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Author: Costas D. Maranas
Publisher: John Wiley & Sons
ISBN: 1119189012
Category : Science
Languages : en
Pages : 278
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Book Description
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: Costas D. Maranas
Publisher: John Wiley & Sons
ISBN: 1119189012
Category : Science
Languages : en
Pages : 278
Get Book Here
Book Description
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
Publisher: Cambridge University Press
ISBN: 9781139437615
Category : Science
Languages : en
Pages : 328
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Book Description
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: Yanfeng Liu
Publisher: Academic Press
ISBN: 0128217537
Category : Science
Languages : en
Pages : 294
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Book Description
Systems and Synthetic Metabolic Engineering provides an overview of the development of metabolic engineering within medicine that is fueled by systems and synthetic biology. These newly developed, successful strategies of metabolic engineering guide the audience on how to propose and test proper strategies for metabolic engineering research. In addition to introductory, regulatory and challenges in the field, the book also covers dynamic control and autonomous regulation to control cell metabolism, along with computational modeling and industrial applications. The book is written by leaders in the field, making it ideal for synthetic biologists, researchers, students and anyone working in this area.
Author: Mourad Elloumi
Publisher: Springer Science & Business Media
ISBN: 3540706003
Category : Science
Languages : en
Pages : 613
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Book Description
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: Luonan Chen
Publisher: John Wiley & Sons
ISBN: 9780470488058
Category : Computers
Languages : en
Pages : 416
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Book Description
Alternative techniques and tools for analyzing biomolecular networks With the recent rapid advances in molecular biology, high-throughput experimental methods have resulted in enormous amounts of data that can be used to study biomolecular networks in living organisms. With this development has come recognition of the fact that a complicated living organism cannot be fully understood by merely analyzing individual components. Rather, it is the interactions of components or biomolecular networks that are ultimately responsible for an organism's form and function. This book addresses the important need for a new set of computational tools to reveal essential biological mechanisms from a systems biology approach. Readers will get comprehensive coverage of analyzing biomolecular networks in cellular systems based on available experimental data with an emphasis on the aspects of network, system, integration, and engineering. Each topic is treated in depth with specific biological problems and novel computational methods: GENE NETWORKS—Transcriptional regulation; reconstruction of gene regulatory networks; and inference of transcriptional regulatory networks PROTEIN INTERACTION NETWORKS—Prediction of protein-protein interactions; topological structure of biomolecular networks; alignment of biomolecular networks; and network-based prediction of protein function METABOLIC NETWORKS AND SIGNALING NETWORKS—Analysis, reconstruction, and applications of metabolic networks; modeling and inference of signaling networks; and other topics and new trends In addition to theoretical results and methods, many computational software tools are referenced and available from the authors' Web sites. Biomolecular Networks is an indispensable reference for researchers and graduate students in bioinformatics, computational biology, systems biology, computer science, and applied mathematics.
Author: Bernhard Palsson
Publisher: Cambridge University Press
ISBN: 1107038855
Category : Medical
Languages : en
Pages : 551
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Book Description
The first comprehensive single-authored textbook on genome-scale models and the bottom-up approach to systems biology.
Author: Valeria Mapelli
Publisher: Humana Press
ISBN: 9781493905621
Category : Science
Languages : en
Pages : 0
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Book Description
Yeast Metabolic Engineering: Methods and Protocols provides the widely established basic tools used in yeast metabolic engineering, while describing in deeper detail novel and innovative methods that have valuable potential to improve metabolic engineering strategies in industrial biotechnology applications. Beginning with an extensive section on molecular tools and technology for yeast engineering, this detailed volume is not limited to methods for Saccharomyces cerevisiae, but describes tools and protocols for engineering other yeasts of biotechnological interest, such as Pichia pastoris, Hansenula polymorpha and Zygosaccharomyces bailii. Tools and technologies for the investigation and determination of yeast metabolic features are described in detail as well as metabolic models and their application for yeast metabolic engineering, while a chapter describing patenting and regulations with a special glance at yeast biotechnology closes the volume. Written in the highly successful Methods in Molecular Biology series format, most chapters include an introduction to their respective topic, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls. Comprehensive and authoritative, Yeast Metabolic Engineering: Methods and Protocols aims to familiarize researchers with the current state of these vital and increasingly useful technologies.
Author: Gino J. Lim
Publisher: CRC Press
ISBN: 0849305691
Category : Business & Economics
Languages : en
Pages : 594
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Book Description
Thanks to recent advancements, optimization is now recognized as a crucial component in research and decision-making across a number of fields. Through optimization, scientists have made tremendous advances in cancer treatment planning, disease control, and drug development, as well as in sequencing DNA, and identifying protein structures. Op
Author: Allen Holder
Publisher: Springer Nature
ISBN: 3030564290
Category : Business & Economics
Languages : en
Pages : 175
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Book Description
This volume chronicles the high impact research career of Harvey Greenberg (1940-2018), and in particular, it reviews historical contributions, presents current research projects, and suggests future pursuits. This volume addresses several of his most distinguished hallmarks, including model analysis, model generation, infeasibility diagnosis, sensitivity analysis, parametric programming, energy modeling, and computational biology. There is also an overview chapter on the emergence of computational OR, and in particular, how literature venues have changed the course of OR research. He developed Computer-Assisted Analysis in the 1970s and 80s, creating an artificially intelligent environment for analyzing mathematical programming models and their results. This earned him the first INFORMS Computing Society (ICS) Prize for "research excellence in the interfaces between operations research and computer science" in 1986, notably for his software system, ANALYZE. In 1993, he wrote the first book in the Springer OR/CS Series entitled A Computer-Assisted Analysis System for Mathematical Programming Models and Solutions: A User’s Guide for ANALYZE. He applied OR methods to CS problems, ranging from using queuing theory for optimal list structure design to using integer programming for bioinformatic database search. He also applied CS to OR problems, ranging from super-sparse information structures to the use of compiler design in ANALYZE. This book can serve as a guide to new researchers, and will report the historical trajectory of OR as it solves current problems and forecasts future applications through the accomplishments of Harvey Greenberg.
Author: Raul Muñoz
Publisher: Woodhead Publishing
ISBN: 0081010273
Category : Technology & Engineering
Languages : en
Pages : 562
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Book Description
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
