NetFlow: A tool for isolating carbon flows in genome-scale metabolic networks
Metabolic Engineering Communications, 2021 1. Abstract: Genome-scale stoichiometric models (GSMs) have been widely utilized to predict and understand cellular metabolism. GSMs and the flux predictions resulting from them have proven indispensable to fields ranging from metabolic engineering to ...
Sean G. Mack, Ganesh Sriram
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Serine one-carbon catabolism with formate overflow [PDF]
, 2016 Serine catabolism to glycine and a one-carbon unit has been linked to the anabolic requirements of proliferating mammalian cells. However, genome-scale modeling predicts a catabolic role with one-carbon release as formate. We experimentally prove that in
Athineos, Dimitris +11 more
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Stable isotope metabolomics of pulmonary artery smooth muscle and endothelial cells in pulmonary hypertension and with TGF-beta treatment. [PDF]
, 2020 Altered metabolism in pulmonary artery smooth muscle cells (PASMCs) and endothelial cells (PAECs) contributes to the pathology of pulmonary hypertension (PH), but changes in substrate uptake and how substrates are utilized have not been fully ...
D' Alessandro, Angelo +12 more
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Cmah-dystrophin deficient mdx mice display an accelerated cardiac phenotype that is improved following peptide-PMO exon skipping treatment [PDF]
, 2018 Duchenne muscular dystrophy (DMD) is caused by loss of dystrophin protein, leading to progressive muscle weakness and premature death due to respiratory and/or cardiac complications.
Ball, V +15 more
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Visual workflows for 13 C-metabolic flux analysis [PDF]
Bioinformatics, 2014 Abstract Motivation: The precise quantification of intracellular metabolic flow rates is of fundamental importance in bio(techno)logy and medical research. The gold standard in the field is metabolic flux analysis (MFA) with 13 C-labeling experiments. 13 C-MFA workflows orchestrate several, mainly human-in-the-loop, software applications,
Katharina, Nöh +2 more
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BMC Bioinformatics, 2017 Background Modeling of microbial metabolism is a topic of growing importance in biotechnology. Mathematical modeling helps provide a mechanistic understanding for the studied process, separating the main drivers from the circumstantial ones, bounding the
Garrett W. Birkel +8 more
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Imaging glutathione depletion in the rat brain using ascorbate-derived hyperpolarized MR and PET probes. [PDF]
, 2018 Oxidative stress is a critical feature of several common neurologic disorders. The brain is well adapted to neutralize oxidative injury by maintaining a high steady-state concentration of small-molecule intracellular antioxidants including glutathione in
Carroll, Valerie N +10 more
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13C Metabolic Flux Analysis of acetate conversion to lipids by Yarrowia lipolytica [PDF]
Metabolic Engineering, 2016 Volatile fatty acids (VFAs) are an inexpensive and renewable carbon source that can be generated from gas fermentation and anaerobic digestion of fermentable wastes. The oleaginous yeast Yarrowia lipolytica is a promising biocatalyst that can utilize VFAs and convert them into triacylglycerides (TAGs).
Nian, Liu +2 more
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Bioengineering, 2015 Metabolic engineering of various industrial microorganisms to produce chemicals, fuels, and drugs has raised interest since it is environmentally friendly, sustainable, and independent of nonrenewable resources.
Weihua Guo, Jiayuan Sheng, Xueyang Feng
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Hyperpolarized 13C-pyruvate MRI detects real-time metabolic flux in prostate cancer metastases to bone and liver: a clinical feasibility study. [PDF]
, 2020 BackgroundHyperpolarized (HP) 13C-pyruvate MRI is a stable-isotope molecular imaging modality that provides real-time assessment of the rate of metabolism through glycolytic pathways in human prostate cancer.
Aggarwal, Rahul +13 more
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