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  • © 2018

Cancer Systems Biology

Methods and Protocols

  • Includes cutting-edge methods and Protocols

  • Provides step-by-step detail essential for reproducibles results

  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1711)

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Table of contents (17 protocols)

  1. Front Matter

    Pages i-xi
  2. Systems Biology of the Cancer Genetic and Epigenetic Landscape

    1. Front Matter

      Pages 1-1
    2. Analyzing DNA Methylation Patterns During Tumor Evolution

      • Heng Pan, Olivier Elemento
      Pages 27-53
    3. MicroRNA Networks in Breast Cancer Cells

      • Andliena Tahiri, Miriam R. Aure, Vessela N. Kristensen
      Pages 55-81
    4. Identifying Genetic Dependencies in Cancer by Analyzing siRNA Screens in Tumor Cell Line Panels

      • James Campbell, Colm J. Ryan, Christopher J. Lord
      Pages 83-99Open Access
  3. Systems Analyses of Signaling Networks in Cancer Cells

    1. Front Matter

      Pages 101-101
    2. Phosphoproteomics-Based Profiling of Kinase Activities in Cancer Cells

      • Jakob Wirbel, Pedro Cutillas, Julio Saez-Rodriguez
      Pages 103-132Open Access
  4. Systems Analysis of Cancer Cell Metabolism

    1. Front Matter

      Pages 165-165
    2. Prediction of Clinical Endpoints in Breast Cancer Using NMR Metabolic Profiles

      • Leslie R. Euceda, Tonje H. Haukaas, Tone F. Bathen, Guro F. Giskeødegård
      Pages 167-189
  5. Systems Biology of Metastasis and Tumor/Microenvironment Interactions

    1. Front Matter

      Pages 191-191
    2. Mechanically Coupled Reaction-Diffusion Model to Predict Glioma Growth: Methodological Details

      • David A. Hormuth II, Stephanie L. Eldridge, Jared A. Weis, Michael I. Miga, Thomas E. Yankeelov
      Pages 225-241
    3. Profiling Tumor Infiltrating Immune Cells with CIBERSORT

      • Binbin Chen, Michael S. Khodadoust, Chih Long Liu, Aaron M. Newman, Ash A. Alizadeh
      Pages 243-259
    4. Systems Biology Approaches in Cancer Pathology

      • Aaron DeWard, Rebecca J. Critchley-Thorne
      Pages 261-273
  6. Modeling Drug Responses in Cancer Cells

    1. Front Matter

      Pages 275-275
    2. Bioinformatics Approaches to Predict Drug Responses from Genomic Sequencing

      • Neel S. Madhukar, Olivier Elemento
      Pages 277-296

About this book

This book comprises protocols describing systems biology methodologies and computational tools, offering a variety of ways to analyze different types of high-throughput cancer data. Chapters give an overview over data types available in large-scale data repositories and state-of-the-art methods used in the field of cancer systems biology.  Written in the highly 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Cancer Systems Biology : Methods and Protocols aims to ensure successful results in the further study of this vital field.

The chapters "Identifying Genetic Dependencies in Cancer by Analyzing siRNA Screens in Tumor Cell Line Panels", "Perseus: A Bioinformatics Platform for Integrative Analysis of Proteomics Data in Cancer Research" and "Phosphoproteomics-based Profiling of Kinase Activities in Cancer Cells" are available open access under a CC BY 4.0 license via link.springer.com.


Keywords

  • somatic mutational network
  • Bioinformatics
  • Mass Spectrometry
  • lipidomics
  • metastatic lesion
  • proteomics

Editors and Affiliations

  • NNF Center for Protein Research, University of Copenhagen, Copenhagen, Denmark

    Louise von Stechow

Bibliographic Information

  • Book Title: Cancer Systems Biology

  • Book Subtitle: Methods and Protocols

  • Editors: Louise von Stechow

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7493-1

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media LLC 2018

  • Hardcover ISBN: 978-1-4939-7492-4Published: 18 January 2018

  • Softcover ISBN: 978-1-4939-8503-6Published: 04 June 2019

  • eBook ISBN: 978-1-4939-7493-1Published: 17 January 2018

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 402

  • Number of Illustrations: 10 b/w illustrations, 76 illustrations in colour

  • Topics: Cancer Research

  • Industry Sectors: Biotechnology, Biotechnology, Consumer Packaged Goods, Health & Hospitals, Pharma

Buy it now

Buying options

eBook USD 69.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 89.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 119.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access