shrinking the metabolic solution space using experimental datasets减少代谢解空间使用实验数据集.pdfVIP

Review Shrinking the Metabolic Solution Space Using Experimental Datasets Jennifer L. Reed* Department of Chemical and Biological Engineering, University of Wisconsin–Madison, Madison, Wisconsin, United States of America model’s solution space, which can be queried using a number of Abstract: Constraint-based models of metabolism have approaches [15]. Most of these constraints-based approaches been used in a variety of studies on drug discovery, utilize optimization to identify a subset of solutions of interest from metabolic engineering, evolution, and multi-species within the solution space that are predicted to be physiologically interactions. These genome-scale models can be gener- relevant. For example, flux balance analysis (FBA) is often used to ated for any sequenced organism since their main identify flux distributions that maximize biomass yields [16]. parameters (i.e., reaction stoichiometry) are highly con- Given the non-uniqueness of constraint-based model solutions, served. Their relatively low parameter requirement makes these models easy to develop; however, these models a growing number of methods have focused recently on often result in a solution space with multiple possible flux incorporating additional constraints to reduce the solution space distributions, making it difficult to determine the precise and thereby improve the precision and accuracy of model flux state