Bayesian Approximate Kernel Regression with Variable Selection

Nonlinear kernel regression models are often used in statistics and machine learning because they are more accurate than linear models. Variable selection for kernel regression models is a challenge partly because, unlike the linear regression setting, there is no clear concept of an effect size for regression coefficients. In this paper, we propose a novel framework that provides an effect size analog of each explanatory variable for Bayesian kernel regression models when the kernel is shift-invariant --- for example, the Gaussian kernel. We use function analytic properties of shift-invariant reproducing kernel Hilbert spaces (RKHS) to define a linear vector space that: (i) captures nonlinear structure, and (ii) can be projected onto the original explanatory variables. The projection onto the original explanatory variables serves as an analog of effect sizes. The specific function analytic property we use is that shift-invariant kernel functions can be approximated via random Fourier bases. Based on the random Fourier expansion we propose a computationally efficient class of Bayesian approximate kernel regression (BAKR) models for both nonlinear regression and binary classification for which one can compute an analog of effect sizes. We illustrate the utility of BAKR by examining two important problems in statistical genetics: genomic selection (i.e. phenotypic prediction) and association mapping (i.e. inference of significant variants or loci). State-of-the-art methods for genomic selection and association mapping are based on kernel regression and linear models, respectively. BAKR is the first method that is competitive in both settings.Comment: 22 pages, 3 figures, 3 tables; theory added; new simulations presented; references adde

Sparse Signal Recovery under Poisson Statistics

We are motivated by problems that arise in a number of applications such as Online Marketing and explosives detection, where the observations are usually modeled using Poisson statistics. We model each observation as a Poisson random variable whose mean is a sparse linear superposition of known patterns. Unlike many conventional problems observations here are not identically distributed since they are associated with different sensing modalities. We analyze the performance of a Maximum Likelihood (ML) decoder, which for our Poisson setting involves a non-linear optimization but yet is computationally tractable. We derive fundamental sample complexity bounds for sparse recovery when the measurements are contaminated with Poisson noise. In contrast to the least-squares linear regression setting with Gaussian noise, we observe that in addition to sparsity, the scale of the parameters also fundamentally impacts sample complexity. We introduce a novel notion of Restricted Likelihood Perturbation (RLP), to jointly account for scale and sparsity. We derive sample complexity bounds for $\ell_1$ regularized ML estimators in terms of RLP and further specialize these results for deterministic and random sensing matrix designs.Comment: 13 pages, 11 figures, 2 tables, submitted to IEEE Transactions on Signal Processin