-
1
-
-
77958488310
-
Deep machine learning - A new frontier in artificial intelligence research
-
Arel, I. et al. (2010) Deep machine learning-a new frontier in artificial intelligence research. IEEE Comput. Intell. Mag., 5, 13-18.
-
(2010)
IEEE Comput Intell. Mag.
, vol.5
, pp. 13-18
-
-
Arel, I.1
-
2
-
-
57349146373
-
Lessons from the netflix prize challenge
-
Bell, R. and Koren, Y. (2007) Lessons from the netflix prize challenge. ACM SIGKDD Explor. Newsl., 9, 75-79.
-
(2007)
ACM SIGKDD Explor. Newsl.
, vol.9
, pp. 75-79
-
-
Bell, R.1
Koren, Y.2
-
3
-
-
69349090197
-
Learning deep architectures for AI
-
Bengio, Y. (2009) Learning deep architectures for AI. Found. Trends Mach. Learn., 2, 1-127.
-
(2009)
Found. Trends Mach. Learn.
, vol.2
, pp. 1-127
-
-
Bengio, Y.1
-
4
-
-
69849094133
-
Supervised prediction of drug-target interactions using bipartite local models
-
Bleakley, K. and Yamanishi, Y. (2009) Supervised prediction of drug-target interactions using bipartite local models. Bioinformatics, 25, 2397-2403.
-
(2009)
Bioinformatics
, vol.25
, pp. 2397-2403
-
-
Bleakley, K.1
Yamanishi, Y.2
-
6
-
-
47249146126
-
Drug target identification using side-effect similarity
-
Campillos, M. et al. (2008) Drug target identification using side-effect similarity. Science, 321, 263-266.
-
(2008)
Science
, vol.321
, pp. 263-266
-
-
Campillos, M.1
-
7
-
-
84862215494
-
Drug-target interaction prediction by
-
random walk on the heterogeneous network
-
Chen, X. et al. (2012) Drug-target interaction prediction by random walk on the heterogeneous network. Mol. Biosyst., 8, 1970-1978.
-
(2012)
Mol. Biosyst.
, vol.8
, pp. 1970-1978
-
-
Chen, X.1
-
8
-
-
33846155913
-
Structure-based maximal affinity model predicts smallmolecule druggability
-
Cheng, A.C. et al. (2007) Structure-based maximal affinity model predicts smallmolecule druggability. Nat. Biotechnol., 25, 71-75.
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 71-75
-
-
Cheng, A.C.1
-
9
-
-
84863695210
-
Prediction of drug-target interactions and drug repositioning via network-based inference
-
Cheng, F. et al. (2012) Prediction of drug-target interactions and drug repositioning via network-based inference. PLoS Comput. Biol., 8, e1002503.
-
(2012)
PLoS Comput. Biol.
, vol.8
-
-
Cheng, F.1
-
10
-
-
33749249600
-
The relationship between precision-recall and roc curves
-
ACM, New York, NY, USA
-
Davis, J. and Goadrich, M. (2006) The relationship between precision-recall and roc curves. In: Proceedings of the 23rd international conference on Machine learning, ICML'06. ACM, New York, NY, USA, pp. 233-240.
-
(2006)
Proceedings of the 23rd international conference on Machine learning, ICML'06.
, pp. 233-240
-
-
Davis, J.1
Goadrich, M.2
-
11
-
-
0035336557
-
New drug development in the united states from 1963 to 1999
-
Dimasi, J.A. (2001) New drug development in the united states from 1963 to 1999. Clin. Pharmacol. Ther., 69, 286-296.
-
(2001)
Clin. Pharmacol. Ther.
, vol.69
, pp. 286-296
-
-
Dimasi, J.A.1
-
13
-
-
80051831092
-
Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease
-
96ra76
-
Dudley, J.T. et al. (2011) Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease. Sci. Transl. Med., 3, 96ra76.
-
(2011)
Sci Transl Med
, vol.3
-
-
Dudley, J.T.1
-
14
-
-
84870415234
-
Predicting protein residue-residue contacts using deep networks and boosting
-
Eickholt, J. and Cheng, J. (2012) Predicting protein residue-residue contacts using deep networks and boosting. Bioinformatics, 28, 3066-3072.
-
(2012)
Bioinformatics
, vol.28
, pp. 3066-3072
-
-
Eickholt, J.1
Cheng, J.2
-
15
-
-
84862192766
-
ChEMBL: A large-scale bioactivity database for drug discovery
-
Gaulton, A. et al. (2011) ChEMBL: A large-scale bioactivity database for drug discovery. Nucleic Acids Res., 40, D1100-D1107.
-
(2011)
Nucleic Acids Res.
