Metabolic flux analysis: a comprehensive review on sample preparation, analytical techniques, data analysis, computational modelling, and main application areas
Metabolic flux analysis (MFA) quantitatively describes cellular fluxes to understand
metabolic phenotypes and functional behaviour after environmental and/or genetic …
metabolic phenotypes and functional behaviour after environmental and/or genetic …
The design-build-test-learn cycle for metabolic engineering of streptomycetes
Streptomycetes are producers of a wide range of specialized metabolites of great medicinal
and industrial importance, such as antibiotics, antifungals, or pesticides. Having been the …
and industrial importance, such as antibiotics, antifungals, or pesticides. Having been the …
Disease-specific loss of microbial cross-feeding interactions in the human gut
Many gut microorganisms critical to human health rely on nutrients produced by each other
for survival; however, these cross-feeding interactions are still challenging to quantify and …
for survival; however, these cross-feeding interactions are still challenging to quantify and …
State-of the-art constraint-based modeling of microbial metabolism: from basics to context-specific models with a focus on methanotrophs
MA Kulyashov, SK Kolmykov, TM Khlebodarova… - Microorganisms, 2023 - mdpi.com
Methanotrophy is the ability of an organism to capture and utilize the greenhouse gas,
methane, as a source of energy-rich carbon. Over the years, significant progress has been …
methane, as a source of energy-rich carbon. Over the years, significant progress has been …
Adapting modeling and simulation credibility standards to computational systems biology
Computational models are increasingly used in high-impact decision making in science,
engineering, and medicine. The National Aeronautics and Space Administration (NASA) …
engineering, and medicine. The National Aeronautics and Space Administration (NASA) …
FLUXestimator: a webserver for predicting metabolic flux and variations using transcriptomics data
Quantitative assessment of single cell fluxome is critical for understanding the metabolic
heterogeneity in diseases. Unfortunately, laboratory-based single cell fluxomics is currently …
heterogeneity in diseases. Unfortunately, laboratory-based single cell fluxomics is currently …
Targeting the Bottlenecks in Levan Biosynthesis Pathway in Bacillus subtilis and Strain Optimization by Computational Modeling and Omics Integration
A Immanuel, RM Yennamalli… - OMICS: A Journal of …, 2024 - liebertpub.com
Levan is a fructan polymer with many industrial applications such as the formulation of
hydrogels, drug delivery, and wound healing, among others. To this end, metabolic systems …
hydrogels, drug delivery, and wound healing, among others. To this end, metabolic systems …
In silico cell factory design driven by comprehensive genome-scale metabolic models: development and challenges
J Lu, X Bi, Y Liu, X Lv, J Li, G Du, L Liu - Systems Microbiology and …, 2023 - Springer
Genome-scale metabolic models (GEMs) have been widely used to design cell factories in
silico. However, initial flux balance analysis only considers stoichiometry and reaction …
silico. However, initial flux balance analysis only considers stoichiometry and reaction …
Opportunities at the interface of network science and metabolic modeling
Metabolism plays a central role in cell physiology because it provides the molecular
machinery for growth. At the genome-scale, metabolism is made up of thousands of …
machinery for growth. At the genome-scale, metabolism is made up of thousands of …
[HTML][HTML] Angiogenesis goes computational–The future way forward to discover new angiogenic targets?
Multi-omics technologies are being increasingly utilized in angiogenesis research. Yet,
computational methods have not been widely used for angiogenic target discovery and …
computational methods have not been widely used for angiogenic target discovery and …