Exploiting memory effects to detect the boundaries of biochemical subnetworks

Autor:	Harsh, Moshir, Vulpius, Leonhard Götz, Sollich, Peter
Rok vydání:	2023
Předmět:	Physics - Biological Physics Condensed Matter - Statistical Mechanics Physics - Data Analysis Statistics and Probability
Druh dokumentu:	Working Paper
Popis:	Partial measurements of biochemical reaction networks are ubiquitous and limit our ability to reconstruct the topology of the reaction network and the strength of the interactions amongst both the observed and the unobserved molecular species. Here, we show how we can utilize noisy time series of such partially observed networks to determine which species of the observed part form its boundary, i.e. have significant interactions with the unobserved part. This opens a route to reliable network reconstruction. The method exploits the memory terms arising from projecting the dynamics of the entire network onto the observed subnetwork. We apply it to the dynamics of the Epidermal Growth Factor Receptor (EGFR) network and show that it works even for substantial noise levels. Comment: Main text: 6 pages with 4 figures and Supplemental material: 13 pages with 9 figures
Databáze:	arXiv
Externí odkaz:	http://arxiv.org/abs/2310.12022 Zobrazit plný text záznamu View this record from Arxiv