Multipoint linkage analysis of quantitative traits on sex-chromosomes
- PMID: 15022208
- DOI: 10.1002/gepi.10310
Multipoint linkage analysis of quantitative traits on sex-chromosomes
Abstract
Variance component models form a powerful and flexible tool for multipoint linkage analysis of quantitative traits. Estimates of genetic similarity are needed for the variance component model to detect linkage and to locate genes, and two methods are commonly used to calculate multipoint identity-by-descent (IBD) estimates for autosomes. Fulker et al. ([1995] Am. J. Hum. Genet. 56: 1229-1233) and Almasy and Blangero ([1998] Am. J. Hum. Genet. 62: 119-121) used multiple regression to estimate the IBD sharing along a chromosome, while the approach of Kruglyak and Lander ([1995] Am. J. Hum. Genet. 57: 439-454) is based on a hidden Markov model. In this paper, we modify the variance component model to accommodate sex-chromosomes, and we extend both multipoint IBD estimation methods to accommodate sex-linked loci. Simulation studies demonstrate the power and precision of the variance component model to detect QTLs located on the sex-chromosome. The two multipoint IBD estimation methods have the same accuracy to identify QTL position, but the hidden Markov model yields a larger average maximum LOD score to detect linkage than the regression model. The extension of the multipoint IBD estimation methods and the variance component model to the X chromosome shows that the variance component model is a powerful and flexible tool for linkage analysis of quantitative traits on both autosomes and sex-chromosomes.
Copyright 2004 Wiley-Liss, Inc.
Similar articles
-
Power of multipoint identity-by-descent methods to detect linkage using variance component models.Genet Epidemiol. 2001 Dec;21(4):285-98. doi: 10.1002/gepi.1035. Genet Epidemiol. 2001. PMID: 11754465
-
MCMC-based linkage analysis for complex traits on general pedigrees: multipoint analysis with a two-locus model and a polygenic component.Genet Epidemiol. 2007 Feb;31(2):103-14. doi: 10.1002/gepi.20194. Genet Epidemiol. 2007. PMID: 17123301
-
Multipoint development of the weighted pairwise correlation (WPC) linkage method for pedigrees of arbitrary size and application to the analysis of breast cancer and alcoholism familial data.Genet Epidemiol. 2001 Jul;21(1):40-52. doi: 10.1002/gepi.1017. Genet Epidemiol. 2001. PMID: 11443733
-
Score test for detecting linkage to complex traits in selected samples.Genet Epidemiol. 2004 Sep;27(2):97-108. doi: 10.1002/gepi.20012. Genet Epidemiol. 2004. PMID: 15305326 Review.
-
Contemporary model-free methods for linkage analysis.Adv Genet. 2008;60:175-93. doi: 10.1016/S0065-2660(07)00408-7. Adv Genet. 2008. PMID: 18358321 Review.
Cited by
-
Estimating the additive genetic effect of the X chromosome.Genet Epidemiol. 2005 Dec;29(4):377-88. doi: 10.1002/gepi.20093. Genet Epidemiol. 2005. PMID: 16294301 Free PMC article.
-
Linkage analysis of a model quantitative trait in humans: finger ridge count shows significant multivariate linkage to 5q14.1.PLoS Genet. 2007 Sep;3(9):1736-44. doi: 10.1371/journal.pgen.0030165. PLoS Genet. 2007. PMID: 17907812 Free PMC article.
-
Association test for X-linked QTL in family-based designs.Am J Hum Genet. 2009 Apr;84(4):431-44. doi: 10.1016/j.ajhg.2009.02.010. Epub 2009 Apr 2. Am J Hum Genet. 2009. PMID: 19344875 Free PMC article.
-
X chromosome effects and their interactions with mitochondrial effects.BMC Genet. 2005 Dec 30;6 Suppl 1(Suppl 1):S157. doi: 10.1186/1471-2156-6-S1-S157. BMC Genet. 2005. PMID: 16451618 Free PMC article.
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
