Abstract
Phenotype prediction is one of the central issues in genetics and medical sciences research. Due to the advent of high-throughput screening technologies, microarray-based cancer classification has become a standard procedure to identify cancer-related gene signatures. Since gene expression profiling in transcriptome is of high dimensionality, it is a challenging task to discover a biologically functional signature over different cell lines. In this article, we present an innovative framework for finding a small portion of discriminative genes for a specific disease phenotype classification by using information theory. The framework is a data-driven approach and considers feature relevance, redundancy, and interdependence in the context of feature pairs. Its effectiveness has been validated by using a brain cancer benchmark, where the gene expression profiling matrix is derived from Affymetrix Human Genome U95Av2 GeneChip\(^{\textregistered }\). Three multivariate filters based on information theory have also been used for comparison. To show the strengths of the framework, three performance measures, two sets of enrichment analysis, and a stability index have been used in our experiments. The results show that the framework is robust and able to discover a gene signature having a high level of classification performance and being more statistically significant enriched.
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Lai, HM., Albrecht, A., Steinhöfel, K. (2015). Robust Signature Discovery for Affymetrix GeneChip\(^\circledR \) Cancer Classification. In: Duval, B., van den Herik, J., Loiseau, S., Filipe, J. (eds) Agents and Artificial Intelligence. ICAART 2014. Lecture Notes in Computer Science(), vol 8946. Springer, Cham. https://doi.org/10.1007/978-3-319-25210-0_20
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DOI: https://doi.org/10.1007/978-3-319-25210-0_20
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