-
1
-
-
52649175489
-
Human cytochromes P450 in the metabolism of drugs: New molecular models of enzyme-substrate interactions
-
Lewis, D. F.; Ito, Y. Human cytochromes P450 in the metabolism of drugs: new molecular models of enzyme-substrate interactions Expert Opin. Drug Metab. Toxicol. 2008, 4, 1181-1186
-
(2008)
Expert Opin. Drug Metab. Toxicol.
, vol.4
, pp. 1181-1186
-
-
Lewis, D.F.1
Ito, Y.2
-
2
-
-
6944221357
-
Drug-drug interactions for UDP-glucuronosyltransferase substrates: A pharmacokinetic explanation for typically observed low exposure (AUCi/AUC) ratios
-
Williams, J. A.; Hyland, R.; Jones, B. C.; Smith, D. A.; Hurst, S.; Goosen, T. C.; Peterkin, V.; Koup, J. R.; Ball, S. E. Drug-drug interactions for UDP-glucuronosyltransferase substrates: a pharmacokinetic explanation for typically observed low exposure (AUCi/AUC) ratios Drug Metab. Dispos. 2004, 32, 1201-1208
-
(2004)
Drug Metab. Dispos.
, vol.32
, pp. 1201-1208
-
-
Williams, J.A.1
Hyland, R.2
Jones, B.C.3
Smith, D.A.4
Hurst, S.5
Goosen, T.C.6
Peterkin, V.7
Koup, J.R.8
Ball, S.E.9
-
3
-
-
0034973773
-
Common and uncommon cytochrome P450 reactions related to metabolism and chemical toxicity
-
Guengerich, F. P. Common and uncommon cytochrome P450 reactions related to metabolism and chemical toxicity Chem. Res. Toxicol. 2001, 14, 611-650
-
(2001)
Chem. Res. Toxicol.
, vol.14
, pp. 611-650
-
-
Guengerich, F.P.1
-
4
-
-
33846483860
-
Complex reactions catalyzed by cytochrome P450 enzymes
-
Isin, E. M.; Guengerich, F. P. Complex reactions catalyzed by cytochrome P450 enzymes Biochim. Biophys. Acta 2007, 1770, 314-329
-
(2007)
Biochim. Biophys. Acta
, vol.1770
, pp. 314-329
-
-
Isin, E.M.1
Guengerich, F.P.2
-
5
-
-
38949204984
-
Cytochromes P450: A structure-based summary of biotransformations using representative substrates
-
Brown, C. M.; Reisfeld, B.; Mayeno, A. N. Cytochromes P450: a structure-based summary of biotransformations using representative substrates Drug. Metab. Rev. 2008, 40, 1-100
-
(2008)
Drug. Metab. Rev.
, vol.40
, pp. 1-100
-
-
Brown, C.M.1
Reisfeld, B.2
Mayeno, A.N.3
-
6
-
-
84859208478
-
A pragmatic approach using first-principle methods to address site of metabolism with implications for reactive metabolite formation
-
Hsiao, Y. W.; Petersson, C.; Svensson, M. A.; Norinder, U. A pragmatic approach using first-principle methods to address site of metabolism with implications for reactive metabolite formation J. Chem. Inf. Model. 2012, 52, 686-695
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 686-695
-
-
Hsiao, Y.W.1
Petersson, C.2
Svensson, M.A.3
Norinder, U.4
-
7
-
-
84863162356
-
Unimolecular and bimolecular binding system for the prediction of CYP2D6-mediated metabolism
-
Sato, K.; Yamazoe, Y. Unimolecular and bimolecular binding system for the prediction of CYP2D6-mediated metabolism Drug. Metab. Dispos. 2012, 40, 486-496
-
(2012)
Drug. Metab. Dispos.
, vol.40
, pp. 486-496
-
-
Sato, K.1
Yamazoe, Y.2
-
8
-
-
65549103878
-
Site of metabolism prediction for six biotransformations mediated by cytochromes P450
-
Zheng, M.; Luo, X.; Shen, Q.; Wang, Y.; Du, Y.; Zhu, W.; Jiang, H. Site of metabolism prediction for six biotransformations mediated by cytochromes P450 Bioinformatics 2009, 25, 1251-1258
-
(2009)
Bioinformatics
, vol.25
, pp. 1251-1258
-
-
Zheng, M.1
Luo, X.2
Shen, Q.3
Wang, Y.4
Du, Y.5
Zhu, W.6
Jiang, H.7
-
9
-
-
39749093726
-
Prediction of metabolism by cytochrome P450 2C9: Alignment and docking studies of a validated database of substrates
-
Sykes, M. J.; McKinnon, R. A.; Miners, J. O. Prediction of metabolism by cytochrome P450 2C9: alignment and docking studies of a validated database of substrates J. Med. Chem. 2008, 51, 780-791
-
(2008)
