Wolfgang Reisig

Falk Schreiber

Ina Koch

The emerging, multi-disciplinary field of systems biology is devoted to the study of the relationships between various parts of a biological system, and computer modeling plays a vital role in the drive to understand the processes of life from an holistic viewpoint. Advancements in experimental technologies in biology and medicine have generated an enormous amount of biological data on the dependencies and interactions of many different molecular cell processes, fueling the development of numerous computational methods for exploring this data. The mathematical formalism of Petri net theory is able to encompass many of these techniques. This essential text/reference presents a comprehensive overview of cutting-edge research in applications of Petri nets in systems biology, with contributions from an international selection of experts. Those unfamiliar with the field are also provided with a general introduction to systems biology, the foundations of biochemistry, and the basics of Petri net theory. Further chapters address Petri net modeling techniques for building and analyzing biological models, as well as network prediction approaches, before reviewing the applications to networks of different biological classification. Topics and features: investigates the modular, qualitative modeling of regulatory networks using Petri nets, and examines an Hybrid Functional Petri net simulation case study; contains a glossary of the concepts and notation used in the book, in addition to exercises at the end of each chapter; covers the topological analysis of metabolic and regulatory networks, the analysis of models of signaling networks, and the prediction of network structure; provides a biological case study on the conversion of logical networks into Petri nets; discusses discrete modeling, stochastic modeling, fuzzy modeling, dynamic pathway modeling, genetic regulatory network modeling, and quantitative analysis techniques; includes a Foreword by Professor Jens Reich, Professor of Bioinformatics at Humboldt University and Max Delbrück Center for Molecular Medicine in Berlin. This unique guide to the modeling of biochemical systems using Petri net concepts will be of real utility to researchers and students of computational biology, systems biology, bioinformatics, computer science, and biochemistry.

The Petri Net Approach

Modeling in Systems Biology

Grzegorz Rozenberg

The two-volume set originates from the Advanced Course on Petri Nets held in Dagstuhl, Germany in September 1996; beyond the lectures given there, additional chapters have been commissioned to give a well-balanced presentation of the state of the art in the area. Together with its companion volume "Lectures on Petri Nets II: Applications" this book is the actual reference for the area and addresses professionals, students, lecturers, and researchers who are - interested in systems design and would like to learn to use Petri nets familiar with subareas of the theory or its applications and wish to view the whole area - interested in learning about recent results presented within a unified framework - planning to apply Petri nets in practical situations - interested in the relationship of Petri nets to other models of concurrent systems.

Advances in Petri Nets

Lectures on Petri Nets I: Basic Models

With their intuitive graphical approach and expressive analysis techniques, Petri nets are suitable for a wide range of applications and teaching scenarios, and they have gained wide acceptance as a modeling technique in areas such as software design and control engineering. The core theoretical principles have been studied for many decades and there is now a comprehensive research literature that complements the extensive implementation experience. In this book the author presents a clear, thorough introduction to the essentials of Petri nets. He explains the core modeling techniques and analysis methods and he illustrates their usefulness with examples and case studies. Part I describes how to use Petri nets for modeling; all concepts are explained with the help of examples, starting with a generic, powerful model which is also intuitive and realistic. Part II covers the essential analysis methods that are specific to Petri nets, introducing techniques used to formulate key properties of system nets and algorithms for proving their validity. Part III presents case studies, each introducing new concepts, properties and analysis techniques required for very different modeling tasks. The author offers different paths among the chapters and sections: the elementary strand for readers who wish to study only elementary nets; the modeling strand for those who wish to study the modeling but not the analysis of systems; and finally the elementary models of the modeling strand for those interested in technically simple, but challenging examples and case studies. The author achieves an excellent balance between consistency, comprehensibility and correctness in a book of distinctive design. Among its characteristics, formal arguments are reduced to a minimum in the main text with many of the theoretical formalisms moved to an appendix, the explanations are supported throughout with fully integrated graphical illustrations, and each chapter ends with exercises and recommendations for further reading. The book is suitable for students of computer science and related subjects such as engineering, and for a broad range of researchers and practitioners.

Modeling Techniques, Analysis Methods, Case Studies

Understanding Petri Nets

The two-volume set originates from the Advanced Course on Petri Nets held in Dagstuhl, Germany in September 1996; beyond the lectures given there, additional chapters have been commissioned to give a well-balanced presentation of the state of the art in the area. Together with its companion volume "Lectures on Petri Nets I: Basic Models" this book is the actual reference for the area and addresses professionals, students, lecturers, and researchers who are - interested in systems design and would like to learn to use Petri nets familiar with subareas of the theory or its applications and wish to view the whole area - interested in learning about recent results presented within a unified framework - planning to apply Petri nets in practical situations - interested in the relationship of Petri nets to other models of concurrent systems.

Lectures on Petri Nets II: Applications

Hartmut Ehrig

Herbert Weber

This state-of-the-art survey in the Advances in Petri Nets series reports how various well-established and novel Petri net notions and techniques can be employed for modelling communication-based systems, with a particular focus on workflow management and business processes. The book builds on the success of a special program of the German Science Foundation (DFG) on Petri Net Technology as well as on broad participation from the international Petri net research community.

