Efficient Regularized Regression with Penalty for Variable Selection and Network Construction

Variable selections for regression with high-dimensional big data have found many applications in bioinformatics and computational biology. One appealing approach is the regularized regression which penalizes the number of nonzero features in the model directly. However, it is well known that optimization is NP-hard and computationally challenging. In this paper, we propose efficient EM (EM) and dual EM (DEM) algorithms that directly approximate the optimization problem. While EM is efficient with large sample size, DEM is efficient with high-dimensional ( ≪ ) data. They also provide a natural solution to all    ∈ [0,2] problems, including lasso with = 1 and elastic net with ∈ [1,2]. The regularized parameter can be determined through cross validation or AIC and BIC. We demonstrate our methods through simulation and high-dimensional genomic data. The results indicate that has better performance than lasso, SCAD, and MC+, and with AIC or BIC has similar performance as computationally intensive cross validation. The proposed algorithms are efficient in identifying the nonzero variables with less bias and constructing biologically important networks with high-dimensional big data.