Literature DB >> 30534632

Optimal Chemical Grouping and Sorbent Material Design by Data Analysis, Modeling and Dimensionality Reduction Techniques.

Melis Onel1,2, Burcu Beykal1,2, Meichen Wang3, Fabian A Grimm3, Lan Zhou4, Fred A Wright5, Timothy D Phillips3, Ivan Rusyn3, Efstratios N Pistikopoulos1,2.   

Abstract

The ultimate goal of the Texas A&M Superfund program is to develop comprehensive tools and models for addressing exposure to chemical mixtures during environmental emergency-related contamination events. With that goal, we aim to design a framework for optimal grouping of chemical mixtures based on their chemical characteristics and bioactivity properties, and facilitate comparative assessment of their human health impacts through read-across. The optimal clustering of the chemical mixtures guides the selection of sorption material in such a way that the adverse health effects of each group are mitigated. Here, we perform (i) hierarchical clustering of complex substances using chemical and biological data, and (ii) predictive modeling of the sorption activity of broad-acting materials via regression techniques. Dimensionality reduction techniques are also incorporated to further improve the results. We adopt several recent examples of chemical substances of Unknown or Variable composition Complex reaction products and Biological materials (UVCB) as benchmark complex substances, where the grouping of them is optimized by maximizing the Fowlkes-Mallows (FM) index. The effect of clustering method and different visualization techniques are shown to influence the communication of the groupings for read-across.

Entities:  

Keywords:  Clustering; dimensionality reduction; predictive modeling; read-across

Year:  2018        PMID: 30534632      PMCID: PMC6284807          DOI: 10.1016/B978-0-444-64235-6.50076-0

Source DB:  PubMed          Journal:  ESCAPE


  3 in total

1.  Grouping of Petroleum Substances as Example UVCBs by Ion Mobility-Mass Spectrometry to Enable Chemical Composition-Based Read-Across.

Authors:  Fabian A Grimm; William K Russell; Yu-Syuan Luo; Yasuhiro Iwata; Weihsueh A Chiu; Tim Roy; Peter J Boogaard; Hans B Ketelslegers; Ivan Rusyn
Journal:  Environ Sci Technol       Date:  2017-05-26       Impact factor: 9.028

Review 2.  Reducing human exposure to aflatoxin through the use of clay: a review.

Authors:  T D Phillips; E Afriyie-Gyawu; J Williams; H Huebner; N-A Ankrah; D Ofori-Adjei; P Jolly; N Johnson; J Taylor; A Marroquin-Cardona; L Xu; L Tang; J-S Wang
Journal:  Food Addit Contam Part A Chem Anal Control Expo Risk Assess       Date:  2008-02

3.  A chemical-biological similarity-based grouping of complex substances as a prototype approach for evaluating chemical alternatives.

Authors:  Fabian A Grimm; Yasuhiro Iwata; Oksana Sirenko; Grace A Chappell; Fred A Wright; David M Reif; John Braisted; David L Gerhold; Joanne M Yeakley; Peter Shepard; Bruce Seligmann; Tim Roy; Peter J Boogaard; Hans B Ketelslegers; Arlean M Rohde; Ivan Rusyn
Journal:  Green Chem       Date:  2016-05-16       Impact factor: 10.182

  3 in total
  4 in total

1.  Development of the Texas A&M Superfund Research Program Computational Platform for Data Integration, Visualization, and Analysis.

Authors:  Rajib Mukherjee; Melis Onel; Burcu Beykal; Adam T Szafran; Fabio Stossi; Michael A Mancini; Lan Zhou; Fred A Wright; Efstratios N Pistikopoulos
Journal:  ESCAPE       Date:  2019-07-25

2.  Grouping of complex substances using analytical chemistry data: A framework for quantitative evaluation and visualization.

Authors:  Melis Onel; Burcu Beykal; Kyle Ferguson; Weihsueh A Chiu; Thomas J McDonald; Lan Zhou; John S House; Fred A Wright; David A Sheen; Ivan Rusyn; Efstratios N Pistikopoulos
Journal:  PLoS One       Date:  2019-10-10       Impact factor: 3.240

3.  Classification of estrogenic compounds by coupling high content analysis and machine learning algorithms.

Authors:  Rajib Mukherjee; Burcu Beykal; Adam T Szafran; Melis Onel; Fabio Stossi; Maureen G Mancini; Dillon Lloyd; Fred A Wright; Lan Zhou; Michael A Mancini; Efstratios N Pistikopoulos
Journal:  PLoS Comput Biol       Date:  2020-09-24       Impact factor: 4.475

4.  Predicting the Estrogen Receptor Activity of Environmental Chemicals by Single-Cell Image Analysis and Data-driven Modeling.

Authors:  Hari S Ganesh; Burcu Beykal; Adam T Szafran; Fabio Stossi; Lan Zhou; Michael A Mancini; Efstratios N Pistikopoulos
Journal:  ESCAPE       Date:  2021-07-18
  4 in total

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