Reference

Glory of Genetic Programming in Automated Synthesis

Genetic Programming Innovations and Patents

Cellular Encoding
F. Gruau. Neural network synthesis using cellular encoding and the genetic algorithm. PhD thesis, Laboratoire de L'informatique     du Paralllisme, Ecole Normale Supriere de Lyon, Lyon, France, 1994. PDF 
Koza, John R. 2002. Automatic synthesis of both the topology and numerical parameters for complex structures using genetic programming. In Chakrabarti, Amaresh (editor). Engineering Design Synthesis. London: Springer 2002. Pages 319  PDF

Edge Encoding
Luke, S. and L. Spector. 1996. Evolving Graphs and Networks with Edge encoding: Preliminary Report. In Late Breaking Papers at the Genetic Programming 1996 Conference (GP96). J. Koza, ed. Stanford: Stanford Bookstore. 117-124. PDF

Direct Graph encoding (a non-scalable try)
Al Globus. John Lawton. Todd Wipke. JavaGenes: Evolving Graphs with Crossover
 

Evolutionary Synthesis of Electrical Circuits
Koza, John R., Bennett III, Forrest H, Andre, David, and Keane, Martin A. 2000. Automatic design of analog electrical circuits using genetic programming In Cartwright, Hugh (editor). Intelligent Data Analysis in Science. Oxford: Oxford University Press. Chapter 8. Pages 172 - 202. PDF.

Jason D. Lohn and Silvano P. Colombano, "Automated Analog Circuit Synthesis Using a Linear Representation,'' Second International Conference on Evolvable Systems: From Biology to Hardware, Springer-Verlag, 23-25 September 1998.

Evolutionary Synthesis of Controllers
Koza, John R., Keane, Martin A., Yu, Jessen, Bennett, Forrest H III, and Mydlowec, William. 2000. Automatic creation of human-competitive programs and controllers by means of genetic programming. Genetic Programming and Evolvable Machines. 1 (1 -2) 121 - 164. PDF.

Evolutionary Synthesis of Bond graphs
K. Seo, J. Hu, Z. Fan, E. D. Goodman, and R. C. Rosenberg, " Automated Design Approaches for Multi-Domain Dynamic Systems Using Bond Graphs and Genetic Programming," The International Journal of Computers, Systems and Signals, vol.3, no.1, pp.55-70, 2002. PDF

E. D. Goodman, K. Seo, R. C. Rosenberg, Z. Fan, J. Hu, and B. Zhang, "Automated Design Methodology for Mechatronic Systems Using Bond Graphs and Genetic Programming," 2002 NSF Design, Service and Manufacturing Grantees and Research Conference, January 7-10, 2002, San Juan, Puerto Rico, pp. 206-221. PDF

Evolutionary Synthesis of Neural Network
F. Gruau. Neural network synthesis using cellular encoding and the genetic algorithm. PhD thesis, Laboratoire de L'informatique     du Paralllisme, Ecole Normale Supriere de Lyon, Lyon, France, 1994. PDF 

Marylyn D. Ritchie,¹ Bill C. White,¹ Joel S. Parker,¹ Lance W. Hahn,¹ and Jason H. Moore. Optimization of neural network architecture using genetic programming improves detection and modeling of gene-gene interactions in studies of human diseases. BMC Bioinformatics. 2003; 4 (1): 28  PDF.

Kenneth O. Stanley and Risto Miikkulainen. Evolving neural networks through augumenting topologies. Evolutionary Computation 10(2):99-127, 2002. PDF

J. C. F. Pujol and R. Poli, Dual Network Representation applied to the Evolution of Neural Controllers, Seventh Annual Conference on Evolutionary Programming, LNCS, Vol. 1447, pp. 637-646, San Diego, March 25-27, 1998. Springer-Verlag. PDF

Evolutionary Synthesis of Communication Networks
Aiyarak, P., Saket, A.S. & Sinclair, M.C. Genetic programming approaches for minimum cost topology optimisation of optical telecommunication networks Proc. 2nd IEE/IEEE Intl. Conf. on Genetic Algorithms in Engineering Systems: Innovations and Applications (GALESIA'97), Glasgow, September 1997, pp.415-420
Evolutionary Telecommunications Bibliography

Evolutionary Synthesis of Molecules
Robert B. Nachbar, "Molecular Evolution: Automated Manipulation of Hierarchical Chemical Topology and Its Application to Average Molecular Structures Genetic Programming and Evolvable Machines  1 (1/2)   p.57-94  April 2000. PDF
Al Globus, John Lawton and Todd Wipke. Automatic evolution of molecular nanotechnology designs. Nanotechnology 10 (1999) 290–299. PDF

Evolutionary Synthesis of Digital Circuits

J. F. Miller, D. Job, and V. K. Vassilev "Principles in the Evolutionary Design of Digital Circuits -- Part I "
Journal of Genetic Programming and Evolvable Machines, Vol. 1, No. 1, 2000, pp. 8-35. PDF

J. F. Miller, D. Job, and V. K. Vassilev "Principles in the Evolutionary Design of Digital Circuits -- Part II "
Journal of Genetic Programming and Evolvable Machines, Vol. 3, No. 2, 2000, pp. 259-288. Ps.gz

J. F. Miller and P. Thomson "A Developmental Method for Growing Graphs and Circuits ", Fifth International Conference on Evolvable Systems: From Biology to Hardware,Trondheim, March 17-20, 2003, Proceedings published as Lecture Notes in Computer Science, Vol. 2606, pp. 93-104 , Tyrrell, Andy M., Haddow P., Torrensen J.(Eds.). PDF

J. F. Miller "Evolving developmental programs for adaptation, morphogenesis, and self-repair ", Seventh European Conference on Artificial Life, Dortmund, September 14-17, 2003, W. Banzhaf, T. Christaller, P. Dittrich, J. T. Kim, J. Ziegler (eds.), Lecture Notes in Artificial Intelligence, Vol. 2801, pp. 256-265 PDF