Literature DB >> 17405109

Computational chemistry development of a unified free energy Markov model for the distribution of 1300 chemicals to 38 different environmental or biological systems.

Maykel Cruz-Monteagudo1, Humberto González-Díaz, Guillermín Agüero-Chapín, Lourdes Santana, Fernanda Borges, Elena Rosa Domínguez, Gianni Podda, Eugenio Uriarte.   

Abstract

Predicting tissue and environmental distribution of chemicals is of major importance for environmental and life sciences. Most of the molecular descriptors used in computational prediction of chemicals partition behavior consider molecular structure but ignore the nature of the partition system. Consequently, computational models derived up-to-date are restricted to the specific system under study. Here, a free energy-based descriptor (DeltaG(k)) is introduced, which circumvent this problem. Based on DeltaG(k), we developed for the first time a single linear classification model to predict the partition behavior of a broad number of structurally diverse drugs and other chemicals (1300) for 38 different partition systems of biological and environmental significance. The model presented training/predicting set accuracies of 91.79/88.92%. Parametrical assumptions were checked. Desirability analysis was used to explore the levels of the predictors that produce the most desirable partition properties. Finally, inversion of the partition direction for each one of the 38 partition systems evidences that our models correctly classified 89.08% of compounds with an uncertainty of only +/-0.17% independently of the direction of the partition process used to seek the model. Other 10 different classification models (linear, neural networks, and genetic algorithms) were also tested for the same purposes. None of these computational models favorably compare with respect to the linear model indicating that our approach capture the main aspects that govern chemicals partition in different systems.

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Year:  2007        PMID: 17405109     DOI: 10.1002/jcc.20730

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  6 in total

1.  Study of peptide fingerprints of parasite proteins and drug-DNA interactions with Markov-Mean-Energy invariants of biopolymer molecular-dynamic lattice networks.

Authors:  Lázaro Guillermo Pérez-Montoto; María Auxiliadora Dea-Ayuela; Francisco J Prado-Prado; Francisco Bolas-Fernández; Florencio M Ubeira; Humberto González-Díaz
Journal:  Polymer (Guildf)       Date:  2009-06-03       Impact factor: 4.430

2.  Benzylidene/2-chlorobenzylidene hydrazides: synthesis, antimicrobial activity, QSAR studies and antiviral evaluation.

Authors:  Davinder Kumar; Vikramjeet Judge; Rakesh Narang; Sonia Sangwan; Erik De Clercq; Jan Balzarini; Balasubramanian Narasimhan
Journal:  Eur J Med Chem       Date:  2010-03-07       Impact factor: 6.514

3.  4-[1-(Substituted aryl/alkyl carbonyl)-benzoimidazol-2-yl]-benzenesulfonic acids: synthesis, antimicrobial activity, QSAR studies, and antiviral evaluation.

Authors:  Snehlata Yadav; Pradeep Kumar; Erik De Clercq; Jan Balzarini; Christophe Pannecouque; Sharwan Kumar Dewan; Balasubramanian Narasimhan
Journal:  Eur J Med Chem       Date:  2010-10-07       Impact factor: 6.514

4.  N'-[4-[(Substituted imino)methyl]benzylidene]-substituted benzohydrazides: synthesis, antimicrobial, antiviral, and anticancer evaluation, and QSAR studies.

Authors:  Pradeep Kumar; Balasubramanian Narasimhan; Kalavathy Ramasamy; Vasudevan Mani; Rakesh Kumar Mishra; Abu Bakar Abdul Majeed; Erik De Clercq
Journal:  Monatsh Chem       Date:  2012-12-01       Impact factor: 1.451

5.  Simulating ATO Mechanism and EGFR Signaling with Fuzzy Logic and Petri Net.

Authors:  Sajad Shafiekhani; Arash Poursheykhani; Sara Rahbar; Amir Homayoun Jafari
Journal:  J Biomed Phys Eng       Date:  2021-06-01

6.  Scoring function for DNA-drug docking of anticancer and antiparasitic compounds based on spectral moments of 2D lattice graphs for molecular dynamics trajectories.

Authors:  Lázaro G Pérez-Montoto; Lourdes Santana; Humberto González-Díaz
Journal:  Eur J Med Chem       Date:  2009-06-17       Impact factor: 6.514

  6 in total

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