Composite measure of linkage disequilibrium for testing interaction between unlinked loci

European Journal of Human Genetics : EJHG
Xuesen WuM Xiong

Abstract

Widely used statistical interaction models essentially treated the interaction effect as a residual term and hence are likely to limit the power to detect interaction. Alternatively, interactions between two loci can be understood as irreducible dependencies between loci causing disease or viewed as the linkage disequilibrium (LD) between them. This motivated the development of LD-based statistics for the detection of interaction between two loci. Although LD-based statistics have demonstrated high power to detect interaction between two loci, in general, linkage phase information of marker loci for unrelated individuals is unknown. To overcome this limitation, we classify the interaction between two loci into intragametic interaction that characterizes interaction of two alleles from different loci on the same haplotype and intergametic interaction that characterizes the interaction of two alleles from different loci on different haplotypes. Then we show that intragametic and intergametic interaction will lead to the corresponding intragametic and intergametic LD. This stimulates the use of composite measure of LD for developing statistics to detect interaction between two unlinked loci. To study the validity of the composite ...Continue Reading

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Citations

Dec 24, 2009·European Journal of Human Genetics : EJHG·Qianqian PengFuzhong Xue
Nov 16, 2010·Bioinformatics·Ryan AboNicola J Camp
Dec 4, 2009·PloS One·Jigang ZhangHong-Wen Deng
Jul 20, 2011·Genetic Epidemiology·Zhaoxia Yu, Shuang Wang
Mar 24, 2017·Biostatistics·Jakub PecankaAad W Van Der Vaart
Sep 12, 2018·Genome Biology and Evolution·Fabrizio MafessoniKay Prüfer
Jan 1, 2020·BMC Medical Genomics·Sen ZhangWeichuan Yu
Jan 17, 2014·Genetic Epidemiology·Jie Kate HuPei Wang

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