Santa Fe Institute

2008 Working Papers

Title: On the Robustness of q-expectation Values and Rényi Entropy
Author(s): Rudolf Hanel, Stefan Thurner, Constantino Tsallis
Files: [abstract] [pdf]
Paper #: 08-12-059
Date: Dec. 1, 2008
Title: Physics of Evolution: Selection without Fitness
Author(s): Rudolf Hanel, Stefan Thurner
Files: [abstract] [pdf]
Paper #: 08-12-058
Date: Dec. 1, 2008
Title: Scale-Invariant Correlated Probabilistic Model Yields q-Gaussians in the Thermodynamic Limit
Author(s): Rudolf Hanel, Stefan Thurner, Constantino Tsallis
Files: [abstract] [pdf]
Paper #: 08-12-057
Date: Dec. 1, 2008
Title: Stability Criteria for q-expectation Values
Author(s): Rudolf Hanel, Stefan Thurner
Files: [abstract] [pdf]
Paper #: 08-12-056
Date: Dec. 1, 2008
Title: Parkinson’s Law Quantified: Three Investigations on Bureaucratic Inefficiency
Author(s): Peter Klimek, Stefan Thurner, Rudolf Hanel
Files: [abstract] [pdf]
Paper #: 08-12-055
Date: Dec. 1, 2008
Title: Pruning the Tree of Life: k-core Percolation as Selection Mechanism
Author(s): Peter Klimek, Stefan Thurner, Rudolf Hanel
Files: [abstract] [pdf]
Paper #: 08-12-054
Date: Dec. 1, 2008
Title: Inflation of the Edge of Chaos in a Simple Model of Gene Interaction Networks
Author(s): Dejan Stokic, Rudolf Hanel, Stefan Thurner
Files: [abstract] [pdf]
Paper #: 08-12-053
Date: Dec. 1, 2008
Title: Cancer Research Meets Evolutionary Biology
Author(s): John Pepper, C. Findlay, Rees Kassen, Sabrina Spencer, Carlo Maley
Files: [abstract] [pdf]
Paper #: 08-12-052
Date: Dec. 1, 2008
Title: Casimir Dependence of Transverse Distribution of Pairs Produced from a Strong Constant Chromo-electric Background Field
Author(s): Fred Cooper, John Dawson, Bogdan Mihaila
Files: [abstract] [pdf]
Paper #: 08-12-051
Date: Dec. 1, 2008
Title: Robustness to Mutations Depends on whether RNA Virus Replication Occurs Geometrically or Via a Stamping Machine
Author(s): Josep Sardanyés, Ricard Solé, Santiago Elena
Files: [abstract] [pdf]
Paper #: 08-12-050
Date: Dec. 1, 2008
Title: Dynamical Hierarchy and Modularity in Gene Regulatory Networks
Author(s): Carlos Rodríguez-Caso, Bernat Corominas-Murtra, Ricard Solé
Files: [abstract] [pdf]
Paper #: 08-12-049
Date: Dec. 1, 2008
Title: Agent-Based Models of Levels of Consciousness
Author(s): Helena Gao, John Holland
Files: [abstract] [pdf]
Paper #: 08-12-048
Date: Dec. 1, 2008
Title: Language is a Complex Adaptive System
Author(s): The Five Graces Group
Files: [abstract] [pdf]
Paper #: 08-12-047
Date: Dec. 1, 2008
Title: Effective Complexity and its Relation to Logical Depth
Author(s): Nihat Ay, Markus Müller, Arleta Szkola
Files: [abstract] [pdf]
Paper #: 08-12-046
Date: Dec. 1, 2008
Title: Neutrality and Robustness in Evo-devo: Emergence of Lateral Inhibition
Author(s): Andreea Munteanu, Ricard Solé
Files: [abstract] [pdf]
Paper #: 08-10-045
Date: Oct. 1, 2008
Title: Monomeric Bistability and the Role of Autoloops in Gene Regulation
Author(s): Stefanie Widder, Javier Macía, Ricard Solé
Files: [abstract] [pdf]
Paper #: 08-10-044
Date: Oct. 1, 2008
Title: How Markets Slowly Digest Changes in Supply and Demand
Author(s): Jean-Philippe Bouchaud, J. Farmer, Fabrizio Lillo
Files: [abstract] [pdf]
Paper #: 08-09-043
Date: Sept. 1, 2008
Title: Dynamics of Human Behavior
Author(s): Douglas White
Files: [abstract] [pdf]
Paper #: 08-09-042
Date: Sept. 1, 2008
Title: Hox Cluster Duplication in the Basal Teleost Hiodon alosoides (Osteoglossomorpha)
Author(s): Karen Chambers, Ryan McDaniell, Jeremy Raincrow, Maya Deshmukh, Peter Stadler
Files: [abstract] [pdf]
Paper #: 08-09-041
Date: Sept. 1, 2008
Title: Why Model?
