-
2
-
-
0037068532
-
Do structurally similar molecules have similar biological activity?
-
DOI 10.1021/jm020155c
-
Martin, Y. C.; Kofron, J. L.; Traphagen, L. M. Do structurally similar molecules have similar biological activity? J. Med. Chem. 2002, 45, 4350-4358 (Pubitemid 35025581)
-
(2002)
Journal of Medicinal Chemistry
, vol.45
, Issue.19
, pp. 4350-4358
-
-
Martin, Y.C.1
Kofron, J.L.2
Traphagen, L.M.3
-
3
-
-
77954344350
-
Cheminformatic tools for medicinal chemists
-
Muchmore, S. W.; Edmunds, J. J.; Stewart, K. D.; Hajduk, P. J. Cheminformatic tools for medicinal chemists J. Med. Chem. 2010, 53, 4830-4841
-
(2010)
J. Med. Chem.
, vol.53
, pp. 4830-4841
-
-
Muchmore, S.W.1
Edmunds, J.J.2
Stewart, K.D.3
Hajduk, P.J.4
-
4
-
-
30844443282
-
Molecular similarity and diversity in chemoinformatics: From theory to applications
-
DOI 10.1007/s11030-006-8697-1
-
Maldonado, A. G.; Doucet, J. P.; Petitjean, M.; Fan, B. T. Molecular similarity and diversity in chemoinformatics: From theory to applications Mol. Diversity 2006, 10, 39-79 (Pubitemid 43102376)
-
(2006)
Molecular Diversity
, vol.10
, Issue.1
, pp. 39-79
-
-
Maldonado, A.G.1
Doucet, J.P.2
Petitjean, M.3
Fan, B.-T.4
-
5
-
-
67650723141
-
A small-molecule inhibitor of nipah virus envelope protein-mediated membrane fusion
-
Niedermeier, S.; Singethan, K.; Rohrer, S. G.; Matz, M.; Kossner, M.; Diederich, S.; Maisner, A.; Schmitz, J.; Hiltensperger, G.; Baumann, K.; Holzgrabe, U.; Schneider-Schaulies, J. A small-molecule inhibitor of nipah virus envelope protein-mediated membrane fusion J. Med. Chem. 2009, 52, 4257-4265
-
(2009)
J. Med. Chem.
, vol.52
, pp. 4257-4265
-
-
Niedermeier, S.1
Singethan, K.2
Rohrer, S.G.3
Matz, M.4
Kossner, M.5
Diederich, S.6
Maisner, A.7
Schmitz, J.8
Hiltensperger, G.9
Baumann, K.10
Holzgrabe, U.11
Schneider-Schaulies, J.12
-
6
-
-
64549145417
-
Novel approach for chemotype hopping based on annotated databases of chemically feasible fragments and a prospective case study: New melanin concentrating hormone antagonists
-
Oyarzabal, J.; Howe, T.; Alcazar, J.; Andres, J. I.; Alvarez, R. M.; Dautzenberg, F.; Iturrino, L.; Martinez, S.; Van der Linden, I. Novel approach for chemotype hopping based on annotated databases of chemically feasible fragments and a prospective case study: new melanin concentrating hormone antagonists J. Med. Chem. 2009, 52, 2076-2089
-
(2009)
J. Med. Chem.
, vol.52
, pp. 2076-2089
-
-
Oyarzabal, J.1
Howe, T.2
Alcazar, J.3
Andres, J.I.4
Alvarez, R.M.5
Dautzenberg, F.6
Iturrino, L.7
Martinez, S.8
Van Der Linden, I.9
-
7
-
-
77956741769
-
Discovery of mitogen-activated protein kinase-interacting kinase 1 inhibitors by a comprehensive fragment-oriented virtual screening approach
-
Oyarzabal, J.; Zarich, N.; Albarran, M. I.; Palacios, I.; Urbano-Cuadrado, M.; Mateos, G.; Reymundo, I.; Rabal, O.; Salgado, A.; Corrionero, A.; Fominaya, J.; Pastor, J.; Bischoff, J. R. Discovery of mitogen-activated protein kinase-interacting kinase 1 inhibitors by a comprehensive fragment-oriented virtual screening approach J. Med. Chem. 2010, 53, 6618-6628
-
(2010)
