Stephanie Forrest - Publications - Immune System Modeling

IMMUNE SYSTEM MODELING

"Computer immunology". S. Forrest and C. Beauchemin. Immunological Reviews 216 (1), 176.197, 2007. Pre-print PDF; Published version (may reflect changes after peer review: full-text access requires subscription)
"Modeling influenza viral dynamics in tissue." C. Beauchemin, S. Forrest, and F. Koster. The 5th International Conference on Artificial Immune Systems (ICARIS), Volume 4163/2006, 2006. PDF
"The Effects of Thymic Selection on the Range of T Cell Cross-reactivity." D. L. Chao, M. P. Davenport, S. Forrest, and A.S. Perelson. European Journal of Immunololgy, Vol 35, pp. 3452-3459 (2005). PDF
"Modeling Intercellular Interactions in Early Mycobaterium Infection." C. Warrender, S. Forrest, and F. Koster. Bulletin of Mathematical Biology. 66:6, pp. 1493-1514 (2006). PDF
"Homeostasis of Peripheral Immune Effectors." C. Warrender, S. Forrest, and L.Segel. Bulletin of Mathematical Biology, Vol 66:6, pp. 1493-1514 (2004). PDF
"A stochastic model of cytotoxic T cell responses." D. L. Chao, M. P. Davenport, S. Forrest, and A. S. Perelson. Journal of Theoretical Biology, Vol 228:2, pp. 227-240 (2004). PDF
"Modelling the impact of antigen kinetics on T-cell activation and response." D. L. Chao, M. P. Davenport, S. Forrest, and A. S. Perelson. Immunology and Cell Biology, Vol 82:1, pp. 55-61 (2004). PDF
"Stochastic Stage-structured Modeling of the Adaptive Immune System." D. L. Chao, M. P. Davenport, S. Forrest , and A. S. Perelson. Proceedings of the IEEE Computer Society Bioinformatics Conference (CSB 2003), pp 124-131. IEEE Press, Los Alamitos, California, (2003). Postscript PDF
"Engineering an immune system." S. Forrest and S. Hofmeyr. Graft Vol. 4:5 pp. 5-9 (2001).Postscript PDF
"Effective Feedback in the Immune System." C. Warrender, S. Forrest and L. Legal. In Genetic and Evolutionary Computation Conference Workship Program, Morgan Kaufman, pp. 329 - 332 (2001). Postscript PDF
"Immunology as information processing." S. Forrest and S.A. Hofmeyr. In Design Principles for the Immune System and Other Distributed Autonomous Systems, edited by L.A. Segel and I. Cohen. Santa Fe Institute Studies in the Sciences of Complexity. New York: Oxford University Press (2001). Postscript PDF
"Immunity by Design: An Artificial Immune System." S. Hofmeyr and S. Forrest. Proceedings of the Genetic and Evolutionary Computation Conference (GECCO), Morgan-Kaufmann, San Francisco, CA, pp. 1289-1296 (1999). Abstract Postscript PDF
"How the immune system generates diversity: Pathogen space coverage with random and evolved antibody libraries." M. Oprea and S. Forrest. 1999 Genetic and Evolutionary Computation Conference (GECCO) July 1999. Abstract Postscript PDF
"Variable efficacy of repeated annual influenza vaccination." D.J. Smith, S. Forrest and D.H. Ackley, and A.S.Perelson . Proceedings of the National Academy of Sciences 96:14001-14006 (1999). Abstract Postscript PDF
"Using lazy evaluation to simulate realistic-size repertoires in models of the immune system." D.J. Smith, S. Forrest and D.H. Ackley, and A.S.Perelson. Bulletin of Mathematical Biology Vol. 60, pp. 647-658 (1998). Abstract Postscript PDF
"Simulated evolution of antibody gene libraries under pathogen selection." M. Oprea and S. Forrest. 1998 IEEE International Conference on Systems, Man and Cybernetics. Abstract Postscript PDF
"Modeling the effect of prior infection on vaccine efficacy." D.J. Smith, S. Forrest and D.H. Ackley, and A.S.Perelson. In Artificial Immune systems and their Applications, Springer-Verlag, Berlin Germany (1998). Also presented at the 1997 IEEE International conference On Systems, man, and cybernetics. October, 1997. Abstract Postscript PDF
"Deriving shape-space parameters from immunological data for a model of cross-reactive memory." D.J. Smith, S. Forrest, R.R. Hightower, and A.S. Perelson . Journal of Theoretical Biology Vol.189, pp.141-150 (1997). Abstract Postscript PDF
"Evolution (and learning) of v-region genes." A. Perelson, R. Hightower, and S. Forrest. Research in Immunology Vol. 147, pp. 202-208 (1996). Abstract Postscript PDF
"The Evolution of Emergent Organization in Immune System Gene Libraries." R. Hightower, S. Forrest, and A.S. Perelson. In L.J. Eshelman (Ed.) Proc. of the Sixth Int. Conf. on Genetic Algorithms, Morgan Kaufmann, San Francisco, CA. Postscript PDF
"The Baldwin effect in the immune system: learning by somatic hypermutation." R. Hightower, S. Forrest, and A.S. Perelson. In R.K. Belew and M. Mitchell, (eds.), Adaptive Individuals in Evolving Populations, Addison-Wesley ,Reading, MA, pp. 159-167 (1996). Postscript PDF

OTHER RESEARCH TOPICS: