Quantitative molecular models for biological processes: Modeling of signal transduction networks with animo

Sakshi Khurana, Janet Huisman, Stefano Schivo, Janine N. Post*

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapterAcademicpeer-review

Abstract

Computational modeling of biological networks is increasing in popularity due to the increased demand for understanding biological processes. This understanding requires integration of a variety of experimental data that allows understanding of complex mechanisms regulating cell and tissue function. However, the mathematical complexity of many modeling tools have thusfar prevented broad adaptation and effective use by molecular biologists. In this chapter, we show by example how one can start building a model in ANIMO and how to adapt the model to experimental data. We show how this model can be used for simulating network activities, testing hypotheses, and how to improve the model using wet-lab data.

Original languageEnglish
Title of host publicationOsteoporosis and Osteoarthritis
EditorsAndre J. van Wijnen, Marina S. Ganshina
PublisherHumana Press Inc.
Pages141-161
Number of pages21
ISBN (Electronic)978-1-0716-0989-7
ISBN (Print)978-1-0716-0988-0
DOIs
Publication statusPublished - 2021

Publication series

NameMethods in Molecular Biology
Volume2221
ISSN (Print)1064-3745
ISSN (Electronic)1940-6029

Keywords

  • Computational model
  • Modeling tool
  • NFkB
  • Signal transduction network
  • Signaling cross talk
  • Signaling pathways
  • TGF beta
  • WNT

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