Clustering longitudinal profiles using P-splines and mixed effects models applied to time-course gene expression data

被引：32
|
作者：
Coffey, N. [1 ]
Hinde, J. [2 ]
Holian, E. [2 ]
机构：
[1] Univ Coll Dublin, Sch Math Sci Syst Biol Ireland, Dublin, Ireland
[2] Natl Univ Ireland, Sch Math Stat & Appl Math, Galway, Ireland
来源：
COMPUTATIONAL STATISTICS & DATA ANALYSIS | 2014年 / 71卷
基金：
爱尔兰科学基金会;
关键词：
Longitudinal profiles; Time-course gene expression; Clustering; Mixed effects model; Finite mixture model; FUNCTIONAL DATA; MIXTURE MODEL; PATTERNS; COMPONENTS;
D O I：
10.1016/j.csda.2013.04.001
中图分类号：
TP39 [计算机的应用];
学科分类号：
081203 ; 0835 ;
摘要：
Longitudinal data is becoming increasingly common and various methods have been developed to analyze this type of data. Profiles from time-course gene expression studies, where cluster analysis plays an important role to identify groups of co-expressed genes overtime, are investigated. A number of procedures have been used to cluster time-course gene expression data, however there are many limitations to the techniques previously described. An alternative approach is proposed, which aims to alleviate some of these limitations. The method exploits the connection between the linear mixed effects model and P-spline smoothing to simultaneously smooth the gene expression data to remove any measurement error/noise and cluster the expression profiles using finite mixtures of mixed effects models. This approach has a number of advantages, including decreased computation time and ease of implementation in standard software packages. (C) 2013 Elsevier B.V. All rights reserved.
引用
收藏
页码：14 / 29
页数：16
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