Title
Mining patterns in disease classification forests
Abbreviated Journal Title
J. Biomed. Inform.
Keywords
Biological pathway; Pattern mining; Random forests; Disease phenotype; LUNG-CANCER CELLS; C PKC ISOFORMS; BREAST-CANCER; EXPRESSION PROFILES; MAMMARY-GLAND; PATHWAY; ALPHA; ACTIVATION; REGRESSION; SURVIVAL; Computer Science, Interdisciplinary Applications; Medical Informatics
Abstract
Multiple biological pathways often work together to determine a given disease phenotype. Understanding what these pathways are and how they cooperate in disease-relevant biological processes is critical to our understanding of diseases. Using microarray gene expression data, researchers have developed several methods to rank pathways by their disease relevance. However, the exact set of pathways involved and how they are involved under given disease conditions remain unclear. In this paper, we propose a novel method to first select a robust set of pathways that together best classify a given disease, and then investigate how genes in these pathways interact to determine the phenotype. By applying our method to several disease related microarray gene expression datasets, we detected many disease-relevant interaction patterns supported by evidence from the literature. Our algorithm also achieves higher accuracy in terms of identification of a robust set of disease-relevant pathways when compared with alternative strategies. Published by Elsevier Inc.
Journal Title
Journal of Biomedical Informatics
Volume
43
Issue/Number
5
Publication Date
1-1-2010
Document Type
Article
Language
English
First Page
820
Last Page
827
WOS Identifier
ISSN
1532-0464
Recommended Citation
"Mining patterns in disease classification forests" (2010). Faculty Bibliography 2010s. 271.
https://stars.library.ucf.edu/facultybib2010/271
Comments
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