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  • Textbook
  • © 2015

A Guide to Numerical Modelling in Systems Biology

  • Mathematics without theorems in clear orientation towards systems biology

  • Many illustrative examples to explain details

  • Guide to software indicating its strengths and weaknesses

  • Includes supplementary material: sn.pub/extras

Part of the book series: Texts in Computational Science and Engineering (TCSE, volume 12)

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  • ISBN: 978-3-319-20059-0
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Table of contents (3 chapters)

  1. Front Matter

    Pages i-x
  2. ODE Models for Systems Biological Networks

    • Peter Deuflhard, Susanna Röblitz
    Pages 1-32
  3. Numerical Simulation of ODE Models

    • Peter Deuflhard, Susanna Röblitz
    Pages 33-87
  4. Parameter Identification in ODE Models

    • Peter Deuflhard, Susanna Röblitz
    Pages 89-138
  5. Back Matter

    Pages 139-176

About this book

This book is intended for students of computational systems biology with only a limited background in mathematics. Typical books on systems biology merely mention algorithmic approaches, but without offering a deeper understanding. On the other hand, mathematical books are typically unreadable for computational biologists. The authors of the present book have worked hard to fill this gap. The result is not a book on systems biology, but on computational methods in systems biology. This book originated from courses taught by the authors at Freie Universität Berlin. The guiding idea of the courses was to convey those mathematical insights that are indispensable for systems biology, teaching the necessary mathematical prerequisites by means of many illustrative examples and without any theorems. The three chapters cover the mathematical modelling of biochemical and physiological processes, numerical simulation of the dynamics of biological networks, and identification of model parameters by means of comparisons with real data. Throughout the text, the strengths and weaknesses of numerical algorithms with respect to various systems biological issues are discussed. Web addresses for downloading the corresponding software are also included.

 

Keywords

  • mathematics in computational biology
  • mathematics in systems biology
  • numerical simulation
  • parameter identification
  • systems biological networks
  • ordinary differential equations

Reviews

“This book is structured in three chapters covering the ODE modeling for the identification and characterization of biological networks, the handling of numerical simulations for the proposed ODE models and the corresponding parameters identification, respectively. … included a list of numerical algorithms and software packages that facilitate the understanding of the ODE-related problems. … written in an accessible manner, with plenty of examples, making it a valuable addition to the series of textbooks in computational science and engineering.” (Irina Ioana Mohorianu, zbMATH, Vol. 1325.92001, 2016)

“It focuses almost solely on the mundane mathematical topic of ordinary differential equations (ODEs) and their parameter estimation … . the prime readership for this volume is to be found more amongst advanced researchers in systems biology trying to find reasons for unstable results of some ODE simulation or identification packages.” (L.-F. Pau, Computing Reviews, November, 2015)

Authors and Affiliations

  • Zuse-Institut Berlin (ZIB), Berlin, Germany

    Peter Deuflhard

  • Zuse Institute Berlin (ZIB), Berlin, Germany

    Susanna Röblitz

About the authors

Peter Deuflhard, founder of ZIB and co-founder of MATHEON in Berlin, has written successful books in numerical analysis and scientific computing (three of them with Springer).

Susanna Röblitz is Head of the research group Computational Systems Biology at ZIB and professor for Applied Mathematics and Bioinformatics at FU Berlin.

 

Bibliographic Information

Buying options

eBook USD 39.99
Price excludes VAT (USA)
  • ISBN: 978-3-319-20059-0
  • Instant PDF download
  • Readable on all devices
  • Own it forever
  • Exclusive offer for individuals only
  • Tax calculation will be finalised during checkout
Hardcover Book USD 69.99
Price excludes VAT (USA)