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Paul M. Thompson

Paul M. Thompson contributes to research discovery and scholarly infrastructure.

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Published work

5 published item(s)

preprint2026arXiv

Anchoring the Eigengap: Cross-Modal Spectral Stabilization for Sample-Efficient Representation Learning

Deep vision models degrade sharply in low-data regimes, particularly in medical imaging where labeled samples are scarce. We show this arises not merely from overfitting but from a geometric failure: finite-sample noise corrupts the embedding covariance, collapsing the eigengap and limiting the number of recoverable signal-bearing modes. We develop a spectral theory of finite-sample representation learning that quantifies the recoverable dimension K(N), the number of eigenmodes that can be stably estimated from N samples. Using perturbation theory and concentration bounds, we show that only modes with eigenvalues above the noise floor $\|\hatΣ - Σ\|_{\mathrm{op}} \sim \sqrt{D/N}$ are reliable, yielding a truncated Mahalanobis energy that governs classification performance. Under a power-law spectral model, this energy can be approximated by a truncated Riemann zeta function, linking eigenvalue decay to data efficiency and AUC. Within this framework, multimodal learning acts as spectral stabilization: vision-language models impose low-rank constraints that suppress noise-dominated directions and preserve the eigengap, increasing K(N) under data scarcity. Across MNIST and multi-disease neuroimaging, we show that multimodal training maintains more stable modes and improves class separation, even when unimodal models achieve comparable few-shot accuracy. These results identify spectral collapse as a fundamental bottleneck in low-data learning. We use truncated Mahalanobis energy and K(N) to diagnose encoder quality, and introduce zeta-based spectral filtering as a principled approach to improve data efficiency.

preprint2021arXiv

Improved Brain Age Estimation with Slice-based Set Networks

Deep Learning for neuroimaging data is a promising but challenging direction. The high dimensionality of 3D MRI scans makes this endeavor compute and data-intensive. Most conventional 3D neuroimaging methods use 3D-CNN-based architectures with a large number of parameters and require more time and data to train. Recently, 2D-slice-based models have received increasing attention as they have fewer parameters and may require fewer samples to achieve comparable performance. In this paper, we propose a new architecture for BrainAGE prediction. The proposed architecture works by encoding each 2D slice in an MRI with a deep 2D-CNN model. Next, it combines the information from these 2D-slice encodings using set networks or permutation invariant layers. Experiments on the BrainAGE prediction problem, using the UK Biobank dataset, showed that the model with the permutation invariant layers trains faster and provides better predictions compared to other state-of-the-art approaches.

preprint2020arXiv

Overview of Scanner Invariant Representations

Pooled imaging data from multiple sources is subject to bias from each source. Studies that do not correct for these scanner/site biases at best lose statistical power, and at worst leave spurious correlations in their data. Estimation of the bias effects is non-trivial due to the paucity of data with correspondence across sites, so called "traveling phantom" data, which is expensive to collect. Nevertheless, numerous solutions leveraging direct correspondence have been proposed. In contrast to this, Moyer et al. (2019) proposes an unsupervised solution using invariant representations, one which does not require correspondence and thus does not require paired images. By leveraging the data processing inequality, an invariant representation can then be used to create an image reconstruction that is uninformative of its original source, yet still faithful to the underlying structure. In the present abstract we provide an overview of this method.

preprint2020arXiv

Scanner Invariant Representations for Diffusion MRI Harmonization

Purpose: In the present work we describe the correction of diffusion-weighted MRI for site and scanner biases using a novel method based on invariant representation. Theory and Methods: Pooled imaging data from multiple sources are subject to variation between the sources. Correcting for these biases has become very important as imaging studies increase in size and multi-site cases become more common. We propose learning an intermediate representation invariant to site/protocol variables, a technique adapted from information theory-based algorithmic fairness; by leveraging the data processing inequality, such a representation can then be used to create an image reconstruction that is uninformative of its original source, yet still faithful to underlying structures. To implement this, we use a deep learning method based on variational auto-encoders (VAE) to construct scanner invariant encodings of the imaging data. Results: To evaluate our method, we use training data from the 2018 MICCAI Computational Diffusion MRI (CDMRI) Challenge Harmonization dataset. Our proposed method shows improvements on independent test data relative to a recently published baseline method on each subtask, mapping data from three different scanning contexts to and from one separate target scanning context. Conclusion: As imaging studies continue to grow, the use of pooled multi-site imaging will similarly increase. Invariant representation presents a strong candidate for the harmonization of these data.

preprint2017arXiv

Simultaneous Matrix Diagonalization for Structural Brain Networks Classification

This paper considers the problem of brain disease classification based on connectome data. A connectome is a network representation of a human brain. The typical connectome classification problem is very challenging because of the small sample size and high dimensionality of the data. We propose to use simultaneous approximate diagonalization of adjacency matrices in order to compute their eigenstructures in more stable way. The obtained approximate eigenvalues are further used as features for classification. The proposed approach is demonstrated to be efficient for detection of Alzheimer's disease, outperforming simple baselines and competing with state-of-the-art approaches to brain disease classification.