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Volumn 25, Issue 3, 2011, Pages 237-252

Local neighborhood behavior in a combinatorial library context

Author keywords

Fuzzy pharmacophore; Neighborhood behavior; Pharmacophore descriptor; Protease inhibition; Similarity; Virtual screening

Indexed keywords

PHARMACODYNAMICS;

EID: 79956008231     PISSN: 0920654X     EISSN: 15734951     Source Type: Journal    
DOI: 10.1007/s10822-011-9416-2     Document Type: Article
Times cited : (9)

References (40)
  • 2
    • 2942640607 scopus 로고    scopus 로고
    • Neighborhood behavior - The relation between chemical similarity and property similarity
    • Horvath D, Barbosa F (2004) Neighborhood behavior - the relation between chemical similarity and property similarity. Curr Trends Med Chem 4:589-600
    • (2004) Curr Trends Med Chem , vol.4 , pp. 589-600
    • Horvath, D.1    Barbosa, F.2
  • 3
    • 0037365125 scopus 로고    scopus 로고
    • Neighborhood behavior of in silico structural spaces with respect to in vitro activity spaces - A novel understanding of the molecular similarity principle in the context of multiple receptor binding profiles
    • Horvath D, Jeandenans C (2003) Neighborhood behavior of in silico structural spaces with respect to in vitro activity spaces - a novel understanding of the molecular similarity principle in the context of multiple receptor binding profiles. J Chem Inf Comput Sci 43:680-690
    • (2003) J Chem Inf Comput Sci , vol.43 , pp. 680-690
    • Horvath, D.1    Jeandenans, C.2
  • 4
    • 0029783934 scopus 로고    scopus 로고
    • Neighborhood behavior: A useful concept for validation of "molecular diversity" descriptors
    • Patterson DE, Cramer RD, Ferguson AM, Clark RD, Weinberger LE (1996) Neighborhood behavior: a useful concept for validation of "molecular diversity" descriptors. J Med Chem 39(16):3049-3059
    • (1996) J Med Chem , vol.39 , Issue.16 , pp. 3049-3059
    • Patterson, D.E.1    Cramer, R.D.2    Ferguson, A.M.3    Clark, R.D.4    Weinberger, L.E.5
  • 5
    • 33746931581 scopus 로고    scopus 로고
    • On outliers and activity cliffs - Why QSAR often disappoints
    • Maggiora GM (2006) On outliers and activity cliffs - why QSAR often disappoints. J Chem Inf Model 46:1535
    • (2006) J Chem Inf Model , vol.46 , pp. 1535
    • Maggiora, G.M.1
  • 8
    • 33644520894 scopus 로고    scopus 로고
    • Substructural fragments: An universal language to encode reactions, molecular and supramolecular structures
    • Varnek A, Fourches D, Hoonakker F, Solov'ev VP (2005) Substructural fragments: an universal language to encode reactions, molecular and supramolecular structures. J Comput Aided Mol Des 19(9-10):693-703
    • (2005) J Comput Aided Mol des , vol.19 , Issue.9-10 , pp. 693-703
    • Varnek, A.1    Fourches, D.2    Hoonakker, F.3    Solov'ev, V.P.4
  • 9
    • 7244247274 scopus 로고    scopus 로고
    • Structure-property modeling of metal binders using molecular fragments
    • Solov'ev VP, Varnek AA (2004) Structure-property modeling of metal binders using molecular fragments. Russ Chem Bull 53(7):1434-1445
    • (2004) Russ Chem Bull , vol.53 , Issue.7 , pp. 1434-1445
    • Solov'ev, V.P.1    Varnek, A.A.2
  • 11
    • 33646493006 scopus 로고    scopus 로고
    • Scaffold-hopping potential of ligand-based similarity concepts
    • Renner S, Schneider G (2006) Scaffold-hopping potential of ligand-based similarity concepts. Chem Med Chem 1:181
    • (2006) Chem Med Chem , vol.1 , pp. 181
    • Renner, S.1    Schneider, G.2
  • 13
