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Volumn 10, Issue 4, 2013, Pages 1153-1161

Physicochemical and DMPK in silico models: Facilitating their use by medicinal chemists

Author keywords

ADMET; desktop modeling; hepatocyte; liver microsome; modeling; MPO; physicochemical; QSAR; review

Indexed keywords

ACCURACY; CALCULATION; COMPUTER MODEL; COMPUTER PROGRAM; DRUG DESIGN; DRUG PACKAGING; DRUG PENETRATION; DRUG PROTEIN BINDING; DRUG SCREENING; DRUG SOLUBILITY; DRUG SYNTHESIS; LIVER MICROSOME; MOLECULAR MODEL; MOLECULAR WEIGHT; PHYSICOCHEMICAL MODEL; PRIORITY JOURNAL; QUANTITATIVE STRUCTURE ACTIVITY RELATION; REVIEW;

EID: 84875802857     PISSN: 15438384     EISSN: 15438392     Source Type: Journal    
DOI: 10.1021/mp3006193     Document Type: Review
Times cited : (22)

References (52)
  • 1
    • 0037468884 scopus 로고    scopus 로고
    • A Comparison of Physiochemical Property Profiles of Development and Marketed Oral Drugs
    • Wenlock, M. C.; Austin, R. P.; Barton, P.; Davis, A. M.; Leeson, P. D. A Comparison of Physiochemical Property Profiles of Development and Marketed Oral Drugs J. Med. Chem. 2003, 46, 1250-1256
    • (2003) J. Med. Chem. , vol.46 , pp. 1250-1256
    • Wenlock, M.C.1    Austin, R.P.2    Barton, P.3    Davis, A.M.4    Leeson, P.D.5
  • 2
    • 80255141850 scopus 로고    scopus 로고
    • Evolution of the physicochemical properties of marketed drugs: Can history foretell the future?
    • Faller, B.; Ottaviani, G.; Ertl, P.; Berellini, G.; Collis, A. Evolution of the physicochemical properties of marketed drugs: can history foretell the future? Drug Discovery Today 2011, 16, 976-984
    • (2011) Drug Discovery Today , vol.16 , pp. 976-984
    • Faller, B.1    Ottaviani, G.2    Ertl, P.3    Berellini, G.4    Collis, A.5
  • 3
    • 39749181550 scopus 로고    scopus 로고
    • Generation of a set of simple, interpretable ADMET rules of thumb
    • Gleeson, M. P. Generation of a set of simple, interpretable ADMET rules of thumb J. Med. Chem. 2008, 51, 817-834
    • (2008) J. Med. Chem. , vol.51 , pp. 817-834
    • Gleeson, M.P.1
  • 4
    • 79952171625 scopus 로고    scopus 로고
    • Probing the links between in vitro potency, ADMET and physicochemical parameters
    • Gleeson, M. P.; Hersey, A.; Montanari, D.; Overington, J. Probing the links between in vitro potency, ADMET and physicochemical parameters Nat. Rev. Drug Discovery 2011, 10, 197-208
    • (2011) Nat. Rev. Drug Discovery , vol.10 , pp. 197-208
    • Gleeson, M.P.1    Hersey, A.2    Montanari, D.3    Overington, J.4
  • 6
    • 37749023039 scopus 로고    scopus 로고
    • Development of in silico models for human liver microsomal stability
    • Lee, P. H.; Cucurull-Sanchez, L.; Lu, J.; Du, Y. J. Development of in silico models for human liver microsomal stability J. Comput.-Aided Mol. Des. 2007, 21, 665-673
    • (2007) J. Comput.-Aided Mol. Des. , vol.21 , pp. 665-673
    • Lee, P.H.1    Cucurull-Sanchez, L.2    Lu, J.3    Du, Y.J.4
  • 8
    • 84867577372 scopus 로고    scopus 로고
    • How hydrogen bonds impact P-glycoprotein transport and permeability
    • Desai, P. V.; Raub, T. J.; Blanco, M.-J. How hydrogen bonds impact P-glycoprotein transport and permeability Bioorg. Med. Chem. Lett. 2012, 22, 6540-6548
