Complexity control in a mixture model by the Hardy-Weinberg equilibrium

Ella Bingham, Heikki Mannila

    Research output: Contribution to journalArticleScientificpeer-review

    Abstract

    A method of complexity control in multinomial mixture modeling of multiple-marker genotype data, imposing the Hardy-Weinberg equilibrium (HWE) between the genotype values, is studied. This is a very natural restriction, and known to hold at population level under modest assumptions. The hypothesis under study is that imposing this restriction will prevent overfitting and lead to a better model. This is shown to indeed be case. Experimental results an chromosomes 1 and 17 of the HapMap data demonstrate that the restricted model generalizes better to unseen data, and also finds clusters that correspond better to the ethnic groups of the HapMap, when compared with a model without the HWE restriction. (C) 2008 Elsevier B.V. All rights reserved.
    Original languageEnglish
    JournalComputational Statistics & Data Analysis
    Volume53
    Issue number5
    Pages (from-to)1711-1719
    Number of pages9
    ISSN0167-9473
    DOIs
    Publication statusPublished - 2009
    MoE publication typeA1 Journal article-refereed

    Fields of Science

    • 113 Computer and information sciences

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