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Volumn 72, Issue , 2017, Pages 151-159

Automatic selection of molecular descriptors using random forest: Application to drug discovery

Author keywords

Computational chemistry; Drug discovery; Molecular descriptors; Random forest

Indexed keywords

CLASSIFICATION (OF INFORMATION); COMPUTATIONAL CHEMISTRY; DECISION TREES; DIMENSIONALITY REDUCTION; ENZYMES; FORECASTING; INTELLIGENT COMPUTING; RANDOM FORESTS; SUPPORT VECTOR MACHINES;

EID: 85006745435     PISSN: 09574174     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.eswa.2016.12.008     Document Type: Article
Times cited : (100)

References (39)
  • 2
    • 0036835460 scopus 로고    scopus 로고
    • Integration of virtual and high-throughput screening.
    • Bajorath, J., Integration of virtual and high-throughput screening. Nature Reviews Drug Discovery 1:11 (2002), 882–894.
    • (2002) Nature Reviews Drug Discovery , vol.1 , Issue.11 , pp. 882-894
    • Bajorath, J.1
  • 3
    • 77952825581 scopus 로고    scopus 로고
    • A machine learning approach to predicting proteinligand binding affinity with applications to molecular docking
    • Ballester, P.J., Mitchell, J.B.O., A machine learning approach to predicting proteinligand binding affinity with applications to molecular docking. Bioinformatics 26:9 (2010), 1169–1175.
    • (2010) Bioinformatics , vol.26 , Issue.9 , pp. 1169-1175
    • Ballester, P.J.1    Mitchell, J.B.O.2
  • 4
    • 0003919880 scopus 로고    scopus 로고
    • Clinical decision support systems: Theory and practice
    • Springer New York New York, NY
    • Berner, E.S., Lande, T.J., Clinical decision support systems: Theory and practice. 2007, Springer New York, New York, NY, 3–22).
    • (2007) , pp. 3-22)
    • Berner, E.S.1    Lande, T.J.2
  • 5
    • 68549094221 scopus 로고    scopus 로고
    • A survey of learning-based techniques of email spam filtering
    • Blanzieri, E., Bryl, A., A survey of learning-based techniques of email spam filtering. Artificial Intelligence Review 29:1 (2008), 63–92.
    • (2008) Artificial Intelligence Review , vol.29 , Issue.1 , pp. 63-92
    • Blanzieri, E.1    Bryl, A.2
  • 6
    • 24744451821 scopus 로고    scopus 로고
    • A ligand-mediated hydrogen bond network required for the activation of the mineralocorticoid receptor
    • Bledsoe, R.K., Madauss, K.P., Holt, J.A., Apolito, C.J., Lambert, M.H., Pearce, K.H., et al. A ligand-mediated hydrogen bond network required for the activation of the mineralocorticoid receptor. Journal of Biological Chemistry 280:35 (2005), 31283–31293.
    • (2005) Journal of Biological Chemistry , vol.280 , Issue.35 , pp. 31283-31293
    • Bledsoe, R.K.1    Madauss, K.P.2    Holt, J.A.3    Apolito, C.J.4    Lambert, M.H.5    Pearce, K.H.6
  • 7
    • 0030211964 scopus 로고    scopus 로고
    • Bagging predictors
    • Breiman, L., Bagging predictors. Machine Learning 24:2 (1996), 123–140.
    • (1996) Machine Learning , vol.24 , Issue.2 , pp. 123-140
    • Breiman, L.1
  • 8
    • 0035478854 scopus 로고    scopus 로고
    • Random forests
    • Breiman, L., Random forests. Machine Learning 45:1 (2001), 5–32.
    • (2001) Machine Learning , vol.45 , Issue.1 , pp. 5-32
    • Breiman, L.1
  • 9
    • 0032529367 scopus 로고    scopus 로고
    • Exploring the active site of herpes simplex virus type-1 thymidine kinase by x-ray crystallography of complexes with aciclovir and other ligands
    • Champness, J.N., Bennett, M.S., Wien, F., Visse, R., Summers, W.C., Herdewijn, P., et al. Exploring the active site of herpes simplex virus type-1 thymidine kinase by x-ray crystallography of complexes with aciclovir and other ligands. Proteins: Structure, Function, and Bioinformatics 32:3 (1998), 350–361.
    • (1998) Proteins: Structure, Function, and Bioinformatics , vol.32 , Issue.3 , pp. 350-361
