›› CHECK THIS OUT !!!
SYMPOSIUM ON MULTI-SCALE MODELING OF HOST/PATHOGEN INTERACTIONS
›› RESEARCH
Systems Biology: mathematical modeling of immune response to pathogens (mathematical modeling of Mycobacterium tuberculosis and Francisella tularensis infection in human, primate and mouse).
Mathematics: representing cell populations dynamics and interaction by various mathematical modeling techniques, e.g. deterministic Ordinary Differential Equation (ODE) and Delay Diffferential Equation (DDE) systems, as well as Stochastic models (Agent Based Models– ABM)).
Statistics: Parameter estimation and statistical techniques for uncertainty and sensitivity analysys in complex mathematical models (for example, statistical and computational techniques are used to model the effect of antigen dose on the early events in the immune response during Mycobacterium tuberculosis infection).
Bioinformatics: Data Mining and Biochemical System Network discovery
›› WHO I AM
EDUCATION/TRAINING
• University of Rome I "La Sapienza", Rome, Italy. B.S. and M.S. (1997). Applied Statistics
• Ph.D.. University of Rome I "La Sapienza", Rome, Italy. 2002. Operations Research. Mentor: Angrea De Gaetano, MD PhD
• Postdoctoral Fellowship. University of Michigan Medical School, Dept. Microbiology and Immunology, Ann Arbor, MI. 2002-2005. Biomathematics. Mentor: Denise Kirschner PhD
• Postdoctoral Fellowship. Medical University of South Carolina, Charleston, SC. 2004. Bioinformatics. Mentor: Eberhard Voit PhD
POSITIONS
• Feb-June 2004, Postdoctoral Fellow, Biostatistics, Bioinformatics and Epidemiology, MUSC, Charleston, SC
• 2002-2005, Research Fellow, Microbiology and Immunology, University of Michigan, Ann Arbor, MI
• Jan-July 2005, Research Faculty, The Wallace H. Coulter Department of Biomedical Engineering at Georgia Tech and Emory University, Atlanta, GA
• July 2005-present, Research Investigator, Microbiology and Immunology, University of Michigan, Ann Arbor, MI
BIO
I am a Research Investigator in the Department of Microbiology and Immunology at the University of Michigan Medical School in Ann Arbor, Michigan.
I was born in Rome (Italy), June the 1st 1970, and I spent most of my life there: family, friends, loves, studies, and more.
I got both a MS in Statistics (May 1997) and a PhD in Operations Research (Dec 2001) at the University of Rome "La Sapienza", Dept. of Statistic, Probability and Applied Statistic).
I got my PhD in Operations Research at the
Biomathematics Laboratory of the National Research Council, in Rome: it is located in the "Gemelli" area, which comprises the hospital (it's the hospital of the Pope), the university and many research facilities and institutions.
My PhD dissertation was based on parameter estimation of Ordinary Differential Equations (ODEs) systems by Least Squares (LS) approach and nonlinear programming algorithms. It merges both statistics and operations research, as well as biomathematics: in fact the mathematical models implemented in my PhD are related to glucose-insulin and lipids dynamics, including many simulations of growth and decay curves (Gompertz, Logistic, ....).
I moved to Ann Arbor in July 2001 as a Research Fellow in Denise Kirschner lab, where I studied immunology for the first time in my life. Denise opened my mind to the wonderful world of immune system: it looked, and still looks, like sci fi to me. It's really amazing. My main research was on building mathematical models of the many faces of immune response to Mycobacterium tuberculosis infection in human.
I moved to the Department of Biostatistics, Bioinformatics and Epidemiology at MUSC (Charleston, SC) for a short time in 2004, and later I joined the Department of Biomedical Engineering at Georgia Tech and Emory University in Atlanta. In both departments, I worked as a Research Scientist with
Eberhard Voit on metabolic pathway network discovery (based on S-Systems approach, power-law formalism and biochemical system theory), applying algorhytms developed during my PhD years.
I then moved back to Ann Arbor in July 2005 as a faculty (Research Investigator) and been here since then.
