KBase has a suite of Apps and data that support the reconstruction, prediction, and design of metabolic models in microbes and plants. Genome-scale metabolic models are primarily reconstructed from protein functional annotations. These genome-scale metabolic models can be used to explore an organism’s growth in specific media conditions, determine which biochemical pathways are present, optimize production of an important metabolite, identify high flux pathways, and more.
Metabolic models can be used to evaluate an organism’s metabolic capability by simulating growth under different conditions to answer important biological questions such as:
Generate Genome-scale Metabolic Models
Analyze Flux Balance
Flowchart of apps used in Metabolic Modeling.
The video tutorial at right presents an introduction to building metabolic models in KBase. The “Microbial Metabolic Model Reconstruction and Analysis” Narrative tutorial lets you see and try out for yourself some examples of KBase’s metabolic modeling functionality in action. Common questions and answers about KBase’s metabolic modeling tools can be found in the Metabolic Modeling FAQ.
Narrative Tutorial and FAQ
Build and Gapfill Metabolic Model
Flux Balance Analysis
Evaluate, Compare and Edit Models
Phenotype and Expression
Publications about Metabolic Modeling in KBase