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Volumn 44, Issue W1, 2016, Pages W507-W513

systemsDock: a web server for network pharmacology-based prediction and analysis

Author keywords

[No Author keywords available]

Indexed keywords

ANALYSIS; ARTICLE; INTERNET; MOLECULAR DOCKING; ONLINE SYSTEM; PREDICTION; SYSTEMS PHARMACOLOGY; CHEMISTRY; COMPUTER INTERFACE; DRUG EFFECT; HUMAN; INFLUENZA; METABOLISM; ORTHOMYXOVIRIDAE; PHARMACOLOGY; PROCEDURES; SOFTWARE; VIROLOGY;

EID: 85029250096     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/NAR/GKW335     Document Type: Article
Times cited : (162)

References (36)
  • 1
    • 39149104344 scopus 로고    scopus 로고
    • Penicillin-binding proteins and beta-lactam resistance
    • Zapun,A., Contreras-Martel,C. and Vernet,T. (2008) Penicillin-binding proteins and beta-lactam resistance. FEMS Microbiol. Rev., 32, 361-385.
    • (2008) FEMS Microbiol. Rev , vol.32 , pp. 361-385
    • Zapun, A.1    Contreras-Martel, C.2    Vernet, T.3
  • 2
    • 84872740925 scopus 로고    scopus 로고
    • Designing drugs with multi-target activity: the next step in the treatment of neurodegenerative disorders
    • Geldenhuys,W.J. and Van der Schyf,C.J. (2013) Designing drugs with multi-target activity: the next step in the treatment of neurodegenerative disorders. Expert Opin. Drug Discov., 8, 115-129.
    • (2013) Expert Opin. Drug Discov , vol.8 , pp. 115-129
    • Geldenhuys, W.J.1    Van der Schyf, C.J.2
  • 4
    • 54249155522 scopus 로고    scopus 로고
    • Network pharmacology: the next paradigm in drug discovery
    • Hopkins,A.L. (2008) Network pharmacology: the next paradigm in drug discovery. Nat. Chem. Biol., 4, 682-690.
    • (2008) Nat. Chem. Biol , vol.4 , pp. 682-690
    • Hopkins, A.L.1
  • 6
    • 84904805614 scopus 로고    scopus 로고
    • DINIES: drug-target interaction network inference engine based on supervised analysis
    • Yamanishi,Y., Kotera,M., Moriya,Y., Sawada,R., Kanehisa,M. and Goto,S. (2014) DINIES: drug-target interaction network inference engine based on supervised analysis. Nucleic Acids Res., 42, W39-W45.
    • (2014) Nucleic Acids Res , vol.42 , pp. W39-W45
    • Yamanishi, Y.1    Kotera, M.2    Moriya, Y.3    Sawada, R.4    Kanehisa, M.5    Goto, S.6
  • 7
    • 84904793576 scopus 로고    scopus 로고
    • SwissTargetPrediction: a web server for target prediction of bioactive small molecules
    • Gfeller,D., Grosdidier,A., Wirth,M., Daina,A., Michielin,O. and Zoete,V. (2014) SwissTargetPrediction: a web server for target prediction of bioactive small molecules. Nucleic Acids Res., 42, W32-W38.
    • (2014) Nucleic Acids Res , vol.42 , pp. W32-W38
    • Gfeller, D.1    Grosdidier, A.2    Wirth, M.3    Daina, A.4    Michielin, O.5    Zoete, V.6
  • 8
    • 81355123249 scopus 로고    scopus 로고
    • Software for systems biology: from tools to integrated platforms
    • Ghosh,S., Matsuoka,Y., Asai,Y., Hsin,K.-Y. and Kitano,H. (2011) Software for systems biology: from tools to integrated platforms. Nat. Rev. Genet., 12, 821-832.
    • (2011) Nat. Rev. Genet , vol.12 , pp. 821-832
    • Ghosh, S.1    Matsuoka, Y.2    Asai, Y.3    Hsin, K.-Y.4    Kitano, H.5
  • 9
    • 33745463739 scopus 로고    scopus 로고
    • A comprehensive map of the toll-like receptor signaling network
    • Oda,K. and Kitano,H. (2006) A comprehensive map of the toll-like receptor signaling network. Mol. Syst. Biol., 2, 1-20.
    • (2006) Mol. Syst. Biol , vol.2 , pp. 1-20
    • Oda, K.1    Kitano, H.2
  • 11
    • 33746889808 scopus 로고    scopus 로고
    • A comprehensive pathway map of epidermal growth factor receptor signaling
    • Oda,K., Matsuoka,Y., Funahashi,A. and Kitano,H. (2005) A comprehensive pathway map of epidermal growth factor receptor signaling. Mol. Syst. Biol., 1, 1-17.
    • (2005) Mol. Syst. Biol , vol.1 , pp. 1-17
    • Oda, K.1    Matsuoka, Y.2    Funahashi, A.3    Kitano, H.4
  • 14
    • 84858983547 scopus 로고    scopus 로고
    • KEGG for integration and interpretation of large-scale molecular data sets
    • Kanehisa,M., Goto,S., Sato,Y., Furumichi,M. and Tanabe,M. (2012) KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res., 40, D109-D114.
    • (2012) Nucleic Acids Res , vol.40 , pp. D109-D114
    • Kanehisa, M.1    Goto, S.2    Sato, Y.3    Furumichi, M.4    Tanabe, M.5
  • 16
    • 84874969184 scopus 로고    scopus 로고
    • PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees
    • Mi,H., Muruganujan,A. and Thomas,P.D. (2013) PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees. Nucleic Acids Res., 41, D377-D386.
    • (2013) Nucleic Acids Res , vol.41 , pp. D377-D386
    • Mi, H.1    Muruganujan, A.2    Thomas, P.D.3
  • 18
    • 77952794294 scopus 로고    scopus 로고
    • Payao: a community platform for SBML pathway model curation