    • (2012) Bioorg. Med. Chem. Lett. , vol.22 , pp. 6540-6548
    • Desai, P.V.1    Raub, T.J.2    Blanco, M.-J.3
  • 9
    • 78049385182 scopus 로고    scopus 로고
    • Using Open Source Computational Tools for Predicting Human Metabolic Stability and Additional ADME/Tox Properties
    • Gupta, R.; Gifford, E. M.; Liston, T.; Waller, C. L.; Hohman, M.; Bunin, B. A.; Ekins, S. Using Open Source Computational Tools For Predicting Human Metabolic Stability and Additional ADME/Tox Properties Drug Metab. Dispos. 2010, 38, 2083-2090
    • (2010) Drug Metab. Dispos. , vol.38 , pp. 2083-2090
    • Gupta, R.1    Gifford, E.M.2    Liston, T.3    Waller, C.L.4    Hohman, M.5    Bunin, B.A.6    Ekins, S.7
  • 13
    • 0034625096 scopus 로고    scopus 로고
    • Molecular fields in quantitative structure-permeation relationships: The VolSurf approach
    • Cruciani, G. Molecular fields in quantitative structure-permeation relationships: the VolSurf approach J. Mol. Struct.: THEOCHEM 2000, 503, 17-30
    • (2000) J. Mol. Struct.: THEOCHEM , vol.503 , pp. 17-30
    • Cruciani, G.1
  • 17
    • 33846230530 scopus 로고    scopus 로고
    • Plasma protein binding affinity and its relationship to molecular structure: An in-silico analysis
    • Gleeson, M. P. Plasma protein binding affinity and its relationship to molecular structure: an in-silico analysis J. Med. Chem. 2007, 50, 101-112
    • (2007) J. Med. Chem. , vol.50 , pp. 101-112
    • Gleeson, M.P.1
  • 19
    • 80054905079 scopus 로고    scopus 로고
    • Rapid shape-based ligand alignment and virtual screening method based on atom/feature-pair similarities and volume overlap scoring
    • Sastry, G. M.; Dixon, S. L.; Sherman, W. Rapid shape-based ligand alignment and virtual screening method based on atom/feature-pair similarities and volume overlap scoring J. Chem. Inf. Model. 2011, 51, 2455-2466
    • (2011) J. Chem. Inf. Model. , vol.51 , pp. 2455-2466
    • Sastry, G.M.1    Dixon, S.L.2    Sherman, W.3
  • 20
    • 14944348527 scopus 로고    scopus 로고
    • A shape-based 3-D scaffold hopping method and its application to a bacterial protein-protein interaction
    • Rush, T. S.; Grant, J. A.; Mosyak, L.; Nicholls, A. A shape-based 3-D scaffold hopping method and its application to a bacterial protein-protein interaction J. Med. Chem. 2005, 48, 1489-1495
    • (2005) J. Med. Chem. , vol.48 , pp. 1489-1495
    • Rush, T.S.1    Grant, J.A.2    Mosyak, L.3    Nicholls, A.4
  • 21
    • 79251524915 scopus 로고    scopus 로고
    • Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database
    • Plewczynski, D.; Laźniewski, M.; Augustyniak, R.; Ginalski, K. Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database J. Comput. Chem. 2011, 32, 742-755
    • (2011) J. Comput. Chem. , vol.32 , pp. 742-755
    • Plewczynski, D.1    Laźniewski, M.2    Augustyniak, R.3    Ginalski, K.4
  • 22
    • 84865485155 scopus 로고    scopus 로고
    • ToxAlerts: A Web server of structural alerts for toxic chemicals and compounds with potential adverse reactions
