The evolution of evolvability in genetic programming
Advances in genetic programming
Recombination, selection, and the genetic construction of computer programs
Recombination, selection, and the genetic construction of computer programs
Genetic programming: an introduction: on the automatic evolution of computer programs and its applications
Genetic Programming and Data Structures: Genetic Programming + Data Structures = Automatic Programming!
Proceedings of the 10th annual conference on Genetic and evolutionary computation
Genetic programming for biomarker detection in mass spectrometry data
AI'12 Proceedings of the 25th Australasian joint conference on Advances in Artificial Intelligence
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The accurate quantification of proteins is important in several areas of cell biology, biotechnology and medicine. Both relative and absolute quantification of proteins is often determined following mass spectrometric analysis of one or more of their constituent peptides. However, in order for quantification to be successful, it is important that the experimenter knows which peptides are readily detectable under the mass spectrometric conditions used for analysis. In this paper, genetic programming is used to develop a function which predicts the detectability of peptides from their calculated physico-chemical properties. Classification is carried out in two stages: the selection of a good classifier using the AUROC objective function and the setting of an appropriate threshold. This allows the user to select the balance point between conflicting priorities in an intuitive way. The success of this method is found to be highly dependent on the initial selection of input parameters. The use of brood recombination and a modified version of the multi-objective FOCUS method are also investigated. While neither has a significant effect on predictive accuracy, the use of the FOCUS method leads to considerably more compact solutions.