2017
Microbes Are Associated with Host Innate Immune Response in Idiopathic Pulmonary Fibrosis
Huang Y, Ma SF, Espindola MS, Vij R, Oldham JM, Huffnagle GB, Erb-Downward JR, Flaherty KR, Moore BB, White ES, Zhou T, Li J, Lussier YA, Han MK, Kaminski N, Garcia JG, Hogaboam CM, Martinez FJ, Noth I. Microbes Are Associated with Host Innate Immune Response in Idiopathic Pulmonary Fibrosis. American Journal Of Respiratory And Critical Care Medicine 2017, 196: 208-219. PMID: 28157391, PMCID: PMC5519968, DOI: 10.1164/rccm.201607-1525oc.Peer-Reviewed Original ResearchConceptsProgression-free survivalMicrobial diversityRegulated signaling pathwaysNOD-like receptor signalingRNA sequencing dataGene expression dataMicroarray gene expression dataImmune response pathwaysMicrobial interactionsMicrobial communitiesHost innate immune responseResponse pathwaysLung microbial communityLeukocyte phenotypeImmune responseSequencing dataNetwork analysisShannon indexSignaling pathwaysToll-like receptor 9 stimulationExpression associationsExpression dataIndividual generaIdiopathic pulmonary fibrosis progressionOligomerization domain
2015
Alterations in Gene Expression and DNA Methylation during Murine and Human Lung Alveolar Septation
Cuna A, Halloran B, Faye-Petersen O, Kelly D, Crossman DK, Cui X, Pandit K, Kaminski N, Bhattacharya S, Ahmad A, Mariani TJ, Ambalavanan N. Alterations in Gene Expression and DNA Methylation during Murine and Human Lung Alveolar Septation. American Journal Of Respiratory Cell And Molecular Biology 2015, 53: 60-73. PMID: 25387348, PMCID: PMC4566107, DOI: 10.1165/rcmb.2014-0160oc.Peer-Reviewed Original ResearchConceptsDNA methylationNormal septationGene expressionGenome-wide DNA methylation dataMajor epigenetic mechanismsLung developmentNumber of genesMouse lung developmentGene of interestDNA methylation dataGene expression dataMicroarray gene expression dataAlveolar septationCoordinated expressionEpigenetic mechanismsMethylated DNAMultiple genesMicroarray analysisMethylation dataExpression dataGenesMethylationExtracellular matrixAltered expressionAntioxidant defense