Boolean network models are one of the simplest models to study complex dynamic behavior
in biological systems. They can be applied to unravel the mechanisms regulating the …

What is flux balance analysis? | Nature Biotechnology Skip to main content Thank you for
visiting nature.com. You are using a browser version with limited support for CSS. To obtain the …

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

Network reconstructions are a common denominator in systems biology. Bottom–up
metabolic network reconstructions have been developed over the last 10 years. These …

Mathematical modeling of biological processes provides deep insights into complex cellular
systems. While quantitative and continuous models such as differential equations have been …

In nature microorganisms live in complex microbial communities. Comprehensive taxonomic
and functional knowledge about microbial communities supports medical and technical …

Abstract Systems analysis of metabolic and growth functions in microbial organisms is
rapidly developing and maturing. Such studies are enabled by reconstruction, at the …

Motivation: As the study of information processing in living cells moves from individual
pathways to complex regulatory networks, mathematical models and simulation become …

High titer, rate, yield (TRY), and scalability are challenging metrics to achieve due to trade-
offs between carbon use for growth and production. To achieve these metrics, we take the …

The number and scope of methods developed to interrogate and use metabolic network
reconstructions has significantly expanded over the past 15 years. In particular, Escherichia …