# Applications of interpretable deep learning in neuroimaging: a comprehensive review

arXiv: https://arxiv.org/abs/2406.17792 · HTML: https://mlsanity.com/paper/2406.17792/

## Key facts

- Cited by 3 papers in the map (data through 14 Oct 2026).
- Builds on 97 of its 162 references that are in the map.
- First posted on arXiv 30 May 2024.

## Builds on (most cited first, 30 of 97)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2006.11239/) (2020)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [Very Deep Convolutional Networks for Large-Scale Image Recognition](https://mlsanity.com/paper/1409.1556/) (2014)
- [Grad-CAM: Visual Explanations from Deep Networks via Gradient-based Localization](https://mlsanity.com/paper/1610.02391/) (2016)
- [Densely Connected Convolutional Networks](https://mlsanity.com/paper/1608.06993/) (2016)
- [Generative Adversarial Networks](https://mlsanity.com/paper/2203.00667/) (2022)
- ["Why Should I Trust You?": Explaining the Predictions of Any Classifier](https://mlsanity.com/paper/1602.04938/) (2016)
- [Squeeze-and-Excitation Networks](https://mlsanity.com/paper/1709.01507/) (2017)
- [Training data-efficient image transformers & distillation through attention](https://mlsanity.com/paper/2012.12877/) (2020)
- [Auto-Encoding Variational Bayes](https://mlsanity.com/paper/1312.6114/) (2013)
- [Axiomatic Attribution for Deep Networks](https://mlsanity.com/paper/1703.01365/) (2017)
- [CBAM: Convolutional Block Attention Module](https://mlsanity.com/paper/1807.06521/) (2018)
- [Learning Deep Features for Discriminative Localization](https://mlsanity.com/paper/1512.04150/) (2015)
- [Deep Inside Convolutional Networks: Visualising Image Classification Models and Saliency Maps](https://mlsanity.com/paper/1312.6034/) (2013)
- [Non-local Neural Networks](https://mlsanity.com/paper/1711.07971/) (2017)
- [Visualizing and Understanding Convolutional Networks](https://mlsanity.com/paper/1311.2901/) (2013)
- [Learning Important Features Through Propagating Activation Differences](https://mlsanity.com/paper/1704.02685/) (2017)
- [Attention U-Net: Learning Where to Look for the Pancreas](https://mlsanity.com/paper/1804.03999/) (2018)
- [Sanity Checks for Saliency Maps](https://mlsanity.com/paper/1810.03292/) (2018)
- [SmoothGrad: removing noise by adding noise](https://mlsanity.com/paper/1706.03825/) (2017)
- [Striving for Simplicity: The All Convolutional Net](https://mlsanity.com/paper/1412.6806/) (2014)
- [UNETR: Transformers for 3D Medical Image Segmentation](https://mlsanity.com/paper/2103.10504/) (2021)
- [Attention is not Explanation](https://mlsanity.com/paper/1902.10186/) (2019)
- [This Looks Like That: Deep Learning for Interpretable Image Recognition](https://mlsanity.com/paper/1806.10574/) (2018)
- [Network Dissection: Quantifying Interpretability of Deep Visual Representations](https://mlsanity.com/paper/1704.05796/) (2017)
- [Dynamic Routing Between Capsules](https://mlsanity.com/paper/1710.09829/) (2017)
- [Interpretable Explanations of Black Boxes by Meaningful Perturbation](https://mlsanity.com/paper/1704.03296/) (2017)

## Built on by (most cited first, 3 of 3)

- [Guidelines For The Choice Of The Baseline in XAI Attribution Methods](https://mlsanity.com/paper/2503.19813/) (2025)
- [X-SiT: Inherently Interpretable Surface Vision Transformers for Dementia Diagnosis](https://mlsanity.com/paper/2506.20267/) (2025)
- [Neurocircuitry-Inspired Hierarchical Graph Causal Attention Networks for Explainable Depression Identification](https://mlsanity.com/paper/2511.17622/) (2025)

## Abstract (arXiv)

Clinical adoption of deep learning models has been hindered, in part, because the black-box nature of neural networks leads to concerns regarding their trustworthiness and reliability. These concerns are particularly relevant in the field of neuroimaging due to the complex brain phenotypes and inter-subject heterogeneity often encountered. The challenge can be addressed by interpretable deep learning (iDL) methods that enable the visualisation and interpretation of the inner workings of deep learning models. This study systematically reviewed the literature on neuroimaging applications of iDL methods and critically analysed how iDL explanation properties were evaluated. Seventy-five studies were included, and ten categories of iDL methods were identified. We also reviewed five properties of iDL explanations that were analysed in the included studies: biological validity, robustness, continuity, selectivity, and downstream task performance. We found that the most popular iDL approaches used in the literature may be sub-optimal for neuroimaging data, and we discussed possible future directions for the field.