Optimization Methods In Metabolic Networks

Author : Costas D. Maranas,Ali R. Zomorrodi
Publisher : John Wiley & Sons
Page : 288 pages
File Size : 45,7 Mb
Release : 2016-01-05
Category : Science
ISBN : 9781119189015

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Optimization Methods in Metabolic Networks by Costas D. Maranas,Ali R. Zomorrodi Pdf

Provides a tutorial on the computational tools that use mathematical optimization concepts and representations for the curation, analysis and redesign of metabolic networks Organizes, for the first time, the fundamentals of mathematical optimization in the context of metabolic network analysis Reviews the fundamentals of different classes of optimization problems including LP, MILP, MLP and MINLP Explains the most efficient ways of formulating a biological problem using mathematical optimization Reviews a variety of relevant problems in metabolic network curation, analysis and redesign with an emphasis on details of optimization formulations Provides a detailed treatment of bilevel optimization techniques for computational strain design and other relevant problems

Author : Néstor V. Torres,Eberhard O. Voit
Publisher : Cambridge University Press
Page : 328 pages
File Size : 41,6 Mb
Release : 2002-12-19
Category : Science
ISBN : 1139437615

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Pathway Analysis and Optimization in Metabolic Engineering by Néstor V. Torres,Eberhard O. Voit Pdf

Facility in the targeted manipulation of the genetic and metabolic composition of organisms, combined with unprecedented computational power, is forging a niche for a new subspecialty of biotechnology called metabolic engineering. First published in 2002, this book introduces researchers and advanced students in biology and engineering to methods of optimizing biochemical systems of biotechnological relevance. It examines the development of strategies for manipulating metabolic pathways, demonstrates the need for effective systems models, and discusses their design and analysis, while placing special emphasis on optimization. The authors propose power-law models and methods of biochemical systems theory toward these ends. All concepts are derived from first principles, and the text is richly illustrated with numerous graphs and examples throughout. Special features include: nontechnical and technical introductions to models of biochemical systems; a review of basic methods of model design and analysis; concepts of optimization; and detailed case studies.

Author : Diego Antonio Oyarzún Rodríguez
Publisher : Unknown
Page : 0 pages
File Size : 50,9 Mb
Release : 2010
Category : Hamilton Institute Theses
ISBN : OCLC:1429190319

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A Control-theoretic Approach to Dynamic Optimization of Metabolic Networks by Diego Antonio Oyarzún Rodríguez Pdf

Author : Marco Fondi
Publisher : Humana Press
Page : 410 pages
File Size : 52,5 Mb
Release : 2018-08-30
Category : Electronic
ISBN : 1493985116

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Metabolic Network Reconstruction and Modeling by Marco Fondi Pdf

This volume looks at the latest methodologies used to study cellular metabolism with in silico approaches. The chapters in this book are divided into 3 parts: part I discusses tools and methods used for metabolic reconstructions and basic constraint-based metabolic modeling (CBMM); Part II explores protocols for the generation of experimental data for metabolic reconstruction and modeling, including transcriptomics, proteomics, and mutant generations; and Part III cover advanced techniques for quantitative modeling of cellular metabolism, including dynamic Flux Balance Analysis and multi-objective optimization. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Metabolic Network Reconstruction and Modeling: Methods and Protocols is a valuable resource for qualified investigators studying cellular metabolism, and novice researchers who want to start working with CBMM.

Author : Young-Mo Kim,Chris Petzold,Eduard Kerkhoven,Scott E. Baker
Publisher : Frontiers Media SA
Page : 165 pages
File Size : 44,8 Mb
Release : 2022-01-31
Category : Science
ISBN : 9782889742370

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Multi-Omics Technologies for Optimizing Synthetic Biomanufacturing by Young-Mo Kim,Chris Petzold,Eduard Kerkhoven,Scott E. Baker Pdf

Author : Raul Muñoz,Cristina Gonzalez-Fernandez
Publisher : Woodhead Publishing
Page : 560 pages
File Size : 42,8 Mb
Release : 2017-06-13
Category : Technology & Engineering
ISBN : 9780081010273

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Microalgae-Based Biofuels and Bioproducts by Raul Muñoz,Cristina Gonzalez-Fernandez Pdf

Microalgae-Based Biofuels and Bioproducts: From Feedstock Cultivation to End Products compiles contributions from authors from different areas and backgrounds who explore the cultivation and utilization of microalgae biomass for sustainable fuels and chemicals. With a strong focus in emerging industrial and large scale applications, the book summarizes the new achievements in recent years in this field by critically evaluating developments in the field of algal biotechnology, whilst taking into account sustainability issues and techno-economic parameters. It includes information on microalgae cultivation, harvesting, and conversion processes for the production of liquid and gaseous biofuels, such as biogas, bioethanol, biodiesel and biohydrogen. Microalgae biorefinery and biotechnology applications, including for pharmaceuticals, its use as food and feed, and value added bioproducts are also covered. This book’s comprehensive scope makes it an ideal reference for both early stage and consolidated researchers, engineers and graduate students in the algal field, especially in energy, chemical and environmental engineering, biotechnology, biology and agriculture. Presents the most current information on the uses and untapped potential of microalgae in the production of bio-based fuels and chemicals Critically reviews the state-of-the-art feedstock cultivation of biofuels and bioproducts mass production from microalgae, including intermediate stages, such as harvesting and extraction of specific compounds Includes topics in economics and sustainability of large-scale microalgae cultivation and conversion technologies

