# Clinically-Informed Preprocessing Improves Stroke Segmentation in Low-Resource Settings

arXiv: https://arxiv.org/abs/2508.16004 · HTML: https://mlsanity.com/paper/2508.16004/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 7 of its 27 references that are in the map.
- First posted on arXiv 21 Aug 2025.

## Builds on (most cited first, 7 of 7)

- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images](https://mlsanity.com/paper/2201.01266/) (2022)
- [nnU-Net Revisited: A Call for Rigorous Validation in 3D Medical Image Segmentation](https://mlsanity.com/paper/2404.09556/) (2024)
- [SynthStrip: Skull-Stripping for Any Brain Image](https://mlsanity.com/paper/2203.09974/) (2022)
- [ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset](https://mlsanity.com/paper/2206.06694/) (2022)
- [An Ensemble Approach for Brain Tumor Segmentation and Synthesis](https://mlsanity.com/paper/2411.17617/) (2024)
- [How We Won the ISLES'24 Challenge by Preprocessing](https://mlsanity.com/paper/2505.18424/) (2025)

## Abstract (arXiv)

Stroke is among the top three causes of death worldwide, and accurate identification of ischemic stroke lesion boundaries from imaging is critical for diagnosis and treatment. The main imaging modalities used include magnetic resonance imaging (MRI), particularly diffusion weighted imaging (DWI), and computed tomography (CT)-based techniques such as non-contrast CT (NCCT), contrast-enhanced CT angiography (CTA), and CT perfusion (CTP). DWI is the gold standard for the identification of lesions but has limited applicability in low-resource settings due to prohibitive costs. CT-based imaging is currently the most practical imaging method in low-resource settings due to low costs and simplified logistics, but lacks the high specificity of MRI-based methods in monitoring ischemic insults. Supervised deep learning methods are the leading solution for automated ischemic stroke lesion segmentation and provide an opportunity to improve diagnostic quality in low-resource settings by incorporating insights from DWI when segmenting from CT. Here, we develop a series of models which use CT images taken upon arrival as inputs to predict follow-up lesion volumes annotated from DWI taken 2-9 days later. Furthermore, we implement clinically motivated preprocessing steps and show that the proposed pipeline results in a 38% improvement in Dice score over 10 folds compared to a nnU-Net model trained with the baseline preprocessing. Finally, we demonstrate that through additional preprocessing of CTA maps to extract vessel segmentations, we further improve our best model by 21% over 5 folds.