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Threshold Selection Study on Fisher Discriminant Analysis Used in Exon Prediction for Unbalanced Data Sets
School of Physics and Electrical Information Engineering, Ningxia University, Yinchuan, China
School of Mathematics and Computer Science, Ningxia University, Yinchuan, China
School of Physics and Electrical Information Engineering, Ningxia University, Yinchuan, China
School of Electronic Information Engineering, Tianjin University, Tianjin, China
- 1 School of Physics and Electrical Information Engineering, Ningxia University, Yinchuan, China
- 2 School of Mathematics and Computer Science, Ningxia University, Yinchuan, China
- 3 School of Physics and Electrical Information Engineering, Ningxia University, Yinchuan, China
- 4 School of Electronic Information Engineering, Tianjin University, Tianjin, China
Communications and Network·Volume 05 (2013)·Pages 601–605·Published 27 September 2013·DOI10.4236/cn.2013.53B2108
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Abstract
In gene prediction, the Fisher discriminant analysis (FDA) is used to separate protein coding region (exon) from non-coding regions (intron). Usually, the positive data set and the negative data set are of the same size if the number of the data is big enough. But for some situations the data are not sufficient or not equal, the threshold used in FDA may have important influence on prediction results. This paper presents a study on the selection of the threshold. The eigen value of each exon/intron sequence is computed using the Z-curve method with 69 variables. The experiments results suggest that the size and the standard deviation of the data sets and the threshold are the three key elements to be taken into consideration to improve the prediction results.
KeywordsFisher Discriminant AnalysisThreshold SelectionGene PredictionZ-CurveSize of Data Set
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