2005 Complex Systems Summer School Santa Fe-Readings

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2005 Complex Systems Summer School Santa Fe

Bradley, Elizabeth. "Week I: Introduction to Nonlinear Dynamics." Syllabus for 2005 Complex Systems Summer School, 2005.

Bradley, Elizabeth. "Numerical Solution of Differential Equations." Research Report on Curricula and Teaching CT003-98, Department of Computer Science, University of Colorado, Boulder, 1998.

Bradley, Elizabeth. "Time Series Analysis." In Intelligent Data Analysis: An Introduction, ed. by M. Berthold and D.J. Hand, 167 - 194. Berlin; New York: Springer, 1999.

Shannon, C.E. "A Mathematical Theory of Communication." The Bell System Technical Journal 27 (1948): 623–656.

Carter, Tom. "Linear Algebra Notes."

Carter, Tom. "Introduction to Theory of Computation."

Davies, Brian. "Chaos for Java." 1999.

Davies, Brian. "Chaos for Java - Read Me." 1999.

Learning NetLogo, Tutorial #1: Models, Tutorial #2: Commands, and Tutorial #3: Procedures. NetLogo User Manual, version 2.1. December 13, 2004. Highly recommended

Axelrod, Robert. "Advancing the Art of Simulation in the Social Sciences." Japanese Journal for Management Information System, vol. 12, No. 3, 2003.

Axelrod, Robert. "Agent-based modeling as a bridge between disciplines." In Handbook of Computational Economics, vol. 2: Agent-Based Computational Economics, Handbooks in Economics Series, eds., Kenneth L. Judd and Leigh Tesfatsion, North-Holland, 2005.

Bonabeau, Eric. "Agent-based modeling: Methods and techniques for simulating human systems." PNAS 99 (2002): 7280-7287.

Epstein, Joshua M. and Robert L. Axtell. Growing Artificial Societies: Social Science From the Bottom Up. Washington, D.C.: Brookings Institution Press, 1996.

Parunak, H. Van Dyke. "Go to the Ant: Engineering Principles from Natural Multi-Agent Systems." Industrial Technology Institute, Ann Arbor, MI, 1997, unpublished.

Farmer, J. Doyne. "An Empirical Behavioral Model of Price Formation in the London Stock Exchange." Complex Systems Summer School. 2005.

Farmer, J. Doyne. "Power Laws." Complex Systems Summer School. 2005.

Farmer, J. Doyne, and J. Geanakoplos. "Power laws in economics and elsewhere." 2005.

Barabási, Albert-László. "The physics of the Web." Physics World. IOP Publishing Ltd., July 2001.

Flake, Gary William. "Self-Organization and the Internet."

Flake, Gary William , Kostas Tsioutsiouliklis, and Leonid Zhukov. "Methods for Mining Web Communities: Bibliometric, Spectral, and Flow."

Flake, Gary William, David M. Pennock, and Daniel C. Fain. "The Self-Organized Web: The Yin to the Semantic Web's Yang."

Pennock, David M., Gary W. Flake, Steve Lawrence, Eric J. Glover, and C. Lee Giles. "Winners don't take all: Characterizing the competition for links on the web."

Kohler, T.A., G.J. Gumerman, and R.G. Reynolds. "Simulating ancient societies." Scientific American (to appear).

Hanahan, Douglas, and Robert A. Weinberg. "The Hallmarks of Cancer." Cell 100 (2000): 57-70.

Nowell, Peter C. "The Clonal Evolution of Tumor Cell Populations." Science 194 (1976): 23-28.

Martinez, N.D., R.J. Williams, and J.A. Dunne. "Diversity, complexity, and persistence in large model ecosystems." In Food Webs as Complex Adaptive Networks: Linking Structure to Dynamics, ed. M. Pascual and J.A. Dunne, Oxford University Press. In press.

Williams, R. J., and N. D. Martinez. "Simple rules yield complex food webs." Nature 404 (2000): 180-183.

Mitchell, Melanie. "Life and Evolution in Computers." History and Philosophy of the Life Sciences, 23 (2001): 361-383.

Strogatz, Steven H. "Exploring complex networks." Nature 410 (2001): 268-276.

Smith, Eric, Harold Morowitz, and Shelley Copley. "Understanding the Universals of Metabolism." Complex Systems Summer School. 2005.

Copley, Shelley D., Eric Smith, and Harold J. Morowitz. "A mechanism for the association of amino acids with their codons and the origin of the genetic code." PNAS 102 (2005): 4442–4447.

DeDuve, Christian. Blueprint for a cell: the nature and origin of life. Burlington, N.C.: Neil Patterson Publishers, 1991.

Fry, Iris. The emergence of life on earth: a historical and scientific overview. New Brunswick, N.J.: Rutgers University Press, 2000.

Smith, Eric, and Harold J. Morowitz. "Universality in intermediary metabolism." PNAS 101 (2004): 13168–13173.

Tsallis, C., M. Gell-Mann and Y. Sato. "Special scale-invariant occupancy of phase space makes the entropy Sq additive." arXiv:cond-mat/0502274, Los Alamos, NM, 2005.