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Parametric proportional hazards model for mapping genomic imprinting of survival traits

文献类型： 外文期刊

作者： Gao, Huijiang 1 ; Liu, Yongxin 2 ; Zhang, Tingting 3 ; Yang, Runqing 4 ; Prows, Daniel R. 6 ;

作者机构： 1.Chinese Acad Agr Sci, Inst Anim Sci, Beijing 100193, Peoples R China

2.Chinese Acad Fishery Sci, Res Ctr Aquat Biotechnol, Beijing 100141, Peoples R China

3.Univ Notre Dame, Dept Appl & Computat Math & Stat, Notre Dame, IN 46556 USA

4.Chinese Acad Fishery Sci, Beidaihe Cent Expt Stn, Qinhuangdao 066100, Peoples R China

5.Shanghai Jiao Tong Univ, Sch Agr & Biol, Shanghai 200240, Peoples R China

6.Cincinnati Childrens Hosp, Med Ctr, Div Human Genet, Cincinnati, OH 45229 USA

7.Univ Cincinnati, Coll Med, Cincinnati, OH 45229 USA

关键词： Cox proportional hazards model;Imprinted quantitative trait loci;Mapping;Optimisation;Survival distribution;Survival trait

期刊名称：JOURNAL OF APPLIED GENETICS （ 影响因子：3.24； 五年影响因子：2.756 ）

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收录情况： SCI

摘要： A number of imprinted genes have been observed in plants, animals and humans. They not only control growth and developmental traits, but may also be responsible for survival traits. Based on the Cox proportional hazards (PH) model, we constructed a general parametric model for dissecting genomic imprinting, in which a baseline hazard function is selectable for fitting the effects of imprinted quantitative trait loci (iQTL) genotypes on the survival curve. The expectation-maximisation (EM) algorithm is derived for solving the maximum likelihood estimates of iQTL parameters. The imprinting patterns of the detected iQTL are statistically tested under a series of null hypotheses. The Bayesian information criterion (BIC) model selection criterion is employed to choose an optimal baseline hazard function with maximum likelihood and parsimonious parameterisation. We applied the proposed approach to analyse the published data in an F-2 population of mice and concluded that, among five commonly used survival distributions, the log-logistic distribution is the optimal baseline hazard function for the survival time of hyperoxic acute lung injury (HALI). Under this optimal model, five QTL were detected, among which four are imprinted in different imprinting patterns.

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