-
1
-
-
4344645978
-
Can the pharmaceutical industry reduce attrition rates?
-
Kola, I.; Landis, J. Can the pharmaceutical industry reduce attrition rates? Nat. Rev. Drug. Discovery 2004, 3, 711-5
-
(2004)
Nat. Rev. Drug. Discovery
, vol.3
, pp. 711-715
-
-
Kola, I.1
Landis, J.2
-
2
-
-
33845777604
-
Ligand-based approach to in silico pharmacology: Nuclear receptor profiling
-
Mestres, J.; Martn-Couce, L.; Gregori-Puigjané, E.; Cases, M.; Boyer, S. Ligand-based approach to in silico pharmacology: nuclear receptor profiling J. Chem. Inf. Model. 2006, 46, 2725-36
-
(2006)
J. Chem. Inf. Model.
, vol.46
, pp. 2725-2736
-
-
Mestres, J.1
Martn-Couce, L.2
Gregori-Puigjané, E.3
Cases, M.4
Boyer, S.5
-
3
-
-
35148824614
-
Network pharmacology
-
Hopkins, A. L. Network pharmacology Nat. Biotechnol. 2007, 25, 1110-1
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 1110-1111
-
-
Hopkins, A.L.1
-
5
-
-
5344244908
-
Chemical Similarity Searching
-
Willett, P.; Barnard, J. M.; Downs, G. M. Chemical Similarity Searching J. Chem. Inf. Model. 1998, 38, 983-996
-
(1998)
J. Chem. Inf. Model.
, vol.38
, pp. 983-996
-
-
Willett, P.1
Barnard, J.M.2
Downs, G.M.3
-
6
-
-
10344230435
-
Molecular similarity: A key technique in molecular informatics
-
Bender, A.; Glen, R. C. Molecular similarity: a key technique in molecular informatics Org. Biomol. Chem. 2004, 2, 3204-3218
-
(2004)
Org. Biomol. Chem.
, vol.2
, pp. 3204-3218
-
-
Bender, A.1
Glen, R.C.2
-
7
-
-
0037068532
-
Do structurally similar molecules have similar biological activity?
-
Martin, Y. C.; Kofron, J. L.; Traphagen, L. M. Do structurally similar molecules have similar biological activity? J. Med. Chem. 2002, 45, 4350-4358
-
(2002)
J. Med. Chem.
, vol.45
, pp. 4350-4358
-
-
Martin, Y.C.1
Kofron, J.L.2
Traphagen, L.M.3
-
8
-
-
33750981540
-
Do structurally similar ligands bind in a similar fashion?
-
Boström, J.; Hogner, A.; Schmitt, S. Do structurally similar ligands bind in a similar fashion? J. Med. Chem. 2006, 49, 6716-6725
-
(2006)
J. Med. Chem.
, vol.49
, pp. 6716-6725
-
-
Boström, J.1
Hogner, A.2
Schmitt, S.3
-
9
-
-
33751246188
-
Similarity-based virtual screening using 2D fingerprints
-
Willett, P. Similarity-based virtual screening using 2D fingerprints Drug Discovery Today 2006, 11, 1046-1053
-
(2006)
Drug Discovery Today
, vol.11
, pp. 1046-1053
-
-
Willett, P.1
-
10
-
-
0038579386
-
The signature molecular descriptor. 1. Using extended valence sequences in QSAR and QSPR studies
-
Faulon, J.-L.; Visco, D. P.; Pophale, R. S. The signature molecular descriptor. 1. Using extended valence sequences in QSAR and QSPR studies J. Chem. Inf. Comput. Sci. 2003, 43, 707-20
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 707-720
-
-
Faulon, J.-L.1
Visco, D.P.2
Pophale, R.S.3
-
11
-
-
0038173400
-
The signature molecular descriptor. 2. Enumerating molecules from their extended valence sequences
-
Faulon, J.-L.; Churchwell, C. J.; Visco, D. P. The signature molecular descriptor. 2. Enumerating molecules from their extended valence sequences J. Chem. Inf. Comput. Sci. 2003, 43, 721-734
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 721-734
-
-
Faulon, J.-L.1
Churchwell, C.J.2
Visco, D.P.3
-
12
-
-
1842639395
-
The signature molecular descriptor. 4. Canonizing molecules using extended valence sequences
-
Faulon, J.-L.; Collins, M. J.; Carr, R. D. The signature molecular descriptor. 4. Canonizing molecules using extended valence sequences J. Chem. Inf. Comput. Sci. 2004, 44, 427-436
-
(2004)
