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TEXTAL™
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TEXTAL: Crystallographic protein model-building using AI and pattern recognition.
Kreshna Gopal, Erik McKee, Tod Romo, Reetal Pai, Jacob Smith,
James Sacchettini and Thomas Ioerger.
AI Magazine 27(3), 15-24 (2006). |
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Crystallographic protein model-building on the web.
Kreshna Gopal, Erik McKee, Tod Romo, Reetal Pai, Jacob Smith,
James Sacchettini and Thomas Ioerger.
Bioinformatics (2006); doi: 10.1093/bioinformatics/btl584 |
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Improving amino acid identification, fit and C-alpha prediction using
the Simplex method in automated model building.
Tod Romo, James Sacchettini and Thomas Ioerger.
Acta Cryst. D62, 1401-1406 (2006) Copyright © International Union of Crystallography
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Identifying non-crystallographic symmetry in protein electron-density maps: a feature-based approach.
Reetal Pai, James Sacchettini and Thomas Ioerger.
Acta Cryst. D62, 1012-1021 (2006) Copyright © International Union of Crystallography
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TEXTAL: AI-based structural determination for x-ray protein crystallography.
Tod Romo, Kreshna Gopal, Erik McKee, Lalji Kanbi, Reetal Pai, Jacob Smith,
James Sacchettini and Thomas Ioerger.
IEEE Intelligent Systems Vol. 20, No. 6, 59-63 (2005) |
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FINDMOL: automated identification of macromolecules in electron-density maps.
E.W. Mckee, L.D, Kanbi, K.L. Childs, R.W. Grosse-Kunstleve, P.D. Adams, J.C. Sacchettini and T.R. Ioerger.
Acta Cryst. D61, 1514-1520 (2005) Copyright © International Union of Crystallography
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TEXTAL™: Automated crystallographic protein structure determination. K. Gopal, T.D. Romo, E. Mckee, K.C. Childs, L. Kanbi, R. Pai, J. Smith, J.C. Sacchettini and T.R. Ioerger. Proceedings of the Innovative Applications of Artificial Intelligence conference (IAAI), 1483-1490 (2005) |
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Automated detection of disulfide bridges in electron density maps using linear discriminant analysis. T.R. Ioerger. Journal of Applied Crystallography 38, 121-125 (2005) |
| Determining relevant features to recognize electron density patterns in X-ray protein crystallography. K. Gopal, T.D. Romo, J.C. Sacchettini and T.R. Ioerger. Journal of Bioinformatics & Computational Biology Vol. 3 No. 3, 645-676 (2005) | |
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Efficient retrieval of electron density patterns for modeling proteins by X-ray crystallography. K. Gopal, T.D. Romo, J.C. Sacchettini and T.R. Ioerger. Proceedings of the International Conference on Machine Learning and Applications (ICMLA), 380-387 (2004) |
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Weighting features to recognize 3D patterns of electron density in X-ray protein crystallography. K. Gopal, T.D. Romo, J.C. Sacchettini and T.R. Ioerger. Proceedings of the Computational Systems Bioinformatics (CSB), 255-265 (2004) |
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Evaluation of geometric and probabilistic distance measures to retrieve electron density patterns for protein structure determination. K. Gopal, T.D. Romo, J.C. Sacchettini and T.R. Ioerger. Proceedings of the International Conference on Artificial Intelligence (ICAI), 427-432 (2004) |
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Recent developments in the PHENIX software for automated
crystallographic structure determination.
P.D. Adams, K. Gopal, R.W. Grosse-Kunstleve, L.-W. Hung, T.R. Ioerger,
A.J. McCoy, N.W. Moriarty, R.K. Pai, R.J. Read, T.D. Romo,
J.C. Sacchettini, N.K. Sauter, L.C. Storoni and T.C. Terwilliger.
J. Synchrotron Rad. 11, 53-55 (2004) Copyright © International Union of Crystallography
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| The TEXTAL system: Artificial Intelligence techniques for automated protein model building. T.R. Ioerger and J.C. Sacchettini. Methods Enzymol. 374, 244-270 (2003) | |
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TEXTAL: Artificial Intelligence techniques for automated protein structure determination. K. Gopal, R. Pai, T.R. Ioerger, T. Romo, and J.C. Sacchettini. Proceedings of the 15th Conference on Innovative Applications of Artificial Intelligence (IAAI), 93-100 (2003) |
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Automatic modeling of protein backbones in electron density maps via prediction of C-alpha coordinates.
T.R. Ioerger, and J.C. Sacchettini.
Acta Cryst. D58, 2043-2054 (2002) Copyright © International Union of Crystallography
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PHENIX: building new software for automated crystallographic structure determination
P.D. Adams, R.W. Grosse-Kunstleve, L.-W. Hung, T.R. Ioerger, A.J. McCoy, N.W. Moriarty, R.J. Read,
J.C. Sacchettini, N.K. Sauter and T.C. Terwilliger.
Acta Cryst. D58, 1948-1954 (2002) Copyright © International Union of Crystallography
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Extracting fractal features for analyzing protein structure. Y. Tao, T.R. Ioerger and J.C. Sacchettini. Proceedings of the IEEE Conference on Pattern Recognition (ICPR), 482-485 (2002) |
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Extraction of rotation invariant signature based on fractal geometry. Y. Tao, T.R. Ioerger and Y.Y. Tang. Proceedings of IEEE International Conference on Image Processing (ICIP), 1090-1093 (2001) |
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Determining protein structure from electron density maps using pattern matching.
T.R. Holton, T.R. Ioerger, J.A. Christopher and J.C. Sacchettini.
Acta Cryst. D56, 722-734 (2000) Copyright © International Union of Crystallography
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TEXTAL: A patten recognition system for interpreting electron density maps. T.R. Ioerger, T.R. Holton, J.A. Christopher and J.C. Sacchettini. Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (ISMB), 130-137 (1999) |
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