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 …
Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models
Highlights•Dynamic models are powerful tools to understand and engineer microbial
communities.•Model frameworks vary across scales and require different types of …
communities.•Model frameworks vary across scales and require different types of …
Mixotrophic growth of a ubiquitous marine diatom
Diatoms are major players in the global carbon cycle, and their metabolism is affected by
ocean conditions. Understanding the impact of changing inorganic nutrients in the oceans …
ocean conditions. Understanding the impact of changing inorganic nutrients in the oceans …
[HTML][HTML] What CHO is made of: Variations in the biomass composition of Chinese hamster ovary cell lines
D Széliová, DE Ruckerbauer, SN Galleguillos… - Metabolic …, 2020 - Elsevier
Background Cell line-specific, genome-scale metabolic models enable rigorous and
systematic in silico investigation of cellular metabolism. Such models have recently become …
systematic in silico investigation of cellular metabolism. Such models have recently become …
Systems biology and metabolic modeling for cultivated meat: A promising approach for cell culture media optimization and cost reduction
S Gomez Romero, N Boyle - … in Food Science and Food Safety, 2023 - Wiley Online Library
The cultivated meat industry, also known as cell‐based meat, cultured meat, lab‐grown
meat, or meat alternatives, is a growing field that aims to generate animal tissues ex‐vivo in …
meat, or meat alternatives, is a growing field that aims to generate animal tissues ex‐vivo in …
A workflow for generating multi-strain genome-scale metabolic models of prokaryotes
Genome-scale models (GEMs) of bacterial strains' metabolism have been formulated and
used over the past 20 years. Recently, with the number of genome sequences exponentially …
used over the past 20 years. Recently, with the number of genome sequences exponentially …
Recent advances in constraint and machine learning-based metabolic modeling by leveraging stoichiometric balances, thermodynamic feasibility and kinetic law …
Understanding the governing principles behind organisms' metabolism and growth
underpins their effective deployment as bioproduction chassis. A central objective of …
underpins their effective deployment as bioproduction chassis. A central objective of …
Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in Rhodosporidium toruloides
An oleaginous yeast Rhodosporidium toruloides is a promising host for converting
lignocellulosic biomass to bioproducts and biofuels. In this work, we performed multi-omics …
lignocellulosic biomass to bioproducts and biofuels. In this work, we performed multi-omics …
[HTML][HTML] Model-driven insights into the effects of temperature on metabolism
P Wendering, Z Nikoloski - Biotechnology Advances, 2023 - Elsevier
Temperature affects cellular processes at different spatiotemporal scales, and identifying the
genetic and molecular mechanisms underlying temperature responses paves the way to …
genetic and molecular mechanisms underlying temperature responses paves the way to …
High-quality genome-scale metabolic network reconstruction of probiotic bacterium Escherichia coli Nissle 1917
Abstract Background Escherichia coli Nissle 1917 (EcN) is a probiotic bacterium used to
treat various gastrointestinal diseases. EcN is increasingly being used as a chassis for the …
treat various gastrointestinal diseases. EcN is increasingly being used as a chassis for the …