J. Chem. Inf. Comput. Sci.
, vol.44
, pp. 427-436
-
-
Faulon, J.-L.1
Collins, M.J.2
Carr, R.D.3
-
13
-
-
37049239596
-
A Computer Program for Classifying Plants
-
Rogers, D. J.; Tanimoto, T. T. A Computer Program for Classifying Plants Science 1960, 132, 1115-1118
-
(1960)
Science
, vol.132
, pp. 1115-1118
-
-
Rogers, D.J.1
Tanimoto, T.T.2
-
14
-
-
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
-
15
-
-
0020083498
-
The meaning and use of the area under a receiver operating characteristic (ROC) curve
-
Hanley, J. A.; McNeil, B. J. The meaning and use of the area under a receiver operating characteristic (ROC) curve Radiology 1982, 143, 29-36
-
(1982)
Radiology
, vol.143
, pp. 29-36
-
-
Hanley, J.A.1
McNeil, B.J.2
-
16
-
-
33845700525
-
The limitations of risk factors as prognostic tools
-
Ware, J. H. The limitations of risk factors as prognostic tools N. Engl. J. Med. 2006, 355, 2615-2617
-
(2006)
N. Engl. J. Med.
, vol.355
, pp. 2615-2617
-
-
Ware, J.H.1
-
17
-
-
38849091997
-
Evaluating the added predictive ability of a new marker: From area under the ROC curve to reclassification and beyond
-
discussion 207-212
-
Pencina, M. J.; D'Agostino, R. B.; Vasan, R. S. Evaluating the added predictive ability of a new marker: from area under the ROC curve to reclassification and beyond Stat. Med. 2008, 27, 157-172 discussion 207-212
-
(2008)
Stat. Med.
, vol.27
, pp. 157-172
-
-
Pencina, M.J.1
D'agostino, R.B.2
Vasan, R.S.3
-
18
-
-
84856370732
-
ChEMBL: A large-scale bioactivity database for drug discovery
-
Gaulton, A.; Bellis, L. J.; Bento, A. P.; Chambers, J.; Davies, M.; Hersey, A.; Light, Y.; McGlinchey, S.; Michalovich, D.; Al-Lazikani, B.; Overington, J. P. ChEMBL: a large-scale bioactivity database for drug discovery Nucleic Acids Res. 2011, 44, 1-8
-
(2011)
Nucleic Acids Res.
, vol.44
, pp. 1-8
-
-
Gaulton, A.1
Bellis, L.J.2
Bento, A.P.3
Chambers, J.4
Davies, M.5
Hersey, A.6
Light, Y.7
McGlinchey, S.8
Michalovich, D.9
Al-Lazikani, B.10
Overington, J.P.11
-
19
-
-
84876174816
-
Comparability of Mixed IC50 Data - A Statistical Analysis
-
Kalliokoski, T.; Kramer, C.; Vulpetti, A.; Gedeck, P. Comparability of Mixed IC50 Data-A Statistical Analysis PloS one 2013, 8, e61007
-
(2013)
PloS One
, vol.8
, pp. 61007
-
-
Kalliokoski, T.1
Kramer, C.2
Vulpetti, A.3
Gedeck, P.4
-
20
-
-
84880544842
-
Comparison of confirmed inactive and randomly selected compounds as negative training examples in support vector machine-based virtual screening
-
Heikamp, K.; Bajorath, J. Comparison of confirmed inactive and randomly selected compounds as negative training examples in support vector machine-based virtual screening J. Chem. Inf. Model. 2013, 53, 1595-1601
-
(2013)
