Ovarian cancer identification from mass spectra by Kernel Fisher Discriminant Analysis
Zhang, Bailing, Pham, Tuan D., and Zhang, Yanchun (2007) Ovarian cancer identification from mass spectra by Kernel Fisher Discriminant Analysis. In: Proceedings of the 2007 International Symposium on Computational Models for Life Sciences (952), pp. 187-196. From: Computational Models for Life Sciences (CMLS '07) 2007 International Symposium, 17-19 December 2007, Queensland, Australia.
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With the development of mass spectrometry technology, such as surface-enhanced laser desorption/ionisation time of flight (SELDI-ToF-MS), it has become possible to diagnose proteomic signatures for different human cancers. Among the many research issues, feature selection and classification of proteomic patterns in serum are very typical in the discrimination of cancer patients from normal individuals. In the past several years, many machine learning methods have been proposed with encouraging results. Most of the published works, however, are based on the direct application of original mass spectra, together with dimension reduction methods like PCA or feature selection methods like T-tests. Because only the peaks of MS data correspond to potential biomarkers, it is more important to study classification methods using the detected peaks, particularly from biology point of view. This paper investigates ovarian cancer identification from the detected MS peaks by applying the Kernel Fisher Discriminant Analysis (KFDA), which has been shown to be effective for classifying high-dimensional data. Comparing with several state-of-the-art methods such as SVM and random forest, KFDA gives the best performance, achieving an accuracy of 96% sensitivity of 97% and specificity of 95% in 10-fold cross-validations.
|Item Type:||Conference Item (Refereed Research Paper - E1)|
|Keywords:||image analysis; pattern recognition; bioinformatics|
|Date Deposited:||15 Oct 2009 03:03|
|FoR Codes:||08 INFORMATION AND COMPUTING SCIENCES > 0801 Artificial Intelligence and Image Processing > 080109 Pattern Recognition and Data Mining @ 50%
08 INFORMATION AND COMPUTING SCIENCES > 0801 Artificial Intelligence and Image Processing > 080106 Image Processing @ 50%
|SEO Codes:||89 INFORMATION AND COMMUNICATION SERVICES > 8902 Computer Software and Services > 890205 Information Processing Services (incl. Data Entry and Capture) @ 100%|
|Citation Count from Scopus||