›› List of publications
Bartolozzi F., De Gaetano A., Di Lena E. ,Marino S. , Nieddu L., Patrizi G., Operational Research Techniques in Medical Treatment and Diagnosis: a Review, European Journal of Operations Research, 121, 2000: pp. 435-466
Mingrone G., Marino S., De Gaetano A. et al., Different Limit to the Body's Ability of Increasing Fat-Free Mass, , Metabolism, 50 (9), Sept 2001: pp. 1004-1007
Marino Simeone, De Gaetano Andrea et al., Computing DIT from energy expenditure measures in a respiratory chamber: a direct modeling method, Computers in Biology and Medicine, 32 (4), May 2002
Simeone Marino, Suman Ganguli, Ian M. P. Joseph, Denise E. Kirschner, The Importance of an Inter-compartmental Delay in a Model for Human Gastric Acid Secretion, Bulletin of Math Biology, Nov 2003, Vol 65/6 pp 963-990.
Simeone Marino and Denise E. Kirschner, The Human Immune Response to Mycobacterium tuberculosis in Lung and Lymph Node, Journal of Theoretical Biology, 21 April 2004, Volume 227, Issue 4, Pages 451-602.
Simeone Marino, Santosh Pawar, Craig L. Fuller, Todd A. Reinhart, JoAnne L. Flynn and Denise E. Kirschner, Dendritic Cell Trafficking and Antigen Presentation in the Human Immune Response to Mycobacterium tuberculosis, Journal of Immunology, 2004, 173: 494-506.
Voit EO, Marino S, Lall R. Challenges for the identification of biological systems from in vivo time series data., In Silico Biol. 2005;5(2):83-92.
David Gammack, Suman Ganguli, Simeone Marino, Jose Segovia-Juarez, Denise E. Kirschner, Understanding the Immune Response in Tuberculosis Using Different Mathematical Models and Biological Scales, (2005) Multiscale Modeling and Simulation: A SIAM Interdisciplinary Journal, 3 (2), pp. 312-345
Kirschner D. and Marino Simeone. Mycobacterium tuberculosis as viewed through a computer. Trends Microbiol. 2005 May;13(5):206-11. Review.
Voit EO, Almeida J, Marino S, Lall R, Goel G, Neves AR, Santos H. Regulation of glycolysis in Lactococcus lactis: an unfinished systems biological case study. Syst Biol (Stevenage). 2006 Jul;153(4):286-98.
Marino S, Voit EO. An automated procedure for the extraction of metabolic network information from time series data. J Bioinform Comput Biol. 2006 Jun;4(3):665-91.
E. Beretta, M. Carletti, D. Kirschner and Marino S., Stability analysis of a mathematical model of immune response with delays. Springer Book Vol. 2: Mathematics for Life Science and Medicine, eds. Takeuchi, Sato and Iwasa, Chapter 8, pp. 177-206 (2006).
S. Marino, E. Beretta and D. E. Kirschner. The role of delays in innate and adaptive immunity to intracellular bacterial infection. Math. Biosc. Eng. 4(2), 2007 pp. 261-286.
Marino, S., Sud, D., Plessner, H., Lin PL, Chan J., Flynn, JL, Kirschner, D. Differences in reactivation of tuberculosis induced from anti-TNF treatments are based on bioavailability in granulomatous tissue .PLOS Computational Biology. Vol. 3 (10) e194. pp. 1909-24. Oct 2007.
Chakravarty, S. D., Zhu, G., Tsai, M. C., Mohan, V. P., Marino, S., Kirschner, D. E., Huang, L., Flynn, J. and Chan, J. (2008). Tumor necrosis factor blockade in chronic murine tuberculosis enhances granulomatous inflammation and disorganizes granulomas in the lungs. Infect Immun 76(3), 916-26.
Marino, S., Hogue, I. B., Ray, C. J. & Kirschner, D. E. (2008). A methodology for performing global uncertainty and sensitivity analysis in systems biology. J Theor Biol 254(1), 178-96.
Amy L. Bauer, Ian B. Hogue, Simeone Marino and Denise E. Kirschner. The Effects of HIV-1 Infection on Latent Tuberculosis. Mathematical Modelling of Natural Phenomena, Vol. 3 No. 7 (2008): 229.
Roshan D'Souza, Mikola Lysenko, Simeone Marino and Denise Kirschner. Data-parallel algorithms for agent-based model simulations of tuberculosis on graphics processing units. Accepted in the Proceedings of SpringSim'09 - Agent-Directed Simulation (ADS09). San Diego San Diego, CA, March 22 - 27, 2009.
›› My updated CV
›› CONTACT ME
If you want to share some thoughts, drop me a line at simeonem@umich.edu .
Albert Einstein
If we knew what it was we were doing, it would not be called research, would it?