Genetic Design Automation

This textbook introduces readers to the recent advances in the emerging field of genetic design automation (GDA). Starting with an introduction and the basic concepts of molecular biology, the authors provide an overview of various genetic design automation tools. The authors then present the DVASim tool (Dynamic Virtual Analyzer and Simulator) which is used for the analysis and verification of genetic logic circuits. This includes methods and algorithms for the timing and threshold value analyses of genetic logic circuits. Next, the book presents the GeneTech tool (A technology mapping tool for genetic circuits) and the methods developed for optimization, synthesis, and technology mapping of genetic circuits. Chapters are followed by exercises which give readers hands-on practice with the tools presented. The concepts and algorithms are thoroughly described, enabling readers to improve the tools or use them as a starting point to develop new tools. Both DVASim and GeneTech are available from the developer’s website, free of charge. This book is intended for a multidisciplinary audience of computer scientists, engineers and biologists. It provides enough background knowledge for computer scientists and engineers, who usually do not have any background in biology but are interested to get involved in this domain. This book not only presents an accessible basic introduction to molecular biology, it also includes software tools which allow users to perform laboratory experiments in a virtual in-silico environment. This helps newbies to get a quick start in understanding and developing genetic design automation tools. The third part of this book is particular useful for biologists who usually find it difficult to grasp programming and are reluctant to developing computer software. They are introduced to the graphical programming language, LabVIEW, from which they can start developing computer programs rapidly. Readers are further provided with small projects which will help them to start developing GDA tools.

The last few years have seen important advances in the use ofgenetic algorithms to address challenging optimization problems inindustrial engineering. Genetic Algorithms and Engineering Designis the only book to cover the most recent technologies and theirapplication to manufacturing, presenting a comprehensive and fullyup-to-date treatment of genetic algorithms in industrialengineering and operations research. Beginning with a tutorial on genetic algorithm fundamentals andtheir use in solving constrained and combinatorial optimizationproblems, the book applies these techniques to problems in specificareas--sequencing, scheduling and production plans, transportationand vehicle routing, facility layout, location-allocation, andmore. Each topic features a clearly written problem description,mathematical model, and summary of conventional heuristicalgorithms. All algorithms are explained in intuitive, rather thanhighly-technical, language and are reinforced with illustrativefigures and numerical examples. Written by two internationally acknowledged experts in the field,Genetic Algorithms and Engineering Design features originalmaterial on the foundation and application of genetic algorithms,and also standardizes the terms and symbols used in othersources--making this complex subject truly accessible to thebeginner as well as to the more advanced reader. Ideal for both self-study and classroom use, this self-containedreference provides indispensable state-of-the-art guidance toprofessionals and students working in industrial engineering,management science, operations research, computer science, andartificial intelligence. The only comprehensive, state-of-the-arttreatment available on the use of genetic algorithms in industrialengineering and operations research . . . Written by internationally recognized experts in the field ofgenetic algorithms and artificial intelligence, Genetic Algorithmsand Engineering Design provides total coverage of currenttechnologies and their application to manufacturing systems.Incorporating original material on the foundation and applicationof genetic algorithms, this unique resource also standardizes theterms and symbols used in other sources--making this complexsubject truly accessible to students as well as experiencedprofessionals. Designed for clarity and ease of use, thisself-contained reference: * Provides a comprehensive survey of selection strategies, penaltytechniques, and genetic operators used for constrained andcombinatorial optimization problems * Shows how to use genetic algorithms to make production schedules,solve facility/location problems, make transportation/vehiclerouting plans, enhance system reliability, and much more * Contains detailed numerical examples, plus more than 160auxiliary figures to make solution procedures transparent andunderstandable

The explosive growth and development of the integrated circuit market over the last few years have been mostly limited to the digital VLSI domain. The difficulty of automating the design process in the analog domain, the fact that a general analog design methodology remained undefined, and the poor performance of earlier tools have left the analog

Scientific advances over the past several decades have accelerated the ability to engineer existing organisms and to potentially create novel ones not found in nature. Synthetic biology, which collectively refers to concepts, approaches, and tools that enable the modification or creation of biological organisms, is being pursued overwhelmingly for beneficial purposes ranging from reducing the burden of disease to improving agricultural yields to remediating pollution. Although the contributions synthetic biology can make in these and other areas hold great promise, it is also possible to imagine malicious uses that could threaten U.S. citizens and military personnel. Making informed decisions about how to address such concerns requires a realistic assessment of the capabilities that could be misused. Biodefense in the Age of Synthetic Biology explores and envisions potential misuses of synthetic biology. This report develops a framework to guide an assessment of the security concerns related to advances in synthetic biology, assesses the levels of concern warranted for such advances, and identifies options that could help mitigate those concerns.

As the complexity of electronic systems continues to increase, the micro-electronic industry depends upon automation and simulations to adapt quickly to market changes and new technologies. Compiled from chapters contributed to CRC's best-selling VLSI Handbook, this volume of the Principles and Applications in Engineering series covers a broad rang

With asynchronous circuit design becoming a powerful tool in thedevelopment of new digital systems, circuit designers are expectedto have asynchronous design skills and be able to leverage them toreduce power consumption and increase system speed. This book walksreaders through all of the different methodologies of asynchronouscircuit design, emphasizing practical techniques and real-worldapplications instead of theoretical simulation. The only guide ofits kind, it also features an ftp site complete with supportmaterials. Market: Electrical Engineers, Computer Scientists, DeviceDesigners, and Developers in industry. An Instructor Support FTP site is available from the Wileyeditorial department.

New Frontiers and Applications of Synthetic Biology presents a collection of chapters from eminent synthetic biologists across the globe who have established experience and expertise working with synthetic biology. This book offers several important areas of synthetic biology which allow us to read and understand easily. It covers the introduction of synthetic biology and design of promoter, new DNA synthesis and sequencing technology, genome assembly, minimal cells, small synthetic RNA, directed evolution, protein engineering, computational tools, de novo synthesis, phage engineering, a sensor for microorganisms, next-generation diagnostic tools, CRISPR-Cas systems, and more. This book is a good source for not only researchers in designing synthetic biology, but also for researchers, students, synthetic biologists, metabolic engineers, genome engineers, clinicians, industrialists, stakeholders and policymakers interested in harnessing the potential of synthetic biology in many areas. Offers basic understanding and knowledge in several aspects of synthetic biology Covers state-of-the-art tools and technologies of synthetic biology, including promoter design, DNA synthesis, DNA sequencing, genome design, directed evolution, protein engineering, computational tools, phage design, CRISPR-Cas systems, and more Discusses the applications of synthetic biology for smart drugs, vaccines, therapeutics, drug discovery, self-assembled materials, cell free systems, microfluidics, and more

This book applies to the scientific area of electronic design automation (EDA) and addresses the automatic sizing of analog integrated circuits (ICs). Particularly, this book presents an approach to enhance a state-of-the-art layout-aware circuit-level optimizer (GENOM-POF), by embedding statistical knowledge from an automatically generated gradient model into the multi-objective multi-constraint optimization kernel based on the NSGA-II algorithm. The results showed allow the designer to explore the different trade-offs of the solution space, both through the achieved device sizes, or the respective layout solutions.