- author = "John R. Koza and David Andre",
- title = "Automated discovery of protein motifs with genetic programming",
- booktitle = "Working Notes for the AAAI Symposium on Genetic Programming",
- year = "1995",
- editor = "E. V. Siegel and J. R. Koza",
- pages = "38--49",
- address = "MIT, Cambridge, MA, USA",
- publisher_address = "445 Burgess Drive, Menlo Park, CA 94025, USA",
- month = "10--12 " # nov,
- publisher = "AAAI",
- keywords = "genetic algorithms, genetic programming",
-
URL = "
http://www.genetic-programming.com/jkpdf/aaai1995fallsymmotif.pdf",
-
URL = "http://www.aaai.org/Papers/Symposia/Fall/1995/FS-95-01/FS95-01-006.pdf",
-
URL = "
http://www.aaai.org/Library/Symposia/Fall/fs95-01.php",
- size = "12 pages",
-
abstract = "Automated methods of machine learning may prove to be
useful in discovering biologically meaningful
information hidden in the rapidly growing databases of
DNA sequences and protein sequences.
Genetic programming is an extension of the genetic algorithm in which a population of computer programs is bred, over a series of generations, in order to solve a problem. Genetic programming is capable of evolving complicated problem-solving expressions of unspecified size and shape. Moreover, when automatically defined functions are added to genetic programming, genetic programming becomes capable of efficiently capturing and exploiting recurring sub-patterns. This chapter describes how genetic programming with automatically defined functions successfully evolved motifs for detecting the D-E-A-D box family of proteins and for detecting the manganese superoxide dismutase family. Both motifs were evolved without prespecifying their length. Both evolved motifs employed automatically defined functions to capture the repeated use of common subexpressions. When tested against the SWISS-PROT database of proteins, the two genetically evolved consensus motifs detect the two families either as well, or slightly better than, the comparable human-written motifs found in the PROSITE database.",
- notes = "AAAI-95f GP. Part of \cite{siegel:1995:aaai-fgp} {\em Telephone:} 415-328-3123 {\em Fax:} 415-321-4457 {\em email} info@aaai.org {\em URL:} http://www.aaai.org/",
