Basic Phytochrome B Calculations

Robert W. Smith*, Christian Fleck

*Corresponding author for this work

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

2 Citations (Scopus)


Mathematical models are important tools in helping us to understand complex biological systems. Models of phytochrome-regulated systems in Arabidopsis thaliana have shown the importance of dimerization, nuclear transport, and thermal/dark reversion in mediating phytochrome activity and plant development. Here we go through the steps required to calculate the steady-state amounts of phytochrome subspecies relative to the total phytochrome molecule population. Starting from a simplified two-state system we expand and apply the technique to the extended phytochrome dimer model. Additionally, we provide a Python package that can automatically calculate the proportion of phytochrome B in a particular state given specific experimental conditions.

Original languageEnglish
Title of host publicationPhytochromes
Subtitle of host publicationMethods and Protocols
EditorsAndreas Hiltbrunner
PublisherHumana Press
Number of pages13
ISBN (Electronic)9781493996124
ISBN (Print)9781493996117
Publication statusPublished - 18 Jul 2019

Publication series

NameMethods in Molecular Biology
ISSN (Print)1064-3745


  • Computer programming
  • Mathematical modeling
  • Ordinary differential equations
  • Phytochromes


Dive into the research topics of 'Basic Phytochrome B Calculations'. Together they form a unique fingerprint.

Cite this