    • 0034130399 scopus 로고    scopus 로고
    • De novo design of molecular architectures by evolutionary assembly of drug-derived building blocks
    • DOI 10.1023/A:1008184403558
    • Schneider G, Lee M-L, Stahl M, Schneider P (2000) De novo design ofmolecular architectures by evolutionary assembly of drug-derived building blocks. J Comput Aided Mol Des 14:487-494 (Pubitemid 30386823)
    • (2000) Journal of Computer-Aided Molecular Design , vol.14 , Issue.5 , pp. 487-494
    • Schneider, G.1    Lee, M.-L.2    Stahl, M.3    Schneider, P.4
  • 14
    • 0033523672 scopus 로고    scopus 로고
    • "Scaffold-Hopping" by topological pharmacophore search: A contribution to virtual screening
    • Schneider G, Neidhart W, Giller T, Schmid G (1999) "Scaffold- Hopping" by topological pharmacophore search: a contribution to virtual screening. Angew Chem Int Ed Engl 38:2894-2896
    • (1999) Angew Chem Int Ed Engl , vol.38 , pp. 2894-2896
    • Schneider, G.1    Neidhart, W.2    Giller, T.3    Schmid, G.4
  • 16
    • 41549123745 scopus 로고    scopus 로고
    • Fuzzy tricentric pharmacophore fingerprints. 2. Application of topological fuzzy pharmacophore triplets in quantitative structure-activity relationships
    • DOI 10.1021/ci7003237
    • Bonachera F, Horvath D (2008) Fuzzy tricentric pharmacophore fingerprints. 2. Application of topological fuzzy pharmacophore triplets in quantitative structure-activity relationships. J Chem Inf Model 48(2):409-425 (Pubitemid 351473043)
    • (2008) Journal of Chemical Information and Modeling , vol.48 , Issue.2 , pp. 409-425
    • Bonachera, F.1    Horvath, D.2
  • 17
    • 33845791138 scopus 로고    scopus 로고
    • Fuzzy tricentric pharmacophore fingerprints. 1. Topological fuzzy pharmacophore triplets and adapted molecular similarity scoring schemes
    • DOI 10.1021/ci6002416
    • Bonachera F, Parent B, Barbosa F, Froloff N, Horvath D (2006) Fuzzy tricentric pharmacophore fingerprints. 1. Topological fuzzy pharmacophore triplets and adapted molecular similarity scoring schemes. J Chem Inf Model 46:2457-2477 (Pubitemid 46008118)
    • (2006) Journal of Chemical Information and Modeling , vol.46 , Issue.6 , pp. 2457-2477
    • Bonachera, F.1    Parent, B.2    Barbosa, F.3    Froloff, N.4    Horvath, D.5
  • 18
    • 79956048485 scopus 로고    scopus 로고
    • Accessed Feb. 2009 2010
    • ChemAxon (2007) Screen user guide. http://www.chemaxon.com/jchem/index. html?content=doc/user/Screen.html. Accessed Feb. 2009 2010
    • (2007) Screen User Guide
  • 19
    • 0001008510 scopus 로고
    • Über ein neues Kondensationsprinzip
    • Ugi I, Steinbrückner C (1960) Über ein neues Kondensationsprinzip. Angew Chem 72:267-268
    • (1960) Angew Chem , vol.72 , pp. 267-268
    • Ugi, I.1    Steinbrückner, C.2
  • 21
    • 0037079610 scopus 로고    scopus 로고
    • Multi-component reactions and evolutionary chemistry
    • Weber L (2002) Multi-component reactions and evolutionary chemistry. Drug Discovery Today 7:143-147
    • (2002) Drug Discovery Today , vol.7 , pp. 143-147
    • Weber, L.1
  • 22
    • 33749842822 scopus 로고
    • Optimization of the biological activity of combinatorial compound libraries by a genetic algorithm
    • Weber L, Wallbaum S, Gubernator K, Broger C (1995) Optimization of the biological activity of combinatorial compound libraries by a genetic algorithm. Angew Chem Int Ed Engl 34:2280-2282
    • (1995) Angew Chem Int Ed Engl , vol.34 , pp. 2280-2282
    • Weber, L.1    Wallbaum, S.2    Gubernator, K.3    Broger, C.4
  • 23
