Taylor Adams
Research Associate 2 MSCards
About
Research
Publications
2026
D95-07 Spatial Transcriptomics Reveal Several Distinct Profibrotic Macrophage Phenotypes in Human End-stage Silicosis
Hussein N, Adams T, Anderson S, Rangel R, Nekola F, Kramer M, Nagjar A, Pertzov B, Kaminski N. D95-07 Spatial Transcriptomics Reveal Several Distinct Profibrotic Macrophage Phenotypes in Human End-stage Silicosis. American Journal Of Respiratory And Critical Care Medicine 2026, 212: aamag162.2890. DOI: 10.1093/ajrccm/aamag162.2890.Peer-Reviewed Original ResearchEnd-stage silicosisMacrophage phenotypeImmune cellsAnimal modelsCellular profilesAnimal models of silicosisAssociated with disease progressionTissue microarrayModel of silicosisPulmonary fibrosisFibrotic progressionLung diseaseHealthy controlsSilicosis patientsDisease progressionSpatial transcriptomic analysisSpatial transcriptomicsLung compartmentsMacrophagesSnRNA-seq analysisLung samplesGene expression patternsPhenotypeLungOccupational lung diseaseC98-09 The Spatial Transcriptomic Profile of Diverse Small Airways Lesions in Chronic Obstructive Pulmonary Disease (COPD)
Geudens V, Nouws J, Willems L, Zapata-Ortega M, Kerckhof P, Aerts G, Hooft C, Jin X, Somers A, Hussein N, Adams T, Ceulemans L, Weynand B, Vos R, Wuyts W, Janssens W, Jacob J, Kaminski N, Polverino F, Everaerts S, Gayan-Ramirez G, Vanaudenaerde B, Sauler M. C98-09 The Spatial Transcriptomic Profile of Diverse Small Airways Lesions in Chronic Obstructive Pulmonary Disease (COPD). American Journal Of Respiratory And Critical Care Medicine 2026, 212: aamag162.2018. DOI: 10.1093/ajrccm/aamag162.2018.Peer-Reviewed Original ResearchChronic obstructive pulmonary diseaseSmall airway diseaseAirway lesionsSmall airway lesionsAirway diseaseSmall airwaysDisease progressionEarly-stage chronic obstructive pulmonary diseaseObstructive pulmonary diseaseSingle-nuclear RNA sequencingMucus pluggingDonor lungsLesion subtypesCustom panelEpithelial cellsSpatial transcriptomicsPulmonary diseaseAirwaySpatial transcriptomic profilingLesionsIndividual lesionsDevelopment of targeted interventionsB19-08 Spatial Transcriptomics Unveils Shared and Distinct Elements of Fibrotic Niches Across Different Interstitial Lung Diseases
Adams T, Abu Hussein N, Anderson S, Rangel R, Kramer M, Nikola F, Carducci C, Deiuliis G, Homer R, Najjar A, Pertzov B, Kaminski N. B19-08 Spatial Transcriptomics Unveils Shared and Distinct Elements of Fibrotic Niches Across Different Interstitial Lung Diseases. American Journal Of Respiratory And Critical Care Medicine 2026, 212: aamag162.2438. DOI: 10.1093/ajrccm/aamag162.2438.Peer-Reviewed Original ResearchIdiopathic pulmonary fibrosisFibrotic lung diseasePulmonary fibrosisBasaloid cellsLung diseaseProfibrotic macrophagesCell phenotypeHistopathological presentationFibrotic nicheMolecular profilingLung tissueEpithelial regionsEnd-stage silicosisUnique histologic patternProgressive lung fibrosisInterstitial lung diseaseRegions of fibrosisLangerhans cell histiocytosisElevated levelsDisease-free controlsPulmonary fibrosis diseasesTissue microarrayCell histiocytosisLevels of COL1A1Histological patternC70-21 Sex-Specific Transcriptional Networks Associated With Elexacaftor-Tezacaftor-Ivacaftor (ETI) Therapies
Bluestein S, Knight C, Yin H, Li N, Adams T, Gwin M, Sauler M, Gomez J, Britto-Leon C. C70-21 Sex-Specific Transcriptional Networks Associated With Elexacaftor-Tezacaftor-Ivacaftor (ETI) Therapies. American Journal Of Respiratory And Critical Care Medicine 2026, 212: aamag162.2178. DOI: 10.1093/ajrccm/aamag162.2178.Peer-Reviewed Original ResearchElexacaftor-tezacaftor-ivacaftorCF transmembrane conductance regulatorCystic fibrosisLower exacerbation ratesDevelopment of personalized therapeutic approachesFrequent pulmonary exacerbationsTransmembrane conductance regulatorPersonalized therapeutic approachesFeatures of CFAdult CF programsForced expiratory volumeCFTR modulatorsPulmonary morbidityPulmonary exacerbationsSputum inductionSputum samplesConductance regulatorExacerbation rateMonocyte expressionMonocyte signalingReceptor geneTherapeutic approachesTherapyLung functionExpiratory volumeB107-17 High Exacerbators in Cystic Fibrosis Have Sex-Specific Monocyte Transcriptomes
Bluestein S, Knight C, Yin H, Kizilirmak T, Li N, Adams T, Gwin M, Sauler M, Gomez J, Britto-Leon C. B107-17 High Exacerbators in Cystic Fibrosis Have Sex-Specific Monocyte Transcriptomes. American Journal Of Respiratory And Critical Care Medicine 2026, 212: aamag162.2161. DOI: 10.1093/ajrccm/aamag162.2161.Peer-Reviewed Original ResearchSexually dimorphic featuresFalse discovery ratePulmonary exacerbationsCystic fibrosisProinflammatory genesSingle-cell RNA sequencingGene expression differencesPulmonary exacerbation frequencyCDNA libraryDevelopment of personalized therapeutic approachesInflammatory transcriptional programsMonocytes of patientsSevere pulmonary exacerbationsExpressed genesBioinformatics coreTranscriptional programsPersonalized therapeutic approachesRNA sequencingFeatures of CFTranscriptional abnormalitiesProinflammatory gene expressionAdult CF programsAcute clinical deteriorationGene expressionExpression differencesSingle-cell atlas of human lung aging identifies cell type dyssynchrony and increased transcriptional entropy