J. Med. Chem.
, vol.51
, pp. 780-791
-
-
Sykes, M.J.1
McKinnon, R.A.2
Miners, J.O.3
-
10
-
-
77953322016
-
Site of metabolism prediction on cytochrome P450 2C9: A knowledge-based docking approach
-
Tarcsay, A.; Kiss, R.; Keseru, G. M. Site of metabolism prediction on cytochrome P450 2C9: a knowledge-based docking approach J. Comput. Aided. Mol. Des. 2010, 24, 399-408
-
(2010)
J. Comput. Aided. Mol. Des.
, vol.24
, pp. 399-408
-
-
Tarcsay, A.1
Kiss, R.2
Keseru, G.M.3
-
11
-
-
75749127293
-
Role of water in molecular docking simulations of cytochrome P450 2D6
-
Santos, R.; Hritz, J.; Oostenbrink, C. Role of water in molecular docking simulations of cytochrome P450 2D6 J. Chem. Inf. Model. 2010, 50, 146-154
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 146-154
-
-
Santos, R.1
Hritz, J.2
Oostenbrink, C.3
-
12
-
-
84859178050
-
Computational prediction of metabolism: Sites, products, SAR, P450 enzyme dynamics, and mechanisms
-
Kirchmair, J.; Williamson, M. J.; Tyzack, J. D.; Tan, L.; Bond, P. J.; Bender, A.; Glen, R. C. Computational prediction of metabolism: sites, products, SAR, P450 enzyme dynamics, and mechanisms J. Chem. Inf. Model. 2012, 52, 617-648
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 617-648
-
-
Kirchmair, J.1
Williamson, M.J.2
Tyzack, J.D.3
Tan, L.4
Bond, P.J.5
Bender, A.6
Glen, R.C.7
-
13
-
-
79951899664
-
In silico site of metabolism prediction of cytochrome P450-mediated biotransformations
-
Tarcsay, á.; Keseru, G. M. In silico site of metabolism prediction of cytochrome P450-mediated biotransformations Expert Opin. Drug Metab. Toxicol. 2011, 7, 299-312
-
(2011)
Expert Opin. Drug Metab. Toxicol.
, vol.7
, pp. 299-312
-
-
Tarcsay, A.1
Keseru, G.M.2
-
15
-
-
42149138057
-
New combined model for the prediction of regioselectivity in cytochrome P450/3A4 mediated metabolism
-
Oh, W. S.; Kim, D. N.; Jung, J.; Cho, K. H.; No, K. T. New combined model for the prediction of regioselectivity in cytochrome P450/3A4 mediated metabolism J. Chem. Inf. Model. 2008, 48, 591-601
-
(2008)
J. Chem. Inf. Model.
, vol.48
, pp. 591-601
-
-
Oh, W.S.1
Kim, D.N.2
Jung, J.3
Cho, K.H.4
No, K.T.5
-
16
-
-
0033533750
-
A novel approach to predicting P450 mediated drug metabolism. CYP2D6 catalyzed N-dealkylation reactions and qualitative metabolite predictions using a combined protein and pharmacophore model for CYP2D6
-
de Groot, M. J.; Ackland, M. J.; Horne, V. A.; Alex, A. A.; Jones, B. C. A novel approach to predicting P450 mediated drug metabolism. CYP2D6 catalyzed N-dealkylation reactions and qualitative metabolite predictions using a combined protein and pharmacophore model for CYP2D6 J. Med. Chem. 1999, 42, 4062-4070
-
(1999)
J. Med. Chem.
, vol.42
, pp. 4062-4070
-
-
De Groot, M.J.1
Ackland, M.J.2
Horne, V.A.3
Alex, A.A.4
Jones, B.C.5
-
17
-
-
82355163781
-
-
version 5.0; Optibrium: Cambridge, U.K.
-
StarDrop, version 5.0; Optibrium: Cambridge, U.K., 2011.
-
(2011)
StarDrop
-
-
-
18
-
-
77952703842
-
Quantitative prediction of regioselectivity toward cytochrome P450/3A4 using machine learning approaches
-
Hasegawa, K.; Koyama, M.; Funatsu, K. Quantitative prediction of regioselectivity toward cytochrome P450/3A4 using machine learning approaches Mol. Inf. 2010, 29, 243-249
-
(2010)
Mol. Inf.