    • 0036424932 scopus 로고    scopus 로고
    • The application of multi-component reactions in drug discovery
    • Weber L (2002) The application of multi-component reactions in drug discovery. Curr Med Chem 9:2085-2093
    • (2002) Curr Med Chem , vol.9 , pp. 2085-2093
    • Weber, L.1
  • 25
    • 34447321051 scopus 로고    scopus 로고
    • Successful "in silico" design of new efficient uranyl binders
    • doi: 10.1080/07366290701415820
    • Varnek A, Fourches D, Solov'ev V, Klimchuk O, Ouadi A, Billard I (2007) Successful "in silico" design of new efficient uranyl binders. Solvent Extr Ion Exch 25(4):433-462. doi: 10.1080/07366290701415820
    • (2007) Solvent Extr Ion Exch , vol.25 , Issue.4 , pp. 433-462
    • Varnek, A.1    Fourches, D.2    Solov'ev, V.3    Klimchuk, O.4    Ouadi, A.5    Billard, I.6
  • 26
    • 79956059786 scopus 로고    scopus 로고
    • CORINA 3.2 edn. GmbH, Erlangen
    • CORINA (2005) Molecular Networks. 3.2 edn. GmbH, Erlangen
    • (2005) Molecular Networks
  • 27
    • 64249115642 scopus 로고    scopus 로고
    • Molecular properties of psychopharmacological drugs determining non-competitive inhibition of 5-HT3A receptors
    • Kornhuber J, Terfloth L, Bleich S, Wiltfang J, Rupprecht R (2009) Molecular properties of psychopharmacological drugs determining non-competitive inhibition of 5-HT3A receptors. Eur J Med Chem 44(6):2667-2672
    • (2009) Eur J Med Chem , vol.44 , Issue.6 , pp. 2667-2672
    • Kornhuber, J.1    Terfloth, L.2    Bleich, S.3    Wiltfang, J.4    Rupprecht, R.5
  • 28
    • 34250796895 scopus 로고    scopus 로고
    • Stochastic versus stepwise strategies for quantitative structure-activity relationship generation. How much effort may the mining for successful QSAR models take?
    • Horvath D, Bonachera F, Solov'ev V, Gaudin C, Varnek A (2007) Stochastic versus stepwise strategies for quantitative structure-activity relationship generation. How much effort may the mining for successful QSAR models take? J Chem Inf Model 47:927-939
    • (2007) J Chem Inf Model , vol.47 , pp. 927-939
    • Horvath, D.1    Bonachera, F.2    Solov'Ev, V.3    Gaudin, C.4    Varnek, A.5
  • 29
    • 84870267223 scopus 로고
    • The generalization of "Student's" problem when several different population variances are involved
    • Welch BL (1947) The generalization of "Student's" problem when several different population variances are involved. Biometrika 34:28-35
    • (1947) Biometrika , vol.34 , pp. 28-35
    • Welch, B.L.1
  • 30
    • 70350350424 scopus 로고    scopus 로고
    • Beyond QSAR: Lead hopping to different structures
    • doi:10.1002/qsar.200810176
    • Martin YC, Muchmore S (2009) Beyond QSAR: lead hopping to different structures. Qsar Comb Sci 28(8):797-801. doi:10.1002/qsar.200810176
    • (2009) Qsar Comb Sci , vol.28 , Issue.8 , pp. 797-801
    • Martin, Y.C.1    Muchmore, S.2
  • 31
    • 45749116266 scopus 로고    scopus 로고
    • Application of belief theory to similarity data fusion for use in analog searching and lead hopping
    • doi:10.1021/ci7004498
    • Muchmore SW, Debe DA, Metz JT, Brown SP, Martin YC, Hajduk PJ (2008) Application of belief theory to similarity data fusion for use in analog searching and lead hopping. J Chem Inf Model 48(5):941-948. doi:10.1021/ ci7004498
    • (2008) J Chem Inf Model , vol.48 , Issue.5 , 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
  • 32
    • 0037361990 scopus 로고    scopus 로고
    • Neighborhood behavior of in silico structural spaces with respect to in vitro activity spaces - A benchmark for neighborhood behavior assessment of different in silico similarity metrics
