Neural Networks in Analytical Chemistry

This chapter covers a part of the spectrum of neural-network uses in analytical chemistry. Different architectures of neural networks are described briefly. The chapter focuses on the development of three-layer artificial neural network for modeling the anti-HIV activity of the HETP derivatives and activity parameters (pIC50) of heparanase inhibitors. The use of a genetic algorithm-kernel partial least squares algorithm combined with an artificial neural network (GA-KPLS-ANN) is described for predicting the activities of a series of aromatic sulfonamides. The retention behavior of terpenes and volatile organic compounds and predicting the response surface of different detection systems are presented as typical applications of ANNs in chromatographic area. The use of ANNs is explored in electrophoresis with emphasizes on its application on peptide mapping. Simulation of the electropherogram of glucagons and horse cytochrome C is described as peptide models. This chapter also focuses on discussing the role of ANNs in the simulation of mass and 13C-NMR spectra for noncyclic alkenes and alkanes and lignin and xanthones, respectively.

[1]  Claudiu T Supuran,et al.  QSAR study on carbonic anhydrase inhibitors: aromatic/heterocyclic sulfonamides containing 8-quinoline-sulfonyl moieties, with topical activity as antiglaucoma agents. , 2004, European journal of medicinal chemistry.

[2]  M. Jalali-Heravi,et al.  Use of self-training artificial neural networks in modeling of gas chromatographic relative retention times of a variety of organic compounds. , 2002, Journal of chromatography. A.

[3]  Claudiu T. Supuran,et al.  Carbonic anhydrase inhibitors. Part 61. Quantum chemical QSAR of a group of benzenedisulfonamides , 1999 .

[4]  I. Vlodavsky,et al.  Molecular properties and involvement of heparanase in cancer metastasis and angiogenesis. , 2001, The Journal of clinical investigation.

[5]  J J Hopfield,et al.  Neural networks and physical systems with emergent collective computational abilities. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[6]  Lawrence S. Anker,et al.  Prediciton of carbon-13 nuclear magnetic resonance chemical shifts by artificial neural networks , 1992 .

[7]  Peter C. Jurs,et al.  Automated model selection for the simulation of carbon-13 nuclear magnetic resonance spectra of cyclopentanones and cycloheptanones , 1991 .

[8]  Mehdi Jalali-Heravi,et al.  Use of Computer-Assisted Methods for the Modeling of the Retention Time of a Variety of Volatile Organic Compounds: A PCA-MLR-ANN Approach , 2004, J. Chem. Inf. Model..

[9]  Teuvo Kohonen,et al.  Self-organized formation of topologically correct feature maps , 2004, Biological Cybernetics.

[10]  T. Kohonen Analysis of a simple self-organizing process , 1982, Biological Cybernetics.

[11]  Colin F. Poole,et al.  Comparison of two free energy of solvation models for characterizing selectivity of stationary phases used in gas-liquid chromatography , 1992 .

[12]  M. Jalali-Heravi,et al.  Prediction of thermal conductivity detection response factors using an artificial neural network. , 2000, Journal of chromatography. A.

[13]  W. Pitts,et al.  A Statistical Consequence of the Logical Calculus of Nervous Nets , 1943 .

[14]  M. Jalali-Heravi,et al.  Prediction of relative response factors for flame ionization and photoionization detection using self-training artificial neural networks. , 2002, Journal of chromatography. A.

[15]  Johann Gasteiger,et al.  Prediction of 1H NMR chemical shifts using neural networks. , 2002, Analytical chemistry.

[16]  T. Nagem,et al.  Tetraoxygenated naturally occurring xanthones. , 2000, Phytochemistry.

[17]  P. Jurs,et al.  Quantitative structure-retention relationship studies of odor-active aliphatic compounds with oxygen-containing functional groups. , 1990, Analytical chemistry.

[18]  A. Cifuentes,et al.  Behavior of peptides in capillary electrophoresis: Effect of peptide charge, mass and structure , 1997, Electrophoresis.

[19]  D. O. Hebb,et al.  The organization of behavior , 1988 .

