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1
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46849089254
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Recent developments in fragment-based drug discovery
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A comprehensive review of fragment-based practice and application, with particular emphasis on summarizing recent projects and successes.
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Congreve M., Chessari G., Tisi D., and Woodhead A.J. Recent developments in fragment-based drug discovery. J Med Chem 51 (2008) 3661-3680. A comprehensive review of fragment-based practice and application, with particular emphasis on summarizing recent projects and successes.
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(2008)
J Med Chem
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, pp. 3661-3680
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Congreve, M.1
Chessari, G.2
Tisi, D.3
Woodhead, A.J.4
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2
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34249094150
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Informatics and modeling challenges in fragment-based drug discovery
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A summary of the different approaches is taken to fragment screening, with a particular emphasis on reviewing the published strategies for the design of fragment libraries.
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Hubbard R.E., Chen I., and Davis B. Informatics and modeling challenges in fragment-based drug discovery. Curr Opin Drug Discov Dev 10 (2007) 289-297. A summary of the different approaches is taken to fragment screening, with a particular emphasis on reviewing the published strategies for the design of fragment libraries.
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Curr Opin Drug Discov Dev
, vol.10
, pp. 289-297
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Hubbard, R.E.1
Chen, I.2
Davis, B.3
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3
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33847381100
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A decade of fragment-based drug design: strategic advances and lessons learned
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Important retrospective of the impact of and developments in fragment methods in the 10 years since the first SAR by NMR publication.
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Hajduk P.J., and Greer J. A decade of fragment-based drug design: strategic advances and lessons learned. Nat Rev Drug Discov 6 (2007) 211-219. Important retrospective of the impact of and developments in fragment methods in the 10 years since the first SAR by NMR publication.
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(2007)
Nat Rev Drug Discov
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, pp. 211-219
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Hajduk, P.J.1
Greer, J.2
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63749103205
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Fragment-based ligand discovery
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Fischer M., and Hubbard R.E. Fragment-based ligand discovery. Mol Interv 9 (2009) 22-30
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Mol Interv
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Fischer, M.1
Hubbard, R.E.2
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5
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36248944181
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An integrated approach to fragment-based lead generation: philosophy, strategy and case studies from AstraZeneca's drug discovery programmes
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Alberts J.S., Blomberg N., Breeze A.L., Brown A.J.H., Burrows J.N., Edwards P.D., Folmer R.H.A., Geschwindner S., Griffen E.J., Kenny P.W., et al. An integrated approach to fragment-based lead generation: philosophy, strategy and case studies from AstraZeneca's drug discovery programmes. Curr Top Med Chem 7 (2007) 1600-1629
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Curr Top Med Chem
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Alberts, J.S.1
Blomberg, N.2
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Brown, A.J.H.4
Burrows, J.N.5
Edwards, P.D.6
Folmer, R.H.A.7
Geschwindner, S.8
Griffen, E.J.9
Kenny, P.W.10
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37349067397
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Fragment-based drug discovery using the SHAPES method
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Lepre C. Fragment-based drug discovery using the SHAPES method. Expert Opin Drug Discov 2 (2007) 1555-1566
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Expert Opin Drug Discov
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Lepre, C.1
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36248956723
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The SeeDs approach: integrating fragments into drug discovery
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Hubbard R.E., Davis B., Chen I., and Drysdale M.J. The SeeDs approach: integrating fragments into drug discovery. Curr Top Med Chem 7 (2007) 1568-1581
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Curr Top Med Chem
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Hubbard, R.E.1
Davis, B.2
Chen, I.3
Drysdale, M.J.4
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8
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35348922285
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Fragment-based screening using X-ray crystallography and NMR spectroscopy
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Jhoti H., Cleasby A., Verdonk M., and Williams G. Fragment-based screening using X-ray crystallography and NMR spectroscopy. Curr Opin Chem Biol 11 (2007) 485-493
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Curr Opin Chem Biol
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Jhoti, H.1
Cleasby, A.2
Verdonk, M.3
Williams, G.4
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9
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51249121331
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Perspectives on NMR in drug discovery: a technique comes of age
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A comprehensive overview of how NMR methods contribute to drug discovery.
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Pellecchia M., Bertini I., Cowburn D., Dalvit C., Giralt E., Jahnke W., James T.L., Homans S.W., Kessler H., Luchinat C., et al. Perspectives on NMR in drug discovery: a technique comes of age. Nat Rev Drug Discov 7 (2008) 738-745. A comprehensive overview of how NMR methods contribute to drug discovery.