    • Horvath D, Jeandenans C (2003) Neighborhood behavior of in silico structural spaces with respect to in vitro activity spaces - a benchmark for neighborhood behavior assessment of different in silico similarity metrics. J Chem Inf Comput Sci 43:691-698
    • (2003) J Chem Inf Comput Sci , vol.43 , pp. 691-698
    • Horvath, D.1    Jeandenans, C.2
  • 33
    • 84973587732 scopus 로고
    • A coefficient of agreement for nominal scales
    • Cohen J (1960) A coefficient of agreement for nominal scales. Educ Psychol Measur 20:37-46
    • (1960) Educ Psychol Measur , vol.20 , pp. 37-46
    • Cohen, J.1
  • 34
    • 0342645323 scopus 로고    scopus 로고
    • The information content of 2D and 3D structural descriptors relevant to ligand-receptor binding
    • Brown RD, Martin YC (1996) The information content of 2D and 3D structural descriptors relevant to ligand-receptor binding. J Chem Inf Comput Sci 36:572-584
    • (1996) J Chem Inf Comput Sci , vol.36 , pp. 572-584
    • Brown, R.D.1    Martin, Y.C.2
  • 35
    • 0036740917 scopus 로고    scopus 로고
    • Why do we need so many chemical similarity search methods?
    • Sheridan RP, Kearsley SK (2002) Why do we need so many chemical similarity search methods? Drug Discov Today 7(17):903-911
    • (2002) Drug Discov Today , vol.7 , Issue.17 , pp. 903-911
    • Sheridan, R.P.1    Kearsley, S.K.2
  • 36
    • 34447515227 scopus 로고    scopus 로고
    • Chemical similarity searches: When is complexity justified?
    • doi:10.1517/17460441.2.4.423
    • Sheridan RP (2007) Chemical similarity searches: when is complexity justified? Expert Opin Drug Discov 2(4):423-430. doi:10.1517/17460441.2.4.423
    • (2007) Expert Opin Drug Discov , vol.2 , Issue.4 , pp. 423-430
    • Sheridan, R.P.1
  • 37
    • 42149090634 scopus 로고    scopus 로고
    • Structure - Activity landscape index: Identifying and quantifying activity cliffs
    • DOI 10.1021/ci7004093
    • Guha R, VanDrie JH (2008) Structure-activity landscape index: identifying and quantifying activity cliffs. J Chem Inf Model 48(3):646-658 (Pubitemid 351535432)
    • (2008) Journal of Chemical Information and Modeling , vol.48 , Issue.3 , pp. 646-658
    • Guha, R.1    Van Drie, J.H.2
  • 38
    • 36148989137 scopus 로고    scopus 로고
    • SAR index: Quantifying the nature of structure-activity relationships
    • Petalson L, Bajorath J (2007) SAR index: quantifying the nature of structure-activity relationships. J Med Chem 50:5571-5578
    • (2007) J Med Chem , vol.50 , pp. 5571-5578
    • Petalson, L.1    Bajorath, J.2
  • 39
    • 0037068532 scopus 로고    scopus 로고
    • Do structurally similar molecules have similar biological activity?
    • doi:10.1021/jm020155c
    • Martin YC, Kofron JL, Traphagen LM (2002) Do structurally similar molecules have similar biological activity? J Med Chem 45(19):4350-4358. doi:10.1021/jm020155c
    • (2002) J Med Chem , vol.45 , Issue.19 , pp. 4350-4358
    • Martin, Y.C.1    Kofron, J.L.2    Traphagen, L.M.3
  • 40
    • 77956952857 scopus 로고    scopus 로고
    • Combination rules for group fusion in similarity-based virtual screening
    • doi:10.1002/minf.201000050
    • Chen BN, Mueller C, Willett P (2010) Combination rules for group fusion in similarity-based virtual screening. Mol Inf 29 (6-7):533-541. doi:10.1002/minf.201000050
    • (2010) Mol Inf , vol.29 , Issue.6-7 , pp. 533-541
    • Chen, B.N.1    Mueller, C.2    Willett, P.3


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