Evolved Matrix Operations for Post-Processing Protein Secondary Structure Predictions

Created by W.Langdon from gp-bibliography.bib Revision:1.8129

@InProceedings{maccallum:2004:eurogp,

• author = "Varun Aggarwal and Robert MacCallum",
• title = "Evolved Matrix Operations for Post-Processing Protein Secondary Structure Predictions",
• booktitle = "Genetic Programming 7th European Conference, EuroGP 2004, Proceedings",
• year = "2004",
• editor = "Maarten Keijzer and Una-May O'Reilly and Simon M. Lucas and Ernesto Costa and Terence Soule",
• volume = "3003",
• series = "LNCS",
• pages = "220--229",
• address = "Coimbra, Portugal",
• publisher_address = "Berlin",
• month = "5-7 " # apr,
• organisation = "EvoNet",
• publisher = "Springer-Verlag",
• keywords = "genetic algorithms, genetic programming: Poster",
• ISBN = "3-540-21346-5",
• URL = "http://web.mit.edu/varun_ag/www/aggarwal-eurogp2004.pdf",
• DOI = "doi:10.1007/978-3-540-24650-3_20",
• abstract = "Predicting the three-dimensional structure of proteins is a hard problem, so many have opted instead to predict the secondary structural state (usually helix, strand or coil) of each amino acid residue. This should be an easier task, but it now seems that a ceiling of around 76 percent per-residue three-state accuracy has been reached. Further improvements will require the correct processing of so-called {"}long-range information{"}. We present a novel application of genetic programming to evolve high level matrix operations to post-process secondary structure prediction probabilities produced by the popular, state-of-the-art neural network based PSIPRED by David Jones. We show that global and long-range information may be used to increase three-state accuracy by at least 0.26 percentage points - a small but statistically significant difference. This is on top of the 0.14 percentage point increase already made by PSIPRED's built-in filters.",
• notes = "Part of \cite{keijzer:2004:GP} EuroGP'2004 held in conjunction with EvoCOP2004 and EvoWorkshops2004",

}

Genetic Programming entries for Varun Aggarwal Robert M MacCallum

Citations