A wrapper-based feature selection method for ADMET prediction using evolutionary computing

Axel J. Soto, Rocío L. Cecchini, Gustavo E. Vazquez, Ignacio Ponzoni

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

15 Scopus citations

Abstract

Wrapper methods look for the selection of a subset of features or variables in a data set, in such a way that these features are the most relevant for predicting a target value. In chemoinformatics context, the determination of the most significant set of descriptors is of great importance due to their contribution for improving ADMET prediction models. In this paper, a comprehensive analysis of descriptor selection aimed to physicochemical property prediction is presented. In addition, we propose an evolutionary approach where different fitness functions are compared. The comparison consists in establishing which method selects the subset of descriptors that best predicts a given property, as well as maintaining the cardinality of the subset to a minimum. The performance of the proposal was assessed for predicting hydrophobicity, using an ensemble of neural networks for the prediction task. The results showed that the evolutionary approach using a non linear fitness function constitutes a novel and a promising technique for this bioinformatic application.

Original languageEnglish
Title of host publicationEvolutionary Computation, Machine Learning and Data Mining in Bioinformatics - 6th European Conference, EvoBIO 2008, Proceedings
Pages188-199
Number of pages12
DOIs
StatePublished - 2008
Externally publishedYes
Event6th European Conference on Evolutionary Computation, Machine Learning, and Data Mining in Bioinformatics, EvoBIO 2008 - Naples, Italy
Duration: 26 Mar 200828 Mar 2008

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume4973 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference6th European Conference on Evolutionary Computation, Machine Learning, and Data Mining in Bioinformatics, EvoBIO 2008
Country/TerritoryItaly
CityNaples
Period26/03/0828/03/08

Keywords

  • Feature selection
  • Genetic algorithms
  • Hydrophobicity
  • QSAR

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