Artificial Gene Regulatory Networks-A Review

被引:25
作者
Cussat-Blanc, Sylvain [1 ]
Harrington, Kyle [2 ]
Banzhaf, Wolfgang [3 ]
机构
[1] Univ Toulouse, IRIT, CNRS, UMR5505, Toulouse, France
[2] Univ Idaho, Computat & Phys Syst Grp, Virtual Technol & Design, Moscow, ID 83843 USA
[3] Michigan State Univ, BEACON Ctr Study Evolut Act, Dept Comp Sci & Engn, E Lansing, MI 48824 USA
基金
加拿大自然科学与工程研究理事会; 美国国家科学基金会;
关键词
Gene regulatory networks; evolutionary algorithms; morphogenesis; control dynamics; neuromodulation; EVOLUTION; EXPRESSION; ELEMENTS; BIOLOGY; SIMULATION; GENOME; TRANSCRIPTION; SEGMENTATION; EVOLVABILITY; ROBUSTNESS;
D O I
10.1162/artl_a_00267
中图分类号
TP18 [人工智能理论];
学科分类号
081104 ; 0812 ; 0835 ; 1405 ;
摘要
In nature, gene regulatory networks are a key mediator between the information stored in the DNA of living organisms (their genotype) and the structural and behavioral expression this finds in their bodies, surviving in the world (their phenotype). They integrate environmental signals, steer development, buffer stochasticity, and allow evolution to proceed. In engineering, modeling and implementations of artificial gene regulatory networks have been an expanding field of research and development over the past few decades. This review discusses the concept of gene regulation, describes the current state of the art in gene regulatory networks, including modeling and simulation, and reviews their use in artificial evolutionary settings. We provide evidence for the benefits of this concept in natural and the engineering domains.
引用
收藏
页码:296 / 328
页数:33
相关论文
共 152 条
[61]  
2
[62]   Improved leap-size selection for accelerated stochastic simulation [J].
Gillespie, DT ;
Petzold, LR .
JOURNAL OF CHEMICAL PHYSICS, 2003, 119 (16) :8229-8234
[63]  
Goodfellow I, 2016, ADAPT COMPUT MACH LE, P1
[64]   SIMULATION OF BIOLOGICAL CELL SORTING USING A 2-DIMENSIONAL EXTENDED POTTS-MODEL [J].
GRANER, F ;
GLAZIER, JA .
PHYSICAL REVIEW LETTERS, 1992, 69 (13) :2013-2016
[65]   Heterochromatin and epigenetic control of gene expression [J].
Grewal, SIS ;
Moazed, D .
SCIENCE, 2003, 301 (5634) :798-802
[66]  
Harrington K, 2017, FOURTEENTH EUROPEAN CONFERENCE ON ARTIFICIAL LIFE (ECAL 2017), P190
[67]   A circuit basis for morphogenesis [J].
Harrington, Kyle I. S. .
THEORETICAL COMPUTER SCIENCE, 2016, 633 :28-36
[68]  
Harris K.M., 2013, National Longitudinal Study of Adolescent to Adult Health [Restricted Use], P1
[69]   Engineered gene circuits [J].
Hasty, J ;
McMillen, D ;
Collins, JJ .
NATURE, 2002, 420 (6912) :224-230
[70]   Computational studies of gene regulatory networks:: In numero molecular biology [J].
Hasty, J ;
McMillen, D ;
Isaacs, F ;
Collins, JJ .
NATURE REVIEWS GENETICS, 2001, 2 (04) :268-279