Preventing Model Collapse in Gaussian Process Latent Variable Models

Gaussian process latent variable models (GPLVMs) are a versatile family of unsupervised learning models, commonly used for dimensionality reduction. However, common challenges in modeling data with GPLVMs include inadequate kernel flexibility and improper selection of the projection noise, which leads to a type of model collapse characterized primarily by vague latent representations that do not reflect the underlying structure of the data. This paper addresses these issues by, first, theoretically examining the impact of the projection variance on model collapse through the lens of a linear GPLVM. Second, we address the problem of model collapse due to inadequate kernel flexibility by integrating the spectral mixture (SM) kernel and a differentiable random Fourier feature (RFF) kernel approximation, which ensures computational scalability and efficiency through off-the-shelf automatic differentiation tools for learning the kernel hyperparameters, projection variance, and latent representations within the variational inference framework. The proposed GPLVM, named advisedRFLVM, is evaluated across diverse datasets and consistently outperforms various salient competing models, including state-of-the-art variational autoencoders (VAEs) and GPLVM variants, in terms of informative latent representations and missing data imputation.