoldsVascular structuresDrug mechanismsEndotheliumDisease
2020
An allosteric site on MKP5 reveals a strategy for small-molecule inhibition
Gannam Z, Min K, Shillingford SR, Zhang L, Herrington J, Abriola L, Gareiss PC, Pantouris G, Tzouvelekis A, Kaminski N, Zhang X, Yu J, Jamali H, Ellman JA, Lolis E, Anderson KS, Bennett AM. An allosteric site on MKP5 reveals a strategy for small-molecule inhibition. Science Signaling 2020, 13 PMID: 32843541, PMCID: PMC7569488, DOI: 10.1126/scisignal.aba3043.Peer-Reviewed Original ResearchMeSH KeywordsAllosteric SiteAmino Acid SequenceAnimalsCell DifferentiationCell LineDual-Specificity PhosphatasesEnzyme InhibitorsFemaleHigh-Throughput Screening AssaysHumansKineticsMiceMice, KnockoutMitogen-Activated Protein Kinase PhosphatasesMyoblastsProtein BindingSequence Homology, Amino AcidSignal TransductionSmall Molecule LibrariesConceptsDystrophic muscle diseaseMitogen-activated protein kinaseMuscle diseaseTGF-β1Promising therapeutic targetP38 mitogen-activated protein kinaseTherapeutic strategiesTherapeutic targetSmall molecule inhibitionSmad2 phosphorylationDiseasePotential targetSmall-molecule screenInhibitorsTreatmentInhibition
2019
Plasma mitochondrial DNA is associated with extrapulmonary sarcoidosis
Ryu C, Brandsdorfer C, Adams T, Hu B, Kelleher DW, Yaggi M, Manning EP, Walia A, Reeves B, Pan H, Winkler J, Minasyan M, Dela Cruz CS, Kaminski N, Gulati M, Herzog EL. Plasma mitochondrial DNA is associated with extrapulmonary sarcoidosis. European Respiratory Journal 2019, 54: 1801762. PMID: 31273041, PMCID: PMC8088542, DOI: 10.1183/13993003.01762-2018.Peer-Reviewed Original ResearchConceptsExtrapulmonary diseaseMitochondrial DNAExtracellular mtDNABAL fluidAlpha-1 antitrypsin deficiencyPlasma mitochondrial DNAPlasma of patientsAfrican AmericansExtrapulmonary sarcoidosisSarcoidosis cohortSarcoidosis subjectsScadding stageAfrican American descentClinical featuresClinical findingsGranulomatous diseaseHealthy controlsAntitrypsin deficiencyGenomic researchHigher oddsSarcoidosisAggressive phenotypeMechanistic basisDiseaseTherapeutic insightsHigh-Throughput Sequencing in Respiratory, Critical Care, and Sleep Medicine Research. An Official American Thoracic Society Workshop Report
Hersh CP, Adcock IM, Celedón JC, Cho MH, Christiani DC, Himes BE, Kaminski N, Mathias RA, Meyers DA, Quackenbush J, Redline S, Steiling KA, Tabor HK, Tobin MD, Wurfel MM, Yang IV, Koppelman GH. High-Throughput Sequencing in Respiratory, Critical Care, and Sleep Medicine Research. An Official American Thoracic Society Workshop Report. Annals Of The American Thoracic Society 2019, 16: 1-16. PMID: 30592451, PMCID: PMC6812157, DOI: 10.1513/annalsats.201810-716ws.Peer-Reviewed Original ResearchConceptsCritical careSleep medicine researchAmerican Thoracic Society meetingOfficial American Thoracic Society Workshop ReportCommon chronic diseasesMedicine researchNonmalignant diseasesLung cancerChronic diseasesPractice guidelinesRespiratory diseaseBest practice guidelinesSleep medicineStudy designDiseaseWorkshop reportCareReporting of resultsRelevant diseasesSingle-day workshopMonogenic diseasesGenetic epidemiologyReportReview articleSociety meetings
2018
Evolving Genomics of Pulmonary Fibrosis
Ibarra G, Herazo-Maya J, Kaminski N. Evolving Genomics of Pulmonary Fibrosis. Respiratory Medicine 2018, 207-239. DOI: 10.1007/978-3-319-99975-3_9.Peer-Reviewed Original ResearchTranscript profiling approachesProfiling approachPotential drug targetsNonspecific interstitial pneumoniaIdiopathic pulmonary fibrosisFibrotic lung diseaseGenomic profiling studiesLung diseaseDrug targetsPulmonary fibrosisHypersensitivity pneumonitisKey moleculesProfiling studiesCells of patientsUnbiased viewDifferent interstitial lung diseasesInterstitial lung diseaseInterstitial pneumoniaLung fibrosisAnimal modelsTranscriptomeCellsGenomicsFibrosisDiseaseTime for a change: is idiopathic pulmonary fibrosis still idiopathic and only fibrotic?
