A comparison of efficient permutation tests for unbalanced ANOVA in two by two designs--and their behavior under heteroscedasticity

We compare different permutation tests and some parametric counterparts that are applicable to unbalanced designs in two by two designs. First the different approaches are shortly summarized. Then we investigate the behavior of the tests in a simulation study. A special focus is on the behavior of the tests under heteroscedastic variances.Comment: 20 pages, 9 figures, Working Paper of the Department of Management And Enigineering of the University of Padov

Quantum computation and the physical computation level of biological information processing

On the basis of introspective analysis, we establish a crucial requirement for the physical computation basis of consciousness: it should allow processing a significant amount of information together at the same time. Classical computation does not satisfy the requirement. At the fundamental physical level, it is a network of two body interactions, each the input-output transformation of a universal Boolean gate. Thus, it cannot process together at the same time more than the three bit input of this gate - many such gates in parallel do not count since the information is not processed together. Quantum computation satisfies the requirement. At the light of our recent explanation of the speed up, quantum measurement of the solution of the problem is analogous to a many body interaction between the parts of a perfect classical machine, whose mechanical constraints represent the problem to be solved. The many body interaction satisfies all the constraints together at the same time, producing the solution in one shot. This shades light on the physical computation level of the theories that place consciousness in quantum measurement and explains how informations coming from disparate sensorial channels come together in the unity of subjective experience. The fact that the fundamental mechanism of consciousness is the same of the quantum speed up, gives quantum consciousness a potentially enormous evolutionary advantage.Comment: 13 page

Potential loss of nutrients from different rearing strategies for fattening pigs on pasture

Nutrient load and distribution on pasture were investigated with fattening pigs that: 1) spend a proportion of or their entire life on pasture, 2) were fed either restrictively or ad libitum, and 3) were weaned at different times of the year. The N and P retention in pigs decreased the longer they were kept on pasture. The contents of soil inorganic N and exchangeable K were significantly raised compared to the soil outside the enclosures but with no differences between treatments. Pig grazing did not affect extractable soil P. Regular moving of huts, feeding and water troughs was effective in ensuring that nutrients were more evenly distributed on the paddocks. Grass cover, as determined by spectral reflectance, was not related to the experimental treatments but only to time of year. During spring and summer, grass was present in parts of the paddocks, whereas during autumn and winter the pigs kept grass cover below 10%. Fattening pigs on pasture carries a high risk of nutrient loss and it is concluded that the most environmentally acceptable way of keeping fattening pigs on pasture involves a combination of reduced dietary N intake, reduced stocking rate and seasonal rather than all year production

Analysis of Gene Sets Based on the Underlying Regulatory Network

Networks are often used to represent the interactions among genes and proteins. These interactions are known to play an important role in vital cell functions and should be included in the analysis of genes that are differentially expressed. Methods of gene set analysis take advantage of external biological information and analyze a priori defined sets of genes. These methods can potentially preserve the correlation among genes; however, they do not directly incorporate the information about the gene network. In this paper, we propose a latent variable model that directly incorporates the network information. We then use the theory of mixed linear models to present a general inference framework for the problem of testing the significance of subnetworks. Several possible test procedures are introduced and a network based method for testing the changes in expression levels of genes as well as the structure of the network is presented. The performance of the proposed method is compared with methods of gene set analysis using both simulation studies, as well as real data on genes related to the galactose utilization pathway in yeast.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/78147/1/cmb.2008.0081.pd

Robust Henderson III estimators of variance components in the nested error model

Common methods for estimating variance components in Linear Mixed Models include Maximum Likelihood (ML) and Restricted Maximum Likelihood (REML). These methods are based on the strong assumption of multivariate normal distribution and it is well know that they are very sensitive to outlying observations with respect to any of the random components. Several robust altematives of these methods have been proposed (e.g. Fellner 1986, Richardson and Welsh 1995). In this work we present several robust alternatives based on the Henderson method III which do not rely on the normality assumption and provide explicit solutions for the variance components estimators. These estimators can later be used to derive robust estimators of regression coefficients. Finally, we describe an application of this procedure to small area estimation, in which the main target is the estimation of the means of areas or domains when the within-area sample sizes are small

