Flux Balance Analysis (FBA) has proven to be a very valuable tool for predicting microbial metabolism. However, FBA neglects dynamic process behavior and does not provide predictions of extracellular variables. Both these capabilities are critical for fermentation process modeling. Dynamic flux balance modeling is a powerful extension that combines steady-state cell metabolism with extracellular dynamics […]

Microbiota metabolic modeling is a powerful complementary tool to experimentation for interrogating microbial communities involved in human disease. One of my recent review papers overviews some of the capabilities, accomplishments and challenges associated with bacterial community modeling. In Silico Fermentation offers metabolic modeling tools to simulate, analyze and manipulate host-associated microbiota involved in human health […]