Báo cáo khoa học: What makes biochemical networks tick? A graphical tool for the identification of oscillophores

What makes biochemical networks tick?

A graphical tool for the identification of oscillophores

Tác giả: Boris N. Goldstein, Gennady Ermakov, Josep J. Centelles, Hans V. Westerhoff, and Marta Cascante
Lĩnh vực: Biochemistry, Systems Biology, Theoretical Biophysics
Nội dung tài liệu:
This document introduces a novel graphical approach designed to identify the underlying causes of concentration oscillations in living cells. The method focuses on analyzing the topology of biochemical networks, classifying them as either “oscillophoretic” (capable of inducing oscillations) or “non-oscillophoretic” (incapable). The approach represents network topologies as graphs, where uni-molecular and bi-molecular reactions are organized into branched cycles. By analyzing “autoinfluence paths,” which quantify the influence of a molecular species on itself through a network path, the method can predict a network’s potential to generate oscillations. The paper demonstrates this approach by analyzing realistic biochemical examples and identifying new classes of oscillophore topologies.

Mục lục chi tiết:
– Introduction
– Graphical representation of kinetic influences
– How graphical structures relate to instability
– Subgraphs favoring instability
– Examples of biochemical oscillations
– Discussion
– References