[20]  P. Hopke,et al.  Classification of single particles by neural networks based on the computer-controlled scanning electron microscopy data , 1997 .

[21]  T. Kohonen Self-organized formation of topographically correct feature maps , 1982 .

[22]  M. Jalali-Heravi,et al.  Simulation of 13C nuclear magnetic resonance spectra of lignin compounds using principal component analysis and artificial neural networks. , 2004, Journal of magnetic resonance.

[23]  J. Bennett,et al.  2,3-Dihydro-1,3-dioxo-1H-isoindole-5-carboxylic acid derivatives: a novel class of small molecule heparanase inhibitors. , 2004, Bioorganic & medicinal chemistry letters.

[24]  Mohammad Hossein Fatemi,et al.  Prediction of flame ionization detector response factors using an artificial neural network , 1998 .

[25]  M. Jalali-Heravi,et al.  Prediction of relative response factors of electron-capture detection for some polychlorinated biphenyls using chemometrics. , 2004, Journal of chromatography. A.

[26]  Jure Zupan,et al.  Algorithms for Chemists , 1989 .

[27]  H. Lauer,et al.  A semiempirical model for the electrophoretic mobilities of peptides in free-solution capillary electrophoresis. , 1989, Analytical biochemistry.

[28]  R K Scopes,et al.  Measurement of protein by spectrophotometry at 205 nm. , 1974, Analytical biochemistry.

[29]  P Mátyus,et al.  Application of neural networks in structure–activity relationships , 1999, Medicinal research reviews.

[30]  Mohammad Hossein Fatemi,et al.  Simulation of mass spectra of noncyclic alkanes and alkenes using artificial neural network , 2000 .

[31]  Toshio Fujita,et al.  The Correlation of Biological Activity of Plant Growth Regulators and Chloromycetin Derivatives with Hammett Constants and Partition Coefficients , 1963 .

[32]  M. Jalali-Heravi,et al.  Development of comprehensive descriptors for multiple linear regression and artificial neural network modeling of retention behaviors of a variety of compounds on different stationary phases. , 2000, Journal of chromatography. A.

[33]  Corwin Hansch,et al.  Comparative QSAR: Toward a Deeper Understanding of Chemicobiological Interactions. , 1996, Chemical reviews.

[34]  W. Pitts,et al.  How we know universals; the perception of auditory and visual forms. , 1947, The Bulletin of mathematical biophysics.

[35]  M. Jalali-Heravi,et al.  Prediction of electrophoretic mobilities of peptides in capillary zone electrophoresis by quantitative structure‐mobility relationships using the offord model and artificial neural networks , 2005, Electrophoresis.

[36]  R. E. OFFORD,et al.  Electrophoretic Mobilities of Peptides on Paper and their Use in the Determination of Amide Groups , 1966, Nature.

[37]  M. Jalali-Heravi,et al.  QSAR study of heparanase inhibitors activity using artificial neural networks and Levenberg-Marquardt algorithm. , 2008, European journal of medicinal chemistry.

[38]  Mehdi Jalali-Heravi,et al.  Artificial neural network modeling of peptide mobility and peptide mapping in capillary zone electrophoresis. , 2005, Journal of chromatography. A.

[39]  Juan M. Luco,et al.  QSAR Based on Multiple Linear Regression and PLS Methods for the Anti-HIV Activity of a Large Group of HEPT Derivatives , 1997, J. Chem. Inf. Comput. Sci..

[40]  Johann Gasteiger,et al.  Neural networks in chemistry and drug design , 1999 .

[41]  H. Issaq,et al.  Peptide mapping by capillary zone electrophoresis: how close is theoretical simulation to experimental determination. , 2001, Journal of chromatography. A.

[42]  B. J. Compton,et al.  Electrophoretic mobility modeling of proteins in free zone capillary electrophoresis and its application to monoclonal antibody microheterogeneity analysis , 1991 .

[43]  J. Bennett,et al.  Furanyl-1,3-thiazol-2-yl and benzoxazol-5-yl acetic acid derivatives: novel classes of heparanase inhibitor. , 2005, Bioorganic & medicinal chemistry letters.

