A new bioconcentration factor model based on SMILES and indices of presence of atoms

A. P. Toropova, A. A. Toropov, A. Lombardo, A. Roncaglioni, E. Benfenati, G. Gini

Research output: Contribution to journalArticle

Abstract

Indices of the presence of atoms (IPA) encode the presence or absence of atoms, such as nitrogen, oxygen, sulphur, phosphorus, fluorine, chlorine, and bromine in a molecule. They are calculated with the simplified molecular input line entry system (SMILES). Using the Monte Carlo method for correlation weights of these indices, one can improve the predictive ability of optimal SMILES-based descriptors in quantitative structure-activity relationships (QSAR) for bioconcentration factor. The model without IPA gave the following results: n = 503, r2 = 0.6803, q2 = 0.6781, s = 0.759, F = 1066 (subtraining set); n = 322, r2 = 0.8181, rpred 2 = 0.8159, s = 0.565, F = 1439 (calibration set); n = 105, r2 = 0.6703, rpred 2 = 0.6577, Rm 2 = 0.6628, s = 0.728, F = 209 (test set); n = 106, r2 = 0.6624, r pred 2 = 0.6502, Rm 2 = 0.6212, s = 0.757, F = 204 (validation set) The model with IPA gave: n = 503, r2 = 0.7082, q2 = 0.7062, s = 0.725, F = 1216 (subtraining set); n = 322, r2 = 0.8401, rpred 2 = 0.8383, s = 0.528, F = 1682 (calibration set); n = 105, r2 = 0.7489, r pred 2 = 0.7402, Rm 2 = 0.7252, s = 0.637, F = 307 (test set); n = 106, r2 = 0.7306, r pred 2 = 0.7217, Rm 2 = 0.7010, s = 0.680, F = 282 (validation set).

Original languageEnglish
Pages (from-to)4399-4402
Number of pages4
JournalEuropean Journal of Medicinal Chemistry
Volume45
Issue number9
DOIs
Publication statusPublished - Sep 2010

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Keywords

  • Balance of correlations
  • Bioconcentration factor
  • Index of presence of atoms
  • QSAR
  • SMILES

ASJC Scopus subject areas

  • Drug Discovery
  • Organic Chemistry
  • Pharmacology

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