Discriminative Gene Selection Employing Linear Regression Model

Microarray datasets enables the analysis of expression of thousands of genes across hundreds of samples. Usually classifiers do not perform well for large number of features (genes) as is the case of microarray datasets. That is why a small number of informative and discriminative features are always desirable for efficient classification. Many existing feature selection approaches have been proposed which attempts sample classification based on the analysis of gene expression values. In this paper a linear regression based feature selection algorithm for two class microarray datasets has been developed which divides the training dataset into two subtypes based on the class information. Using one of the classes as the base condition, a linear regression based model is developed. Using this regression model the divergence of each gene across the two classes are calculated and thus genes with higher divergence values are selected as important features from the second subtype of the training data. The classification performance of the proposed approach is evaluated with SVM, Random Forest and AdaBoost classifiers. Results show that the proposed approach provides better accuracy values compared to other existing approaches i.e. ReliefF, CFS, decision tree based attribute selector and attribute selection using correlation analysis

Incorporating prior domain knowledge into a kernel based feature selection algorithm

This paper proposes a new method of incorporating prior domain knowledge into a kernel based feature selection algorithm. The proposed feature selection algorithm combines the Fast Correlation-Based Filter (FCBF) and the kernel methods in order to uncover an optimal subset of features for the support vector regression. In the proposed algorithm, the Kernel Canonical Correlation Analysis (KCCA) is employed as a measurement of mutual information between feature candidates. Domain knowledge in forms of constraints is used to guide the tuning of the KCCA. In the second experiments, the audit quality research carried by Yang Li and Donald Stokes [1] provides the domain knowledge, and the result extends the original subset of features