Author(s): Joshua Epstein
Files: [abstract] [pdf]
Paper #: 08-09-040
Date: Sept. 1, 2008
Title: A Story of Growing Confusion: Genes and Their Regulation
Author(s): Sonja Prohaska, Peter Stadler
Files: [abstract] [pdf]
Paper #: 08-08-039
Date: Aug. 1, 2008
Title: Folding Kinetics of Large RNAs
Author(s): Michael Geis, Christoph Flamm, Michael Wolfinger, Ivo Hofacker, Martin Middendorf
Files: [abstract] [pdf]
Paper #: 08-08-038
Date: Aug. 1, 2008
Title: The Amphioxus Hox Cluster: Characterization, Comparative Genomics, and Evolution
Author(s): Chris Amemiya, Sonya Prohaska, Alicia Hill-Force, April Cooke, Jessica Wasserscheid
Files: [abstract] [pdf]
Paper #: 08-08-037
Date: Aug. 1, 2008
Title: Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics
Author(s): Ulrike Mückstein, Hakim Tafer, Stephan Bernhart, Maribel Hernandez-Rosales, Jörg Vogel
Files: [abstract] [pdf]
Paper #: 08-08-036
Date: Aug. 1, 2008
Title: Noisy: Identification of Problematic Columns in Multiple Sequence Alignments
Author(s): Andreas Dress, Christoph Flamm, Guido Fritzsch, Stefan Grünewald, Matthias Kruspe
Files: [abstract] [pdf]
Paper #: 08-08-035
Date: Aug. 1, 2008
Title: Inequality and Network Structure
Author(s): Garud Iyengar, Willemien Kets, Rajiv Sethi, Sam Bowles
Files: [abstract] [pdf]
Paper #: 08-08-034
Date: Aug. 1, 2008
Title: Approximate Graph Products
Author(s): Marc Hellmuth, Wilfried Imrich, Werner Klöckl, Peter Stadler
Files: [abstract] [pdf]
Paper #: 08-08-033
Date: Aug. 1, 2008
Title: The Coevolution of Cooperation and Dispersal in Social Groups and its Implications for the Emergence of Multicellularity
Author(s): Michael Hochberg, Daniel Rankin, Michael Taborsky
Files: [abstract] [pdf]
Paper #: 08-08-032
Date: Aug. 1, 2008
Title: Time Evolution of the Mutual Fund Size Distribution
Author(s): Yonathan Schwarzkopf, J. Farmer
Files: [abstract] [pdf]
Paper #: 08-08-031
Date: Aug. 1, 2008
Title: Cooperative Homo economicus
Author(s): Samuel Bowles, Herbert Gintis
Files: [abstract] [pdf]
Paper #: 08-07-030
Date: July 1, 2008
Title: Is Altruism Bad for Cooperation?
Author(s): Sung-Ha Hwang, Samuel Bowles
Files: [abstract] [pdf]
Paper #: 08-07-029
Date: July 1, 2008
Title: The Organization of Intrinsic Computation: Complexity-Entropy Diagrams and the Diversity of Natural Information Processing
Author(s): David Feldman, Carl McTague, James Crutchfield
Files: [abstract] [pdf]
Paper #: 08-07-028
Date: July 1, 2008
Title: Market Selection and Asset Pricing
Author(s): Lawrence Blume, David Easley
Files: [abstract] [pdf]
Paper #: 08-07-027
Date: July 1, 2008
Title: Protein Robustness Promotes Evolutionary Innovations on Large Evolutionary Time Scales
Author(s): Evandro Ferrada, Andreas Wagner
Files: [abstract] [pdf]
Paper #: 08-06-026
Date: June 1, 2008
Title: Neutral Network Sizes of Biological RNA Molecules Can Be Computed and Are Atypically Large
Author(s): Thomas Jörg, Olivier Martin, Andreas Wagner
Files: [abstract] [pdf]
Paper #: 08-06-025
Date: June 1, 2008
Title: A Theory for the Formation of Large Agrarian Empires
Author(s): Peter Turchin
Files: [abstract] [pdf]
Paper #: 08-05-024
Date: May 1, 2008
Title: A Mathematical Model for Optimal Tuning Systems
Author(s): Larry Polansky, Daniel Rockmore, Kimo Johnson, Douglas Repetto
Files: [abstract] [pdf]
Paper #: 08-05-023
Date: May 1, 2008
Title: The Neolithic Demographic Transition in the U.S. Southwest
Author(s): Timothy Kohler, Matt Glaude, Jean-Pierre Bocquet-Appel, Brian Kemp
Files: [abstract] [pdf]
Paper #: 08-05-022
Date: May 1, 2008
Title: To How Many Politicians Should Government Be Left?
