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2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) (2016)
Taichung, Taiwan
Oct. 31, 2016 to Nov. 2, 2016
ISBN: 978-1-5090-3834-3
pp: 356-362
ABSTRACT
The construction and understanding of Gene Regulatory Networks (GRNs) are among the hardest tasks faced by systems biology. To infer gene regulatory networks from gene expression data has been a vigorous research area. It aims to constitute an intermediate step from exploratory to gene expression analysis. In recent years, many reverse engineering methods have been proposed. In practice, different model approaches will generate different network structures. Therefore, it is very important for users to assess the performance of these algorithms. We present a comparative study with three different reverse engineering methods, including the S-system Parameter Estimation Method (SPEM), the Graphical Gaussian Model (GGM) and the TimeDelay-ARACNE. Our approach consists of the analysis of real gene expression data with the different methods, and the assessment of algorithmic performances by sensitivity, specificity, precision and F-score.
INDEX TERMS
Reverse engineering, Gene expression, Mathematical model, Computational modeling, Sensitivity, Biological system modeling, Correlation
CITATION

C. C. Wang, P. Chang, P. C. Sheu and J. J. Tsai, "A Comparison Study of Reverse Engineering Gene Regulatory Network Modeling," 2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE), Taichung, Taiwan, 2016, pp. 356-362.
doi:10.1109/BIBE.2016.73
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