, vol.40
-
-
Gaulton, A.1
-
16
-
-
79958754253
-
Predict: A method for inferring novel drug indications with application to personalized medicine
-
Gottlieb, A. et al. (2011) PREDICT: A method for inferring novel drug indications with application to personalized medicine. Mol. Syst. Biol., 7, 496.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 496
-
-
Gottlieb, A.1
-
17
-
-
84864231551
-
INDI: A computational framework for inferring drug interactions and their associated recommendations
-
Gottlieb, A. et al. (2012) INDI: A computational framework for inferring drug interactions and their associated recommendations. Mol. Syst. Biol., 8, 592.
-
(2012)
Mol. Syst. Biol.
, vol.8
, pp. 592
-
-
Gottlieb, A.1
-
18
-
-
38549182474
-
SuperTarget and Matador: Resources for exploring drugtarget relationships
-
Günther, S. et al. (2008) SuperTarget and Matador: Resources for exploring drugtarget relationships. Nucleic Acids Res., 36, D919-D922.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Günther, S.1
-
19
-
-
0034099760
-
Structure function, and regulation of leukotriene A4 hydrolase
-
Haeggström, J.Z. (2000) Structure, function, and regulation of leukotriene A4 hydrolase. Am. J. Respir. Crit. Care. Med., 161, S25-S31.
-
(2000)
Am. J. Respir. Crit. Care. Med.
, vol.161
-
-
Haeggström, J.Z.1
-
20
-
-
77950448057
-
Predicting drug-target interaction networks based on functional groups and biological features
-
He, Z. et al. (2010) Predicting drug-target interaction networks based on functional groups and biological features. PLoS One, 5, e9603.
-
(2010)
PLoS One
, vol.5
-
-
He, Z.1
-
21
-
-
33746600649
-
Reducing the dimensionality of data with neural networks
-
Hinton, G. and Salakhutdinov, R. (2006) Reducing the dimensionality of data with neural networks. Science, 28, 504-507.
-
(2006)
Science
, vol.28
, pp. 504-507
-
-
Hinton, G.1
Salakhutdinov, R.2
-
22
-
-
0013344078
-
Training products of experts by minimizing contrastive divergence
-
Hinton, G.E. (2002) Training products of experts by minimizing contrastive divergence. Neural Comput., 14, 1771-1800.
-
(2002)
Neural Comput.
, vol.14
, pp. 1771-1800
-
-
Hinton, G.E.1
-
23
-
-
77957044703
-
Discovery of drug mode of action and drug repositioning from transcriptional responses
-
Iorio, F. et al. (2010) Discovery of drug mode of action and drug repositioning from transcriptional responses. Proc. Natl Acad. Sci. USA, 107, 14621-14626.
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 14621-14626
-
-
Iorio, F.1
-
24
-
-
0035322984
-
Effects of mifepristone on expression of estrogen receptor and progesterone receptor in cultured human eutopic and ectopic endometria
-
Jiang, J. et al. (2007) Effects of mifepristone on expression of estrogen receptor and progesterone receptor in cultured human eutopic and ectopic endometria. Zhonghua Fu Chan Ke Za Zhi, 36, 218-221.
-
(2007)
Zhonghua Fu Chan Ke Za Zhi
, vol.36
, pp. 218-221
-
-
Jiang, J.1
-
25
-
-
18444418813
-
Science resources. chemists want NIH to curtail database
-
Kaiser, J. (2005) Science resources. chemists want NIH to curtail database. Science, 308, 774.
-
(2005)
Science
, vol.308
, pp. 774
-
-
Kaiser, J.1
-
26
-
-
33846876695
-
Relating protein pharmacology by ligand chemistry
-
Keiser, M.J. et al. (2007) Relating protein pharmacology by ligand chemistry. Nat. Biotechnol., 25, 197-206.
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 197-206
-
-
Keiser, M.J.1
-
27
-
-
70449634957
-
Predicting new molecular targets for known drugs
-
Keiser, M.J. et al. (2009) Predicting new molecular targets for known drugs. Nature, 462, 175-181.
-
(2009)
Nature
, vol.462
, pp. 175-181
-
-
Keiser, M.J.1
-
28
-
-
78651287426
-
DrugBank 3.0: A comprehensive resource for 'omics' research on drugs
-
Knox, C. et al. (2011) DrugBank 3.0: A comprehensive resource for 'omics' research on drugs. Nucleic Acids Res., 39, D1035-D1041.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Knox, C.1
-
29
-
-
0036599358
-
Molecular biology of serotonin receptors structure and function at the molecular level
-
Kroeze, W.K. et al. (2002) Molecular biology of serotonin receptors structure and function at the molecular level. Curr. Top. Med. Chem., 2, 507-528.
-
(2002)
Curr. Top. Med. Chem.
