Gene expression profile class prediction using linear Bayesian classifiers.
Due to recent advances in DNA microarray technology, using gene expression profiles, diagnostic category of tissue samples can be predicted with high accuracy. In this study, we discuss shortcomings of some existing gene expression profile classification methods and propose a new approach based on linear Bayesian classifiers. In our approach, we first construct gene-level linear classifiers to identify genes that provide high class-prediction accuracies, i.e., low error rates. After this screening phase, starting with the gene that offers the lowest error rate, we construct a multi-dimensional linear classifier by incorporating next best-performing genes, until the prediction error becomes minimum or 0, if possible. When we compared classification performance of our approach against prediction analysis of microarrays (PAM) and support vector machines (SVM) based approaches, we found that our method outperforms PAM and produces comparable results with SVM. In addition, we observed that the gene selection scheme of PAM could be misleading. Albeit SVM achieves relatively higher prediction performance, it has two major disadvantages: Complexity and lack of insight about important genes. Our intuitive approach offers competing performance and also an efficient means for finding important genes.
Asyali
Musa H
MH
Department of Computer Engineering, Yasar University, Kazim Dirik Mah. 364 Sok. No: 5, Bornova 35500, Izmir, Turkey. musa.asyali@yasar.edu.tr
D000465:Algorithms; D001499:Bayes Theorem; D020869:Gene Expression Profiling / Q000379:methods*; D052138:Genes, Neoplasm; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis