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2013 | 11 | 3 | 371-380
Tytuł artykułu

Development of QSAR models for predicting anti-HIV-1 activity using the Monte Carlo method

Treść / Zawartość
Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
Abstract The CORAL software (http://www.insilico.eu/coral/) has been examined as a tool for modeling anti-HIV-1 activity by quantitative structure - activity relationships (QSAR) for three different sets: (i) TIBO derivatives (n=82) (ii) anti-HIV-1 activity of 2-amino-6-arylsulfonylbenzonitriles and their congeners (n=64), and (iii) the measured binding affinity for fullerene-based HIV-1 PR inhibitors (n=48). A new global invariant ATOMPAIR of the molecular structure which can be calculated with the simplified molecular input line entry system (SMILES) was studied. The ATOMPAIR is an indicator of the joint presence of pairs of chemical elements (F, Cl, Br, N, O, S, and P) and three types of bonds (double covalent bond, triple covalent bond, and stereo chemical bond). Six random splits into sub-training, calibration, and test set were examined for each set. For the three aforementioned sets, the use of ATOMPAIR in the modeling process improves the predictive potential of the models for six random splits. Graphical abstract [...]
Wydawca

Czasopismo
Rocznik
Tom
11
Numer
3
Strony
371-380
Opis fizyczny
Daty
wydano
2013-03-01
online
2012-12-28
Twórcy
  • Institute of Pharmacological Researches “Mario Negri”, 20156, Milan, Italy
autor
  • 3rd Department of Medicine — Department of Endocrinology and Metabolism, First Faculty of Medicine, Charles University in Prague and General University Hospital in Prague, 12808, Prague 2, Czech Republic
  • Institute of Pharmacological Researches “Mario Negri”, 20156, Milan, Italy
  • Department of Electronics and Information, Polytechnical University of Milan, 20133, Milan, Italy
Bibliografia
  • [1] H. Zhang, L. Vrang, K. Backbro, P. Lind, C. Sahlberg, T. Unge, B. Oberg, Antivir. Res. 28, 331 (1995) http://dx.doi.org/10.1016/0166-3542(95)00056-9[Crossref]
  • [2] E.A. Castro, F. Torrens, A.A. Toropov, I.V. Nesterov, O.M. Nabiev, Mol. Simul. 30, 691 (2004) http://dx.doi.org/10.1080/08927020412331272449[Crossref]
  • [3] K. Roy, J.T. Leonard, Bioorg Med Chem. 12, 745 (2004) http://dx.doi.org/10.1016/j.bmc.2003.11.009[Crossref]
  • [4] J.T. Leonard, K. Roy, QSAR Comb. Sci. 23, 23 (2004) http://dx.doi.org/10.1002/qsar.200330845[Crossref]
  • [5] R. Darnag, E.L. Mostapha Mazouz, A. Schmitzer, D. Villemin, A. Jarid, D. Cherqaoui, Eur. J. Med. Chem. 45, 1590 (2010) http://dx.doi.org/10.1016/j.ejmech.2010.01.002[Crossref]
  • [6] R. Hu, F. Barbault, M. Delamar, R. Zhang, Bioorg. Med. Chem. 17, 2400 (2009) http://dx.doi.org/10.1016/j.bmc.2009.02.003[Crossref]
  • [7] V. Ravichandran, V.K. Mourya, P.K. Agrawal, Internet Electron. J. Mol. Des. 11, 363 (2012)
  • [8] N.S. Sapre, N. Pancholi, S. Gupta, Internet Electron. J. Mol. Des. 11, 55 (2012)
