6 accepted papers
To model discrete sequences such as DNA, proteins, and language using diffusion, practitioners must choose between three major methods: diffusion in discrete space, Gaussian diffusion in Euclidean space, or diffusion on the simplex. Despite their shared goal, these models have disparate algorithms,…
To build effective therapeutics, biologists iteratively mutate antibody sequences to improve binding and stability. Proposed mutations can be informed by previous measurements or by learning from large antibody databases to predict only typical antibodies. Unfortunately, the space of typical antibod…
Fine-tuning off-the-shelf pre-trained neural networks has become the default starting point for a wide range of challenging prediction tasks—especially in computer vision and natural language processing, where pre-trained models trained on millions or even billions of data points are publicly availa…
To detect distribution shifts and improve model safety, many out-of-distribution (OOD) detection methods rely on the predictive uncertainty or features of supervised models trained on in-distribution data. In this position paper, we critically re-examine this popular family of OOD detection procedur…
Bayesian optimization is a highly efficient approach to optimizing objective functions which are expensive to query. These objectives are typically represented by Gaussian process (GP) surrogate models which are easy to optimize and support exact inference. While standard GP surrogates have been wel…
Real-world datasets are often highly class-imbalanced, which can adversely impact the performance of deep learning models. The majority of research on training neural networks under class imbalance has focused on specialized loss functions and sampling techniques. Notably, we demonstrate that simply…