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J Agric Biol Environ Stat. 2010 Dec;15(4):474-490.

Neutral Zone Classifiers Using a Decision-Theoretic Approach With Application to DNA Array Analyses.

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  • 1Amgen, Inc., One Amgen Center Drive, Thousand Oaks, CA 91320-1799, USA.

Abstract

Two-class neutral zone classifiers were recently proposed for use in microbial community profiling applications. These classifiers allow a region of neutrality for cases where probe hybridization outcomes are too ambiguous to have adequate confidence in assigning a "binding" or "no binding" result. In this paper, we generalize the idea of neutral zone classifiers to an arbitrary number of classes and apply it to improve the process of microbial community profiling by considering a third class for the outcome of probe hybridization experiments, "partial binding." We introduce a family of class distributions that uses a mixture of Gaussian distributions as a model for a Box-Cox power transformation of the raw intensity measurements. Stratified cross-validation analyses are used to assess the efficacy of the proposed three-class neutral zone classifier. This article has supplementary material online.

PMID:
21769245
[PubMed]
PMCID:
PMC3137885
Free PMC Article
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