    • Matsuoka,Y., Ghosh,S., Kikuchi,N. and Kitano,H. (2010) Payao: a community platform for SBML pathway model curation. Bioinformatics, 26, 1381-1383.
    • (2010) Bioinformatics , vol.26 , pp. 1381-1383
    • Matsuoka, Y.1    Ghosh, S.2    Kikuchi, N.3    Kitano, H.4
  • 19
    • 84896705093 scopus 로고    scopus 로고
    • Combining machine learning systems and multiple docking simulation packages to improve docking prediction reliability for network pharmacology
    • Hsin,K.-Y., Ghosh,S. and Kitano,H. (2013) Combining machine learning systems and multiple docking simulation packages to improve docking prediction reliability for network pharmacology. PLoS One, 8, e83922.
    • (2013) PLoS One , vol.8 , pp. e83922
    • Hsin, K.-Y.1    Ghosh, S.2    Kitano, H.3
  • 20
    • 79251524915 scopus 로고    scopus 로고
    • Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database
    • Plewczynski,D., Łaźniewski,M., Augustyniak,R. and Ginalski,K. (2011) Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database. J. Comput. Chem., 32, 742-755.
    • (2011) J. Comput. Chem , vol.32 , pp. 742-755
    • Plewczynski, D.1    Łaźniewski, M.2    Augustyniak, R.3    Ginalski, K.4
  • 21
    • 84874724662 scopus 로고    scopus 로고
    • Update on activities at the Universal Protein Resource (UniProt) in 2013
    • Consortium,U. (2013) Update on activities at the Universal Protein Resource (UniProt) in 2013. Nucleic Acids Res., 41, D43-D47.
    • (2013) Nucleic Acids Res , vol.41 , pp. D43-D47
    • Consortium, U.1
  • 25
    • 67849104638 scopus 로고    scopus 로고
    • PubChem: a public information system for analyzing bioactivities of small molecules
    • Wang,Y., Xiao,J., Suzek,T.O., Zhang,J., Wang,J. and Bryant,S.H. (2009) PubChem: a public information system for analyzing bioactivities of small molecules. Nucleic Acids Res., 37, W623-W633.
    • (2009) Nucleic Acids Res , vol.37 , pp. W623-W633
    • Wang, Y.1    Xiao, J.2    Suzek, T.O.3    Zhang, J.4    Wang, J.5    Bryant, S.H.6
  • 27
    • 33846108633 scopus 로고    scopus 로고
    • BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities
    • Liu,T., Lin,Y., Wen,X., Jorissen,R.N. and Gilson,M.K. (2007) BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities. Nucleic Acids Res., 35, D198-D201.
    • (2007) Nucleic Acids Res , vol.35 , pp. D198-D201
    • Liu, T.1    Lin, Y.2    Wen, X.3    Jorissen, R.N.4    Gilson, M.K.5
  • 28
    • 76149120388 scopus 로고    scopus 로고
    • AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
    • Trott,O. and Olson,A.J. (2010) AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J. Comput. Chem., 31, 455-461.
    • (2010) J. Comput. Chem , vol.31 , pp. 455-461
    • Trott, O.1    Olson, A.J.2
  • 29
    • 41549086249 scopus 로고    scopus 로고
    • Consensus scoring with feature selection for structure-based virtual screening
    • Teramoto,R. and Fukunishi,H. (2008) Consensus scoring with feature selection for structure-based virtual screening. J. Chem. Inf. Model., 48, 288-295.
    • (2008) J. Chem. Inf. Model , vol.48 , pp. 288-295
    • Teramoto, R.1    Fukunishi, H.2
  • 30
    • 84874445951 scopus 로고    scopus 로고
    • Consensus docking: improving the reliability of docking in a virtual screening context
    • Houston,D.R. and Walkinshaw,M.D. (2013) Consensus docking: improving the reliability of docking in a virtual screening context. J. Chem. Inf. Model., 53, 384-390.
    • (2013) J. Chem. Inf. Model , vol.53 , pp. 384-390
    • Houston, D.R.1    Walkinshaw, M.D.2
  • 31
    • 84929141895 scopus 로고    scopus 로고
    • PDB-wide collection of binding data: current status of the PDBbind database
    • Liu,Z., Li,Y., Han,L., Li,J., Liu,J., Zhao,Z., Nie,W., Liu,Y. and Wang,R. (2014) PDB-wide collection of binding data: current status of the PDBbind database. Bioinformatics, 31, 405-412.
    • (2014) Bioinformatics , vol.31 , pp. 405-412
    • Liu, Z.1    Li, Y.2    Han, L.3    Li, J.4    Liu, J.5    Zhao, Z.6    Nie, W.7    Liu, Y.8    Wang, R.9
  • 33
    • 0020083498 scopus 로고
    • The meaning and use of the area under a receiver operating characteristic (ROC) curve
    • Hanley,J.A. and McNeil,B.J. (1982) The meaning and use of the area under a receiver operating characteristic (ROC) curve. Radiology, 143, 29-36.
    • (1982) Radiology , vol.143 , pp. 29-36
    • Hanley, J.A.1    McNeil, B.J.2
  • 35
    • 0028922586 scopus 로고
    • LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions
    • Wallace,A.C., Laskowski,R.A. and Thornton,J.M. (1995) LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions. Protein Eng., 8, 127-134.
    • (1995) Protein Eng , vol.8 , pp. 127-134
    • Wallace, A.C.1    Laskowski, R.A.2    Thornton, J.M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.