J. Med. Chem.
, vol.53
, pp. 6618-6628
-
-
Oyarzabal, J.1
Zarich, N.2
Albarran, M.I.3
Palacios, I.4
Urbano-Cuadrado, M.5
Mateos, G.6
Reymundo, I.7
Rabal, O.8
Salgado, A.9
Corrionero, A.10
Fominaya, J.11
Pastor, J.12
Bischoff, J.R.13
-
8
-
-
14944348527
-
A shape-based 3-D scaffold hopping method and its application to a bacterial protein-protein interaction
-
DOI 10.1021/jm040163o
-
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 (Pubitemid 40364556)
-
(2005)
Journal of Medicinal Chemistry
, vol.48
, Issue.5
, pp. 1489-1495
-
-
Rush III, T.S.1
Grant, J.A.2
Mosyak, L.3
Nicholls, A.4
-
9
-
-
74049126603
-
Prospective virtual screening with Ultrafast Shape Recognition: The identification of novel inhibitors of arylamine N-acetyltransferases
-
Ballester, P. J.; Westwood, I.; Laurieri, N.; Sim, E.; Richards, W. G. Prospective virtual screening with Ultrafast Shape Recognition: the identification of novel inhibitors of arylamine N-acetyltransferases J. R. Soc. Interface 2010, 7, 335-342
-
(2010)
J. R. Soc. Interface
, vol.7
, pp. 335-342
-
-
Ballester, P.J.1
Westwood, I.2
Laurieri, N.3
Sim, E.4
Richards, W.G.5
-
10
-
-
70449634957
-
Predicting new molecular targets for known drugs
-
Keiser, M. J.; Setola, V.; Irwin, J. J.; Laggner, C.; Abbas, A. I.; Hufeisen, S. J.; Jensen, N. H.; Kuijer, M. B.; Matos, R. C.; Tran, T. B.; Whaley, R.; Glennon, R. A.; Hert, J.; Thomas, K. L. H.; Edwards, D. D.; Shoichet, B. K.; Roth, B. L. Predicting new molecular targets for known drugs Nature 2009, 462, 175-181
-
(2009)
Nature
, vol.462
, pp. 175-181
-
-
Keiser, M.J.1
Setola, V.2
Irwin, J.J.3
Laggner, C.4
Abbas, A.I.5
Hufeisen, S.J.6
Jensen, N.H.7
Kuijer, M.B.8
Matos, R.C.9
Tran, T.B.10
Whaley, R.11
Glennon, R.A.12
Hert, J.13
Thomas, K.L.H.14
Edwards, D.D.15
Shoichet, B.K.16
Roth, B.L.17
-
11
-
-
33846876695
-
Relating protein pharmacology by ligand chemistry
-
DOI 10.1038/nbt1284, PII NBT1284
-
Keiser, M. J.; Roth, B. L.; Armbruster, B. N.; Ernsberger, P.; Irwin, J. J.; Shoichet, B. K. Relating protein pharmacology by ligand chemistry Nat. Biotechnol. 2007, 25, 197-206 (Pubitemid 46227119)
-
(2007)
Nature Biotechnology
, vol.25
, Issue.2
, pp. 197-206
-
-
Keiser, M.J.1
Roth, B.L.2
Armbruster, B.N.3
Ernsberger, P.4
Irwin, J.J.5
Shoichet, B.K.6
-
12
-
-
5344244908
-
Chemical similarity searching
-
Willett, P.; Barnard, J. M.; Downs, G. M. Chemical similarity searching J. Chem. Inf. Comput. Sci. 1998, 38, 983-996 (Pubitemid 128591261)
-
(1998)
Journal of Chemical Information and Computer Sciences
, vol.38
, Issue.6
, pp. 983-996
-
-
Willett, P.1
Barnard, J.M.2
Downs, G.M.3
-
13
-
-
80053324713
-
-
Pipeline Pilot, version 7.5; Accelrys: San Diego, CA
-
Pipeline Pilot, version 7.5; Accelrys: San Diego, CA, 2009.
-
(2009)
-
-
-
14
-
-
2042489375
-
-
Symyx Software: San Ramon, CA
-
MACCS structural keys; Symyx Software: San Ramon, CA, 2010.
-
(2010)
MACCS Structural Keys
-
-
-
15
-
-
80053332752
-
-
Daylight Fingerprints, version 4.62; Daylight Chemical Information Systems: Laguna Niguel, CA
-
Daylight Fingerprints, version 4.62; Daylight Chemical Information Systems: Laguna Niguel, CA, 1999.
