Evolutionary Computation for the Inference of Natural Evolutionary Histories

[1]  C. Ofria,et al.  Adaptive Radiation from Resource Competition in Digital Organisms , 2004, Science.

[2]  W. H. Day.  Computational complexity of inferring phylogenies from dissimilarity matrices. , 1987, Bulletin of mathematical biology.

[3]  G. F. Joyce,et al.  Directed evolution of nucleic acid enzymes. , 2003, Annual review of biochemistry.

[4]  Hideo Matsuda,et al.  Construction of Phylogenetic Trees from Amino Acid Sequences using a Genetic Algorithm , 1995 .

[5]  A. Lemmon,et al.  The metapopulation genetic algorithm: An efficient solution for the problem of large phylogeny estimation , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[6]  Clare Bates Congdon.  Gaphyl: An Evolutionary Algorithms Approach For The Study Of Natural Evolution , 2002, GECCO.

[7]  Clare Bates Congdon,et al.  Phylogenetic trees using evolutionary search: initial progress in extending Gaphyl to work with genetic data , 2003, The 2003 Congress on Evolutionary Computation, 2003. CEC '03..

[8]  Jeremy T. Fineman,et al.  Reconstruction of Evolutionary Trees , 2011, Encyclopedia of Parallel Computing.

[9]  Matthew J. Brauer,et al.  Genetic algorithms and parallel processing in maximum-likelihood phylogeny inference. , 2002, Molecular biology and evolution.

[10]  Anna Rosa Garbuglia,et al.  Use of the Minimum Spanning Tree Model for Molecular Epidemiological Investigation of a Nosocomial Outbreak of Hepatitis C Virus Infection , 2004, Journal of Clinical Microbiology.

[11]  L. Buydens,et al.  Using genetic algorithms for the construction of phylogenetic trees: application to G-protein coupled receptor sequences. , 1999, Bio Systems.

[12]  Clare Bates Congdon.  Gaphyl: A Genetic Algorithms Approach to Cladistics , 2001, PKDD.

[13]  Kazutaka Katoh,et al.  Genetic Algorithm-Based Maximum-Likelihood Analysis for Molecular Phylogeny , 2001, Journal of Molecular Evolution.

[14]  Clare Bates CongdonComputer,et al.  Gaphyl : A Genetic Algorithm Approach to Cladistics , 2007 .

[15]  P. Lewis,et al.  A genetic algorithm for maximum-likelihood phylogeny inference using nucleotide sequence data. , 1998, Molecular biology and evolution.

[16]  Ming-Yang Kao,et al.  Phylogeny Reconstruction , 2008, Encyclopedia of Algorithms.

[17]  Lutgarde M. C. Buydens,et al.  Quality criteria of genetic algorithms for construction of phylogenetic trees , 1999, J. Comput. Chem..

[18]  J. Huelsenbeck,et al.  Application and accuracy of molecular phylogenies. , 1994, Science.

[19]  W. Fitch,et al.  Construction of phylogenetic trees. , 1967, Science.

[20]  Jian Shen,et al.  Discrete Branch Length Representations for Genetic Algorithms in Phylogenetic Search , 2004, EvoWorkshops.

[21]  M. Holder,et al.  Phylogeny estimation: traditional and Bayesian approaches , 2003, Nature Reviews Genetics.

[22]  Joel Cracraft,et al.  Assembling the tree of life , 2004 .

[23]  H. Lundhaug.  The Fruit of the Tree of Life , 2008 .

[24]  N. Pace.  A molecular view of microbial diversity and the biosphere. , 1997, Science.

[25]  H Matsuda,et al.  Protein phylogenetic inference using maximum likelihood with a genetic algorithm. , 1996, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.