    • Sushko, I.; Salmina, E.; Potemkin, V. A.; Poda, G.; Tetko, I. V. ToxAlerts: a Web server of structural alerts for toxic chemicals and compounds with potential adverse reactions J. Chem. Inf. Model. 2012, 52, 2310-2316
    • (2012) J. Chem. Inf. Model. , vol.52 , pp. 2310-2316
    • Sushko, I.1    Salmina, E.2    Potemkin, V.A.3    Poda, G.4    Tetko, I.V.5
  • 23
    • 36849084612 scopus 로고    scopus 로고
    • Predictive models for HERG channel blockers: Ligand-based and structure-based approaches
    • Thai, K.-M.; Ecker, G. F. Predictive models for HERG channel blockers: ligand-based and structure-based approaches Curr. Med. Chem. 2007, 14, 3003-3026
    • (2007) Curr. Med. Chem. , vol.14 , pp. 3003-3026
    • Thai, K.-M.1    Ecker, G.F.2
  • 24
    • 0035289779 scopus 로고    scopus 로고
    • Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings
    • Lipinski, C. A.; Lombardo, F.; Dominy, B. W.; Feeney, P. J. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings Adv. Drug Delivery Rev. 2001, 46, 3-26
    • (2001) Adv. Drug Delivery Rev. , vol.46 , pp. 3-26
    • Lipinski, C.A.1    Lombardo, F.2    Dominy, B.W.3    Feeney, P.J.4
  • 25
    • 35748934487 scopus 로고    scopus 로고
    • The influence of drug-like concepts on decision-making in medicinal chemistry
    • Leeson, P. D.; Springthorpe, B. The influence of drug-like concepts on decision-making in medicinal chemistry Nat. Rev. Drug Discovery 2007, 6, 881-890
    • (2007) Nat. Rev. Drug Discovery , vol.6 , pp. 881-890
    • Leeson, P.D.1    Springthorpe, B.2
  • 26
    • 84856846240 scopus 로고    scopus 로고
    • Impact of Lipophilic Efficiency on Compound Quality
    • Tarcsay, A.; Nyíri, K.; Keseru, G. M. Impact of Lipophilic Efficiency on Compound Quality J. Med. Chem. 2012, 55, 1252-1260
    • (2012) J. Med. Chem. , vol.55 , pp. 1252-1260
    • Tarcsay, A.1    Nyíri, K.2    Keseru, G.M.3
  • 27
    • 77953675980 scopus 로고    scopus 로고
    • Moving beyond Rules: The Development of a Central Nervous System Multiparameter Optimization (CNS MPO) Approach to Enable Alignment of Druglike Properties
    • Wager, T. T.; Hou, X.; Verhoest, P. R.; Villalobos, A. Moving beyond Rules: The Development of a Central Nervous System Multiparameter Optimization (CNS MPO) Approach To Enable Alignment of Druglike Properties ACS Chem. Neurosci. 2010, 1, 435-449
    • (2010) ACS Chem. Neurosci. , vol.1 , pp. 435-449
    • Wager, T.T.1    Hou, X.2    Verhoest, P.R.3    Villalobos, A.4
  • 28
    • 77955509080 scopus 로고    scopus 로고
    • Getting physical in drug discovery: A contemporary perspective on solubility and hydrophobicity
    • Hill, A. P.; Young, R. J. Getting physical in drug discovery: a contemporary perspective on solubility and hydrophobicity Drug Discovery Today 2010, 15, 648-655
    • (2010) Drug Discovery Today , vol.15 , pp. 648-655
    • Hill, A.P.1    Young, R.J.2
  • 29
    • 77955552577 scopus 로고    scopus 로고
    • Extending pKa prediction accuracy: High-throughput pKa measurements to understand pKa modulation of new chemical series
    • Milletti, F.; Storchi, L.; Goracci, L.; Bendels, S.; Wagner, B.; Kansy, M.; Cruciani, G. Extending pKa prediction accuracy: high-throughput pKa measurements to understand pKa modulation of new chemical series Eur. J. Med. Chem. 2010, 45, 4270-4279