    • Champness, J.N.1    Bennett, M.S.2    Wien, F.3    Visse, R.4    Summers, W.C.5    Herdewijn, P.6
  • 10
    • 48649105466 scopus 로고    scopus 로고
    • Using chou's pseudo amino acid composition to predict subcellular localization of apoptosis proteins: An approach with immune genetic algorithm-based ensemble classifier
    • Ding, Y.-S., Zhang, T.-L., Using chou's pseudo amino acid composition to predict subcellular localization of apoptosis proteins: An approach with immune genetic algorithm-based ensemble classifier. Pattern Recognition Letters 29:13 (2008), 1887–1892.
    • (2008) Pattern Recognition Letters , vol.29 , Issue.13 , pp. 1887-1892
    • Ding, Y.-S.1    Zhang, T.-L.2
  • 11
    • 84876266543 scopus 로고    scopus 로고
    • Chemopy: freely available python package for computational biology and chemoinformatics
    • Cao, D.S., Xu, Q.S., Hu, Q.N., Liang, Y.Z., Chemopy: freely available python package for computational biology and chemoinformatics. Bioinformatics(8), 2013, 092–1094, 10.1093/bioinformatics/btt105.
    • (2013) Bioinformatics , Issue.8 , pp. 092-1094
    • Cao, D.S.1    Xu, Q.S.2    Hu, Q.N.3    Liang, Y.Z.4
  • 12
    • 0032097263 scopus 로고
    • Introduction to statistical pattern recognition
    • (2nd ed.) Academic Press Professional, Inc San Diego, CA, USA
    • Fukunaga, K., Introduction to statistical pattern recognition. (2nd ed.), 1990, Academic Press Professional, Inc, San Diego, CA, USA.
    • (1990)
    • Fukunaga, K.1
  • 13
    • 73749086881 scopus 로고    scopus 로고
    • Integration of virtual screening with high-throughput screening for the identification of novel Rho-kinase I inhibitors.
    • Gong, L.-L., Fang, L.-H., Peng, J.-H., Liu, A.-L., Du, G.-H., Integration of virtual screening with high-throughput screening for the identification of novel Rho-kinase I inhibitors. Journal of Biotechnology 145:3 (2010), 295–303.
    • (2010) Journal of Biotechnology , vol.145 , Issue.3 , pp. 295-303
    • Gong, L.-L.1    Fang, L.-H.2    Peng, J.-H.3    Liu, A.-L.4    Du, G.-H.5
  • 14
    • 0031956876 scopus 로고    scopus 로고
    • The structure of a glycogen phosphorylase glucopyranose spirohydantoin complex at 1.8 å resolution and 100 k: The role of the water structure and its contribution to binding
    • Gregoriou, M., Noble, M.E., Watson, K.A., Garman, E.F., Johnson, L.N., Krulle, T.M.,.. Oikonomakos, N.G., The structure of a glycogen phosphorylase glucopyranose spirohydantoin complex at 1.8 å resolution and 100 k: The role of the water structure and its contribution to binding. Protein Science 7:4 (1998), 915–927.
    • (1998) Protein Science , vol.7 , Issue.4 , pp. 915-927
    • Gregoriou, M.1    Noble, M.E.2    Watson, K.A.3    Garman, E.F.4    Johnson, L.N.5    Krulle, T.M.6    Oikonomakos, N.G.7
  • 16
    • 33745891586 scopus 로고    scopus 로고
    • Feature extraction: Foundations and applications (studies in fuzziness and soft computing)
    • Springer-Verlag New York, Inc Secaucus, NJ, USA
    • Guyon, I., Gunn, S., Nikravesh, M., Zadeh, L.A., Feature extraction: Foundations and applications (studies in fuzziness and soft computing). 2006, Springer-Verlag New York, Inc, Secaucus, NJ, USA.
    • (2006)
    • Guyon, I.1    Gunn, S.2    Nikravesh, M.3    Zadeh, L.A.4
  • 17
    • 57849165378 scopus 로고    scopus 로고
    • Exploring precrash maneuvers using classification trees and random forests
    • Harb, R., Yan, X., Radwan, E., Su, X., Exploring precrash maneuvers using classification trees and random forests. Accident Analysis & Prevention 41:1 (2009), 98–107.
    • (2009) Accident Analysis & Prevention , vol.41 , Issue.1 , pp. 98-107
    • Harb, R.1    Yan, X.2    Radwan, E.3    Su, X.4
  • 18
    • 0003684449 scopus 로고    scopus 로고
    • The elements of statistical learning
    • Springer
    • Hastie, T., Tibshirani, R., Friedman, J., The elements of statistical learning. 2009, Springer.
    • (2009)
