Statistical thinking and technique for QSAR and related studies. Part I: General theory

The two parts of this paper form a critique of a variety of statistical techniques of actual or potential use in quantitative structure‐activity relationship (QSAR) studies and related fields. Part I explores the statistical thinking that is needed to underpin those techniques. Emphasis as placed on (a) the role of ‘exchangeability’ as an alternative to unrealistic statistical modelling and (b) the use of cross‐validation to limit self‐deception in the use of any particular technique. The problem of the almost unlimited range of molecular descriptors is seriously addressed. (Part II provides a concise critical review of methods‐some well‐established and some new.)

[1]  R. Cramer 6 - Antiallergic and Antiulcer Agents , 1983 .

[2]  J. Pople,et al.  Self‐Consistent Molecular Orbital Methods. IV. Use of Gaussian Expansions of Slater‐Type Orbitals. Extension to Second‐Row Molecules , 1970 .

[3]  David Lee Duewer The Free–Wilson paradigm redux: Significance of the Free–Wilson coefficients, insignificance of coefficient ‘uncertainities’ and statistical sins , 1990 .

[4]  H. Weinstein,et al.  Psychotomimetic drugs as anticholinergic agents. II. Quantum-mechanical study of molecular interaction potentials of 1-cyclohexylpiperidine derivatives with the cholinergic receptor. , 1973, Molecular pharmacology.

[5]  L. Crombie,et al.  The rotenoid core structure: Modifications to define the requirements of the toxophore. , 1992 .

[6]  A. Hopfinger,et al.  An investigation into the generalizability of quantitative structure—activity relationships developed for dihydropteridine reductase inhibitors , 1990 .

[7]  A. Leo,et al.  Antitumor structure-activity relations. Nitrosoureas vs. L-1210 leukemia. , 1980, Journal of medicinal chemistry.

[8]  Norman L. Allinger,et al.  Conformational analysis. 130. MM2. A hydrocarbon force field utilizing V1 and V2 torsional terms , 1977 .

[9]  V. Meyer Ueber ein seltsames Gesetz bei der Esterbildung aromatischer Säuren , 1894 .

[10]  R. Fisher,et al.  The Influence of Rainfall on the Yield of Wheat at Rothamsted , 1925 .

[11]  P. Kollman,et al.  A model for thyroid hormone--receptor interactions. , 1979, Journal of medicinal chemistry.

[12]  J. Topliss,et al.  Chance factors in studies of quantitative structure-activity relationships. , 1979, Journal of medicinal chemistry.

[13]  S. Free,et al.  A MATHEMATICAL CONTRIBUTION TO STRUCTURE-ACTIVITY STUDIES. , 1964, Journal of medicinal chemistry.

[14]  Electronic determinants of the anti-inflammatory action of benzoic and salicylic acids. , 1987, Molecular pharmacology.

[15]  K J Schaper,et al.  Quantitative structure-pharmacokinetic relationships and drug design. , 1981, Pharmacology & therapeutics.

[16]  Gilles Klopman,et al.  Calculation of partition coefficients by the charge density method , 1981 .

[17]  W. Heisenberg,et al.  Zur Quantentheorie der Molekeln , 1924 .

[18]  M. Rico,et al.  MOLTW: A program for conformational studies using potential functions - II. Algorithms for molecular coordinates and topology manipulation , 1987, Comput. Chem..

[19]  J. Topliss,et al.  Chance correlations in structure-activity studies using multiple regression analysis , 1972 .

[20]  M. Dewar,et al.  Ground States of Molecules. 38. The MNDO Method. Approximations and Parameters , 1977 .

[21]  M. Koehler,et al.  Application of pattern recognition to mass spectral data of toxic organic compounds in ambient air , 1987 .

[22]  David J. Osguthorpe,et al.  Analysis of intramolecular motions by filtering molecular dynamics trajectories , 1990 .

[23]  H. Wiener Correlation of Heats of Isomerization, and Differences in Heats of Vaporization of Isomers, Among the Paraffin Hydrocarbons , 1947 .

[24]  M. Charton,et al.  Significance of "volume" and "bulk" parameters in quantitative structure-activity relationships , 1979 .

[25]  P. Atkins,et al.  Molecular Quantum Mechanics , 1970 .

[26]  S. Snapinn,et al.  An Evaluation of Smoothed Classification Error- Rate Estimators , 1985 .

[27]  B. Pullman,et al.  Molecular electrostatic potential of the nucleic acids , 1981, Quarterly Reviews of Biophysics.

[28]  P. Salamin,et al.  Identification of chemical substances by their near-infrared spectra , 1988 .

[29]  William J. Dunn,et al.  Quantitative structure—activity relationships (QSAR) , 1989 .

[30]  P. Lewi Multivariate Data Analysis in Structure—Activity Relationships , 1980 .

[31]  C. J. Blankley 1 - Introduction: A Review of QSAR Methodology , 1983 .

[32]  R. M. Muir,et al.  Correlation of Biological Activity of Phenoxyacetic Acids with Hammett Substituent Constants and Partition Coefficients , 1962, Nature.

[33]  J. Mccammon,et al.  Dynamics of Proteins and Nucleic Acids , 2018 .

[34]  R. Li,et al.  Use of dipole moment as a parameter in drug-receptor interaction and quantitative structure-activity relationship studies. , 1982, Journal of pharmaceutical sciences.

[35]  U. Singh,et al.  Conformations of the noncovalent and covalent complexes between mitomycins A and C and d(GCGCGCGCGC)2 , 1986 .

[36]  R. Cramer,et al.  Comparative molecular field analysis (CoMFA). 1. Effect of shape on binding of steroids to carrier proteins. , 1988, Journal of the American Chemical Society.

[37]  Milan Randić,et al.  Correlation of enthalphy of octanes with orthogonal connectivity indices , 1991 .