Petri Net Technology for Communication-Based Systems

Wilfried Brauer

Proceedings of an Advanced Course, Bad Honnef, 8.-19. September 1986

Advances in Petri Nets, 1986

This book offers an overview of the key ideas of Petri nets, how they were developed, and how they were applied in diverse applications. The chapters in the first part offer individual perspectives on the impact of Petri’s work. The second part of the book contains personal memories from researchers who collaborated with him closely, in particular they recount his unique personality. The chapters in the third part offer more conventional treatments on various aspects of current Petri net research, and the fourth part examines the wide applications of Petri nets, and the relationships with other domains. The editors and authors are the leading researchers in this domain, and this book will be a valuable insight for researchers in computer science, particularly those engaged with concurrency and distributed systems.

Carl Adam Petri: Ideas, Personality, Impact

Jörg Desel

This tutorial volume originates from the 4th Advanced Course on Petri Nets, ACPN 2003, held in Eichsttt, Germany in September 2003. In addition to lectures given at ACPN 2003, additional chapters have been commissioned to give a well-balanced presentation of the state of the art in the area. This book will be useful as both a reference for those working in the area as well as a study book for the reader who is interested in an up-to-date overview of research and development in concurrent and distributed systems; of course, readers specifically interested in theoretical or applicational aspects of Petri nets will appreciate the book as well.

Lectures on Concurrency and Petri Nets

This state-of-the-art survey in the Advances in Petri Nets series reports how various well-established and novel Petri net notions and techniques can be employed for modelling communication-based systems, with a particular focus on workflow management and business processes.The book builds on the success of a special program of the German Science Foundation (DFG) on Petri Net Technology as well as on broad participation from the international Petri net research community.

Nachum Dershowitz

Andreas Blass

Yuri Gurevich has played a major role in the discovery and development of - plications of mathematical logic to theoretical and practical computer science. His interests have spanned a broad spectrum of subjects, including decision p- cedures, the monadic theory of order, abstract state machines, formal methods, foundations of computer science, security, and much more. In May 2010, Yuri celebrated his 70th birthday. To mark that occasion, on August 22, 2010,a symposium was held in Brno, the Czech Republic, as a sat- lite event of the 35th International Symposium on Mathematical Foundations of Computer Science (MFCS 2010) and of the 19th EACSL Annual Conference on Computer Science Logic (CSL 2010). The meeting received generous support from Microsoft Research. In preparation for this 70th birthday event, we asked Yuri’s colleagues (whether or not they were able to attend the symposium) to contribute to a volume in his honor. This book is the result of that e?ort. The collection of articles herein begins with an academic biography, an annotated list of Yuri’s publications and reports, and a personaltribute by Jan Van den Bussche. These are followed by 28 technical contributions. These articles – though they cover a broad range of topics – represent only a fraction of Yuri’s multiple areas of interest. Each contribution was reviewed by one or two readers. In this regard, the editors wish to thank several anonymous individuals for their assistance.

Essays Dedicated to Yuri Gurevich on the Occasion of His 70th Birthday

Fields of Logic and Computation

Petri Nets represent a long and sustained effort· to develop concepts, theories and tools to aid in design and analysis of concurrent systems. They are used in many areas of computer science including software engineering, data base and in formation systems, computer architecture and operating systems, communication protocols and computer networks, process control, and socio-technical systems such as office communication and man-machine interaction. Quite substantial theory has been developed for Petri Nets. It reflects all major problem areas of concurrent distributed systems and covers many successfully applied principles and analysis techniques for systems organisation. Since the time that C. A. Petri has presented his original ideas, a rich body of knowledge has been developed-a recent bibliography (in Advances in Petri Nets 1981) includes more than 2000 entries. Already in 1979 an Advanced Course on Petri Nets was organized in Hamburg, West Germany, aiming at systematizing the existing knowledge and making it well accessible to a wide audience of computer scientists interested in theory and applications of concurrent systems. This course has turned out to be successful in the sense that it has initiated a lot of new research into applications and theory of Petri Nets. This had led to· another Advanced Course in 1986 in Bad Honnef, West Germany - where during two weeks more than 30 lectures were presented covering the most important current developments in the area of Petri Nets.

Advances in Petri Nets 1986, Part I Proceedings of an Advanced Course Bad Honnef, 8.–19. September 1986

Petri Nets: Central Models and Their Properties

Johann-Christoph Freytag

Die Informatik ist eine junge Wissenschaft, die sich durch einen rasanten technischen Fortschritt auszeichnet. Dadurch wird häufig übersehen, dass aktuelle Themen eine teilweise lange Entwicklungsgeschichte durchlaufen haben. Informatikprofessoren der Humboldt-Universität zu Berlin haben zu einigen ihrer aktuellen Arbeitsgebiete die Entwicklungslinien von den Anfängen bis Gegenwart mit einem Ausblick auf die mögliche Zukunft aufgezeichnet. Dieser spannende und lehrreiche Einblick in die Informatik öffnet die Tür zu einem umfassenden und nicht nur technologisch geprägten Verständnis.

Aktuelle Themen im historischen Kontext

Informatik

Helmut Plünnecke

This volume presents the proceedings of the 11th International Conference on Applications and Theory of Petri Nets held in Paris in 1991. It contains the Bibliography of Petri Nets 1990, with over 4000 entries.

Wolfgang Reisig

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