title: Evaluation of template-based models in CASP8 with standard measures.
abstract: The strategy for evaluating template-based models submitted to CASP has continuously evolved from CASP1 to CASP5, leading to a standard procedure that has been used in all subsequent editions. The established approach includes methods for calculating the quality of each individual model, for assigning scores based on the distribution of the results for each target and for computing the statistical significance of the differences in scores between prediction methods. These data are made available to the assessor of the template-based modeling category, who uses them as a starting point for further evaluations and analyses. This article describes the detailed workflow of the procedure, provides justifications for a number of choices that are customarily made for CASP data evaluation, and reports the results of the analysis of template-based predictions at CASP8.
authors.affiliation: Department of Biochemical Sciences, Sapienza-University of Rome, P. le A. Moro, 5, 00185 Rome, Italy.
authors.forename: Domenico
authors.initials: D
authors.lastname: Cozzetto
authors.affiliation: Genome Center, University of California, Davis, California 95616.
authors.forename: Andriy
authors.initials: A
authors.lastname: Kryshtafovych
authors.affiliation: Genome Center, University of California, Davis, California 95616.
authors.forename: Krzysztof
authors.initials: K
authors.lastname: Fidelis
authors.affiliation: Center for Advanced Research in Biotechnology, University of Maryland, Rockville, Maryland 20850.
authors.forename: John
authors.initials: J
authors.lastname: Moult
authors.affiliation: Department of Biochemistry and Molecular Biophysics, Columbia University, Northeast Structural Genomics Consortium (NESG) and New York Consortium on Membrane Proteins (NYCOMPS), Columbia University, New York, New York 10032.
authors.forename: Burkhard
authors.initials: B
authors.lastname: Rost
authors.affiliation: Department of Biochemical Sciences, Sapienza-University of Rome, P. le A. Moro, 5, 00185 Rome, Italy.|Istituto Pasteur-Fondazione Cenci Bolognetti, Sapienza-University of Rome, P. le A. Moro, 5, 00185 Rome, Italy.
authors.forename: Anna
authors.initials: A
authors.lastname: Tramontano
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D006801:Humans; D008958:Models, Molecular; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D020539:Sequence Analysis, Protein / Q000379:methods*
chemical_list: D011506:Proteins