, vol.29
, pp. 243-249
-
-
Hasegawa, K.1
Koyama, M.2
Funatsu, K.3
-
19
-
-
79957842729
-
Prediction of metabolic reactions based on atomic and molecular properties of small-molecule compounds
-
Mu, F.; Unkefer, C. J.; Unkefer, P. J.; Hlavacek, W. S. Prediction of metabolic reactions based on atomic and molecular properties of small-molecule compounds Bioinformatics 2011, 27, 1537-1545
-
(2011)
Bioinformatics
, vol.27
, pp. 1537-1545
-
-
Mu, F.1
Unkefer, C.J.2
Unkefer, P.J.3
Hlavacek, W.S.4
-
20
-
-
77953932263
-
SMARTCyp: A 2D method for prediction of cytochrome P450-mediated drug metabolism
-
Rydberg, P.; Gloriam, D. E.; Zaretzki, J.; Breneman, C.; Olsen, L. SMARTCyp: A 2D method for prediction of cytochrome P450-mediated drug metabolism ACS Med. Chem. Lett. 2010, 1, 96-100
-
(2010)
ACS Med. Chem. Lett.
, vol.1
, pp. 96-100
-
-
Rydberg, P.1
Gloriam, D.E.2
Zaretzki, J.3
Breneman, C.4
Olsen, L.5
-
21
-
-
79960704005
-
RS-Predictor: A new tool for predicting sites of cytochrome P450-mediated metabolism applied to CYP 3A4
-
Zaretzki, J.; Bergeron, C.; Rydberg, P.; Huang, T. W.; Bennett, K. P.; Breneman, C. M. RS-Predictor: A new tool for predicting sites of cytochrome P450-mediated metabolism applied to CYP 3A4 J. Chem. Inf. Model. 2011, 51, 1667-1689
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 1667-1689
-
-
Zaretzki, J.1
Bergeron, C.2
Rydberg, P.3
Huang, T.W.4
Bennett, K.P.5
Breneman, C.M.6
-
22
-
-
84862845373
-
RS-Predictor Models Augmented with SMARTCyp Reactivities: Robust Metabolic Regioselectivity Predictions for Nine CYP Isozymes
-
Zaretzki, J.; Rydberg, P.; Bergeron, C.; Bennett, K. P.; Olsen, L.; Breneman, C. M. RS-Predictor Models Augmented with SMARTCyp Reactivities: Robust Metabolic Regioselectivity Predictions for Nine CYP Isozymes J. Chem. Inf. Model. 2012, 52, 1637-1659
-
(2012)
J. Chem. Inf. Model.
, vol.52
, pp. 1637-1659
-
-
Zaretzki, J.1
Rydberg, P.2
Bergeron, C.3
Bennett, K.P.4
Olsen, L.5
Breneman, C.M.6
-
23
-
-
0000992784
-
Chemical Similarity Assessment through Multilevel Neighborhoods of Atoms: Definition and Comparison with the Other Descriptors
-
Filimonov, D.; Poroikov, V.; Borodina, Yu.; Gloriozova, T. Chemical Similarity Assessment through Multilevel Neighborhoods of Atoms: Definition and Comparison with the Other Descriptors J. Chem. Inf. Comput. Sci. 1999, 39, 666-670
-
(1999)
J. Chem. Inf. Comput. Sci.
, vol.39
, pp. 666-670
-
-
Filimonov, D.1
Poroikov, V.2
Borodina, Yu.3
Gloriozova, T.4
-
24
-
-
10044221079
-
A New Statistical Approach to Predicting Aromatic Hydroxylation Sites. Comparison with Model-Based Approaches
-
Borodina, Yu. V.; Rudik, A. V.; Filimonov, D. A.; Kharchevnikova, N. V.; Dmitriev, A. V.; Blinova, V. G.; Poroikov, V. V. A New Statistical Approach to Predicting Aromatic Hydroxylation Sites. Comparison with Model-Based Approaches J. Chem. Inf. Comput. Sci. 2004, 44, 1998-2009
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 1998-2009
-
-
Borodina, Yu.V.1
Rudik, A.V.2
Filimonov, D.A.3
Kharchevnikova, N.V.4
Dmitriev, A.V.5
Blinova, V.G.6
Poroikov, V.V.7
-
25
-
-
0141925235
-
Predicting Biotransformation Potential from Molecular Structure
-
Borodina, Yu. V.; Sadym, A. V.; Filimonov, D. A.; Blinova, V. G.; Dmitriev, A. V.; Poroikov, V. V. Predicting Biotransformation Potential from Molecular Structure J. Chem. Inf. Comput. Sci. 2003, 43, 1636-1646
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 1636-1646
-
-
Borodina, Yu.V.1
Sadym, A.V.2
Filimonov, D.A.3
Blinova, V.G.4
Dmitriev, A.V.5
Poroikov, V.V.6
-
26
-
-
72949119408
-
-
In; Varnek, A. Tropsha, A. RSC Publishing: Cambridge (UK)
-
Filimonov, D. A.; Poroikov, V. V. In Chemoinformatics Approaches to Virtual Screening; Varnek, A.; Tropsha, A., Ed.; RSC Publishing: Cambridge (UK), 2008; pp 182-216.
