Using linkage logic theory to control dynamics of a gene regulatory network of a chordate embryo.

ABSTRACT: Linkage logic theory provides a mathematical criterion to control network dynamics by manipulating activities of a subset of network nodes, which are collectively called a feedback vertex set (FVS). Because many biological functions emerge from dynamics of biological networks, this theory provides a promising tool for controlling biological functions. By manipulating the activity of FVS molecules identified in a gene regulatory network (GRN) for fate specification of seven tissues in ascidian embryos, we previously succeeded in reproducing six of the seven cell types. Simultaneously, we discovered that the experimentally reconstituted GRN lacked information sufficient to reproduce muscle cells. Here, we utilized linkage logic theory as a tool to find missing edges in the GRN. Then, we iden

SUBMITTER: Kobayashi K 

PROVIDER: S-EPMC7889898 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature