Systems Biology by Ivan V. MalySystems Biology by Ivan V. Maly

Systems Biology

byIvan V. Maly

Hardcover | March 26, 2009

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The rapidly developing methods of systems biology can help investigators in various areas of modern biomedical research to make inference and predictions from their data that intuition alone would not discern. Many of these methods, however, are commonly perceived as esoteric and inaccessible to biomedical researchers: Even evaluating their applicability to the problem at hand seems to require from the biologist a broad kno- edge of mathematics or engineering. This book is written by scientists who do possess such knowledge, who have successfully applied it to biological problems in various c- texts, and who found that their experience can be crystallized in a form very similar to a typical biological laboratory protocol. Learning a new laboratory procedure may at first appear formidable, and the int- ested researchers may be unsure whether their problem falls within the area of applicability of the new technique. The researchers will rely on the experience of others who have condensed it into a methods paper, with the theory behind the method, its step-by-step implementation, and the pitfalls explained thoroughly and from the practical angle. It is the intention of the authors of this book to make the methods of systems biology widely understood by biomedical researchers by explaining them in the same proven format of a protocol article.
Title:Systems BiologyFormat:HardcoverDimensions:500 pagesPublished:March 26, 2009Publisher:Springer-Verlag/Sci-Tech/TradeLanguage:English

The following ISBNs are associated with this title:

ISBN - 10:1934115649

ISBN - 13:9781934115640

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Table of Contents

Part I: Introduction1. Introduction: A Practical Guide to the Systems Approach in BiologyIvan V. Maly Part II: Methods for Analyzing Biomolecular Systems2. Computational Modeling of Biochemical Networks Using COPASIPedro Mendes, Stefan Hoops, Sven Sahle, Ralph Gauges, Joseph Dada, and Ursula Kummer3. Flux Balance Analysis (FBA): Interrogating Genome-Scale Metabolic NetworksMatthew A. Oberhardt, Arvind K. Chavali, and Jason A. Papin4. Modeling Molecular Regulatory Networks with JigCell and PETClifford A. Shaffer, Jason W. Zwolak, Ranjit Randhawa, and John J. Tyson5. Rule-Based Modeling of Biochemical Systems with BioNetGenJames R. Faeder, Michael L. Blinov, and William S. Hlavacek6. Ingeneue: A Software Tool to Simulate and Explore Genetic Regulatory NetworksKerry J. Kim Part III: Spatial Analysis and Control of Cellular Processes7. Microfluidics Technology for Systems Biology ResearchC. Joanne Wang and Andre Levchenko8. Systems Approach to Therapeutics DesignBert J. Lao and Daniel T. Kamei9. Rapid Creation, Monte Carlo Simulation, and Visualization of Realistic 3D Cell ModelsJacob Czech, Markus Dittrich, and Joel R. Stiles10. A Cell Architecture Modeling System Based on Quantitative Ultrastructural CharacteristicsJúlius Parulek, Milos Srámek, Michal Cervenanský, Marta Novotová, and Ivan Zahradník11. Location Proteomics: Systematic Determination of Protein Subcellular LocationJustin Newberg, Juchang Hua, and Robert F. Murphy Part IV: Methods for Larger-Scale Systems Analysis12. Model-based Global Analysis of HeterogeneousExperimental Data Using gfitMikhail K. Levin, Manju M. Hingorani, Raquell M. Holmes, Smita S. Patel, and John H. Carson13. Multi-Cell Simulations of Development and Disease Using the CompuCell3D Simulation Environment Maciej H. Swat, Susan D. Hester, Ariel I. Balter, Randy W. Heiland, Benjamin L. Zaitlen, and James A. Glazier14. BioLogic: A Mathematical Modeling Framework for ImmunologistsShlomo Ta'asan and Rima Gandlin15. Dynamic Knowledge Representation Using Agent Based Modeling: Ontology Instantiation and Verification of Conceptual ModelsGary An16. Systems Biology of Microbial CommunitiesAli Navid, Cheol-Min Ghim, Andrew T. Fenley, Sooyeon Yoon, Sungmin Lee, and Eivind Almaas

Editorial Reviews

From the reviews:"This volume considers systems biology in the broadest terms: the integration of experimental and mathematical approaches to biological systems with the aim of gaining both predictive and explanatory power. . the methods are clearly explained and well-illustrated . . Therefore, this volume will generally be of most value as an institutional purchase." (Conrad Nieduszynski, Microbiology Today, January, 2010)