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Nat Rev Drug Discov
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Pellecchia, M.1
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Jahnke, W.6
James, T.L.7
Homans, S.W.8
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36549033318
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Integration of fragment screening and library design
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Siegal G., Ab E., and Schultz J. Integration of fragment screening and library design. Drug Discov Today 12 (2007) 1032-1039
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Drug Discov Today
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Siegal, G.1
Ab, E.2
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57549115967
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Identification and selection of "privileged fragments" suitable for primary screening
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Gianti E., and Sartori L. Identification and selection of "privileged fragments" suitable for primary screening. J Chem Inform Model 48 (2008) 2129-2139
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J Chem Inform Model
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Gianti, E.1
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Kinase-targeted libraries: the design and synthesis of novel, potent, and selective kinase inhibitors
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Akritopoulou-Zanze I., and Hajduk P.J. Kinase-targeted libraries: the design and synthesis of novel, potent, and selective kinase inhibitors. Drug Discov Today 14 (2009) 291-297
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(2009)
Drug Discov Today
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Akritopoulou-Zanze, I.1
Hajduk, P.J.2
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15
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33749659675
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SAR by NMR: putting the pieces together
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A summary of the important elements of the original SAR by NMR approach from Abbott.
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Hajduk P.J. SAR by NMR: putting the pieces together. Mol Interv 6 (2006) 266-272. A summary of the important elements of the original SAR by NMR approach from Abbott.
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Mol Interv
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Hajduk, P.J.1
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16
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Label-free primary screening and affinity ranking of fragment libraries using parallel analysis of protein panels
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Hamalainen M.D., Zhukov A., Ivarsson M., Fex T., Gottfries J., Karlsson R., and Bjorsne M. Label-free primary screening and affinity ranking of fragment libraries using parallel analysis of protein panels. J Biomol Screen 13 (2008) 202-209
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J Biomol Screen
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Hamalainen, M.D.1
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Fex, T.4
Gottfries, J.5
Karlsson, R.6
Bjorsne, M.7
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Direct optical detection in fragment-based screening
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Proll F., Fechner P., and Proll G. Direct optical detection in fragment-based screening. Anal Bioanal Chem 393 (2009) 1557-1562
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Anal Bioanal Chem
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Proll, F.1
Fechner, P.2
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44049103958
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Tummino PJ, Copeland RA: Residence time of receptor-ligand complexes and its effect on biological function. Biochemistry 2008, 47:5481-5492. The kinetics of binding (on and off rates) is becoming recognised as an important criteria for compound selection. It remains to be seen whether binding kinetics can be used to select which fragments to optimise.
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Tummino PJ, Copeland RA: Residence time of receptor-ligand complexes and its effect on biological function. Biochemistry 2008, 47:5481-5492. The kinetics of binding (on and off rates) is becoming recognised as an important criteria for compound selection. It remains to be seen whether binding kinetics can be used to select which fragments to optimise.
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19
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42649125245
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Enthalpy array analysis of enzymatic and binding reactions
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Recht M.I., De Bruyker D., Bell A.G., Wolkin M.V., Peeters E., Anderson G.B., Kolatkar A.R., Bern M.W., Kuhn P., Bruce R.H., and Torres F.E. Enthalpy array analysis of enzymatic and binding reactions. Anal Biochem 377 (2008) 33-39
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Anal Biochem
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Recht, M.I.1
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Bern, M.W.8
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Bruce, R.H.10
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20
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52049123291
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Do enthalpy and entropy distinguish first in class from best in class?
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Recent advances in calorimetry allow the direct measurement of the enthalpy and entropy contributions to binding energy. It remains to be seen whether these parameters can be used to select which fragments to optimise.
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Freire E. Do enthalpy and entropy distinguish first in class from best in class?. Drug Discov Today 13 (2008) 869-874. Recent advances in calorimetry allow the direct measurement of the enthalpy and entropy contributions to binding energy. It remains to be seen whether these parameters can be used to select which fragments to optimise.
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Drug Discov Today
, vol.13
, pp. 869-874
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Freire, E.1
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21
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Fragment-based drug design: how big is too big?
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A landmark publication describing a retrospective analysis that tracks the ligand efficiency in fragment to lead optimisation campaigns. A number of important concepts are introduced which underpin much of the current thinking in fragment optimisation.
