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

Nyholt, D.R. (2004) A simple correction for multiple testing for single-nucleotide polymorphisms in linkage disequilibrium with each other. The American Journal of Human Genetics, 74(4), pp. 765-769.

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Abstract

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. 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.

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ID Code: 92168
Item Type: Journal Article
Refereed: Yes
Additional Information: Nyholt, Dale R
eng
Research Support, Non-U.S. Gov't
2004/03/05 05:00
Am J Hum Genet. 2004 Apr;74(4):765-9. Epub 2004 Mar 2.
Keywords: Gene Frequency/genetics, Haplotypes/genetics, Humans, Internet, Linkage Disequilibrium/*genetics, Polymorphism, Single Nucleotide/*genetics, Probability, Research Design, Software
DOI: 10.1086/383251
ISSN: 0002-9297
Divisions: Current > QUT Faculties and Divisions > Faculty of Health
Current > Institutes > Institute of Health and Biomedical Innovation
Copyright Owner: Copyright 2004 The American Society of Human Genetics
Deposited On: 22 Jan 2016 01:59
Last Modified: 22 Jan 2016 01:59

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