[44]  M. Jalali-Heravi,et al.  Prediction of electrophoretic mobilities of sulfonamides in capillary zone electrophoresis using artificial neural networks. , 2001, Journal of chromatography. A.

[45]  Stanley D. Stearns,et al.  Multiple detector responses for gas chromatography peak identification , 1998 .

[46]  J. Meiler,et al.  Using neural networks for (13)c NMR chemical shift prediction-comparison with traditional methods. , 2002, Journal of magnetic resonance.

[47]  Richard P. Lippmann,et al.  An introduction to computing with neural nets , 1987 .

[48]  Anahita Kyani,et al.  Application of genetic algorithm-kernel partial least square as a novel nonlinear feature selection method: activity of carbonic anhydrase II inhibitors. , 2007, European journal of medicinal chemistry.

[49]  W. McCulloch,et al.  The limiting information capacity of a neuronal link , 1952 .

[50]  Mehdi Jalali-Heravi,et al.  Use of Artificial Neural Networks in a QSAR Study of Anti-HIV Activity for a Large Group of HEPT Derivatives , 2000, J. Chem. Inf. Comput. Sci..

[51]  Xin-Hua Song,et al.  Source Apportionment of Soil Samples by the Combination of Two Neural Networks Based on Computer-Controlled Scanning Electron Microscopy. , 1999, Journal of the Air & Waste Management Association.

[52]  Jens Meiler,et al.  Automated Structure Elucidation of Organic Molecules from 13C NMR Spectra Using Genetic Algorithms and Neural Networks , 2001, J. Chem. Inf. Comput. Sci..

[53]  J. Yates,et al.  Direct analysis of protein complexes using mass spectrometry , 1999, Nature Biotechnology.

[54]  K. D. Asmus R. W. Taft (Ed.): Progress in Physical Organic Chemistry, Vol. 15, J. Wiley and Sons, New York, Chichester, Brisbane, Toronto, Singapore 1985. 362 Seiten, Preis: £ 71.‐. , 1986 .

[55]  J. Yates,et al.  Large-scale analysis of the yeast proteome by multidimensional protein identification technology , 2001, Nature Biotechnology.

[56]  Martin T. Hagan,et al.  Neural network design , 1995 .

[57]  T. Nagem,et al.  Tetraoxygenated Naturally Occurring Xanthones , 2001 .

[58]  M. Götte,et al.  Functions of cell surface heparan sulfate proteoglycans. , 1999, Annual review of biochemistry.

[59]  Johann Gasteiger,et al.  Neural Networks for Chemists: An Introduction , 1993 .

[60]  I. Vlodavsky,et al.  Molecular properties and involvement of heparanase in cancer progression and normal development. , 2001, Biochimie.

[61]  M. Jalali-Heravi,et al.  Artificial neural network modeling of Kováts retention indices for noncyclic and monocyclic terpenes. , 2001, Journal of chromatography. A.

[62]  M. Jalali-Heravi,et al.  Principal Component Analysis-Ranking as a Variable Selection Method for the Simulation of13C Nuclear Magnetic Resonance Spectra of Xanthones Using Artificial Neural Networks , 2007 .

[63]  H. Issaq,et al.  Peptide mobility and peptide mapping in capillary zone electrophoresis. Experimental determination and theoretical simulation. , 1999, Journal of chromatography. A.

[64]  R T Walker,et al.  Synthesis and antiviral activity of deoxy analogs of 1-[(2-hydroxyethoxy)methyl]-6-(phenylthio)thymine (HEPT) as potent and selective anti-HIV-1 agents. , 1992, Journal of medicinal chemistry.

[65]  J. Meiler,et al.  Genius: a genetic algorithm for automated structure elucidation from 13C NMR spectra. , 2002, Journal of the American Chemical Society.

[66]  G. Melagraki,et al.  QSAR study on para-substituted aromatic sulfonamides as carbonic anhydrase II inhibitors using topological information indices. , 2006, Bioorganic & medicinal chemistry.