2012
Retinoic Acid–related Orphan Receptor-α Is Induced in the Setting of DNA Damage and Promotes Pulmonary Emphysema
Shi Y, Cao J, Gao J, Zheng L, Goodwin A, An CH, Patel A, Lee JS, Duncan SR, Kaminski N, Pandit KV, Rosas IO, Choi AM, Morse D. Retinoic Acid–related Orphan Receptor-α Is Induced in the Setting of DNA Damage and Promotes Pulmonary Emphysema. American Journal Of Respiratory And Critical Care Medicine 2012, 186: 412-419. PMID: 22744720, PMCID: PMC5450975, DOI: 10.1164/rccm.201111-2023oc.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBiomarkersCells, CulturedDisease Models, AnimalDNA DamageDNA RepairGene Expression ProfilingHumansLungMiceMice, Inbred C57BLMice, Neurologic MutantsNuclear Receptor Subfamily 1, Group F, Member 1Oligonucleotide Array Sequence AnalysisPulmonary Disease, Chronic ObstructivePulmonary EmphysemaTobacco Smoke PollutionConceptsRetinoic acid-related orphan receptorAcid-related orphan receptorCigarette smoke extractLungs of patientsPathogenesis of emphysemaRORA expressionCigarette smokeAirspace enlargementSmoke extractCigarette smoke exposureSmoke-induced emphysemaOrphan receptorDNA damageActive smokingLung transplantationSmoke exposureLung cancerPulmonary emphysemaLung tissueEmphysemaPatientsGene expression profilingApoptotic cell deathMiceEnhanced susceptibility
2011
Evolving Genomic Approaches to Idiopathic Pulmonary Fibrosis: Moving Beyond Genes
Kass DJ, Kaminski N. Evolving Genomic Approaches to Idiopathic Pulmonary Fibrosis: Moving Beyond Genes. Clinical And Translational Science 2011, 4: 372-379. PMID: 22029812, PMCID: PMC3229869, DOI: 10.1111/j.1752-8062.2011.00287.x.Peer-Reviewed Original ResearchConceptsGenomic technologiesIdiopathic pulmonary fibrosisPathogenesis of diseaseGenomic discoveriesSystems biology approachGene expression profilingContribution of microRNAsMost human diseasesGenomic approachesGene networksBiology approachHuman genomeEpigenetic researchGenomic dataExpression profilingHuman diseasesPulmonary fibrosisDiagnosis of IPFGenesLarge collaborative studiesProgressive scarringPeripheral bloodClinical severityLung parenchymaTherapeutic goals
2008
Carbon Monoxide Modulates α–Smooth Muscle Actin and Small Proline Rich-1a Expression in Fibrosis
Zheng L, Zhou Z, Lin L, Alber S, Watkins S, Kaminski N, Choi AM, Morse D. Carbon Monoxide Modulates α–Smooth Muscle Actin and Small Proline Rich-1a Expression in Fibrosis. American Journal Of Respiratory Cell And Molecular Biology 2008, 41: 85-92. PMID: 19097987, PMCID: PMC2701963, DOI: 10.1165/rcmb.2007-0401oc.Peer-Reviewed Original ResearchMeSH KeywordsActinsAdministration, InhalationAnimalsBleomycinBone DevelopmentCarbon MonoxideCell DeathCell MovementCells, CulturedCornified Envelope Proline-Rich ProteinsDisease Models, AnimalDose-Response Relationship, DrugExtracellular Signal-Regulated MAP KinasesFibroblastsGene Expression ProfilingLungMaleMAP Kinase Signaling SystemMiceMice, Inbred C57BLMuscle DevelopmentOrganometallic CompoundsPulmonary FibrosisTime FactorsTransforming Growth Factor beta1UbiquitinationConceptsExtracellular signal-regulated kinase (ERK) pathwayCategories of genesSignal-regulated kinase pathwayNovel transcriptional targetMuscular system developmentGene expression profilingMurine bleomycin modelStress-inducible enzymeTranscriptional targetsAlpha-smooth muscle actin expressionExpression profilingKinase pathwayMuscle actin expressionΑ-smooth muscle actinEffects of COActin expressionGrowth factorHeme oxygenaseExpressionMuscle actinActive moleculesGenesOxygenaseProteinActin
2007
Chromosomal aberrations and gene expression profiles in non-small cell lung cancer
