Biomaterial Database

Testing Variance Components in Linear Mixed Modeling Using Permutation. 2020

Han Du, and Lijuan Wang

Department of Psychology, University of California, Los Angeles, Los Angeles, California, USA.

Inference of variance components in linear mixed modeling (LMM) provides evidence of heterogeneity between individuals or clusters. When only nonnegative variances are allowed, there is a boundary (i.e., 0) in the variances' parameter space, and regular inference statistical procedures for such a parameter could be problematic. The goal of this article is to introduce a practically feasible permutation method to make inferences about variance components while considering the boundary issue in LMM. The permutation tests with different settings (i.e., constrained vs. unconstrained estimation, specific vs. generalized test, different ways of calculating p values, and different ways of permutation) were examined with both normal data and non-normal data. In addition, the permutation tests were compared to likelihood ratio (LR) tests with a mixture of chi-squared distributions as the reference distribution. We found that the unconstrained permutation test with the one-sided p-value approach performed better than the other permutation tests and is a useful alternative when the LR tests are not applicable. An R function is provided to facilitate the implementation of the permutation tests, and a real data example is used to illustrate the application. We hope our results will help researchers choose appropriate tests when testing variance components in LMM.

UI	MeSH Term	Description	Entries
D006801	Humans	Members of the species Homo sapiens.	Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D015233	Models, Statistical	Statistical formulations or analyses which, when applied to data and found to fit the data, are then used to verify the assumptions and parameters used in the analysis. Examples of statistical models are the linear model, binomial model, polynomial model, two-parameter model, etc.	Probabilistic Models,Statistical Models,Two-Parameter Models,Model, Statistical,Models, Binomial,Models, Polynomial,Statistical Model,Binomial Model,Binomial Models,Model, Binomial,Model, Polynomial,Model, Probabilistic,Model, Two-Parameter,Models, Probabilistic,Models, Two-Parameter,Polynomial Model,Polynomial Models,Probabilistic Model,Two Parameter Models,Two-Parameter Model
D016014	Linear Models	Statistical models in which the value of a parameter for a given value of a factor is assumed to be equal to a + bx, where a and b are constants. The models predict a linear regression.	Linear Regression,Log-Linear Models,Models, Linear,Linear Model,Linear Regressions,Log Linear Models,Log-Linear Model,Model, Linear,Model, Log-Linear,Models, Log-Linear,Regression, Linear,Regressions, Linear
D056808	Biostatistics	The application of STATISTICS to biological systems and organisms involving the retrieval or collection, analysis, reduction, and interpretation of qualitative and quantitative data.	Biological Statistics,Biological Statistic,Statistic, Biological,Statistics, Biological
D018709	Statistics, Nonparametric	A class of statistical methods applicable to a large set of probability distributions used to test for correlation, location, independence, etc. In most nonparametric statistical tests, the original scores or observations are replaced by another variable containing less information. An important class of nonparametric tests employs the ordinal properties of the data. Another class of tests uses information about whether an observation is above or below some fixed value such as the median, and a third class is based on the frequency of the occurrence of runs in the data. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed, p1284; Corsini, Concise Encyclopedia of Psychology, 1987, p764-5)	Kolmogorov-Smirnov Test,Kruskal-Wallis H Statistic,Mann-Whitney U Test,Rank-Sum Tests,Spearman Rank Correlation Coefficient,Wilcox Test,Wilcoxon Rank Test,Non-Parametric Statistics,Nonparametric Statistics,Statistics, Non-Parametric,Kolmogorov Smirnov Test,Mann Whitney U Test,Non Parametric Statistics,Rank Sum Tests,Rank Test, Wilcoxon,Rank-Sum Test,Statistics, Non Parametric,Test, Kolmogorov-Smirnov,Test, Mann-Whitney U,Test, Rank-Sum,Test, Wilcox,Test, Wilcoxon Rank,Tests, Rank-Sum,U Test, Mann-Whitney
D035841	Behavioral Research	Research that involves the application of the behavioral and social sciences to the study of the actions or reactions of persons or animals in response to external or internal stimuli. (from American Heritage Dictionary, 4th ed)	Research, Behavioral