Reconstructed microbial metabolic networks facilitate a mechanistic description of the
genotype–phenotype relationship through the deployment of constraint-based …

Chemical synthesis is a well established route for producing many chemicals on a large
scale, but some drawbacks still exist in this process, such as unstable intermediates …

Metabolism is a major regulator of immune cell function, but it remains difficult to study the
metabolic status of individual cells. Here, we present Compass, an algorithm to characterize …

Constraint-based reconstruction and analysis (COBRA) provides a molecular mechanistic
framework for integrative analysis of experimental molecular systems biology data and …

Abstract Background COnstraint-Based Reconstruction and Analysis (COBRA) methods are
widely used for genome-scale modeling of metabolic networks in both prokaryotes and …

In metabolism, available free energy is limited and must be divided across pathway steps to
maintain a negative Δ G throughout. For each reaction, Δ G is log proportional both to a …

Over the past decade, a growing community of researchers has emerged around the use of
constraint-based reconstruction and analysis (COBRA) methods to simulate, analyze and …

The principles governing cellular metabolic operation are poorly understood. Because
diverse organisms show similar metabolic flux patterns, we hypothesized that a fundamental …

Standard Gibbs energies of reactions are increasingly being used in metabolic modeling for
applying thermodynamic constraints on reaction rates, metabolite concentrations and kinetic …

Transcription and translation use raw materials and energy generated metabolically to
create the macromolecular machinery responsible for all cellular functions, including …