Abstract
The structure—activity classification models for prediction of the assignment of organic compounds to 40 pharmacological groups were constructed in the framework of the fragmental approach using the support vector machine technique, the Platt—Wu probabilistic model, and resampling procedure. The models constructed allow one to predict possible types of the side pharmacological effects of drugs.
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N. S. Zefirov, Vestn. Ros. Akad. Nauk, 2004, 74, 415 [Herald of the Russ. Acad. Sci. (Engl. Transl.), 2004, 74].
Machine Learning, Neural and Statistical Classification, Eds D. Michie, D. J. Spiegelhalter, C. C. Taylor, Ellis Horwood, London, 1994.
V. Svetnik, A. Liaw, C. Tong, J. C. Culbertson, R. P. Sheridan, B. P. Feuston, J. Chem. Inf. Comput. Sci., 2003, 43, 1947.
P. Itskowitz, A. K. Tropsha, J. Chem. Inf. Model., 2005, 45, 777.
N. V. Vapnik, IEEE Trans. Neural Networks, 1999, 10, 996.
O. Ivanciuc, in Reviews in Computational Chemistry, Wein-heim, 2007, 23, 291.
M. K. Warmuth, J. Liao, G. Ratsch, M. Mathieson, S. Put-ta, C. Lemmen, J. Chem. Inf. Comput. Sci., 2003, 43, 667.
R. Caruana, A. Niculescu-Mizil, Proc. 23rd Intern. Conf. Machine Learning, Pittsburgh, PA, 2006, 161.
D. A. Filimonov, V. V. Poroikov, Ros. Khim. Zhurn. [Mendeleev Chem. J.], 2006, 2, 68 (in Russian).
V. V. Poroikov, D. A. Filimonov, Y. V. Borodina, A. A. Lagunin, A. Kos, J. Chem. Inf. Comput. Sci., 2000, 40, 1349.
X. J. Yao, A. Panaye, J. P. Doucet, R. S. Zhang, H. F. Chen, M. C. Liu, Z. D. Hu, B. T. Fan, J. Chem. Inf. Comput. Sci., 2004, 44, 1257.
Y. Liu, J. Chem. Inf. Comput. Sci., 2004, 44, 1823.
E. Byvatov, U. Fechner, J. Sadowski, G. Schneider, J. Chem. Inf. Comput. Sci., 2003, 43, 1882.
Designing Drugs and Crop Protectants: Processes, Problems and Solutions, Eds M. Ford, D. Livingstone, J. Dearden, H. Wa-terbeembd, Blackwell Publishing, Bournemouth, 2002, 268.
K. Kawai, S. Fujishima, Y. Takahashi, J. Chem. Inf. Model., 2008, 48, 6, 1152.
N. S. Zefirov, V. A. Palyulin, J. Chem. Inf. Comput. Sci., 2002, 42, 1112.
D. E. Petelin, V. A. Palyulin, N. S. Zefirov, G. McFarland, Dokl.Akad. Nauk, 1992, 327, 1019 [Dokl. Chem. (Engl. Transl.), 1992, 327].
D. V. Sukhachev, T. S. Pivina, N. I. Zhokhova, N. S. Zefirov, S. I. Zeman, Izv. Akad. Nauk, Ser. Khim., 1995, 1653 [Russ. Chem. Bull. (Engl. Transl.), 1995, 44, 1585].
D. V. Sukhachev, T. S. Pivina, N. I. Zhokhova, N. S. Zefirov, Izv. Akad. Nauk, Ser. Khim., 1995, 1657 [Russ. Chem. Bull. (Engl. Transl.), 1995, 44, 1589].
D. V. Sukhachev, T. S. Pivina, N. I. Zhokhova, N. S. Zefirov, S. I. Zeman, Izv. Akad. Nauk, Ser. Khim., 1995, 1661 [Russ. Chem. Bull. (Engl. Transl.), 1995, 44, 1594].
N. I. Zhokhova, I. I. Baskin, V. A. Palyulin, N. S. Zefirov, Dokl.Akad. Nauk, 2007, 417, 639 [Dokl. Chem. (Engl. Transl.), 2007, 417].
N. S. Zefirov, V. A. Palyulin, J. Chem. Inf. Comput. Sci., 2001, 41, 1022.
N. I. Zhokhova, I. I. Baskin, V. A. Palyulin, A. N. Zefirov, N. S. Zefirov, Zh. Prikl. Khim., 2003, 1966 [Russ. J. Appl. Chem. (Engl. Transl.), 2003].
N. I. Zhokhova, V. A. Palyulin, I. I. Baskin, A. N. Zefirov, N. S. Zefirov, Izv. Akad. Nauk, Ser. Khim., 2003, 1005 [Russ. Chem. Bull., Int. Ed., 2003, 52, 1061].
N. I. Zhokhova, I. I. Baskin, V. A. Palyulin, A. N. Zefirov, N. S. Zefirov, Izv. Akad. Nauk, Ser. Khim., 2003, 1787 [Russ. Chem. Bull., Int. Ed., 2003, 52, 1885].
N. I. Zhokhova, E. V. Bobkov, I. I. Baskin, V. A. Palyulin, A. N. Zefirov, N. S. Zefirov, Vestn. MGU, Ser. 2, Khimiya, 2007, 48, 5, 329 [Moscow University Chem. Bull. (Engl. Transl.), 2007, 62, 269].
J. Platt, in Advances in Large Margin Classifiers, Eds A. Smo-la, P. Bartlett, B. Schölkopf, D. Schuurmans, MIT Press, Cambridge, MA, 2000.
T.-F. Wu, C.-J. Lin, R. C. Weng, J. Machine Learning Research, 2004, 5, 975.
I. I. Baskin, N. M. Halberstam, N. V. Artemenko, V. A. Palyulin, N. S. Zefirov, in EuroQSAR 2002 Designing Drugs and Crop Protectants: Processes, Problems and Solutions, Eds M. Ford, D. Livingstone, J. Dearden, H. Waterbeemd, Blackwell Publishing, Malden, 2003, 260.
N. V. Artemenko, I. I. Baskin, V. A. Palyulin, N. S. Zefirov, Dokl. Akad. Nauk, 2001, 381, 203 [Dokl. Chem. (Engl. Transl.), 2001].
J. J. Chen, C. A. Tsai, J. F. Young, R. L. Kodell, SAR and QSAR in Environmental Research, 2005, 16, 517.
E. Osuna, R. Freund, F. Girosi, AI Memo 1602, Massachusetts Institute of Technology, Boston, 1997.
I. H. Witten, E. Frank, Data Mining: Practical Machine Learning Tools and Techniques (Second Ed.), Morgan Kaufmann Publ., San Francisco, 2005.
Entsiklopediya lekarstv. Registr lekarstvennykh sredstv Rossii [Encyclopedia of Drugs. The Russian Register of Drugs], Ed. Yu. F. Krylov, 7th Ed., RLS-2000, Moscow, 2000 (in Russian). Received November 18, 2008
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Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 4, pp. 641–647, April, 2009.
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Kondratovich, E.P., Zhokhova, N.I., Baskin, I.I. et al. Fragmental descriptors in (Q)SAR: prediction of the assignment of organic compounds to pharmacological groups using the support vector machine approach. Russ Chem Bull 58, 657–662 (2009). https://doi.org/10.1007/s11172-009-0076-5
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DOI: https://doi.org/10.1007/s11172-009-0076-5