Comparative between optimization feature selection by using classifiers algorithms on spam email

Spam mail has become a rising phenomenon in a world that has recently witnessed high growth in the volume of emails. This indicates the need to develop an effective spam filter. At the present time, Classification algorithms for text mining are used for the classification of emails. This paper provides a description and evaluation of the effectiveness of three popular classifiers using optimization feature selections, such as Genetic algorithm, Harmony search, practical swarm optimization, and simulating annealing. The research focuses on a comparison of the effect of classifiers using K-nearest Neighbor (KNN), Naïve Bayesian (NB), and Support Vector Machine (SVM) on spam classifiers (without using feature selection) also enhances the reliability of feature selection by proposing optimization feature selection to reduce number of features that are not important

Feature selection from colon cancer dataset for cancer classification using Artificial Neural Network

In the fast-growing field of medicine and its dynamic demand in research, a study that proves significant improvement to healthcare seems imperative especially when it is on cancer research. This research paved way to such significant findings by the inclusion of feature selection as one of its major components. Feature selection has become a vital task to apply data mining algorithms effectively in the real-world problems for classification. Feature selection has been the focus of interest for quite some time and much completed work related to it. Although much research conducted on the field, a study that proved a nearly perfect accuracy seems limited; hence, more scientifically driven results should be produced. Using various research on feature selection as basis for the choices in this study, the method was product of careful selection and planning. Specifically, this study used feature selection for improving classification accuracy on cancerous dataset. This study proposed Artificial Neural Network (ANN) for cancer classification with feature selection on colon cancer dataset. The study used best first search method in weka tools for feature selection. Through the process, a promising result has been achieved. The result of the experiment achieved 98.4 % accuracy for cancer classification after feature selection by using proposed algorithm. The result displayed that feature selection improved the classification accuracy based on the experiment conducted on the colon cancer dataset. The result of this experiment was comparable with the other studies on colon cancer research. It  showed another significant improvement and can be considered promising for more future applications

Filter-Wrapper Methods For Gene Selection In Cancer Classification

In microarray gene expression studies, finding the smallest subset of informative genes from microarray datasets for clinical diagnosis and accurate cancer classification is one of the most difficult challenges in machine learning task. Many researchers have devoted their efforts to address this problem by using a filter method, a wrapper method or a combination of both approaches. A hybrid method is a hybridisation approach between filter and wrapper methods. It benefits from the speed of the filter approach and the accuracy of the wrapper approach. Several hybrid filter-wrapper methods have been proposed to select informative genes. However, hybrid methods encounter a number of limitations, which are associated with filter and wrapper approaches. The gene subset that is produced by filter approaches lacks predictiveness and robustness. The wrapper approach encounters problems of complex interactions among genes and stagnation in local optima. To address these drawbacks, this study investigates filter and wrapper methods to develop effective hybrid methods for gene selection. This study proposes new hybrid filter-wrapper methods based on Maximum Relevancy Minimum Redundancy (MRMR) as a filter approach and adapted bat-inspired algorithm (BA) as a wrapper approach. First, MRMR hybridisation and BA adaptation are investigated to resolve the gene selection problem. The proposed method is called MRMR-BA

Analysis of microarray and next generation sequencing data for classification and biomarker discovery in relation to complex diseases

PhDThis thesis presents an investigation into gene expression profiling, using microarray and next generation sequencing (NGS) datasets, in relation to multi-category diseases such as cancer. It has been established that if the sequence of a gene is mutated, it can result in the unscheduled production of protein, leading to cancer. However, identifying the molecular signature of different cancers amongst thousands of genes is complex. This thesis investigates tools that can aid the study of gene expression to infer useful information towards personalised medicine. For microarray data analysis, this study proposes two new techniques to increase the accuracy of cancer classification. In the first method, a novel optimisation algorithm, COA-GA, was developed by synchronising the Cuckoo Optimisation Algorithm and the Genetic Algorithm for data clustering in a shuffle setup, to choose the most informative genes for classification purposes. Support Vector Machine (SVM) and Multilayer Perceptron (MLP) artificial neural networks are utilised for the classification step. Results suggest this method can significantly increase classification accuracy compared to other methods. An additional method involving a two-stage gene selection process was developed. In this method, a subset of the most informative genes are first selected by the Minimum Redundancy Maximum Relevance (MRMR) method. In the second stage, optimisation algorithms are used in a wrapper setup with SVM to minimise the selected genes whilst maximising the accuracy of classification. A comparative performance assessment suggests that the proposed algorithm significantly outperforms other methods at selecting fewer genes that are highly relevant to the cancer type, while maintaining a high classification accuracy. In the case of NGS, a state-of-the-art pipeline for the analysis of RNA-Seq data is investigated to discover differentially expressed genes and differential exon usages between normal and AIP positive Drosophila datasets, which are produced in house at Queen Mary, University of London. Functional genomic of differentially expressed genes were examined and found to be relevant to the case study under investigation. Finally, after normalising the RNA-Seq data, machine learning approaches similar to those in microarray was successfully implemented for these datasets