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Permutation‐based adjustments for the significance of partial regression coefficients in microarray data analysis
Author(s) -
Wagner Brandie D.,
Zerbe Gary O.,
Mexal Sharon,
Leonard Sherry S.
Publication year - 2008
Publication title -
genetic epidemiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.301
H-Index - 98
eISSN - 1098-2272
pISSN - 0741-0395
DOI - 10.1002/gepi.20255
Subject(s) - permutation (music) , categorical variable , confounding , linear regression , microarray analysis techniques , regression analysis , statistics , mathematics , regression , covariate , resampling , biology , genetics , gene , gene expression , physics , acoustics
Abstract The aim of this paper is to generalize permutation methods for multiple testing adjustment of significant partial regression coefficients in a linear regression model used for microarray data. Using a permutation method outlined by Anderson and Legendre [1999] and the permutation P ‐value adjustment from Simon et al. [2004], the significance of disease related gene expression will be determined and adjusted after accounting for the effects of covariates, which are not restricted to be categorical. We apply these methods to a microarray dataset containing confounders and illustrate the comparisons between the permutation‐based adjustments and the normal theory adjustments. The application of a linear model is emphasized for data containing confounders and the permutation‐based approaches are shown to be better suited for microarray data. Genet. Epidemiol . 31, 2007. © 2007 Wiley‐Liss, Inc.