Statistical Analysis of Genealogical Trees for Polygamic Species

Repetitions within a given genealogical tree provides some information about the degree of consanguineity of a population. They can be analyzed with techniques usually employed in statistical physics when dealing with fixed point transformations. In particular we show that the tree features strongly depend on the fractions of males and females in the population, and also on the offspring probability distribution. We check different possibilities, some of them relevant to human groups, and compare them with simulations.Comment: 2 eps figs, Fig.2 changed to meet cond-mat size criteri

Self-organization of hierarchical structures in nonlocally coupled replicator models

We study a simple replicator model with non-symmetric and nonlocal interactions. Hierarchical structures with prey-predator relations are self-organized from a homogeneous state, induced by the dynamical instability of nonlinear interactions.Comment: 7 pages, 2 figure

"Quantum phase transitions" in classical nonequilibrium processes

Diffusion limited reaction of the Lotka-Volterra type is analyzed taking into account the discrete nature of the reactants. In the continuum approximation, the dynamics is dominated by an elliptic fixed-point. This fixed-point becomes unstable due to discretization effects, a scenario similar to quantum phase transitions. As a result, the long-time asymptotic behavior of the system changes and the dynamics flows into a limit cycle. The results are verified by numerical simulations.Comment: 9 pages, 3 figures include

Four-state rock-paper-scissors games on constrained Newman-Watts networks

We study the cyclic dominance of three species in two-dimensional constrained Newman-Watts networks with a four-state variant of the rock-paper-scissors game. By limiting the maximal connection distance $R_{max}$ in Newman-Watts networks with the long-rang connection probability $p$, we depict more realistically the stochastic interactions among species within ecosystems. When we fix mobility and vary the value of $p$ or $R_{max}$, the Monte Carlo simulations show that the spiral waves grow in size, and the system becomes unstable and biodiversity is lost with increasing $p$ or $R_{max}$. These results are similar to recent results of Reichenbach \textit{et al.} [Nature (London) \textbf{448}, 1046 (2007)], in which they increase the mobility only without including long-range interactions. We compared extinctions with or without long-range connections and computed spatial correlation functions and correlation length. We conclude that long-range connections could improve the mobility of species, drastically changing their crossover to extinction and making the system more unstable.Comment: 6 pages, 7 figure

Computational inference in systems biology

Parameter inference in mathematical models of biological pathways, expressed as coupled ordinary differential equations (ODEs), is a challenging problem. The computational costs associated with repeatedly solving the ODEs are often high. Aimed at reducing this cost, new concepts using gradient matching have been proposed. This paper combines current adaptive gradient matching approaches, using Gaussian processes, with a parallel tempering scheme, and conducts a comparative evaluation with current methods used for parameter inference in ODEs

Comprehending environmental and economic sustainability: Comparative analysis of stability principles in the biosphere and free market economy

Using the formalism of Lyapunov potential function it is shown that the stability principles for biomass in the ecosystem and for employment in economics are mathematically similar. The ecosystem is found to have a stable and an unstable stationary state with high (forest) and low (grasslands) biomass, respectively. In economics, there is a stable stationary state with high employment, which corresponds to mass production of conventional goods sold at low cost price, and an unstable stationary state with lower employment, which corresponds to production of novel goods appearing in the course of technological progress. An additional stable stationary state is described for economics, the one corresponding to very low employment in production of life essentials such as energy and raw materials. In this state the civilization currently pays 10% of global GDP for energy produced by a negligible minority of the working population (currently ~0.2%) and sold at prices greatly exceeding the cost price by 40 times. It is shown that economic ownership over energy sources is equivalent to equating measurable variables of different dimensions (stores and fluxes), which leads to effective violation of the laws of energy and matter conservation.Comment: 51 pages, 6 figure

A Group-Based Yule Model for Bipartite Author-Paper Networks

This paper presents a novel model for author-paper networks, which is based on the assumption that authors are organized into groups and that, for each research topic, the number of papers published by a group is based on a success-breeds-success model. Collaboration between groups is modeled as random invitations from a group to an outside member. To analyze the model, a number of different metrics that can be obtained in author-paper networks were extracted. A simulation example shows that this model can effectively mimic the behavior of a real-world author-paper network, extracted from a collection of 900 journal papers in the field of complex networks.Comment: 13 pages (preprint format), 7 figure

Power-law Distributions in Information Science - Making the Case for Logarithmic Binning

We suggest partial logarithmic binning as the method of choice for uncovering the nature of many distributions encountered in information science (IS). Logarithmic binning retrieves information and trends "not visible" in noisy power-law tails. We also argue that obtaining the exponent from logarithmically binned data using a simple least square method is in some cases warranted in addition to methods such as the maximum likelihood. We also show why often used cumulative distributions can make it difficult to distinguish noise from genuine features, and make it difficult to obtain an accurate power-law exponent of the underlying distribution. The treatment is non-technical, aimed at IS researchers with little or no background in mathematics.Comment: Accepted for publication in JASIS

Modes of Growth in Dynamic Systems

Regardless of a system's complexity or scale, its growth can be considered to be a spontaneous thermodynamic response to a local convergence of down-gradient material flows. Here it is shown how growth can be constrained to a few distinct modes that depend on the availability of material and energetic resources. These modes include a law of diminishing returns, logistic behavior and, if resources are expanding very rapidly, super-exponential growth. For a case where a system has a resolved sink as well as a source, growth and decay can be characterized in terms of a slightly modified form of the predator-prey equations commonly employed in ecology, where the perturbation formulation of these equations is equivalent to a damped simple harmonic oscillator. Thus, the framework presented here suggests a common theoretical under-pinning for emergent behaviors in the physical and life sciences. Specific examples are described for phenomena as seemingly dissimilar as the development of rain and the evolution of fish stocks.Comment: 16 pages, 6 figures, including appendi

Power laws, Pareto distributions and Zipf's law

When the probability of measuring a particular value of some quantity varies inversely as a power of that value, the quantity is said to follow a power law, also known variously as Zipf's law or the Pareto distribution. Power laws appear widely in physics, biology, earth and planetary sciences, economics and finance, computer science, demography and the social sciences. For instance, the distributions of the sizes of cities, earthquakes, solar flares, moon craters, wars and people's personal fortunes all appear to follow power laws. The origin of power-law behaviour has been a topic of debate in the scientific community for more than a century. Here we review some of the empirical evidence for the existence of power-law forms and the theories proposed to explain them.Comment: 28 pages, 16 figures, minor corrections and additions in this versio