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Biostatistics 2005 6(2):259-269; doi:10.1093/biostatistics/kxi007
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© The Author 2005. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oupjournals.org.

On the power for linkage detection using a test based on scan statistics

Sonia Hernández*

Department of Statistics, Universidad Rey Juan Carlos, C/Tulipán, s/n, 28933 Móstoles, Madrid, Spain

David O. Siegmund

Department of Statistics, Serra Mall, Sequoia Hall, Stanford University, Stanford, CA, USA

Mathisca de Gunst

Department of Mathematics, Vrije Universiteit, Amsterdam, and EURANDOM, PO Box 513-5600 MB Eindhoven, The Netherlands

* To whom correspondence should be addressed. shernandeza{at}escet.urjc.es

We analyze some aspects of scan statistics, which have been proposed to help for the detection of weak signals in genetic linkage analysis. We derive approximate expressions for the power of a test based on moving averages of the identity by descent allele sharing proportions for pairs of relatives at several contiguous markers. We confirm these approximate formulae by simulation. The results show that when there is a single trait-locus on a chromosome, the test based on the scan statistic is slightly less powerful than that based on the customary allele sharing statistic. On the other hand, if two genes having a moderate effect on a trait lie close to each other on the same chromosome, scan statistics improve power to detect linkage.

Keywords: Complex traits; Gaussian processes; Genetic linkage; Scan statistics; Score test


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