Systems Biology / Edition 1

Systems Biology / Edition 1

by Ivan V. Maly
     
 

ISBN-10: 1934115649

ISBN-13: 9781934115640

Pub. Date: 03/26/2009

Publisher: Springer-Verlag New York, LLC

The rapidly developing methods of systems biology can help investigators to make inference and predictions from their data that intuition alone would not discern; however, the difficulty lies in the broad knowledge of mathematics and engineering that seems to be required to even evaluate the applicability of the methods to the problem at hand. In "Systems Biology",

Overview

The rapidly developing methods of systems biology can help investigators to make inference and predictions from their data that intuition alone would not discern; however, the difficulty lies in the broad knowledge of mathematics and engineering that seems to be required to even evaluate the applicability of the methods to the problem at hand. In "Systems Biology", scientists who possess that mathematical knowledge and have applied it effectively to various biological problems contribute methods which reflect their experience, crystallized in a form very similar to typical biological laboratory prools. In order to best aid researchers, the chapters supply the theory behind the method, its step-by-step implementation, and the pitfalls explained thoroughly and from the practical angle. As a volume of the highly successful Methods in Molecular Biology™ series, this work provides the kind of detailed description and implementation advice that is crucial for getting optimal results.

Cutting-edge and easy to use, "Systems Biology" shatters the perceived insurmountable barrier between the laboratory and systems-biological research techniques.

Product Details

ISBN-13:
9781934115640
Publisher:
Springer-Verlag New York, LLC
Publication date:
03/26/2009
Series:
Methods in Molecular Biology Series, #500
Edition description:
2009
Pages:
500
Product dimensions:
7.70(w) x 10.30(h) x 1.20(d)

Table of Contents

Part I: Introduction

1. Introduction: A Practical Guide to the Systems Approach in Biology
Ivan V. Maly

Part II: Methods for Analyzing Biomolecular Systems

2. Computational Modeling of Biochemical Networks Using COPASI
Pedro Mendes, Stefan Hoops, Sven Sahle, Ralph Gauges, Joseph Dada, and Ursula Kummer

3. Flux Balance Analysis (FBA): Interrogating Genome-Scale Metabolic Networks
Matthew A. Oberhardt, Arvind K. Chavali, and Jason A. Papin

4. Modeling Molecular Regulatory Networks with JigCell and PET
Clifford A. Shaffer, Jason W. Zwolak, Ranjit Randhawa, and John J. Tyson

5. Rule-Based Modeling of Biochemical Systems with BioNetGen
James R. Faeder, Michael L. Blinov, and William S. Hlavacek

6. Ingeneue: A Software Tool to Simulate and Explore Genetic Regulatory Networks
Kerry J. Kim

Part III: Spatial Analysis and Control of Cellular Processes

7. Microfluidics Technology for Systems Biology Research
C. Joanne Wang and Andre Levchenko

8. Systems Approach to Therapeutics Design
Bert J. Lao and Daniel T. Kamei

9. Rapid Creation, Monte Carlo Simulation, and Visualization of Realistic 3D Cell Models
Jacob Czech, Markus Dittrich, and Joel R. Stiles

10. A Cell Architecture Modeling System Based on Quantitative Ultrastructural Characteristics
Július Parulek, Miloš Šrámek, Michal Cervenanský, Marta Novotová, and Ivan Zahradník

11. Location Proteomics: Systematic Determination of Protein Subcellular Location
Justin Newberg, Juchang Hua, and Robert F. Murphy

Part IV: Methods for Larger-Scale Systems Analysis

12. Model-based Global Analysis of HeterogeneousExperimental Data Using gfit
Mikhail K. Levin, Manju M. Hingorani, Raquell M. Holmes, Smita S. Patel, and John H. Carson

13. 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. Glazier

14. BioLogic: A Mathematical Modeling Framework for Immunologists
Shlomo Ta’asan and Rima Gandlin

15. Dynamic Knowledge Representation Using Agent Based Modeling: Ontology Instantiation and Verification of Conceptual Models
Gary An

16. Systems Biology of Microbial Communities
Ali Navid, Cheol-Min Ghim, Andrew T. Fenley, Sooyeon Yoon, Sungmin Lee, and Eivind Almaas

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