Literature DB >> 21426164

Per aspera ad astra: application of Simplex QSAR approach in antiviral research.

Eugene N Muratov1, Anatoly G Artemenko, Ekaterina V Varlamova, Pavel G Polischuk, Victor P Lozitsky, Alla S Fedchuk, Regina L Lozitska, Tat'yana L Gridina, Ludmila S Koroleva, Vladimir N Sil'nikov, Angel S Galabov, Vadim A Makarov, Olga B Riabova, Peter Wutzler, Michaela Schmidtke, Victor E Kuz'min.   

Abstract

This review explores the application of the Simplex representation of molecular structure (SiRMS) QSAR approach in antiviral research. We provide an introduction to and description of SiRMS, its application in antiviral research and future directions of development of the Simplex approach and the whole QSAR field. In the Simplex approach every molecule is represented as a system of different simplexes (tetratomic fragments with fixed composition, structure, chirality and symmetry). The main advantages of SiRMS are consideration of the different physical-chemical properties of atoms, high adequacy and good interpretability of models obtained and clear procedures for molecular design. The reliability of developed QSAR models as predictive virtual screening tools and their ability to serve as the basis of directed drug design was validated by subsequent synthetic and biological experiments. The SiRMS approach is realized as the complex of the computer program 'HiT QSAR', which is available on request.

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Year:  2010        PMID: 21426164     DOI: 10.4155/fmc.10.194

Source DB:  PubMed          Journal:  Future Med Chem        ISSN: 1756-8919            Impact factor:   3.808


  17 in total

Review 1.  QSAR without borders.

Authors:  Eugene N Muratov; Jürgen Bajorath; Robert P Sheridan; Igor V Tetko; Dmitry Filimonov; Vladimir Poroikov; Tudor I Oprea; Igor I Baskin; Alexandre Varnek; Adrian Roitberg; Olexandr Isayev; Stefano Curtarolo; Denis Fourches; Yoram Cohen; Alan Aspuru-Guzik; David A Winkler; Dimitris Agrafiotis; Artem Cherkasov; Alexander Tropsha
Journal:  Chem Soc Rev       Date:  2020-05-01       Impact factor: 54.564

2.  QSAR modeling: where have you been? Where are you going to?

Authors:  Artem Cherkasov; Eugene N Muratov; Denis Fourches; Alexandre Varnek; Igor I Baskin; Mark Cronin; John Dearden; Paola Gramatica; Yvonne C Martin; Roberto Todeschini; Viviana Consonni; Victor E Kuz'min; Richard Cramer; Romualdo Benigni; Chihae Yang; James Rathman; Lothar Terfloth; Johann Gasteiger; Ann Richard; Alexander Tropsha
Journal:  J Med Chem       Date:  2014-01-06       Impact factor: 7.446

3.  Computer-Aided Discovery and Characterization of Novel Ebola Virus Inhibitors.

Authors:  Stephen J Capuzzi; Wei Sun; Eugene N Muratov; Carles Martínez-Romero; Shihua He; Wenjun Zhu; Hao Li; Gregory Tawa; Ethan G Fisher; Miao Xu; Paul Shinn; Xiangguo Qiu; Adolfo García-Sastre; Wei Zheng; Alexander Tropsha
Journal:  J Med Chem       Date:  2018-04-17       Impact factor: 7.446

4.  QSAR analysis of the toxicity of nitroaromatics in Tetrahymena pyriformis: structural factors and possible modes of action.

Authors:  A G Artemenko; E N Muratov; V E Kuz'min; N N Muratov; E V Varlamova; A V Kuz'mina; L G Gorb; A Golius; F C Hill; J Leszczynski; A Tropsha
Journal:  SAR QSAR Environ Res       Date:  2011-06-30       Impact factor: 3.000

5.  Predicting chemically-induced skin reactions. Part I: QSAR models of skin sensitization and their application to identify potentially hazardous compounds.

Authors:  Vinicius M Alves; Eugene Muratov; Denis Fourches; Judy Strickland; Nicole Kleinstreuer; Carolina H Andrade; Alexander Tropsha
Journal:  Toxicol Appl Pharmacol       Date:  2015-01-03       Impact factor: 4.219

6.  Alarms about structural alerts.

Authors:  Vinicius Alves; Eugene Muratov; Stephen Capuzzi; Regina Politi; Yen Low; Rodolpho Braga; Alexey V Zakharov; Alexander Sedykh; Elena Mokshyna; Sherif Farag; Carolina Andrade; Victor Kuz'min; Denis Fourches; Alexander Tropsha
Journal:  Green Chem       Date:  2016-06-28       Impact factor: 10.182

7.  Predicting binding affinity of CSAR ligands using both structure-based and ligand-based approaches.

Authors:  Denis Fourches; Eugene Muratov; Feng Ding; Nikolay V Dokholyan; Alexander Tropsha
Journal:  J Chem Inf Model       Date:  2013-07-17       Impact factor: 4.956

8.  Short communication: cheminformatics analysis to identify predictors of antiviral drug penetration into the female genital tract.

Authors:  Corbin G Thompson; Alexander Sedykh; Melanie R Nicol; Eugene Muratov; Denis Fourches; Alexander Tropsha; Angela D M Kashuba
Journal:  AIDS Res Hum Retroviruses       Date:  2014-03-13       Impact factor: 2.205

9.  Multi-Descriptor Read Across (MuDRA): A Simple and Transparent Approach for Developing Accurate Quantitative Structure-Activity Relationship Models.

Authors:  Vinicius M Alves; Alexander Golbraikh; Stephen J Capuzzi; Kammy Liu; Wai In Lam; Daniel Robert Korn; Diane Pozefsky; Carolina Horta Andrade; Eugene N Muratov; Alexander Tropsha
Journal:  J Chem Inf Model       Date:  2018-06-13       Impact factor: 4.956

10.  Predicting drug-induced hepatotoxicity using QSAR and toxicogenomics approaches.

Authors:  Yen Low; Takeki Uehara; Yohsuke Minowa; Hiroshi Yamada; Yasuo Ohno; Tetsuro Urushidani; Alexander Sedykh; Eugene Muratov; Viktor Kuz'min; Denis Fourches; Hao Zhu; Ivan Rusyn; Alexander Tropsha
Journal:  Chem Res Toxicol       Date:  2011-07-21       Impact factor: 3.739

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