-
(1999)
-
-
-
16
-
-
5544290537
-
Similarity searching of chemical databases using atom environment descriptors (MOLPRINT 2D): Evaluation of performance
-
Bender, A.; Mussa, H. Y.; Glen, R. C.; Reiling, S. Similarity searching of chemical databases using atom environment descriptors (MOLPRINT 2D): Evaluation of performance J. Chem. Inf. Comput. Sci. 2004, 44, 1708-1718
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 1708-1718
-
-
Bender, A.1
Mussa, H.Y.2
Glen, R.C.3
Reiling, S.4
-
17
-
-
1842690601
-
Molecular similarity searching using atom environments, information-based feature selection, and a naive Bayesian classifier
-
Bender, A.; Mussa, H. Y.; Glen, R. C.; Reiling, S. Molecular similarity searching using atom environments, information-based feature selection, and a naive Bayesian classifier J. Chem. Inf. Comput. Sci. 2004, 44, 170-178
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 170-178
-
-
Bender, A.1
Mussa, H.Y.2
Glen, R.C.3
Reiling, S.4
-
18
-
-
0036448558
-
RASCAL: Calculation of graph similarity using maximum common edge subgraphs
-
DOI 10.1093/comjnl/45.6.631
-
Raymond, J. W.; Gardiner, E. J.; Willett, P. RASCAL: Calculation of graph similarity using maximum common edge subgraphs Comput. J. 2002, 45, 631-644 (Pubitemid 35446242)
-
(2002)
Computer Journal
, vol.45
, Issue.6
, pp. 631-644
-
-
Raymond, J.W.1
Gardiner, E.J.2
Willett, P.3
-
19
-
-
0036522746
-
Heuristics for similarity searching of chemical graphs using a maximum common edge subgraph algorithm
-
DOI 10.1021/ci010381f
-
Raymond, J. W.; Gardiner, E. J.; Willett, P. Heuristics for similarity searching of chemical graphs using a maximum common edge subgraph algorithm J. Chem. Inf. Comput. Sci. 2002, 42, 305-316 (Pubitemid 35359021)
-
(2002)
Journal of Chemical Information and Computer Sciences
, vol.42
, Issue.2
, pp. 305-316
-
-
Raymond, J.W.1
Gardiner, E.J.2
Willett, P.3
-
20
-
-
0032149905
-
Feature trees: A new molecular similarity measure based on tree matching
-
Rarey, M.; Dixon, J. S. Feature trees: a new molecular similarity measure based on tree matching J. Comput.-Aided Mol. Des. 1998, 12, 471-490 (Pubitemid 128512818)
-
(1998)
Journal of Computer-Aided Molecular Design
, vol.12
, Issue.5
, pp. 471-490
-
-
Rarey, M.1
Dixon, J.S.2
-
21
-
-
33845787616
-
Analysis of data fusion methods in virtual screening: Theoretical model
-
DOI 10.1021/ci049615w
-
Whittle, M.; Gillet, V. J.; Willett, P. Analysis of data fusion methods in virtual screening: Theoretical model J. Chem. Inf. Model. 2006, 46, 2193-2205 (Pubitemid 46008095)
-
(2006)
Journal of Chemical Information and Modeling
, vol.46
, Issue.6
, pp. 2193-2205
-
-
Whittle, M.1
Gillet, V.J.2
Willett, P.3
Loesel, J.4
-
22
-
-
33845782959
-
Analysis of data fusion methods in virtual screening: Similarity and group fusion
-
DOI 10.1021/ci0496144
-
Whittle, M.; Gillet, V. J.; Willett, P.; Loesel, J. Analysis of data fusion methods in virtual screening: Similarity and group fusion J. Chem. Inf. Model. 2006, 46, 2206-2219 (Pubitemid 46008096)
-
(2006)
Journal of Chemical Information and Modeling
, vol.46
, Issue.6
, pp. 2206-2219
-
-
Whittle, M.1
Gillet, V.J.2
Willett, P.3
Loesel, J.4
-
23
-
-
33344465112
-
The use of consensus scoring in ligand-based virtual screening
-
DOI 10.1021/ci050296y
-
Baber, J. C.; William, A. S.; Gao, Y. H.; Feher, M. The use of consensus scoring in ligand-based virtual screening J. Chem. Inf. Model. 2006, 46, 277-288 (Pubitemid 43285403)
-
(2006)
Journal of Chemical Information and Modeling
, vol.46
, Issue.1
, pp. 277-288
-
-
Baber, J.C.1
Shirley, W.A.2
Gao, Y.3
Feher, M.4
-
24
-
-
45749116266
-
Application of belief theory to similarity data fusion for use in analog searching and lead hopping
-
Muchmore, S. W.; Debe, D. A.; Metz, J. T.; Brown, S. P.; Martin, Y. C.; Hajduk, P. J. Application of belief theory to similarity data fusion for use in analog searching and lead hopping J. Chem. Inf. Model. 2008, 48, 941-948
-
(2008)
