Machine learning in bioprocess development: from promise to practice
Fostered by novel analytical techniques, digitalization, and automation, modern bioprocess
development provides large amounts of heterogeneous experimental data, containing …
development provides large amounts of heterogeneous experimental data, containing …
Modelling cell metabolism: a review on constraint-based steady-state and kinetic approaches
M Yasemi, M Jolicoeur - Processes, 2021 - mdpi.com
Studying cell metabolism serves a plethora of objectives such as the enhancement of
bioprocess performance, and advancement in the understanding of cell biology, of drug …
bioprocess performance, and advancement in the understanding of cell biology, of drug …
Genome-scale metabolic rewiring improves titers rates and yields of the non-native product indigoidine at scale
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 …
offs between carbon use for growth and production. To achieve these metrics, we take the …
StrainDesign: a comprehensive Python package for computational design of metabolic networks
Various constraint-based optimization approaches have been developed for the
computational analysis and design of metabolic networks. Herein, we present StrainDesign …
computational analysis and design of metabolic networks. Herein, we present StrainDesign …
Genome-scale metabolic network models for industrial microorganisms metabolic engineering: current advances and future prospects
Z Gong, J Chen, X Jiao, H Gong, D Pan, L Liu… - Biotechnology …, 2024 - Elsevier
The construction of high-performance microbial cell factories (MCFs) is the centerpiece of
biomanufacturing. However, the complex metabolic regulatory network of microorganisms …
biomanufacturing. However, the complex metabolic regulatory network of microorganisms …
Increasing ATP turnover boosts productivity of 2,3-butanediol synthesis in Escherichia coli
Abstract Background The alcohol 2, 3-butanediol (2, 3-BDO) is an important chemical and
an Escherichia coli producer strain was recently engineered for bio-based production of 2, 3 …
an Escherichia coli producer strain was recently engineered for bio-based production of 2, 3 …
Design of microbial catalysts for two-stage processes
Microbial catalysts must partition incoming substrate between the synthesis of biomass and
the synthesis of a desired product. Although biomass synthesis generates more catalyst and …
the synthesis of a desired product. Although biomass synthesis generates more catalyst and …
Recent advances in model-assisted metabolic engineering
S Gudmundsson, J Nogales - Current Opinion in Systems Biology, 2021 - Elsevier
Mathematical modeling of cellular processes enables predictions of biological phenotypes
under perturbations and they are therefore widely used in metabolic engineering. Metabolic …
under perturbations and they are therefore widely used in metabolic engineering. Metabolic …
CNApy: a CellNetAnalyzer GUI in Python for analyzing and designing metabolic networks
Constraint-based reconstruction and analysis (COBRA) is a widely used modeling
framework for analyzing and designing metabolic networks. Here, we present CNApy, an …
framework for analyzing and designing metabolic networks. Here, we present CNApy, an …
OptEnvelope: A target point guided method for growth-coupled production using knockouts
Finding the best knockout strategy for coupling biomass growth and production of a target
metabolite using a mathematic model of metabolism is a challenge in biotechnology. In this …
metabolite using a mathematic model of metabolism is a challenge in biotechnology. In this …