, vol.2
, pp. 507-528
-
-
Kroeze, W.K.1
-
30
-
-
84861508376
-
STITCH 3: Zooming in on protein-chemical interactions
-
Kuhn, M. et al. (2012) STITCH 3: Zooming in on protein-chemical interactions. Nucleic Acids Res., 40, D876-D880.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Kuhn, M.1
-
31
-
-
56449110012
-
Classification using discriminative restricted boltzmann machines
-
ACM, New York, NY, USA
-
Larochelle, H. and Bengio, Y. (2008) Classification using discriminative restricted boltzmann machines. In: Proceedings of the 25th international conference on Machine learning, ICML'08. ACM, New York, NY, USA, pp. 536-543.
-
(2008)
Proceedings of the 25th international conference on Machine learning, ICML'08.
, pp. 536-543
-
-
Larochelle, H.1
Bengio, Y.2
-
32
-
-
45749110924
-
Representational power of restricted boltzmann machines and deep belief networks
-
Le Roux, N. and Bengio, Y. (2008) Representational power of restricted boltzmann machines and deep belief networks. Neural Comput., 20, 1631-1649.
-
(2008)
Neural Comput.
, vol.20
, pp. 1631-1649
-
-
Le Roux, N.1
Bengio, Y.2
-
33
-
-
78751613300
-
Link prediction in complex networks: A survey
-
Lü, L. and Zhou, T. (2011) Link prediction in complex networks: A survey. Physica A Stat. Mech. Appl., 390, 1150-1170.
-
(2011)
Physica A Stat. Mech. Appl.
, vol.390
, pp. 1150-1170
-
-
Lü, L.1
Zhou, T.2
-
34
-
-
77957731078
-
-
CRC Press Taylor and Francis Grouprfit LLC, Boca Raton, FL, USA.
-
Macdonald, F. (1997) Dictionary of Pharmacological Agents. CRC Press, Taylor and Francis Group, LLC, Boca Raton, FL, USA.
-
(1997)
Dictionary of Pharmacological Agents
-
-
Macdonald, F.1
-
35
-
-
33646893689
-
Identifying off-target effects and hidden phenotypes of drugs in human cells
-
MacDonald, M.L. et al. (2006) Identifying off-target effects and hidden phenotypes of drugs in human cells. Nat. Chem. Biol., 2, 329-337.
-
(2006)
Nat. Chem. Biol.
, vol.2
, pp. 329-337
-
-
MacDonald, M.L.1
-
36
-
-
84872509876
-
Drug-target interaction prediction by learning from local information and neighbors
-
Mei, J.P. et al. (2012) Drug-target interaction prediction by learning from local information and neighbors. Bioinformatics, 29, 238-245.
-
(2012)
Bioinformatics
, vol.29
, pp. 238-245
-
-
Mei, J.P.1
-
37
-
-
84866460840
-
Relating drug-protein interaction network with drug side effects
-
Mizutani, S. et al. (2012) Relating drug-protein interaction network with drug side effects. Bioinformatics, 28, i522-i528.
-
(2012)
Bioinformatics
, vol.28
-
-
Mizutani, S.1
-
38
-
-
70349932423
-
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
-
Morris, G.M. et al. (2009) AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility. J. Comput. Chem., 30, 2785-2791.
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 2785-2791
-
-
Morris, G.M.1
-
39
-
-
70449134782
-
Short term effects of spironolactone on blood lipid profile: A 3-month study on a cohort of young women with hirsutism
-
Nakhjavani, M. et al. (2009) Short term effects of spironolactone on blood lipid profile: A 3-month study on a cohort of young women with hirsutism. Br. J. Clin. Pharmacol., 68, 634-637.
-
(2009)
Br. J. Clin. Pharmacol.
, vol.68
, pp. 634-637
-
-
Nakhjavani, M.1
-
40
-
-
79951729882
-
Combining drug and gene similarity measures for drugtarget elucidation
-
Perlman, L. et al. (2011) Combining drug and gene similarity measures for drugtarget elucidation. J. Comput. Biol., 18, 133-145.
-
(2011)
J. Comput. Biol.
, vol.18
, pp. 133-145
-
-
Perlman, L.1
-
41
-
-
4644271084
-
Magic shotguns versus magic bullets: Selectively non-selective drugs for mood disorders and schizophrenia
-
Roth, B.L. et al. (2004)Magic shotguns versus magic bullets: Selectively non-selective drugs for mood disorders and schizophrenia. Nat. Rev. Drug Discov., 3, 353-359.
-
(2004)
Nat. Rev. Drug Discov.
