Generating Predictions on Your Model

In Model View we allow you to model growth of your organism on different media conditions. These predictions are made using Flux balance analysis.

What does this entail? We start with a model, which is the network of metabolic and transport reactions an organism an perform and a biomass objective function, and add a media formulation, just a list of compounds and their concentrations. Then we use linear optimization techniques to solve for that biomass objective function. If we are able to solve the problem and produce biomass, we get a list of "fluxes" through reactions that tell us which parts of the cell's metabolism are being used.

You can run flux balance using the Model View pages. See Part 5 of the Model View Tutorial for details.