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James Glazier

Professor

Education

Affiliations

Projects

Papers

Sego TJ, Mochan ED, Bard Ermentrout G, Glazier JA. (2021). A Multiscale Multicellular Spatiotemporal Model of Local Influenza Infection and Immune Response. Journal of theoretical biology

Aponte-Serrano JO, Weaver JJA, Sego TJ, Glazier JA, Shoemaker JE. (2021). Multicellular spatial model of RNA virus replication and interferon responses reveals factors controlling plaque growth dynamics. PLoS computational biology, 17(10)

Toledo-Marín JQ, Fox G, Sluka JP, Glazier JA. (2021). Deep Learning Approaches to Surrogates for Solving the Diffusion Equation for Mechanistic Real-World Simulations. Frontiers in physiology, (12)

Zarnitsyna VI, Gianlupi JF, Hagar A, Sego TJ, Glazier JA. (2021). Advancing therapies for viral infections using mechanistic computational models of the dynamic interplay between the virus and host immune response. Current opinion in virology, (50)

Adhyapok P, Piatkowska AM, Norman MJ, Clendenon SG, Stern CD, Glazier JA, Belmonte JM. (2021). A mechanical model of early somite segmentation. iScience, 24(4)

Laubenbacher R, Sluka JP, Glazier JA. (2021). Using digital twins in viral infection. Science (New York, N.Y.), 371(6534)

Sego TJ, Aponte-Serrano JO, Gianlupi JF, Glazier JA. (2021). Generation of multicellular spatiotemporal models of population dynamics from ordinary differential equations, with applications in viral infection. BMC biology, 19(1)

de Almeida RMC, Thomas GL, Glazier JA. (2021). Transcriptogram analysis reveals relationship between viral titer and gene sets responses during Corona-virus infection. bioRxiv : the preprint server for biology

Dunn KW, Martinez MM, Wang Z, Mang HE, Clendenon SG, Sluka JP, Glazier JA, Klaunig JE. (2020). Mitochondrial depolarization and repolarization in the early stages of acetaminophen hepatotoxicity in mice. Toxicology, (439)

Adhyapok P, Fu X, Sluka JP, Clendenon SG, Sluka VD, Wang Z, Dunn K, Klaunig JE, Glazier JA. (2020). A computational model of liver tissue damage and repair. PloS one, 15(12)

Liu R, Higley KA, Swat MH, Chaplain MAJ, Powathil GG, Glazier JA. (2021). Development of a coupled simulation toolkit for computational radiation biology based on Geant4 and CompuCell3D. Physics in medicine and biology, 66(4)

Fortuna I, Perrone GC, Krug MS, Susin E, Belmonte JM, Thomas GL, Glazier JA, de Almeida RMC. (2020). CompuCell3D Simulations Reproduce Mesenchymal Cell Migration on Flat Substrates. Biophysical journal, 118(11)

Sego TJ, Aponte-Serrano JO, Gianlupi JF, Heaps SR, Breithaupt K, Brusch L, Crawshaw J, Osborne JM, Quardokus EM, Plemper RK, Glazier JA. (2020). A modular framework for multiscale, multicellular, spatiotemporal modeling of acute primary viral infection and immune response in epithelial tissues and its application to drug therapy timing and effectiveness: A multiscale model of viral infection in epithelial tissues. bioRxiv : the preprint server for biology

Getz M, Wang Y, An G, Asthana M, Becker A, Cockrell C, Collier N, Craig M, Davis CL, Faeder JR, Versypt ANF, Mapder T, Gianlupi JF, Glazier JA, Hamis S, Heiland R, Hillen T, Hou D, Islam MA, Jenner AL, Kurtoglu F, Larkin CI, Liu B, Macfarlane F, Maygrundter P, Morel PA, Narayanan A, Ozik J, Pienaar E, Rangamani P, Saglam AS, Shoemaker JE, Smith AM, Weaver JJA, Macklin P. (2020). Rapid community-driven development of a SARS-CoV-2 tissue simulator. bioRxiv : the preprint server for biology

Sego TJ, Glazier JA, Tovar A. (2020). Unification of aggregate growth models by emergence from cellular and intracellular mechanisms. Royal Society open science, 7(8)

Sego TJ, Aponte-Serrano JO, Ferrari Gianlupi J, Heaps SR, Breithaupt K, Brusch L, Crawshaw J, Osborne JM, Quardokus EM, Plemper RK, Glazier JA. (2020). A modular framework for multiscale, multicellular, spatiotemporal modeling of acute primary viral infection and immune response in epithelial tissues and its application to drug therapy timing and effectiveness. PLoS computational biology, 16(12)

Clendenon SG, Fu X, Von Hoene RA, Clendenon JL, Sluka JP, Winfree S, Mang H, Martinez M, Filson A, Klaunig JE, Glazier JA, Dunn KW. (2019). Spatial Temporal Analysis of Fieldwise Flow in Microvasculature. Journal of visualized experiments : JoVE, 153

Fu X, Sluka JP, Clendenon SG, Dunn KW, Wang Z, Klaunig JE, Glazier JA. (2018). Modeling of xenobiotic transport and metabolism in virtual hepatic lobule models. PloS one, 13(9)

Clendenon SG, Fu X, Von Hoene RA, Clendenon JL, Sluka JP, Winfree S, Mang H, Martinez M, Filson AJ, Klaunig JE, Glazier JA, Dunn KW. (2019). A simple automated method for continuous fieldwise measurement of microvascular hemodynamics. Microvascular research, (123)

Chen KY, Srinivasan T, Tung KL, Belmonte JM, Wang L, Murthy PKL, Choi J, Rakhilin N, King S, Varanko AK, Witherspoon M, Nishimura N, Glazier JA, Lipkin SM, Bu P, Shen X. (2017). A Notch positive feedback in the intestinal stem cell niche is essential for stem cell self-renewal. Molecular systems biology, 13(4)

Somogyi E, Glazier JA. (2017). A MODELING AND SIMULATION LANGUAGE FOR BIOLOGICAL CELLS WITH COUPLED MECHANICAL AND CHEMICAL PROCESSES. Symposium on Theory of Modeling & Simulation : DEVS Integrative M&S Symposium (TMS-DEVS). Symposium on Theory of Modeling and Simulation, (2017)

Sluka JP, Fu X, Swat M, Belmonte JM, Cosmanescu A, Clendenon SG, Wambaugh JF, Glazier JA. (2016). A Liver-Centric Multiscale Modeling Framework for Xenobiotics. PloS one, 11(9)

Somogyi E, Hagar A, Glazier JA. (2016). TOWARDS A MULTI-SCALE AGENT-BASED PROGRAMMING LANGUAGE METHODOLOGY. Proceedings of the ... Winter Simulation Conference. Winter Simulation Conference, (2016)

Somogyi E, Sluka JP, Glazier JA. (2016). Formalizing Knowledge in Multi-Scale Agent-Based Simulations. Model driven engineering languages and systems : ... International Conference, MoDELS ... : proceedings. MODELS (Conference), (16)

Sluka JP, Shirinifard A, Swat M, Cosmanescu A, Heiland RW, Glazier JA. (2014). The cell behavior ontology: describing the intrinsic biological behaviors of real and model cells seen as active agents. Bioinformatics (Oxford, England), 30(16)

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