Dehan E, Ben-Dor A, Liao W, Lipson D, Frimer H, Rienstein S, Simansky D, Krupsky M, Yaron P, Friedman E, Rechavi G, Perlman M, Aviram-Goldring A, Izraeli S, Bittner M, Yakhini Z, Kaminski N. Chromosomal aberrations and gene expression profiles in non-small cell lung cancer. Lung Cancer 2007, 56: 175-184. PMID: 17258348, DOI: 10.1016/j.lungcan.2006.12.010.Peer-Reviewed Original ResearchConceptsDNA replicationCopy numberWnt/beta-catenin pathwaySet of genesGene Ontology annotationsFunctional enrichment analysisExpression levelsAmplification of 3qGene expression profilesBeta-catenin pathwayGene expression analysisGene expression profilingArray CGHMatrix metalloproteasesGene expression levelsConcordant changesCopy number changesDNA copy numberActing genesArray comparative genomic hybridizationOntology annotationsComparative genomic hybridizationGenomic contentReal-time quantitative PCRExpression analysis
2006
Gene Expression Profiling as a Window into Idiopathic Pulmonary Fibrosis Pathogenesis
Kaminski N, Rosas IO. Gene Expression Profiling as a Window into Idiopathic Pulmonary Fibrosis Pathogenesis. Annals Of The American Thoracic Society 2006, 3: 339-344. PMID: 16738198, PMCID: PMC2658685, DOI: 10.1513/pats.200601-011tk.Peer-Reviewed Original ResearchConceptsIdiopathic pulmonary fibrosisModel of IPFIdiopathic pulmonary fibrosis (IPF) pathogenesisPulmonary fibrosis pathogenesisMinority of investigatorsPulmonary fibrosisFibrosis pathogenesisGene expression profilingMultiple diseasesExpression microarraysExpression profilingGene expressionMicroarrayIntegrative systems approachGene expression profiling of target genes in ventilator-induced lung injury
Dolinay T, Kaminski N, Felgendreher M, Kim HP, Reynolds P, Watkins SC, Karp D, Uhlig S, Choi AM. Gene expression profiling of target genes in ventilator-induced lung injury. Physiological Genomics 2006, 26: 68-75. PMID: 16569776, DOI: 10.1152/physiolgenomics.00110.2005.Peer-Reviewed Original ResearchMeSH KeywordsA Kinase Anchor ProteinsAmphiregulinAnimalsCell Cycle ProteinsCluster AnalysisCysteine-Rich Protein 61DNA-Binding ProteinsEGF Family of ProteinsGene Expression ProfilingGene Expression RegulationGlycoproteinsImmediate-Early ProteinsImmunohistochemistryIntercellular Signaling Peptides and ProteinsInterleukin-11LipopolysaccharidesLungLung InjuryMaleMiceMice, Inbred BALB CNuclear Receptor Subfamily 4, Group A, Member 1Oligonucleotide Array Sequence AnalysisReceptors, Cytoplasmic and NuclearReceptors, SteroidReproducibility of ResultsRespiration, ArtificialRNA, MessengerTranscription FactorsConceptsVentilator-induced lung injuryLung injuryAcute respiratory distress syndromeHigh-pressure mechanical ventilationRespiratory distress syndromeHigh-pressure ventilationLow-pressure ventilationClassical inflammatory pathwaysGrowth factor-related genesDistress syndromeMechanical ventilationInflammatory pathwaysLPS treatmentInflammatory responseReal-time PCRMouse lungGene expression profilingProtein expressionImmunoblotting assaysMRNA expression patternsVentilationOverventilationLungNovel candidate genesInjury
2004
Gene expression profiling of in vivo UVB‐irradiated human epidermis
Enk CD, Shahar I, Amariglio N, Rechavi G, Kaminski N, Hochberg M. Gene expression profiling of in vivo UVB‐irradiated human epidermis. Photodermatology Photoimmunology & Photomedicine 2004, 20: 129-137. PMID: 15144390, DOI: 10.1111/j.1600-0781.2004.00097.x.Peer-Reviewed Original ResearchConceptsGlobal gene expression analysisGene expression patternsGene expression analysisGene expression profilingIntact human epidermisOligonucleotide microarray technologyNumerous genesFunctional categoriesExpression analysisExpression profilingExpression patternsGene expressionBiological processesMicroarray profilingDifferential expressionDifferential regulationMicroarray technologyGenesMolecular pathwaysCultured cellsRNA samplesHuman epidermisUV-induced photodamageSemi-quantitative reverse transcriptase-polymerase chain reactionIntact tissue