Network Biology

Methods and Applications

  • Gerard Cagney
  • Andrew Emili

Part of the Methods in Molecular Biology book series (MIMB, volume 781)

Table of contents

  1. Front Matter
    Pages i-xv
  2. Zuyao Ni, Jonathan B. Olsen, Andrew Emili, Jack F. Greenblatt
    Pages 31-45
  3. Mikael Bauer, Magdalena Maj, Ludwig Wagner, Dolores J. Cahill, Sara Linse, David J. O’Connell
    Pages 47-58
  4. Kim Blakely, Troy Ketela, Jason Moffat
    Pages 161-182
  5. Susana S. Neves, Laura L. Forrest
    Pages 183-235
  6. Gregory W. Clark, Vaqaar-un-Nisa Dar, Alexandr Bezginov, Jinghao M. Yang, Robert L. Charlebois, Elisabeth R. M. Tillier
    Pages 237-256
  7. Daniele Merico, Ruth Isserlin, Gary D. Bader
    Pages 257-277
  8. Alexei Vazquez, Jean-François Rual, Kavitha Venkatesan
    Pages 279-294
  9. Gabriel Musso, Andrew Emili, Zhaolei Zhang
    Pages 295-309
  10. David C. Y. Fung, Amy Lo, Lucy Jankova, Stephan J. Clarke, Mark Molloy, Graham R. Robertson et al.
    Pages 311-336
  11. Jennifer J. Smith, Ramsey A. Saleem, John D. Aitchison
    Pages 337-352
  12. Colm Ryan, Gerard Cagney, Nevan Krogan, Pádraig Cunningham, Derek Greene
    Pages 353-361
  13. Iain M. Wallace, Gary D. Bader, Guri Giaever, Corey Nislow
    Pages 363-376
  14. Benjamin Webb, Keren Lasker, Dina Schneidman-Duhovny, Elina Tjioe, Jeremy Phillips, Seung Joong Kim et al.
    Pages 377-397
  15. Sara Mostafavi, Anna Goldenberg, Quaid Morris
    Pages 399-414
  16. Alexander V. Ratushny, Stephen A. Ramsey, John D. Aitchison
    Pages 415-433
  17. Back Matter
    Pages 435-437

About this book


While extremely large datasets describing gene sequences, mRNA transcripts, protein abundance, and metabolite concentrations are increasingly commonplace, these represent only starting ‘parts lists’ that are usually insufficient to unlock mechanistic insights on their own right.  Fortunately, as Network Biology: Methods and Applications examines, concepts emerging from the study of biological entities such as networks (e.g. functional interactions linking genes, proteins, metabolites, etc.) suggest that order rather than chaos prevails, with such principles as modular and hierarchical organization, reactive information-driven causal-response behaviours, systems robustness, co-evolution, and self-organization guiding the way.  This volume presents detailed, practical descriptions of the experimental and computational approaches currently prevalent in network biology as written by practiced experts in the field.  Written in the highly successful Methods in Molecular Biology™ series format, relevant chapters contain introductions to their respective topics, lists of the necessary materials, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls.


Comprehensive and accessible, Network Biology: Methods and Applications provides an ensemble of procedures that will be of great value to a broad assortment of readers, ranging from graduate students to seasoned professionals looking to polish their skill sets.


Computational approaches Data analysis Experimental approaches Gene isoforms Gene sequences Interaction networks Metabolite concentrations Next-generation sequencing Protein complexes Quantitative ‘omic’ datasets mRNA transcripts

Editors and affiliations

  • Gerard Cagney
    • 1
  • Andrew Emili
    • 2
  1. 1.Conway Institute, Sch. Biomolecular & Biomedical ScienceUniversity College DublinDublinIreland
  2. 2.Donnelly Ctr Cell. & Biomolecular Res., Banting & Best Dept. Medical ResearchUniversity of TorontoTorontoCanada

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media, LLC 2011
  • Publisher Name Humana Press
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-61779-275-5
  • Online ISBN 978-1-61779-276-2
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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