Methods in Molecular Biology

Protein-Protein Interaction Networks

Methods and Protocols

Editors: Canzar, Stefan, Ringeling, Francisca Rojas (Eds.)

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  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
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About this book

This volume explores techniques that study interactions between proteins in different species, and combines them with context-specific data, analysis of omics datasets, and assembles individual interactions into higher-order semantic units, i.e., protein complexes and functional modules. The chapters in this book cover computational methods that solve diverse tasks such as the prediction of functional protein-protein interactions; the alignment-based comparison of interaction networks by SANA; using the RaptorX-ComplexContact webserver to predict inter-protein residue-residue contacts; the docking of alternative confirmations of proteins participating in binary interactions and the visually-guided selection of a docking model using COZOID; the detection of novel functional units by KeyPathwayMiner and how PathClass can use such de novo pathways to classify breast cancer subtypes. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary hardware- and software, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls.


Cutting-edge and comprehensive, Protein-Protein Interaction Networks: Methods and Protocols is a valuable resource for both novice and expert researchers who are interested in learning more about this evolving field.


Table of contents (18 chapters)

Table of contents (18 chapters)
  • Predicting Protein–Protein Interactions Using SPRINT

    Pages 1-11

    Li, Yiwei (et al.)

  • Automated Extraction and Visualization of Protein–Protein Interaction Networks and Beyond: A Text-Mining Protocol

    Pages 13-34

    Raja, Kalpana (et al.)

  • Construction of Functional Protein Networks Using Domain Profile Associations

    Pages 35-44

    Shim, Jung Eun (et al.)

  • Reconstruction of Protein–Protein Interaction Networks Using Homology-Based Search: Application to the Autophagy Pathway of Aging in Podospora anserina

    Pages 45-55

    Koch, Ina (et al.)

  • Predicting Interacting Protein Pairs by Coevolutionary Paralog Matching

    Pages 57-65

    Gueudré, Thomas (et al.)

Buy this book

eBook 130,89 €
price for Spain (gross)
  • ISBN 978-1-4939-9873-9
  • Digitally watermarked, DRM-free
  • Included format: EPUB, PDF
  • ebooks can be used on all reading devices
  • Immediate eBook download after purchase
Hardcover 166,39 €
price for Spain (gross)
  • ISBN 978-1-4939-9872-2
  • Free shipping for individuals worldwide
  • Usually dispatched within 3 to 5 business days.
  • The final prices may differ from the prices shown due to specifics of VAT rules
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Bibliographic Information

Bibliographic Information
Book Title
Protein-Protein Interaction Networks
Book Subtitle
Methods and Protocols
Editors
  • Stefan Canzar
  • Francisca Rojas Ringeling
Series Title
Methods in Molecular Biology
Series Volume
2074
Copyright
2020
Publisher
Springer US
Copyright Holder
Springer Science+Business Media, LLC, part of Springer Nature
eBook ISBN
978-1-4939-9873-9
DOI
10.1007/978-1-4939-9873-9
Hardcover ISBN
978-1-4939-9872-2
Series ISSN
1064-3745
Edition Number
1
Number of Pages
XI, 286
Number of Illustrations
18 b/w illustrations, 79 illustrations in colour
Topics