Optimizing Tree-Based Contrast Subspace Mining Using Genetic Algorithm

Mining contrast subspace is a task of finding contrast subspace where a given query object is most similar to a target class but dissimilar to non-target class in a multidimensional data set. Recently, tree-based contrast subspace mining method has been introduced to find contrast subspace in numerical data set effectively. However, the contrast subspace search of the tree-based method may be trapped in local optima within the search space. This paper proposes a tree-based method which incorporates genetic algorithm to optimize the contrast subspace search by identifying global optima contrast subspace. The experiment results showed that the proposed method performed well on several cases compared to the variation of the tree-based method.

RFCBF: Enhance the Performance and Stability of Fast Correlation-Based Filter

Feature selection is a preprocessing step that plays a crucial role in the domain of machine learning and data mining. Feature selection methods have been shown to be effective in removing redundant and irrelevant features, improving the learning algorithm’s prediction performance. Among the various methods of feature selection based on redundancy, the fast correlation-based filter (FCBF) is one of the most effective. In this paper, we developed a novel extension of FCBF, called resampling FCBF (RFCBF) that combines resampling technique to improve classification accuracy. We performed comprehensive experiments to compare the RFCBF with other state-of-the-art feature selection methods using three competitive classifiers (K-nearest neighbor, support vector machine, and logistic regression) on 12 publicly available datasets. The experimental results show that the RFCBF algorithm yields significantly better results than previous state-of-the-art methods in terms of classification accuracy and runtime.

Hybrid gene selection approach using XGBoost and multi-objective genetic algorithm for cancer classification

Microarray gene expression data are often accompanied by a large number of genes and a small number of samples. However, only a few of these genes are relevant to cancer, resulting in significant gene selection challenges. Hence, we propose a two-stage gene selection approach by combining extreme gradient boosting (XGBoost) and a multi-objective optimization genetic algorithm (XGBoost-MOGA) for cancer classification in microarray datasets. In the first stage, the genes are ranked using an ensemble-based feature selection using XGBoost. This stage can effectively remove irrelevant genes and yield a group comprising the most relevant genes related to the class. In the second stage, XGBoost-MOGA searches for an optimal gene subset based on the most relevant genes' group using a multi-objective optimization genetic algorithm. We performed comprehensive experiments to compare XGBoost-MOGA with other state-of-the-art feature selection methods using two well-known learning classifiers on 14 publicly available microarray expression datasets. The experimental results show that XGBoost-MOGA yields significantly better results than previous state-of-the-art algorithms in terms of various evaluation criteria, such as accuracy, F-score, precision, and recall.

A review on genetic algorithm: past, present, and future

In this paper, the analysis of recent advances in genetic algorithms is discussed. The genetic algorithms of great interest in research community are selected for analysis. This review will help the new and demanding researchers to provide the wider vision of genetic algorithms. The well-known algorithms and their implementation are presented with their pros and cons. The genetic operators and their usages are discussed with the aim of facilitating new researchers. The different research domains involved in genetic algorithms are covered. The future research directions in the area of genetic operators, fitness function and hybrid algorithms are discussed. This structured review will be helpful for research and graduate teaching.

Detecting biomarkers from microarray data using distributed correlation based gene selection

BACKGROUND

Over the past few decades, DNA microarray technology has emerged as a prevailing process for early identification of cancer subtypes. Several feature selection (FS) techniques have been widely applied for identifying cancer from microarray gene data but only very few studies have been conducted on distributing the feature selection process for detecting cancer subtypes.

OBJECTIVE

Not all the gene expressions are needed in prediction, this research article objective is to select discriminative biomarkers by using distributed FS method which helps in accurately diagnosis of cancer subtype. Traditional feature selection techniques have several drawbacks like unrelated features that could perform well in terms of classification accuracy with a suitable subset of genes will be left out of the selection.

METHOD

To overcome the issue, in this paper a new filter-based method for gene selection is introduced which can select the highly relevant genes for distinguishing tissues from the gene expression dataset. In addition, it is used to compute the relation between gene-gene and gene-class and simultaneously identify subset of essential genes. Our method is tested on Diffuse Large B cell Lymphoma (DLBCL) dataset by using well-known classification techniques such as support vector machine, naïve Bayes, k-nearest neighbor, and decision tree.

RESULTS

Results on biological DLBCL dataset demonstrate that the proposed method provides promising tools for the prediction of cancer type, with the prediction accuracy of 97.62%, precision of 94.23%, sensitivity of 94.12%, F-measure of 90.12%, and ROC value of 99.75%.

CONCLUSION

The experimental results reveal the fact that the proposed method is significantly improved classification accuracy and execution time, compared to existing standard algorithms when applied to the non-partitioned dataset. Furthermore, the extracted genes are biologically sound and agree with the outcome of relevant biomedical studies.