Literature DB >> 22160553

Can we really do computer-aided drug design?

Matthew Segall1.   

Abstract

In this article, we discuss what we mean by 'design' and contrast this with the application of computational methods in drug discovery. We suggest that the predictivity of the computational models currently applied in drug discovery is not yet sufficient to permit a true design paradigm, as demonstrated by the large number of compounds that must currently be synthesised and tested to identify a successful drug. However, despite the uncertainties in predictions, computational methods have enormous potential value in narrowing the range of compounds to consider, by eliminating those that have negligible chance of being a successful drug, while focussing efforts on chemistries with the best likelihood of success. Applied appropriately, computational approaches can support decision-makers in achieving multi-parameter optimisation to guide the selection and design of compounds with the best chance of achieving an appropriate balance of properties for a drug discovery project's objectives. Finally, we consider some approaches that may contribute over the next 25 years to improve the accuracy and transferability of computational models in drug discovery and move towards a genuine design process.

Mesh:

Substances:

Year:  2011        PMID: 22160553     DOI: 10.1007/s10822-011-9512-3

Source DB:  PubMed          Journal:  J Comput Aided Mol Des        ISSN: 0920-654X            Impact factor:   3.686


  20 in total

Review 1.  Multi-parameter optimization: identifying high quality compounds with a balance of properties.

Authors:  Matthew D Segall
Journal:  Curr Pharm Des       Date:  2012       Impact factor: 3.116

2.  Gaussian approximation potentials: the accuracy of quantum mechanics, without the electrons.

Authors:  Albert P Bartók; Mike C Payne; Risi Kondor; Gábor Csányi
Journal:  Phys Rev Lett       Date:  2010-04-01       Impact factor: 9.161

3.  Introducing ONETEP: linear-scaling density functional simulations on parallel computers.

Authors:  Chris-Kriton Skylaris; Peter D Haynes; Arash A Mostofi; Mike C Payne
Journal:  J Chem Phys       Date:  2005-02-22       Impact factor: 3.488

4.  A discussion of measures of enrichment in virtual screening: comparing the information content of descriptors with increasing levels of sophistication.

Authors:  Andreas Bender; Robert C Glen
Journal:  J Chem Inf Model       Date:  2005 Sep-Oct       Impact factor: 4.956

5.  Gaussian processes: a method for automatic QSAR modeling of ADME properties.

Authors:  Olga Obrezanova; Gabor Csanyi; Joelle M R Gola; Matthew D Segall
Journal:  J Chem Inf Model       Date:  2007-06-28       Impact factor: 4.956

6.  The importance of the domain of applicability in QSAR modeling.

Authors:  Shane Weaver; M Paul Gleeson
Journal:  J Mol Graph Model       Date:  2008-01-18       Impact factor: 2.518

7.  ChEMBL. An interview with John Overington, team leader, chemogenomics at the European Bioinformatics Institute Outstation of the European Molecular Biology Laboratory (EMBL-EBI). Interview by Wendy A. Warr.

Authors:  John Overington
Journal:  J Comput Aided Mol Des       Date:  2009-02-05       Impact factor: 3.686

8.  Towards a new age of virtual ADME/TOX and multidimensional drug discovery.

Authors:  Sean Ekins; Bruno Boulanger; Peter W Swaan; Maggie A Z Hupcey
Journal:  J Comput Aided Mol Des       Date:  2002 May-Jun       Impact factor: 3.686

9.  In silico prediction of aqueous solubility.

Authors:  John C Dearden
Journal:  Expert Opin Drug Discov       Date:  2006-06       Impact factor: 6.098

10.  Novel structural features of CDK inhibition revealed by an ab initio computational method combined with dynamic simulations.

Authors:  Lucy Heady; Marivi Fernandez-Serra; Ricardo L Mancera; Sian Joyce; Ashok R Venkitaraman; Emilio Artacho; Chris-Kriton Skylaris; Lucio Colombi Ciacchi; Mike C Payne
Journal:  J Med Chem       Date:  2006-08-24       Impact factor: 7.446

View more
  1 in total

1.  CSAR data set release 2012: ligands, affinities, complexes, and docking decoys.

Authors:  James B Dunbar; Richard D Smith; Kelly L Damm-Ganamet; Aqeel Ahmed; Emilio Xavier Esposito; James Delproposto; Krishnapriya Chinnaswamy; You-Na Kang; Ginger Kubish; Jason E Gestwicki; Jeanne A Stuckey; Heather A Carlson
Journal:  J Chem Inf Model       Date:  2013-05-10       Impact factor: 4.956

  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.