Impact of preprocessing on medical data classification

Sarab ALMUHAIDEB, Mohamed El Bachir MENAI

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Front. Comput. Sci. ›› 2016, Vol. 10 ›› Issue (6) : 1082-1102. DOI: 10.1007/s11704-016-5203-5
RESEARCH ARTICLE

Impact of preprocessing on medical data classification

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Abstract

The significance of the preprocessing stage in any data mining task is well known. Before attempting medical data classification, characteristics ofmedical datasets, including noise, incompleteness, and the existence of multiple and possibly irrelevant features, need to be addressed. In this paper, we show that selecting the right combination of preprocessing methods has a considerable impact on the classification potential of a dataset. The preprocessing operations considered include the discretization of numeric attributes, the selection of attribute subset(s), and the handling of missing values. The classification is performed by an ant colony optimization algorithm as a case study. Experimental results on 25 real-world medical datasets show that a significant relative improvement in predictive accuracy, exceeding 60% in some cases, is obtained.

Keywords

classification / ant colony optimization / medical data classification / preprocessing / feature subset selection / discretization

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Sarab ALMUHAIDEB, Mohamed El Bachir MENAI. Impact of preprocessing on medical data classification. Front. Comput. Sci., 2016, 10(6): 1082‒1102 https://doi.org/10.1007/s11704-016-5203-5

