a gene frequency model for qtl mapping using bayesian inferenceqtl定位的基因频率模型使用贝叶斯推理.pdfVIP

He et al. Genetics Selection Evolution 2010, 42:21 Ge n e t i c s /content/42/1/21 Se l e c t i o n Evolution RESEARCH Open Access A gene frequency model for QTL mapping using Bayesian inference Wei He1*, Rohan L Fernando1,2*, Jack CM Dekkers1,2, Helene Gilbert3 Abstract Background: Information for mapping of quantitative trait loci (QTL) comes from two sources: linkage disequilibrium (non-random association of allele states) and cosegregation (non-random association of allele origin). Information from LD can be captured by modeling conditional means and variances at the QTL given marker information. Similarly, information from cosegregation can be captured by modeling conditional covariances. Here, we consider a Bayesian model based on gene frequency (BGF) where both conditional means and variances are modeled as a function of the conditional gene frequencies at the QTL. The parameters in this model include these gene frequencies, additive effect of the QTL, its location, and the residual variance. Bayesian methodology was used to estimate these parameters. The priors used were: logit-normal for gene frequencies, normal for the additive effect, uniform for location, and inverse chi-square for the residual variance. Computer simulation was used to compare the power to detect and accuracy to map QTL by this method with those from least squares analysis using a regression model (LSR). Results: To simplify the analysis, data from unrelated individuals in a purebred population were simulated, wh