Evolving L-Systems to Capture Protein Structure Native Conformations

Created by W.Langdon from gp-bibliography.bib Revision:1.7630

@InProceedings{eurogp:EscuelaOK05,

• author = "Gabi Escuela and Gabriela Ochoa and Natalio Krasnogor",
• editor = "Maarten Keijzer and Andrea Tettamanzi and Pierre Collet and Jano I. {van Hemert} and Marco Tomassini",
• title = "Evolving L-Systems to Capture Protein Structure Native Conformations",
• booktitle = "Proceedings of the 8th European Conference on Genetic Programming",
• publisher = "Springer",
• series = "Lecture Notes in Computer Science",
• volume = "3447",
• year = "2005",
• address = "Lausanne, Switzerland",
• month = "30 " # mar # " - 1 " # apr,
• organisation = "EvoNet",
• keywords = "genetic algorithms, genetic programming",
• ISBN = "3-540-25436-6",
• pages = "74--84",
• URL = "http://www.cs.nott.ac.uk/~nxk/PAPERS/LsysPSP05.pdf",
• DOI = "doi:10.1007/978-3-540-31989-4_7",
• DOI = "doi:10.1007/b107383",
• bibsource = "DBLP, http://dblp.uni-trier.de",
• abstract = "A protein is a linear chain of amino acids, that under certain physical conditions, folds into a unique functional structure, called its native state or tertiary structure. In this state, proteins show repeated substructures like alpha helices and beta sheets. This observation suggests that native structures may be captured by the formalism known as Lindenmayer systems (L-systems). In this paper an evolutionary algorithm is used as the inference procedure for folded structures under the HP model in 2D lattices. The EA searches in the space of possible L-systems which are then executed to obtain the phenotype, thus our approach is close to that of Grammatical Evolution. The problem is to find a set of rewriting rules that represents a target native structure on the selected lattice model. The proposed approach has produced promising results for short sequences under the 2D square lattice. Thus the foundations are set for a novel encoding based on L-systems for evolutionary approaches to both the Protein Structure Prediction and Inverse Folding Problems.",
• notes = "Part of \cite{keijzer:2005:GP} EuroGP'2005 held in conjunction with EvoCOP2005 and EvoWorkshops2005",

}

Genetic Programming entries for Gabi Escuela Gabriela Ochoa Natalio Krasnogor

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