    • Hastie, T.1    Tibshirani, R.2    Friedman, J.3
  • 20
    • 0004056285 scopus 로고    scopus 로고
    • Spoken language processing: A guide to theory, algorithm, and system development
    • 1st Prentice Hall PTR Upper Saddle River, NJ, USA
    • Huang, X., Acero, A., Hon, H.-W., Spoken language processing: A guide to theory, algorithm, and system development. 1st, 2001, Prentice Hall PTR, Upper Saddle River, NJ, USA.
    • (2001)
    • Huang, X.1    Acero, A.2    Hon, H.-W.3
  • 21
    • 84893874008 scopus 로고    scopus 로고
    • An introduction to statistical learning with applications in R
    • Springer-Verlag New York, Inc
    • Witten, D., James, G., Tibshirani, R., Hastie, T., An introduction to statistical learning with applications in R. 2013, Springer-Verlag New York, Inc.
    • (2013)
    • Witten, D.1    James, G.2    Tibshirani, R.3    Hastie, T.4
  • 22
    • 22144481002 scopus 로고    scopus 로고
    • Predicting customer retention and profitability by using random forests and regression forests techniques
    • Lariviere, B., Van den Poel, D., Predicting customer retention and profitability by using random forests and regression forests techniques. Expert Systems with Applications 29:2 (2005), 472–484.
    • (2005) Expert Systems with Applications , vol.29 , Issue.2 , pp. 472-484
    • Lariviere, B.1    Van den Poel, D.2
  • 23
    • 79952342208 scopus 로고    scopus 로고
    • Advances in handwriting recognition
    • Lee, S.-W., Advances in handwriting recognition. World Scientific, 34, 1999.
    • (1999) World Scientific , vol.34
    • Lee, S.-W.1
  • 24
    • 24044536613 scopus 로고    scopus 로고
    • Pattern recognition techniques for the emerging field of bioinformatics: A review
    • Liew, A.W.-C., Yan, H., Yang, M., Pattern recognition techniques for the emerging field of bioinformatics: A review. Pattern Recognition 38:11 (2005), 2055–2073.
    • (2005) Pattern Recognition , vol.38 , Issue.11 , pp. 2055-2073
    • Liew, A.W.-C.1    Yan, H.2    Yang, M.3
  • 25
    • 84913544750 scopus 로고    scopus 로고
    • Covalent docking of large libraries for the discovery of chemical probes
    • London, N., Miller, R., Krishnan, S., Uchida, K., Irwin, J., Eidam, O., et al. Covalent docking of large libraries for the discovery of chemical probes. Nature Chemical Biology 10:12 (2014), 1066–1072.
    • (2014) Nature Chemical Biology , vol.10 , Issue.12 , pp. 1066-1072
    • London, N.1    Miller, R.2    Krishnan, S.3    Uchida, K.4    Irwin, J.5    Eidam, O.6
  • 26
    • 84862940995 scopus 로고    scopus 로고
    • Comparisons of random forest and support vector machine for predicting blasting vibration characteristic parameters
    • {ISMSSE2011}.
    • Longjun, D., Xibing, L., Ming, X., Qiyue, L., Comparisons of random forest and support vector machine for predicting blasting vibration characteristic parameters. Procedia Engineering 26 (2011), 1772–1781 {ISMSSE2011}.
    • (2011) Procedia Engineering , vol.26 , pp. 1772-1781
    • Longjun, D.1    Xibing, L.2    Ming, X.3    Qiyue, L.4
  • 27
    • 81355161288 scopus 로고    scopus 로고
    • Molecular docking for virtual screening of natural product databases
    • Ma, D.-L., Chan, D.-H., Leung, C.-H., Molecular docking for virtual screening of natural product databases. Chemical Science 2:9 (2011), 1656–1665.
    • (2011) Chemical Science , vol.2 , Issue.9 , pp. 1656-1665
    • Ma, D.-L.1    Chan, D.-H.2    Leung, C.-H.3
  • 29
    • 84867572613 scopus 로고    scopus 로고
    • Iterative experimental and virtual high-throughput screening identifies metabotropic glutamate receptor subtype 4 positive allosteric modulators
    • Mueller, R., Dawson, E.S., Niswender, C.M., Butkiewicz, M., Hopkins, C.R., Weaver, C.D.,.. Meiler, J., Iterative experimental and virtual high-throughput screening identifies metabotropic glutamate receptor subtype 4 positive allosteric modulators. Journal of Molecular Modeling 18:9 (2012), 4437–4446.