J. Chem. Inf. Model.
, vol.48
, pp. 941-948
-
-
Muchmore, S.W.1
Debe, D.A.2
Metz, J.T.3
Brown, S.P.4
Martin, Y.C.5
Hajduk, P.J.6
-
25
-
-
44449143540
-
Flexophore, a new versatile 3D pharmacophore descriptor that considers molecular flexibility
-
DOI 10.1021/ci700359j
-
von Korff, M.; Freyss, J.; Sander, T. Flexophore, a new versatile 3D pharmacophore descriptor that considers molecular flexibility J. Chem. Inf. Model. 2008, 48, 797-810 (Pubitemid 351757745)
-
(2008)
Journal of Chemical Information and Modeling
, vol.48
, Issue.4
, pp. 797-810
-
-
Von Korff, M.1
Freyss, J.2
Sander, T.3
-
26
-
-
34250843840
-
MED-SuMoLig: A new ligand-based screening tool for efficient scaffold hopping
-
DOI 10.1021/ci700031v
-
Sperandio, O.; Andrieu, O.; Miteva, M. A.; Vo, M. Q.; Souaille, M.; Delfaud, F.; Villoutreix, B. O. MED-SuMoLig: A new ligand-based screening tool for efficient scaffold hopping J. Chem. Inf. Model. 2007, 47, 1097-1110 (Pubitemid 46973724)
-
(2007)
Journal of Chemical Information and Modeling
, vol.47
, Issue.3
, pp. 1097-1110
-
-
Sperandio, O.1
Andrieu, O.2
Miteva, M.A.3
Vo, M.-Q.4
Souaille, M.5
Delfaud, F.6
Villoutreix, B.O.7
-
27
-
-
70350001745
-
LigMatch: A multiple structure-based ligand matching method for 3D virtual screening
-
Kinnings, S. L.; Jackson, R. M. LigMatch: a multiple structure-based ligand matching method for 3D virtual screening J. Chem. Inf. Model. 2009, 49, 2056-2066
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 2056-2066
-
-
Kinnings, S.L.1
Jackson, R.M.2
-
28
-
-
0027017305
-
A fast and efficient method for 2D and 3D molecular shape description
-
Bemis, G. W.; Kuntz, I. D. A fast and efficient method for 2D and 3D molecular shape description J. Comput.-Aided Mol. Des. 1992, 6, 607-628
-
(1992)
J. Comput.-Aided Mol. Des.
, vol.6
, pp. 607-628
-
-
Bemis, G.W.1
Kuntz, I.D.2
-
29
-
-
0000747830
-
A Gaussian description of molecular shape
-
Grant, J. A.; Pickup, B. T. A Gaussian description of molecular shape J. Phys. Chem. 1995, 99, 3503-3510
-
(1995)
J. Phys. Chem.
, vol.99
, pp. 3503-3510
-
-
Grant, J.A.1
Pickup, B.T.2
-
30
-
-
61449202735
-
Ultrafast shape recognition: Evaluating a new ligand-based virtual screening technology
-
Ballester, P. J.; Finn, P. W.; Richards, W. G. Ultrafast shape recognition: Evaluating a new ligand-based virtual screening technology J. Mol. Graphics Modell. 2009, 27, 836-845
-
(2009)
J. Mol. Graphics Modell.
, vol.27
, pp. 836-845
-
-
Ballester, P.J.1
Finn, P.W.2
Richards, W.G.3
-
31
-
-
34547260921
-
Ultrafast shape recognition to search compound databases for similar molecular shapes
-
DOI 10.1002/jcc.20681
-
Ballester, P. J.; Richards, W. G. Ultrafast shape recognition to search compound databases for similar molecular shapes J. Comput. Chem. 2007, 28, 1711-1723 (Pubitemid 47146547)
-
(2007)
Journal of Computational Chemistry
, vol.28
, Issue.10
, pp. 1711-1723
-
-
Ballester, P.J.1
Richards, W.G.2
-
32
-
-
0000132994
-
Similarity searching in files of three-dimensional chemical structures. Alignment of molecular electrostatic potential fields with a genetic algorithm
-
Wild, D. J.; Willett, P. Similarity searching in files of three-dimensional chemical structures. Alignment of molecular electrostatic potential fields with a genetic algorithm J. Chem. Inf. Comput. Sci. 1996, 36, 159-167 (Pubitemid 126591167)
-
(1996)
Journal of Chemical Information and Computer Sciences
, vol.36
, Issue.2
, pp. 159-167
-
-
Wild, D.J.1
Willett, P.2
-
33
-
-
39449089822
-
Graph theoretical similarity approach to compare molecular electrostatic potentials
-
DOI 10.1021/ci7001878
-
Marin, R. M.; Aguirre, N. F.; Daza, E. E. Graph theoretical similarity approach to compare molecular electrostatic potentials J. Chem. Inf. Model. 2008, 48, 109-118 (Pubitemid 351271055)
-
(2008)
