Cooperativity, absolute interaction, and algebraic optimization - Sorbonne Université Access content directly
Journal Articles Journal of Mathematical Biology Year : 2020

Cooperativity, absolute interaction, and algebraic optimization

Abstract

We consider a measure of cooperativity based on the minimal interaction required to generate an observed titration behavior. We describe the corresponding algebraic optimization problem and show how it can be solved using the nonlinear algebra tool SCIP. Moreover, we compute the minimal interactions and minimal molecules for several binding polynomials that describe the oxygen binding of various hemoglobins under different conditions. We compare their minimal interaction with the maximal slope of the Hill plot, and discuss similarities and discrepancies with a view towards the shapes of the binding curves.
Fichier principal
Vignette du fichier
interaction.pdf (899.48 Ko) Télécharger le fichier
Origin Files produced by the author(s)
Loading...

Dates and versions

hal-02925505 , version 1 (29-08-2020)

Identifiers

Cite

Nidhi Kaihnsa, Yue Ren, Mohab Safey El Din, Johannes W R Martini. Cooperativity, absolute interaction, and algebraic optimization. Journal of Mathematical Biology, In press, ⟨10.1007/s00285-020-01540-8⟩. ⟨hal-02925505⟩
72 View
82 Download

Altmetric

Share

Gmail Mastodon Facebook X LinkedIn More