Xiang Zhou

Yichen Jiang, Xiang Zhou, Mohit Bansal

Recent datasets expose the lack of the systematic generalization ability in standard sequence-to-sequence models. In this work, we analyze this behavior of seq2seq models and identify two contributing factors: a lack of mutual exclusivity bias (i.e., a source sequence already mapped to a target sequence is less likely to be mapped to other target sequences), and the tendency to memorize whole examples rather than separating structures from contents. We propose two techniques to address these two issues respectively: Mutual Exclusivity Training that prevents the model from producing seen generations when facing novel, unseen examples via an unlikelihood-based loss; and prim2primX data augmentation that automatically diversifies the arguments of every syntactic function to prevent memorizing and provide a compositional inductive bias without exposing test-set data. Combining these two techniques, we show substantial empirical improvements using standard sequence-to-sequence models (LSTMs and Transformers) on two widely-used compositionality datasets: SCAN and COGS. Finally, we provide analysis characterizing the improvements as well as the remaining challenges, and provide detailed ablations of our method. Our code is available at https://github.com/owenzx/met-primaug

Simon J. Ward, Tengfei Cao, Xiang Zhou et al.

Biosensors are an essential tool for medical diagnostics, environmental monitoring and food safety. Typically, biosensors are designed to detect specific analytes through functionalization with the appropriate capture agents. However, the use of capture agents limits the number of analytes that can be simultaneously detected and reduces the robustness of the biosensor. In this work, we report a versatile, capture agent free biosensor platform based on an array of porous silicon (PSi) thin films, which has the potential to robustly detect a wide variety of analytes based on their physical and chemical properties in the nanoscale porous media. The ability of this system to reproducibly classify, quantify, and discriminate three proteins is demonstrated to concentrations down to at least 0.02g/L (between 300nM and 450nM) by utilizing PSi array elements with a unique combination of pore size and buffer pH, employing linear discriminant analysis for dimensionality reduction, and using support vector machines as a classifier. This approach represents a significant step towards a low cost, simple and robust biosensor platform that is able to detect a vast range of biomolecules.

Lorin Crawford, Kris C. Wood, Xiang Zhou et al.

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.