using rule-based machine learning for candidate disease gene prioritization and sample classification of cancer gene expression data使用基于规则的机器学习疾病候选基因排序和样本分类癌症的基因表达数据.pdfVIP

Using Rule-Based Machine Learning for Candidate Disease Gene Prioritization and Sample Classification of Cancer Gene Expression Data 1¤ 1 2 1 Enrico Glaab , Jaume Bacardit , Jonathan M. Garibaldi , Natalio Krasnogor * 1 Interdisciplinary Computing and Complex Systems (ICOS) Research Group, University of Nottingham, Nottingham, United Kingdom, 2 Intelligent Modeling and Analysis (IMA) Research Group, University of Nottingham, Nottingham, United Kingdom Abstract Microarray data analysis has been shown to provide an effective tool for studying cancer and genetic diseases. Although classical machine learning techniques have successfully been applied to find informative genes and to predict class labels for new samples, common restrictions of microarray analysis such as small sample sizes, a large attribute space and high noise levels still limit its scientific and clinical applications. Increasing the interpretability of prediction models while retaining a high accuracy would help to exploit the information content in microarray data more effectively. For this purpose, we evaluate our rule-based evolutionary machine learning systems, BioHEL and GAssist, on three public microarray cancer datasets, obtaining simple rule-based models for sample classification. A comparison with other benchmark microarray sample classifiers based on three diverse feature selection algorithms suggests that these evolutionary learning techniques can compete with state-of-the-art methods like support vector machines. The obtained models reach accuracies above 90% in two-level external cross-validation, with the added value of facilitating interpretation by using only combinations of simp