Adjunct Faculty
Adjunct faculty typically have an academic or research appointment at another institution and contribute or collaborate with one or more School of Medicine faculty members or programs.
Adjunct rank detailsJonas Christian Schupp, MD
Assistant Professor AdjunctAbout
Research
Publications
2025
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, 1-26. PMID: 40542107, 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 effectsUnagiTranscriptomeTranscriptional signatures of endothelial cells shape immune responses in cardiopulmonary health and disease
Fließer E, Jandl K, Chen S, Wang M, Schupp J, Kuebler W, Baker A, Kwapiszewska G. Transcriptional signatures of endothelial cells shape immune responses in cardiopulmonary health and disease. JCI Insight 2025, 10: e191059. PMID: 40401523, PMCID: PMC12128986, DOI: 10.1172/jci.insight.191059.Peer-Reviewed Original ResearchConceptsEndothelial cellsCardiopulmonary vasculatureImmune responseImmune cell recruitmentRegulation of immune responsesFunction of endothelial cellsImmunoregulatory roleAntigen presentationCytokine secretionCell recruitmentCardiopulmonary healthDelivery of oxygenSingle-cell RNA sequencingImmunomodulatory propertiesCardiopulmonary diseaseClearance functionDisease pathogenesisTherapy targetTranscriptional signatureEC subpopulationsImmunomodulatory activityDiseaseLungVasculatureHeartThe PPFE Cell Atlas - The Discovery of the Usual Fibrotic Niche at the Edge of Pleuro-Parenchymal Fibroelastotic Remodeling Surprises as an Immune Cell Driven Phenomenon
Ruwisch J, Cazes A, leiber L, Borie R, Leonhard C, Mal H, Langer L, de Montpréville V, Kamp J, Greer M, Wrede C, Hegermann J, Artysh N, Gottlieb J, Seeliger B, Bernaudin J, Knudsen L, Mordant P, Neubert L, Crestani B, Prasse A, Kaminski N, Justet A, Schupp J. The PPFE Cell Atlas - The Discovery of the Usual Fibrotic Niche at the Edge of Pleuro-Parenchymal Fibroelastotic Remodeling Surprises as an Immune Cell Driven Phenomenon. American Journal Of Respiratory And Critical Care Medicine 2025, 211: a5272-a5272. DOI: 10.1164/ajrccm.2025.211.abstracts.a5272.Peer-Reviewed Original ResearchEarly IPF Is Characterized by a Dramatic Shift of the Epithelial and Endothelial Populations Within the Alveolar Niche
Justet A, Adams T, Khoury J, Balayev A, Abu Hussein N, Schupp J, Zhao A, Manning E, Ahangari F, Yan X, Ravaglia C, Tomassetti S, Poletti V, Kaminski N. Early IPF Is Characterized by a Dramatic Shift of the Epithelial and Endothelial Populations Within the Alveolar Niche. American Journal Of Respiratory And Critical Care Medicine 2025, 211: a7109-a7109. DOI: 10.1164/ajrccm.2025.211.abstracts.a7109.Peer-Reviewed Original ResearchCorrelative Ultrastructural and Transcriptional Profiling of the Mesenchyme in Pleuroparenchymal Fibroelastosis Highlights the Emergence of an Adventitial Fibroblast-Like Cell Type
Ruwisch J, Wrede C, Hegermann J, Artysh N, Geiselmann A, Seeliger B, Knudsen L, Kamp J, Neubert L, Schupp J, Prasse A. Correlative Ultrastructural and Transcriptional Profiling of the Mesenchyme in Pleuroparenchymal Fibroelastosis Highlights the Emergence of an Adventitial Fibroblast-Like Cell Type. American Journal Of Respiratory And Critical Care Medicine 2025, 211: a3309-a3309. DOI: 10.1164/ajrccm.2025.211.abstracts.a3309.Peer-Reviewed Original ResearchT cells of patients with systemic sclerosis or Sjögren’s disease display an aberrant metabolic state and memory phenotype in blood and lungs
Ehlers C, Biermann H, Thiele T, Schupp J, Villa M, Jänke C, Risser L, Witte T, Kalinke U, Seeliger B, Graalmann T. T cells of patients with systemic sclerosis or Sjögren’s disease display an aberrant metabolic state and memory phenotype in blood and lungs. Rheumatology 2025, 64: 4806-4815. PMID: 40244816, DOI: 10.1093/rheumatology/keaf198.Peer-Reviewed Original ResearchInterstitial lung diseaseCD8+ T cellsT cells of patientsBronchoalveolar lavage of patientsSystemic sclerosisBronchoalveolar lavageT cellsSjogren's diseaseHealthy controlsBlood CD8+ T cellsBlood T cells of patientsLevels of HLA-DRIncreased expression of CD25Involvement of T cellsExpression of CD25Increased CD4+T cell responsesT cell receptor engagementLungs of patientsT cell characterizationExpressed increased levelsCell type 2Aberrant metabolic stateExpressed significant levelsSpectral flow cytometryDefining the Prototype of Immune Cell Driven Fibrotic Tissue Organization in Restrictive Allograft Syndrome and Pleuroparenchymal Fibroelastosis
Leiber L, Ruwisch J, Cazes A, Brorie R, Christian L, Neubert L, Mal H, Yilmaz H, Plucinski E, Langer L, Kamp J, De Montpréville V, Hohlfeld J, Greer M, Wrede C, Hegermann J, Artysh N, Seeliger B, Bernaudin J, Knudsen L, Mordant P, Welte T, Crestani B, Prasse A, Falk C, Kaminski N, Jonigk D, Gottlieb J, Justet A, Schupp J. Defining the Prototype of Immune Cell Driven Fibrotic Tissue Organization in Restrictive Allograft Syndrome and Pleuroparenchymal Fibroelastosis. 2025, tp215. DOI: 10.1183/23120541.lsc-2025.tp215.Peer-Reviewed Original Research
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 ResearchOn the Ultrastructure of Aberrant Basaloid Cells in Idiopathic Pulmonary Fibrosis.