The making of English cricket cultures: Empire, globalization and (post) colonialism

The aim of this article is to understand how English cricket cultures have been made, negotiated and, ultimately, resisted in the context of (post) colonialism. I draw upon research undertaken with white and British Asian cricketers in Yorkshire to identify the place and significance of cricket within the everyday lives of British Asian communities. Over the last decade the number of British Asian cricketers progressing into the upper echelons of the game (mainly the English County Championship) has increased. Many within the game (mainly white people) have used these figures to argue that English cricket is now 'colour blind'. However, I argue that representation is not the equivalent to acceptance and integration, and present evidence to suggest that racial prejudice and discrimination, not to mention inaccurate and essentialized cultural stereotypes of British Asian cricketers, remain firmly and routinely embedded in aspects of the sport at all levels. I argue that the ability of British Asians to resist the hegemonic structures of white 'Englishness', by asserting their own distinctive post-colonial identities in cricket, is paramount to their everyday negotiations of power and racism. © 2011 Taylor & Francis

Effects of rapid prey evolution on predator-prey cycles

We study the qualitative properties of population cycles in a predator-prey system where genetic variability allows contemporary rapid evolution of the prey. Previous numerical studies have found that prey evolution in response to changing predation risk can have major quantitative and qualitative effects on predator-prey cycles, including: (i) large increases in cycle period, (ii) changes in phase relations (so that predator and prey are cycling exactly out of phase, rather than the classical quarter-period phase lag), and (iii) "cryptic" cycles in which total prey density remains nearly constant while predator density and prey traits cycle. Here we focus on a chemostat model motivated by our experimental system [Fussmann et al. 2000,Yoshida et al. 2003] with algae (prey) and rotifers (predators), in which the prey exhibit rapid evolution in their level of defense against predation. We show that the effects of rapid prey evolution are robust and general, and furthermore that they occur in a specific but biologically relevant region of parameter space: when traits that greatly reduce predation risk are relatively cheap (in terms of reductions in other fitness components), when there is coexistence between the two prey types and the predator, and when the interaction between predators and undefended prey alone would produce cycles. Because defense has been shown to be inexpensive, even cost-free, in a number of systems [Andersson and Levin 1999, Gagneux et al. 2006,Yoshida et al. 2004], our discoveries may well be reproduced in other model systems, and in nature. Finally, some of our key results are extended to a general model in which functional forms for the predation rate and prey birth rate are not specified.Comment: 35 pages, 8 figure

Ordering and Fluctuation of Orbital and Lattice Distortion in Perovskite Manganese Oxides

Roles of orbital and lattice degrees of freedom in strongly correlated systems are investigated to understand electronic properties of perovskite Mn oxides such as La_{1-x}Sr_{x}MnO_{3}. An extended double-exchange model containing Coulomb interaction, doubly degenerate orbitals and Jahn-Teller coupling is derived under full polarization of spins with two-dimensional anisotropy. Quantum fluctuation effects of Coulomb interaction and orbital degrees of freedom are investigated by using the quantum Monte Carlo method. In undoped states, it is crucial to consider both the Coulomb interaction and the Jahn-Teller coupling in reproducing characteristic hierarchy of energy scales among charge, orbital-lattice and spin degrees of freedom in experiments. Our numerical results quantitatively reproduce the charge gap amplitude as well as the stabilization energy and the amplitude of the cooperative Jahn-Teller distortion in undoped compounds. Upon doping of carriers, in the absence of the Jahn-Teller distortion, critical enhancement of both charge compressibility and orbital correlation length is found with decreasing doping concentration. These are discussed as origins of strong incoherence in charge dynamics. With the Jahn-Teller coupling in the doped region, collapse of the Jahn-Teller distortion and instability to phase separation are obtained and favorably compared with experiments. These provide a possible way to understand the complicated properties of lightly doped manganites.Comment: 22 pages RevTeX including 25 PS figures, submitted to Phys.Rev.B, replaced version; two figures are replaced by Fig.17 with minor changes in the tex