TEXTAL: Al-based structural determination for X-ray protein crystallography

IEEE Intelligent Systems

Volumn 20, Issue 6, 2005, Pages 59-63

  Romo, Tod ^a   Gopal, Kreshna ^a   McKee, Erik ^a   Kanbi, Lalji ^a   Pai, Reetal ^a   Smith, Jacob ^a   Sacchettini, James ^a,b   Ioerger, Thomas ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

^b Physiology and Biophysics   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ELECTRON DENSITY MAP; HUMAN CRYSTALLOGRAPHER;

AMINO ACIDS; CRYSTALLOGRAPHY; DATABASE SYSTEMS; NEURAL NETWORKS; PATTERN MATCHING; PROTEINS; SOLUTIONS;

X RAYS;

EID: 30344487552     PISSN: 15411672     EISSN: None     Source Type: Journal    
DOI: 10.1109/MIS.2005.114     Document Type: Review

References (13)

1. J. Drenth, Principles of Protein X-Ray Crystallography, Springer, 1999.
2. D. Hennessy et al., "Statistical Methods for the Objective Design of Screening Procedures for Macromolecular Crystallization," Acta Crystallographica Section D - Biological Crystallography, vol. 56, no. 7, 2000, pp. 817-827.
3. S.K. Burley et al., "Structural Genomics: Beyond the Human Genome Project," Nature Genetics, vol. 23, no. 2, 1999, pp. 151-157.
4. E.A. Feigenbaum, R.S. Engelmore, and C.K. Johnson, "A Correlation between Crystallographic Computing and Artificial Intelligence Research," Acta Crystallographica Section A - Foundations of Crystallography, vol. 33, no. 1, 1977, pp. 13-18.
5. T.A. Jones and S. Thirup, "Using Known Substructures in Protein Model Building and Crystallography," EMBO (European Molecular Biology Organization) J., vol. 5, 1986, pp. 819-822.
6. L. Leherte et al., "Analysis of Three-Dimensional Protein Images," J. Artificial Intelligence Research, vol. 7, 1997, pp. 125-159.
7. R.J. Morris, "Statistical Pattern Recognition for Macromolecular Crystallographers," Acta Crystallographica Section D - Biological Crystallography, vol. 60, no. 12, 2004, pp. 2133-2143.
8. T.C. Terwilliger, "Maximum-Likelihood Density Modification," Acta Crystallographica Section D - Biological Crystallography, vol. 56, no. 8, 2000, pp. 965-972.
9. T.R. Ioerger and J.C. Sacchettini, "The TEXTAL System: Artificial Intelligence Techniques for Automated Protein Model Building," Methods in Enzymology, vol. 384, 2003, pp. 244-270.
10. K. Gopal et al., "Determining Relevant Features to Recognize Electron Density Patterns in X-ray Protein Crystallography," J. Bioinformatics and Computational Biology, vol. 3, no. 3, 2005, pp. 645-676.
11. T.R. Ioerger, "Automated Detection of Disulfide Bridges in Electron Density Maps Using Linear Discriminant Analysis," J. Applied Crystallography, vol. 38, no. 1, 2005, pp. 121-125.
12. P.D. Adams et al., "Recent Developments in PHENIX Software for Automated Crystallo graphic Structure Determination," J. Synchrotron Radiation, vol. 11, no. 1, 2004, pp. 53-55.
13. R. Read, "Pushing the Boundaries of Molecular Replacement with Maximum Likelihood," Acta Crystallographies Section D Biological Crystallography, vol. 57, no. 10, 2001, pp. 1373-1382.