simplivariate models uncovering the underlying biology in functional genomics datasimplivariate模型揭示潜在的生物学功能基因组学数据.pdfVIP

Simplivariate Models: Uncovering the Underlying Biology in Functional Genomics Data 1,2 1 1 ¨ 3 4 Edoardo Saccenti *, Johan A. Westerhuis , Age K. Smilde , Mariet J. van der Werf , Jos A. Hageman , Margriet M. W. B. Hendriks5,6 1 Biosystems Data Analysis, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands, 2 Netherlands Bioinformatics Centre, Nijmegen, The Netherlands, 3 TNO Quality of Life, Zeist, The Netherlands, 4 Biometris—Applied Statistics, Wageningen, The Netherlands, 5 Laboratory of Metabolic and Endocrine Diseases, Wilhelmina Children’s Hospital, Utrecht Medical Centre, Utrecht, The Netherlands, 6 Netherlands Metabolomic Centre, Leiden, The Netherlands Abstract One of the first steps in analyzing high-dimensional functional genomics data is an exploratory analysis of such data. Cluster Analysis and Principal Component Analysis are then usually the method of choice. Despite their versatility they also have a severe drawback: they do not always generate simple and interpretable solutions. On the basis of the observation that functional genomics data often contain both informative and non-informative variation, we propose a method that finds sets of variables containing informative variation. This informative variation is subsequently expressed in easily interpretable simplivariate components. We present a new implementation of the recently introduced simplivariate models. In this implementation, the informative variation is described by multiplicative models that can adequately represent the relations between functional genomics data. Both a simulated and two real-life metabolomics data sets show good performance of the method. Citation: S