Journal of Chemical Information and Modeling
, vol.48
, Issue.1
, pp. 109-118
-
-
Marin, R.M.1
Aguirre, N.F.2
Daza, E.E.3
-
34
-
-
0032488013
-
FLEXS: A method for fast flexible ligand superposition
-
DOI 10.1021/jm981037l
-
Lemmen, C.; Lengauer, T.; Klebe, G. FLEXS: a method for fast flexible ligand superposition J. Med. Chem. 1998, 41, 4502-4520 (Pubitemid 28516449)
-
(1998)
Journal of Medicinal Chemistry
, vol.41
, Issue.23
, pp. 4502-4520
-
-
Lemmen, C.1
Lengauer, T.2
Klebe, G.3
-
35
-
-
4043157718
-
Topomers: A validated protocol for their self-consistent generation
-
Jilek, R. J.; Cramer, R. D. Topomers: A validated protocol for their self-consistent generation J. Chem. Inf. Comput. Sci. 2004, 44, 1221-1227
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 1221-1227
-
-
Jilek, R.J.1
Cramer, R.D.2
-
36
-
-
11144222535
-
"Lead hopping". Validation of topomer similarity as a superior predictor of similar biological activities
-
DOI 10.1021/jm049501b
-
Cramer, R. D.; Jilek, R. J.; Guessregen, S.; Clark, S. J.; Wendt, B.; Clark, R. D. "Lead hopping". Validation of topomer similarity as a superior predictor of similar biological activities J. Med. Chem. 2004, 47, 6777-6791 (Pubitemid 40053766)
-
(2004)
Journal of Medicinal Chemistry
, vol.47
, Issue.27
, pp. 6777-6791
-
-
Cramer, R.D.1
Jilek, R.J.2
Guessregen, S.3
Clark, S.J.4
Wendt, B.5
Clark, R.D.6
-
37
-
-
26944441280
-
Virtual screening and scaffold hopping based on GRID molecular interaction fields
-
DOI 10.1021/ci049626p
-
Ahlstrom, M. M.; Ridderstrom, M.; Luthman, K.; Zamora, I. Virtual screening and scaffold hopping based on GRID molecular interaction fields J. Chem. Inf. Model. 2005, 45, 1313-1323 (Pubitemid 41476015)
-
(2005)
Journal of Chemical Information and Modeling
, vol.45
, Issue.5
, pp. 1313-1323
-
-
Ahlstrom, M.M.1
Ridderstrom, M.2
Luthman, K.3
Zamora, I.4
-
38
-
-
34250205540
-
SHOP: Scaffold HOPping by GRID-based similarity searches
-
DOI 10.1021/jm061259g
-
Bergmann, R.; Linusson, A.; Zamora, I. SHOP: Scaffold HOPping by GRID-based similarity searches J. Med. Chem. 2007, 50, 2708-2717 (Pubitemid 46896079)
-
(2007)
Journal of Medicinal Chemistry
, vol.50
, Issue.11
, pp. 2708-2717
-
-
Bergmann, R.1
Linusson, A.2
Zamora, I.3
-
39
-
-
0034710718
-
GRid-INdependent descriptors (GRIND): A novel class of alignment-independent three-dimensional molecular descriptors
-
Pastor, M.; Cruciani, G.; McLay, I.; Pickett, S.; Clementi, S. GRid-INdependent descriptors (GRIND): A novel class of alignment-independent three-dimensional molecular descriptors J. Med. Chem. 2000, 43, 3233-3243
-
(2000)
J. Med. Chem.
, vol.43
, pp. 3233-3243
-
-
Pastor, M.1
Cruciani, G.2
McLay, I.3
Pickett, S.4
Clementi, S.5
-
40
-
-
33646227896
-
Molecular field extrema as descriptors of biological activity: Definition and validation
-
Cheeseright, T.; Mackey, M.; Rose, S.; Vinter, A. Molecular field extrema as descriptors of biological activity: Definition and validation J. Chem. Inf. Model. 2006, 46, 665-676
-
(2006)
J. Chem. Inf. Model.
, vol.46
, pp. 665-676
-
-
Cheeseright, T.1
MacKey, M.2
Rose, S.3
Vinter, A.4
-
41
-
-
57549111678
-
FieldScreen: Virtual Screening using molecular fields. Application to the DUD data set
-
Cheeseright, T. J.; Mackey, M. D.; Melville, J. L.; Vinter, J. G. FieldScreen: Virtual Screening using molecular fields. Application to the DUD data set J. Chem. Inf. Model. 2008, 48, 2108-2117
-
(2008)
J. Chem. Inf. Model.
, vol.48
, pp. 2108-2117
-
-
Cheeseright, T.J.1
MacKey, M.D.2
Melville, J.L.3
Vinter, J.G.4
-
42
-
-
33644510432
-
Molecular shape and electrostatics in the encoding of relevant chemical information
-
Nicholls, A.; Grant, J. A. Molecular shape and electrostatics in the encoding of relevant chemical information J. Comput.-Aided Mol. Des. 2005, 19, 661-686
-
(2005)
