Asymptotic test of mixture model and its applications to QTL interval mapping

Quantitative trait loci (QTL) mapping has been a standard means in identifying genetic regions harboring potential genes underlying complex traits. Likelihood ratio test (LRT) has been commonly applied to assess the significance of a genetic locus in a mixture model content. Given the time constraint in commonly used permutation tests to assess the significance of LRT in QTL mapping, we study the behavior of the LRT statistic in mixture model when the proportions of the distributions are unknown. We found that the asymptotic null distribution is stationary Gaussian process after suitable transformation. The result can be applied to one-parameter exponential family mixture model. Under certain condition, such as in a backcross mapping model, the tail probability of the supremum of the process is calculated and the threshold values can be determined by solving the distribution function. Simulation studies were performed to evaluate the asymptotic results.     

On stochastic processes for quantitative trait locus mapping under selective genotyping

We consider the likelihood ratio test (LRT) process related to the test of the absence of QTL (a QTL denotes a quantitative trait locus, i.e. a gene with quantitative effect on a trait) on the interval [0, T] representing a chromosome. The originality of this study is that we are under selective genotyping: only the individuals with extreme phenotypes are genotyped. We give the asymptotic distribution of this LRT process under the null hypothesis that there is no QTL on [0, T] and under local alternatives with a QTL at t^☆ on [0, T]. We show that the LRT process is asymptotically the square of a ‘non-linear interpolated and normalized Gaussian process’. We have an easy formula in order to compute the supremum of the square of this interpolated process. We prove that we have to genotype symmetrically and that the threshold is exactly the same as in the situation where all the individuals are genotyped.     

Asymptotic properties of likelihood ratio test statistics in affected‐sib‐pair analysis

In an affected‐sib‐pair genetic linkage analysis, identical by descent data for affected sib pairs are routinely collected at a large number of markers along chromosomes. Under very general genetic assumptions, the IBD distribution at each marker satisfies the possible triangle constraint. Statistical analysis of IBD data should thus utilize this information to improve efficiency. At the same time, this constraint renders the usual regularity conditions for likelihood‐based statistical methods unsatisfied. In this paper, the authors study the asymptotic properties of the likelihood ratio test (LRT) under the possible triangle constraint. They derive the limiting distribution of the LRT statistic based on data from a single locus. They investigate the precision of the asymptotic distribution and the power of the test by simulation. They also study the test based on the supremum of the LRT statistics over the markers distributed throughout a chromosome. Instead of deriving a limiting distribution for this test, they use a mixture of chi‐squared distributions to approximate its true distribution. Their simulation results show that this approach has desirable simplicity and satisfactory precision.     

A modified likelihood ratio test for homogeneity in finite mixture models

Testing for homogeneity in finite mixture models has been investigated by many researchers. The asymptotic null distribution of the likelihood ratio test (LRT) is very complex and difficult to use in practice. We propose a modified LRT for homogeneity in finite mixture models with a general parametric kernel distribution family. The modified LRT has a χ-type of null limiting distribution and is asymptotically most powerful under local alternatives. Simulations show that it performs better than competing tests. They also reveal that the limiting distribution with some adjustment can satisfactorily approximate the quantiles of the test statistic, even for moderate sample sizes.     

Test for homogeneity in Hardy–Weinberg normal mixture model

The phenotype of a quantitative trait locus (QTL) is often modeled by a finite mixture of normal distributions. If the QTL effect depends on the number of copies of a specific allele one carries, then the mixture model has three components. In this case, the mixing proportions have a binomial structure according to the Hardy–Weinberg equilibrium. In the search for QTL, a significance test of homogeneity against the Hardy–Weinberg normal mixture model alternative is an important first step. The LOD score method, a likelihood ratio test used in genetics, is a favored choice. However, there is not yet a general theory for the limiting distribution of the likelihood ratio statistic in the presence of unknown variance. This paper derives the limiting distribution of the likelihood ratio statistic, which can be described by the supremum of a quadratic form of a Gaussian process. Further, the result implies that the distribution of the modified likelihood ratio statistic is well approximated by a chi-squared distribution. Simulation results show that the approximation has satisfactory precision for the cases considered. We also give a real-data example.     

A modified likelihood ratio test for the mean direction in the von mises distribution

The likelihood ratio test (LRT) for the mean direction in the von Mises distribution is modified for possessing a common asymptotic distribution both for large sample size and for large concentration parameter. The test statistic of the modified LRT is compared with the F distribution but not with the chi-square distribution usually employed, Good performances of the modified LRT are shown by analytical studies and Monte Carlo simulation studies, A notable advantage of the test is that it takes part in the unified likelihood inference procedures including both the marginal MLE and the marginal LRT for the concentration parameter.     

