2020
Gene coexpression networks reveal novel molecular endotypes in alpha-1 antitrypsin deficiency
Chu JH, Zang W, Vukmirovic M, Yan X, Adams T, DeIuliis G, Hu B, Mihaljinec A, Schupp JC, Becich MJ, Hochheiser H, Gibson KF, Chen ES, Morris A, Leader JK, Wisniewski SR, Zhang Y, Sciurba FC, Collman RG, Sandhaus R, Herzog EL, Patterson KC, Sauler M, Strange C, Kaminski N. Gene coexpression networks reveal novel molecular endotypes in alpha-1 antitrypsin deficiency. Thorax 2020, 76: 134-143. PMID: 33303696, PMCID: PMC10794043, DOI: 10.1136/thoraxjnl-2019-214301.Peer-Reviewed Original ResearchConceptsWeighted gene co-expression network analysisAlpha-1 antitrypsin deficiencyGene modulesGene co-expression network analysisDifferential gene expression analysisCo-expression network analysisPeripheral blood mononuclear cellsGene expression patternsPBMC gene expression patternsGene coexpression networksAATD individualsGene expression profilesGene expression analysisBronchoalveolar lavageAugmentation therapyClinical variablesAntitrypsin deficiencyGene expression assaysRNA-seqCoexpression networkGene validationExpression analysisExpression assaysWGCNA modulesExpression patterns
2019
The value of bronchoalveolar lavage for discrimination between healthy and diseased individuals
Frye B, Schupp J, Rothe M, Köhler T, Prasse A, Zissel G, Vach W, Müller‐Quernheim J. The value of bronchoalveolar lavage for discrimination between healthy and diseased individuals. Journal Of Internal Medicine 2019, 287: 54-65. PMID: 31612575, DOI: 10.1111/joim.12973.Peer-Reviewed Original Research
2015
Macrophage Activation in Acute Exacerbation of Idiopathic Pulmonary Fibrosis
Schupp J, Binder H, Jäger B, Cillis G, Zissel G, Müller-Quernheim J, Prasse A. Macrophage Activation in Acute Exacerbation of Idiopathic Pulmonary Fibrosis. PLOS ONE 2015, 10: e0116775. PMID: 25590613, PMCID: PMC4295887, DOI: 10.1371/journal.pone.0116775.Peer-Reviewed Original ResearchConceptsIdiopathic pulmonary fibrosisAcute exacerbationBAL cellsMacrophage activationPulmonary fibrosisIL-8M2 cytokinesAE of IPFBAL differential cell countsFuture acute exacerbationsM2 macrophage activationCytokine production levelsDifferential cell countsHigher baseline levelsPatients wSerial lavagesBAL neutrophilsCytokine profileNeutrophil countStable patientsDisease accelerationCCL18 levelsInitial diagnosisIL-1raIL-1β