Working Papers List
2008
© NOTICE: The working papers provided here are included by permission of the contributing authors as a means to ensure timely distribution of their scholarly and technical work on a non-commercial basis. Copyright and all rights therein are maintained by the authors. It is understood that all persons copying this information will adhere to the terms and constraints invoked by each author's copyright. These works may not be reposted without the explicit permission of the copyright holder.
Papers are only available electronically. Librarians may request printed copies by sending e-mail to wp@santafe.edu.
| Title: | Neutrality and Robustness in Evo-devo: Emergence of Lateral Inhibition |
| Author(s): | Andreea Munteanu and Ricard V. Solé |
| Files: | [abstract] [pdf] |
| Paper #: | 08-10-045 |
| Title: | Monomeric Bistability and the Role of Autoloops in Gene Regulation |
| Author(s): | Stefanie Widder, Javier Macía, and Ricard V. Solé |
| Files: | [abstract] [pdf] |
| Paper #: | 08-10-044 |
| Title: | How Markets Slowly Digest Changes in Supply and Demand |
| Author(s): | Jean-Philippe Bouchaud, J. Doyne Farmer, and Fabrizio Lillo |
| Files: | [abstract] [pdf] |
| Paper #: | 08-09-043 |
| Title: | Dynamics of Human Behavior |
| Author(s): | Douglas R. White |
| Files: | [abstract] [pdf] |
| Paper #: | 08-09-042 |
| Title: | Hox Cluster Duplication in the Basal Teleost Hiodon alosoides (Osteoglossomorpha) |
| Author(s): | Karen E. Chambers, Ryan McDaniell, Jeremy D. Raincrow, Maya Deshmukh, Peter F. Stadler, , and Chi-hua Chiu |
| Files: | [abstract] [pdf] |
| Paper #: | 08-09-041 |
| Title: | Why Model? |
| Author(s): | Joshua M. Epstein |
| Files: | [abstract] [pdf] |
| Paper #: | 08-09-040 |
| Title: | A Story of Growing Confusion: Genes and Their Regulation |
| Author(s): | Sonja J. Prohaska and Peter F. Stadler |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-039 |
| Title: | Folding Kinetics of Large RNAs |
| Author(s): | Michael Geis, Christoph Flamm, Michael T. Wolfinger, Ivo L. Hofacker, Martin Middendorf, Christian Mandl, Peter F. Stadler, and Caroline Thurner |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-038 |
| Title: | The Amphioxus Hox Cluster: Characterization, Comparative Genomics, and Evolution |
| Author(s): | Chris T. Amemiya, Sonya J. Prohaska, Alicia Hill-Force, April Cooke, Jessica Wasserscheid, David E. K. Ferrier, Juan Pascual Anaya, Jordi Garcia-Fernandez, Ken Dewar, and Peter F. Stadler |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-037 |
| Title: | Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics |
| Author(s): | Ulrike Mückstein, Hakim Tafer, Stephan H. Bernhart, Maribel Hernandez-Rosales, Jörg Vogel, Peter F. Stadler, and Ivo L. Hofacker |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-036 |
| Title: | Noisy: Identification of Problematic Columns in Multiple Sequence Alignments |
| Author(s): | Andreas W. M. Dress, Christoph Flamm, Guido Fritzsch, Stefan Grünewald, Matthias Kruspe , Sonja J. Prohaska, and Peter F. Stadler |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-035 |
| Title: | Inequality and Network Structure |
| Author(s): | Garud Iyengar, Willemien Kets, Rajiv Sethi, and Sam Bowles |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-034 |
| Title: | Approximate Graph Products |
| Author(s): | Marc Hellmuth, Wilfried Imrich, Werner Klöckl, and Peter F. Stadler |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-033 |
| Title: | The Coevolution of Cooperation and Dispersal in Social Groups and its Implications for the Emergence of Multicellularity |
| Author(s): | Michael E. Hochberg, Daniel J. Rankin, and Michael Taborsky |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-032 |
| Title: | Time Evolution of the Mutual Fund Size Distribution |
| Author(s): | Yonathan Schwarzkopf and J. Doyne Farmer |
| Files: | [abstract] [pdf] |
| Paper #: | 08-08-031 |
| Title: | Cooperative Homo economicus |
| Author(s): | Samuel Bowles and Herbert Gintis |
| Files: | [abstract] [pdf] |
| Paper #: | 08-07-030 |
| Title: | Is Altruism Bad for Cooperation? |
| Author(s): | Sung-Ha Hwang and Samuel Bowles |
| Files: | [abstract] [pdf] |
| Paper #: | 08-07-029 |
| Title: | The Organization of Intrinsic Computation: Complexity-Entropy Diagrams and the Diversity of Natural Information Processing |
| Author(s): | David P. Feldman, Carl S. McTague, and James P. Crutchfield |
| Files: | [abstract] [pdf] |
| Paper #: | 08-07-028 |
| Title: | Market Selection and Asset Pricing |
| Author(s): | Lawrence Blume and David Easley |
| Files: | [abstract] [pdf] |
| Paper #: | 08-07-027 |
| Title: | Protein Robustness Promotes Evolutionary Innovations on Large Evolutionary Time Scales |
| Author(s): | Evandro Ferrada and Andreas Wagner |
| Files: | [abstract] [pdf] |
