Literature DB >> 33856768

Designing QSARs for Parameters of High-Throughput Toxicokinetic Models Using Open-Source Descriptors.

Daniel E Dawson1, Brandall L Ingle2, Katherine A Phillips1, John W Nichols1, John F Wambaugh1, Rogelio Tornero-Velez1.   

Abstract

The intrinsic metabolic clearance rate (Clint) and the fraction of the chemical unbound in plasma (fup) serve as important parameters for high-throughput toxicokinetic (TK) models, but experimental data are limited for many chemicals. Open-source quantitative structure-activity relationship (QSAR) models for both parameters were developed to offer reliable in silico predictions for a diverse set of chemicals regulated under the U.S. law, including pharmaceuticals, pesticides, and industrial chemicals. As a case study to demonstrate their utility, model predictions served as inputs to the TK component of a risk-based prioritization approach based on bioactivity/exposure ratios (BERs), in which a BER < 1 indicates that exposures are predicted to exceed a biological activity threshold. When applied to a subset of the Tox21 screening library (6484 chemicals), we found that the proportion of chemicals with BER <1 was similar using either in silico (1133/6484; 17.5%) or in vitro (148/848; 17.5%) parameters. Further, when considering only the chemicals in the Tox21 set with in vitro data, there was a high concordance of chemicals classified with either BER <1 or >1 using either in silico or in vitro parameters (767/848, 90.4%). Thus, the presented QSARs may be suitable for prioritizing the risk posed by many chemicals for which measured in vitro TK data are lacking.

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Year:  2021        PMID: 33856768      PMCID: PMC8548983          DOI: 10.1021/acs.est.0c06117

Source DB:  PubMed          Journal:  Environ Sci Technol        ISSN: 0013-936X            Impact factor:   9.028


  61 in total

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Journal:  Mol Divers       Date:  2002       Impact factor: 2.943

2.  Comparison of the use of liver models for predicting drug clearance using in vitro kinetic data from hepatic microsomes and isolated hepatocytes.

Authors:  Kiyomi Ito; J Brian Houston
Journal:  Pharm Res       Date:  2004-05       Impact factor: 4.200

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Authors:  Sandra Coecke; Olavi Pelkonen; Sofia Batista Leite; Ulrike Bernauer; Jos Gm Bessems; Frederic Y Bois; Ursula Gundert-Remy; George Loizou; Emanuela Testai; José-Manuel Zaldívar
Journal:  Toxicol In Vitro       Date:  2012-07-04       Impact factor: 3.500

4.  Prediction of human metabolic clearance from in vitro systems: retrospective analysis and prospective view.

Authors:  David Hallifax; Joanne A Foster; J Brian Houston
Journal:  Pharm Res       Date:  2010-07-27       Impact factor: 4.200

5.  Predicting Clearance Mechanism in Drug Discovery: Extended Clearance Classification System (ECCS).

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Journal:  Pharm Res       Date:  2015-07-09       Impact factor: 4.200

6.  New publicly available chemical query language, CSRML, to support chemotype representations for application to data mining and modeling.

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Journal:  J Chem Inf Model       Date:  2015-02-19       Impact factor: 4.956

7.  QSAR modeling of human serum protein binding with several modeling techniques utilizing structure-information representation.

Authors:  Joseph R Votano; Marc Parham; L Mark Hall; Lowell H Hall; Lemont B Kier; Scott Oloff; Alexander Tropsha
Journal:  J Med Chem       Date:  2006-11-30       Impact factor: 7.446

8.  Assessing Toxicokinetic Uncertainty and Variability in Risk Prioritization.

Authors:  John F Wambaugh; Barbara A Wetmore; Caroline L Ring; Chantel I Nicolas; Robert G Pearce; Gregory S Honda; Roger Dinallo; Derek Angus; Jon Gilbert; Teresa Sierra; Akshay Badrinarayanan; Bradley Snodgrass; Adam Brockman; Chris Strock; R Woodrow Setzer; Russell S Thomas
Journal:  Toxicol Sci       Date:  2019-12-01       Impact factor: 4.849

9.  Prediction of Oral Pharmacokinetics Using a Combination of In Silico Descriptors and In Vitro ADME Properties.

Authors:  Yohei Kosugi; Natalie Hosea
Journal:  Mol Pharm       Date:  2021-01-29       Impact factor: 4.939

