Repeated Sequences in Linear GP Genomes

Biological chromosomes are replete with repetitive sequences, microsatellites, SSR tracts, ALU, etc. in their DNA base sequences. We discover hierarchical repeating sequences (building blocks?) are evolved by genetic programming in linear time series prediction programs.

[1]  Howard Oakley,et al.  Two scientific applications of genetic programming: Stack filters and non-linear equation fitting to , 1994 .

[2]  Akito Taneda Adplot: detection and visualization of repetitive patterns in complete genomes , 2004, Bioinform..

[3]  J. Jurka,et al.  Microsatellites in different eukaryotic genomes: survey and analysis. , 2000, Genome research.

[4]  James V. Hansen,et al.  Genetic Programming Experiments with Standard and Homologous Crossover Methods , 2003, Genetic Programming and Evolvable Machines.

[5]  O. Elemento,et al.  Reconstructing the duplication history of tandemly repeated genes. , 2002, Molecular biology and evolution.

[6]  G. Benson,et al.  Tandem repeats finder: a program to analyze DNA sequences. , 1999, Nucleic acids research.

[7]  Joseph Felsenstein,et al.  An efficient method for matching nucleic acid sequences , 1982, Nucleic Acids Res..

[8]  P. Nordin,et al.  Explicitly defined introns and destructive crossover in genetic programming , 1996 .

[9]  Riccardo Poli,et al.  The evolution of size and shape , 1999 .

[10]  C Patience,et al.  Our retroviral heritage. , 1997, Trends in genetics : TIG.

[11]  Wolfgang Banzhaf,et al.  Genetic Programming: An Introduction , 1997 .

[12]  Peter Nordin,et al.  Homologous Crossover in Genetic Programming , 1999, GECCO.

[13]  Z. Izsvák,et al.  Repetitive elements and their genetic applications in zebrafish. , 1997, Biochemistry and cell biology = Biochimie et biologie cellulaire.

[14]  G. P. Smith,et al.  Evolution of repeated DNA sequences by unequal crossover. , 1976, Science.

[15]  L. Altenberg EMERGENT PHENOMENA IN GENETIC PROGRAMMING , 1994 .

[16]  Eric Coissac,et al.  Origin and fate of repeats in bacteria , 2002, Nucleic Acids Res..

[17]  Wolfgang Banzhaf,et al.  A comparison of linear genetic programming and neural networks in medical data mining , 2001, IEEE Trans. Evol. Comput..

[18]  William B. Langdon,et al.  Size fair and homologous tree genetic programming crossovers , 1999 .

[19]  William B. Langdon,et al.  Some Considerations on the Reason for Bloat , 2002, Genetic Programming and Evolvable Machines.

[20]  William B. Langdon,et al.  Convergence Rates For The Distribution Of Program Outputs , 2002, GECCO.

[21]  Walter Alden Tackett,et al.  Recombination, selection, and the genetic construction of computer programs , 1994 .

[22]  A. Smit,et al.  The origin of interspersed repeats in the human genome. , 1996, Current opinion in genetics & development.

[23]  W. B. Langdon,et al.  Genetic Programming and Data Structures , 1998, The Springer International Series in Engineering and Computer Science.

[24]  Li-Ching Hsieh,et al.  Model for the Growth of Bacterial Genomes , 2002 .

[25]  Kenneth A. Marx,et al.  Poly: a quantitative analysis tool for simple sequence repeat (SSR) tracts in DNA , 2003, BMC Bioinformatics.

[26]  R. Britten,et al.  Repeated Sequences in DNA , 1968 .

[27]  J. Lupski,et al.  Short, interspersed repetitive DNA sequences in prokaryotic genomes , 1992, Journal of bacteriology.