-
(2008)
Chemoinformatics Approaches to Virtual Screening
, pp. 182-216
-
-
Filimonov, D.A.1
Poroikov, V.V.2
-
27
-
-
78049518795
-
Multi-targeted natural products evaluation based on biological activity prediction with PASS
-
Lagunin, A.; Filimonov, D.; Poroikov, V. Multi-targeted natural products evaluation based on biological activity prediction with PASS Curr. Pharm. Des. 2010, 16, 1703-1717
-
(2010)
Curr. Pharm. Des.
, vol.16
, pp. 1703-1717
-
-
Lagunin, A.1
Filimonov, D.2
Poroikov, V.3
-
28
-
-
78449309981
-
The SMARTCyp cytochrome P450 metabolism prediction server
-
Rydberg, P.; Gloriam, D.; Olsen, L. The SMARTCyp cytochrome P450 metabolism prediction server Bioinformatics 2010, 26, 2988-2989
-
(2010)
Bioinformatics
, vol.26
, pp. 2988-2989
-
-
Rydberg, P.1
Gloriam, D.2
Olsen, L.3
-
29
-
-
84894684650
-
-
Accelrys Metabolite. (accessed Aug 1).
-
Accelrys Metabolite. http://accelrys.com/products/databases/bioactivity/ metabolite.html (accessed Aug 1, 2013).
-
(2013)
-
-
-
31
-
-
0001708959
-
Description of several chemical structure file formats used by computer programs developed at Molecular Design Limited
-
Dalby, A.; Nourse, J. G.; Hounshell, W. D.; Gushurst, A. K. I.; Grier, D. L.; Leland, B. A.; Laufer, J. Description of several chemical structure file formats used by computer programs developed at Molecular Design Limited J. Chem. Inf. Comput. Sci. 1992, 32, 244-255
-
(1992)
J. Chem. Inf. Comput. Sci.
, vol.32
, pp. 244-255
-
-
Dalby, A.1
Nourse, J.G.2
Hounshell, W.D.3
Gushurst, A.K.I.4
Grier, D.L.5
Leland, B.A.6
Laufer, J.7
-
32
-
-
84894643763
-
-
The Anatomical Therapeutic Chemical (ATC) classification. (accessed Aug 1).
-
The Anatomical Therapeutic Chemical (ATC) classification. http://www.whocc.no/ (accessed Aug 1, 2013).
-
(2013)
-
-
-
33
-
-
0023890867
-
Measuring the accuracy of diagnostic systems. Review
-
Swets, J. Measuring the accuracy of diagnostic systems. Review Science 1988, 240, 1285-1293
-
(1988)
Science
, vol.240
, pp. 1285-1293
-
-
Swets, J.1
-
34
-
-
0034320172
-
Robustness of biological activity spectra predicting by computer program PASS for noncongeneric sets of chemical compounds
-
Poroikov, V. V.; Filimonov, D. A.; Borodina, Yu. V.; Lagunin, A. A.; Kos, A. Robustness of biological activity spectra predicting by computer program PASS for noncongeneric sets of chemical compounds J. Chem. Inf. Comput. Sci. 2000, 40, 1349-1355
-
(2000)
