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Evaluation of reactant-based and product-based approaches to the design of combinatorial libraries

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Book cover Virtual Screening: An Alternative or Complement to High Throughput Screening?

Summary

The large numbers of compounds that are now available in drug discovery programmes have resulted in the need for methods to select compounds, both from external suppliers and in combinatorial library design procedures. In this article we describe a method that has been developed for scoring and ranking compounds according to their likelihood of exhibiting activity. The method can be used to determine the order in which compounds should be screened as well as to guide compound acquisition programmes. We then describe a series of experiments we have conducted that explore the benefits of designing combinatorial libraries through an analysis of product space rather than reactant space. The experiments are based on several different diversity metrics and molecular descriptors. We also show how product-based selection allows multi-objectives to be optimised simultaneously, for example, diversity and physicochemical properties, allowing the design of diverse and drug-like libraries.

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References

  1. Dolle, R.E. and Nelson Jr., K.H., J. Comb. Chem., 1 (1999) 235.

    Article  PubMed  CAS  Google Scholar 

  2. Dean, P.M. and Lewis, R.A. (Eds.) Molecular Diversity in Drug Design, Kluwer Academic Publishers, Dordrecht, 1999.

    Google Scholar 

  3. Willett, P. (Ed.) Computational Methods for the Analysis of Molecular Diversity, Perspectives in Drug Discovery and Design, Vols. 7/8, Kluwer Academic Publishers, Dordrecht, 1997.

    Google Scholar 

  4. Brown, R.D. and Martin, Y.C., J. Chem. Inf. Comput. Sci., 36 (1996) 572.

    Article  CAS  Google Scholar 

  5. Brown, R.D. and Martin, Y.C., J. Chem. Inf. Comput. Sci., 37 (1997) 1.

    Article  CAS  Google Scholar 

  6. Patterson, D.E., Cramer, R.D., Ferguson, A.M., Clark, R.D. and Weingerger, L.E., J. Med. Chem., 39 (1996) 3049.

    Article  PubMed  CAS  Google Scholar 

  7. Matter, H., J. Med. Chem., 40 (1997) 1219.

    Article  PubMed  CAS  Google Scholar 

  8. Pötter, T. and Matter, H., J. Med. Chem., 41 (1998) 478.

    PubMed  Google Scholar 

  9. Snarey, M., Terrett, N.K., Willett, P. and Wilton, D.J., J. Mol. Graph. Model, 15 (1997) 372.

    PubMed  CAS  Google Scholar 

  10. Lipinski, C.A., Lombardo, F., Dominy, B.W. and Feeny, P.J., Adv. Drug Deliv., 23 (1997) 3.

    Article  CAS  Google Scholar 

  11. Gillet, V.J., Willett, P. and Bradshaw, J., J. Chem. Inf. Comput. Sci., 38 (1998) 165.

    Article  PubMed  CAS  Google Scholar 

  12. Kier, L.B., Med. Res. Rev., 7 (1987) 417.

    PubMed  CAS  Google Scholar 

  13. CLOGP3 Reference Manual. Daylight Chemical Information Systems, Inc., Mission Viejo, CA, U.S.A.

    Google Scholar 

  14. Daylight Chemical Information Systems, Inc., Mission Viejo, CA, U.S.A.

    Google Scholar 

  15. Goldberg, D.E., Genetic Algorithms in Search, Optimisation, and Machine Learning, Addison-Wesley, Reading, MA, 1989.

    Google Scholar 

  16. Hann, M., Hudson, B., Lewell, X., Lifely, R., Miller, L. and Ramsden, N., J. Chem. Inf. Comput. Sci., 39 (1999) 897.

    Article  PubMed  CAS  Google Scholar 

  17. Ajay,, Walters, W.P. and Murcko, M., J. Med. Chem., 41 (1998) 3314.

    Article  PubMed  CAS  Google Scholar 

  18. Sadowski, J. and Kubinyi, H., J. Med. Chem., 41 (1998) 3325.

    Article  PubMed  CAS  Google Scholar 

  19. Wagener, M. and van Geerestein, V.J., Potential Drugs and Non-drugs: Prediction and Identification of Important Structural Features. Paper presented at the Fifth International Conference on Chemical Structures, The Netherlands, 1996.

    Google Scholar 

  20. The Available Chemicals Directory is available from MDL Information Systems Inc., San Leandro, CA, U.S.A.

    Google Scholar 

  21. Gillet, V.J., Willett, P. and Bradshaw, J., J. Chem. Inf. Comput. Sci., 37 (1997) 731.

    Article  CAS  Google Scholar 

  22. Cribbs, C.M., Menius, J.A., Cummins, D. and Young, S.S., Statistical Methods for Monomer Selection in Chemical Library Design. Paper presented at the 211th Meeting of The American Chemical Society, 1996.

    Google Scholar 

  23. Gillet, V.J., Willett, P. and Bradshaw, J., J. Chem. Inf. Comput. Sci., 39 (1999) 169.

    Article  CAS  Google Scholar 

  24. UNITY is available from Tripos Inc., St. Louis, MO, U.S.A.

    Google Scholar 

  25. Molconn-Z is available from eduSoft, Ashland, VA, U.S.A.

    Google Scholar 

  26. Lajiness, M.S., Perspect. Drug Discov. Design, 7/8 (1997) 65.

    CAS  Google Scholar 

  27. Holliday, J.D., Ranade, S.S. and Willett, P., Quant. Struct.-Act. Relat., 14 (1995) 501.

    CAS  Google Scholar 

  28. Watson, S., Solution Phase Synthesis of Libraries Based on Thiazole Templates. 3rd Annual Random and Rational Conference, Geneva, Strategic Research Institute, New York, NY, 1996.

    Google Scholar 

  29. Jamois, E.A., Evaluation of Reagent-based and Product-based Strategies in the Design of Combinatorial Subsets, Paper presented at the 217th Meeting of The American Chemical Society, 1999.

    Google Scholar 

  30. Pearlman, R.S. and Smith, K.M., Novel Algorithms for the Design of Diverse and Focused Combinatorial Libraries, Paper presented at the 217th Meeting of The American Chemical Society, 1999.

    Google Scholar 

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© 2000 Kluwer Academic Publishers

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Gillet, V.J., Nicolotti, O. (2000). Evaluation of reactant-based and product-based approaches to the design of combinatorial libraries. In: Klebe, G. (eds) Virtual Screening: An Alternative or Complement to High Throughput Screening?., vol 20. Springer, Dordrecht. https://doi.org/10.1007/0-306-46883-2_15

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  • DOI: https://doi.org/10.1007/0-306-46883-2_15

  • Publisher Name: Springer, Dordrecht

  • Print ISBN: 978-0-7923-6633-1

  • Online ISBN: 978-0-306-46883-4

  • eBook Packages: Springer Book Archive

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