References

[1]
Pham H N A, Triantaphyllou E. An application of a new metaheuristic for optimizing the classification accuracy when analyzing some medical datasets. Expert Systems with Applications, 2009, 36: 9240–9249
CrossRef Google scholar
[2]
Almuhaideb S, El-Bachir Menai M. Hybrid metaheuristics for medical data classification. In: El-Ghazali T, ed. Hybrid Metaheuristics. Springer, 2013, 187–217
CrossRef Google scholar
[3]
Penã-Reyes C A, Sipper M. Evolutionary computation in medicine: an overview. Artificial Intelligence in Medicine, 2000, 19(1): 1–23
CrossRef Google scholar
[4]
Tanwani A K, Afridi J, Shafiq M Z, Farooq M. Guidelines to select machine learning scheme for classification of biomedical datasets. In: Pizzuti C, Ritchie M D, Giacobini M, eds. Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics. Springer, 2009, 28–139
CrossRef Google scholar
[5]
Almuhaideb S, El-Bachir Menai M. A new hybrid metaheuristic for medical data classification. International Journal of Metaheuristics, 2014, 3(1): 59–80
CrossRef Google scholar
[6]
Milne D, Witten I H. An open-source toolkit for mining Wikipedia. Artificial Intelligence, 2013, 194: 222–239
CrossRef Google scholar
[7]
Alcalá-fdez J, L. Sánchez L, García S, del Jesus M J, Ventura S, Garrell J M, Otero J, Bacardit J, Rivas V M, Fernández J C, Herrera F. KEEL: a software tool to assess evolutionary algorithms to data mining problems. Soft Computing, 2009, 13(3): 307–318
CrossRef Google scholar
[8]
Martens D, de Backer M, Haesen R, Vanthienen J, Snoeck M, Baesens B. Classification with ant colony optimization. IEEE Transactions on Evolutionary Computation, 2007, 11(5): 651–665
CrossRef Google scholar
[9]
Tanwani A K, Farooq M. Performance evaluation of evolutionary algorithms in classification of biomedical datasets. In: Proceedings of the 11th Annual Conference Companion on Genetic and Evolutionary Computation: Late Breaking Papers. 2009, 2617–2624
CrossRef Google scholar
[10]
Tanwani A K, Farooq M. The role of biomedical dataset inclassification. In: Proceedings of Conference on Artificial Intelligence in Medicine in Europe. 2009
CrossRef Google scholar
[11]
Tanwani A K, Farooq M. Classification potential vs. classification accuracy: a comprehensive study of evolutionary algorithms with biomedical datasets. Learning Classifier System, 2010: 127–144
[12]
Kotsiantis S B. Feature selection for machine learning classification problems: a recent overview. Artificial Intelligence Review, 2011: 249–268
CrossRef Google scholar
[13]
Whitney A W. A direct method of nonparametric measurement selection. IEEE Transactions on Computers, 1971, 20(9): 1100–1103
CrossRef Google scholar
[14]
Marill T, Green D. On the effectiveness of receptors in recognition systems. IEEE Transactions on Information Theory, 1963, 9(1): 11–17
CrossRef Google scholar
[15]
Pudil P, Novoviˇcová J, Kittler J. Floating search methods in features election. Pattern Recognition Letters, 1994, 15(10): 1119–1125
CrossRef Google scholar
[16]
Yusta S C. Different metaheuristic strategies to solve the feature selection problem. Pattern Recognition Letters, 2009, 30(5): 525–534
CrossRef Google scholar
[17]
Jourdan L, Dhaenens C, Talbi E G. A genetic algorithm for features election in datamining for genetics. In: Proceedings of the 4th Metaheuristics International Conference Porto. 2010: 29–34
[18]
Huang J J, Cai Y Z, Xu X M. A hybrid genetic algorithm for features election wrapper based on mutual information. Pattern Recognition Letters, 2007, 28(13): 1825–1844
CrossRef Google scholar
[19]
AI-Ani A. Feature subset selection using ant colony optimization. International Journal of Computational Intelligence, 2005, 2(1): 53–58
[20]
Unler A, Murat A. A discrete particle swarm optimization method for feature selection in binary classification problems. European Journal of Operational Research, 2010, 206(3): 528–539
CrossRef Google scholar
[21]
Bekkerman R, El-Yaniv R, Tishby N, Winter Y. Distributional word clusters vs. words for text categorization. Journal of Machine Learning Research, 2003, 3: 1183–1208
[22]
Liu H, Yu L. Toward integrating feature selection algorithms for classification and clustering. IEEE Transactions on Knowledge Discovery and Data Engineering, 2005, 17(4): 491–502
CrossRef Google scholar
[23]
Shin K, Fernandes D, Miyazaki S. Consistency measures for features election: a formal definition, relative sensitivity comparison, and a fast algorithm. In: Proceedings of International Conference on Artificial Intelligence (IJCAI). 2011, 1491–1497
[24]
Kerber R. ChiMerge: discretization of numeric attributes. In: Proceedings of the 10th National Conference on Artificial Intelligence. 1992, 123–128
[25]
Liu H, Setiono R. Feature selection via discretization. IEEE Transactions on Knowledge and Data Engineering, 1997, 9(4): 642–645
CrossRef Google scholar
[26]
Fayyad U M, Irani K B. Multi-interval discretization of continuousvalued attributes for classification learning. In: Proceedings of International Conference on Artificial Intelligence. 1993, 1022–1029
[27]
Jin R M, Breitbart Y, Muoh C. Data discretization unification. Knowledge and Information Systems, 2009, 19(1): 1–29
CrossRef Google scholar
[28]
Quinlan R. C4.5: Programs for Machine Learning. San Mateo,CA: Morgan Kaufmann Publishers, 1993
[29]
Guyon I, Elisseeff A. An introduction to variable and feature selection. The Journal of Machine Learning Research, 2003, 3: 1157–1182
