Literature DB >> 24415822

THE INTERACTIVE DECISION COMMITTEE FOR CHEMICAL TOXICITY ANALYSIS.

Chaeryon Kang1, Hao Zhu2, Fred A Wright3, Fei Zou3, Michael R Kosorok3.   

Abstract

We introduce the Interactive Decision Committee method for classification when high-dimensional feature variables are grouped into feature categories. The proposed method uses the interactive relationships among feature categories to build base classifiers which are combined using decision committees. A two-stage or a single-stage 5-fold cross-validation technique is utilized to decide the total number of base classifiers to be combined. The proposed procedure is useful for classifying biochemicals on the basis of toxicity activity, where the feature space consists of chemical descriptors and the responses are binary indicators of toxicity activity. Each descriptor belongs to at least one descriptor category. The support vector machine, the random forests, and the tree-based AdaBoost algorithms are utilized as classifier inducers. Forward selection is used to select the best combinations of the base classifiers given the number of base classifiers. Simulation studies demonstrate that the proposed method outperforms a single large, unaggregated classifier in the presence of interactive feature category information. We applied the proposed method to two toxicity data sets associated with chemical compounds. For these data sets, the proposed method improved classification performance for the majority of outcomes compared to a single large, unaggregated classifier.

Entities:  

Keywords:  Chemical toxicity; Decision committee method; Ensemble; Ensemble feature selection; QSAR modeling; Statistical learning

Year:  2012        PMID: 24415822      PMCID: PMC3887560     

Source DB:  PubMed          Journal:  J Stat Res        ISSN: 0256-422X


  16 in total

Review 1.  In silico ADME/Tox: why models fail.

Authors:  Terry R Stouch; James R Kenyon; Stephen R Johnson; Xue-Qing Chen; Arthur Doweyko; Yi Li
Journal:  J Comput Aided Mol Des       Date:  2003 Feb-Apr       Impact factor: 3.686

2.  Penalized logistic regression for detecting gene interactions.

Authors:  Mee Young Park; Trevor Hastie
Journal:  Biostatistics       Date:  2007-04-11       Impact factor: 5.899

3.  Successive overrelaxation for support vector machines.

Authors:  O L Mangasarian; D R Musicant
Journal:  IEEE Trans Neural Netw       Date:  1999

4.  The trouble with QSAR (or how I learned to stop worrying and embrace fallacy).

Authors:  Stephen R Johnson
Journal:  J Chem Inf Model       Date:  2007-12-28       Impact factor: 4.956

5.  Robust biomarker identification for cancer diagnosis with ensemble feature selection methods.

Authors:  Thomas Abeel; Thibault Helleputte; Yves Van de Peer; Pierre Dupont; Yvan Saeys
Journal:  Bioinformatics       Date:  2009-11-25       Impact factor: 6.937

6.  Future of toxicology--predictive toxicology: An expanded view of "chemical toxicity".

Authors:  Ann M Richard
Journal:  Chem Res Toxicol       Date:  2006-10       Impact factor: 3.739

7.  Acute oral toxicity.

Authors:  E Walum
Journal:  Environ Health Perspect       Date:  1998-04       Impact factor: 9.031

8.  Quantitative structure-activity relationship modeling of rat acute toxicity by oral exposure.

Authors:  Hao Zhu; Todd M Martin; Lin Ye; Alexander Sedykh; Douglas M Young; Alexander Tropsha
Journal:  Chem Res Toxicol       Date:  2009-12       Impact factor: 3.739

9.  Profiling chemicals based on chronic toxicity results from the U.S. EPA ToxRef Database.

Authors:  Matthew T Martin; Richard S Judson; David M Reif; Robert J Kavlock; David J Dix
Journal:  Environ Health Perspect       Date:  2008-10-20       Impact factor: 9.031

10.  A combinational feature selection and ensemble neural network method for classification of gene expression data.

Authors:  Bing Liu; Qinghua Cui; Tianzi Jiang; Songde Ma
Journal:  BMC Bioinformatics       Date:  2004-09-27       Impact factor: 3.169

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