Accuracy of Gene Scores when Pruning Markers by Linkage Disequilibrium | Zendy

Frank Dudbridge | Zendy; Paul J. Newcombe | Zendy

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Accuracy of Gene Scores when Pruning Markers by Linkage Disequilibrium

Author(s) -

Frank Dudbridge,

Paul J. Newcombe

Publication year - 2015

Publication title -

human heredity

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.423

H-Index - 62

eISSN - 1423-0062

pISSN - 0001-5652

DOI - 10.1159/000446581

Subject(s) - linkage disequilibrium , sample size determination , genetics , pruning , mathematics , statistics , biology , gene , allele , haplotype , botany

Gene scores are often used to model the combined effects of genetic variants. When variants are in linkage disequilibrium, it is common to prune all variants except the most strongly associated. This avoids duplicating information but discards information when variants have independent effects. However, joint modelling of correlated variants increases the sampling error in the gene score. In recent applications, joint modelling has offered only small improvements in accuracy over pruning. We aimed to quantify the relationship between pruning and joint modelling in relation to sample size.

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