J. Chem. Inf. Model.
, vol.53
, pp. 1595-1601
-
-
Heikamp, K.1
Bajorath, J.2
-
22
-
-
77954862372
-
Computer-aided molecular design using the Signature molecular descriptor: Application to solvent selection
-
Weis, D. C.; Visco, D. P. Computer-aided molecular design using the Signature molecular descriptor: Application to solvent selection Comput. Chem. Eng. 2010, 34, 1018-1029
-
(2010)
Comput. Chem. Eng.
, vol.34
, pp. 1018-1029
-
-
Weis, D.C.1
Visco, D.P.2
-
23
-
-
72949101619
-
Interpretation of nonlinear QSAR models applied to Ames mutagenicity data
-
Carlsson, L.; Helgee, E. A.; Boyer, S. Interpretation of nonlinear QSAR models applied to Ames mutagenicity data J. Chem. Inf. Model. 2009, 49, 2551-8
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 2551-2558
-
-
Carlsson, L.1
Helgee, E.A.2
Boyer, S.3
-
24
-
-
80051962255
-
Integrated decision support for assessing chemical liabilities
-
Spjuth, O.; Eklund, M.; Ahlberg Helgee, E.; Boyer, S.; Carlsson, L. Integrated decision support for assessing chemical liabilities J. Chem. Inf. Model. 2011, 51, 1840-7
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 1840-1847
-
-
Spjuth, O.1
Eklund, M.2
Ahlberg Helgee, E.3
Boyer, S.4
Carlsson, L.5
-
25
-
-
84870984474
-
QSAR investigation of NaV1.7 active compounds using the SVM/Signature approach and the Bioclipse Modeling platform
-
Norinder, U.; Ek, M. E. QSAR investigation of NaV1.7 active compounds using the SVM/Signature approach and the Bioclipse Modeling platform Bioorg. Med. Chem. Lett. 2013, 23, 261-263
-
(2013)
Bioorg. Med. Chem. Lett.
, vol.23
, pp. 261-263
-
-
Norinder, U.1
Ek, M.E.2
-
26
-
-
0037361967
-
The Chemistry Development Kit (CDK): An open-source Java library for Chemo- and Bioinformatics
-
Steinbeck, C.; Han, Y.; Kuhn, S.; Horlacher, O.; Luttmann, E.; Willighagen, E. The Chemistry Development Kit (CDK): an open-source Java library for Chemo- and Bioinformatics J. Chem. Inf. Comput. Sci. 2003, 43, 493-500
-
(2003)
J. Chem. Inf. Comput. Sci.
, vol.43
, pp. 493-500
-
-
Steinbeck, C.1
Han, Y.2
Kuhn, S.3
Horlacher, O.4
Luttmann, E.5
Willighagen, E.6
-
27
-
-
33745135773
-
Recent Developments of the Chemistry Development Kit (CDK) - An Open-Source Java Library for Chemo- and Bioinformatics
-
Steinbeck, C.; Hoppe, C.; Kuhn, S.; Floris, M.; Guha, R.; Willighagen, E. L. Recent Developments of the Chemistry Development Kit (CDK)-An Open-Source Java Library for Chemo- and Bioinformatics Curr. Pharm. Des. 2006, 12, 2111-2120
-
(2006)
Curr. Pharm. Des.