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Hajduk P.J. Fragment-based drug design: how big is too big?. J Med Chem 49 (2006) 6972-6976. A landmark publication describing a retrospective analysis that tracks the ligand efficiency in fragment to lead optimisation campaigns. A number of important concepts are introduced which underpin much of the current thinking in fragment optimisation.
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J Med Chem
, vol.49
, pp. 6972-6976
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Hajduk, P.J.1
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Statistical analysis of the effects of common chemical substituents on ligand potency
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Hajduk P.J., and Sauer D.R. Statistical analysis of the effects of common chemical substituents on ligand potency. J Med Chem 51 (2008) 553-564
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J Med Chem
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Hajduk, P.J.1
Sauer, D.R.2
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Group efficiency: a guideline for hits-to-leads chemistry
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Verdonk M.L., and Rees D.C. Group efficiency: a guideline for hits-to-leads chemistry. Chem Med Chem 3 (2008) 1179-1180
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Chem Med Chem
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Verdonk, M.L.1
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The influence of drug-like concepts on decision-making in medicinal chemistry
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Leeson P.D., and Springthorpe B. The influence of drug-like concepts on decision-making in medicinal chemistry. Nat Rev Drug Discov 6 (2007) 881-890
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Nat Rev Drug Discov
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Leeson, P.D.1
Springthorpe, B.2
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25
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34447297884
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Discovery and design of novel HSP90 inhibitors using multiple fragment-based design strategies
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Huth J.R., Park C., Petros A.M., Kunzer A.R., Wendt M.D., Wang X.L., Lynch C.L., Mack J.C., Swift K.M., Judge R.A., et al. Discovery and design of novel HSP90 inhibitors using multiple fragment-based design strategies. Chem Biol Drug Des 70 (2007) 1-12
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Chem Biol Drug Des
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Huth, J.R.1
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Wang, X.L.6
Lynch, C.L.7
Mack, J.C.8
Swift, K.M.9
Judge, R.A.10
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26
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34249050729
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Identification of inhibitors of protein kinase B using fragment-based lead discovery
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This and the partner paper in the same volume describe alternate strategies (growing/merging) for the optimisation of fragments into lead candidates.
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Saxty G., Woodhead S.J., Berdini V., Davies T.G., Verdonk M.L., Wyatt P.G., Boyle R.G., Barford D., Downham R., Garrett M.D., and Carr R.A. Identification of inhibitors of protein kinase B using fragment-based lead discovery. J Med Chem 50 (2007) 2293-2296. This and the partner paper in the same volume describe alternate strategies (growing/merging) for the optimisation of fragments into lead candidates.
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J Med Chem
, vol.50
, pp. 2293-2296
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Saxty, G.1
Woodhead, S.J.2
Berdini, V.3
Davies, T.G.4
Verdonk, M.L.5
Wyatt, P.G.6
Boyle, R.G.7
Barford, D.8
Downham, R.9
Garrett, M.D.10
Carr, R.A.11
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CONFIRM: connecting fragments found in receptor molecules
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Thompson D.C., Denny R.A., Nilakantan R., Humblet C., Joseph-McCarthy D., and Feyfant E. CONFIRM: connecting fragments found in receptor molecules. J Comput Aid Mol Des 22 (2008) 761-772
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J Comput Aid Mol Des
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Thompson, D.C.1
Denny, R.A.2
Nilakantan, R.3
Humblet, C.4
Joseph-McCarthy, D.5
Feyfant, E.6
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38349157746
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4,5-Diarylisoxazole HSP90 chaperone inhibitors: potential therapeutic agents for the treatment of cancer
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Brough P.A., Aherne W., Barril X., Borgognoni J., Boxall K., Cansfield J.E., Cheung K.M.J., Collins I., Davies N.G.M., Drysdale M.J., et al. 4,5-Diarylisoxazole HSP90 chaperone inhibitors: potential therapeutic agents for the treatment of cancer. J Med Chem 51 (2008) 196-218
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J Med Chem
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Brough, P.A.1
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Boxall, K.5
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Davies, N.G.M.9
Drysdale, M.J.10
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43049111044
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"Virtual fragment linking": an approach to identify potent binders from low affinity fragment hits
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One of the first published examples of how fragment screening may provide a 'window' into corporate compound collections, providing an alternative way that fragment-based discovery can sit alongside HTS within large corporations.