    • (2010) Eur. J. Med. Chem. , vol.45 , pp. 4270-4279
    • Milletti, F.1    Storchi, L.2    Goracci, L.3    Bendels, S.4    Wagner, B.5    Kansy, M.6    Cruciani, G.7
  • 30
    • 84857737608 scopus 로고    scopus 로고
    • Multi-parameter optimization: Identifying high quality compounds with a balance of properties
    • Segall, M. D. Multi-parameter optimization: identifying high quality compounds with a balance of properties Curr. Pharm. Des. 2012, 18, 1292-1310
    • (2012) Curr. Pharm. Des. , vol.18 , pp. 1292-1310
    • Segall, M.D.1
  • 32
    • 77954075802 scopus 로고    scopus 로고
    • Gaussian processes for classification: QSAR modeling of ADMET and target activity
    • Obrezanova, O.; Segall, M. D. Gaussian processes for classification: QSAR modeling of ADMET and target activity J. Chem. Inf. Model. 2010, 50, 1053-1061
    • (2010) J. Chem. Inf. Model. , vol.50 , pp. 1053-1061
    • Obrezanova, O.1    Segall, M.D.2
  • 33
    • 54049120585 scopus 로고    scopus 로고
    • Class-modeling techniques, classic and new, for old and new problems
    • Forina, M.; Oliveri, P.; Lanteri, S.; Casale, M. Class-modeling techniques, classic and new, for old and new problems Chemom. Intell. Lab. Syst. 2008, 93, 132-148
    • (2008) Chemom. Intell. Lab. Syst. , vol.93 , pp. 132-148
    • Forina, M.1    Oliveri, P.2    Lanteri, S.3    Casale, M.4
  • 34
    • 78651365939 scopus 로고    scopus 로고
    • The graphical representation of ADME-related molecule properties for medicinal chemists
    • Ritchie, T. J.; Ertl, P.; Lewis, R. The graphical representation of ADME-related molecule properties for medicinal chemists Drug Discovery Today 2010, 16, 65-72
    • (2010) Drug Discovery Today , vol.16 , pp. 65-72
    • Ritchie, T.J.1    Ertl, P.2    Lewis, R.3
  • 38
    • 18244370266 scopus 로고    scopus 로고
    • A bioavailability score
    • Martin, Y. C. A bioavailability score J. Med. Chem. 2005, 48, 3164-3170
    • (2005) J. Med. Chem. , vol.48 , pp. 3164-3170
    • Martin, Y.C.1
  • 39
    • 84856046963 scopus 로고    scopus 로고
    • Knowledge-Based, Central Nervous System (CNS) Lead Selection and Lead Optimization for CNS Drug Discovery
    • Ghose, A. K.; Herbertz, T.; Hudkins, R. L.; Dorsey, B. D.; Mallamo, J. P. Knowledge-Based, Central Nervous System (CNS) Lead Selection and Lead Optimization for CNS Drug Discovery ACS Chem. Neurosci. 2012, 3, 50-68
    • (2012) ACS Chem. Neurosci. , vol.3 , pp. 50-68
    • Ghose, A.K.1    Herbertz, T.2    Hudkins, R.L.3    Dorsey, B.D.4    Mallamo, J.P.5
  • 40
    • 79959522607 scopus 로고    scopus 로고
    • Antiarthritis Effect of a Novel Bruton ' s Tyrosine Kinase (BTK) Inhibitor in Rat Collagen-Induced Arthritis and Mechanism- Based Pharmacokinetic/Pharmacodynamic Modeling: Relationships between Inhibition of BTK Phosphorylation and Efficacy
    • Liu, L.; Paolo, J.; Dibarbosa, J.; Rong, H.; Reif, K.; Wong, H. Antiarthritis Effect of a Novel Bruton ' s Tyrosine Kinase (BTK) Inhibitor in Rat Collagen-Induced Arthritis and Mechanism- Based Pharmacokinetic/ Pharmacodynamic Modeling: Relationships between Inhibition of BTK Phosphorylation and Efficacy Pharmacology 2011, 338, 154-163
