Since the first two complete bacterial genome sequences were published in 1995, the
science of bacteria has dramatically changed. Using third-generation DNA sequencing, it is …

Industrial strain development requires system-wide engineering and optimization of cellular
metabolism while considering industrially relevant fermentation and recovery processes. It …

Metagenomics and 16S pyrosequencing have enabled the study of ecosystem structure and
dynamics to great depth and accuracy. Co-occurrence and correlation patterns found in …

Antibiotic drug–target interactions, and their respective direct effects, are generally well
characterized. By contrast, the bacterial responses to antibiotic drug treatments that …

The problem of reconstructing nonlinear and complex dynamical systems from measured
data or time series is central to many scientific disciplines including physical, biological …

Systems biology and the digital revolution are together transforming healthcare to a
proactive P4 medicine that is predictive, preventive, personalized and participatory. Systems …

Th17 cells have critical roles in mucosal defense and are major contributors to inflammatory
disease. Their differentiation requires the nuclear hormone receptor RORγt working with …

Numerous methods have been developed for inferring gene regulatory networks from
expression data, however, both their absolute and comparative performance remain poorly …

Organisms are constantly exposed to a wide range of environmental changes, including
both short-term changes during their lifetime and longer-term changes across generations …

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