Title | CLIP Test: a new fast, simple and powerful method to distinguish between linked or pleiotropic quantitative trait loci in linkage disequilibria analysis. |
Publication Type | Journal Article |
Year of Publication | 2013 |
Authors | David, I, Elsen, J-M, Concordet, D |
Journal | Heredity (Edinb) |
Volume | 110 |
Issue | 3 |
Pagination | 232-8 |
Date Published | 2013 Mar |
ISSN | 1365-2540 |
Keywords | Algorithms, Animals, Chromosome Mapping, Computer Simulation, Female, Genetic Linkage, Genetic Pleiotropy, Humans, Livestock, Male, Models, Genetic, Phenotype, Quantitative Trait Loci, Quantitative Trait, Heritable |
Abstract | An important question arises when mapping quantitative trait loci (QTLs) for genetically correlated traits: is the correlation due to pleiotropy (a single QTL affecting more than one trait) and/or close linkage (different QTLs that are physically close to each other and influence the traits)? In this article, we propose the Close Linkage versus Pleiotropism (CLIP) test, a fast, simple and powerful method to distinguish between these two situations. The CLIP test is based on the comparison of the square of the observed correlation between a combination of apparent effects at the marker level to the minimal value it can take under the pleiotropic assumption. A simulation study was performed to estimate the power and alpha risk of the CLIP test and compare it to a test that evaluated whether the confidence intervals of the two QTLs overlapped or not (CI test). On average, the CLIP test showed a higher power (68%) to detect close-linked QTLs than the CI test (43%) and a same alpha risk (4%). |
DOI | 10.1038/hdy.2012.70 |
Alternate Journal | Heredity (Edinb) |
PubMed ID | 23250009 |
PubMed Central ID | PMC3668649 |
CLIP Test: a new fast, simple and powerful method to distinguish between linked or pleiotropic quantitative trait loci in linkage disequilibria analysis.
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