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Case Studies in Systems Biology

  • Textbook
  • © 2021

Overview

Editors:
  1. Pavel Kraikivski

    1. Academy of Integrated Science, Division of Systems Biology, Virginia Polytechnic Institute and State University, Blacksburg, USA

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  • One of the first book on systems biology for the classroom
  • Offers flexible way to choose the topics
  • Each chapter can be used as an independent project
  • Features contributions from key scientists in the field, such as Drs. John Tyson, Alex Mogilner nad Jae Kyoung Kim

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Table of contents (18 chapters)

  1. Front Matter

    Pages i-viii
    Download chapter PDF

  2. Mitotic Cycle Regulation. I. Oscillations and Bistability

    • John J. Tyson
    Pages 1-17

  3. Mitotic Cycle Regulation. II. Traveling Waves

    • John J. Tyson
    Pages 19-40

  4. Cell Cycle Regulation. Bifurcation Theory

    • John J. Tyson
    Pages 41-57

  5. Glycolytic Oscillations

    • Pavel Kraikivski
    Pages 59-68

  6. NF-κB Spiky Oscillations

    • Pavel Kraikivski
    Pages 69-77

  7. Tick, Tock, Circadian Clocks

    • Jae Kyoung Kim
    Pages 79-94

  8. Spruce Budworm and the Forest

    • Lauren M. Childs
    Pages 95-108

  9. Modeling cAMP Oscillations in Budding Yeast

    • Amogh Jalihal
    Pages 109-122

  10. Synchronization of Oscillatory Gene Networks

    • Pavel Kraikivski
    Pages 123-136

  11. The lac Operon

    • Pavel Kraikivski
    Pages 137-147

  12. Fate Decisions of CD4+ T Cells

    • Andrew Willems, Tian Hong
    Pages 149-162

  13. Stochastic Gene Expression

    • Jing Chen
    Pages 163-194

  14. Collective Molecular Motor Transport

    • Christopher Miles, Alex Mogilner
    Pages 195-208

  15. Principle of Cooperativity in Olfactory Receptor Selection

    • Jianhua Xing, Hang Zhang
    Pages 209-227

  16. Applying Quantitative Systems Pharmacology (QSP) Modeling to Understand the Treatment of Pneumocystis

    • Tongli Zhang
    Pages 229-243

  17. Virus Dynamics

    • Stanca M. Ciupe, Jonathan E. Forde
    Pages 245-261

  18. Identifying Virus-Like Regions in Microbial Genomes Using Hidden Markov Models

    • Frank O. Aylward
    Pages 263-270

  19. Computational Software

    • Pavel Kraikivski
    Pages 271-297

  20. Back Matter

    Pages 299-310
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Keywords

About this book

This book provides case studies that can be used in Systems Biology related classes. Each case study has the same structure which answers the following questions: What is the biological problem and why is it interesting? What are the relevant details with regard to cell physiology and molecular mechanisms? How are the details put together into a mathematical model? How is the model analyzed and simulated? What are the results of the model? How do they compare to the known facts of the cell physiology? Does the model make predictions? What can be done to extend the model? The book presents a summary of results and references to more relevant sources.

The volume contains the classic collection of topics and studies that are well established yet novel in the systems biology field. 

Editors and Affiliations

  • Academy of Integrated Science, Division of Systems Biology, Virginia Polytechnic Institute and State University, Blacksburg, USA

    Pavel Kraikivski

About the editor

Dr. Kraikivski is a Professor in Academy of integrated Science, Division of Systems Biology at Virginia Tech where he teaches Systems Biology and Integrated Science classes. His current research focus is on developing a generic computational model of cancer which can successfully explain high-throughput genetic, proteomic and phenotypic Big Data. He is a biophysicist and systems biologist by training with more than 25 peer-reviewed publications on cell cycle regulation, intracellular transport, anomalous diffusion and dynamics of biopolymers. He is a member of several journals’ editorial boards and he also was involved in book editing and writing chapters in biophysics, computational and systems biology fields.

Bibliographic Information

  • Book Title: Case Studies in Systems Biology

  • Editors: Pavel Kraikivski

  • DOI: https://doi.org/10.1007/978-3-030-67742-8

  • Publisher: Springer Cham

  • eBook Packages: Computer Science, Computer Science (R0)

  • Copyright Information: Springer Nature Switzerland AG 2021

  • Hardcover ISBN: 978-3-030-67741-1Published: 07 October 2021

  • Softcover ISBN: 978-3-030-67744-2Published: 07 October 2022

  • eBook ISBN: 978-3-030-67742-8Published: 06 October 2021

  • Edition Number: 1

  • Number of Pages: VIII, 310

  • Number of Illustrations: 24 b/w illustrations, 80 illustrations in colour

  • Topics: Systems Biology, Gene Function, Stem Cells

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