Working Papers

From Santa Fe Institute
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03-015: The Coevolution of Genes and the Genetic Code

Guy Sella and David H. Ardell

03-015: Memory in Idiotypic Networks due to Competition Between Proliferation and Differentiation

Bernhard Sulzer, Avidan U. Neumann, J. Leo van Hemmen and Ulrich Behn

03-014: Combinatorial Landscapes

Christian M. Reidys and Peter F. Stadler

03-014: Inductive Reasoning, Bounded Rationality and the Bar Problem

W. Brian Arthur

03-013: Shaking a Box of Sand

Peter F. Stadler, Anita Mehta and Jean-Marc Luck

03-013: Time and Money

Martin Shubik

03-013: Self-Orgainzed Market in a Decentralized Economy

Nicolaas Vriend

03-013: Generic Excitable Dynamics on a Two-Dimensional Map

Dante R. Chialvo

03-012: Some Advantages and Disadvantages of Recombination

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

03-012: Physics: The Opening to Complexity

Philip W. Anderson

03-011: Active Nonlinear Tests (ANTs) of Complex Simulation Models

John H. Miller

03-011: The Evolution of Interface: Reduction of Recombination Among Three Loci

David B. Goldstein, Aviv Bergman and Marcus W. Feldman

03-010: On Reality and Models

Joseph F. Traub

03-010: Contrarians and Volatility Clustering

E.R. Grannan and G.H. Swindle

03-009: On 2-Armed Gaussian Bandits and Optimization

William G. Macready and David H. Wolpert

03-008: An Incompleteness Theorem for Calculating the Future

David H. Wolpert

03-007: Creating Alternative Cultural Histories in the Prehistoric Southwest: Agent-Based Modeling in Archaeology

George J. Gumerman and Timothy A. Kohler

02-027: Optimizing Stochastic and Multiple Fitness Functions

Joseph L. Breeden

02-026: What Bayes Has to Say About the Evidence Procedure

David H. Wolpert and Charles E.M. Strauss

02-025: One Operator, One Landscape

Terry Jones

02-024: Crossover, Macromutation, and Population-Based Search

Terry Jones

02-023: Off-Training-Set Error for the Gibbs and the Bayes Optimal Generalizers

Tal Grossman, Emanuel Knill and David Wolpert

02-022: Fitness Distance Correlation as a Measure of Problem Difficulty for Genetic Algorithms

Terry Jones and Stephanie Forrest

02-021: Amplitude Spectra of Fitness Landscapes

Wim Hordijk and Peter F. Stadler

02-021: Genetic Algorithms and Heuristic Search

Terry Jones and Stephanie Forrest

02-020: Use of Adaptive Networks to Define Highly Predictable Protein Secondary-Structure Classes

Alan S. Lapedes, Evan W. Steeg and Robert M. Farber

02-020: Automatic Detection of Conserved RNA Structure Elements in Complete RNA Virus Genomes

Ivo L. Hofacker, Martin Fekete, Christoph Flamm, Martijn A. Huynen, Susanne Rauscher, Paul E. Stolorz and Peter F. Stadler

02-019: Non-Computability and Intractability: Does It Matter to Physics?

Joseph F. Traub

02-019: Use of Bad Training Data for Better Predictions

Tal Grossman and Alan Lapedes

02-018: Noise Sensitivity Signatures for Model Selection

Tal Grossman and Alan Lapedes

02-018: Classifying Cellular Automata Automatically

Andy Wuensche

02-017: Neural Networks for Determining Protein Specificity and Multiple Alignment of Binding Sites

John M. Heumann, Alan S. Lapedes and Gary D. Stormo

02-017: A Complex-Systems Perspective on the ``Computation vs. Dynamics'' Debate in Cognitive Science

Melanie Mitchell

02-016: Decoupled Evolution of Coding Region and mRNA Expression Patterns After Gene Duplication: Implications for the Neutralist-Selectionist Debate

Andreas Wagner

02-016: The Effects of Tag-Mediated Selection of Partners in Evolving Populations Playing the Iterated PrisonerÕs Dilemma

Rick L. Riolo

02-016: Covariation of Mutations in the V3 Loop of HIV-1: An Information Theoretic Analysis

B. Korber, R. Farber, D. Wolpert and A. Lapedes

02-016: Dynamical Embodiments of Computation in Cognitive Processes

James P. Crutchfield

02-015: A Complex Systems Approach to Computational Molecular Biology

A. Lapedes

02-015: Varieties of Limits to Scientific Knowledge

Piet Hut, David Ruelle and Joseph Traub

02-015: The Role of Population Size, Pleiotropy, and Fitness Effects of Mutations in the Evolution of Overlapping Gene Functions

Andreas Wagner

02-015: The Evolutionary Unfolding of Complexity

James P. Crutchfield and Erik van Nimwegen

02-015: Stability and Complexity on a Lattice: Coexistence of Species in an Individual-Based Food Web Model

Timothy H. Keitt

02-014: Inferring Life Style From Gene Expression Patterns

Andreas Wagner

02-014: Predicting Protein Secondary Structure Using Neural Net and Statistical Methods

Paul Stolorz, Alan Lapedes and Yuan Xia

02-014: How the Immune System Generates Diversity: Pathogen Space Coverage with Random and Evolved Antibody Libraries

Mihaela Oprea and Stephanie Forrest

02-014: On Information and Sufficiency

Huaiyu Zhu

02-013: Molecular Insights into Evolution of Phenotypes

Peter Schuster

02-013: A Model of Mass Extinction

M. E. J. Newman

02-013: Determination of Eukaryotic Protein Coding Regions Using Neural Networks and Information Theory

Robert Farber, Alan Lapedes and Karl Sirotkin

02-013: Genetic Plasiticity of V Genes Under Somatic Hypermutation: Statistical Analyses Using a New Resampling-Based Methodology

Mihaela Oprea and Thomas B. Kepler