  • [9] S. Vadivelan, T.N. Deeksha, S. Arun, P.K. MacHiraju, R. Gundla, B.N. Sinha, S.A.R.P. Jagarlapudi, Eur. J. Med. Chem. 46, 851 (2011) http://dx.doi.org/10.1016/j.ejmech.2010.12.022[Crossref]
  • [10] S. Pirhadi, J.B. Ghasemi, Eur. J. Med. Chem. 45, 4897 (2010) http://dx.doi.org/10.1016/j.ejmech.2010.07.062[Crossref]
  • [11] P. Lu, X. Wei, R. Zhang, Eur. J. Med. Chem. 45, 3413 (2010) http://dx.doi.org/10.1016/j.ejmech.2010.04.030[Crossref]
  • [12] A.A. Toropov, A.P. Toropova, E. Benfenati, D. Leszczynska, J. Leszczynski, Eur. J. Med. Chem. 45, 1387 (2010) http://dx.doi.org/10.1016/j.ejmech.2009.12.037[Crossref]
  • [13] N.S. Sapre, S. Gupta, N. Pancholi, N. Sapre, J. Comput. Chem. 30, 922 (2009) http://dx.doi.org/10.1002/jcc.21114[Crossref]
  • [14] N.S. Sapre, N. Pancholi, S. Gupta, N. Sapre, J. Comput. Chem. 29, 1699 (2008) http://dx.doi.org/10.1002/jcc.20931[Crossref]
  • [15] J.T. Leonard, K. Roy, Eur. J. Med. Chem. 43, 81 (2008) http://dx.doi.org/10.1016/j.ejmech.2007.02.021[Crossref]
  • [16] D.J.G. Marino, E.A. Castro, A.A. Toropov, Cent. Eur. J. Chem. 4, 135 (2006) http://dx.doi.org/10.1007/s11532-005-0010-0[Crossref]
  • [17] S. Durdagi, T. Mavromoustakos, N. Chronakis, M.G. Papadopoulos, Bioorg. Med. Chem. 16, 9957 (2008) http://dx.doi.org/10.1016/j.bmc.2008.10.039[Crossref]
  • [18] P.R. Duchowicz, E.A. Castro, Int. J. Mol. Sci. 10, 2558 (2009) http://dx.doi.org/10.3390/ijms10062558[Crossref]
  • [19] G. Melagraki, A. Afantitis, H. Sarimveis, O. Igglessi-Markopoulou, P.A. Koutentis, G. Kollias, Chem. Biol. Drug Des. 76, 397 (2010) http://dx.doi.org/10.1111/j.1747-0285.2010.01029.x[Crossref]
  • [20] J.A. Castillo-Garit, Y. Marrero-Ponce, F. Torrens, R. Rotondo, J. Mol. Graph. Model. 26, 32 (2007) http://dx.doi.org/10.1016/j.jmgm.2006.09.007[Crossref]
  • [21] I. Gutman, B. Furtula, M. Petrović, J. Math. Chem. 46, 522 (2009) http://dx.doi.org/10.1007/s10910-008-9476-2[Crossref]
  • [22] CORAL, 2012 at http://www.insilico.eu/coral/ Accessed on March 17, 2012
  • [23] A.P. Toropova, A.A. Toropov, E. Benfenati, D. Leszczynska, J. Leszczynski, J. Math. Chem. 48, 959 (2010) http://dx.doi.org/10.1007/s10910-010-9719-x[Crossref]
  • [24] A.P. Toropova, A.A. Toropov, E. Benfenati, G. Gini, D. Leszczynska, J. Leszczynski, Mol. Divers. 15, 249 (2011) http://dx.doi.org/10.1007/s11030-010-9245-6[Crossref]
  • [25] A.P. Toropova, A.A. Toropov, A. Lombardo, A. Roncaglioni, E. Benfenati, G. Gini, Eur. J. Med. Chem. 45, 4399 (2010) http://dx.doi.org/10.1016/j.ejmech.2010.06.019[Crossref]
  • [26] A.A. Toropov, A.P. Toropova, E. Benfenati, Eur. J. Med. Chem. 45, 3581 (2010) http://dx.doi.org/10.1016/j.ejmech.2010.05.002[Crossref]
  • [27] D. Weininger, J. Chem. Inf. Comput. Sci. 28, 31 (1988) http://dx.doi.org/10.1021/ci00057a005[Crossref]
  • [28] D. Weininger, A. Weininger, J.L. Weininger, J. Chem. Inf. Comput. Sci. 29, 97 (1989) http://dx.doi.org/10.1021/ci00062a008[Crossref]