The equivalence between likelihood ratio test and F-test for testing variance component in a balanced one-way random effects model

In mixed linear models, it is frequently of interest to test hypotheses on the variance components. F-test and likelihood ratio test (LRT) are commonly used for such purposes. Current LRTs available in literature are based on limiting distribution theory. With the development of finite sample distribution theory, it becomes possible to derive the exact test for likelihood ratio statistic. In this paper, we consider the problem of testing null hypotheses on the variance component in a one-way balanced random effects model. We use the exact test for the likelihood ratio statistic and compare the performance of F-test and LRT. Simulations provide strong support of the equivalence between these two tests. Furthermore, we prove the equivalence between these two tests mathematically.     

Likelihood Ratio Testing for Hidden Markov Models Under Non-standard Conditions

Abstract.  In practical applications, when testing parametric restrictions for hidden Markov models (HMMs), one frequently encounters non-standard situations such as testing for zero entries in the transition matrix, one-sided tests for the parameters of the transition matrix or for the components of the stationary distribution of the underlying Markov chain, or testing boundary restrictions on the parameters of the state-dependent distributions. In this paper, we briefly discuss how the relevant asymptotic distribution theory for the likelihood ratio test (LRT) when the true parameter is on the boundary extends from the independent and identically distributed situation to HMMs. Then we concentrate on discussing a number of relevant examples. The finite-sample performance of the LRT in such situations is investigated in a simulation study. An application to series of epileptic seizure counts concludes the paper.     

Limiting distributions of MLE and UMVUE in the biparametric uniform distribution

In this paper, we study the asymptotic distributions of MLE and UMVUE of a parametric functionh(θ₁, θ₂) when sampling from a biparametric uniform distributionU(θ₁, θ₂). We obtain both limiting distributions as a convolution of exponential distributions, and we observe that the limiting distribution of UMVUE is a shift of the limiting distribution of MLE.     

Asymptotic Likelihood Based Inference for Co-integrated Homogenous Gaussian Diffusions

In this paper we consider inference for a multivariate Gaussian homogenous diffusion which is co-integrated, i.e. admits a representation in terms of stable relations (ergodic diffusions) plus Brownian motions. We show that inference on co-integration rank (the number of stable relations) in continuous time can be based on existing asymptotic distributions from discrete time co-integration analysis. Likewise the asymptotic distributions of the co-integration parameters are shown to be mixed Gaussian. Special attention is given to the parametrization of the drift terms. It is shown that the asymptotic distribution of the co-integration rank test statistic does not depend on the level of the process as a result of the chosen parametrization.     

Asymptotic joint distribution of sample quantiles and sample mean with applications

Based on a sample from an absolutely continuous distribution F with density f, and with the aid of the Bahadur (Ann. Math. Statist. 37( 1966 ), 577-580) representation of sample quantiles, the asymptotic joint distribution of three statistics, the sample p^th and q^th quantiles (0 < p < q < l) and the sample mean, is obtained. Using the Cramer-Wold device, asymptotic distributions of functions of the three statistics can be derived. In particular, the asymptotic joint distribution of the ratio of sample p^th quantile to sample mean and the ratio of sample q^th quantile to sample mean is presented. Finally, consistent estimators are proposed for the variances and covariances of these limiting distributions.     

Further Results on the Limiting Distribution of GMM Sample Moment Conditions

In this article, we examine the limiting behavior of generalized method of moments (GMM) sample moment conditions and point out an important discontinuity that arises in their asymptotic distribution. We show that the part of the scaled sample moment conditions that gives rise to degeneracy in the asymptotic normal distribution is T-consistent and has a nonstandard limiting distribution. We derive the appropriate asymptotic (weighted chi-squared) distribution when this degeneracy occurs and show how to conduct asymptotically valid statistical inference. We also propose a new rank test that provides guidance on which (standard or nonstandard) asymptotic framework should be used for inference. The finite-sample properties of the proposed asymptotic approximation are demonstrated using simulated data from some popular asset pricing models.     

Goodness-of-fit test for uniform stochastic ordering among several distributions

The likelihood-ratio test (LRT) is considered as a goodness-of-fit test for the null hypothesis that several distribution functions are uniformly stochastically ordered. Under the null hypothesis, H₁ : F₁ ? F₂ ?···? F_N, the asymptotic distribution of the LRT statistic is a convolution of several chi-bar-square distributions each of which depends upon the location parameter. The least-favourable parameter configuration for the LRT is not unique. It can be two different types and depends on the number of distributions, the number of intervals and the significance level α. This testing method is illustrated with a data set of survival times of five groups of male fruit flies.     

Bootstrapping quantiles in a fixed design regression model with censored data

We consider the problem of estimating the quantiles of a distribution function in a fixed design regression model in which the observations are subject to random right censoring. The quantile estimator is defined via a conditional Kaplan-Meier type estimator for the distribution at a given design point. We establish an a.s. asymptotic representation for this quantile estimator, from which we obtain its asymptotic normality. Because a complicated estimation procedure is necessary for estimating the asymptotic bias and variance, we use a resampling procedure, which provides us, via an asymptotic representation for the bootstrapped estimator, with an alternative for the normal approximation.     

