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Detecting two-locus gene-gene effects using monotonisation of the penetrance matrix

Susanne Henningsson ; Staffan Nilsson (Institutionen för matematiska vetenskaper, matematisk statistik)
Statistical Applications in Genetics and Molecular Biology (1544-6115). Vol. 7 (2008), 1,
[Artikel, refereegranskad vetenskaplig]

As more genetic loci are genotyped simultaneously and as the interest in effects of combinations of loci increases, the need for more powerful analysis methods is increased. In the present paper we present a method aimed at increasing the power of likelihood ratio tests for case-control studies investigating possible two-locus effects. The method is based on the notion that the expected effect pattern of one locus, as well as the expected pattern of a penetrance matrix representing the effect of two loci, is a monotone one. By using an algorithm for making the estimated penetrance matrix monotone, the alternative hypothesis is restricted to monotone penetrance matrices only. The evaluation of the likelihood ratio tests for several underlying monotone models shows that the power is substantially increased by using a monotone alternative as compared to when an unrestricted alternative is used.

Nyckelord: genome-wide association, strategies, heterosis, epistasis, models

Denna post skapades 2008-05-09. Senast ändrad 2015-01-16.
CPL Pubid: 70801


Institutioner (Chalmers)

Institutionen för neurovetenskap och fysiologi, sektionen för farmakologi (GU)
Institutionen för matematiska vetenskaper, matematisk statistik (2005-2016)


Tillämpad matematik

Chalmers infrastruktur