The transition from genomics to phenomics in personalized population health
Modern health care faces several serious challenges, including an ageing population and
its inherent burden of chronic diseases, rising costs and marginal quality metrics. By …
its inherent burden of chronic diseases, rising costs and marginal quality metrics. By …
Addressing uncertainty in genome-scale metabolic model reconstruction and analysis
The reconstruction and analysis of genome-scale metabolic models constitutes a powerful
systems biology approach, with applications ranging from basic understanding of genotype …
systems biology approach, with applications ranging from basic understanding of genotype …
eQuilibrator 3.0: a database solution for thermodynamic constant estimation
ME Beber, MG Gollub, D Mozaffari… - Nucleic acids …, 2022 - academic.oup.com
Abstract eQuilibrator (equilibrator. weizmann. ac. il) is a database of biochemical equilibrium
constants and Gibbs free energies, originally designed as a web-based interface. While the …
constants and Gibbs free energies, originally designed as a web-based interface. While the …
MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models
MetaNetX/MNXref is a reconciliation of metabolites and biochemical reactions providing
cross-links between major public biochemistry and Genome-Scale Metabolic Network …
cross-links between major public biochemistry and Genome-Scale Metabolic Network …
Genome-scale modeling of yeast metabolism: retrospectives and perspectives
Yeasts have been widely used for production of bread, beer and wine, as well as for
production of bioethanol, but they have also been designed as cell factories to produce …
production of bioethanol, but they have also been designed as cell factories to produce …
Emerging methods for genome-scale metabolic modeling of microbial communities
Genome-scale metabolic models (GEMs) are consolidating as platforms for studying mixed
microbial populations, by combining biological data and knowledge with mathematical rigor …
microbial populations, by combining biological data and knowledge with mathematical rigor …
Recent advances on constraint-based models by integrating machine learning
Highlights•Machine learning has already been successfully applied to facets of constraint-
based modeling.•Further development of the combined framework has great potential to …
based modeling.•Further development of the combined framework has great potential to …
Microbiome modeling: a beginner's guide
Microbiomes, comprised of diverse microbial species and viruses, play pivotal roles in
human health, environmental processes, and biotechnological applications and interact with …
human health, environmental processes, and biotechnological applications and interact with …
Elucidating plant-microbe-environment interactions through omics-enabled metabolic modelling using synthetic communities
With a growing world population and increasing frequency of climate disturbance events, we
are in dire need of methods to improve plant productivity, resilience, and resistance to both …
are in dire need of methods to improve plant productivity, resilience, and resistance to both …
High-Quality Genome-Scale Reconstruction of Corynebacterium glutamicum ATCC 13032
M Feierabend, A Renz, E Zelle, K Nöh… - Frontiers in …, 2021 - frontiersin.org
Corynebacterium glutamicum belongs to the microbes of enormous biotechnological
relevance. In particular, its strain ATCC 13032 is a widely used producer of L-amino acids at …
relevance. In particular, its strain ATCC 13032 is a widely used producer of L-amino acids at …