Literature DB >> 26417393

ExSTraCS 2.0: Description and Evaluation of a Scalable Learning Classifier System.

Ryan J Urbanowicz1, Jason H Moore1.   

Abstract

Algorithmic scalability is a major concern for any machine learning strategy in this age of 'big data'. A large number of potentially predictive attributes is emblematic of problems in bioinformatics, genetic epidemiology, and many other fields. Previously, ExS-TraCS was introduced as an extended Michigan-style supervised learning classifier system that combined a set of powerful heuristics to successfully tackle the challenges of classification, prediction, and knowledge discovery in complex, noisy, and heterogeneous problem domains. While Michigan-style learning classifier systems are powerful and flexible learners, they are not considered to be particularly scalable. For the first time, this paper presents a complete description of the ExS-TraCS algorithm and introduces an effective strategy to dramatically improve learning classifier system scalability. ExSTraCS 2.0 addresses scalability with (1) a rule specificity limit, (2) new approaches to expert knowledge guided covering and mutation mechanisms, and (3) the implementation and utilization of the TuRF algorithm for improving the quality of expert knowledge discovery in larger datasets. Performance over a complex spectrum of simulated genetic datasets demonstrated that these new mechanisms dramatically improve nearly every performance metric on datasets with 20 attributes and made it possible for ExSTraCS to reliably scale up to perform on related 200 and 2000-attribute datasets. ExSTraCS 2.0 was also able to reliably solve the 6, 11, 20, 37, 70, and 135 multiplexer problems, and did so in similar or fewer learning iterations than previously reported, with smaller finite training sets, and without using building blocks discovered from simpler multiplexer problems. Furthermore, ExS-TraCS usability was made simpler through the elimination of previously critical run parameters.

Entities:  

Keywords:  Classification; Data Mining; Evolutionary Algorithm; Learning Classifier System; Prediction; Scalability

Year:  2015        PMID: 26417393      PMCID: PMC4583133          DOI: 10.1007/s12065-015-0128-8

Source DB:  PubMed          Journal:  Evol Intell        ISSN: 1864-5909


  13 in total

1.  Accuracy-based learning classifier systems: models, analysis and applications to classification tasks.

Authors:  Ester Bernadó-Mansilla; Josep M Garrell-Guiu
Journal:  Evol Comput       Date:  2003       Impact factor: 3.277

2.  STUDENTJAMA. The challenges of whole-genome approaches to common diseases.

Authors:  Jason H Moore; Marylyn D Ritchie
Journal:  JAMA       Date:  2004-04-07       Impact factor: 56.272

3.  A balanced accuracy function for epistasis modeling in imbalanced datasets using multifactor dimensionality reduction.

Authors:  Digna R Velez; Bill C White; Alison A Motsinger; William S Bush; Marylyn D Ritchie; Scott M Williams; Jason H Moore
Journal:  Genet Epidemiol       Date:  2007-05       Impact factor: 2.135

4.  Epistasis analysis using ReliefF.

Authors:  Jason H Moore
Journal:  Methods Mol Biol       Date:  2015

5.  Analysis and improvement of fitness exploitation in XCS: bounding models, tournament selection, and bilateral accuracy.

Authors:  Martin V Butz; David E Goldberg; Kurian Tharakunnel
Journal:  Evol Comput       Date:  2003       Impact factor: 3.277

6.  GAMETES: a fast, direct algorithm for generating pure, strict, epistatic models with random architectures.

Authors:  Ryan J Urbanowicz; Jeff Kiralis; Nicholas A Sinnott-Armstrong; Tamra Heberling; Jonathan M Fisher; Jason H Moore
Journal:  BioData Min       Date:  2012-10-01       Impact factor: 2.522

7.  Predicting the difficulty of pure, strict, epistatic models: metrics for simulated model selection.

Authors:  Ryan J Urbanowicz; Jeff Kiralis; Jonathan M Fisher; Jason H Moore
Journal:  BioData Min       Date:  2012-09-26       Impact factor: 2.522

8.  Spatially uniform relieff (SURF) for computationally-efficient filtering of gene-gene interactions.

Authors:  Casey S Greene; Nadia M Penrod; Jeff Kiralis; Jason H Moore
Journal:  BioData Min       Date:  2009-09-22       Impact factor: 2.522

Review 9.  Bioinformatics challenges for genome-wide association studies.

Authors:  Jason H Moore; Folkert W Asselbergs; Scott M Williams
Journal:  Bioinformatics       Date:  2010-01-06       Impact factor: 6.937

10.  Role of genetic heterogeneity and epistasis in bladder cancer susceptibility and outcome: a learning classifier system approach.