Author : Christina Smolke
Publisher : CRC Press
Page : 680 pages
File Size : 41,5 Mb
Release : 2009-07-28
Category : Medical
ISBN : 9781439802977

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The Metabolic Pathway Engineering Handbook by Christina Smolke Pdf

This first volume of the Metabolic Pathway Engineering Handbook provides an overview of metabolic pathway engineering with a look towards the future. It discusses cellular metabolism, including transport processes inside the cell and energy generating reactions, as well as rare metabolic conversions. This volume also explores balances and reaction

Author : Mourad Elloumi,Josef Küng,Michal Linial,Robert Murphy,Kristan Schneider,Cristian Toma
Publisher : Springer Science & Business Media
Page : 613 pages
File Size : 52,9 Mb
Release : 2008-08-31
Category : Science
ISBN : 9783540706007

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Bioinformatics Research and Development by Mourad Elloumi,Josef Küng,Michal Linial,Robert Murphy,Kristan Schneider,Cristian Toma Pdf

This volume contains the papers which were selected for presentation at the second Bio- formatics Research and Development (BIRD) conference held in Vienna, Austria during July 7–9, 2008. BIRD covers a wide range of topics related to bioinformatics. This year sequence analysis and alignment, pathways, networks, systems biology, protein and RNA structure and function, gene expression/regulation and microarrays, databases and data integration, machine learning and data analysis were the subjects of main interest. The decisions of the Program Committee are based on the recommendations of at least three, up to five, reviews for each paper. As a result, 30 of the 61 submitted c- tributions could be accepted for the conference. We were happy to have three invited talks presented by experienced researchers providing visitors with a good overview but also some very important insights into the fascinating domain of bioinformatics. Abstracts and more information on these talks are provided in the conference program as well as at the conference site. In the second part of this volume the selected contributions of the two workshops which were held in parallel to the main conference are presented: Workshop on - namical Aspects of Perturbation, Intervention and Transition in Biological Systems – PETRIN 2008 and Workshop on Algorithms in Molecular Biology – ALBIO 2008 Poster presentations of the BIRD conference are in the companion proceedings published by the Trauner Verlag, Linz.

Author : Ravindra Pogaku
Publisher : Springer Nature
Page : 354 pages
File Size : 42,5 Mb
Release : 2019-10-12
Category : Science
ISBN : 9783030290696

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Horizons in Bioprocess Engineering by Ravindra Pogaku Pdf

This book is divided into four parts that outline the use of science and technology for applications pertaining to chemical and bioprocess engineering. The book endeavors to help academia, researchers, and practitioners to use the principles and tools of Chemical and Bioprocess Engineering in a pertinent way, while attempting to point out the novel thoughts associated with the brain storming concepts encountered. As an example, the ability to use case studies appropriately is more important, to most practitioners.

Author : Gade Pandu Rangaiah,Shivom Sharma
Publisher : World Scientific
Page : 452 pages
File Size : 53,5 Mb
Release : 2017-05-29
Category : Technology & Engineering
ISBN : 9789813207530

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Differential Evolution In Chemical Engineering: Developments And Applications by Gade Pandu Rangaiah,Shivom Sharma Pdf

Optimization plays a key role in the design, planning and operation of chemical and related processes for several decades. Techniques for solving optimization problems are of deterministic or stochastic type. Of these, stochastic techniques can solve any type of optimization problems and can be adapted for multiple objectives. Differential evolution (DE), proposed about two decades ago, is one of the stochastic techniques. Its algorithm is simple to understand and use. DE has found many applications in chemical engineering.This unique compendium focuses on DE, its recent developments and applications in chemical engineering. It will cover both single and multi-objective optimization. The book contains a number of chapters from experienced editors, and also several chapters from active researchers in this area.

Author : Swati Joshi,Ashok Pandey,Ranjna Sirohi,Sung Hoon Park
Publisher : Elsevier
Page : 526 pages
File Size : 48,8 Mb
Release : 2022-04-29
Category : Technology & Engineering
ISBN : 9780323885126

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Current Developments in Biotechnology and Bioengineering by Swati Joshi,Ashok Pandey,Ranjna Sirohi,Sung Hoon Park Pdf

