The Digital Evolution Laboratory at Michigan State University
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Devolab Publications

Journal Publications

Adaptive Radiation from Resource Competition in Digital Organisms
Chow S, Wilke CO, Ofria C, Lenski RE, and Adami C
Science 305:84-86 (2004).
Avida: A Software Platform for Research in Computational Evolutionary Biology
Ofria C and Wilke CO
Journal of Artificial Life 10:191-229 (2004).
Using Avida to Test the Effects of Natural Selection on Phylogenetic Reconstruction Methods
Hagstrom GI, Hang DH, Ofria C, and Torng E
Journal of Artificial Life 10:157-166 (2004).
Evolution and Detection of Genetic Robustness
de Visser JAGM, Hermisson J, Wagner GP, Ancel Meyers L, Bagheri-Chaichian H, Blanchard JL, Chao L, Cheverud JM, Elena SF, Fontana W, Gibson G, Hansen TF, Krakauer D, Lewontin RC, Ofria C, Rice SH, von Dassow G, Wagner A, and Whitlock MC
Evolution 57:1959-1972 (2003).
The Evolutionary Origin of Complex Features
Lenski RE, Ofria C, Pennock RT, and Adami C
Nature 423:139-144 (2003).
Selective Pressures on Genomes in Molecular Evolution
Ofria C, Adami C, and Collier TC
J. theor. Biology 222:477-483 (2003).
Design of Evolvable Computer Languages
Ofria C, Adami C, and Collier TC
IEEE Transactions in Evolutionary Computation 17:528-532 (2002).
Evolution of Digital Organisms at High Mutation Rate Leads To Survival of the Flattest
Wilke CO, Wang J, Ofria C, Adami C, and Lenski RE
Nature 412:331-333 (2001).
Evolution of Biological Complexity
Adami C, Ofria C and Collier TC
Proc. Natl. Acad. Sci. USA 97:4463-4468 (2000).
Genome complexity, robustness and genetic interactions in digital organisms
Lenski RE, Ofria C, Collier TC, and Adami C
Nature 400:661-664 (1999).
The evolution of differentiated expression patterns in digital organisms
Ofria C, Adami C, Collier TC, and Hsu GK
Lect. Notes Artif. Intell. 1674:129-138 (1999).

Conference Publications

Investigations in Meta-GAs: Panaceas or Pipe-Dreams?
Clune J, Goings S, Punch B, and Goodman E
Workshop Proceedings of the Genetic and Evolutionary Computation Conference (p. 235-241), Washington, D.C., June 25-29 (2005).
Measuring Biological Complexity in Digital Organisms
Huang W, Ofria C, and Torng E
Proceedings of the Ninth International Conference on Artificial Life (p. 315-321), Boston MA, Sept 12-15 (2004).
Kin Selection: The Rise and Fall of Kin-Cheaters
Goings S, Clune J, Ofria C, and Pennock R
Proceedings of the Ninth International Conference on Artificial Life (p. 303-308), Boston MA, Sept 12-15 (2004).
Sexual reproduction and Muller's ratchet in digital organisms
Misevic D, Lenski RE, and Ofria C
Proceedings of the Ninth International Conference on Artificial Life (p. 340-345), Boston MA, Sept 12-15 (2004).
The Effect of Natural Selection on Phylogeny Reconstruction Algorithms
Hang D, Ofria C, Schmidt TS, Torng E
Proceedings of the 2003 Genetic and Evolutionary Computation Conference p.13-24 (2003).
Evolution of stable ecosystems in populations of digital organisms
Cooper T and Ofria C
Eighth International Conference on Artificial Life p.227-232 Dec 9-13, Sydney NSW Australlia, Russell K. Standish, Mark A. Bedau and Hussein A. Abbass (eds.)(2002).
Evolution of Genetic Organization in Digital Organisms
Ofria C and Adami C
Proc. of DIMACS workshop "Evolution as Computation" p. 167, Jan 11-12 Princeton, NJ, Landweber L and Winfree E (eds.) (1999).

Non-Refereed Publications

The Avida Technical Manual
Ofria C, Brown CT, and Adami C
Published in Introduction to Artificial Life by Christoph Adami
Telos Springer Verlag, New York 1998, pages 297-350.
The Avida Artificial Life Platform
Ofria C, Wilke C, Collier TC, Adami C, Brown CT, Adler D, Hsu GK
Included on CD with Introduction to Artificial Life by Christoph Adami
Telos Springer Verlag, New York 1998, pages 297-350.
Evolution of genetic codes
Ph.D. Thesis of C. Ofria
The California Institue of Technology (1999).
Last Updated Fri Jul 18, 2008