| Paper #: | 08-06-026 |
| Title: | Neutral Network Sizes of Biological RNA Molecules Can Be Computed and Are Atypically Large |
| Author(s): | Thomas Jörg, Olivier C. Martin, and Andreas Wagner |
| Files: | [abstract] [pdf] |
| Paper #: | 08-06-025 |
| Title: | A Theory for the Formation of Large Agrarian Empires |
| Author(s): | Peter Turchin |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-024 |
| Title: | A Mathematical Model for Optimal Tuning Systems |
| Author(s): | Larry Polansky, Daniel Rockmore, Kimo Johnson, and Douglas Repetto |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-023 |
| Title: | The Neolithic Demographic Transition in the U.S. Southwest |
| Author(s): | Timothy A. Kohler, Matt Pier Glaude, Jean-Pierre Bocquet-Appel, and Brian M. Kemp |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-022 |
| Title: | To How Many Politicians Should Government Be Left? |
| Author(s): | Peter Klimek, Rudolf Hanel, and Stefan Thurner |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-021 |
| Title: | Maximum Entropy Approach to Central Limit Distributions of Correlated Variables |
| Author(s): | Stefan Thurner and Rudolf Hanel |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-020 |
| Title: | Defeating Drug Resistance in Pathogens: Guidance from Evolutionary Theory |
| Author(s): | John W. Pepper |
| Files: | [abstract] [pdf] |
| Paper #: | 08-05-019 |
| Title: | The Market Organism: Long Run Survival in Markets with Heterogeneous Traders |
| Author(s): | Lawrence E. Blume and David Easley |
| Files: | [abstract] [pdf] |
| Paper #: | 08-04-018 |
| Title: | A Simple Spin Glass Perspective on Martensitic Shape-Memory Alloys |
| Author(s): | David Sherrington |
| Files: | [abstract] [pdf] |
| Paper #: | 08-04-017 |
| Title: | Assisting the Analysis of Conserved Synteny Information |
| Author(s): | Jörg Lehmann, Peter F. Stadler, and Sonja J. Prohaska |
| Files: | [abstract] [pdf] |
| Paper #: | 08-04-016 |
| Title: | Persistent Institutions |
| Author(s): | Samuel Bowles and Suresh Naidu |
| Files: | [abstract] [pdf] |
| Paper #: | 08-04-015 |
| Title: | The Virtues and Vices of Equilibrium and the Future of Financial Economics |
| Author(s): | J. Doyne Farmer and John Geneakoplos |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-014 |
| Title: | Emerging Markets in an Anxious Global Economy |
| Author(s): | Ana Fostel and John Geneakoplos |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-013 |
| Title: | Social Preferences and Public Policies: Mechanism Design when Preferences Depend on Incentives |
| Author(s): | Samuel Bowles and Sung Ha Hwang |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-012 |
| Title: | “Genes” |
| Author(s): | Sonja J. Prohaska and Peter F. Stadler |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-011 |
| Title: | Spontaneous Coordinated Activity in Cultured Networks: Analysis of Multiple Ignition Sites, Primary Circuits, and Burst Phase Delay Distributions |
| Author(s): | Michael I. Ham, Luís M. A. Bettencourt, Floyd D. McDaniel, and Guenter W. Gross |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-010 |
| Title: | Analysis of the Karmarkar-Karp Differencing Algorithm |
| Author(s): | Stefan Boettcher and Stephan Mertens |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-009 |
| Title: | Diversity Emerging: From Competitive Exclusion to Neutral Coexistence in Ecosystems |
| Author(s): | Juan E. Keymer, Miguel A. Fuentes, and Pablo A. Marquet |
| Files: | [abstract] [pdf] |
| Paper #: | 08-03-008 |
| Title: | Prokaryotic Branch of the Tree of Life: A Composition Vector Approach |
| Author(s): | Bailin HAO and Lei GAO |
| Files: | [abstract] [pdf] |
| Paper #: | 08-02-007 |
| Title: | Predictive Information and Explorative Behavior of Autonomous Robots |
| Author(s): | Nihat Ay, Nils Bertschinger, Ralf Der, Frank Güttler, and Eckehard Olbrich |
| Files: | [abstract] [pdf] |
| Paper #: | 08-02-006 |
| Title: | Distributed Robustness in Cellular Networks: Insights from Synthetic Evolved Circuits |
| Author(s): | Javier Macia and Ricard V. Solé |
| Files: | [abstract] [pdf] |
| Paper #: | 08-02-005 |
| Title: | On the Generative Nature of Prediction |
| Author(s): | Wolfgang Löhr and Nihat Ay |
| Files: | [abstract] [pdf] |
| Paper #: | 08-02-004 |
| Title: | Identification of Functional Information Subgraphs in Complex Networks |
| Author(s): | Luís M. A. Bettencourt, Vadas Gintautas, and Michael I. Ham |
| Files: | [abstract] [pdf] |
| Paper #: | 08-01-003 |
| Title: | A Dual Eigenvector Condition for Strong Lumpability of Markov Chains |
| Author(s): | Martin Nilsson Jacobi and Olof Göernerup |
| Files: | [abstract] [pdf] |
| Paper #: | 08-01-002 |
| Title: | A Refinement of the Common Cause Principle |
| Author(s): | Nihat Ay |
| Files: | [abstract] [pdf] |
| Paper #: | 08-01-001 |