• David J Miller

    • Drexel University
    Dept of Physics
    3141 Chestnut St
    Philadelphia, PA 19104

    Room : 908 Disque Hall
    Phone : 215 895 1989
    millerdj@drexel.edu

    I am a graduate student working toward a physics PhD here at Drexel. My research is in the area of Computational Systems Biology and my advisor is Dr. Avijit Ghosh. I am involved primarily in his group's CellSim project, and my work includes code development (C++), biological signal transduction pathway simulations (ODE and PDE), and multi-dimensional time-series data visualization.

    More recently, my work has extended to pathway model development, the applications of computational tools to pathway models (for example, lead drug target prediction), and the development and analysis of computational methods specific to spatio-temporal systems biology.

    Previously, I received a BA in physics from The College of Wooster in 2002, where my Independent Study thesis was in the area of nonlinear dynamics and cellular automata.

    Education

    • Ph.D. Physics, Drexel University, 2008
    • M.S. Physics, Drexel University, 2004
    • B.A. Physics, The College of Wooster, 2002
    • University of Aberdeen, Scotland, UK, 2000

    Resumes

    Papers

    • D. Miller, A. Ghosh, "Reducing Side Effects: A Systems Approach for the Prediction of Wild Type MAPK Pathway Response to Targeted Drugs," Poster and Proceedings, 8th International Conference on Systems Biology, Long Beach (2007).
    • D. Miller, A. Ghosh, "A Fully Adaptive Reaction-Diffusion Integration Scheme with Applications to Systems Biology," Journal of Computational Physics, 226 2, 1509-1531 (2007).
    • D. Miller, G. Lukas, A. Ghosh, "A Systems Approach for the Prediction of Wild Type MAPK Pathway Response to Targeted Drugs," unpublished.
    • A. Ghosh, A. Kumar, R. Zou, D. Miller, "A Systems Biology Approach for Lead Drug Target Prediction with Applications to the MAPK Signal Transduction Pathway" unpublished (2006).
    • D. Miller, R. Zou, A. Ghosh, "The Role of Sensitivity Analysis in Drug Targeting," unpublished.
    • R. Zou, D. Miller, A. Ghosh, "Automated Sensitivity Analysis of Spatio-Temporal Systems with Applications to the Analysis of Pattern Transition in the Gray-Scott System," unpublished (2006).
    • A. Ghosh, D. Pant, R. Zou, A. Kumar, D. Miller, "From Simulation to Therapy: A Systems Biology Approach to Oncogene Detection," Presentation, 7th International Conference on Systems Biology, Yokohama, Japan (2006).
    • A. Ghosh, D. Pant, A. Kumar, R. Zou, D. Miller, "From Simulation to Therapy: A Systems Biology Approach to Oncogene Detection", published in NIC Workshop 2006: From Computational Biophysics to Systems Biology, U. Hansmann, J. Meinke, S. Mohanty, O. Zimmermann (eds.), John von Neumann Institute for Computing : Jülich, Germany (2006).
    • A. Ghosh, D. Miller, R. Zou, B. Sokhansanj, A. Kriete, "Spatiotemporal Systems Biology," published in Computational Systems Biology, A. Kriete, R. Eils (eds.), Academic Press : Burlington (2005).
    • A. Ghosh, D. Miller, R. Zou, H. Pais, B. Sokhansanj, A. Kriete, "Integrated Spatio-temporal Model of Cell Signaling," paper and poster, Foundations of Systems Biology and Engineering (FOSBE), Santa Barbara (2005).
    • R. Zou, D. Miller, A. Kriete, A. Ghosh, "Automated Sensitivity Analysis of Stiff Biochemical Systems using a 4th Order Adaptive Step Size Rosenbrock Integration Method," Poster, 6th International Conference on Systems Biology, Boston (2005).
    • D. Miller, Modeling Reaction-Diffusion, PhD qualifying presentation/paper, unpublished (2004).
    • J. Lindner, S. Hughes, D. Miller, B. Thomas, K. Wiesenfeld, "The Flux Creep Automaton," International Journal of Bifurcation and Chaos, 14, 1155-1175 (2004).

    Projects