J. Comput.-Aided Mol. Des.
, vol.19
, pp. 661-686
-
-
Nicholls, A.1
Grant, J.A.2
-
43
-
-
65249167560
-
ShaEP: Molecular overlay based on shape and electrostatic potential
-
Vainio, M. J.; Puranen, J. S.; Johnson, M. S. ShaEP: Molecular overlay based on shape and electrostatic potential J. Chem. Inf. Model. 2009, 49, 492-502
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 492-502
-
-
Vainio, M.J.1
Puranen, J.S.2
Johnson, M.S.3
-
44
-
-
77954264038
-
PharmMapper server: A web server for potential drug target identification using pharmacophore mapping approach
-
Liu, X. F.; Ouyang, S. S.; Yu, B. A.; Liu, Y. B.; Huang, K.; Gong, J. Y.; Zheng, S. Y.; Li, Z. H.; Li, H. L.; Jiang, H. L. PharmMapper server: a web server for potential drug target identification using pharmacophore mapping approach Nucleic Acids Res. 2010, 38, W609-W614
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Liu, X.F.1
Ouyang, S.S.2
Yu, B.A.3
Liu, Y.B.4
Huang, K.5
Gong, J.Y.6
Zheng, S.Y.7
Li, Z.H.8
Li, H.L.9
Jiang, H.L.10
-
45
-
-
79957771857
-
SHAFTS: A Hybrid Approach for 3D Molecular Similarity Calculation. 2. Prospective Case Study in the Discovery of Diverse p90 Ribosomal S6 Protein Kinase 2 Inhibitors to Suppress Cell Migration
-
Lu, W. Q.; Liu, X. F.; Cao, X. W.; Xue, M. Z.; Liu, K. D.; Zhao, Z. J.; Shen, X.; Jiang, H. L.; Xu, Y. F.; Huang, J.; Li, H. L. SHAFTS: A Hybrid Approach for 3D Molecular Similarity Calculation. 2. Prospective Case Study in the Discovery of Diverse p90 Ribosomal S6 Protein Kinase 2 Inhibitors To Suppress Cell Migration J. Med. Chem. 2011, 54, 3564-3574
-
(2011)
J. Med. Chem.
, vol.54
, pp. 3564-3574
-
-
Lu, W.Q.1
Liu, X.F.2
Cao, X.W.3
Xue, M.Z.4
Liu, K.D.5
Zhao, Z.J.6
Shen, X.7
Jiang, H.L.8
Xu, Y.F.9
Huang, J.10
Li, H.L.11
-
46
-
-
65549133951
-
Cyndi: A multi-objective evolution algorithm based method for bioactive molecular conformational generation
-
Liu, X. F.; Bai, F.; Ouyang, S. S.; Wang, X. C.; Li, H. L.; Jiang, H. L. Cyndi: A multi-objective evolution algorithm based method for bioactive molecular conformational generation BMC Bioinf. 2009, 10, 101
-
(2009)
BMC Bioinf.
, vol.10
, pp. 101
-
-
Liu, X.F.1
Bai, F.2
Ouyang, S.S.3
Wang, X.C.4
Li, H.L.5
Jiang, H.L.6
-
47
-
-
0028550028
-
Chemical function queries for 3D database search
-
Greene, J.; Savoj, H.; Sprague, P.; Teig, S. Chemical function queries for 3D database search J. Chem. Inf. Comput. Sci. 1994, 34, 1297-1308
-
(1994)
J. Chem. Inf. Comput. Sci.
, vol.34
, pp. 1297-1308
-
-
Greene, J.1
Savoj, H.2
Sprague, P.3
Teig, S.4
-
48
-
-
33750991346
-
Benchmarking sets for molecular docking
-
DOI 10.1021/jm0608356
-
Huang, N.; Shoichet, B. K.; Irwin, J. J. Benchmarking sets for molecular docking J. Med. Chem. 2006, 49, 6789-6801 (Pubitemid 44749746)
-
(2006)
Journal of Medicinal Chemistry
, vol.49
, Issue.23
, pp. 6789-6801
-
-
Huang, N.1
Shoichet, B.K.2
Irwin, J.J.3
-
49
-
-
65249142225
-
Comparison of ligand- and structure-based virtual screening on the DUD data set
-
von Korff, M.; Freyss, J.; Sander, T. Comparison of ligand- and structure-based virtual screening on the DUD data set J. Chem. Inf. Model. 2009, 49, 209-231
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 209-231
-
-
Von Korff, M.1
Freyss, J.2
Sander, T.3
-
50
-
-
41449114598
-
Community benchmarks for virtual screening
-
Irwin, J. J. Community benchmarks for virtual screening J. Comput.-Aided Mol. Des. 2008, 22, 193-199
-
(2008)
J. Comput.-Aided Mol. Des.
, vol.22
, pp. 193-199
-
-
Irwin, J.J.1
-
51
-
-
41349122416
-
Optimization of CAMD techniques 3. Virtual screening enrichment studies: A help or hindrance in tool selection?
