# Regional Deep Atrophy: a Self-Supervised Learning Method to Automatically Identify Regions Associated With Alzheimer's Disease Progression From Longitudinal MRI

arXiv: https://arxiv.org/abs/2304.04673 · HTML: https://mlsanity.com/paper/2304.04673/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Builds on 20 of its 75 references that are in the map.
- First posted on arXiv 10 Apr 2023.

## Builds on (most cited first, 20 of 20)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [Swin Transformer: Hierarchical Vision Transformer using Shifted Windows](https://mlsanity.com/paper/2103.14030/) (2021)
- [3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation](https://mlsanity.com/paper/1606.06650/) (2016)
- [Med3D: Transfer Learning for 3D Medical Image Analysis](https://mlsanity.com/paper/1904.00625/) (2019)
- [Unsupervised Learning of Probabilistic Diffeomorphic Registration for Images and Surfaces](https://mlsanity.com/paper/1903.03545/) (2019)
- [Fast Symmetric Diffeomorphic Image Registration with Convolutional Neural Networks](https://mlsanity.com/paper/2003.09514/) (2020)
- [Recursive Cascaded Networks for Unsupervised Medical Image Registration](https://mlsanity.com/paper/1907.12353/) (2019)
- [HyperMorph: Amortized Hyperparameter Learning for Image Registration](https://mlsanity.com/paper/2101.01035/) (2021)
- [Recurrent Mask Refinement for Few-Shot Medical Image Segmentation](https://mlsanity.com/paper/2108.00622/) (2021)
- [Unsupervised 3D End-to-End Medical Image Registration with Volume Tweening Network](https://mlsanity.com/paper/1902.05020/) (2019)
- [NiftyNet: a deep-learning platform for medical imaging](https://mlsanity.com/paper/1709.03485/) (2017)
- [BIRNet: Brain Image Registration Using Dual-Supervised Fully Convolutional Networks](https://mlsanity.com/paper/1802.04692/) (2018)
- [An Explainable 3D Residual Self-Attention Deep Neural Network FOR Joint Atrophy Localization and Alzheimer's Disease Diagnosis using Structural MRI](https://mlsanity.com/paper/2008.04024/) (2020)
- [Local Spatiotemporal Representation Learning for Longitudinally-consistent Neuroimage Analysis](https://mlsanity.com/paper/2206.04281/) (2022)
- [DeepReg: a deep learning toolkit for medical image registration](https://mlsanity.com/paper/2011.02580/) (2020)
- [Training recurrent neural networks robust to incomplete data: application to Alzheimer's disease progression modeling](https://mlsanity.com/paper/1903.07173/) (2019)
- [TADPOLE Challenge: Accurate Alzheimer's disease prediction through crowdsourced forecasting of future data](https://mlsanity.com/paper/2001.09016/) (2020)
- [Alzheimer's Disease Diagnostics by a Deeply Supervised Adaptable 3D Convolutional Network](https://mlsanity.com/paper/1607.00556/) (2016)

## Built on by (most cited first, 1 of 1)

- [A Cautionary Tale of Self-Supervised Learning for Imaging Biomarkers: Alzheimer's Disease Case Study](https://mlsanity.com/paper/2601.16467/) (2026)

## Abstract (arXiv)

Longitudinal assessment of brain atrophy, particularly in the hippocampus, is a well-studied biomarker for neurodegenerative diseases, such as Alzheimer's disease (AD). In clinical trials, estimation of brain progressive rates can be applied to track therapeutic efficacy of disease modifying treatments. However, most state-of-the-art measurements calculate changes directly by segmentation and/or deformable registration of MRI images, and may misreport head motion or MRI artifacts as neurodegeneration, impacting their accuracy. In our previous study, we developed a deep learning method DeepAtrophy that uses a convolutional neural network to quantify differences between longitudinal MRI scan pairs that are associated with time. DeepAtrophy has high accuracy in inferring temporal information from longitudinal MRI scans, such as temporal order or relative inter-scan interval. DeepAtrophy also provides an overall atrophy score that was shown to perform well as a potential biomarker of disease progression and treatment efficacy. However, DeepAtrophy is not interpretable, and it is unclear what changes in the MRI contribute to progression measurements. In this paper, we propose Regional Deep Atrophy (RDA), which combines the temporal inference approach from DeepAtrophy with a deformable registration neural network and attention mechanism that highlights regions in the MRI image where longitudinal changes are contributing to temporal inference. RDA has similar prediction accuracy as DeepAtrophy, but its additional interpretability makes it more acceptable for use in clinical settings, and may lead to more sensitive biomarkers for disease monitoring in clinical trials of early AD.