title: Metabolic model refinement using phenotypic microarray data.
abstract: Phenotypic microarray (PM) is a standardized, high-throughput technology for profiling phenotypes of microorganisms, which allows for characterization on around 2,000 different media conditions. The data generated using PM can be incorporated into genome-scale metabolic models to improve their predictive capability. In addition, a comparison of phenotypic profiles of wild-type and gene knockout mutants can give essential information about gene functions of unknown genes. In this chapter, we present a protocol to refine preconstructed metabolic models using the PM data. Both manual refinement and algorithmic approaches for integrating the PM data into metabolic models have been discussed.
authors: Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, ON, Canada.
authors: Pratish
authors: P
authors: Gawand
authors: Laurence
authors: L
authors: Yang
authors: William R
authors: WR
authors: Cluett
authors: Radhakrishnan
authors: R
authors: Mahadevan
mesh_terms: D001419:Bacteria / Q000235:genetics / Q000378:metabolism*; D003198:Computer Simulation; D003663:Decision Trees; D053858:Metabolic Networks and Pathways / Q000235:genetics*; D046228:Microarray Analysis; D008954:Models, Biological; D058977:Molecular Sequence Annotation / Q000379:methods; D010641:Phenotype