2021
Krüppel-like factor 5 regulates wound repair and the innate immune response in human airway epithelial cells
Paranjapye A, NandyMazumdar M, Browne JA, Leir SH, Harris A. Krüppel-like factor 5 regulates wound repair and the innate immune response in human airway epithelial cells. Journal Of Biological Chemistry 2021, 297: 100932. PMID: 34217701, PMCID: PMC8353497, DOI: 10.1016/j.jbc.2021.100932.Peer-Reviewed Original ResearchConceptsKrüppel-like factor 5Lung epithelial cell lineEpithelial cell lineHistone modification H3K27acEpithelial cell identityDirect gene targetsSiRNA-mediated depletionHuman airway epithelial cellsCCAAT enhancer-binding protein betaEnhancer-binding protein betaCell linesSecretion of cytokinesAirway epithelial cellsHuman lung diseasesInnate immune responseHuman airway epitheliumPseudomonas aeruginosa lipopolysaccharideFactor 5Cell identityCalu-3 cellsChIP-seqTranscription factorsRNA-seqGene targetsIL-1βThe Bromodomain Containing 8 (BRD8) transcriptional network in human lung epithelial cells
Browne JA, NandyMazumdar M, Paranjapye A, Leir SH, Harris A. The Bromodomain Containing 8 (BRD8) transcriptional network in human lung epithelial cells. Molecular And Cellular Endocrinology 2021, 524: 111169. PMID: 33476703, PMCID: PMC8035426, DOI: 10.1016/j.mce.2021.111169.Peer-Reviewed Original ResearchConceptsCCCTC-Binding FactorTranscription factorsChIP-seq peaksProcess enrichment analysisArchitectural proteinsChromatin modificationsChromatin accessibilityTranscriptional networksProtein functionLung epithelial cell lineRepressive signalsHuman lung epithelial cellsEpithelial cell lineHuman lung epithelial cell lineEnrichment analysisGene expressionLung epithelial cellsCell cycleInnate immune responseLung epithelial functionCell proliferationAntimicrobial peptidesCell linesEpithelial functionEpithelial cells
2018
A novel transcriptional network for the androgen receptor in human epididymis epithelial cells
Yang R, Browne JA, Eggener SE, Leir SH, Harris A. A novel transcriptional network for the androgen receptor in human epididymis epithelial cells. Molecular Human Reproduction 2018, 24: 433-443. PMID: 30016502, PMCID: PMC6454485, DOI: 10.1093/molehr/gay029.Peer-Reviewed Original ResearchConceptsAndrogen receptorHEE cellsHuman epididymis epithelial cellsEpithelial cellsAR activationTranscriptional networksEunice Kennedy Shriver National InstituteChIP-seqProstate cancer cell linesPARTICIPANTS/MATERIALSNational InstituteSynthetic androgen R1881ROLE OF CHANCEEpididymis epitheliumDistinct androgen receptorsProstate gland epitheliumRNA-seqRunt-related transcription factor 1Single androgen receptorCancer cell linesSilico motif analysisTranscription factor 1Prostate cancerAndrogen R1881Cis-regulatory elements
2014
Open chromatin mapping identifies transcriptional networks regulating human epididymis epithelial function
Browne JA, Yang R, Song L, Crawford GE, Leir SH, Harris A. Open chromatin mapping identifies transcriptional networks regulating human epididymis epithelial function. Molecular Human Reproduction 2014, 20: 1198-1207. PMID: 25180270, PMCID: PMC4235575, DOI: 10.1093/molehr/gau075.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid MotifsBinding SitesCell LineChromatin Assembly and DisassemblyEpididymisEpithelial CellsGene Expression ProfilingGene Expression RegulationGene Regulatory NetworksGenome-Wide Association StudyHigh-Throughput Nucleotide SequencingHumansMalePAX2 Transcription FactorRNA InterferenceTranscription, GeneticTransfectionConceptsTranscription factor-binding sitesOpen chromatinREP cellsEpididymis epitheliumCoordinated gene expressionGenome-wide mapsSperm cell maturationHigh-throughput sequencingRNA-seq analysisCritical transcriptional regulatorPotential regulatory elementsFactor-binding sitesHEE cellsDNase I digestionRole of PAX2Chromatin mappingUrogenital tract developmentTranscriptional networksTranscriptional regulatorsCoordinated expressionRegulatory elementsMultiple genesGene expressionSilico analysisChromatinAn Optimized Protocol for Isolating Primary Epithelial Cell Chromatin for ChIP
Browne JA, Harris A, Leir SH. An Optimized Protocol for Isolating Primary Epithelial Cell Chromatin for ChIP. PLOS ONE 2014, 9: e100099. PMID: 24971909, PMCID: PMC4074041, DOI: 10.1371/journal.pone.0100099.Peer-Reviewed Original ResearchConceptsCell typesChromatin immunoprecipitation dataDNA-binding proteinsLysis bufferPrimary human epithelial cellsEpithelial cell typesEpithelial cellsChromatin purificationHuman bronchial epithelial cellsENCODE consortiumHuman epithelial cellsCell chromatinNext-generation sequencingImmunoprecipitation dataCell lysis procedurePrimary human bronchial epithelial cellsChromatinFormaldehyde-fixed cellsBronchial epithelial cellsMembrane lysisSize selectionLysis procedureAdherent cellsCellsLysis stepEpidermal growth factor inhibits transforming growth factor-β-induced fibrogenic differentiation marker expression through ERK activation
Liu X, Hubchak SC, Browne JA, Schnaper HW. Epidermal growth factor inhibits transforming growth factor-β-induced fibrogenic differentiation marker expression through ERK activation. Cellular Signalling 2014, 26: 2276-2283. PMID: 24905473, PMCID: PMC4130781, DOI: 10.1016/j.cellsig.2014.05.018.Peer-Reviewed Original ResearchMeSH KeywordsActinsCell LineCollagen Type ICollagen Type I, alpha 1 ChainEnzyme ActivationEpidermal Growth FactorEpithelial-Mesenchymal TransitionErbB ReceptorsExtracellular Signal-Regulated MAP KinasesGene Expression RegulationHomeodomain ProteinsHumansMAP Kinase Kinase 1PhosphorylationPromoter Regions, GeneticRepressor ProteinsSmad2 ProteinSmad3 ProteinTransforming Growth Factor beta1