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| PMID |
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| TITLE |
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| A simple correction for multiple testing for single-nucleotide polymorphisms in linkage disequilibrium with each other. |
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| ABSTRACT |
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| 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. |
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| DATE PUBLISHED |
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| HISTORY |
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| PUBSTATUS |
PUBSTATUSDATE |
| pubmed |
2004/03/05 05:00 |
| medline |
2004/05/11 05:00 |
| received |
2003/00/05 |
| accepted |
2004/00/29 |
| aheadofprint |
2004/00/02 |
| entrez |
2004/03/05 05:00 |
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| AUTHORS |
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| NAME |
COLLECTIVENAME |
LASTNAME |
FORENAME |
INITIALS |
AFFILIATION |
AFFILIATIONINFO |
| Nyholt DR |
|
Nyholt |
Dale R |
DR |
|
Genetic Epidemiology Laboratory, Queensland Institute of Medical Research, Brisbane, Queensland, Australia. daleN@qimr.edu.au |
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| INVESTIGATORS |
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| JOURNAL |
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| VOLUME: 74 |
| ISSUE: 4 |
| TITLE: American journal of human genetics |
| ISOABBREVIATION: Am. J. Hum. Genet. |
| YEAR: 2004 |
| MONTH: Apr |
| DAY: |
| MEDLINEDATE: |
| SEASON: |
| CITEDMEDIUM: Print |
| ISSN: 0002-9297 |
| ISSNTYPE: Print |
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| MEDLINE JOURNAL |
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| MEDLINETA: Am J Hum Genet |
| COUNTRY: United States |
| ISSNLINKING: 0002-9297 |
| NLMUNIQUEID: 0370475 |
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| PUBLICATION TYPE |
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| PUBLICATIONTYPE TEXT |
| Journal Article |
| Research Support, Non-U.S. Gov't |
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| COMMENTS AND CORRECTIONS |
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| REFTYPE |
REFSOURCE |
REFPMID |
NOTE |
| Cites |
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| Cites |
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| GRANTS |
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| GENERAL NOTE |
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| KEYWORDS |
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| MESH HEADINGS |
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| DESCRIPTORNAME |
QUALIFIERNAME |
| Gene Frequency |
genetics |
| Haplotypes |
genetics |
| Humans |
genetics |
| Internet |
genetics |
| Linkage Disequilibrium |
genetics |
| Polymorphism, Single Nucleotide |
genetics |
| Probability |
genetics |
| Research Design |
genetics |
| Software |
genetics |
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| SUPPLEMENTARY MESH |
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| GENE SYMBOLS |
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| CHEMICALS |
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| OTHER ID's |
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| OTHERID |
SOURCE |
| PMC1181954 |
NLM |
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