Publication
Thermodynamics-based Significance Ranking of Candidates for Metabolomics
Abstract
Integration of experimental measurements of intracellular metabolite concentrations in genome scale models restricts the thermodynamically feasible flux space and reduces uncertainty regarding the net outcome of by-directional reactions. By combining tFBA, Marcov Chain sampling, Experimental Design and Global Sensitivity Analysis we present an efficient algorithm to quantify the effect intracellular metabolites have on the thermodynamic flexibility of cellular metabolism. Metabolites are ranked based on the extent by which they reduce the thermodynamically feasible flux space when fixed at any value within their respective feasible bounds. The proposed methodology effectively defines the minimal amount of experimental information required to precisely describe the state of cellular metabolism (i.e the flux distribution) and provides a ranked list of targets for metabolomics.
Official source
About this result
This page is automatically generated and may contain information that is not correct, complete, up-to-date, or relevant to your search query. The same applies to every other page on this website. Please make sure to verify the information with EPFL's official sources.
Ontological neighbourhood
Related concepts (32)
Cellular respiration
Cellular respiration is the process by which biological fuels are oxidised in the presence of an inorganic electron acceptor, such as oxygen, to drive the bulk production of adenosine triphosphate (ATP), which contains energy. Cellular respiration may be described as a set of metabolic reactions and processes that take place in the cells of organisms to convert chemical energy from nutrients into ATP, and then release waste products.
Carbohydrate metabolism
Carbohydrate metabolism is the whole of the biochemical processes responsible for the metabolic formation, breakdown, and interconversion of carbohydrates in living organisms. Carbohydrates are central to many essential metabolic pathways. Plants synthesize carbohydrates from carbon dioxide and water through photosynthesis, allowing them to store energy absorbed from sunlight internally. When animals and fungi consume plants, they use cellular respiration to break down these stored carbohydrates to make energy available to cells.
Metabolism
Metabolism (məˈtæbəlɪzəm, from μεταβολή metabolē, "change") is the set of life-sustaining chemical reactions in organisms. The three main functions of metabolism are: the conversion of the energy in food to energy available to run cellular processes; the conversion of food to building blocks for proteins, lipids, nucleic acids, and some carbohydrates; and the elimination of metabolic wastes. These enzyme-catalyzed reactions allow organisms to grow and reproduce, maintain their structures, and respond to their environments.
Related publications (39)
In situ architecture of Opa1-dependent mitochondrial cristae remodeling
Cristae membrane state plays a central role in regulating mitochondrial function and cellular metabolism. The protein Optic atrophy 1 (Opa1) is an important crista remodeler that exists as two forms in the mitochondrion, a membrane-anchored long form (l-Op ...
Springernature2024How to Find Molecules with Long-lasting Charge Migration?
Jiri Vanicek, Alan Scheidegger, Nikolay Golubev
Under certain conditions, the ionization of a molecule may create a superposition of electronic states, leading to ultrafast electron dynamics. If controlled, this motion could be used in attochemistry applications, but it has been shown that the decoheren ...
SWISS CHEMICAL SOC2023Emergence of diauxie as an optimal growth strategy under resource allocation constraints in cellular metabolism
Vassily Hatzimanikatis, Pierre Guy Rémy Salvy
Diauxie, or the sequential consumption of carbohydrates in bacteria such as Escherichia coli, has been hypothesized to be an evolutionary strategy which allows the organism to maximize its instantaneous specific growth-giving the bacterium a competitive ad ...
NATL ACAD SCIENCES2021Related MOOCs (5)
Fundamentals of Biomedical Imaging: Ultrasounds, X-ray, positron emission tomography (PET) and applications
Learn how principles of basic science are integrated into major biomedical imaging modalities and the different techniques used, such as X-ray computed tomography (CT), ultrasounds and positron emissi
Fundamentals of Biomedical Imaging: Ultrasounds, X-ray, positron emission tomography (PET) and applications
Learn how principles of basic science are integrated into major biomedical imaging modalities and the different techniques used, such as X-ray computed tomography (CT), ultrasounds and positron emissi
Fundamentals of Biomedical Imaging: Magnetic Resonance Imaging (MRI)
Learn about magnetic resonance, from the physical principles of Nuclear Magnetic Resonance (NMR) to the basic concepts of image reconstruction (MRI).