Integrative Variational Autoencoders for Generative Modeling of an Image Outcome with Multiple Input Images

Understanding relationships across multiple imaging modalities is central to neuroimaging research. We introduce the Integrative Variational Autoencoder (InVA), the first hierarchical VAE framework for image-on-image regression in multimodal neuroimaging. Unlike standard VAEs, which are not designed for predictive integration across modalities, InVA models outcome images as functions of both shared and modality-specific features. This flexible, data-driven approach avoids rigid assumptions of classical tensor regression and outperforms conventional VAEs and nonlinear models such as BART. As a key application, InVA accurately predicts costly PET scans from structural MRI, offering an efficient and powerful tool for multimodal neuroimaging.