[30]
Kohavi R, John G H. Wrappers for feature subsets election. Artificial Intelligence, 1997, 97(1–2): 273–324
CrossRef Google scholar
[31]
Caruana R, Freitag D. Greedy attribute selection. In: Proceedings of International Conference on Machine Learning. 1994, 28–36
CrossRef Google scholar
[32]
Koza J R. Genetic Programming: On the Programming of Computers by Means of Natural Selection. Cambridge, MA: MIT Press, 1992
[33]
Breiman L, Friedman J H, Olshen R A, Stone C J. Classification and Regression Trees. New York, NY: Chapman & Hall, 1984
[34]
Das S. Filters, wrappers and a boosting-based hybrid for feature selection. In: Proceedings of International Conference on Machine Learning. 2001, 74–81
[35]
Han J W, Kamber M. Data Mining: Concepts and Techniques. 2nd edition. London, UK: Morgan Kaufmann Publishers, 2006
[36]
Chlebus B S, Nguyen S H. On finding optimal discretizations for two attributes. In: Polkowski L, Skowron A, eds. Rough Sets and Current Trends in Computing. Springer, 1998, 537–544
CrossRef Google scholar
[37]
García S, Luengo J, Sáez J A, López V, Herrera F. A survey of discretization techniques: taxonomy and empirical analysis in supervised learning. IEEE Transactions on Knowledge and Data Engineering, 2013, 25(4): 734–750
CrossRef Google scholar
[38]
Wong A K C, Chiu D K Y. Synthesizing statistical knowledge from incomplete mixed-mode data. IEEE Transactions on Pattern Analysis and Machine Intelligence, 1987, 9(6): 796–805
CrossRef Google scholar
[39]
Garcá-Laencina P J, Sancho-Gómez J L, Figueiras-Vidal A R. Pattern classification with missing data: a review. Neural Computing and Ap plications, 2010, 19(2): 263–282
CrossRef Google scholar
[40]
Grzymala-Busse J W, Goodwin L K, Grzymala-Busse W J, Zheng X Q. Handling missing attribute values in preterm birth data sets. In: Slezak D, Yao J T, Peters J F, Ziarko W, Hu X H, eds. Rough Sets, Fuzzy Sets, Data Mining, and Granular Computing. Springer, 2005, 342–351
CrossRef Google scholar
[41]
Batista G E A P A, Monard M C. An analysis of four missing data treatment methods for supervised learning. Applied Artificial Intelligence, 2003, 17(5–6): 519–533
CrossRef Google scholar
[42]
Feng H H, Chen G S, Yin C, Yang B R, Chen Y M. A SVM regression based approach to filling in missing values. In: Khosla R, Howlett R J, Jain L C, eds. Knowledge-Based Intelligent Information and Engineering Systems. Springer, 2005, 581–587
[43]
Gupta A, Lam M S. Estimating missing values using neural networks. Journal of the Operational Research Society, 1996, 47(2): 229–238
CrossRef Google scholar
[44]
Dempster A P, Laird N M, Rubin D B. Maximum likelihood from incomplete data via the EM algorithm. Journal of the Royal Statistical Society, Series B (Methodological), 1977, 39(1): 1–38
[45]
Schneider T. Analysis of incomplete climate data: estimation of mean values and covariance matrices and imputation of missing values. Journal of Climate, 2001, 14: 853–871
CrossRef Google scholar
[46]
Gourraud P A, Génin E, Cambon-Thomsen A. Handling missing values in population data: consequences for maximum likelihood estimation of haplotype frequencies. European Journal of Human Genetics, 2004, 12: 805–812
CrossRef Google scholar
[47]
Mcculloch W, Pitts W. A logical calculus of the ideas immanent in nervous activity. Bulletin of Mathematical Biophysics, 1943, 5: 115–133
CrossRef Google scholar
[48]
Holland J H. Adaptation in Natural and Artificial Systems. Ann Arbor: The University of Michigan Press, 1975
[49]
Dorigo M. Optimization, learning and natural algorithms. Dissertation for the Doctoral Degree. Politecnico di Milano, Italy, 1992
[50]
Kennedy J, Eberhart R. Particle swarm optimization. In: Proceedings of IEEE International Conference on Neural Networks. 1995, 1942–1948
CrossRef Google scholar
[51]
Sato T, Hagiwara M. Bee system: finding solution by a concentrated search. In: Proceedings of IEEE International Conference on Systems, Man, and Cybernetics. 1997
CrossRef Google scholar
[52]
Karaboga D. An idea based on honey bee swarm for numerical optimization. Technical Report TR06, Erciyes University, 2005
[53]
Dorigo M, Gambardella L M. Ant colony system: a cooperative learning approach to the traveling salesman problem. IEEE Transactions on Evolutionary Computation, 1997, 1(1): 53–66
CrossRef Google scholar
[54]
Parpinelli R S, Lopes H S, Freitas A A. Data mining with an ant colony optimization algorithm. IEEE Transactions Evolutionary Computation, 2002, 6(4): 321–332
CrossRef Google scholar
[55]
Stützle T, Hoos H H. MAX-MIN ant system. Future Generation Computer Systems, 2000, 16(8): 889–914
CrossRef Google scholar
[56]
Pellegrini P, Ellero A. The small world of pheromone trails. In: Dorigo M, Birattari M, Blum C, Clerc M, Stützle T, Winfield A F T, eds. Ant Colony Optimzation and Swarm Intelligence. Springer, 2008, 387–394
CrossRef Google scholar
[57]
Cohen W W. Fast effective rule induction. In: Prieditis A, Russell S J, eds. International Conference on Machine Learning. Morgan Kaufmann, 1995, 115–123
CrossRef Google scholar
[58]
Minnaert B, Martens D, de Baker M, Baesens B. To tune or not to tune: rule evaluation for metaheuristic-based sequential covering algorithms. Data Mining and Knowledge Discovery, 2015, 29(1): 237–272
CrossRef Google scholar
[59]