De Man R, McDonough J, Adams T, Nikola F, Rangel R, Anderson S, Manning E, Cala Garcia J, Moss B, Waich A, Poli F, Cardenas R, Coarfa C, Song Q, Bar-Joseph Z, Vanaudenaerde B, Wuyts W, Niklason L, Raredon M, Yan X, Rosas I, Kaminski N. Single-cell atlas of human lung aging identifies cell type dyssynchrony and increased transcriptional entropy. Nature Communications 2026, 17: 2095. PMID: 41571679, PMCID: PMC12953888, DOI: 10.1038/s41467-026-68810-9.Peer-Reviewed Original ResearchConceptsGenomic landscapeLung ageSingle-cell atlasAlveolar epithelialIndependent predictorsAnalysis of somatic mutationsSingle-cell dataSingle-cell RNA sequencingEndothelial cellsLoss of differentiationAlveolar epithelial cellsRNA sequencingTranscriptional changesCell-typeEndothelial cell typesSomatic mutationsMutational burdenAT2 cellsLung diseaseCell typesAge-related changesEpithelial cellsRisk factorsSenescence signatureEpithelial
2025
Keratinocytes as active regulators of cutaneous and mucosal immunity: a systematic review across inflammatory epithelial disorders
Klimitz F, Shen Y, Repetto F, Brown S, Knoedler L, Ko C, Abu Hussein N, Crisler W, Adams T, Kaminski N, Lian C, Murphy G, Hsia H, Pomahac B, Kauke-Navarro M. Keratinocytes as active regulators of cutaneous and mucosal immunity: a systematic review across inflammatory epithelial disorders. Frontiers In Immunology 2025, 16: 1694066. PMID: 41479908, PMCID: PMC12753988, DOI: 10.3389/fimmu.2025.1694066.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsThis study investigates how keratinocytes, key skin cells, regulate immune responses in inflammatory disorders like psoriasis and lupus, revealing shared and disease-specific pathways critical for targeted therapies.A deep generative model for deciphering cellular dynamics and in silico drug discovery in complex diseases
Zheng Y, Schupp J, Adams T, Clair G, Justet A, Ahangari F, Yan X, Hansen P, Carlon M, Cortesi E, Vermant M, Vos R, De Sadeleer L, Rosas I, Pineda R, Sembrat J, Königshoff M, McDonough J, Vanaudenaerde B, Wuyts W, Kaminski N, Ding J. A deep generative model for deciphering cellular dynamics and in silico drug discovery in complex diseases. Nature Biomedical Engineering 2025, 9: 2155-2180. PMID: 40542107, PMCID: PMC12705450, DOI: 10.1038/s41551-025-01423-7.Peer-Reviewed Original ResearchComplex cellular dynamicsCellular dynamicsSingle-cell transcriptomic dataIn silico drug discoverySingle-cell transcriptomicsTranscriptome dataPotential therapeutic drug candidateComplex diseasesHuman diseasesIdiopathic pulmonary fibrosisTherapeutic drug candidateCell embeddingDrug discoveryPulmonary fibrosisDrug candidatesDisease progressionHuman tissuesHuman precision-cut lung slicesDynamic analysisPrecision-cut lung slicesPathological landscapeComputational toolsAnti-fibrotic effectsUnagiTranscriptomeMolecular and Spatial Transcriptomics Analysis in Silica-Induced Pulmonary Fibrosis
Abu Hussein N, Adams T, Anderson S, Kramer M, Nikola F, Homer R, Najjar A, Sharma P, Yang L, Zhang Y, Yan X, Perzov B, Kaminski N. Molecular and Spatial Transcriptomics Analysis in Silica-Induced Pulmonary Fibrosis. 2025, tp230. DOI: 10.1183/23120541.lsc-2025.tp230.Peer-Reviewed Original ResearchEpigenetic age acceleration in idiopathic pulmonary fibrosis revealed by DNA methylation clocks
Kurbanov D, Ahangari F, Adams T, De Man R, Tang J, Carlon M, Abu Hussein N, Cortesi E, Zapata M, De Sadelaar L, Wuyts W, Vanaudenaerde B, Kaminski N, McDonough J. Epigenetic age acceleration in idiopathic pulmonary fibrosis revealed by DNA methylation clocks. American Journal Of Physiology - Lung Cellular And Molecular Physiology 2025, 328: l456-l462. PMID: 39970931, PMCID: PMC12169420, DOI: 10.1152/ajplung.00171.2024.Peer-Reviewed Original ResearchConceptsIdiopathic pulmonary fibrosisIdiopathic pulmonary fibrosis tissuePulmonary fibrosisLung tissueEpigenetic clocksPotential of DNA methylationDNA methylation levelsDebilitating lung diseaseIllumina MethylationEPIC arrayHuman lung tissueEpigenetic ageDNA methylation clocksBiological ageAffected lung tissueIPF casesClinical prognosisMethylation patternsDNA methylationLung diseaseHealthy controlsAcceleration of biological agingMethylation levelsMethylationEPIC arrayAge accelerationClinical assessment