Literature DB >> 21541967

QSAR model reproducibility and applicability: a case study of rate constants of hydroxyl radical reaction models applied to polybrominated diphenyl ethers and (benzo-)triazoles.

Partha Pratim Roy1, Simona Kovarich, Paola Gramatica.   

Abstract

The crucial importance of the three central OECD principles for quantitative structure-activity relationship (QSAR) model validation is highlighted in a case study of tropospheric degradation of volatile organic compounds (VOCs) by OH, applied to two CADASTER chemical classes (PBDEs and (benzo-)triazoles). The application of any QSAR model to chemicals without experimental data largely depends on model reproducibility by the user. The reproducibility of an unambiguous algorithm (OECD Principle 2) is guaranteed by redeveloping MLR models based on both updated version of DRAGON software for molecular descriptors calculation and some freely available online descriptors. The Genetic Algorithm has confirmed its ability to always select the most informative descriptors independently on the input pool of variables. The ability of the GA-selected descriptors to model chemicals not used in model development is verified by three different splittings (random by response, K-ANN and K-means clustering), thus ensuring the external predictivity of the new models, independently of the training/prediction set composition (OECD Principle 5). The relevance of checking the structural applicability domain becomes very evident on comparing the predictions for CADASTER chemicals, using the new models proposed herein, with those obtained by EPI Suite.
Copyright © 2011 Wiley Periodicals, Inc.

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Year:  2011        PMID: 21541967     DOI: 10.1002/jcc.21820

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


  10 in total

1.  Modeling the pH and temperature dependence of aqueousphase hydroxyl radical reaction rate constants of organic micropollutants using QSPR approach.

Authors:  Shikha Gupta; Nikita Basant
Journal:  Environ Sci Pollut Res Int       Date:  2017-09-16       Impact factor: 4.223

2.  Modeling the reactivities of hydroxyl radical and ozone towards atmospheric organic chemicals using quantitative structure-reactivity relationship approaches.

Authors:  Shikha Gupta; Nikita Basant; Dinesh Mohan; Kunwar P Singh
Journal:  Environ Sci Pollut Res Int       Date:  2016-04-04       Impact factor: 4.223

3.  In silico local QSAR modeling of bioconcentration factor of organophosphate pesticides.

Authors:  Purusottam Banjare; Balaji Matore; Jagadish Singh; Partha Pratim Roy
Journal:  In Silico Pharmacol       Date:  2021-04-04

4.  Target Specific Inhibition of Protein Tyrosine Kinase in Conjunction With Cancer and SARS-COV-2 by Olive Nutraceuticals.

Authors:  Arabinda Ghosh; Nobendu Mukerjee; Bhavdeep Sharma; Anushree Pant; Yugal Kishore Mohanta; Rahul D Jawarkar; Ravindrakumar L Bakal; Ermias Mergia Terefe; Gaber El-Saber Batiha; Gomaa Mostafa-Hedeab; Nisreen Khalid Aref Albezrah; Abhijit Dey; Debabrat Baishya
Journal:  Front Pharmacol       Date:  2022-03-08       Impact factor: 5.810

5.  Mechanistic Analysis of Chemically Diverse Bromodomain-4 Inhibitors Using Balanced QSAR Analysis and Supported by X-ray Resolved Crystal Structures.

Authors:  Magdi E A Zaki; Sami A Al-Hussain; Aamal A Al-Mutairi; Vijay H Masand; Abdul Samad; Rahul D Jawarkar
Journal:  Pharmaceuticals (Basel)       Date:  2022-06-14

6.  QSAR Evaluations to Unravel the Structural Features in Lysine-Specific Histone Demethylase 1A Inhibitors for Novel Anticancer Lead Development Supported by Molecular Docking, MD Simulation and MMGBSA.

Authors:  Rahul D Jawarkar; Ravindra L Bakal; Nobendu Mukherjee; Arabinda Ghosh; Magdi E A Zaki; Sami A Al-Hussain; Aamal A Al-Mutairi; Abdul Samad; Ajaykumar Gandhi; Vijay H Masand
Journal:  Molecules       Date:  2022-07-25       Impact factor: 4.927

7.  Prediction of acute mammalian toxicity using QSAR methods: a case study of sulfur mustard and its breakdown products.

Authors:  Patricia Ruiz; Gino Begluitti; Terry Tincher; John Wheeler; Moiz Mumtaz
Journal:  Molecules       Date:  2012-07-27       Impact factor: 4.411

Review 8.  QSPR/QSAR: State-of-Art, Weirdness, the Future.

Authors:  Andrey A Toropov; Alla P Toropova
Journal:  Molecules       Date:  2020-03-12       Impact factor: 4.411

9.  QSAR and Pharmacophore Modeling of Nitrogen Heterocycles as Potent Human N-Myristoyltransferase (Hs-NMT) Inhibitors.

Authors:  Magdi E A Zaki; Sami A Al-Hussain; Vijay H Masand; Siddhartha Akasapu; Israa Lewaa
Journal:  Molecules       Date:  2021-03-24       Impact factor: 4.411

10.  QSARINS-Chem standalone version: A new platform-independent software to profile chemicals for physico-chemical properties, fate, and toxicity.

Authors:  Nicola Chirico; Alessandro Sangion; Paola Gramatica; Linda Bertato; Ilaria Casartelli; Ester Papa
Journal:  J Comput Chem       Date:  2021-05-11       Impact factor: 3.376

  10 in total

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