Results 1  10
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174
Genomic control for association studies
, 1999
"... A dense set of single nucleotide polymorphisms (SNP) covering the genome and an efficient method to assess SNP genotypes are expected to be available in the near future. An outstanding question is how to use these technologies efficiently to identify genes affecting liability to complex disorders. ..."
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Cited by 457 (12 self)
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A dense set of single nucleotide polymorphisms (SNP) covering the genome and an efficient method to assess SNP genotypes are expected to be available in the near future. An outstanding question is how to use these technologies efficiently to identify genes affecting liability to complex disorders. To achieve this goal, we propose a statistical method that has several optimal properties: It can be used with casecontrol data and yet, like familybased designs, controls for population heterogeneity; it is insensitive to the usual violations of model assumptions, such as cases failing to be strictly independent; and, by using Bayesian outlier methods, it circumvents the need for Bonferroni correction for multiple tests, leading to better performance in many settings while still constraining risk for false positives. The performance of our genomic control method is quite good for plausible effects of liability genes, which bodes well for future genetic analyses of complex disorders.
Classical and Bayesian inference in neuroimaging: Theory
 NeuroImage
, 2002
"... This paper reviews hierarchical observation models, used in functional neuroimaging, in a Bayesian light. It emphasizes the common ground shared by classical and Bayesian methods to show that conventional analyses of neuroimaging data can be usefully extended within an empirical Bayesian framework. ..."
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Cited by 169 (41 self)
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This paper reviews hierarchical observation models, used in functional neuroimaging, in a Bayesian light. It emphasizes the common ground shared by classical and Bayesian methods to show that conventional analyses of neuroimaging data can be usefully extended within an empirical Bayesian framework. In particular we formulate the procedures used in conventional data analysis in terms of hierarchical linear models and establish a connection between classical inference and parametric empirical Bayes (PEB) through covariance component estimation. This estimation is based on an expectation maximization or EM algorithm. The key point is that hierarchical models not only provide for appropriate inference at the highest level but that one can revisit lower levels suitably
Learning classification trees
 Statistics and Computing
, 1992
"... Algorithms for learning cIassification trees have had successes in artificial intelligence and statistics over many years. This paper outlines how a tree learning algorithm can be derived using Bayesian statistics. This iutroduces Bayesian techniques for splitting, smoothing, and tree averaging. T ..."
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Cited by 145 (8 self)
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Algorithms for learning cIassification trees have had successes in artificial intelligence and statistics over many years. This paper outlines how a tree learning algorithm can be derived using Bayesian statistics. This iutroduces Bayesian techniques for splitting, smoothing, and tree averaging. The splitting rule is similar to QuinIan’s information gain, while smoothing and averaging replace pruning. Comparative experiments with reimplementations of a minimum encoding approach, Quinlan’s C4 (1987) and Breiman et aL’s CART (1984) show the full Bayesian algorithm produces more accurate predictions than versions
Bayesian approaches to gaussian mixture modelling
 IEEE Trans. Pattern Anal. Mach. Intell
, 1998
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A tutorial introduction to the minimum description length principle
 in Advances in Minimum Description Length: Theory and Applications. 2005
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The Theoretical Status of Latent Variables
 Psychological Review
, 2003
"... This article examines the theoretical status of latent variables as used in modern test theory models. First, it is argued that a consistent interpretation of such models requires a realist ontology for latent variables. Second, the relation between latent variables and their indicators is discussed ..."
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Cited by 92 (7 self)
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This article examines the theoretical status of latent variables as used in modern test theory models. First, it is argued that a consistent interpretation of such models requires a realist ontology for latent variables. Second, the relation between latent variables and their indicators is discussed. It is maintained that this relation can be interpreted as a causal one but that in measurement models for interindividual differences the relation does not apply to the level of the individual person. To substantiate intraindividual causal conclusions, one must explicitly represent individual level processes in the measurement model. Several research strategies that may be useful in this respect are discussed, and a typology of constructs is proposed on the basis of this analysis. The need to link individual processes to latent variable models for interindividual differences is emphasized. Consider the following sentence: “Einstein would not have been able to come up with his e � mc 2 had he not possessed such an extraordinary intelligence. ” What does this sentence express? It relates observable behavior (Einstein’s writing e � mc 2)toan unobservable attribute (his extraordinary intelligence), and it does so by assigning to the unobservable attribute a causal role in
Statistical Inference, Occam’s Razor, and Statistical Mechanics on the Space of Probability Distributions
, 1997
"... The task of parametric model selection is cast in terms of a statistical mechanics on the space of probability distributions. Using the techniques of lowtemperature expansions, I arrive at a systematic series for the Bayesian posterior probability of a model family that significantly extends known ..."