Wolters PJ, Blackwell TS, Eickelberg O, Loyd JE, Kaminski N, Jenkins G, Maher TM, Molina-Molina M, Noble PW, Raghu G, Richeldi L, Schwarz MI, Selman M, Wuyts WA, Schwartz DA. Time for a change: is idiopathic pulmonary fibrosis still idiopathic and only fibrotic? The Lancet Respiratory Medicine 2018, 6: 154-160. PMID: 29413083, PMCID: PMC5903445, DOI: 10.1016/s2213-2600(18)30007-9.Peer-Reviewed Original ResearchConceptsIdiopathic pulmonary fibrosisPulmonary fibrosisDevelopment of IPFFatal lung diseaseAlveolar epithelial cellsClinical presentationDistal airwaysLung diseaseFibroblast fociSubpleural fibrosisMicroscopic honeycombingPathogenic mechanismsFibrosisDiseaseEpithelial cellsMolecular mechanismsAirwayPathogenesisHoneycombingCentral driver
2017
Transcriptome profiles in sarcoidosis and their potential role in disease prediction
Schupp JC, Vukmirovic M, Kaminski N, Prasse A. Transcriptome profiles in sarcoidosis and their potential role in disease prediction. Current Opinion In Pulmonary Medicine 2017, 23: 487-492. PMID: 28590292, PMCID: PMC5637542, DOI: 10.1097/mcp.0000000000000403.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsGenome-wide expression studiesWide expression studiesTranscriptome profilesTranscriptomic dataRNA sequencingExpression studiesGene expressionMolecular mechanismsLarge prospective followTh1 immune responseTranscriptomeNonnecrotizing granulomasProspective followSystemic diseaseDisease progressionTreatment outcomesImmune responseSarcoidosisPotential roleControl tissuesProgressive sarcoidosisKey roleDiseaseTranscriptomicsGranulomasChapter 7 MicroRNAs in Idiopathic Pulmonary Fibrosis Partners in Health and Disease
Pandit K, Kaminski N. Chapter 7 MicroRNAs in Idiopathic Pulmonary Fibrosis Partners in Health and Disease. 2017, 179-202. DOI: 10.1016/b978-0-12-800553-8.00007-x.Peer-Reviewed Original ResearchIdiopathic pulmonary fibrosisEtiology of IPFInterstitial lung diseaseExtent of fibrosisIPF patientsPulmonary fibrosisIrreversible scarringLung diseaseTreatment optionsAggressive formPotent cytokineGrowth factorDiseaseDreadful diseaseFibrosisLungTGFCurrent knowledgeMicroRNAsTarget genesGas exchangePatientsCytokinesScarringEtiology
2016
Integrated Genomics Reveals Convergent Transcriptomic Networks Underlying Chronic Obstructive Pulmonary Disease and Idiopathic Pulmonary Fibrosis
Kusko RL, Brothers JF, Tedrow J, Pandit K, Huleihel L, Perdomo C, Liu G, Juan-Guardela B, Kass D, Zhang S, Lenburg M, Martinez F, Quackenbush J, Sciurba F, Limper A, Geraci M, Yang I, Schwartz DA, Beane J, Spira A, Kaminski N. Integrated Genomics Reveals Convergent Transcriptomic Networks Underlying Chronic Obstructive Pulmonary Disease and Idiopathic Pulmonary Fibrosis. American Journal Of Respiratory And Critical Care Medicine 2016, 194: 948-960. PMID: 27104832, PMCID: PMC5067817, DOI: 10.1164/rccm.201510-2026oc.Peer-Reviewed