Artificial Gene Regulatory Sylvain Cussat-Blanc* — University of Toulouse Networks A Review IRIT - CNRS - UMR5505
[email protected] Kyle Harrington University of Idaho Computational and Physical Systems Group Abstract In nature, gene regulatory networks are a key mediator Virtual Technology and Design between the information stored in the DNA of living organisms
[email protected] (their genotype) and the structural and behavioral expression this finds in their bodies, surviving in the world (their phenotype). Wolfgang Banzhaf They integrate environmental signals, steer development, buffer stochasticity, and allow evolution to proceed. In engineering, Michigan State University modeling and implementations of artificial gene regulatory BEACON Center for the Study of networks have been an expanding field of research and Evolution in Action development over the past few decades. This review discusses Department of Computer Science the concept of gene regulation, describes the current state of and Engineering the art in gene regulatory networks, including modeling and
[email protected] simulation, and reviews their use in artificial evolutionary settings. We provide evidence for the benefits of this concept in natural and the engineering domains. Keywords Gene regulatory networks, evolutionary algorithms, morphogenesis, control dynamics, neuromodulation 1 Introduction Ever since the seminal 1975 article by King and Wilson [88], the biological community has been aware that there is more to the genome than nucleic acid sequences translated into amino acid sequences. However, the apparatus for transcription and translation of DNA information into protein function has been studied since the 1950s, leading to the “Central Dogma” of Molecular Biology [25, 26]. By that time Schroedinger in his famous 1944 work on life [128] had already alluded to the possibility of an executing role (i.e., more than an information template role) for his “aperiodic crystal” at the foundation of life.