Bayesian profile regression for clustering analysis involving a longitudinal response and explanatory variables
本文扩展贝叶斯轮廓回归方法处理纵向响应数据，提供R包PReMiuMlongi，并通过酵母细胞周期基因表达数据识别出四组共调控基因及其转录因子。
Abstract The identification of sets of co-regulated genes that share a common function is a key question of modern genomics. Bayesian profile regression is a semi-supervised mixture modelling approach that makes use of a response to guide inference toward relevant clusterings. Previous applications of profile regression have considered univariate continuous, categorical, and count outcomes. In this work, we extend Bayesian profile regression to cases where the outcome is longitudinal (or multivariate continuous) and provide PReMiuMlongi, an updated version of PReMiuM, the R package for profile regression. We consider multivariate normal and Gaussian process regression response models and provide proof of principle applications to four simulation studies. The model is applied on budding-yeast data to identify groups of genes co-regulated during the Saccharomyces cerevisiae cell cycle. We identify four distinct groups of genes associated with specific patterns of gene expression trajectories, along with the bound transcriptional factors, likely involved in their co-regulation process.