Original ResearchMeSH KeywordsAdultEmphysemaFemaleGene Regulatory NetworksHumansHypoxia-Inducible Factor 1, alpha SubunitIdiopathic Pulmonary FibrosisI-kappa B ProteinsMaleMembrane ProteinsMiddle AgedNerve Tissue ProteinsOligonucleotide Array Sequence AnalysisPlatelet-Derived Growth FactorProto-Oncogene Proteins c-mdm2Pulmonary Disease, Chronic ObstructiveConceptsChronic obstructive pulmonary diseaseIdiopathic pulmonary fibrosisObstructive pulmonary diseasePulmonary diseasePulmonary fibrosisNCounter Analysis SystemHypoxia pathwayQuantitative polymerase chain reactionTranscriptomic pathwaysPolymerase chain reactionIndependent cohortEmphysemaIndependent sample setDiseaseGene expression arraysEnvironmental exposuresChain reactionFibrosisLungMolecular mechanismsExpression arraysMiR96Integrative genomics approachTranscriptional regulatory hubsPathway
2014
Future Directions in Idiopathic Pulmonary Fibrosis Research. An NHLBI Workshop Report
Blackwell TS, Tager AM, Borok Z, Moore BB, Schwartz DA, Anstrom KJ, Bar-Joseph Z, Bitterman P, Blackburn MR, Bradford W, Brown KK, Chapman HA, Collard HR, Cosgrove GP, Deterding R, Doyle R, Flaherty KR, Garcia CK, Hagood JS, Henke CA, Herzog E, Hogaboam CM, Horowitz JC, King TE, Loyd JE, Lawson WE, Marsh CB, Noble PW, Noth I, Sheppard D, Olsson J, Ortiz LA, O’Riordan T, Oury TD, Raghu G, Roman J, Sime PJ, Sisson TH, Tschumperlin D, Violette SM, Weaver TE, Wells RG, White ES, Kaminski N, Martinez FJ, Wynn TA, Thannickal VJ, Eu JP. Future Directions in Idiopathic Pulmonary Fibrosis Research. An NHLBI Workshop Report. American Journal Of Respiratory And Critical Care Medicine 2014, 189: 214-222. PMID: 24160862, PMCID: PMC3983890, DOI: 10.1164/rccm.201306-1141ws.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsIdiopathic pulmonary fibrosisAlveolar epithelial injuryEffective medical therapyRole of inflammationTime of diagnosisPatient advocacy groupsMedian survivalMedical therapyEpithelial injuryPulmonary fibrosisPulmonary fibrosis researchIPF therapyIPF researchPreclinical modelingDrug AdministrationPatient communityU.S. FoodNHLBITranslation of discoveriesClinical researchersPatientsFibrosis researchTherapyDiseaseAberrant repair
2013
Evolving Genomics of Pulmonary Fibrosis
Herazo-Maya J, Kaminski N. Evolving Genomics of Pulmonary Fibrosis. Respiratory Medicine 2013, 379-402. DOI: 10.1007/978-1-62703-682-5_19.Peer-Reviewed Original ResearchTranscript profiling approachesProfiling approachField of genomicsNonspecific interstitial pneumoniaFibrotic lung diseasePotential drug targetsLung diseaseGenomic profiling studiesHypersensitivity pneumonitisDrug targetsKey moleculesProfiling studiesDifferent interstitial lung diseasesCells of patientsUnbiased viewGenomicsInterstitial lung diseaseStudy of lungInterstitial pneumoniaPulmonary fibrosisLung fibrosisAnimal modelsTranscriptomeCellsDiseaseMicromanaging microRNAs: using murine models to study microRNAs in lung fibrosis