Schipke J, Panpeng S, Wrede C, Hegermann J, Ruwisch J, Werlein C, Jonigk D, Shin H, Schupp J, Mühlfeld C, Knudsen L. On the Ultrastructure of Aberrant Basaloid Cells in Idiopathic Pulmonary Fibrosis. American Journal Of Respiratory Cell And Molecular Biology 2024, 71: 746-750. PMID: 39601536, DOI: 10.1165/rcmb.2024-0218le.Peer-Reviewed Original ResearchBreaking barriers: holistic assessment of ability to work in patients with sarcoidosis
Drent M, Russell A, Saketkoo L, Spagnolo P, Veltkamp M, Wells A, community R, Goh N, Holland A, Hochreiter J, Kock S, Verheyen K, Verbraecken J, Cantin A, Gillson A, Hambly N, Kolb M, Bendstrup E, Leistiko A, Møller J, Kaarteenaho R, Crestani B, Israël-Biet D, Aubart F, Nunes H, Valeyre D, Bonella F, Buschulte K, Costabel U, Kortsen P, Kreuter M, Luedike P, Quadder B, Braune R, Skowasch D, Antoniou K, Bouros D, Gogali A, Margaritopoulos G, Papakosta D, Papiris S, Manali E, Tzouvelekis A, Tzilas V, Agrawal A, Kashyap S, Tyagi V, Unnati D, Abedini A, Phelan S, Bargagli E, Cinetto F, Confalonieri M, Confalonieri P, Harari S, Luppi F, Martone F, Palmieri A, Rottoli P, Salton F, Scarpa R, Tana C, Tomassetti S, Azuma A, Inui N, Nakamura Y, Inoue Y, Tanino Y, Muhammad N, van Beek F, Boer L, Boomars K, Bresser P, Claessen L, Elfferich M, Erckens R, van Helmondt S, Karakaya B, Grutters J, Hoitsma E, Illy K, Jansen T, Kahlmann V, Knoet C, Korenromp I, Lenssen T, Brinkdrs K, Mager J, Marcellis R, Miedema J, Möller T, Moonen L, Moor K, Mostard R, Nienhuis W, Nossent E, Paulus M, Ponds R, Nossent G, Quanjel M, Rottenberg F, van de Sande J, Segers R, Soechitram S, van Staa A, Strookappe B, Swaans M, van den Toorn L, van de Ven M, Voortman M, Vorselaars A, Vente L, Wijnen P, Wijsenbeek M, De Vries J, van Zanten A, Durheim M, Rasch-Halvorsen Ø, Tøndell A, Dubaniewicz A, Piotrowski W, Roter B, Cordeiro C, Alfaro T, Strambu I, Vizel A, Cano R, Balcells E, Castillo D, Francesqui J, Mañá J, Molina M, Ojanguren I, Portal J, Sellares J, Arkema E, Darlington P, Eldhagen P, Elfström K, Grunewald J, Kullberg S, Rivera N, Rossides M, Werner J, Dincer I, Koç G, Yucesan C, Kumbasar O, Birring S, Boyd J, Casimo L, Huntley C, Kouranos V, Newton J, Spencer L, Spears M, Barreras P, Cozier Y, Crouser E, Harper L, James W, Maier L, Liao S, Morgenthau A, Ndili O, Patel D, Rivera F, Rossman M, Sharp M, Sharma M, Schupp J, Stern B, Sweiss N, Tavee J, Zank D, Gumeniuk G, Gavrysyuk V, Merenkova L. Breaking barriers: holistic assessment of ability to work in patients with sarcoidosis. The Lancet Respiratory Medicine 2024, 12: 848-851. PMID: 39423840, DOI: 10.1016/s2213-2600(24)00297-2.Peer-Reviewed Original Research