Detecting gene-gene interactions using affected sib pair analysis with covariates

Holmans, Peter Alan ORCID: https://orcid.org/0000-0003-0870-9412 2002. Detecting gene-gene interactions using affected sib pair analysis with covariates. Human Heredity 53 (2) , pp. 92-102. 10.1159/000057987

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Abstract

Interest has recently focussed on allowing for interactions between loci as a way to increase power to detect linkage. In this paper, a simplified logistic regression method was used to perform affected sib pair analyses allowing for the inclusion of data from other loci. A systematic search of two-locus disease models was carried out to determine the situations in which this was advantageous. If IBD information is available (e.g. from a genome scan), it is unlikely that allowing for interactions will give a large lod score in the absence of linkage evidence from sinlge-locus analysis. Furthermore, allowing for interactions rarely gave a significant increase in power to detect linkage over a single-locus analysis, except for heterogeneity models with low K(P). Conversely, the availability of disease-associated genotypes may greatly increase the power both to detect linkage to a second locus and interaction between the loci. These results indicate that when only IBD information is available, two-locus analysis of genome scan data should be restricted to regions giving peaks under single-locus analysis. If disease-associated genotypes are available, it may be worth re-analysing the whole genome.

Item Type:	Article
Date Type:	Publication
Status:	Published
Schools:	Medicine MRC Centre for Neuropsychiatric Genetics and Genomics (CNGG)
Subjects:	R Medicine > R Medicine (General)
Publisher:	Karger
ISSN:	1423-0062
Last Modified:	31 Oct 2022 09:48
URI:	https://orca.cardiff.ac.uk/id/eprint/82543

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