Author(s): Peter Klimek, Rudolf Hanel, Stefan Thurner
Files: [abstract] [pdf]
Paper #: 08-05-021
Date: May 1, 2008
Title: Maximum Entropy Approach to Central Limit Distributions of Correlated Variables
Author(s): Stefan Thurner, Rudolf Hanel
Files: [abstract] [pdf]
Paper #: 08-05-020
Date: May 1, 2008
Title: Defeating Drug Resistance in Pathogens: Guidance from Evolutionary Theory
Author(s): John Pepper
Files: [abstract] [pdf]
Paper #: 08-05-019
Date: May 1, 2008
Title: The Market Organism: Long Run Survival in Markets with Heterogeneous Traders
Author(s): Lawrence Blume, David Easley
Files: [abstract] [pdf]
Paper #: 08-04-018
Date: April 1, 2008
Title: A Simple Spin Glass Perspective on Martensitic Shape-Memory Alloys
Author(s): David Sherrington
Files: [abstract] [pdf]
Paper #: 08-04-017
Date: April 1, 2008
Title: Assisting the Analysis of Conserved Synteny Information
Author(s): Jörg Lehmann, Peter Stadler, Sonja Prohaska
Files: [abstract] [pdf]
Paper #: 08-04-016
Date: April 1, 2008
Title: Persistent Institutions
Author(s): Samuel Bowles, Suresh Naidu
Files: [abstract] [pdf]
Paper #: 08-04-015
Date: April 1, 2008
Title: The Virtues and Vices of Equilibrium and the Future of Financial Economics
Author(s): J. Farmer, John Geanakoplos
Files: [abstract] [pdf]
Paper #: 08-03-014
Date: March 1, 2008
Title: Emerging Markets in an Anxious Global Economy
Author(s): Ana Fostel, John Geanakoplos
Files: [abstract] [pdf]
Paper #: 08-03-013
Date: March 1, 2008
Title: Social Preferences and Public Policies: Mechanism Design when Preferences Depend on Incentives
Author(s): Samuel Bowles, Sung Hwang
Files: [abstract] [pdf]
Paper #: 08-03-012
Date: March 1, 2008
Title: “Genes”
Author(s): Sonja Prohaska, Peter Stadler
Files: [abstract] [pdf]
Paper #: 08-03-011
Date: March 1, 2008
Title: Spontaneous Coordinated Activity in Cultured Networks: Analysis of Multiple Ignition Sites, Primary Circuits, and Burst Phase Delay Distributions
Author(s): Michael Ham, Luís Bettencourt, Floyd McDaniel, Guenter Gross
Files: [abstract] [pdf]
Paper #: 08-03-010
Date: March 1, 2008
Title: Analysis of the Karmarkar-Karp Differencing Algorithm
Author(s): Stefan Boettcher, Stephan Mertens
Files: [abstract] [pdf]
Paper #: 08-03-009
Date: March 1, 2008
Title: Diversity Emerging: From Competitive Exclusion to Neutral Coexistence in Ecosystems
Author(s): Juan Keymer, Miguel Fuentes, Pablo Marquet
Files: [abstract] [pdf]
Paper #: 08-03-008
Date: March 1, 2008
Title: Prokaryotic Branch of the Tree of Life: A Composition Vector Approach
Author(s): Bailin HAO, Lei GAO
Files: [abstract] [pdf]
Paper #: 08-02-007
Date: Feb. 1, 2008
Title: Predictive Information and Explorative Behavior of Autonomous Robots
Author(s): Nihat Ay, Nils Bertschinger, Ralf Der, Frank Güttler, Eckehard Olbrich
Files: [abstract] [pdf]
Paper #: 08-02-006
Date: Feb. 1, 2008
Title: Distributed Robustness in Cellular Networks: Insights from Synthetic Evolved Circuits
Author(s): Javier Macia, Ricard Solé
Files: [abstract] [pdf]
Paper #: 08-02-005
Date: Feb. 1, 2008
Title: On the Generative Nature of Prediction
Author(s): Wolfgang Löhr, Nihat Ay
Files: [abstract] [pdf]
Paper #: 08-02-004
Date: Feb. 1, 2008
Title: Identification of Functional Information Subgraphs in Complex Networks
Author(s): Luís Bettencourt, Vadas Gintautas, Michael Ham
Files: [abstract] [pdf]
Paper #: 08-01-003
Date: Jan. 1, 2008
Title: A Dual Eigenvector Condition for Strong Lumpability of Markov Chains
Author(s): Martin Jacobi, Olof Göernerup
Files: [abstract] [pdf]
Paper #: 08-01-002
Date: Jan. 1, 2008
Title: A Refinement of the Common Cause Principle
Author(s): Nihat Ay
Files: [abstract] [pdf]
Paper #: 08-01-001
Date: Jan. 1, 2008

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