Working Papers

From Santa Fe Institute
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05-044: Life Without Death is P-Complete

David Griffeath and Cristopher Moore

05-043: Dynamics of One-Pass Germinal Center Models: Implications for Affinity Maturation

Erik van Nimwegen, Mihaela Oprea and Alan S. Perelson

05-042: Navigating a Nonlinear Environment: An Experimental Study of Decision Making in a Chaotic Setting

Diana Richards and Jude Hays

05-042: Identification of Highly Informative Molecular Profile Components using Genetic Algorithms

Federico Mattia Stefanini

05-040: Evolving Parallel Computation

Kurt Thearling and Thomas Ray

05-040: Complete Suboptimal Folding of RNA and the Stability of Secondary Structures

Stefan Wuchty, Walter Fontana, Ivo L. Hofacker and Peter Schuster

05-039: Symbiotic Intelligence: Self-Organizing Knowledge on Distributed Networks Driven By Human Interaction

Norman Johnson, Steen Rasmussen, Cliff Joslyn, Luis Rocha, Steve Smith and Marianna Kantor

05-039: Biased Eukaryotic Gene Regulation Rules Suggest Genome Behavior Is Near Edge of Chaos

Stephen E. Harris, Bruce K. Sawhill, Andrew Wuensche and Stuart Kauffman

05-038: Self-Reproduction of Dynamical Hierarchies in Chemical Systems

Bernd Mayer and Steen Rasmussen

05-038: Inflationary Deficit Financing in an Open Economy: Evolutionary Dynamics

Jasmina Arifovic

05-038: Phase Transitions in Logic Networks

B. K. Sawhill and S. A. Kauffman

05-037: Fitness Distance Correlation Analysis: An Instructive Counterexample

Lee Altenberg

05-037: Landscapes: A Natural Extension of Search Theory

Jose Lobo and William G. Macready

05-036: Modeling Plasma Virus Concentration and CD4+ T Cell Kinetics during Primary HIV Infection

Max A. Stafford, Yunzhen Cao, David D. Ho, Lawrence Corey, Crystal L. Mackall, Ronald E. Gress and Alan S. Perelson

05-035: Multivariate Approaches to Development and Evolution

Gunther J. Eble

05-034: Scaling and Percolation in the Small-World Network Model

M. E. J. Newman and D. J. Watts

05-034: Isotropy and Metastable States: The Landscape of the XY Hamiltonian Revisited

Ricardo Garcia-Pelayo and Peter F. Stadler

05-033: Reciprocity and Its Limits: Considerations for a Study of the Pre-Hispanic Pueblo World

Timothy A. Kohler, Matthew Van Pelt and Lorene Yap

05-032: Deleteriuous Mutations, Variable Epistatic Interactions, and the Evolution of Recombination

Sarah Perin Otto and Marcus W. Feldman

05-032: The Theoretician Grapples with Complex Systems

Lee A. Segel

05-031: Random Walks and Orthogonal Functions Associated with Highly Symmetric Graphs

Peter F. Stadler

05-031: Population Genetic Perspectives on the Evolution of Recombination

Marcus W. Feldman, Sarah P. Otto and Freddy B. Christiansen

05-030: A Simple Model of Epidemics with Pathogen Mutation

Michelle Girvan, Duncan S. Callaway, M. E. J. Newman and Steven H. Strogatz

05-030: The Cognitive Revolution?

John L. Casti

05-030: Individual Versus Social Learning: Evolutionary Analysis in a Fluctuating Environment

Marcus W. Feldman, Kenichi Aoki and Jochen Kumm

05-030: Economies with Interacting Agents

Alan Kirman

05-029: Spatial Competition and Price Formation

Kai Nagel, Martin Shubik, Maya Paczuski and Per Bak

05-029: The Topology of Technology Graphs: Small World Patterns in Electronic Circuits

Ramon Ferrer i Cancho, Christiaan Janssen and Ricard V. Solé

05-029: Neural Net Representations of Empirical Protein Potentials

Tal Grossman, Robert Farber and Alan Lapedes

05-028: Permanence of Sparse Autocatalytic Networks

Peter F. Stadler and Peter Schuster

05-028: Interactions-Based Models

William Brock and Steven Durlauf

05-028: Recovery After Mass Extinction: Evolutionary Assembly in Large-Scale Biosphere Dynamics

Ricard V. Solé, José M. Montoya and Douglas H. Erwin

05-027: The Peacock, the Sparrow, and the Evolution of Human Language

Carl Bergstrom, Rustom Antia, Szabolcs Sz‡mad— and Michael Lachmann

05-027: Design of Multi-Stable RNA Molecules

Christophe Flamm, Ivo L. Hofacker, Sebastian Maurer-Stroh, Peter F. Stadler and Martin Zehl

05-027: Mapping in Random Structures

Christian Reidys

05-027: Evolution of Recombination Among Multiple Selected Loci: A Generalized Reduction Principle

Lev A. Zhivotovsky, Marcus W. Feldman and Freddy B. Christiansen

05-026: Quantum Walks on the Hypercube

Cristopher Moore and Alexander Russell

05-026: Don't Bleach Chaotic Data

James Theiler and Stephen Eubank

05-025: Are Randomly Grown Graphs Really Random?

D. S. Callaway, J. E. Hopcroft, J. M. Kleinberg, M. E. J. Newman and S. H. Strogatz

05-025: A Brief History of Cultural Evolution: Stages, Agents, and Tinkering

Jonathan Haas

05-025: Implications of Creation

David E. Hiebeler

05-024: Autocatalytic Networks with Intermediates I: Irreversible Reactions

Robert Hecht, Robert Happel, Peter Schuster and Peter F. Stadler

05-024: Field Theory of a Reaction-Diffusion Model of Quasispecies Dynamics

Romualdo Pastor-Satorras and Ricard V. Solé

05-023: Dynamical Recognizers: Real-Time Language Recognition by Analog Computers

Cristopher Moore

04-045: A Comparison of Political Institutions in a Tieabout Model

Ken Kollman, John H.Miller and Scott E. Page

04-044: When Optimization Isn't Optimal: Aggregation and Information Contagion

David Lane and Roberta Vescovini

04-043: Hierarchical Crossover and Probability Landscapes of Genetic Operators

Stefan Bornholdt and Heinz Georg Schuster

04-042: Search Strategies for Applied Molecular Evolution

Stuart A. Kauffman and William G. Macready

04-041: Connectivity and Financial Network Shutdown

Larry Eisenberg

04-040: Elements of a Theory of Simulation

Steen Rasmussen and Christopher L. Barrett