For modeling and analyzing regulatory networks based on qualitative information and possibly additional temporal constraints, approaches using hybrid automata can be very helpful. ...
Background: A gene-regulatory network (GRN) refers to DNA segments that interact through their RNA and protein products and thereby govern the rates at which genes are transcribed...
Martin T. Swain, Johannes J. Mandel, Werner Dubitz...
Background: High complexity is considered a hallmark of living systems. Here we investigate the complexity of temporal gene expression patterns using the concept of Permutation En...
Xiaoliang Sun, Yong Zou, Victoria J. Nikiforova, J...
Background: The functions of human cells are carried out by biomolecular networks, which include proteins, genes, and regulatory sites within DNA that encode and control protein e...
In this paper we present an evolutionary approach for inferring the structure and dynamics in gene circuits from observed expression kinetics. For representing the regulatory inte...