    • (2012) Journal of Molecular Modeling , vol.18 , Issue.9 , pp. 4437-4446
    • Mueller, R.1    Dawson, E.S.2    Niswender, C.M.3    Butkiewicz, M.4    Hopkins, C.R.5    Weaver, C.D.6    Meiler, J.7
  • 31
    • 80054916367 scopus 로고    scopus 로고
    • Integration of virtual and high throughput screening in lead discovery settings
    • Polgar, T., Keseru, G.M., Integration of virtual and high throughput screening in lead discovery settings. Combinatorial Chemistry &# 38; High Throughput Screening 14:10 (2011), 889–897.
    • (2011) Combinatorial Chemistry &# 38; High Throughput Screening , vol.14 , Issue.10 , pp. 889-897
    • Polgar, T.1    Keseru, G.M.2
  • 32
    • 84914179053 scopus 로고    scopus 로고
    • R: A language and environment for statistical computing
    • R Foundation for Statistical Computing Vienna, Austria.
    • R Core Team, R: A language and environment for statistical computing. 2013, R Foundation for Statistical Computing Vienna, Austria.
    • (2013)
    • R Core Team1
  • 33
    • 85006783494 scopus 로고    scopus 로고
    • Boosting and Random Forest for Visual Recognition: Boosting and Tree-structured Classifier
    • Tutorial at IEEE Int. Conf. on Computer Vision Kyoto, Japan
    • Tae-Kyun, K., Boosting and Random Forest for Visual Recognition: Boosting and Tree-structured Classifier. 2009, Tutorial at IEEE Int. Conf. on Computer Vision, Kyoto, Japan http://www.iis.ee.ic.ac.uk/icvl/iccv09_tutorial.html#abstract.
    • (2009)
    • Tae-Kyun, K.1
  • 34
    • 84866244446 scopus 로고    scopus 로고
    • IspE inhibitors identified by a combination of in silico and in vitro high-throughput screening.
    • Tidten-Luksch, N., Grimaldi, R., Torrie, L.S., Frearson, J.A., Hunter, W.N., Brenk, R., IspE inhibitors identified by a combination of in silico and in vitro high-throughput screening. Plos One, 7(4), 2012, e35792.
    • (2012) Plos One , vol.7 , Issue.4 , pp. e35792
    • Tidten-Luksch, N.1    Grimaldi, R.2    Torrie, L.S.3    Frearson, J.A.4    Hunter, W.N.5    Brenk, R.6
  • 35
    • 58349116623 scopus 로고    scopus 로고
    • Customer churn prediction using improved balanced random forests
    • Xie, Y., Li, X., Ngai, E.W.T., Ying, W., Customer churn prediction using improved balanced random forests. Expert Systems with Applications 36:3 (2009), 5445–5449.
    • (2009) Expert Systems with Applications , vol.36 , Issue.3 , pp. 5445-5449
    • Xie, Y.1    Li, X.2    Ngai, E.W.T.3    Ying, W.4
  • 36
    • 33749646199 scopus 로고    scopus 로고
    • Random forests and the data sparseness problem in language modeling
    • Xu, P., Jelinek, F., Random forests and the data sparseness problem in language modeling. Computer Speech & Language 21:1 (2007), 105–152.
    • (2007) Computer Speech & Language , vol.21 , Issue.1 , pp. 105-152
    • Xu, P.1    Jelinek, F.2
  • 37
    • 84911479371 scopus 로고    scopus 로고
    • Discovery and characterization of small molecules that target the gtpase ral
    • Yan, C., Liu, D., Li, L., Wempe, M., Guin, S., Khanna, M., et al. Discovery and characterization of small molecules that target the gtpase ral. Nature 515:7527 (2014), 443–447.
    • (2014) Nature , vol.515 , Issue.7527 , pp. 443-447
    • Yan, C.1    Liu, D.2    Li, L.3    Wempe, M.4    Guin, S.5    Khanna, M.6
  • 39
    • 84886949770 scopus 로고    scopus 로고
    • Discovery of new enzymes and metabolic pathways by using structure and genome context
    • Zhao, S., Kumar, R., Sakai, A., Vetting, M., Wood, B., Brown, S., et al. Discovery of new enzymes and metabolic pathways by using structure and genome context. Nature 502:7473 (2013), 698–702.
    • (2013) Nature , vol.502 , Issue.7473 , pp. 698-702
    • Zhao, S.1    Kumar, R.2    Sakai, A.3    Vetting, M.4    Wood, B.5    Brown, S.6


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