您好，欢迎访问中国水产科学研究院 机构知识库！
中国水产科学研究院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Iteratively reweighted LASSO for mapping multiple quantitative trait loci

文献类型： 外文期刊

作者： Liu, Yongxin 1 ; Yang, Tianfu 1 ; Li, Hongwang 1 ; Yang, Runqing 2 ;

作者机构： 1.Chinese Acad Fishery Sci, Res Ctr Aquat biotechnol, Qinhuangdao 066100, Peoples R China

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

3.Shanghai Jiao Tong Univ, Sch Agr & Biol, Shanghai 200030, Peoples R China

关键词： QTL mapping;IRLS;LASSO;multiple QTL model

期刊名称：BRIEFINGS IN BIOINFORMATICS （ 影响因子：11.622； 五年影响因子：10.288 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： The iteratively reweighted least square (IRLS) method is mostly identical to maximum likelihood (ML) method in terms of parameter estimation and power of quantitative trait locus (QTL) detection. But the IRLS is greatly superior to ML in terms of computing speed and the robustness of parameter estimation. In conjunction with the priors of parameters, ML can analyze multiple QTL model based on Bayesian theory, whereas under a single QTL model, IRLS has very limited statistical power to detect multiple QTLs. In this study, we proposed the iteratively reweighted least absolute shrinkage and selection operator (IRLASSO) for extending IRLS to simultaneously map multiple QTLs. The LASSO with coordinate descent step is employed to efficiently estimate non-zero genetic effect of each locus scanned over entire genome. Simulations demonstrate that IRLASSO has a higher precision of parameter estimation and power to detect QTL than IRLS, and is able to estimate residual variancemore accurately than the unweighted LASSO based on LS. Especially, IRLASSO is very fast, usually taking less than five iterations to converge. The barley dataset from the North American Barley Genome Mapping Project is reanalyzed by our proposed method.

  • 相关文献

[1]动物遗传设计群体混合模型连锁分析方法. 杜杰,李红旺,高会晓,崔妍,杨润清. 2015

[2]基于LASSO算法的多QTL定位的模拟研究. 李红旺,杜杰,杨润清. 2014

[3]Cox regression model for dissecting genetic architecture of survival time. Jiang, Dan,Fang, Ming,Wang, Hongwei,Li, Jiahan,Wu, Yang,Yang, Runqing.

[4]An efficient approach to large-scale genotype-phenotype association analyses. Yang, Runqing,Liu, Yongxin.

[5]Genome-wide SNP identification for the construction of a high-resolution genetic map of Japanese flounder (Paralichthys olivaceus): applications to QTL mapping of Vibrio anguillarum disease resistance and comparative genomic analysis. Shao, Changwei,Liu, Yang,Wang, Lei,Tian, Yongsheng,Chen, Songlin,Shao, Changwei,Liu, Yang,Wang, Lei,Tian, Yongsheng,Chen, Songlin,Shao, Changwei,Sakamoto, Takashi,Niu, Yongchao,Xie, Zhiyuan,Tai, Shuaishuai,Rastas, Pasi,Li, Hengde,Jiang, Yong.

[6]High-resolution genetic linkage mapping, high-temperature tolerance and growth-related quantitative trait locus (QTL) identification in Marsupenaeus japonicus. Lu, Xia,Luan, Sheng,Hu, Long Yang,Kong, Jie,Lu, Xia,Luan, Sheng,Hu, Long Yang,Kong, Jie,Mao, Yong,Zhong, Sheng Ping,Tao, Ye.

作者其他论文 更多>>
置顶
购物车
反馈

© 京ICP备09089781号-29 主办单位：中国水产科学研究院

学术资源： 中国农业科学院 农业专业知识服务系统 农科联盟资源共建共享平台 中国农业科技文献与信息服务平台 中国农业期刊集成服务平台