Taylor Adams
Research Associate 2 MSCards
About
Research
Publications
2026
Single-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 Research
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 ResearchMolecular 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 ResearchCD103+ dendritic cell — fibroblast crosstalk via TLR9, TDO2, and AHR signaling drives lung fibrogenesis
Carter H, Costa R, Adams T, Gilchrist T, Emch C, Bame M, Oldham J, Huang S, Linderholm A, Noth I, Kaminski N, Moore B, Gurczynski S. CD103+ dendritic cell — fibroblast crosstalk via TLR9, TDO2, and AHR signaling drives lung fibrogenesis. JCI Insight 2025, 10 PMID: 39964756, PMCID: PMC11949071, DOI: 10.1172/jci.insight.177072.Peer-Reviewed Original ResearchAnimalsAntigens, CDBasic Helix-Loop-Helix Transcription FactorsBleomycinDendritic CellsDisease Models, AnimalFibroblastsHumansIdiopathic Pulmonary FibrosisIntegrin alpha ChainsInterleukin-6LungMaleMiceMice, Inbred C57BLReceptors, Aryl HydrocarbonSignal TransductionToll-Like Receptor 9Tryptophan Oxygenase
2024
Predicting lung aging using scRNA-Seq data
Song Q, Singh A, McDonough J, Adams T, Vos R, De Man R, Myers G, Ceulemans L, Vanaudenaerde B, Wuyts W, Yan X, Schupp J, Hagood J, Kaminski N, Bar-Joseph Z. Predicting lung aging using scRNA-Seq data. PLOS Computational Biology 2024, 20: e1012632. PMID: 39700255, PMCID: PMC11741621, DOI: 10.1371/journal.pcbi.1012632.Peer-Reviewed Original ResearchSingle-Cell Analysis Reveals Novel Immune Perturbations in Fibrotic Hypersensitivity Pneumonitis.
Zhao A, Unterman A, Abu Hussein N, Sharma P, Nikola F, Flint J, Yan X, Adams T, Justet A, Sumida T, Zhao J, Schupp J, Raredon M, Ahangari F, Deluliis G, Zhang Y, Buendia-Roldan I, Adegunsoye A, Sperling A, Prasse A, Ryu C, Herzog E, Selman M, Pardo A, Kaminski N. Single-Cell Analysis Reveals Novel Immune Perturbations in Fibrotic Hypersensitivity Pneumonitis. American Journal Of Respiratory And Critical Care Medicine 2024, 210: 1252-1266. PMID: 38924775, PMCID: PMC11568434, DOI: 10.1164/rccm.202401-0078oc.Peer-Reviewed Original ResearchSDePER: a hybrid machine learning and regression method for cell-type deconvolution of spatial barcoding-based transcriptomic data
Liu Y, Li N, Qi J, Xu G, Zhao J, Wang N, Huang X, Jiang W, Wei H, Justet A, Adams T, Homer R, Amei A, Rosas I, Kaminski N, Wang Z, Yan X. SDePER: a hybrid machine learning and regression method for cell-type deconvolution of spatial barcoding-based transcriptomic data. Genome Biology 2024, 25: 271. PMID: 39402626, PMCID: PMC11475911, DOI: 10.1186/s13059-024-03416-2.Peer-Reviewed Original ResearchIdentification of FGFR4 as a regulator of myofibroblast differentiation in pulmonary fibrosis
Ghanem M, Justet A, Jaillet M, Vasarmidi E, Boghanim T, Hachem M, Vadel A, Joannes A, Mordant P, Balayev A, Adams T, Mal H, Cazes A, Poté N, Mailleux A, Crestani B. Identification of FGFR4 as a regulator of myofibroblast differentiation in pulmonary fibrosis. American Journal Of Physiology - Lung Cellular And Molecular Physiology 2024, 327: l818-l830. PMID: 39350729, DOI: 10.1152/ajplung.00184.2023.Peer-Reviewed Original Research