Statistical optimization of parametric accelerated failure time model for mapping survival trait loci.
Most existing statistical methods for mapping quantitative trait loci (QTL) are not suitable for analyzing survival traits with a skewed distribution and censoring mechanism. As a result, researchers incorporate parametric and semi-parametric models of survival analysis into the framework of the interval mapping for QTL controlling survival traits. In survival analysis, accelerated failure time (AFT) model is considered as a de facto standard and fundamental model for data analysis. Based on AFT model, we propose a parametric approach for mapping survival traits using the EM algorithm to obtain the maximum likelihood estimates of the parameters. Also, with Bayesian information criterion (BIC) as a model selection criterion, an optimal mapping model is constructed by choosing specific error distributions with maximum likelihood and parsimonious parameters. Two real datasets were analyzed by our proposed method for illustration. The results show that among the five commonly used survival distributions, Weibull distribution is the optimal survival function for mapping of heading time in rice, while Log-logistic distribution is the optimal one for hyperoxic acute lung injury.
Crop Breeding and Cultivation Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, People's Republic of China.
Zhongze
Z
Piao
Xiaojing
X
Zhou
Li
L
Yan
Ying
Y
Guo
Runqing
R
Yang
Zhixiang
Z
Luo
Daniel R
DR
Prows
D055371:Acute Lung Injury / Q000235:genetics; D000465:Algorithms; D000818:Animals; D001499:Bayes Theorem; D002874:Chromosome Mapping; D005260:Female; D016013:Likelihood Functions; D008297:Male; D051379:Mice; D008810:Mice, Inbred C57BL; D008957:Models, Genetic; D015233:Models, Statistical; D012275:Oryza / Q000235:genetics; D010641:Phenotype; D040641:Quantitative Trait Loci; D016019:Survival Analysis