-
Good, A. C.; Oprea, T. I. Optimization of CAMD techniques 3. Virtual screening enrichment studies: a help or hindrance in tool selection? J. Comput.-Aided Mol. Des. 2008, 22, 169-178
-
(2008)
J. Comput.-Aided Mol. Des.
, vol.22
, pp. 169-178
-
-
Good, A.C.1
Oprea, T.I.2
-
52
-
-
0035438391
-
Is there a difference between leads and drugs? A historical perspective
-
Oprea, T. I.; Davis, A. M.; Teague, S. J.; Leeson, P. D. Is there a difference between leads and drugs? A historical perspective J. Chem. Inf. Comput. Sci. 2001, 41, 1308-1315
-
(2001)
J. Chem. Inf. Comput. Sci.
, vol.41
, pp. 1308-1315
-
-
Oprea, T.I.1
Davis, A.M.2
Teague, S.J.3
Leeson, P.D.4
-
53
-
-
0037365143
-
Further development of reduced graphs for identifying bioactive compounds
-
Barker, E. J.; Gardiner, E. J.; Gillet, V. J.; Kitts, P.; Morris, J. Further development of reduced graphs for identifying bioactive compounds J. Chem. Inf. Comput. Sci. 2003, 43, 346-356
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 346-356
-
-
Barker, E.J.1
Gardiner, E.J.2
Gillet, V.J.3
Kitts, P.4
Morris, J.5
-
54
-
-
74049133612
-
Optimal assignment methods for ligand-based virtual screening
-
Jahn, A.; Hinselmann, G.; Fechner, N.; Zell, A. Optimal assignment methods for ligand-based virtual screening J. Cheminf. 2009, 1, 14
-
(2009)
J. Cheminf.
, vol.1
, pp. 14
-
-
Jahn, A.1
Hinselmann, G.2
Fechner, N.3
Zell, A.4
-
55
-
-
33646730764
-
Robust ligand-based modeling of the biological targets of known drugs
-
Cleves, A. E.; Jain, A. N. Robust ligand-based modeling of the biological targets of known drugs J. Med. Chem. 2006, 49, 2921-2938
-
(2006)
J. Med. Chem.
, vol.49
, pp. 2921-2938
-
-
Cleves, A.E.1
Jain, A.N.2
-
56
-
-
0034649618
-
Protein-based virtual screening of chemical databases. 1. Evaluation of different docking/scoring combinations
-
DOI 10.1021/jm001044l
-
Bissantz, C.; Folkers, G.; Rognan, D. Protein-based virtual screening of chemical databases. 1. Evaluation of different docking/scoring combinations J. Med. Chem. 2000, 43, 4759-4767 (Pubitemid 32002687)
-
(2000)
Journal of Medicinal Chemistry
, vol.43
, Issue.25
, pp. 4759-4767
-
-
Bissantz, C.1
Folkers, G.2
Rognan, D.3
-
57
-
-
41349093326
-
What do we know and when do we know it?
-
Nicholls, A. What do we know and when do we know it? J. Comput.-Aided Mol. Des. 2008, 22, 239-255
-
(2008)
J. Comput.-Aided Mol. Des.
, vol.22
, pp. 239-255
-
-
Nicholls, A.1
-
58
-
-
41349106542
-
Recommendations for evaluation of computational methods
-
Jain, A. N.; Nicholls, A. Recommendations for evaluation of computational methods J. Comput.-Aided Mol. Des. 2008, 22, 133-139
-
(2008)
J. Comput.-Aided Mol. Des.
, vol.22
, pp. 133-139
-
-
Jain, A.N.1
Nicholls, A.2
-
59
-
-
41349110382
-
How to do an evaluation: Pitfalls and traps
-
Hawkins, P. C. D.; Warren, G. L.; Skillman, A. G.; Nicholls, A. How to do an evaluation: pitfalls and traps J. Comput.-Aided Mol. Des. 2008, 22, 179-190
-
(2008)
J. Comput.-Aided Mol. Des.
, vol.22
, pp. 179-190
-
-
Hawkins, P.C.D.1
Warren, G.L.2
Skillman, A.G.3
Nicholls, A.4
-
60
-
-
41349106585
-
Evaluation of the performance of 3D virtual screening protocols: RMSD comparisons, enrichment assessments, and decoy selection - What can we learn from earlier mistakes?