Designer Microbial Cell Factories: Metabolic Engineering and Applications, the latest release in the Current Developments in Biotechnology and Bioengineering series, provides a detailed overview of the biotechnological approaches and strategies used to generate engineered microbes and to facilitate the acceleration, modulation and diversion of metabolic pathways to get desired output such as production of value-added compound or biodegradation of xenobiotic pollutant. The book also highlights applied aspects of designer microbes in fields as diverse as agriculture, pharmaceuticals and bioremediation. Designer microbes generated through reprogramming the microbial cell factories (MCFs) provide an edge over their natural counterparts in terms of increased molecular diversity and selective chemistry. These bugs are becoming instrumental in several areas, including agriculture, environment and human health. Engineering microbes through directed evolution not only gives freedom from evolutionary constrains but also allow introduction of regulated and foreseeable functions into MCFs. Dedicated to the designing of microbes, covering state-of-the-art technological advancements in the field Includes applications of metabolic engineering in the field of agriculture, bioremediation, value-added products, therapeutics, and more Contains chapters dedicated to innovative approaches surrounding engineered microbial consortia Provides comprehensive details and helps users understand concepts

Author : Marcello Balduccini,Tomi Janhunen
Publisher : Springer
Page : 359 pages
File Size : 45,6 Mb
Release : 2017-06-27
Category : Computers
ISBN : 9783319616605

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Logic Programming and Nonmonotonic Reasoning by Marcello Balduccini,Tomi Janhunen Pdf

This book constitutes the refereed proceedings of the 14th International Conference on Logic Programming and Nonmonotonic Reasoning, LPNMR 2017, held in Espoo, Finland, in July 2017. The 16 full papers and 11 short papers presented in this volume were carefully reviewed and selected from 47 submissions. The book also contains 4 invited talks. The papers were organized in topical sections named: nonmonotonic reasoning; answer set programming; LPNMR systems; and LPNMR applications.

Author : Ashok Shrawat,Adel Zayed,David A. Lightfoot
Publisher : Springer
Page : 273 pages
File Size : 49,9 Mb
Release : 2018-07-28
Category : Science
ISBN : 9783319929583

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Engineering Nitrogen Utilization in Crop Plants by Ashok Shrawat,Adel Zayed,David A. Lightfoot Pdf

This book discusses and addresses the rapidly increasing world population demand for food, which is expected to double by 2050. To meet these demands farmers will need to improve crop productivity, which relies heavily on nitrogen (N) fertilization. Production of N fertilizers, however, consumes huge amounts of energy and the loss of excess N fertilizers to leaching results in the pollution of waterways and oceans. Therefore, increasing plant nitrogen use efficiency (NUE) is essential to help farmers produce more while conserving the environment. This book assembles some of the best work of top researchers from academic and industrial institutions in the area of NUE and provides valuable insight to scholars and researchers by its comprehensive discussion of current and future strategies to improve NUE through genetic manipulation. This book should also be highly valuable to policy makers, environmentalists, farmers, biotechnology executives, and to the hard-core researchers working in the lab.

Author : Adrian Bonilla-Petriciolet,Gade Pandu Rangaiah
Publisher : John Wiley & Sons
Page : 384 pages
File Size : 40,8 Mb
Release : 2020-07-23
Category : Technology & Engineering
ISBN : 9781119580317

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Process Systems Engineering for Biofuels Development by Adrian Bonilla-Petriciolet,Gade Pandu Rangaiah Pdf

A comprehensive overview of current developments and applications in biofuels production Process Systems Engineering for Biofuels Development brings together the latest and most cutting-edge research on the production of biofuels. As the first book specifically devoted to process systems engineering for the production of biofuels, Process Systems Engineering for Biofuels Development covers theoretical, computational and experimental issues in biofuels process engineering. Written for researchers and postgraduate students working on biomass conversion and sustainable process design, as well as industrial practitioners and engineers involved in process design, modeling and optimization, this book is an indispensable guide to the newest developments in areas including: Enzyme-catalyzed biodiesel production Process analysis of biodiesel production (including kinetic modeling, simulation and optimization) The use of ultrasonification in biodiesel production Thermochemical processes for biomass transformation to biofuels Production of alternative biofuels In addition to the comprehensive overview of the subject of biofuels found in the Introduction of the book, the authors of various chapters have provided extensive discussions of the production and separation of biofuels via novel applications and techniques.

Author : Shangbin Chen,Alexey Zaikin
Publisher : Springer Nature
Page : 246 pages
File Size : 53,7 Mb
Release : 2021-02-09
Category : Medical
ISBN : 9789813340336

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Quantitative Physiology by Shangbin Chen,Alexey Zaikin Pdf

Stephen Hawking says that the 21st century will be the century of complexity and indeed now systems biology or medicine means dealing with complexity. Both the genome and physiome have emerged in studying complex physiological systems. Computational and mathematical modeling has been regarded as an efficient tool to boost the understanding about living systems in normal or pathophysiological states. Covering applied methodology, basic case studies and complex applications, this volume provides researchers with an overview of modeling and computational studies of physiology (i.e. quantitative physiology), which is becoming an increasingly important branch of systems biology. This book aims to build multi-scale models to investigate functions in living systems and explain how biomolecules, cells, organs, organ systems and organisms carry out the chemical or physical functions. Some of the models addressed are related to gene expression, calcium signalling, neural activity, blood dynamics and bone mechanics. Combining theory and practice, with extensive use of MATLAB, this book is designed to establish a paradigm for quantitative physiology by integrating biology, mathematics, physics and informatics etc. To benefit from this book, the readers are expected to have a background in general physiology and mathematics