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Content loaded within last 14 days Integration of survival and binary data for variable selection and prediction: a Bayesian approach

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We consider the problem where the data consist of a survival time and a binary outcome measurement for each individual, as well as corresponding predictors. The goal is to select the common set of predictors which affect both the responses, and not just one of them. In addition, we develop a survival prediction model based on data integration. The paper is motivated by the Cancer Genomic Atlas databank, which is currently the largest genomics and transcriptomics database. The data contain cancer survival information along with cancer stages for each patient. Furthermore, it contains reverse phase protein array measurements for each individual, which are the predictors associated with these responses. The biological motivation is to identify the major actionable proteins associated with both survival outcomes and cancer stages. We develop a Bayesian hierarchical model to model jointly the survival time and the classification of the cancer stages. Moreover, to deal with the high dimensionality of the reverse phase protein array measurements, we use a shrinkage prior to identify significant proteins. Simulations and Cancer Genomic Atlas data analysis show that the joint integrated modelling approach improves survival prediction.
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Keywords: Accelerated failure time model; Cancer genome atlas; High dimensional shrinkage; Horseshoe prior; Probit model; Protein expression

Document Type: Research Article

Publication date: November 1, 2019

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