Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 10 of 10 for “"Genome scale models"”.
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Improving Methanosarcina genome-scale models for strain design by incorporating cofactor specificity and free energy constraints
Item withdrawn by Mark Zulauf (zulauf@illinois.edu) on 2013-04-22T20:19:19Z Item was in collections: University of Illinois Theses & Dissertations (ID: 1) No. of bitstreams: 2 Richards_Matthew.docx: 566731 bytes, checksum: 34f812c17c0944f31f7b5fba2a34d536 (MD5) Richards_Matthew.pdf: 1474395 bytes, …
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Total proton flux and balancing in genome-scale models: The case for the updated model of Clostridium acetobutylicum ATCC 824
Genome-scale modeling and new strategies for constraining these models were applied in this research to find new insights into cellular metabolism and identify potential metabolic engineering strategies. A newly updated genome-scale model for Clostridium acetobutylicum, iMM864, was constructed, …
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Efficient enzyme coupling algorithms identify functional pathways in genome-scale metabolic models
… whose fluxes are “coupled"" or correlated in genome-scale models. By identified sets of coupled reactions, modelers can 1.) reduce the dimensionality of genome-scale models, 2.) identify reactions that must be modulated together during metabolic engineering, and 3.) identify sets of important …
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Systems metabolic engineering through application of genome-scale metabolic flux modeling
… in systems metabolic engineering involves genome-scale metabolic flux modeling. These models allow generation of predictions of the global metabolic flux distribution in the metabolic network of organisms, in silico. With the current advances in genome sequencing technologies and the global …
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Systems metabolic engineering of Arabidopsis for increased cellulose production
… methods, predicting metabolic functions with genome-scale models had shown promising results in the recent years. Using sophisticated algorithms, such as flux balance analysis, OptKnock, and OptForce, we can predict flux distributions and design metabolic engineering strategies at a greater …
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Development of universal stoichiometric coefficients for modeling microalgal cultivation systems
… Water Association’s (IWA’s) Activated Sludge Models (ASMs). This work introduces universal stoichiometric coefficients for algal process modeling derived from the conserved enzymatic properties for seven algae species using 11 genome-scale models. The model parameters include yield …
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Identification of novel properties of metabolic systems through null-space analysis
Metabolic models provide a mathematical description of the complex network of biochemical reactions that sustain life. Among these, genome-scale models capture the entire metabolism of an organism, by encompassing all known biochemical reactions encoded by its genome. They are invaluable tools for …
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Computational methods for multi-omic models of cell metabolism and their importance for theoretical computer science
… is a challenging task. To this end, mathematical models of metabolic networks, called genome-scale metabolic models, contain all known metabolic reactions in an organism and can be analyzed with computational methods. In this dissertation, I propose a set of methods to investigate models of …
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Computer-assisted generation and curation of genome-scale metabolic models with case studies in the methanogen genus Methanosarcina
… work together to accomplish observed phenotypes. Genome-scale metabolic networks allow researchers to put information on individual parts of metabolism together in a way that is useful for making novel insights. For my first Ph.D. project, I built and carefully curated a genome-scale metabolic …
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Improving constraint-based metabolic models with deep learning
Submission published under a 24 month embargo labeled 'Closed Access', the embargo will last until 2025-05-01