Classificationofmicroarraygeneexpressiondata…微阵列基因表达数据的分类….pptVIP

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Classificationofmicroarraygeneexpressiondata…微阵列基因表达数据的分类….ppt

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Classificationofmicroarraygeneexpressiondata…微阵列基因表达数据的分类…

Classification of microarray gene expression data using support vector machines (SVM) A presentation on the topic For CIS 595 Bioinformatics course by Despina Kontos Spring 2003 – Temple University Overview… What are microarray gene expression data? What are Support Vectors Machines? How can we use them to utilize these gene expression data? Microarrays… What are they anyway??Gene expression levels on tissue or cell for varying environment conditions Microarrays… From a machine learning point of view… Support Vector Machines (SVM) Linear classifiers Attempt to avoid overfitting by finding the optimal hyperplane that separates the data Support Vector Machines (SVM) And what about datasets that are not linearly separable?? Map the data into higher dimensional space and make linear classification there (theorem!!) Support Vector Machines (SVM) Some experiments… More experiments… Conclusions Microarray gene expression data are a very useful format of biological information (..expensive to obtain!!) SVM new and very promising classification apprach A lot of research still to be done on Biological information processing using techniques developed in fields such as Machine Learning, Data Mining, etc.. Additional resources.. * * CLASSIFICATION EXPERIMENTS !!! ex-m ……. ……. ex-2 ex-1 g-n …… g-2 g-1 Experiment Genes Tissue classification Function classification HOW??? By maximizing the Margin.. Support Vectors Introduced by V.Vapnic and co-workers in 1995 We need ONLY the support vectors for computations!! We can use KERNEL functions to avoid computations in higher dimensional space Some mathematical formulations… M.P.S.Brown, W.N.Grundy, D.Lin, N.Cristianini, C.W.Sugnet, T.S.Furey, M.Ares Jr. and D.Haussler,“Knowledge-based analysis of microarray gene expression data by using support vector machines, Proc.Natl.Acad.Sci.USA,97, 1, pp.262-267, 2000. Classification of gene function from microarray data using SVM 2,476 genes 79 DNA hybridization experiments 6 gene func