    • (2011) Pharmacology , vol.338 , pp. 154-163
    • Liu, L.1    Paolo, J.2    Dibarbosa, J.3    Rong, H.4    Reif, K.5    Wong, H.6
  • 42
    • 84860001254 scopus 로고    scopus 로고
    • Strategies to minimize CNS toxicity: In vitro high-throughput assays and computational modeling
    • Wager, T. T.; Liras, J. L.; Mente, S.; Trapa, P. Strategies to minimize CNS toxicity: in vitro high-throughput assays and computational modeling Expert Opin. Drug Metab. Toxicol. 2012, 8, 531-542
    • (2012) Expert Opin. Drug Metab. Toxicol. , vol.8 , pp. 531-542
    • Wager, T.T.1    Liras, J.L.2    Mente, S.3    Trapa, P.4
  • 44
    • 80053471789 scopus 로고    scopus 로고
    • The influence of the "organizational factor" on compound quality in drug discovery
    • Leeson, P. D.; St-Gallay, S. A. The influence of the "organizational factor" on compound quality in drug discovery Nat. Rev. Drug Discovery 2011, 10, 749-765
    • (2011) Nat. Rev. Drug Discovery , vol.10 , pp. 749-765
    • Leeson, P.D.1    St-Gallay, S.A.2
  • 46
    • 0029783934 scopus 로고    scopus 로고
    • Neighborhood behavior: A useful concept for validation of "molecular diversity" descriptors
    • Patterson, D. E.; Cramer, R. D.; Ferguson, A. M.; Clark, R. D.; Weinberger, L. E. Neighborhood behavior: a useful concept for validation of "molecular diversity" descriptors J. Med. Chem. 1996, 39, 3049-3059
    • (1996) J. Med. Chem. , vol.39 , pp. 3049-3059
    • Patterson, D.E.1    Cramer, R.D.2    Ferguson, A.M.3    Clark, R.D.4    Weinberger, L.E.5
  • 49
    • 33748099709 scopus 로고    scopus 로고
    • Drug Guru: A computer software program for drug design using medicinal chemistry rules
    • Stewart, K. D.; Shiroda, M.; James, C. A. Drug Guru: a computer software program for drug design using medicinal chemistry rules Bioorg. Med. Chem. 2006, 14, 7011-7022
    • (2006) Bioorg. Med. Chem. , vol.14 , pp. 7011-7022
    • Stewart, K.D.1    Shiroda, M.2    James, C.A.3
  • 50
    • 84891483450 scopus 로고    scopus 로고
    • Finding the sweet spot in medicinal chemistry
    • Hann, M. M.; Keserü, G. M. Finding the sweet spot in medicinal chemistry Nat. Rev. Drug Discovery 2012, 1039, 2012
    • (2012) Nat. Rev. Drug Discovery , vol.1039 , pp. 2012
    • Hann, M.M.1    Keserü, G.M.2
  • 51
    • 0027480450 scopus 로고
    • MCL1, a gene expressed in programmed myeloid cell differentiation, has sequence similarity to BCL2
    • Kozopas, K. M.; Yang, T.; Buchan, H. L.; Zhou, P.; Craig, R. W. MCL1, a gene expressed in programmed myeloid cell differentiation, has sequence similarity to BCL2 Proc. Natl. Acad. Sci. U.S.A. 1993, 90, 3516-3520
    • (1993) Proc. Natl. Acad. Sci. U.S.A. , vol.90 , pp. 3516-3520
    • Kozopas, K.M.1    Yang, T.2    Buchan, H.L.3    Zhou, P.4    Craig, R.W.5
  • 52
    • 84866682694 scopus 로고    scopus 로고
    • Public domain databases for medicinal chemistry
    • Nicola, G.; Liu, T.; Gilson, M. K. Public domain databases for medicinal chemistry J. Med. Chem. 2012, 55, 6987-7002
    • (2012) J. Med. Chem. , vol.55 , pp. 6987-7002
    • Nicola, G.1    Liu, T.2    Gilson, M.K.3


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