Some moment properties and limit theorems of the reversed generalized logistic distribution with applications

In this paper we discuss an extended form of the logistic distribution and refer to it as the reversed generalized logistic distribution. We study some moment properties, and derive exact and explicit formulas for the mean, median, mode, variance, coefficients of skewness and kurtosis, and percentage points of this distribution. In addition, we study its limiting distributions as the shape parameter tends to zero or infinity. We also discuss some possible applications in bioassays through logistic regression approach.     

Inferential properties of an individual-based survival model using release-recapture data: Sample size,validity and power

A model for analyzing release-recapture data is presented that generalizes a previously existing individual covariate model to include multiple groups of animals. As in the previous model, the generalized version includes selection parameters that relate individual covariates to survival potential. Significance of the selection parameters was equivalent to significance of the individual covariates. Simulation studies were conducted to investigate three inferential properties with respect to the selection parameters: (1) sample size requirements, (2) validity of the likelihood ratio test (LRT) and (3) power of the LRT. When the survival and capture probabilities ranged from 0.5 to 1.0, a total sample size of 300 was necessary to achieve a power of 0.80 at a significance level of 0.1 when testing the significance of the selection parameters. However, only half that (a total of 150) was necessary for the distribution of the maximum likelihood estimators of the selection parameters to approximate their asymptotic distributions. In general, as the survival and capture probabilities decreased, the sample size requirements increased. The validity of the LRT for testing the significance of the selection parameters was confirmed because the LRT statistic was distributed as theoretically expected under the null hypothesis, i.e. like a chi 2 random variable. When the baseline survival model was fully parameterized with population and interval effects, the LRT was also valid in the presence of unaccounted for random variation. The power of the LRT for testing the selection parameters was unaffected by over-parameterization of the baseline survival and capture models. The simulation studies showed that for testing the significance of individual covariates to survival the LRT was remarkably robust to assumption violations.     

Inferential properties of an individual-based survival model using release-recapture data: sample size, validity and power

A model for analyzing release-recapture data is presented that generalizes a previously existing individual covariate model to include multiple groups of animals. As in the previous model, the generalized version includes selection parameters that relate individual covariates to survival potential. Significance of the selection parameters was equivalent to significance of the individual covariates. Simulation studies were conducted to investigate three inferential properties with respect to the selection parameters: (1) sample size requirements, (2) validity of the likelihood ratio test (LRT) and (3) power of the LRT. When the survival and capture probabilities ranged from 0.5 to 1.0, a total sample size of 300 was necessary to achieve a power of 0.80 at a significance level of 0.1 when testing the significance of the selection parameters. However, only half that (a total of 150) was necessary for the distribution of the maximum likelihood estimators of the selection parameters to approximate their asymptotic distributions. In general, as the survival and capture probabilities decreased, the sample size requirements increased. The validity of the LRT for testing the significance of the selection parameters was confirmed because the LRT statistic was distributed as theoretically expected under the null hypothesis, i.e. like a chi 2 random variable. When the baseline survival model was fully parameterized with population and interval effects, the LRT was also valid in the presence of unaccounted for random variation. The power of the LRT for testing the selection parameters was unaffected by over-parameterization of the baseline survival and capture models. The simulation studies showed that for testing the significance of individual covariates to survival the LRT was remarkably robust to assumption violations.     

Discriminating between the Weibull and log-normal distributions for Type-II censored data

Log-normal and Weibull distributions are the two most popular distributions for analysing lifetime data. In this paper, we consider the problem of discriminating between the two distribution functions. It is assumed that the data are coming either from log-normal or Weibull distributions and that they are Type-II censored. We use the difference of the maximized log-likelihood functions, in discriminating between the two distribution functions. We obtain the asymptotic distribution of the discrimination statistic. It is used to determine the probability of correct selection in this discrimination process. We perform some simulation studies to observe how the asymptotic results work for different sample sizes and for different censoring proportions. It is observed that the asymptotic results work quite well even for small sizes if the censoring proportions are not very low. We further suggest a modified discrimination procedure. Two real data sets are analysed for illustrative purposes.     

Multivariate hypothesis testing using generalized and {2}-inverses – with applications

The use of generalized inverses in Wald's-type quadratic forms of test statistics having singular normal limiting distributions does not guarantee to obtain chi-square limiting distributions. In this article, the use of {2} -inverses for that problem is investigated. Alternatively, Imhof-based test statistics can also be defined, which converge in distribution to weighted sum of chi-square variables. The asymptotic distributions of these test statistics under the null and alternative hypotheses are discussed. Under fixed and local alternatives, the asymptotic powers are compared theoretically. Simulation studies are also performed to compare the exact powers of the test statistics in finite samples. A data analysis on the temperature and precipitation variability in the European Alps illustrates the proposed methods.