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

S. Hernandez, D.O. Siegmund, M.C.M. de Gunst

Research output: Contribution to JournalArticleAcademicpeer-review

Abstract

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.
Original languageEnglish
Pages (from-to)259-269
JournalBiostatistics
Volume6
Issue number2
DOIs
Publication statusPublished - 2005

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Scan Statistic
Linkage
Chromosome
Sharing
Linkage Analysis
Moving Average
Descent
Statistic
Locus
Proportion
Gene
Statistics
Simulation

Cite this

Hernandez, S. ; Siegmund, D.O. ; de Gunst, M.C.M. / On the power for linkage detection using a test based on scan statistics. In: Biostatistics. 2005 ; Vol. 6, No. 2. pp. 259-269.
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On the power for linkage detection using a test based on scan statistics. / Hernandez, S.; Siegmund, D.O.; de Gunst, M.C.M.

In: Biostatistics, Vol. 6, No. 2, 2005, p. 259-269.

Research output: Contribution to JournalArticleAcademicpeer-review

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AU - Siegmund, D.O.

AU - de Gunst, M.C.M.

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AB - 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.

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