A simple correction for multiple testing for single-nucleotide polymorphisms in linkage disequilibrium with each other

被引：1411
|
作者：
Nyholt, DR [1 ]
机构：
[1] Queensland Inst Med Res, Genet Epidemiol Lab, Brisbane, Qld 4006, Australia
来源：
AMERICAN JOURNAL OF HUMAN GENETICS | 2004年 / 74卷 / 04期
基金：
英国医学研究理事会;
关键词：
D O I：
10.1086/383251
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
In this report, we describe a simple correction for multiple testing of single-nucleotide polymorphisms ( SNPs) in linkage disequilibrium (LD) with each other, on the basis of the spectral decomposition (SpD) of matrices of pairwise LD between SNPs. This method provides a useful alternative to more computationally intensive permutation tests. A user-friendly interface (SNPSpD) for performing this correction is available online (http://genepi.qimr.edu.au/ general/daleN/SNPSpD/). Additionally, output from SNPSpD includes eigenvalues, principal-component coefficients, and factor "loadings" after varimax rotation, enabling the selection of a subset of SNPs that optimize the information in a genomic region.
引用
收藏
页码：765 / 769
页数：5
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