J. Chem. Inf. Comput. Sci.
, vol.40
, pp. 1349-1355
-
-
Poroikov, V.V.1
Filimonov, D.A.2
Borodina, Yu.V.3
Lagunin, A.A.4
Kos, A.5
-
35
-
-
77953252823
-
Functional classification of proteins based on projection of amino acid sequences: Application for prediction of protein kinase substrates
-
Sobolev, B. N.; Filimonov, D. A.; Lagunin, A. A.; Zakharov, A. V.; Koborova, O. N.; Kel, A.; Poroikov, V. V. Functional classification of proteins based on projection of amino acid sequences: application for prediction of protein kinase substrates BMC Bioinformatics 2010, 11, 313
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 313
-
-
Sobolev, B.N.1
Filimonov, D.A.2
Lagunin, A.A.3
Zakharov, A.V.4
Koborova, O.N.5
Kel, A.6
Poroikov, V.V.7
-
36
-
-
0029924433
-
A sensitive method for determination of cytochrome P4502D6 activity in vitro using bupranolol as substrate
-
Appanna, G.; Tang, B. K.; Mller, R.; Kalow, W. A sensitive method for determination of cytochrome P4502D6 activity in vitro using bupranolol as substrate Drug. Metab. Dispos. 1996, 24, 303-306
-
(1996)
Drug. Metab. Dispos.
, vol.24
, pp. 303-306
-
-
Appanna, G.1
Tang, B.K.2
Mller, R.3
Kalow, W.4
-
37
-
-
0030857031
-
Regioselective and stereoselective metabolism of ibuprofen by human cytochrome P450 2C
-
Hamman, M. A.; Thompson, G. A.; Hall, S. D. Regioselective and stereoselective metabolism of ibuprofen by human cytochrome P450 2C Biochem. Pharmacol. 1997, 54, 33-41
-
(1997)
Biochem. Pharmacol.
, vol.54
, pp. 33-41
-
-
Hamman, M.A.1
Thompson, G.A.2
Hall, S.D.3
-
38
-
-
84878410503
-
Quantum mechanics/molecular mechanics modeling of regioselectivity of drug metabolism in cytochrome P450 2C9
-
Lonsdale, R.; Houghton, K. T.; Żurek, J.; Bathelt, C. M.; Foloppe, N.; de Groot, M. J.; Harvey, J. N.; Mulholland, A. J. Quantum mechanics/molecular mechanics modeling of regioselectivity of drug metabolism in cytochrome P450 2C9 J. Am. Chem. Soc. 2013, 135, 8001-8015
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 8001-8015
-
-
Lonsdale, R.1
Houghton, K.T.2
Zurek, J.3
Bathelt, C.M.4
Foloppe, N.5
De Groot, M.J.6
Harvey, J.N.7
Mulholland, A.J.8
-
39
-
-
80052380142
-
Structure-based site of metabolism prediction for cytochrome P450 2D6
-
Moors, S. L.; Vos, A. M.; Cummings, M. D.; Van Vlijmen, H.; Ceulemans, A. Structure-based site of metabolism prediction for cytochrome P450 2D6 J. Med. Chem. 2011, 54, 6098-6105
-
(2011)
J. Med. Chem.
, vol.54
, pp. 6098-6105
-
-
Moors, S.L.1
Vos, A.M.2
Cummings, M.D.3
Van Vlijmen, H.4
Ceulemans, A.5
-
40
-
-
84855867453
-
Ligand-based site of metabolism prediction for cytochrome P450 2D6
-
Rydberg, P.; Olsen, L. Ligand-based site of metabolism prediction for cytochrome P450 2D6 ACS Med. Chem. Lett. 2011, 3, 69-73
-
(2011)
ACS Med. Chem. Lett.
, vol.3
, pp. 69-73
-
-
Rydberg, P.1
Olsen, L.2
-
41
-
-
84862888243
-
Predicting drug metabolism by cytochrome P450 2C9: Comparison with the 2D6 and 3A4 isoforms
-
Rydberg, P.; Olsen, L. Predicting drug metabolism by cytochrome P450 2C9: comparison with the 2D6 and 3A4 isoforms ChemMedChem. 2012, 7, 1202-1209
-
(2012)
ChemMedChem.
, vol.7
, pp. 1202-1209
-
-
Rydberg, P.1
Olsen, L.2
-
42
-
-
84874339356
-
RS-WebPredictor: A server for predicting CYP-mediated sites of metabolism on drug-like molecules
-
Zaretzki, J.; Bergeron, C.; Huang, T. W.; Rydberg, P.; Swamidass, S. J.; Breneman, C. M. RS-WebPredictor: a server for predicting CYP-mediated sites of metabolism on drug-like molecules Bioinformatics 2013, 29, 497-498
-
(2013)
Bioinformatics
, vol.29
, pp. 497-498
-
-
Zaretzki, J.1
Bergeron, C.2
Huang, T.W.3
Rydberg, P.4
Swamidass, S.J.5
Breneman, C.M.6
|