Modifying the Schwarz Bayesian information criterion to locate multiple interacting quantitative trait loci

Bogdan, Malgorzata ; Ghosh, Jayanta K. ; Doerge, R. W. (2004) Modifying the Schwarz Bayesian information criterion to locate multiple interacting quantitative trait loci Genetics, 167 . pp. 989-999. ISSN 0016-6731

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Official URL: http://www.genetics.org/cgi/content/abstract/167/2...

Related URL: http://dx.doi.org/10.1534/genetics.103.021683

Abstract

The problem of locating multiple interacting quantitative trait loci (QTL) can be addressed as a multiple regression problem, with marker genotypes being the regressor variables. An important and difficult part in fitting such a regression model is the estimation of the QTL number and respective interactions. Among the many model selection criteria that can be used to estimate the number of regressor variables, none are used to estimate the number of interactions. Our simulations demonstrate that epistatic terms appearing in a model without the related main effects cause the standard model selection criteria to have a strong tendency to overestimate the number of interactions, and so the QTL number. With this as our motivation we investigate the behavior of the Schwarz Bayesian information criterion (BIC) by explaining the phenomenon of the overestimation and proposing a novel modification of BIC that allows the detection of main effects and pairwise interactions in a backcross population. Results of an extensive simulation study demonstrate that our modified version of BIC performs very well in practice. Our methodology can be extended to general populations and higher-order interactions.

Item Type:Article
Source:Copyright of this article belongs to Genetics Society of America.
ID Code:22509
Deposited On:24 Nov 2010 08:27
Last Modified:17 May 2016 06:32

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