bayesian network expansion identifies new ros and biofilm regulators贝叶斯网络扩张识别新的ros和生物膜的监管机构.pdfVIP

Bayesian Network Expansion Identifies New ROS and Biofilm Regulators 1. 2. 3 1,4,5 2 Andrew P. Hodges , Dongjuan Dai , Zuoshuang Xiang , Peter Woolf , Chuanwu Xi , Yongqun He1,3,6* 1 Center for Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, United States of America, 2 Department of Environmental Health Sciences, University of Michigan, Ann Arbor, Michigan, United States of America, 3 Unit for Laboratory Animal Medicine, University of Michigan, Ann Arbor, Michigan, United States of America, 4 Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan, United States of America, 5 Department of Biomedical Engineering, University of Michigan, Ann Arbor, Michigan, United States of America, 6 Department of Microbiology and Immunology, University of Michigan, Ann Arbor, Michigan, United States of America Abstract Signaling and regulatory pathways that guide gene expression have only been partially defined for most organisms. However, given the increasing number of microarray measurements, it may be possible to reconstruct such pathways and uncover missing connections directly from experimental data. Using a compendium of microarray gene expression data obtained from Escherichia coli, we constructed a series of Bayesian network models for the reactive oxygen species (ROS) pathway as defined by EcoCyc. A consensus Bayesian network model was generated using those networks sharing the top recovered score. This microarray-based network only partially agreed with the known ROS pathway curated from the literature and databases. A top network was then expanded to predict genes that could enhance the Bayesian network model using an algorithm we term