Synthetic Gene Networks

Methods and Protocols

  • Wilfried Weber
  • Martin Fussenegger

Part of the Methods in Molecular Biology book series (MIMB, volume 813)

Table of contents

  1. Front Matter
    Pages i-xi
  2. Design Strategies for Synthetic Gene Network

    1. Front Matter
      Pages 1-1
    2. Mario Andrea Marchisio
      Pages 3-21
    3. Kristian M. Müller, Katja M. Arndt
      Pages 23-43
    4. Dirk Lebiedz, Marcel Rehberg, Dominik Skanda
      Pages 45-55
    5. Diego di Bernardo, Lucia Marucci, Filippo Menolascina, Velia Siciliano
      Pages 57-81
  3. Development and Characterization of the Synthetic Biology Toolbox

    1. Front Matter
      Pages 83-83
    2. Julia E. Weigand, Alexander Wittmann, Beatrix Suess
      Pages 157-168
    3. Madeleine Leisner, Leonidas Bleris, Jason Lohmueller, Zhen Xie, Yaakov Benenson
      Pages 169-186
    4. Laszlo Kozma-Bognar, Anita Hajdu, Ferenc Nagy
      Pages 187-193
    5. Fuzhong Zhang, Kristian M. Müller, G. Andrew Woolley, Katja M. Arndt
      Pages 195-210
  4. Optimizing the Host Systems

    1. Front Matter
      Pages 227-227
  5. Implementation of Synthetic Gene Networks in Different Host Systems

    1. Front Matter
      Pages 285-285
    2. Nicolas Perry, Alexander J. Ninfa
      Pages 287-300
    3. Katie Brenner
      Pages 301-314
    4. Stephen Payne, Robert Phillip Smith, Lingchong You
      Pages 315-330
    5. Astrid Junker, Björn H. Junker
      Pages 343-358
    6. Maria Karlsson, Wilfried Weber, Martin Fussenegger
      Pages 359-376
    7. Michael M. Kämpf, Wilfried Weber
      Pages 377-389
  6. Back Matter
    Pages 391-393

About this book


The rapid expansion of synthetic biology is due to the design and construction of synthetic gene networks that have opened many new avenues in fundamental and applied research. Synthetic Gene Networks: Methods and Protocols provides the necessary information to design and construct synthetic gene networks in different host backgrounds. Divided into four convenient sections, this volume focuses on design concepts to devise synthetic gene networks and how mathematical models can be applied to the predictable engineering of desired network features. The volume continues by highlighting the construction and validation of biologic tools, describing strategies to optimize and streamline the host cell for optimized network performance, and covering how optimally designed gene networks can be implemented in a large variety of host cells ranging from bacteria over yeast and insect cells to plant and mammalian cell culture. Written in the successful Methods in Molecular Biology™ series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls.


Authoritative and easily accessible, Synthetic Gene Networks: Methods and Protocols serves as an invaluable resource for established biologists, engineers, and computer scientists or novices just entering into the rapidly growing field of synthetic biology


RNA-based networks complex cellular phenotypes complex lentiviral gene regulation isogenic human cell lines synthetic biology synthetic gene networks transcriptional logic

Editors and affiliations

  • Wilfried Weber
    • 1
  • Martin Fussenegger
    • 2
  1. 1.Inst. Biologie II, Zentrum für Biologische SignalstudienUniversität FreiburgFreiburgGermany
  2. 2.Dept. Ingenieurwissenschaften, Biosysteme (BSSE)ETH ZürichBaselSwitzerland

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media, LLC 2012
  • Publisher Name Humana Press
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-61779-411-7
  • Online ISBN 978-1-61779-412-4
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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