10.  The ChEMBL bioactivity database: an update.

Authors:  A Patrícia Bento; Anna Gaulton; Anne Hersey; Louisa J Bellis; Jon Chambers; Mark Davies; Felix A Krüger; Yvonne Light; Lora Mak; Shaun McGlinchey; Michal Nowotka; George Papadatos; Rita Santos; John P Overington
Journal:  Nucleic Acids Res       Date:  2013-11-07       Impact factor: 16.971

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  6 in total

1.  Scientific Opinion of the Scientific Panel on Plant Protection Products and their Residues (PPR Panel) on testing and interpretation of comparative in vitro metabolism studies.

Authors:  Antonio F Hernandez-Jerez; Paulien Adriaanse; Annette Aldrich; Philippe Berny; Tamara Coja; Sabine Duquesne; Andreas Focks; Marina Marinovich; Maurice Millet; Olavi Pelkonen; Silvia Pieper; Aaldrik Tiktak; Christopher J Topping; Anneli Widenfalk; Martin Wilks; Gerrit Wolterink; Ursula Gundert-Remy; Jochem Louisse; Serge Rudaz; Emanuela Testai; Alfonso Lostia; Jean-Lou Dorne; Juan Manuel Parra Morte
Journal:  EFSA J       Date:  2021-12-23

2.  Towards best use and regulatory acceptance of generic physiologically based kinetic (PBK) models for in vitro-to-in vivo extrapolation (IVIVE) in chemical risk assessment.

Authors:  Abdulkarim Najjar; Ans Punt; John Wambaugh; Alicia Paini; Corie Ellison; Styliani Fragki; Enrica Bianchi; Fagen Zhang; Joost Westerhout; Dennis Mueller; Hequn Li; Quan Shi; Timothy W Gant; Phil Botham; Rémi Bars; Aldert Piersma; Ben van Ravenzwaay; Nynke I Kramer
Journal:  Arch Toxicol       Date:  2022-09-05       Impact factor: 6.168

Review 3.  Considerations for Improving Metabolism Predictions for In Vitro to In Vivo Extrapolation.

Authors:  Marjory Moreau; Pankajini Mallick; Marci Smeltz; Saad Haider; Chantel I Nicolas; Salil N Pendse; Jeremy A Leonard; Matthew W Linakis; Patrick D McMullen; Rebecca A Clewell; Harvey J Clewell; Miyoung Yoon
Journal:  Front Toxicol       Date:  2022-04-29

4.  Opportunities and challenges related to saturation of toxicokinetic processes: Implications for risk assessment.

Authors:  Yu-Mei Tan; Hugh A Barton; Alan Boobis; Rachel Brunner; Harvey Clewell; Rhian Cope; Jeffrey Dawson; Jeanne Domoradzki; Peter Egeghy; Pankaj Gulati; Brandall Ingle; Nicole Kleinstreuer; Kelly Lowe; Anna Lowit; Elizabeth Mendez; David Miller; Jeffrey Minucci; James Nguyen; Alicia Paini; Monique Perron; Katherine Phillips; Hua Qian; Tharacad Ramanarayanan; Fiona Sewell; Philip Villanueva; John Wambaugh; Michelle Embry
Journal:  Regul Toxicol Pharmacol       Date:  2021-10-28       Impact factor: 3.598

Review 5.  IVIVE: Facilitating the Use of In Vitro Toxicity Data in Risk Assessment and Decision Making.

Authors:  Xiaoqing Chang; Yu-Mei Tan; David G Allen; Shannon Bell; Paul C Brown; Lauren Browning; Patricia Ceger; Jeffery Gearhart; Pertti J Hakkinen; Shruti V Kabadi; Nicole C Kleinstreuer; Annie Lumen; Joanna Matheson; Alicia Paini; Heather A Pangburn; Elijah J Petersen; Emily N Reinke; Alexandre J S Ribeiro; Nisha Sipes; Lisa M Sweeney; John F Wambaugh; Ronald Wange; Barbara A Wetmore; Moiz Mumtaz
Journal:  Toxics       Date:  2022-05-01

Review 6.  Quo vadis blood protein adductomics?

Authors:  Gabriele Sabbioni; Billy W Day
Journal:  Arch Toxicol       Date:  2021-11-13       Impact factor: 5.153

  6 in total

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