Authors:  Ryan John Urbanowicz; Angeline S Andrew; Margaret Rita Karagas; Jason H Moore
Journal:  J Am Med Inform Assoc       Date:  2013-02-26       Impact factor: 4.497

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  11 in total

1.  Structural differences in adolescent brains can predict alcohol misuse.

Authors:  Roshan Prakash Rane; Evert Ferdinand de Man; JiHoon Kim; Kai Görgen; Mira Tschorn; Michael A Rapp; Tobias Banaschewski; Arun L W Bokde; Sylvane Desrivieres; Herta Flor; Antoine Grigis; Hugh Garavan; Penny A Gowland; Rüdiger Brühl; Jean-Luc Martinot; Marie-Laure Paillere Martinot; Eric Artiges; Frauke Nees; Dimitri Papadopoulos Orfanos; Herve Lemaitre; Tomas Paus; Luise Poustka; Juliane Fröhner; Lauren Robinson; Michael N Smolka; Jeanne Winterer; Robert Whelan; Gunter Schumann; Henrik Walter; Andreas Heinz; Kerstin Ritter
Journal:  Elife       Date:  2022-05-26       Impact factor: 8.713

2.  Individual Factors Associated With COVID-19 Infection: A Machine Learning Study.

Authors:  Tania Ramírez-Del Real; Mireya Martínez-García; Manlio F Márquez; Laura López-Trejo; Guadalupe Gutiérrez-Esparza; Enrique Hernández-Lemus
Journal:  Front Public Health       Date:  2022-06-30

3.  Benchmarking relief-based feature selection methods for bioinformatics data mining.

Authors:  Ryan J Urbanowicz; Randal S Olson; Peter Schmitt; Melissa Meeker; Jason H Moore
Journal:  J Biomed Inform       Date:  2018-07-17       Impact factor: 6.317

Review 4.  Relief-based feature selection: Introduction and review.

Authors:  Ryan J Urbanowicz; Melissa Meeker; William La Cava; Randal S Olson; Jason H Moore
Journal:  J Biomed Inform       Date:  2018-07-18       Impact factor: 6.317

5.  Multiple Plasma Biomarkers for Risk Stratification in Patients With Heart Failure and Preserved Ejection Fraction.

Authors:  Julio A Chirinos; Alena Orlenko; Lei Zhao; Michael D Basso; Mary Ellen Cvijic; Zhuyin Li; Thomas E Spires; Melissa Yarde; Zhaoqing Wang; Dietmar A Seiffert; Stuart Prenner; Payman Zamani; Priyanka Bhattacharya; Anupam Kumar; Kenneth B Margulies; Bruce D Car; David A Gordon; Jason H Moore; Thomas P Cappola
Journal:  J Am Coll Cardiol       Date:  2020-03-24       Impact factor: 24.094

6.  In Silico Analysis of the Molecular-Level Impact of SMPD1 Variants on Niemann-Pick Disease Severity.

Authors:  François Ancien; Fabrizio Pucci; Marianne Rooman
Journal:  Int J Mol Sci       Date:  2021-04-26       Impact factor: 5.923

7.  PMLB: a large benchmark suite for machine learning evaluation and comparison.

Authors:  Randal S Olson; William La Cava; Patryk Orzechowski; Ryan J Urbanowicz; Jason H Moore
Journal:  BioData Min       Date:  2017-12-11       Impact factor: 2.522

8.  Investigating the parameter space of evolutionary algorithms.

Authors:  Moshe Sipper; Weixuan Fu; Karuna Ahuja; Jason H Moore
Journal:  BioData Min       Date:  2018-02-17       Impact factor: 2.522

9.  Preoperative and postoperative prediction of long-term meningioma outcomes.

Authors:  Efstathios D Gennatas; Ashley Wu; Steve E Braunstein; Olivier Morin; William C Chen; Stephen T Magill; Chetna Gopinath; Javier E Villaneueva-Meyer; Arie Perry; Michael W McDermott; Timothy D Solberg; Gilmer Valdes; David R Raleigh
Journal:  PLoS One       Date:  2018-09-20       Impact factor: 3.240

10.  Melanoma diagnosis using deep learning techniques on dermatoscopic images.

Authors:  Mario Fernando Jojoa Acosta; Liesle Yail Caballero Tovar; Maria Begonya Garcia-Zapirain; Winston Spencer Percybrooks
Journal:  BMC Med Imaging       Date:  2021-01-06       Impact factor: 1.930

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