Backward simulation for inferring hidden biomolecular kinetic profiles

Junghun Chae, Roktaek Lim, Cheol Min Ghim*, Pan Jun Kim*

*Corresponding author for this work

Research output: Contribution to journalJournal articlepeer-review

1 Citation (Scopus)

Abstract

Our backward simulation (BS) is an approach to infer the dynamics of individual components in ordinary differential equation (ODE) models, given the information on relatively downstream components or their sums. Here, we demonstrate the use of BS to infer protein synthesis rates with a given profile of protein concentrations over time in a circadian system. This protocol can also be applied to a wide range of problems with undetermined dynamics at the upstream levels. For complete details on the use and execution of this protocol, please refer to Lim et al. (2021).

Original languageEnglish
Article number100958
Number of pages12
JournalSTAR Protocols
Volume2
Issue number4
DOIs
Publication statusPublished - 17 Dec 2021

Scopus Subject Areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Neuroscience(all)
  • Immunology and Microbiology(all)

User-Defined Keywords

  • Biophysics
  • Computer sciences
  • Systems biology

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