Cardenas C, Kaminski N, Kass DJ. Micromanaging microRNAs: using murine models to study microRNAs in lung fibrosis. Drug Discovery Today Disease Models 2013, 10: e145-e151. PMID: 25328532, PMCID: PMC4201640, DOI: 10.1016/j.ddmod.2012.11.003.Peer-Reviewed Original ResearchIdiopathic pulmonary fibrosisLung fibrosisAlveolar cell hyperplasiaInterstitial lung diseaseExtensive phenotypic changesRole of microRNAsMyofibroblast fociPulmonary fibrosisCell hyperplasiaLung diseaseLung healthUnknown etiologyMurine modelTranscriptional programmingAnimal modelsFibrosisPhenotypic changesPathological processesDiseaseExtracellular matrixMicroRNAsLatest insightsSpecific patternsHyperplasiaLung
2012
Personalized medicine: applying omics to lung fibrosis
Herazo-Maya JD, Kaminski N. Personalized medicine: applying omics to lung fibrosis. Biomarkers In Medicine 2012, 6: 529-540. PMID: 22917154, PMCID: PMC3517740, DOI: 10.2217/bmm.12.38.Peer-Reviewed Original ResearchConceptsIdiopathic pulmonary fibrosisFibrotic lung diseaseLung transplantPulmonary fibrosisLung fibrosisLung diseaseUnknown etiologyChronic diseasesSporadic formsHigh mortalityPatient careTreatment of diseasesDrug studiesCost-effective strategyDiseaseFibrosisDiagnosisPersonalized medicinePatientsTransplantEtiologyTherapyMortalityCarePreventionGenome-Wide DNA Methylation Patterns In Interstitial Lung Disease (ILD) And Chronic Obstructive Lung Disease (COPD)
Yang I, Pedersen B, Hennessy C, Davidson E, Bonney M, Leach S, Brown J, Turner J, Guardela B, Tedrow J, Correll M, Geraci M, Kaminski N, Quackenbush J, Sciurba F, Spira A, Schwartz D. Genome-Wide DNA Methylation Patterns In Interstitial Lung Disease (ILD) And Chronic Obstructive Lung Disease (COPD). 2012, a2667-a2667. DOI: 10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a2667.Peer-Reviewed Original ResearchAssociation Of Plasma Levels Of PTX3 With Clinical Phenotypes Of Chronic Obstructive Pulmonary Disease
Zhang Y, Tedrow J, Zeng Q, Bon J, Chu Y, Duncan S, Weissfeld J, Leader K, Fuhrman C, Branch R, Porter M, Kaminski N, Sciurba F. Association Of Plasma Levels Of PTX3 With Clinical Phenotypes Of Chronic Obstructive Pulmonary Disease. 2012, a2670-a2670. DOI: 10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a2670.Peer-Reviewed Original Research
2011
A Variant In The Promoter Of MUC5B Is Associated With Idiopathic Pulmonary Fibrosis And Not Chronic Obstructive Pulmonary Disease
Zhang Y, Noth I, Gibson K, Ma S, Richards T, Bon J, Lindell K, Branch R, Nicolae D, Sciurba F, Garcia A, Kaminski N. A Variant In The Promoter Of MUC5B Is Associated With Idiopathic Pulmonary Fibrosis And Not Chronic Obstructive Pulmonary Disease. 2011, a6395-a6395. DOI: 10.1164/ajrccm-conference.2011.183.1_meetingabstracts.a6395.Peer-Reviewed Original Research