Use of LDA combined with PLS for classification of lung cancer gene expression data
Journal Title: International Journal of Medical Research & Health Sciences (IJMRHS) - Year 2016, Vol 5, Issue 9
Abstract
Reliable and precise classification is essential for successful diagnosis and treatment of cancer. Thus, improvements in cancer classification are increasingly sought. Linear discriminant analysis (LDA) is the most effective method of cancer classification in high-dimensional prediction, but there are drawbacks to tumor classification by a formal method such as LDA. We propose a method for lung cancer gene microarray classification that combines a feature reduction approach, partial least squares (PLS), and discriminate method, LDA, for improving classification performance. The real dataset used related to lung cancer gene expression. After bioinformatics data preprocessing, data reduction and feature selection were carried out using PLS and then LDA was used for classification. The results were validated using the accuracy index and gene ontology analysis. Of the total of more than 50,000 genes, 214 genes were shown to have relevance. The classification accuracy of this method was 94.5% and gene ontology analysis results were good. It can be said that the LDA classifier combined with PLS is powerful method. This method can identify gene relationships warranting further biological investigation.
Authors and Affiliations
Keyghobad Ghadiri| Nosocomial Infection Research Center, Kermanshah University of Medical Sciences, Kermanshah, Iran, Mansour Rezaei| Biostatistics and Epidemiology Department, Faculty of Public Health, Kermanshah University of Medical Sciences, Kermanshah, Iran, Seyyed Mohammad Tabatabaei| Medical Informatics Department, Faculty of Paramedical Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran, Meisam Shahsavari| Nursing Department, Shahid Beheshti University of Medical Sciences, Tehran, Iran, Soodeh Shahsavari| Health Information Technology Department, Faculty of Paramedical Sciences, Kermanshah University of Medical Sciences, Kermanshah, Iran, Corresponding Author: soodeh_shahsavari@yahoo.com
Keywords
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