Extracting gene regulation information for cancer classification
Pattern Recognition
Selecting differentially expressed genes using minimum probability of classification error
Journal of Biomedical Informatics
Strangeness-based feature weighting and classification of gene expression profiles
Proceedings of the 2008 ACM symposium on Applied computing
An expert system to classify microarray gene expression data using gene selection by decision tree
Expert Systems with Applications: An International Journal
Journal of Biomedical Informatics
Gene selection from microarray data for cancer classification-a machine learning approach
Computational Biology and Chemistry
Exploiting scale-free information from expression data for cancer classification
Computational Biology and Chemistry
Method of regulatory network that can explore protein regulations for disease classification
Artificial Intelligence in Medicine
Mining patterns in disease classification forests
Journal of Biomedical Informatics
Application of committee kNN classifiers for gene expression profile classification
International Journal of Bioinformatics Research and Applications
A two step method to identify clinical outcome relevant genes with microarray data
Journal of Biomedical Informatics
A heuristic biomarker selection approach based on professional tennis player ranking strategy
Computer Methods and Programs in Biomedicine
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Motivation: Microarray data appear particularly useful to investigate mechanisms in cancer biology and represent one of the most powerful tools to uncover the genetic mechanisms causing loss of cell cycle control. Recently, several different methods to employ microarray data as a diagnostic tool in cancer classification have been proposed. These procedures take changes in the expression of particular genes into account but do not consider disruptions in certain gene interactions caused by the tumor. It is probable that some genes participating in tumor development do not change their expression level dramatically. Thus, they cannot be detected by simple classification approaches used previously. For these reasons, a classification procedure exploiting information related to changes in gene interactions is needed. Results: We propose a MAximal MArgin Linear Programming (MAMA) method for the classification of tumor samples based on microarray data. This procedure detects groups of genes and constructs models (features) that strongly correlate with particular tumor types. The detected features include genes whose functional relations are changed for particular cancer types. The proposed method was tested on two publicly available datasets and demonstrated a prediction ability superior to previously employed classification schemes. Availability: The MAMA system was developed using the linear programming system LINDO http://www.lindo.com. A Perl script that specifies the optimization problem for this software is available upon request from the authors.