, vol.12
, pp. 2111-2120
-
-
Steinbeck, C.1
Hoppe, C.2
Kuhn, S.3
Floris, M.4
Guha, R.5
Willighagen, E.L.6
-
28
-
-
77952780755
-
Large-scale systematic analysis of 2D fingerprint methods and parameters to improve virtual screening enrichments
-
Sastry, M.; Lowrie, J. F.; Dixon, S. L.; Sherman, W. Large-scale systematic analysis of 2D fingerprint methods and parameters to improve virtual screening enrichments J. Chem. Inf. Model. 2010, 50, 771-784
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 771-784
-
-
Sastry, M.1
Lowrie, J.F.2
Dixon, S.L.3
Sherman, W.4
-
29
-
-
65249180145
-
Comparison of molecular fingerprint methods on the basis of biological profile data
-
Steffen, A.; Kogej, T.; Tyrchan, C.; Engkvist, O. Comparison of molecular fingerprint methods on the basis of biological profile data J. Chem. Inf. Model. 2009, 49, 338-347
-
(2009)
J. Chem. Inf. Model.
, vol.49
, pp. 338-347
-
-
Steffen, A.1
Kogej, T.2
Tyrchan, C.3
Engkvist, O.4
-
30
-
-
77952772341
-
Extended-Connectivity Fingerprints
-
Rogers, D.; Hahn, M. Extended-Connectivity Fingerprints J. Chem. Inf. Model. 2010, 50, 742-754
-
(2010)
J. Chem. Inf. Model.
, vol.50
, pp. 742-754
-
-
Rogers, D.1
Hahn, M.2
-
31
-
-
26944503021
-
Using extended-connectivity fingerprints with Laplacian-modified Bayesian analysis in high-throughput screening follow-up
-
Rogers, D.; Brown, R. D.; Hahn, M. Using extended-connectivity fingerprints with Laplacian-modified Bayesian analysis in high-throughput screening follow-up J. Biomol. Screen. 2005, 10, 682-6
-
(2005)
J. Biomol. Screen.
, vol.10
, pp. 682-686
-
-
Rogers, D.1
Brown, R.D.2
Hahn, M.3
-
32
-
-
80051996206
-
Large-scale similarity search profiling of ChEMBL compound data sets
-
Heikamp, K.; Bajorath, J. Large-scale similarity search profiling of ChEMBL compound data sets J. Chem. Inf. Model. 2011, 51, 1831-1839
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 1831-1839
-
-
Heikamp, K.1
Bajorath, J.2
-
33
-
-
84908222565
-
-
Pipeline Pilot. (accessed September 29, 2014)
-
Pipeline Pilot. http://accelrys.com/products/pipeline-pilot/ (accessed September 29, 2014).
-
-
-
-
34
-
-
79952373267
-
Pre-Processing Structured Data for Standard Machine Learning Algorithms by Supervised Graph Propositionalization-A Case Study with Medicinal Chemistry Datasets
-
Bethesda, MD, Dec 12-14 - 833
-
Karunaratne, T.; Bostrom, H.; Norinder, U. Pre-Processing Structured Data for Standard Machine Learning Algorithms by Supervised Graph Propositionalization-A Case Study with Medicinal Chemistry Datasets. 2010 Ninth International Conference on Machine Learning and Applications, Bethesda, MD, Dec 12-14, 2010; pp 828-833.
-
(2010)
2010 Ninth International Conference on Machine Learning and Applications
, pp. 828
-
-
Karunaratne, T.1
Bostrom, H.2
Norinder, U.3
-
35
-
-
84908255954
-
-
The Apache Commons Mathematics Library. (accessed September 29, 2014)
-
The Apache Commons Mathematics Library. http://commons.apache.org/proper/commons-math/ (accessed September 29, 2014).
-
-
-
-
36
-
-
84908249158
-
-
NextMove Software Ltd: Cambridge UK. (accessed September 29, 2014)
-
Roger, S. Benchmarking and Validation of JChem. ECFP and FCFP Fingerprints; NextMove Software Ltd: Cambridge UK., 2011; http://www.chemaxon.com/wp-content/uploads/2011/05/NextMovePoster3.pdf (accessed September 29, 2014).
