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The TCGA ovarian cancer database shows that about 10% of patients respond poorly to platinum-based chemotherapy, with tumors relapsing in seven months or less. At the other extreme, another 10% or so enjoy disease-free survival of three years or more [1]. At present there are more than a dozen prognostic signatures that claim to predict the survival prospects of a patient based on her genetic profile...
In this paper, we introduce a new algorithm for feature selection for two-class classification problems, called ℓ1-StaR. The algorithm consists of first extracting the statistically relevant features using the Student t-test, and then passing the reduced feature set to an ℓ1-norm support vector machine (SVM) with recursive feature elimination (RFE). The final number of features chosen by the ℓ1-StaR...
In this paper, we present a new application of the so-called phi-mixing coefficient between two random variables. Using the phi-mixing coefficient, as well as an analog of the well-known data processing inequality from information theory, we present a new algorithm for reverse-engineering gene interaction networks (GINs) from expression data, by viewing the expression levels of various genes as coupled...
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