A New Generalized Neuron Model Applied to DNA Microarray Classification

The DNA Microarray classification played an important role in bioinformatics and medicine area. By means of the genetic expressions obtained from a DNA microarrays, it is possible to identify which genes are correlated to a particular disease, in order solve different tasks such as tumor detection, best treatment selection, etc. In the last years, several computational intelligence techniques have been proposed to identify different groups of genes associated with a particular disease; one popular example is the application of artificial neural networks (ANN). The main disadvantage of using this technique is that ANN require a representative number of samples to provide acceptable results. However, the enormous quantity of genes and the few samples available for any disease, demand the use of more robust artificial neural models, capable of providing acceptable results using few samples during the learning process. In this research, we described a new type of generalized neuron model (GNM) applied to the DNA microarray classification task. The proposed methodology selects the set of genes that better describe the disease applying the artificial bee colony algorithm; after that, the GNM is trained using the discovered genes by means of a differential evolution algorithm. Finally, the accuracy of the proposed methodology is evaluated classifying two types of cancer using DNA microarrays: the acute lymphocytic leukemia and the acute myeloid leukemia.

[1]  Cheng Fang,et al.  Gene Expression Data Classification Using Artificial Neural Network Ensembles Based on Samples Filtering , 2009, 2009 International Conference on Artificial Intelligence and Computational Intelligence.

[2]  J. Mesirov,et al.  Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. , 1999, Science.

[3]  Beatriz A. Garro,et al.  Classification of DNA Microarrays Using Artificial Bee Colony (ABC) Algorithm , 2014, ICSI.

[4]  Kumudha Raimond,et al.  A Survey on Optimization Algorithms for Optimizing the Numerical Functions , 2013 .

[5]  Beatriz A. Garro,et al.  Designing Artificial Neural Networks Using Particle Swarm Optimization Algorithms , 2015, Comput. Intell. Neurosci..

[6]  Ganesh K. Venayagamoorthy,et al.  Online Training of a Generalized Neuron with Particle Swarm Optimization , 2006, The 2006 IEEE International Joint Conference on Neural Network Proceedings.

[7]  R. Storn,et al.  Differential Evolution - A simple and efficient adaptive scheme for global optimization over continuous spaces , 2004 .

[8]  Gil Alterovitz,et al.  Improving PLS-RFE based gene selection for microarray data classification , 2015, Comput. Biol. Medicine.

[9]  Dervis Karaboga,et al.  AN IDEA BASED ON HONEY BEE SWARM FOR NUMERICAL OPTIMIZATION , 2005 .

[10]  Ganesh K. Venayagamoorthy,et al.  Generalized neuron: Feedforward and recurrent architectures , 2009, Neural Networks.

[11]  Beatriz A. Garro,et al.  Classification of DNA microarrays using artificial neural networks and ABC algorithm , 2016, Appl. Soft Comput..

[12]  Barnali Sahu,et al.  A Novel Feature Selection Algorithm using Particle Swarm Optimization for Cancer Microarray Data , 2012 .

[13]  Mustafa Ozen,et al.  Artificial Neural Network Analysis of DNA Microarray-based Prostate Cancer Recurrence , 2005, 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology.

[14]  M. Ringnér,et al.  Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks , 2001, Nature Medicine.

[15]  Leif E. Peterson,et al.  Comparison of Gene Identification Based on Artificial Neural Network Pre-processing with k-Means Cluster and Principal Component Analysis , 2005, WILF.

[16]  Christophe Lemetre,et al.  An introduction to artificial neural networks in bioinformatics - application to complex microarray and mass spectrometry datasets in cancer studies , 2008, Briefings Bioinform..

[17]  Ghada Hany Badr,et al.  Genetic Bee Colony (GBC) algorithm: A new gene selection method for microarray cancer classification , 2015, Comput. Biol. Chem..

[18]  D. P. Kothari,et al.  Generalized Neural Network Approach for Global Solar Energy Estimation in India , 2012, IEEE Transactions on Sustainable Energy.

[19]  Beatriz A. Garro,et al.  Generalized neurons and its application in DNA microarray classification , 2016, 2016 IEEE Congress on Evolutionary Computation (CEC).