, vol.3
, pp. 353-359
-
-
Roth, B.L.1
-
42
-
-
3042549380
-
Leukotriene A4 hydrolase: Identification of a common carboxylate recognition site for the epoxide hydrolase and aminopeptidase substrates
-
Rudberg, P.C. et al. (2004) Leukotriene A4 hydrolase: Identification of a common carboxylate recognition site for the epoxide hydrolase and aminopeptidase substrates. J. Biol. Chem., 279, 27376-27382.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 27376-27382
-
-
Rudberg, P.C.1
-
43
-
-
34547983260
-
Restricted boltzmann machines for collaborative filtering
-
ACM, New York, NY, USA
-
Salakhutdinov, R. et al. (2007) Restricted boltzmann machines for collaborative filtering. In: Proceedings of the 24th international conference onMachine learning, ICML'07. ACM, New York, NY, USA, pp. 791-798.
-
(2007)
Proceedings of the 24th international conference onMachine learning, ICML'07.
, pp. 791-798
-
-
Salakhutdinov, R.1
-
44
-
-
34548663890
-
Medical management of mild to moderate crohn's disease: Evidence-based treatment algorithms for induction and maintenance of remission
-
Sandborn, W.J. et al. (2007) Medical management of mild to moderate crohn's disease: Evidence-based treatment algorithms for induction and maintenance of remission. Aliment Pharmacol. Ther., 26, 987-1003.
-
(2007)
Aliment Pharmacol. Ther.
, vol.26
, pp. 987-1003
-
-
Sandborn, W.J.1
-
45
-
-
84867338003
-
Discovery and preclinical validation of drug indications using compendia of public gene expression data
-
96ra77
-
Sirota, M. et al. (2011) Discovery and preclinical validation of drug indications using compendia of public gene expression data. Sci. Transl. Med., 3, 96ra77.
-
(2011)
Sci. Transl. Med.
, vol.3
-
-
Sirota, M.1
-
46
-
-
84858329412
-
Data-driven prediction of drug effects and interactions
-
Tatonetti, N.P. et al. (2012) Data-driven prediction of drug effects and interactions. Sci. Transl. Med., 4, 125-131.
-
(2012)
Sci. Transl. Med.
, vol.4
, pp. 125-131
-
-
Tatonetti, N.P.1
-
47
-
-
80054881553
-
Gaussian interaction profile kernels for predicting drug-target interaction
-
Van Laarhoven, T. et al. (2011) Gaussian interaction profile kernels for predicting drug-target interaction. Bioinformatics, 27, 3036-3043.
-
(2011)
Bioinformatics
, vol.27
, pp. 3036-3043
-
-
Van Laarhoven, T.1
-
48
-
-
84862289622
-
A new learning algorithm for mean field boltzmann machines
-
Welling, M. and Hinton, G. (2002) A new learning algorithm for mean field boltzmann machines. Artif. Neural Netw., 2415, 351-357.
-
(2002)
Artif. Neural Netw.
, vol.2415
, pp. 351-357
-
-
Welling, M.1
Hinton, G.2
-
49
-
-
77956953029
-
Semi-supervised drug-protein interaction prediction from heterogeneous biological spaces
-
Xia, Z. et al. (2010) Semi-supervised drug-protein interaction prediction from heterogeneous biological spaces. BMC Syst. Biol., 4 (Suppl. 2), S6.
-
(2010)
BMC Syst. Biol.
, vol.4
, Issue.SUPPL.2
-
-
Xia, Z.1
-
50
-
-
84855882587
-
Novel computational approaches to polypharmacology as a means to define responses to individual drugs
-
Xie, L. et al. (2012) Novel computational approaches to polypharmacology as a means to define responses to individual drugs. Annu. Rev. Pharmacol. Toxicol., 52, 361-379.
-
(2012)
Annu. Rev. Pharmacol. Toxicol.
, vol.52
, pp. 361-379
-
-
Xie, L.1
-
51
-
-
79952345084
-
Analysis of multiple compound-protein interactions reveals novel bioactive molecules
-
Yabuuchi, H. et al. (2011) Analysis of multiple compound-protein interactions reveals novel bioactive molecules. Mol. Syst. Biol., 7, 472.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 472
-
-
Yabuuchi, H.1
-
52
-
-
46249090791
-
Prediction of drug-target interaction networks from the integration of chemical and genomic spaces
-
Yamanishi, Y. et al. (2008) Prediction of drug-target interaction networks from the integration of chemical and genomic spaces. Bioinformatics, 24, i232-i240.
-
(2008)
Bioinformatics
, vol.24
-
-
Yamanishi, Y.1
-
53
-
-
77955628292
-
Network-based relating pharmacological and genomic spaces for drug target identification
-
Zhao, S. and Li, S. (2010) Network-based relating pharmacological and genomic spaces for drug target identification. PLoS One, 5, e11764.
-
(2010)
PLoS One
, vol.5
-
-
Zhao, S.1
Li, S.2
|