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).

Paper from Science

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).

Paper from Nature

Selective Pressures on Genomes in Molecular Evolution

Ofria C, Adami C, and Collier TC

J. theor. Biology 222:477-483 (2003).

Abstract / Paper

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).

Paper from Nature

Evolution of Biological Complexity

Adami C, Ofria C and Collier TC

Proc. Natl. Acad. Sci. USA 97:4463-4468 (2000).

Abstract Full Paper

Genome complexity, robustness and genetic interactions in digital organisms

Lenski RE, Ofria C, Collier TC, and Adami C

Nature 400:661-664 (1999).

Abstract

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).

Abstract Full Paper

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).

Paper

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).

Abstract Full Paper