-
DOI 10.1007/s10822-007-9163-6
-
Kirchmair, J.; Markt, P.; Distinto, S.; Wolber, G.; Langer, T. Evaluation of the performance of 3D virtual screening protocols: RMSD comparisons, enrichment assessments, and decoy selection-What can we learn from earlier mistakes? J. Comput.-Aided Mol. Des. 2008, 22, 213-228 (Pubitemid 351447959)
-
(2008)
Journal of Computer-Aided Molecular Design
, vol.22
, Issue.3-4
, pp. 213-228
-
-
Kirchmair, J.1
Markt, P.2
Distinto, S.3
Wolber, G.4
Langer, T.5
-
61
-
-
27444434546
-
2 antagonists
-
DOI 10.1021/jm049069y
-
Low, C. M. R.; Buck, I. M.; Cooke, T.; Cushnir, J. R.; Kalindjian, S. B.; Kotecha, A.; Pether, M. J.; Shankley, N. P.; Vinter, J. G.; Wright, L. Scaffold hopping with molecular field points: Identification of a cholecystokinin-2 (CCK2) receptor pharmacophore and its use in the design of a prototypical series of pyrrole- and imidazole-based CCK2 antagonists J. Med. Chem. 2005, 48, 6790-6802 (Pubitemid 41533101)
-
(2005)
Journal of Medicinal Chemistry
, vol.48
, Issue.22
, pp. 6790-6802
-
-
Low, C.M.R.1
Buck, I.M.2
Cooke, T.3
Cushnir, J.R.4
Kalindjian, S.B.5
Kotecha, A.6
Pether, M.J.7
Shankley, N.P.8
Vinter, J.G.9
Wright, L.10
-
63
-
-
65249089058
-
How to optimize shape-based virtual screening: Choosing the right query and including chemical information
-
Kirchmair, J.; Distinto, S.; Markt, P.; Schuster, D.; Spitzer, G. M.; Liedl, K. R.; Wolber, G. How to optimize shape-based virtual screening: Choosing the right query and including chemical information J. Chem. Inf. Model. 2009, 49, 678-692
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 678-692
-
-
Kirchmair, J.1
Distinto, S.2
Markt, P.3
Schuster, D.4
Spitzer, G.M.5
Liedl, K.R.6
Wolber, G.7
-
64
-
-
78650689245
-
Comprehensive comparison of ligand-based virtual screening tools against the DUD data set reveals limitations of current 3D methods
-
Venkatraman, V.; Perez-Nueno, V. I.; Mavridis, L.; Ritchie, D. W. Comprehensive comparison of ligand-based virtual screening tools against the DUD data set reveals limitations of current 3D methods J. Chem. Inf. Model. 2010, 50, 2079-2093
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 2079-2093
-
-
Venkatraman, V.1
Perez-Nueno, V.I.2
Mavridis, L.3
Ritchie, D.W.4
-
65
-
-
0036740917
-
Why do we need so many chemical similarity search methods?
-
Sheridan, R. P.; Kearsley, S. K. Why do we need so many chemical similarity search methods? Drug Discovery Today 2002, 7, 903-911
-
(2002)
Drug Discovery Today
, vol.7
, pp. 903-911
-
-
Sheridan, R.P.1
Kearsley, S.K.2
-
66
-
-
33644862638
-
Scaffold hopping through virtual screening using 2D and 3D similarity descriptors: Ranking, voting, and consensus scoring
-
DOI 10.1021/jm050468i
-
Zhang, Q.; Muegge, I. Scaffold hopping through virtual screening using 2D and 3D similarity descriptors: Ranking, voting, and consensus scoring J. Med. Chem. 2006, 49, 1536-1548 (Pubitemid 43376501)
-
(2006)
Journal of Medicinal Chemistry
, vol.49
, Issue.5
, pp. 1536-1548
-
-
Zhang, Q.1
Muegge, I.2
-
67
-
-
34547673017
-
Comparison of topological, shape, and docking methods in virtual screening
-
DOI 10.1021/ci700052x
-
McGaughey, G. B.; Sheridan, R. P.; Bayly, C. I.; Culberson, J. C.; Kreatsoulas, C.; Lindsley, S.; Maiorov, V.; Truchon, J. F.; Cornell, W. D. Comparison of topological, shape, and docking methods in virtual screening J. Chem. Inf. Model. 2007, 47, 1504-1519 (Pubitemid 47210053)
-
(2007)
Journal of Chemical Information and Modeling
, vol.47
, Issue.4
, pp. 1504-1519
-
-
McGaughey, G.B.1
Sheridan, R.P.2
Bayly, C.I.3
Culberson, J.C.4
Kreatsoulas, C.5
Lindsley, S.6
Maiorov, V.7
Truchon, J.-F.8
Cornell, W.D.9
-
68
-
-
77955401026
-
Scaffold Hopping Using two-dimensional fingerprints: True potential, black magic, or a hopeless endeavor? Guidelines for virtual screening
-
Vogt, M.; Stumpfe, D.; Geppert, H.; Bajorath, J. Scaffold Hopping Using two-dimensional fingerprints: True potential, black magic, or a hopeless endeavor? Guidelines for virtual screening J. Med. Chem. 2010, 53, 5707-5715
-
(2010)
J. Med. Chem.
, vol.53
, pp. 5707-5715
-
-
Vogt, M.1
Stumpfe, D.2
Geppert, H.3
Bajorath, J.4
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