-
(2011)
Benchmarking and Validation of JChem. ECFP and FCFP Fingerprints
-
-
Roger, S.1
-
37
-
-
84863304598
-
-
R Development Core Team. R Foundation for Statistical Computing: Vienna, Austria
-
R Development Core Team. R: A Language and Environment for Statistical Computing; R Foundation for Statistical Computing: Vienna, Austria, 2008; ISBN 3-900051-07-0.
-
(2008)
R: A Language and Environment for Statistical Computing
-
-
-
38
-
-
79952709519
-
PROC: An open-source package for R and S+ to analyze and compare ROC curves
-
Robin, X.; Turck, N.; Hainard, A.; Tiberti, N.; Lisacek, F.; Sanchez, J.-C.; Muller, M. pROC: an open-source package for R and S+ to analyze and compare ROC curves BMC Bioinformatics 2011, 12, 77
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 77
-
-
Robin, X.1
Turck, N.2
Hainard, A.3
Tiberti, N.4
Lisacek, F.5
Sanchez, J.-C.6
Muller, M.7
-
40
-
-
84890117399
-
Net reclassification indices for evaluating risk prediction instruments: A critical review
-
Kerr, K. F.; Wang, Z.; Janes, H.; McClelland, R. L.; Psaty, B. M.; Pepe, M. S. Net reclassification indices for evaluating risk prediction instruments: a critical review Epidemiology 2014, 25, 114-121
-
(2014)
Epidemiology
, vol.25
, pp. 114-121
-
-
Kerr, K.F.1
Wang, Z.2
Janes, H.3
McClelland, R.L.4
Psaty, B.M.5
Pepe, M.S.6
-
41
-
-
0032376126
-
Violin Plots: A Box Plot Density Trace Synergism
-
Hintze, J. L.; Nelson, R. D. Violin Plots: A Box Plot Density Trace Synergism Am. Stat. 1998, 52, 181-184
-
(1998)
Am. Stat.
, vol.52
, pp. 181-184
-
-
Hintze, J.L.1
Nelson, R.D.2
-
42
-
-
34247272948
-
Evaluating virtual screening methods: Good and bad metrics for the early recognition problem
-
Truchon, J.-F.; Bayly, C. I. Evaluating virtual screening methods: good and bad metrics for the early recognition problem J. Chem. Inf. Model. 2007, 47, 488-508
-
(2007)
J. Chem. Inf. Model.
, vol.47
, pp. 488-508
-
-
Truchon, J.-F.1
Bayly, C.I.2
-
44
-
-
84879897900
-
Open-source platform to benchmark fingerprints for ligand-based virtual screening
-
Riniker, S.; Landrum, G. A. Open-source platform to benchmark fingerprints for ligand-based virtual screening J. Cheminform. 2013, 5, 26
-
(2013)
J. Cheminform.
, vol.5
, pp. 26
-
-
Riniker, S.1
Landrum, G.A.2
-
45
-
-
84862510972
-
Large-scale prediction and testing of drug activity on side-effect targets
-
Lounkine, E.; Keiser, M. J.; Whitebread, S.; Mikhailov, D.; Hamon, J.; Jenkins, J. L.; Lavan, P.; Weber, E.; Doak, A. K.; Côté, S.; Shoichet, B. K.; Urban, L. Large-scale prediction and testing of drug activity on side-effect targets Nature 2012, 486, 361-367
-
(2012)
Nature
, vol.486
, pp. 361-367
-
-
Lounkine, E.1
Keiser, M.J.2
Whitebread, S.3
Mikhailov, D.4
Hamon, J.5
Jenkins, J.L.6
Lavan, P.7
Weber, E.8
Doak, A.K.9
Côté, S.10
Shoichet, B.K.11
Urban, L.12
-
46
-
-
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. 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
|