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Cited by 77 (3 self)
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The task of parametric model selection is cast in terms of a statistical mechanics on the space of probability distributions. Using the techniques of lowtemperature expansions, I arrive at a systematic series for the Bayesian posterior probability of a model family that significantly extends known results in the literature. In particular, I arrive at a precise understanding of how Occam’s razor, the principle that simpler models should be preferred until the data justify more complex models, is automatically embodied by probability theory. These results require a measure on the space of model parameters and I derive and discuss an interpretation of Jeffreys ’ prior distribution as a uniform prior over the distributions indexed by a family. Finally, I derive a theoretical index of the complexity of a parametric family relative to some true distribution that I call the razor of the model. The form of the razor immediately suggests several interesting questions in the theory of learning that can be studied using the techniques of statistical mechanics.
Integrating experiential and distributional data to learn semantic representations
 Psychological Review
, 2009
"... The authors identify 2 major types of statistical data from which semantic representations can be learned. These are denoted as experiential data and distributional data. Experiential data are derived by way of experience with the physical world and comprise the sensorymotor data obtained through s ..."
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Cited by 64 (4 self)
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The authors identify 2 major types of statistical data from which semantic representations can be learned. These are denoted as experiential data and distributional data. Experiential data are derived by way of experience with the physical world and comprise the sensorymotor data obtained through sense receptors. Distributional data, by contrast, describe the statistical distribution of words across spoken and written language. The authors claim that experiential and distributional data represent distinct data types and that each is a nontrivial source of semantic information. Their theoretical proposal is that human semantic representations are derived from an optimal statistical combination of these 2 data types. Using a Bayesian probabilistic model, they demonstrate how word meanings can be learned by treating experiential and distributional data as a single joint distribution and learning the statistical structure that underlies it. The semantic representations that are learned in this manner are measurably more realistic—as verified by comparison to a set of humanbased measures of semantic representation—than those available from either data type individually or from both sources independently. This is not a result of merely using quantitatively more data, but rather it is because experiential and distributional data are qualitatively distinct, yet intercorrelated, types of data. The semantic representations that are learned are based on statistical structures that exist both within and between the experiential and distributional data types.
Extended ensemble Monte Carlo
 Int. J. Mod. Phys
, 2001
"... “Extended Ensemble Monte Carlo ” is a generic term that indicates a set of algorithms which are now popular in a variety of fields in physics and statistical information processing. Exchange Monte Carlo (MetropolisCoupled Chain, Parallel Tempering), Simulated Tempering (Expanded Ensemble Monte Carl ..."
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Cited by 50 (2 self)
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“Extended Ensemble Monte Carlo ” is a generic term that indicates a set of algorithms which are now popular in a variety of fields in physics and statistical information processing. Exchange Monte Carlo (MetropolisCoupled Chain, Parallel Tempering), Simulated Tempering (Expanded Ensemble Monte Carlo), and Multicanonical Monte Carlo (Adaptive Umbrella Sampling) are typical members of this family. Here we give a crossdisciplinary survey of these algorithms with special emphasis on the great flexibility of the underlying idea. In Sec. 2, we discuss the background of Extended Ensemble Monte Carlo. In Sec. 3, 4 and 5, three types of the algorithms, i.e., Exchange Monte Carlo, Simulated Tempering, Multicanonical Monte Carlo, are introduced. In Sec. 6, we give an introduction to Replica Monte Carlo algorithm by Swendsen and Wang. Strategies for the construction of specialpurpose extended ensembles are discussed in Sec. 7. We stress