Almuhaideb S, ElBachir Menai M. A new hybrid metaheuristic for medical data classification. International Journal of Metaheuristics, 2014: 1–17
[60]
Rissanen J. Modeling by shortest data description. Automatica, 1978, 14(5): 465–471
CrossRef Google scholar
[61]
Kononenko I. On biases in estimating multi-valued attributes. In: Proceedings of International Conference on Artificial Intelligence. 1995, 1034–1040
[62]
Kira K, Rendell L A. A practical approach to feature selection. In: Proceedings of the 9th International Workshop on Machine Learning. 1992
CrossRef Google scholar
[63]
Kononenko I. Estimating attributes: analysis and extensions of RELIEF. In: Proceedings of European Conference on Machine Learning. 1994, 171–182
CrossRef Google scholar
[64]
Hall M A. Correlation-based feature selection for machine learning. Dissertation for the Dotoral Degree. Hamilton, New Zealand: University of Waikato, 1999
[65]
Liu H, Setiono R. A probabilistic approach to feature selection—a filter solution. In: Proceedings of International Conference on Machine Learning. 1996, 319–327
[66]
Frank E, Witten I H. Generating accurate rule sets without global optimization. In: Proceedings of the 15th International Conference on Machine Learning. 1998, 144–151
[67]
Holte R C. Very simple classification rules perform well on most commonly used datasets. Machine Learning, 1993, 11(1): 63–91
CrossRef Google scholar
[68]
Klösgan W. Problems for knowledge discovery in databases and their treatment in the statistics interpreter explora. International Journal of Intelligent Systems, 1992, 7(7): 649–673
CrossRef Google scholar
[69]
Janssen F, Fürnkranz J. On the quest for optimal rule learning heuristics. Machine Learning, 2010, 78(3): 343–379
CrossRef Google scholar
[70]
Martens D, Baesens B, Fawcett T. Editorial survey: swarm intelligence for data mining. Machine Learning, 2010, 82(1): 1–42
CrossRef Google scholar
[71]
Hanczara B, Dougherty E R. The reliability of estimated confidence intervals for classification error rates when only a single sample is available. Pattern Recognition, 2013, 64(3): 1067–1077
CrossRef Google scholar
[72]
Kohavi R. A study of cross-validation and bootstrap for accuracy estimation and model selection. In: Proceedings of International Conference on Artificial Intelligence. 1995, 1137–1145
[73]
García S, Fernández A, Luengo J, Herrera F. A study of statistical techniques and performance measures for genetics-based machine learning: accuracy and interpretability. Soft Computing, 2009, 13(10): 959–977
CrossRef Google scholar
[74]
Wilcoxon F. Individual comparisons by ranking methods. Biometrics Bulletin, 1945, 1(6): 80–83
CrossRef Google scholar
[75]
Friedman M. The use of ranks to avoid the assumption of normality implicit in the analysis of variance. American Statistical Association, 1937, 32(200): 675–701
CrossRef Google scholar
[76]
Frank A, Asuncion A. UCI machine learning repository. Irvine, CA: University of California, 2010
[77]
Napierala K, Stefanowski J. BRACID: a comprehensive approach to learning rules from imbalanced data. Journal of Intelligent Information Systems, 2012, 39(2): 335–373
CrossRef Google scholar
[78]
Orriols-Puig A, Bernadó-Mansilla E. The class imbalance problem in UCS classifier system: a preliminary study. In: Proceedings of the 2003–2005 International Conference on Learning Classifier Systems. 2007, 161–180
CrossRef Google scholar
[79]
Pazzani M J, Mani S, Shankle W R. Acceptance of rules generated by machine learning among medical experts. Methods of Information in Medicine, 2001, 40(5): 380–385
[80]
Vapnik V N. Estimation of Dependences Based on Empirical Data. Springer-Verlag, 1982
[81]
Vapnik V N. The Nature of Statistical Learning Theory. New York: Springer, 1995
CrossRef Google scholar
[82]
Lim T S, Loh W Y, Shih Y S. A comparison of prediction accuracy, complexity, and training time of thirty-three old and new classification algorithms. Machine Learning, 2000, 40(3): 203–228
CrossRef Google scholar
[83]
Gonzalez A, Perez R. Slave: a genetic learning system based on an iterative approach. IEEE Transactions on Fuzzy Systems, 1999, 7(2): 176–191
CrossRef Google scholar
[84]
Bernadó-Mansilla E, Garrell-Guiu J M. Accuracy based learning classifier systems: models, analysis and applications to classification tasks. Evolutionary Computation, 2003, 11(3): 209–238
CrossRef Google scholar
[85]
Wilson S W. Classifier fitness based on accuracy. Evolutionary Computation, 1995, 3(2): 149–175
CrossRef Google scholar
[86]
Orriols-Puig A, Casillas J, Bernadó-Mansilla E. A comparative study of several geneticbased supervised learning systems. In: Bull L, Bernadó-Mansilla E, Holmes J H, eds. Learning Classifier Systems in Data Mining. Springer, 2008, 205–230
CrossRef Google scholar
[87]
Troyanskaya O G, Cantor M, Sherlock G, Brown P O, Hastie T, Tibshirani R, Botstein D, Altman R B. Missing value estimation methods for DNA microarrays. Bioinformatics, 2001, 17(6): 520–525
CrossRef Google scholar
[88]
Amaldi E, Kann V. On the approximability of minimizing nonzero variables or unsatisfied relations in linear systems. Theoretical Computer Science, 1998, 209(1–2): 237–260
CrossRef Google scholar
[89]
Bacardit J, Butz M. Data mining in learning classifier systems: comparing XCS with gassist. In: Proceedings of International Conference on Learning Classifier Systems (IWLCS 2003–2005). 2004, 282–290

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