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Crisman T.J., Bender A., Milik M., Jenkins J.L., Scheiber J., Sukuru S.C.K., Fejzo J., Hommel U., Davies J.W., and Glick M. "Virtual fragment linking": an approach to identify potent binders from low affinity fragment hits. J Med Chem 51 (2008) 2481-2491. One of the first published examples of how fragment screening may provide a 'window' into corporate compound collections, providing an alternative way that fragment-based discovery can sit alongside HTS within large corporations.
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(2008)
J Med Chem
, vol.51
, pp. 2481-2491
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Crisman, T.J.1
Bender, A.2
Milik, M.3
Jenkins, J.L.4
Scheiber, J.5
Sukuru, S.C.K.6
Fejzo, J.7
Hommel, U.8
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Glick, M.10
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60549088370
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Fragment-based discovery of the pyrazol-4-yl urea (AT9283), a multitargeted kinase inhibitor with potent aurora kinase activity
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The most recent publication from Astex providing a particularly elegant illustration of how structure-guided growth of a fragment leads rapidly to a potent inhibitor.
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Howard S., Berdini V., Boulstridge J.A., Carr M.G., Cross D.M., Curry J., Devine L.A., Early T.R., Fazal L., Gill A.L., et al. Fragment-based discovery of the pyrazol-4-yl urea (AT9283), a multitargeted kinase inhibitor with potent aurora kinase activity. J Med Chem 52 (2009) 379-388. The most recent publication from Astex providing a particularly elegant illustration of how structure-guided growth of a fragment leads rapidly to a potent inhibitor.
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J Med Chem
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, pp. 379-388
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Howard, S.1
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Boulstridge, J.A.3
Carr, M.G.4
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Devine, L.A.7
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Gill, A.L.10
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Fragment-based discovery of JAK-2 inhibitors
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Antonysamy S.S., Hirst G., Park F., Sprengeler P., Stappenbeck F., Steensma R., Wilson M., and Wong M. Fragment-based discovery of JAK-2 inhibitors. Bioorg Med Chem Lett 19 (2009) 279-282
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Hubbard R.E. Fragment approaches in structure-based drug discovery. J Synchrotron Radiat 15 (2008) 227-230
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Oltersdorf T., Elmore S.W., Shoemaker A.R., Armstrong R.C., Augeri D.J., Belli B.A., Bruncko M., Deckwerth T.L., Dinges J., Hajduk P.J., et al. An inhibitor of Bcl-2 family proteins induces regression of solid tumours. Nature 435 (2005) 677-681
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Application of fragment screening by X-ray crystallography to the discovery of aminopyridines as inhibitors of beta-secretase
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Congreve M., Aharony D., Albert J., Callaghan O., Campbell J., Carr R.A.E., Chessari G., Cowan S., Edwards P.D., Frederickson M., et al. Application of fragment screening by X-ray crystallography to the discovery of aminopyridines as inhibitors of beta-secretase. J Med Chem 50 (2007) 1124-1132
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Congreve, M.1
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Novel prostaglandin D synthase inhibitors generated by fragment-based drug design
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Hohwy M., Spadola L., Lundquist B., Hawtin P., Dahmen J., Groth-Clausen I., Nilsson E., Persdotter S., Von Wachenfeldt K., Folmer R.H.A., and Edman K. Novel prostaglandin D synthase inhibitors generated by fragment-based drug design. J Med Chem 51 (2008) 2178-2186
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Fragment-based discovery of hepatitis C virus NS5b RNA polymerase inhibitors
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NMR-guided fragment-based approach for the design of tRNA(Lys3) ligands
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Chung F., Tisne C., Lecourt T., Dardel F., and Micouin L. NMR-guided fragment-based approach for the design of tRNA(Lys3) ligands. Angew Chem Intl Ed 46 (2007) 4489-4491
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Identification of N-(4-piperidinyl)-4-(2,6-dichlorobenzoylamino)-1H-pyrazole-3-carboxamide (AT7519), a novel cyclin dependent kinase inhibitor using fragment-based X-ray crystallography and structure based drug design
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Wyatt P.G., Woodhead A.J., Berdini V., Boulstridge J.A., Carr M.G., Cross D.M., Davis D.J., Devine L.A., Early T.R., Feltell R.E., et al. Identification of N-(4-piperidinyl)-4-(2,6-dichlorobenzoylamino)-1H-pyrazole-3-carboxamide (AT7519), a novel cyclin dependent kinase inhibitor using fragment-based X-ray crystallography and structure based drug design. J Med Chem 51 (2008) 4986-4999
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Wyatt, P.G.1
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