Friday, March 6, 2015

Procedure for Creating Metabolic Models from Sequenced Genomes

In the past, construction of quantitative metabolic flux models has been an extremely time-consuming process, requiring 12-18 months to create a bacterial model.  One of our main goals in designing the MetaFlux module for creating metabolic models within Pathway Tools has been to speed up this process by automating as many of its steps as possible, and by providing software power tools for debugging metabolic models (a viewpoint that was put forward by our colleague Jeremy Zucker).  We can now create metabolic models using MetaFlux in approximately 1 month.
 This blog surveys our recommended procedure for creating metabolic models from sequenced genomes using Pathway Tools.