Modeling notch signaling: A practical tutorial

Pau Formosa-Jordan, David Sprinzak

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

Abstract

Theoretical and computational approaches for understanding different aspects of Notch signaling and Notch dependent patterning are gaining popularity in recent years. These in silico methodologies can provide dynamic insights that are often not intuitive and may help guide experiments aimed at elucidating these processes. This chapter is an introductory tutorial intended to allow someone with basic mathematical and computational knowledge to explore new mathematical models of Notch-mediated processes and perform numerical simulations of these models. In particular, we explain how to define and simulate models of lateral inhibition patterning processes. We provide a Matlab code for simulating various lateral inhibition models in a simple and intuitive manner, and show how to present the results from the computational models. This code can be used as a starting point for exploring more specific models that include additional aspects of the Notch pathway and its regulation.

Original languageEnglish
Title of host publicationNotch Signaling
Subtitle of host publicationMethods and Protocols
PublisherHumana Press Inc.
Pages285-310
Number of pages26
ISBN (Print)9781493911387
DOIs
StatePublished - 2014

Publication series

NameMethods in Molecular Biology
Volume1187
ISSN (Print)1064-3745

Keywords

  • Cell-to-cell communication
  • Cis-interactions
  • Lateral inhibition
  • Mathematical modeling
  • Notch signaling
  • Pattern formation
  • Simulations

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