  • [29] D. Weininger, J. Chem. Inf. Comput. Sci. 30, 237 (1990) http://dx.doi.org/10.1021/ci00067a005[Crossref]
  • [30] A.A. Toropov, A.P. Toropova, I. Raska, E. Benfenati, Eur. J. Med. Chem. 45, 1639 (2010) http://dx.doi.org/10.1016/j.ejmech.2009.12.043[Crossref]
  • [31] A. A. Toropov, E. Benfenati, J. Mol. Struct. (Theochem) 676, 165 (2004) http://dx.doi.org/10.1016/j.theochem.2004.01.023[Crossref]
  • [32] A.A. Toropov, A.P. Toropova, E. Benfenati, Mol. Divers. 14, 183 (2010) http://dx.doi.org/10.1007/s11030-009-9156-6[Crossref]
  • [33] A.A. Toropov, A.P. Toropova, E. Benfenati, D. Leszczynska, J. Leszczynski, J. Comput. Chem. 31, 381 (2010)
  • [34] A.A. Toropov, A.P. Toropova, E. Benfenati, Cent. Eur. J. Chem. 7, 846 (2009) http://dx.doi.org/10.2478/s11532-009-0095-y[Crossref]
  • [35] A.A. Toropov, A.P. Toropova, E. Benfenati, J. Math. Chem. 46, 1060 (2009) http://dx.doi.org/10.1007/s10910-008-9491-3[Crossref]
  • [36] A.A. Toropov, A.P. Toropova, E. Benfenati, A. Manganaro, Mol. Divers. 14, 821 (2010) http://dx.doi.org/10.1007/s11030-009-9186-0[Crossref]
  • [37] A.A. Toropov, A.P. Toropova, E. Benfenati, A. Manganaro, Mol. Divers. 13, 367 (2009) http://dx.doi.org/10.1007/s11030-009-9113-4[Crossref]
  • [38] A.A. Toropov, A.P. Toropova, E. Benfenati, Int. J. Mol. Sci. 10, 3106 (2009) http://dx.doi.org/10.3390/ijms10073106[Crossref]
  • [39] I. Mitra, P.P. Roy, S. Kar, P.K. Ojha, K. Roy, J. Chemometr. 24, 22 (2010) http://dx.doi.org/10.1002/cem.1268[Crossref]
  • [40] P.P. Roy, S. Paul, I. Mitra, K. Roy, Molecules, 14, 1660 (2009) http://dx.doi.org/10.3390/molecules14051660[Crossref]
  • [41] C. Porcelli, E. Boriani, A. Roncaglioni, A. Chana, E. Benfenati, Environ. Sci. Technol. 42, 491 (2008) http://dx.doi.org/10.1021/es071430t[Crossref]
  • [42] T. Oberg, Chem. Res. Toxicol. 17, 1630 (2004) http://dx.doi.org/10.1021/tx0498253[Crossref]
  • [43] J.S. Duca, A.J. Hopfinger, J. Chem. Inf. Comput. Sci. 41, 1367 (2001) http://dx.doi.org/10.1021/ci0100090[Crossref]
  • [44] A. Tropsha, Mol. Inf. 29, 476 (2010) http://dx.doi.org/10.1002/minf.201000061[Crossref]
  • [45] A.P. Toropova, A.A. Toropov, E. Benfenati, G. Gini, D. Leszczynska, J. Leszczynski J. Comput. Chem. 32, 2727 (2011) http://dx.doi.org/10.1002/jcc.21848[Crossref]
  • [46] A.P. Toropova, A.A. Toropov, R. Gonella Diaza, E. Benfenati, G. Gini, Cent. Euro. J. Chem. 9, 165 (2011) http://dx.doi.org/10.2478/s11532-010-0135-7[Crossref]
  • [47] A.P. Toropova, A.A. Toropov, E. Benfenati, G. Gini, Chemometr. Intell. Lab. 105, 215 (2011) http://dx.doi.org/10.1016/j.chemolab.2010.12.007[Crossref]
  • [48] A. Golbraikh, A. Tropsha, J. Mol. Graph. Model. 20, 269 (2002) http://dx.doi.org/10.1016/S1093-3263(01)00123-1[Crossref]
  • [49] P.P. Roy, K. Roy, QSAR Comb. Sci. 27, 302 (2008) http://dx.doi.org/10.1002/qsar.200710043[Crossref]
Typ dokumentu
Bibliografia
Identyfikatory
Identyfikator YADDA
bwmeta1.element.-psjd-doi-10_2478_s11532-012-0166-3
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