Literature DB >> 31897520

Leveraging complementary computational models for prioritizing chemicals of developmental and reproductive toxicity concern: an example of food contact materials.

Chun-Wei Tung1,2, Hsien-Jen Cheng3, Chia-Chi Wang4, Shan-Shan Wang5, Pinpin Lin6.   

Abstract

The evaluation of developmental and reproductive toxicity of food contact materials (FCMs) is an important task for food safety. Since traditional experiments are both time-consuming and labor-intensive, only a small number of FCMs have sufficient toxicological data for evaluating their effects on human health. While computational methods such as structural alerts and quantitative structure-activity relationships can serve as first-line tools for the identification of chemicals of high toxicity concern, models with binary outputs and unsatisfied accuracy and coverage prevent the use of computational methods for prioritizing chemicals of high concern. This study proposed a genetic algorithm-based method to develop a weight-of-evidence (WoE) model leveraging complementary methods of structural alerts, quantitative structure-activity relationships and in silico toxicogenomics models for chemical prioritization. The WoE model was applied to evaluate 623 food contact chemicals and identify 26 chemicals of high toxicity concern, where 13 chemicals have been reported to be developmental or reproductive toxic and further experiments are suggested for the remaining 13 chemicals without toxicity data related to developmental and reproductive effects. The proposed WoE model is potentially useful for prioritizing chemicals of high toxicity concern and the methodology may be applied to toxicities other than developmental and reproductive toxicity.

Entities:  

Keywords:  Alternative method; Developmental and reproductive toxicity; Food contact materials; Genetic algorithm; Toxicogenomics; Weight of evidence

Mesh:

Year:  2020        PMID: 31897520     DOI: 10.1007/s00204-019-02641-0

Source DB:  PubMed          Journal:  Arch Toxicol        ISSN: 0340-5761            Impact factor:   5.153


  25 in total

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Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  Food contamination with organic materials in perspective: packaging materials as the largest and least controlled source? A view focusing on the European situation.

Authors:  Koni Grob; Maurus Biedermann; Ellen Scherbaum; Maria Roth; Karl Rieger
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3.  Validation of Toxtree and SciQSAR in silico predictive software using a publicly available benchmark mutagenicity database and their applicability for the qualification of impurities in pharmaceuticals.

Authors:  Joseph F Contrera
Journal:  Regul Toxicol Pharmacol       Date:  2013-08-19       Impact factor: 3.271

4.  Optimizing predictive performance of CASE Ultra expert system models using the applicability domains of individual toxicity alerts.

Authors:  Suman K Chakravarti; Roustem D Saiakhov; Gilles Klopman
Journal:  J Chem Inf Model       Date:  2012-09-18       Impact factor: 4.956

5.  CAESAR models for developmental toxicity.

Authors:  Antonio Cassano; Alberto Manganaro; Todd Martin; Douglas Young; Nadège Piclin; Marco Pintore; Davide Bigoni; Emilio Benfenati
Journal:  Chem Cent J       Date:  2010-07-29       Impact factor: 4.215

Review 6.  The utility of structure-activity relationship (SAR) models for prediction and covariate selection in developmental toxicity: comparative analysis of logistic regression and decision tree models.

Authors:  V C Arena; N B Sussman; S Mazumdar; S Yu; O T Macina
Journal:  SAR QSAR Environ Res       Date:  2004-02       Impact factor: 3.000

7.  Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database.

Authors:  Allan Peter Davis; Thomas C Wiegers; Benjamin L King; Jolene Wiegers; Cynthia J Grondin; Daniela Sciaky; Robin J Johnson; Carolyn J Mattingly
Journal:  PLoS One       Date:  2016-05-12       Impact factor: 3.240

8.  The Reactome Pathway Knowledgebase.

Authors:  Antonio Fabregat; Steven Jupe; Lisa Matthews; Konstantinos Sidiropoulos; Marc Gillespie; Phani Garapati; Robin Haw; Bijay Jassal; Florian Korninger; Bruce May; Marija Milacic; Corina Duenas Roca; Karen Rothfels; Cristoffer Sevilla; Veronica Shamovsky; Solomon Shorser; Thawfeek Varusai; Guilherme Viteri; Joel Weiser; Guanming Wu; Lincoln Stein; Henning Hermjakob; Peter D'Eustachio
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

9.  Improved protein contact predictions with the MetaPSICOV2 server in CASP12.

Authors:  Daniel W A Buchan; David T Jones
Journal:  Proteins       Date:  2017-09-29

10.  The Comparative Toxicogenomics Database: update 2019.

Authors:  Allan Peter Davis; Cynthia J Grondin; Robin J Johnson; Daniela Sciaky; Roy McMorran; Jolene Wiegers; Thomas C Wiegers; Carolyn J Mattingly
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

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  6 in total

1.  In silico prediction of parkinsonian motor deficits-related neurotoxicants based on the adverse outcome pathway concept.

Authors:  Hung-Lin Kan; Chun-Wei Tung; Shao-En Chang; Ying-Chi Lin
Journal:  Arch Toxicol       Date:  2022-09-29       Impact factor: 6.168

2.  Joint impact of key air pollutants on COVID-19 severity: prediction based on toxicogenomic data analysis.

Authors:  Danijela Đukić-Ćosić; Katarina Baralić; Teodora Filipović; Dragica Božić; Katarina Živančević; Evica Antonijević Miljaković; Aleksandra Buha Đorđević; Zorica Bulat; Biljana Antonijević; Marijana Ćurčić
Journal:  Arh Hig Rada Toksikol       Date:  2022-07-07       Impact factor: 2.078

3.  Prediction of human fetal-maternal blood concentration ratio of chemicals.

Authors:  Chia-Chi Wang; Pinpin Lin; Che-Yu Chou; Shan-Shan Wang; Chun-Wei Tung
Journal:  PeerJ       Date:  2020-07-21       Impact factor: 2.984

4.  The rapid development of computational toxicology.

Authors:  Hermann M Bolt; Jan G Hengstler
Journal:  Arch Toxicol       Date:  2020-05-07       Impact factor: 5.153

5.  Curation of cancer hallmark-based genes and pathways for in silico characterization of chemical carcinogenesis.

Authors:  Peir-In Liang; Chia-Chi Wang; Hsien-Jen Cheng; Shan-Shan Wang; Ying-Chi Lin; Pinpin Lin; Chun-Wei Tung
Journal:  Database (Oxford)       Date:  2020-01-01       Impact factor: 3.451

6.  Safety assessment of drug combinations used in COVID-19 treatment: in silico toxicogenomic data-mining approach.

Authors:  Katarina Baralić; Dragica Jorgovanović; Katarina Živančević; Evica Antonijević Miljaković; Biljana Antonijević; Aleksandra Buha Djordjevic; Marijana Ćurčić; Danijela Đukić-Ćosić
Journal:  Toxicol Appl Pharmacol       Date:  2020-09-11       Impact factor: 4.219

  6 in total

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